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Adam Godzik
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26
Reed, John
25
Jaroszewski, Lukasz
17
Rychlewski, Leszek
14
Skolnick, Jeffrey
12
Ye, Yuzhen
11
Li, Weizhong
10
Friedberg, Iddo
8
Lesley, Scott
8
Kolinski, Andrzej
6
Krajewski, Stan
6
Li, Zhanwen
6
Mustelin, Tomas
6
Pawlowski, Krzysztof
6
Deacon, Ashley
6
Wilson, Ian
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All Publications
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2009: Jaroszewski Lukasz; Li Zhanwen; Krishna S Sri; Bakolitsa Constantina; Wooley John; Deacon Ashley M; Wilson Ian A; Godzik Adam
Exploration of uncharted regions of the protein universe.
PLoS biology 2009;7(9):e1000205.
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2009: Zhang Ying; Thiele Ines; Weekes Dana; Li Zhanwen; Jaroszewski Lukasz; Ginalski Krzysztof; Deacon Ashley M; Wooley John; Lesley Scott A; Wilson Ian A; Palsson Bernhard; Osterman Andrei; Godzik Adam
Three-dimensional structural view of the central metabolic network of Thermotoga maritima.
Science (New York, N.Y.) 2009;325(5947):1544-9.
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2009: An Yu; Chen Christine Y; Moyer Bryan; Rotkiewicz Piotr; Elsliger Marc-André; Godzik Adam; Wilson Ian A; Balch William E
Structural and functional analysis of the globular head domain of p115 provides insight into membrane tethering.
Journal of molecular biology 2009;391(1):26-41.
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2009: Burra Prasad V; Zhang Ying; Godzik Adam; Stec Boguslaw
Global distribution of conformational states derived from redundant models in the PDB points to non-uniqueness of the protein structure.
Proceedings of the National Academy of Sciences of the United States of America 2009;106(26):10505-10.
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2009: Grynberg Marcin; Godzik Adam
The signal for signaling, found.
PLoS pathogens 2009;5(4):e1000398.
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2009: Cho Dong-Hyung; Nakamura Tomohiro; Fang Jianguo; Cieplak Piotr; Godzik Adam; Gu Zezong; Lipton Stuart A
S-nitrosylation of Drp1 mediates beta-amyloid-related mitochondrial fission and neuronal injury.
Science (New York, N.Y.) 2009;324(5923):102-5.
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2009: Istomin Andrei Y; Godzik Adam
Understanding diversity of human innate immunity receptors: analysis of surface features of leucine-rich repeat domains in NLRs and TLRs.
BMC immunology 2009;10():48.
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2008: Jaroszewski Lukasz; Slabinski Lukasz; Wooley John; Deacon Ashley M; Lesley Scott A; Wilson Ian A; Godzik Adam
Genome pool strategy for structural coverage of protein families.
Structure (London, England : 1993) 2008;16(11):1659-67.
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2008: Le Negrate Gaëlle; Krieg Andreas; Faustin Benjamin; Loeffler Markus; Godzik Adam; Krajewski Stan; Reed John C
ChlaDub1 of Chlamydia trachomatis suppresses NF-kappaB activation and inhibits IkappaBalpha ubiquitination and degradation.
Cellular microbiology 2008;10(9):1879-92.
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2008: Le Negrate Gaëlle; Faustin Benjamin; Welsh Kate; Loeffler Markus; Krajewska Maryla; Hasegawa Patty; Mukherjee Sohini; Orth Kim; Krajewski Stan; Godzik Adam; Guiney Donald G; Reed John C
Salmonella secreted factor L deubiquitinase of Salmonella typhimurium inhibits NF-kappaB, suppresses IkappaBalpha ubiquitination and modulates innate immune responses.
Journal of immunology (Baltimore, Md. : 1950) 2008;180(7):5045-56.
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2008: Ting Jenny P-Y; Lovering Ruth C; Alnemri Emad S; Bertin John; Boss Jeremy M; Davis Beckley K; Flavell Richard A; Girardin Stephen E; Godzik Adam; Harton Jonathan A; Hoffman Hal M; Hugot Jean-Pierre; Inohara Naohiro; Mackenzie Alex; Maltais Lois J; Nunez Gabriel; Ogura Yasunori; Otten Luc A; Philpott Dana; Reed John C; Reith Walter; Schreiber Stefan; Steimle Viktor; Ward Peter A
The NLR gene family: a standard nomenclature.
Immunity 2008;28(3):285-7.
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2008: Mathews Irimpan I; McMullan Daniel; Miller Mitchell D; Canaves Jaume M; Elsliger Marc-André; Floyd Ross; Grzechnik Slawomir K; Jaroszewski Lukasz; Klock Heath E; Koesema Eric; Kovarik John S; Kreusch Andreas; Kuhn Peter; McPhillips Timothy M; Morse Andrew T; Quijano Kevin; Rife Christopher L; Schwarzenbacher Robert; Spraggon Glen; Stevens Raymond C; van den Bedem Henry; Weekes Dana; Wolf Guenter; Hodgson Keith O; Wooley John; Deacon Ashley M; Godzik Adam; Lesley Scott A; Wilson Ian A
Crystal structure of 2-keto-3-deoxygluconate kinase (TM0067) from Thermotoga maritima at 2.05 A resolution.
