4IJZA

Crystal structure of diaminopimelate epimerase from escherichia coli
Total Genus 75
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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
75
sequence length
274
structure length
274
Chain Sequence
MQFSKMHGLGNDFMVVDAVTQNVFFSPELIRRLADRHLGVGFDQLLVVEPPYDPELDFHYRIFNADGSEVAQCGNGARCFARFVRLKGLTNKRDIRVSTANGRMVLTVTDDDLVRVNMGEPNFEPSAVPFRANKAEKTYIMRAAEQTILCGVVSMGNPHCVIQVDDVDTAAVETLGPVLESHERFPERANIGFMQVVKREHIRLRVYERGAGETQACGSGACAAVAVGIQQGLLAEEVRVELPGGRLDIAWKGPGHPLYMTGPAVHVYDGFIHL
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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 Dimerization of bacterial diaminopimelate epimerase is essential for catalysis
pubmed doi rcsb
source organism Escherichia coli
molecule tags Isomerase
molecule keywords Diaminopimelate epimerase
total genus 75
structure length 274
sequence length 274
chains with identical sequence B
ec nomenclature ec 5.1.1.7: Diaminopimelate epimerase.
pdb deposition date 2012-12-24

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 4ijzA02
3.10.310.10 Alpha Beta Roll Diaminopimelate Epimerase; Chain A, domain 1 Diaminopimelate Epimerase; Chain A, domain 1 4ijzA01
3EDNA 2AZPA 2H9FA 1W62A 3EKMA 3EJXA 5IWEA 1XUAA 1W61A 5H2YA 1BWZA 5M47A 2Q9JA 1QYAA 3FVEA 2GKEA 1U0KA 4K8LA 4Q2HA 2Q9HA 1SDJA 5H2GA 2GKJA 4K7XA 4IK0A 4Q60A 1U1WA 1YM5A 1U1XA 2PVZA 4K7GB 5HA4A 4IJZA 1GQZA 4J9XA 1QY9A 2PW0A 2OTNA 4JD7A 4JUUA 1XUBA 4JBDA 4DUNA 4LB0A 4JCIA 1TM0A 1T6KA 1S7JA 3G7KA 4J9WA 1U1VA
chains in the Genus database with same CATH superfamily
1WPMA 4GL6A 1BWZA 1U0KA 4Q2HA 1SDJA 5H2GA 3WQZA 2KPTA 1I74A 4K7XA 1U1WA 1YM5A 2PW0A 2OTNA 2QB7A 1T6KA 4J9WA 2ZXRA 2EB0A 4PY9A 3EDNA 2KW7A 2QB8A 5H2YA 3IGHX 2MPBA 2GKEA 2LT2A 2ENXA 3PTJA 1K20A 3PW9A 4K7GB 5HA4A 1GQZA 2YMAA 2HAWA 2ZXOA 1TM0A 3G7KA 4LG3A 3W5WA 2IW4A 2ZVFA 1W62A 5IWEA 3G98A 1XUAA 1W61A 1K23A 4OA3A 5M47A 2Q9JA 1QYAA 3FVEA 4K8LA 2Q9HA 2ZXPA 4IK0A 2PVZA 1U1XA 5ANPA 4IJZA 4RPAA 4JUUA 1XUBA 2AZPA 2H9FA 3DEVA 3EKMA 3EJXA 1WPPA 2QB6A 2GKJA 4Q60A 3PVHA 4LS9A 1IR6A 3ICJA 4J9XA 1QY9A 4JD7A 4JBDA 4DUNA 4LB0A 4JCIA 1S7JA 1U1VA
chains in the Genus database with same CATH topology
1WPMA 4GL6A 1BWZA 1U0KA 4Q2HA 1SDJA 5H2GA 3WQZA 2KPTA 1I74A 4K7XA 1U1WA 1YM5A 2PW0A 2OTNA 2QB7A 1T6KA 4J9WA 2ZXRA 2EB0A 4PY9A 3EDNA 2KW7A 2QB8A 5H2YA 3IGHX 2MPBA 2GKEA 2LT2A 2ENXA 3PTJA 1K20A 3PW9A 4K7GB 5HA4A 1GQZA 2YMAA 2HAWA 2ZXOA 1TM0A 3G7KA 4LG3A 3W5WA 2IW4A 2ZVFA 1W62A 5IWEA 3G98A 1XUAA 1W61A 1K23A 4OA3A 5M47A 2Q9JA 1QYAA 3FVEA 4K8LA 2Q9HA 2ZXPA 4IK0A 2PVZA 1U1XA 5ANPA 4IJZA 4RPAA 4JUUA 1XUBA 2AZPA 2H9FA 3DEVA 3EKMA 3EJXA 1WPPA 2QB6A 2GKJA 4Q60A 3PVHA 4LS9A 1IR6A 3ICJA 4J9XA 1QY9A 4JD7A 4JBDA 4DUNA 4LB0A 4JCIA 1S7JA 1U1VA
chains in the Genus database with same CATH homology


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

 
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