5H2GA

Crystal strcuture of oxidized dapf from corynebacterium glutamicum
Total Genus 72
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
72
sequence length
278
structure length
278
Chain Sequence
MNLTIPFAKGHATENDFIIIPDEDARLDLTPEMVVTLCDRRAGIGADGILRVVKAADVEGSTVDPSLWFMDYRNADGSLAEMCGNGVRLFAHWLYSRGLVDNTSFDIGTRAGVRHVDILQADQHSAQVRVDMGIPDVTGLSTCDINGQVFAGLGVDMGNPHLACVVPGLSASALADMELRAPTFDQEFFPHGVNVEIVTELEDDAVSMRVWERGVGETRSCGTGTVAAACAALADAGLGEGTVKVCVPGGEVEVQIFDDGSTLTGPSAIIALGEVQIH
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The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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publication title Structural basis for redox sensitivity in Corynebacterium glutamicum diaminopimelate epimerase: an enzyme involved in l-lysine biosynthesis.
pubmed doi rcsb
source organism Corynebacterium glutamicum (strain atcc 13032 / dsm 20300 / jcm 1318 / lmg 3730
molecule tags Isomerase
molecule keywords Diaminopimelate epimerase
total genus 72
structure length 278
sequence length 278
chains with identical sequence B
ec nomenclature ec 5.1.1.7: Diaminopimelate epimerase.
pdb deposition date 2016-10-15

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01678 DAP_epimerase Diaminopimelate epimerase
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.10.310.10 Alpha Beta Roll Diaminopimelate Epimerase; Chain A, domain 1 Diaminopimelate Epimerase; Chain A, domain 1 5h2gA01
3.10.310.10 Alpha Beta Roll Diaminopimelate Epimerase; Chain A, domain 1 Diaminopimelate Epimerase; Chain A, domain 1 5h2gA02
4JCIA 1U1WA 5H2YA 2OTNA 2GKJA 5H2GA 4JBDA 1W61A 4J9XA 3EJXA 2GKEA 5M47A 4DUNA 1QY9A 1T6KA 4IK0A 1W62A 4Q2HA 1GQZA 1XUAA 2H9FA 4K8LA 3G7KA 3EKMA 2AZPA 2Q9HA 1BWZA 5HA4A 4JUUA 4LB0A 4IJZA 1SDJA 4K7GB 3EDNA 4K7XA 4Q60A 1U0KA 1U1XA 5IWEA 1QYAA 2PW0A 2Q9JA 4JD7A 1U1VA 1YM5A 1TM0A 1XUBA 3FVEA 2PVZA 4J9WA 1S7JA
chains in the Genus database with same CATH superfamily
4JCIA 2ZXPA 2OTNA 2GKJA 5H2GA 3IGHX 4J9XA 4OA3A 3EJXA 5M47A 4GL6A 4IK0A 2KPTA 2QB7A 1WPMA 3G98A 1IR6A 1SDJA 4LS9A 2PW0A 2Q9JA 1U1VA 1XUBA 3FVEA 2ZVFA 2PVZA 2Q9HA 3W5WA 4JBDA 1WPPA 4DUNA 2ENXA 1XUAA 3ICJA 3G7KA 1K20A 3EKMA 4JUUA 4IJZA 5IWEA 1QYAA 2QB8A 4J9WA 1S7JA 1U1WA 5H2YA 3PW9A 2ZXOA 3DEVA 2HAWA 1GQZA 4K8LA 2AZPA 1BWZA 4K7GB 5ANPA 2EB0A 4JD7A 1YM5A 2YMAA 1TM0A 4PY9A 2LT2A 3WQZA 2ZXRA 4RPAA 1W61A 2MPBA 2GKEA 1QY9A 1T6KA 4Q2HA 1W62A 3PTJA 2H9FA 2IW4A 2KW7A 3PVHA 5HA4A 4LB0A 3EDNA 4K7XA 4Q60A 1U0KA 1U1XA 4LG3A 2QB6A 1I74A 1K23A
chains in the Genus database with same CATH topology