Proteins 2008;70(2):603-8.
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2008: Schwarzenbacher Robert; Godzik Adam; Jaroszewski Lukasz
The JCSG MR pipeline: optimized alignments, multiple models and parallel searches.
Acta crystallographica. Section D, Biological crystallography 2008;64(Pt 1):133-40.
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2008: Li Weizhong; Wooley John C; Godzik Adam
Probing metagenomics by rapid cluster analysis of very large datasets.
PloS one 2008;3(10):e3375.
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2008: Veeramalai Mallika; Ye Yuzhen; Godzik Adam
TOPS++FATCAT: fast flexible structural alignment using constraints derived from TOPS+ Strings Model.
BMC bioinformatics 2008;9():358.
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2008: Zhang Qing; Zmasek Christian M; Dishaw Larry J; Mueller M Gail; Ye Yuzhen; Litman Gary W; Godzik Adam
Novel genes dramatically alter regulatory network topology in amphioxus.
Genome biology 2008;9(8):R123.
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2007: Slabinski Lukasz; Jaroszewski Lukasz; Rychlewski Leszek; Wilson Ian A; Lesley Scott A; Godzik Adam
XtalPred: a web server for prediction of protein crystallizability.
Bioinformatics (Oxford, England) 2007;23(24):3403-5.
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2007: Slabinski Lukasz; Jaroszewski Lukasz; Rodrigues Ana P C; Rychlewski Leszek; Wilson Ian A; Lesley Scott A; Godzik Adam
The challenge of protein structure determination--lessons from structural genomics.
Protein science : a publication of the Protein Society 2007;16(11):2472-82.
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2007: Godzik A; Jambon M; Friedberg I
Computational protein function prediction: are we making progress?
Cellular and molecular life sciences : CMLS 2007;64(19-20):2505-11.
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2007: Zhang Ying; Stec Boguslaw; Godzik Adam
Between order and disorder in protein structures: analysis of "dual personality" fragments in proteins.
Structure (London, England : 1993) 2007;15(9):1141-7.
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2007: Friedberg Ilan; Nika Konstantina; Tautz Lutz; Saito Kan; Cerignoli Fabio; Friedberg Iddo; Godzik Adam; Mustelin Tomas
Identification and characterization of DUSP27, a novel dual-specific protein phosphatase.
FEBS letters 2007;581(13):2527-33.
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2007: Grynberg Marcin; Li Zhanwen; Szczurek Ewa; Godzik Adam
Putative type IV secretion genes in Bacillus anthracis.
Trends in microbiology 2007;15(5):191-5.
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2007: Friedberg Iddo; Godzik Adam
Functional differentiation of proteins: implications for structural genomics.
Structure (London, England : 1993) 2007;15(4):405-15.
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2007: Weekes Dana; Miller Mitchell D; Krishna S Sri; McMullan Daniel; McPhillips Timothy M; Acosta Claire; Canaves Jaume M; Elsliger Marc-André; Floyd Ross; Grzechnik Slawomir K; Jaroszewski Lukasz; Klock Heath E; Koesema Eric; Kovarik John S; Kreusch Andreas; Morse Andrew T; Quijano Kevin; Spraggon Glen; van den Bedem Henry; Wolf Guenter; Hodgson Keith O; Wooley John; Deacon Ashley M; Godzik Adam; Lesley Scott A; Wilson Ian A
Crystal structure of a transcription regulator (TM1602) from Thermotoga maritima at 2.3 A resolution.
Proteins 2007;67(1):247-52.
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2007: Sasin Joanna M; Godzik Adam; Bujnicki Janusz M
SURF'S UP! - protein classification by surface comparisons.
Journal of biosciences 2007;32(1):97-100.
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2007: Friedberg Iddo; Harder Tim; Kolodny Rachel; Sitbon Einat; Li Zhanwen; Godzik Adam
Using an alignment of fragment strings for comparing protein structures.
Bioinformatics (Oxford, England) 2007;23(2):e219-24.
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2007: Igarashi Yoshinobu; Eroshkin Alexey; Gramatikova Svetlana; Gramatikoff Kosi; Zhang Ying; Smith Jeffrey W; Osterman Andrei L; Godzik Adam
CutDB: a proteolytic event database.
Nucleic acids research 2007;35(Database issue):D546-9.
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2007: Awobuluyi Marc; Yang Jin; Ye Yuzhen; Chatterton Jon E; Godzik Adam; Lipton Stuart A; Zhang Dongxian
Subunit-specific roles of glycine-binding domains in activation of NR1/NR3 N-methyl-D-aspartate receptors.
Molecular pharmacology 2007;71(1):112-22.
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2007: Zmasek Christian M; Zhang Qing; Ye Yuzhen; Godzik Adam
Surprising complexity of the ancestral apoptosis network.
Genome biology 2007;8(10):R226.
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2007: Rodrigues Ana P C; Grant Barry J; Godzik Adam; Friedberg Iddo
The 2006 automated function prediction meeting.
BMC bioinformatics 2007;8 Suppl 4():S1-4.
