These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.
2. Joint evolutionary trees: a large-scale method to predict protein interfaces based on sequence sampling. Engelen S; Trojan LA; Sacquin-Mora S; Lavery R; Carbone A PLoS Comput Biol; 2009 Jan; 5(1):e1000267. PubMed ID: 19165315 [TBL] [Abstract][Full Text] [Related]
3. Exploring substrate binding and discrimination in fructose1, 6-bisphosphate and tagatose 1,6-bisphosphate aldolases. Zgiby SM; Thomson GJ; Qamar S; Berry A Eur J Biochem; 2000 Mar; 267(6):1858-68. PubMed ID: 10712619 [TBL] [Abstract][Full Text] [Related]
4. Spatial clustering of isozyme-specific residues reveals unlikely determinants of isozyme specificity in fructose-1,6-bisphosphate aldolase. Pezza JA; Choi KH; Berardini TZ; Beernink PT; Allen KN; Tolan DR J Biol Chem; 2003 May; 278(19):17307-13. PubMed ID: 12611890 [TBL] [Abstract][Full Text] [Related]
5. An evolutionary trace method defines binding surfaces common to protein families. Lichtarge O; Bourne HR; Cohen FE J Mol Biol; 1996 Mar; 257(2):342-58. PubMed ID: 8609628 [TBL] [Abstract][Full Text] [Related]
6. CoeViz: a web-based tool for coevolution analysis of protein residues. Baker FN; Porollo A BMC Bioinformatics; 2016 Mar; 17():119. PubMed ID: 26956673 [TBL] [Abstract][Full Text] [Related]
7. Structural clusters of evolutionary trace residues are statistically significant and common in proteins. Madabushi S; Yao H; Marsh M; Kristensen DM; Philippi A; Sowa ME; Lichtarge O J Mol Biol; 2002 Feb; 316(1):139-54. PubMed ID: 11829509 [TBL] [Abstract][Full Text] [Related]
8. Protein-protein interactions leave evolutionary footprints: High molecular coevolution at the core of interfaces. Teppa E; Zea DJ; Marino-Buslje C Protein Sci; 2017 Dec; 26(12):2438-2444. PubMed ID: 28980349 [TBL] [Abstract][Full Text] [Related]
9. The ConSurf-HSSP database: the mapping of evolutionary conservation among homologs onto PDB structures. Glaser F; Rosenberg Y; Kessel A; Pupko T; Ben-Tal N Proteins; 2005 Feb; 58(3):610-7. PubMed ID: 15614759 [TBL] [Abstract][Full Text] [Related]
10. Are protein-protein interfaces more conserved in sequence than the rest of the protein surface? Caffrey DR; Somaroo S; Hughes JD; Mintseris J; Huang ES Protein Sci; 2004 Jan; 13(1):190-202. PubMed ID: 14691234 [TBL] [Abstract][Full Text] [Related]
11. Use of a database of structural alignments and phylogenetic trees in investigating the relationship between sequence and structural variability among homologous proteins. Balaji S; Srinivasan N Protein Eng; 2001 Apr; 14(4):219-26. PubMed ID: 11391013 [TBL] [Abstract][Full Text] [Related]
12. Prediction of amino acid positions specific for functional groups in a protein family based on local sequence similarity. Karasev DA; Veselovsky AV; Oparina NY; Filimonov DA; Sobolev BN J Mol Recognit; 2016 Apr; 29(4):159-69. PubMed ID: 26549790 [TBL] [Abstract][Full Text] [Related]
13. Sequence conservation in families whose members have little or no sequence similarity: the four-helical cytokines and cytochromes. Hill EE; Morea V; Chothia C J Mol Biol; 2002 Sep; 322(1):205-33. PubMed ID: 12215425 [TBL] [Abstract][Full Text] [Related]
14. Conservation of coevolving protein interfaces bridges prokaryote-eukaryote homologies in the twilight zone. Rodriguez-Rivas J; Marsili S; Juan D; Valencia A Proc Natl Acad Sci U S A; 2016 Dec; 113(52):15018-15023. PubMed ID: 27965389 [TBL] [Abstract][Full Text] [Related]
15. Functional region prediction with a set of appropriate homologous sequences--an index for sequence selection by integrating structure and sequence information with spatial statistics. Nemoto W; Toh H BMC Struct Biol; 2012 May; 12():11. PubMed ID: 22643026 [TBL] [Abstract][Full Text] [Related]
16. Conserved residue clusters at protein-protein interfaces and their use in binding site identification. Guharoy M; Chakrabarti P BMC Bioinformatics; 2010 May; 11():286. PubMed ID: 20507585 [TBL] [Abstract][Full Text] [Related]
17. An Evolutionary Trace method defines functionally important bases and sites common to RNA families. Novikov IB; Wilkins AD; Lichtarge O PLoS Comput Biol; 2020 Mar; 16(3):e1007583. PubMed ID: 32208421 [TBL] [Abstract][Full Text] [Related]
18. Analysis and prediction of functional sub-types from protein sequence alignments. Hannenhalli SS; Russell RB J Mol Biol; 2000 Oct; 303(1):61-76. PubMed ID: 11021970 [TBL] [Abstract][Full Text] [Related]
19. An integrated approach to the analysis and modeling of protein sequences and structures. III. A comparative study of sequence conservation in protein structural families using multiple structural alignments. Yang AS; Honig B J Mol Biol; 2000 Aug; 301(3):691-711. PubMed ID: 10966778 [TBL] [Abstract][Full Text] [Related]
20. Estimating residue evolutionary conservation by introducing von Neumann entropy and a novel gap-treating approach. Zhang SW; Zhang YL; Pan Q; Cheng YM; Chou KC Amino Acids; 2008 Aug; 35(2):495-501. PubMed ID: 17710364 [TBL] [Abstract][Full Text] [Related] [Next] [New Search]