3EJXA

Crystal structure of diaminopimelate epimerase from arabidopsis thaliana in complex with ll-azidap
Total Genus 80
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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
80
sequence length
287
structure length
287
Chain Sequence
GVLHFVKYHGLGNDFILVDNRDSSEPKITQEQAAKLCDRNFGVGADGVIFAMPGVNGTDYAMRIFNSDGSEPEMCGNGVRCFARFIAELENLQGKHSFTIHTGAGLIVPEIQDDGQVKVDMGTPILKAQDVPTKLSGNKGEAVVEAELVVDGVSWNVTCVSMGNPHCITFGKKGGPNLKVDDLNLPEIGPKFEHHEMFPARTNTEFVEVLSRSHLKMRVWERGAGATLACGTGACALVVAAVLEGRADRKCTVDLPGGPLEIEWKQEDNHIYMTGPAEAVFYGSALL
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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 Crystal structure of diaminopimelate epimerase from Arabidopsis thaliana, an amino acid racemase critical for L-lysine biosynthesis.
pubmed doi rcsb
source organism Arabidopsis thaliana
molecule tags Isomerase
molecule keywords Diaminopimelate epimerase, chloroplastic
total genus 80
structure length 287
sequence length 287
chains with identical sequence B, C, D, E, F
ec nomenclature ec 5.1.1.7: Diaminopimelate epimerase.
pdb deposition date 2008-09-18

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 3ejxA02
3.10.310.10 Alpha Beta Roll Diaminopimelate Epimerase; Chain A, domain 1 Diaminopimelate Epimerase; Chain A, domain 1 3ejxA01
1T6KA 1W62A 4IJZA 1BWZA 3EJXA 4JD7A 2Q9HA 4K7GB 1YM5A 1TM0A 3EKMA 4K7XA 5IWEA 4Q2HA 5H2YA 2Q9JA 2PVZA 4J9WA 1U1XA 4JCIA 4JUUA 3EDNA 4K8LA 1U1VA 2H9FA 3G7KA 5M47A 2OTNA 1SDJA 2PW0A 4LB0A 4IK0A 1W61A 2GKEA 1QY9A 4J9XA 2GKJA 1U1WA 4DUNA 1S7JA 1QYAA 5H2GA 1XUAA 1XUBA 2AZPA 1GQZA 4JBDA 4Q60A 3FVEA 1U0KA 5HA4A
chains in the Genus database with same CATH superfamily
1W62A 2EB0A 1BWZA 2QB6A 4JD7A 4LS9A 1IR6A 2Q9HA 4K7GB 2ZVFA 4JUUA 1U1VA 1K20A 2ENXA 5M47A 1K23A 2MPBA 2OTNA 1SDJA 3WQZA 2GKEA 3G98A 3DEVA 4DUNA 1WPPA 1XUAA 1GQZA 4GL6A 1U0KA 4IJZA 3EKMA 5IWEA 2ZXPA 2PVZA 2LT2A 2QB7A 3EDNA 5ANPA 1WPMA 4LB0A 1I74A 2GKJA 1S7JA 1XUBA 2AZPA 5HA4A 1T6KA 2QB8A 3ICJA 4Q2HA 5H2YA 3W5WA 2Q9JA 2ZXOA 4PY9A 4J9WA 1U1XA 4JCIA 3PTJA 2HAWA 4LG3A 2ZXRA 2PW0A 4RPAA 4IK0A 4J9XA 1U1WA 1QYAA 5H2GA 4JBDA 4K8LA 3EJXA 2KW7A 1YM5A 1TM0A 4K7XA 3PVHA 2IW4A 2H9FA 4OA3A 3G7KA 2YMAA 1W61A 1QY9A 3PW9A 2KPTA 3IGHX 4Q60A 3FVEA
chains in the Genus database with same CATH topology
1W62A 2EB0A 1BWZA 2QB6A 4JD7A 4LS9A 1IR6A 2Q9HA 4K7GB 2ZVFA 4JUUA 1U1VA 1K20A 2ENXA 5M47A 1K23A 2MPBA 2OTNA 1SDJA 3WQZA 2GKEA 3G98A 3DEVA 4DUNA 1WPPA 1XUAA 1GQZA 4GL6A 1U0KA 4IJZA 3EKMA 5IWEA 2ZXPA 2PVZA 2LT2A 2QB7A 3EDNA 5ANPA 1WPMA 4LB0A 1I74A 2GKJA 1S7JA 1XUBA 2AZPA 5HA4A 1T6KA 2QB8A 3ICJA 4Q2HA 5H2YA 3W5WA 2Q9JA 2ZXOA 4PY9A 4J9WA 1U1XA 4JCIA 3PTJA 2HAWA 4LG3A 2ZXRA 2PW0A 4RPAA 4IK0A 4J9XA 1U1WA 1QYAA 5H2GA 4JBDA 4K8LA 3EJXA 2KW7A 1YM5A 1TM0A 4K7XA 3PVHA 2IW4A 2H9FA 4OA3A 3G7KA 2YMAA 1W61A 1QY9A 3PW9A 2KPTA 3IGHX 4Q60A 3FVEA
chains in the Genus database with same CATH homology


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