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2006: Ginalski Krzysztof; Godzik Adam; Rychlewski Leszek
Novel SARS unique AdoMet-dependent methyltransferase.
Cell cycle (Georgetown, Tex.) 2006;5(20):2414-6.
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2006: Schwarzenbacher Robert; McMullan Daniel; Krishna S Sri; Xu Qingping; Miller Mitchell D; Canaves Jaume M; Elsliger Marc-André; Floyd Ross; Grzechnik Slawomir K; Jaroszewski Lukasz; Klock Heath E; Koesema Eric; Kovarik John S; Kreusch Andreas; Kuhn Peter; McPhillips Timothy M; Morse Andrew T; Quijano Kevin; Spraggon Glen; Stevens Raymond C; van den Bedem Henry; Wolf Guenter; Hodgson Keith O; Wooley John; Deacon Ashley M; Godzik Adam; Lesley Scott A; Wilson Ian A
Crystal structure of a glycerate kinase (TM1585) from Thermotoga maritima at 2.70 A resolution reveals a new fold.
Proteins 2006;65(1):243-8.
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2006: White Andrea K; Hoch James A; Grynberg Marcin; Godzik Adam; Perego Marta
Sensor domains encoded in Bacillus anthracis virulence plasmids prevent sporulation by hijacking a sporulation sensor histidine kinase.
Journal of bacteriology 2006;188(17):6354-60.
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2006: Berman Helen M; Burley Stephen K; Chiu Wah; Sali Andrej; Adzhubei Alexei; Bourne Philip E; Bryant Stephen H; Dunbrack Roland L; Fidelis Krzysztof; Frank Joachim; Godzik Adam; Henrick Kim; Joachimiak Andrzej; Heymann Bernard; Jones David; Markley John L; Moult John; Montelione Gaetano T; Orengo Christine; Rossmann Michael G; Rost Burkhard; Saibil Helen; Schwede Torsten; Standley Daron M; Westbrook John D
Outcome of a workshop on archiving structural models of biological macromolecules.
Structure (London, England : 1993) 2006;14(8):1211-7.
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2006: Friedberg Iddo; Harder Tim; Godzik Adam
JAFA: a protein function annotation meta-server.
Nucleic acids research 2006;34(Web Server issue):W379-81.
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2006: Li Weizhong; Godzik Adam
Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences.
Bioinformatics (Oxford, England) 2006;22(13):1658-9.
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2006: Doukhanina Elena V; Chen Shaorong; van der Zalm Esther; Godzik Adam; Reed John; Dickman Martin B
Identification and functional characterization of the BAG protein family in Arabidopsis thaliana.
The Journal of biological chemistry 2006;281(27):18793-801.
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2006: Friedberg Iddo; Jambon Martin; Godzik Adam
New avenues in protein function prediction.
Protein science : a publication of the Protein Society 2006;15(6):1527-9.
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2006: Li Weizhong; Godzik Adam
VISSA: a program to visualize structural features from structure sequence alignment.
Bioinformatics (Oxford, England) 2006;22(7):887-8.
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2006: Plewczynski Dariusz; Tkacz Adrian; Wyrwicz Lucjan Stanislaw; Godzik Adam; Kloczkowski Andrzej; Rychlewski Leszek
Support-vector-machine classification of linear functional motifs in proteins.
Journal of molecular modeling 2006;12(4):453-61.
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2006: Robinson-Rechavi Marc; Alibés Andreu; Godzik Adam
Contribution of electrostatic interactions, compactness and quaternary structure to protein thermostability: lessons from structural genomics of Thermotoga maritima.
Journal of molecular biology 2006;356(2):547-57.
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2006: Li Zhanwen; Ye Yuzhen; Godzik Adam
Flexible Structural Neighborhood--a database of protein structural similarities and alignments.
Nucleic acids research 2006;34(Database issue):D277-80.
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2006: Newman Ruchi M; Salunkhe Prabhakar; Godzik Adam; Reed John C
Identification and characterization of a novel bacterial virulence factor that shares homology with mammalian Toll/interleukin-1 receptor family proteins.
Infection and immunity 2006;74(1):594-601.
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2006: Shiryaev Sergey A; Ratnikov Boris I; Chekanov Alexei V; Sikora Sergey; Rozanov Dmitri V; Godzik Adam; Wang Jun; Smith Jeffrey W; Huang Ziwei; Lindberg Iris; Samuel Melanie A; Diamond Michael S; Strongin Alex Y
Cleavage targets and the D-arginine-based inhibitors of the West Nile virus NS3 processing proteinase.
The Biochemical journal 2006;393(Pt 2):503-11.
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2006: Ye Yuzhen; Li Zhanwen; Godzik Adam
Modeling and analyzing three-dimensional structures of human disease proteins.
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing 2006;():439-50.
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2006: Zhi Degui; Krishna S Sri; Cao Haibo; Pevzner Pavel; Godzik Adam
Representing and comparing protein structures as paths in three-dimensional space.
BMC bioinformatics 2006;7():460.
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2005: Sikora Sergey; Strongin Alex; Godzik Adam
Convergent evolution as a mechanism for pathogenic adaptation.
Trends in microbiology 2005;13(11):522-7.
