5H2YA

Crystal strcuture of reduced dapf from corynebacterium glutamicum
Total Genus 73
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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
73
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 73
structure length 278
sequence length 278
chains with identical sequence B
ec nomenclature ec 5.1.1.7: Diaminopimelate epimerase.
pdb deposition date 2016-10-18

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 5h2yA01
3.10.310.10 Alpha Beta Roll Diaminopimelate Epimerase; Chain A, domain 1 Diaminopimelate Epimerase; Chain A, domain 1 5h2yA02
3EDNA 2GKEA 4IK0A 1GQZA 2Q9JA 2GKJA 1W61A 1W62A 5H2YA 4LB0A 5HA4A 1SDJA 4J9XA 4JBDA 2AZPA 2PVZA 3EKMA 4J9WA 4JCIA 1QYAA 1TM0A 1U1VA 4JUUA 1XUBA 5IWEA 1S7JA 3G7KA 5H2GA 3EJXA 5M47A 4Q60A 2PW0A 1BWZA 4IJZA 4K7GB 1XUAA 4K8LA 4DUNA 1T6KA 4Q2HA 3FVEA 4K7XA 1QY9A 1U1XA 1U0KA 2Q9HA 2OTNA 4JD7A 2H9FA 1U1WA 1YM5A
chains in the Genus database with same CATH superfamily
3DEVA 2GKEA 2HAWA 4LB0A 1SDJA 3G98A 2KW7A 3EKMA 1U1VA 5H2GA 5M47A 4RPAA 2EB0A 4Q2HA 3FVEA 4K7XA 1QY9A 1U1XA 1U0KA 4OA3A 2OTNA 2H9FA 1K20A 1U1WA 1W61A 3PW9A 2Q9JA 4LS9A 5HA4A 4J9XA 4JCIA 2ZXRA 4JUUA 1XUBA 5IWEA 1S7JA 2PW0A 4IJZA 4GL6A 4DUNA 5ANPA 3ICJA 1WPPA 4JD7A 2ZVFA 3EDNA 3WQZA 4IK0A 2GKJA 2LT2A 1W62A 2YMAA 2PVZA 4J9WA 1TM0A 1K23A 2QB7A 4Q60A 4PY9A 1IR6A 2QB6A 1WPMA 2ENXA 2KPTA 1GQZA 5H2YA 2ZXPA 3PTJA 4JBDA 3W5WA 2AZPA 3PVHA 1QYAA 2IW4A 2ZXOA 3G7KA 3EJXA 4K7GB 2QB8A 1XUAA 4K8LA 1T6KA 1I74A 4LG3A 2MPBA 3IGHX 2Q9HA 1BWZA 1YM5A
chains in the Genus database with same CATH topology
3DEVA 2GKEA 2HAWA 4LB0A 1SDJA 3G98A 2KW7A 3EKMA 1U1VA 5H2GA 5M47A 4RPAA 2EB0A 4Q2HA 3FVEA 4K7XA 1QY9A 1U1XA 1U0KA 4OA3A 2OTNA 2H9FA 1K20A 1U1WA 1W61A 3PW9A 2Q9JA 4LS9A 5HA4A 4J9XA 4JCIA 2ZXRA 4JUUA 1XUBA 5IWEA 1S7JA 2PW0A 4IJZA 4GL6A 4DUNA 5ANPA 3ICJA 1WPPA 4JD7A 2ZVFA 3EDNA 3WQZA 4IK0A 2GKJA 2LT2A 1W62A 2YMAA 2PVZA 4J9WA 1TM0A 1K23A 2QB7A 4Q60A 4PY9A 1IR6A 2QB6A 1WPMA 2ENXA 2KPTA 1GQZA 5H2YA 2ZXPA 3PTJA 4JBDA 3W5WA 2AZPA 3PVHA 1QYAA 2IW4A 2ZXOA 3G7KA 3EJXA 4K7GB 2QB8A 1XUAA 4K8LA 1T6KA 1I74A 4LG3A 2MPBA 3IGHX 2Q9HA 1BWZA 1YM5A
chains in the Genus database with same CATH homology


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