Database of articles cited by EMDB/PDB/SASBDB data

Keywords
Structure methods	All X-ray diffraction NMR electron microscopy small angle scattering neutron diffraction fiber diffraction powder diffraction infrared spectroscopy EPR fluorescence transfer theoretical model Hybrid
Author
Journal
IF	>30 >20 >10 >5 all

Title	Homology models guide discovery of diverse enzyme specificities among dipeptide epimerases in the enolase superfamily.
Journal, issue, pages	Proc. Natl. Acad. Sci. USA, Vol. 109, Page 4122-4127, Year 2012
Publish date	Aug 4, 2009 (structure data deposition date)
Authors	Lukk, T. / Sakai, A. / Kalyanaraman, C. / Brown, S.D. / Imker, H.J. / Song, L. / Fedorov, A.A. / Fedorov, E.V. / Toro, R. / Hillerich, B. ...Lukk, T. / Sakai, A. / Kalyanaraman, C. / Brown, S.D. / Imker, H.J. / Song, L. / Fedorov, A.A. / Fedorov, E.V. / Toro, R. / Hillerich, B. / Seidel, R. / Patskovsky, Y. / Vetting, M.W. / Nair, S.K. / Babbitt, P.C. / Almo, S.C. / Gerlt, J.A. / Jacobson, M.P.
External links	Proc. Natl. Acad. Sci. USA / PubMed:22392983
Methods	X-ray diffraction
Resolution	1.5 - 3 Å
Structure data	PDB-3iji: Structure of dipeptide epimerase from Bacteroides thetaiotaomicron complexed with L-Ala-D-Glu; nonproductive substrate binding. Method: X-RAY DIFFRACTION / Resolution: 1.6 Å PDB-3ijl: Structure of dipeptide epimerase from Bacteroides thetaiotaomicron complexed with L-Pro-D-Glu; nonproductive substrate binding. Method: X-RAY DIFFRACTION / Resolution: 1.5 Å PDB-3ijq: Structure of dipeptide epimerase from Bacteroides thetaiotaomicron complexed with L-Ala-D-Glu; productive substrate binding. Method: X-RAY DIFFRACTION / Resolution: 2.0 Å PDB-3ik4: CRYSTAL STRUCTURE OF mandelate racemase/muconate lactonizing protein from Herpetosiphon aurantiacus Method: X-RAY DIFFRACTION / Resolution: 2.1 Å PDB-3jva: Crystal structure of Dipeptide Epimerase from Enterococcus faecalis V583 Method: X-RAY DIFFRACTION / Resolution: 1.7 Å PDB-3jw7: Crystal structure of Dipeptide Epimerase from Enterococcus faecalis V583 complexed with Mg and dipeptide L-Ile-L-Tyr Method: X-RAY DIFFRACTION / Resolution: 1.8 Å PDB-3jzu: Crystal structure of Dipeptide Epimerase from Enterococcus faecalis V583 complexed with Mg and dipeptide L-Leu-L-Tyr Method: X-RAY DIFFRACTION / Resolution: 2.0 Å PDB-3k1g: Crystal structure of Dipeptide Epimerase from Enterococcus faecalis V583 complexed with Mg and dipeptide L-Ser-L-Tyr Method: X-RAY DIFFRACTION / Resolution: 2.0 Å PDB-3kum: Crystal structure of Dipeptide Epimerase from Enterococcus faecalis V583 complexed with Mg and dipeptide L-Arg-L-Tyr Method: X-RAY DIFFRACTION / Resolution: 1.9 Å PDB-3q45: Crystal structure of Dipeptide Epimerase from Cytophaga hutchinsonii complexed with Mg and dipeptide D-Ala-L-Val Method: X-RAY DIFFRACTION / Resolution: 3.0 Å PDB-3q4d: Crystal structure of dipeptide epimerase from Cytophaga hutchinsonii complexed with Mg and dipeptide D-Ala-L-Ala Method: X-RAY DIFFRACTION / Resolution: 3.0 Å PDB-3r0k: Crystal structure of NYSGRC enolase target 200555, a putative dipeptide epimerase from Francisella philomiragia : Tartrate bound, no Mg Method: X-RAY DIFFRACTION / Resolution: 2.0 Å PDB-3r0u: Crystal structure of NYSGRC enolase target 200555, a putative dipeptide epimerase from Francisella philomiragia : Tartrate and Mg complex Method: X-RAY DIFFRACTION / Resolution: 1.9 Å PDB-3r10: Crystal structure of NYSGRC enolase target 200555, a putative dipeptide epimerase from Francisella philomiragia : Mg complex Method: X-RAY DIFFRACTION / Resolution: 2.0 Å PDB-3r11: Crystal structure of NYSGRC enolase target 200555, a putative dipeptide epimerase from Francisella philomiragia : Mg and Fumarate complex Method: X-RAY DIFFRACTION / Resolution: 2.0 Å PDB-3r1z: Crystal structure of NYSGRC enolase target 200555, a putative dipeptide epimerase from Francisella philomiragia : Complex with L-Ala-L-Glu and L-Ala-D-Glu Method: X-RAY DIFFRACTION / Resolution: 1.9 Å PDB-3rit: Crystal structure of Dipeptide Epimerase from Methylococcus capsulatus complexed with Mg and dipeptide L-Arg-D-Lys Method: X-RAY DIFFRACTION / Resolution: 2.701 Å PDB-3ro6: Crystal structure of Dipeptide Epimerase from Methylococcus capsulatus complexed with Mg ion Method: X-RAY DIFFRACTION / Resolution: 2.2 Å
Chemicals	ChemComp-ALA: ALANINE / Alanine ChemComp-DGL: D-GLUTAMIC ACID / Glutamic acid ChemComp-MG: Unknown entry ChemComp-HOH: WATER / Water ChemComp-PRO: PROLINE / Proline ChemComp-SO4: SULFATE ION / Sulfate ChemComp-K: Unknown entry ChemComp-GOL: GLYCEROL / Glycerol ChemComp-ILE: ISOLEUCINE / Isoleucine ChemComp-TYR: TYROSINE / Tyrosine ChemComp-LEU: LEUCINE / Leucine ChemComp-SER: SERINE / Serine ChemComp-ARG: ARGININE / Arginine ChemComp-DAL: D-ALANINE / Alanine ChemComp-VAL: VALINE / Valine ChemComp-TAR: D(-)-TARTARIC ACID / Tartaric acid ChemComp-FUM: FUMARIC ACID / Fumaric acid ChemComp-GLU: GLUTAMIC ACID / Glutamic acid ChemComp-DLY: D-LYSINE / Lysine ChemComp-1PE: PENTAETHYLENE GLYCOL / precipitant*YM / Polyethylene glycol
Source	bacteroides thetaiotaomicron (bacteria) herpetosiphon aurantiacus atcc 23779 (bacteria) enterococcus faecalis v583 (bacteria) enterococcus faecalis (bacteria) cytophaga hutchinsonii (bacteria) francisella philomiragia (bacteria) francisella philomiragia subsp. philomiragia (bacteria) methylococcus capsulatus (bacteria)
Keywords	ISOMERASE / Enolase superfamily / dipeptide epimerase / L-Ala-D-Glu / nonproductive binding / L-Pro-D-Glu / productive binding / STRUCTURAL GENOMICS / ENOLASE / EPIMERASE / PSI-2 / PROTEIN STRUCTURE INITIATIVE / NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL GENOMICS / NYSGXRC / dipeptide L-Ile-L-Tyr / dipeptide L-Leu-L-Tyr / L-Ser-L-Tyr / dipeptide L-Arg-L-Tyr / (beta/alpha)8-barrel / METAL BINDING PROTEIN / PSI-Biology / New York Structural Genomics Research Consortium / NYSGRC / LYASE / putative epimerase / TIM barrel / chloromuconate cycloisomerase