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2005: Plewczynski Dariusz; Jaroszewski Lukasz; Godzik Adam; Kloczkowski Andrzej; Rychlewski Leszek
Molecular modeling of phosphorylation sites in proteins using a database of local structure segments.
Journal of molecular modeling 2005;11(6):431-8.
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2005: Friedberg Iddo; Godzik Adam
Connecting the protein structure universe by using sparse recurring fragments.
Structure (London, England : 1993) 2005;13(8):1213-24.
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2005: Jaroszewski Lukasz; Rychlewski Leszek; Li Zhanwen; Li Weizhong; Godzik Adam
FFAS03: a server for profile--profile sequence alignments.
Nucleic acids research 2005;33(Web Server issue):W284-8.
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2005: Friedberg Iddo; Godzik Adam
Fragnostic: walking through protein structure space.
Nucleic acids research 2005;33(Web Server issue):W249-51.
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2005: Ye Yuzhen; Osterman Andrei; Overbeek Ross; Godzik Adam
Automatic detection of subsystem/pathway variants in genome analysis.
Bioinformatics (Oxford, England) 2005;21 Suppl 1():i478-86.
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2005: Robinson-Rechavi Marc; Godzik Adam
Structural genomics of thermotoga maritima proteins shows that contact order is a major determinant of protein thermostability.
Structure (London, England : 1993) 2005;13(6):857-60.
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2005: Ye Yuzhen; Godzik Adam
Multiple flexible structure alignment using partial order graphs.
Bioinformatics (Oxford, England) 2005;21(10):2362-9.
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2005: Plewczynski Dariusz; Tkacz Adrian; Godzik Adam; Rychlewski Leszek
A support vector machine approach to the identification of phosphorylation sites.
Cellular & molecular biology letters 2005;10(1):73-89.
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2005: Ginalski Krzysztof; Grishin Nick V; Godzik Adam; Rychlewski Leszek
Practical lessons from protein structure prediction.
Nucleic acids research 2005;33(6):1874-91.
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2004: Rozanov Dmitri V; Sikora Sergey; Godzik Adam; Postnova Tatiana I; Golubkov Vladislav; Savinov Alexei; Tomlinson Stephen; Strongin Alex Y
Non-proteolytic, receptor/ligand interactions associate cellular membrane type-1 matrix metalloproteinase with the complement component C1q.
The Journal of biological chemistry 2004;279(48):50321-8.
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2004: Dodatko Tetyana; Fedorov Alexander A; Grynberg Marcin; Patskovsky Yury; Rozwarski Denise A; Jaroszewski Lukasz; Aronoff-Spencer Eliah; Kondraskina Elena; Irving Tom; Godzik Adam; Almo Steven C
Crystal structure of the actin binding domain of the cyclase-associated protein.
Biochemistry 2004;43(33):10628-41.
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2004: Alonso Andres; Burkhalter Stephen; Sasin Joanna; Tautz Lutz; Bogetz Jori; Huynh Huong; Bremer Meire C D; Holsinger Leslie J; Godzik Adam; Mustelin Tomas
The minimal essential core of a cysteine-based protein-tyrosine phosphatase revealed by a novel 16-kDa VH1-like phosphatase, VHZ.
The Journal of biological chemistry 2004;279(34):35768-74.
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2004: Plewczynski Dariusz; Rychlewski Leszek; Ye Yuzhen; Jaroszewski Lukasz; Godzik Adam
Integrated web service for improving alignment quality based on segments comparison.
BMC bioinformatics 2004;5():98.
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2004: Ye Yuzhen; Godzik Adam
Database searching by flexible protein structure alignment.
Protein science : a publication of the Protein Society 2004;13(7):1841-50.
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2004: Ye Yuzhen; Godzik Adam
FATCAT: a web server for flexible structure comparison and structure similarity searching.
Nucleic acids research 2004;32(Web Server issue):W582-5.
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2004: Schwarzenbacher Robert; Godzik Adam; Grzechnik Slawomir K; Jaroszewski Lukasz
The importance of alignment accuracy for molecular replacement.
Acta crystallographica. Section D, Biological crystallography 2004;60(Pt 7):1229-36.
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2004: Reed John C; Doctor Kutbuddin S; Godzik Adam
The domains of apoptosis: a genomics perspective.
Science's STKE : signal transduction knowledge environment 2004;2004(239):re9.
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2004: Friedberg Iddo; Jaroszewski Lukasz; Ye Yuzhen; Godzik Adam
The interplay of fold recognition and experimental structure determination in structural genomics.
Current opinion in structural biology 2004;14(3):307-12.
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2004: Alonso Andres; Sasin Joanna; Bottini Nunzio; Friedberg Ilan; Friedberg Iddo; Osterman Andrei; Godzik Adam; Hunter Tony; Dixon Jack; Mustelin Tomas
Protein tyrosine phosphatases in the human genome.
Cell 2004;117(6):699-711.
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2004: Grynberg Marcin; Godzik Adam
NERD: a DNA processing-related domain present in the anthrax virulence plasmid, pXO1.
Trends in biochemical sciences 2004;29(3):106-10.