4JCIA 2ZXPA 2OTNA 2GKJA 5H2GA 3IGHX 4J9XA 4OA3A 3EJXA 5M47A 4GL6A 4IK0A 2KPTA 2QB7A 1WPMA 3G98A 1IR6A 1SDJA 4LS9A 2PW0A 2Q9JA 1U1VA 1XUBA 3FVEA 2ZVFA 2PVZA 2Q9HA 3W5WA 4JBDA 1WPPA 4DUNA 2ENXA 1XUAA 3ICJA 3G7KA 1K20A 3EKMA 4JUUA 4IJZA 5IWEA 1QYAA 2QB8A 4J9WA 1S7JA 1U1WA 5H2YA 3PW9A 2ZXOA 3DEVA 2HAWA 1GQZA 4K8LA 2AZPA 1BWZA 4K7GB 5ANPA 2EB0A 4JD7A 1YM5A 2YMAA 1TM0A 4PY9A 2LT2A 3WQZA 2ZXRA 4RPAA 1W61A 2MPBA 2GKEA 1QY9A 1T6KA 4Q2HA 1W62A 3PTJA 2H9FA 2IW4A 2KW7A 3PVHA 5HA4A 4LB0A 3EDNA 4K7XA 4Q60A 1U0KA 1U1XA 4LG3A 2QB6A 1I74A 1K23A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4JCI A;  1U1W A;  5H2Y A;  2OTN A;  2GKJ A;  5H2G A;  4JBD A;  1W61 A;  4J9X A;  3EJX A;  2GKE A;  5M47 A;  4DUN A;  1QY9 A;  1T6K A;  4IK0 A;  1W62 A;  4Q2H A;  1GQZ A;  1XUA A;  2H9F A;  4K8L A;  3G7K A;  3EKM A;  2AZP A;  2Q9H A;  1BWZ A;  5HA4 A;  4JUU A;  4LB0 A;  4IJZ A;  1SDJ A;  4K7G B;  3EDN A;  4K7X A;  4Q60 A;  1U0K A;  1U1X A;  5IWE A;  1QYA A;  2PW0 A;  2Q9J A;  4JD7 A;  1U1V A;  1YM5 A;  1TM0 A;  1XUB A;  3FVE A;  2PVZ A;  4J9W A;  1S7J A; 
#chains in the Genus database with same CATH topology
 4JCI A;  2ZXP A;  2OTN A;  2GKJ A;  5H2G A;  3IGH X;  4J9X A;  4OA3 A;  3EJX A;  5M47 A;  4GL6 A;  4IK0 A;  2KPT A;  2QB7 A;  1WPM A;  3G98 A;  1IR6 A;  1SDJ A;  4LS9 A;  2PW0 A;  2Q9J A;  1U1V A;  1XUB A;  3FVE A;  2ZVF A;  2PVZ A;  2Q9H A;  3W5W A;  4JBD A;  1WPP A;  4DUN A;  2ENX A;  1XUA A;  3ICJ A;  3G7K A;  1K20 A;  3EKM A;  4JUU A;  4IJZ A;  5IWE A;  1QYA A;  2QB8 A;  4J9W A;  1S7J A;  1U1W A;  5H2Y A;  3PW9 A;  2ZXO A;  3DEV A;  2HAW A;  1GQZ A;  4K8L A;  2AZP A;  1BWZ A;  4K7G B;  5ANP A;  2EB0 A;  4JD7 A;  1YM5 A;  2YMA A;  1TM0 A;  4PY9 A;  2LT2 A;  3WQZ A;  2ZXR A;  4RPA A;  1W61 A;  2MPB A;  2GKE A;  1QY9 A;  1T6K A;  4Q2H A;  1W62 A;  3PTJ A;  2H9F A;  2IW4 A;  2KW7 A;  3PVH A;  5HA4 A;  4LB0 A;  3EDN A;  4K7X A;  4Q60 A;  1U0K A;  1U1X A;  4LG3 A;  2QB6 A;  1I74 A;  1K23 A; 
#chains in the Genus database with same CATH homology
 4JCI A;  2ZXP A;  2OTN A;  2GKJ A;  5H2G A;  3IGH X;  4J9X A;  4OA3 A;  3EJX A;  5M47 A;  4GL6 A;  4IK0 A;  2KPT A;  2QB7 A;  1WPM A;  3G98 A;  1IR6 A;  1SDJ A;  4LS9 A;  2PW0 A;  2Q9J A;  1U1V A;  1XUB A;  3FVE A;  2ZVF A;  2PVZ A;  2Q9H A;  3W5W A;  4JBD A;  1WPP A;  4DUN A;  2ENX A;  1XUA A;  3ICJ A;  3G7K A;  1K20 A;  3EKM A;  4JUU A;  4IJZ A;  5IWE A;  1QYA A;  2QB8 A;  4J9W A;  1S7J A;  1U1W A;  5H2Y A;  3PW9 A;  2ZXO A;  3DEV A;  2HAW A;  1GQZ A;  4K8L A;  2AZP A;  1BWZ A;  4K7G B;  5ANP A;  2EB0 A;  4JD7 A;  1YM5 A;  2YMA A;  1TM0 A;  4PY9 A;  2LT2 A;  3WQZ A;  2ZXR A;  4RPA A;  1W61 A;  2MPB A;  2GKE A;  1QY9 A;  1T6K A;  4Q2H A;  1W62 A;  3PTJ A;  2H9F A;  2IW4 A;  2KW7 A;  3PVH A;  5HA4 A;  4LB0 A;  3EDN A;  4K7X A;  4Q60 A;  1U0K A;  1U1X A;  4LG3 A;  2QB6 A;  1I74 A;  1K23 A; 
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