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2004: Ma Hong; Xiong Hui; Liu Tong; Zhang Lingyan; Godzik Adam; Zhang Zhuohua
Aggregate formation and synaptic abnormality induced by DSCR1.
Journal of neurochemistry 2004;88(6):1485-96.
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2004: Ye Yuzhen; Godzik Adam
Comparative analysis of protein domain organization.
Genome research 2004;14(3):343-53.
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2004: Sikora Sergey; Godzik Adam
Combination of multiple alignment analysis and surface mapping paves a way for a detailed pathway reconstruction--the case of VHL (von Hippel-Lindau) protein and angiogenesis regulatory pathway.
Protein science : a publication of the Protein Society 2004;13(3):786-96.
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2003: Huynh Huong; Wang Xiaodong; Li Weizhong; Bottini Nunzio; Williams Scott; Nika Konstantina; Ishihara Hisamitsu; Godzik Adam; Mustelin Tomas
Homotypic secretory vesicle fusion induced by the protein tyrosine phosphatase MEG2 depends on polyphosphoinositides in T cells.
Journal of immunology (Baltimore, Md. : 1950) 2003;171(12):6661-71.
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2003: Chae Han-Jung; Ke Ning; Kim Hyung-Ryong; Chen Shaorong; Godzik Adam; Dickman Martin; Reed John C
Evolutionarily conserved cytoprotection provided by Bax Inhibitor-1 homologs from animals, plants, and yeast.
Gene 2003;323():101-13.
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2003: Bossy-Wetzel Ella; Barsoum Mark J; Godzik Adam; Schwarzenbacher Robert; Lipton Stuart A
Mitochondrial fission in apoptosis, neurodegeneration and aging.
Current opinion in cell biology 2003;15(6):706-16.
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2003: Zhai Dayong; Ke Ning; Zhang Haichao; Ladror Uri; Joseph Mary; Eichinger Andreas; Godzik Adam; Ng Shi-Chung; Reed John C
Characterization of the anti-apoptotic mechanism of Bcl-B.
The Biochemical journal 2003;376(Pt 1):229-36.
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2003: Grynberg Marcin; Jaroszewski Lukasz; Godzik Adam
Domain analysis of the tubulin cofactor system: a model for tubulin folding and dimerization.
BMC bioinformatics 2003;4():46.
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2003: Ye Yuzhen; Godzik Adam
Flexible structure alignment by chaining aligned fragment pairs allowing twists.
Bioinformatics (Oxford, England) 2003;19 Suppl 2():ii246-55.
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2003: Liu Tong; Rojas Ana; Ye Yuzhen; Godzik Adam
Homology modeling provides insights into the binding mode of the PAAD/DAPIN/pyrin domain, a fourth member of the CARD/DD/DED domain family.
Protein science : a publication of the Protein Society 2003;12(9):1872-81.
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2003: Stehlik Christian; Hayashi Hideki; Pio Frederick; Godzik Adam; Reed John C
CARD6 is a modulator of NF-kappa B activation by Nod1- and Cardiak-mediated pathways.
The Journal of biological chemistry 2003;278(34):31941-9.
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2003: Stehlik Christian; Krajewska Maryla; Welsh Kate; Krajewski Stanislaw; Godzik Adam; Reed John C
The PAAD/PYRIN-only protein POP1/ASC2 is a modulator of ASC-mediated nuclear-factor-kappa B and pro-caspase-1 regulation.
The Biochemical journal 2003;373(Pt 1):101-13.
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2003: Reed John C; Doctor Kutbuddin; Rojas Ana; Zapata Juan M; Stehlik Christian; Fiorentino Loredana; Damiano Jason; Roth Wilfried; Matsuzawa Shu-Ichi; Newman Ruchi; Takayama Shinichi; Marusawa Hiroyuki; Xu Famming; Salvesen Guy; Godzik Adam;
Comparative analysis of apoptosis and inflammation genes of mice and humans.
Genome research 2003;13(6B):1376-88.
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2003: Doctor K S; Reed J C; Godzik A; Bourne P E
The apoptosis database.
Cell death and differentiation 2003;10(6):621-33.
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2003: Grynberg Marcin; Erlandsen Heidi; Godzik Adam
HEPN: a common domain in bacterial drug resistance and human neurodegenerative proteins.
Trends in biochemical sciences 2003;28(5):224-6.
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2003: Chen Emily I; Li Weizhong; Godzik Adam; Howard Eric W; Smith Jeffrey W
A residue in the S2 subsite controls substrate selectivity of matrix metalloproteinase-2 and matrix metalloproteinase-9.
The Journal of biological chemistry 2003;278(19):17158-63.
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2003: Ye Yuzhen; Jaroszewski Lukasz; Li Weizhong; Godzik Adam
A segment alignment approach to protein comparison.
Bioinformatics (Oxford, England) 2003;19(6):742-9.
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2003: Luz John Gately; Hassig Christian A; Pickle Catherine; Godzik Adam; Meyer Barbara J; Wilson Ian A
XOL-1, primary determinant of sexual fate in C. elegans, is a GHMP kinase family member and a structural prototype for a class of developmental regulators.
Genes & development 2003;17(8):977-90.
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2003: Zhao Yun; Hong Dong-Hyun; Pawlyk Basil; Yue Guohua; Adamian Michael; Grynberg Marcin; Godzik Adam; Li Tiansen
The retinitis pigmentosa GTPase regulator (RPGR)- interacting protein: subserving RPGR function and participating in disk morphogenesis.
Proceedings of the National Academy of Sciences of the United States of America 2003;100(7):3965-70.
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2003: Alonso Andres; Rahmouni Souad; Williams Scott; van Stipdonk Marianne; Jaroszewski Lukasz; Godzik Adam; Abraham Robert T; Schoenberger Stephen P; Mustelin Tomas
Tyrosine phosphorylation of VHR phosphatase by ZAP-70.
Nature immunology 2003;4(1):44-8.
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2003: Godzik Adam
Fold recognition methods.
Methods of biochemical analysis 2003;44():525-46.
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2002: Lesley Scott A; Kuhn Peter; Godzik Adam; Deacon Ashley M; Mathews Irimpan; Kreusch Andreas; Spraggon Glen; Klock Heath E; McMullan Daniel; Shin Tanya; Vincent Juli; Robb Alyssa; Brinen Linda S; Miller Mitchell D; McPhillips Timothy M; Miller Mark A; Scheibe Daniel; Canaves Jaume M; Guda Chittibabu; Jaroszewski Lukasz; Selby Thomas L; Elsliger Marc-Andre; Wooley John; Taylor Susan S; Hodgson Keith O; Wilson Ian A; Schultz Peter G; Stevens Raymond C
Structural genomics of the Thermotoga maritima proteome implemented in a high-throughput structure determination pipeline.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(18):11664-9.
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2002: Lipton Stuart A; Choi Yun-Beom; Takahashi Hiroto; Zhang Dongxian; Li Weizhong; Godzik Adam; Bankston Laurie A
Cysteine regulation of protein function--as exemplified by NMDA-receptor modulation.
Trends in neurosciences 2002;25(9):474-80.
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2002: Fiorentino Loredana; Stehlik Christian; Oliveira Vasco; Ariza Maria Eugenia; Godzik Adam; Reed John C
A novel PAAD-containing protein that modulates NF-kappa B induction by cytokines tumor necrosis factor-alpha and interleukin-1beta.
The Journal of biological chemistry 2002;277(38):35333-40.
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2002: Li Weizhong; Jaroszewski Lukasz; Godzik Adam
Sequence clustering strategies improve remote homology recognitions while reducing search times.
Protein engineering 2002;15(8):643-9.
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2002: Li Weizhong; Godzik Adam
Discovering new genes with advanced homology detection.
Trends in biotechnology 2002;20(8):315-6.
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2002: Jaroszewski Lukasz; Li Weizhong; Godzik Adam
In search for more accurate alignments in the twilight zone.
Protein science : a publication of the Protein Society 2002;11(7):1702-13.
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2002: Kridel Steven J; Sawai Hisako; Ratnikov Boris I; Chen Emily I; Li Weizhong; Godzik Adam; Strongin Alex Y; Smith Jeffrey W
A unique substrate binding mode discriminates membrane type-1 matrix metalloproteinase from other matrix metalloproteinases.
The Journal of biological chemistry 2002;277(26):23788-93.
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2002: Wu Xiaohua; Li Weizhong; Sharma Vandana; Godzik Adam; Freeze Hudson H
Cloning and characterization of glucose transporter 11, a novel sugar transporter that is alternatively spliced in various tissues.
Molecular genetics and metabolism 2002;76(1):37-45.
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2002: Stenner-Liewen Frank; Liewen Heike; Zapata Juan M; Pawlowski Krzysztof; Godzik Adam; Reed John C
CADD, a Chlamydia protein that interacts with death receptors.
The Journal of biological chemistry 2002;277(12):9633-6.
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2002: Roth Wilfried; Stenner-Liewen Frank; Pawlowski Krzysztof; Godzik Adam; Reed John C
Identification and characterization of DEDD2, a death effector domain-containing protein.
The Journal of biological chemistry 2002;277(9):7501-8.
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2002: Alonso Andres; Merlo Joseph J; Na Songqing; Kholod Natalya; Jaroszewski Lukasz; Kharitonenkov Alexei; Williams Scott; Godzik Adam; Posada James D; Mustelin Tomas
Inhibition of T cell antigen receptor signaling by VHR-related MKPX (VHX), a new dual specificity phosphatase related to VH1 related (VHR).
The Journal of biological chemistry 2002;277(7):5524-8.
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2002: Chen Emily I; Kridel Steven J; Howard Eric W; Li Weizhong; Godzik Adam; Smith Jeffrey W
A unique substrate recognition profile for matrix metalloproteinase-2.
The Journal of biological chemistry 2002;277(6):4485-91.
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2002: Li Weizhong; Jaroszewski Lukasz; Godzik Adam
Tolerating some redundancy significantly speeds up clustering of large protein databases.
Bioinformatics (Oxford, England) 2002;18(1):77-82.
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2001: Pathan N; Marusawa H; Krajewska M; Matsuzawa S; Kim H; Okada K; Torii S; Kitada S; Krajewski S; Welsh K; Pio F; Godzik A; Reed J C
TUCAN, an antiapoptotic caspase-associated recruitment domain family protein overexpressed in cancer.
The Journal of biological chemistry 2001;276(34):32220-9.
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2001: Damiano J S; Stehlik C; Pio F; Godzik A; Reed J C
CLAN, a novel human CED-4-like gene.
Genomics 2001;75(1-3):77-83.
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2001: Pawlowski K; Godzik A
Surface map comparison: studying function diversity of homologous proteins.
Journal of molecular biology 2001;309(3):793-806.
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2001: Marchenko G N; Ratnikov B I; Rozanov D V; Godzik A; Deryugina E I; Strongin A Y
Characterization of matrix metalloproteinase-26, a novel metalloproteinase widely expressed in cancer cells of epithelial origin.
The Biochemical journal 2001;356(Pt 3):705-18.
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2001: Zapata J M; Pawlowski K; Haas E; Ware C F; Godzik A; Reed J C
A diverse family of proteins containing tumor necrosis factor receptor-associated factor domains.
The Journal of biological chemistry 2001;276(26):24242-52.
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2001: Ke N; Godzik A; Reed J C
Bcl-B, a novel Bcl-2 family member that differentially binds and regulates Bax and Bak.
The Journal of biological chemistry 2001;276(16):12481-4.
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2001: Li W; Jaroszewski L; Godzik A
Clustering of highly homologous sequences to reduce the size of large protein databases.
Bioinformatics (Oxford, England) 2001;17(3):282-3.
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2001: Chu Z L; Pio F; Xie Z; Welsh K; Krajewska M; Krajewski S; Godzik A; Reed J C
A novel enhancer of the Apaf1 apoptosome involved in cytochrome c-dependent caspase activation and apoptosis.
The Journal of biological chemistry 2001;276(12):9239-45.
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2001: Pawlowski K; Pio F; Chu Z; Reed J C; Godzik A
PAAD - a new protein domain associated with apoptosis, cancer and autoimmune diseases.
Trends in biochemical sciences 2001;26(2):85-7.
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2001: Guo B; Godzik A; Reed J C
Bcl-G, a novel pro-apoptotic member of the Bcl-2 family.
The Journal of biological chemistry 2001;276(4):2780-5.
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2000: Li W; Pio F; Pawlowski K; Godzik A
Saturated BLAST: an automated multiple intermediate sequence search used to detect distant homology.
Bioinformatics (Oxford, England) 2000;16(12):1105-10.
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2000: Grynberg M; Topczewski J; Godzik A; Paszewski A
The Aspergillus nidulans cysA gene encodes a novel type of serine O-acetyltransferase which is homologous to homoserine O-acetyltransferases.
Microbiology (Reading, England) 2000;146 ( Pt 10)():2695-703.
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2000: Zhang H; Huang Q; Ke N; Matsuyama S; Hammock B; Godzik A; Reed J C
Drosophila pro-apoptotic Bcl-2/Bax homologue reveals evolutionary conservation of cell death mechanisms.
The Journal of biological chemistry 2000;275(35):27303-6.
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2000: Jaroszewski L; Rychlewski L; Godzik A
Improving the quality of twilight-zone alignments.
Protein science : a publication of the Protein Society 2000;9(8):1487-96.
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2000: Pawlowski K; Rychlewski L; Reed J C; Godzik A
From fold to function predictions: an apoptosis regulator protein BID.
Computers & chemistry 2000;24(3-4):511-7.
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2000: Jaroszewski L; Rychlewski L; Reed J C; Godzik A
ATP-activated oligomerization as a mechanism for apoptosis regulation: fold and mechanism prediction for CED-4.
Proteins 2000;39(3):197-203.
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2000: Zapata J M; Matsuzawa S; Godzik A; Leo E; Wasserman S A; Reed J C
The Drosophila tumor necrosis factor receptor-associated factor-1 (DTRAF1) interacts with Pelle and regulates NFkappaB activity.
The Journal of biological chemistry 2000;275(16):12102-7.
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2000: Zhang H; Xu Q; Krajewski S; Krajewska M; Xie Z; Fuess S; Kitada S; Pawlowski K; Godzik A; Reed J C
BAR: An apoptosis regulator at the intersection of caspases and Bcl-2 family proteins.
Proceedings of the National Academy of Sciences of the United States of America 2000;97(6):2597-602.
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2000: Jaroszewski L; Godzik A
Search for a new description of protein topology and local structure.
Proceedings / ... International Conference on Intelligent Systems for Molecular Biology ; ISMB. International Conference on Intelligent Systems for Molecular Biology 2000;8():211-7.
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1999: Schendel S L; Azimov R; Pawlowski K; Godzik A; Kagan B L; Reed J C
Ion channel activity of the BH3 only Bcl-2 family member, BID.
The Journal of biological chemistry 1999;274(31):21932-6.
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1999: Pawlowski K; Zhang B; Rychlewski L; Godzik A
The Helicobacter pylori genome: from sequence analysis to structural and functional predictions.
Proteins 1999;36(1):20-30.
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1999: Zhang B; Rychlewski L; Pawlowski K; Fetrow J S; Skolnick J; Godzik A
From fold predictions to function predictions: automation of functional site conservation analysis for functional genome predictions.
Protein science : a publication of the Protein Society 1999;8(5):1104-15.
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1999: Rychlewski L; Zhang B; Godzik A
Functional insights from structural predictions: analysis of the Escherichia coli genome.
Protein science : a publication of the Protein Society 1999;8(3):614-24.
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1998: Fetrow J S; Godzik A; Skolnick J
Functional analysis of the Escherichia coli genome using the sequence-to-structure-to-function paradigm: identification of proteins exhibiting the glutaredoxin/thioredoxin disulfide oxidoreductase activity.
Journal of molecular biology 1998;282(4):703-11.
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1998: Zhang L; Godzik A; Skolnick J; Fetrow J S
Functional analysis of the Escherichia coli genome for members of the alpha/beta hydrolase family.
Folding & design 1998;3(6):535-48.
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1998: Rychlewski L; Zhang B; Godzik A
Fold and function predictions for Mycoplasma genitalium proteins.
Folding & design 1998;3(4):229-38.
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1998: Fetrow J S; Godzik A
Function driven protein evolution. A possible proto-protein for the RNA-binding proteins.
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing 1998;():485-96.
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1997: Rychlewski L; Godzik A
Secondary structure prediction using segment similarity.
Protein engineering 1997;10(10):1143-53.
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1997: Skolnick J; Jaroszewski L; Kolinski A; Godzik A
Derivation and testing of pair potentials for protein folding. When is the quasichemical approximation correct?
Protein science : a publication of the Protein Society 1997;6(3):676-88.
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1997: Pawlowski K; Jaroszewski L; Bierzyñski A; Godzik A
Multiple model approach--dealing with alignment ambiguities in protein modeling.
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing 1997;():328-39.
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1997: Zhang B; Jaroszewski L; Rychlewski L; Godzik A
Similarities and differences between nonhomologous proteins with similar folds: evaluation of threading strategies.
Folding & design 1997;2(5):307-17.
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1996: Godzik A
The structural alignment between two proteins: is there a unique answer?
Protein science : a publication of the Protein Society 1996;5(7):1325-38.
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1996: Pawlowski K; Bierzynski A; Godzik A
Structural diversity in a family of homologous proteins.
Journal of molecular biology 1996;258(2):349-66.
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1996: Kolinski A; Skolnick J; Godzik A
An algorithm for prediction of structural elements in small proteins.
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing 1996;():446-60.
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1995: Godzik A; Kolinski A; Skolnick J
Are proteins ideal mixtures of amino acids? Analysis of energy parameter sets.
Protein science : a publication of the Protein Society 1995;4(10):2107-17.
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1995: Godzik A
In search of the ideal protein sequence.
Protein engineering 1995;8(5):409-16.
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1994: Godzik A; Skolnick J
Flexible algorithm for direct multiple alignment of protein structures and sequences.
Computer applications in the biosciences : CABIOS 1994;10(6):587-96.
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1993: Godzik A; Skolnick J; Kolinski A
Regularities in interaction patterns of globular proteins.
Protein engineering 1993;6(8):801-10.
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1993: Godzik A; Kolinski A; Skolnick J
De novo and inverse folding predictions of protein structure and dynamics.
Journal of computer-aided molecular design 1993;7(4):397-438.
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1993: Skolnick J; Kolinski A; Brooks C L; Godzik A; Rey A
A method for predicting protein structure from sequence.
Current biology : CB 1993;3(7):414-23.
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1993: Skolnick J; Kolinski A; Godzik A
From independent modules to molten globules: observations on the nature of protein folding intermediates.
Proceedings of the National Academy of Sciences of the United States of America 1993;90(6):2099-100.
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1992: Godzik A; Skolnick J
Sequence-structure matching in globular proteins: application to supersecondary and tertiary structure determination.
Proceedings of the National Academy of Sciences of the United States of America 1992;89(24):12098-102.
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1992: Godzik A; Kolinski A; Skolnick J
Topology fingerprint approach to the inverse protein folding problem.
Journal of molecular biology 1992;227(1):227-38.
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1992: Godzik A; Skolnick J; Kolinski A
Simulations of the folding pathway of triose phosphate isomerase-type alpha/beta barrel proteins.
Proceedings of the National Academy of Sciences of the United States of America 1992;89(7):2629-33.
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1989: Godzik A; Boguta G; Wesolowski T
[Data bases in biochemistry--applications to analysis and prediction of protein properties and function]
Postepy biochemii 1989;35(1-2):45-61.
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1988: Godzik A; Wesolowski T
On the interactions of charged side chains with the alpha-helix backbone.
Biophysical chemistry 1988;31(1-2):29-34.
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1988: Dadlez M; Bierzynski A; Godzik A; Sobocinska M; Kupryszewski G
Conformational role of His-12 in C-peptide of ribonuclease A.
Biophysical chemistry 1988;31(1-2):175-81.
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1987: Wesolowski T A; Godzik A; Geller M
Calculations of the conformational properties of acyclonucleosides. Part I. Stable conformations of acyclovir.
Acta biochimica Polonica 1987;34(2):111-22.
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