4IK0A

Crystal structure of diaminopimelate epimerase y268a mutant from escherichia coli
Total Genus 76
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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
76
sequence length
274
structure length
274
Chain Sequence
b'MQFSKMHGLGNDFMVVDAVTQNVFFSPELIRRLADRHLGVGFDQLLVVEPPYDPELDFHYRIFNADGSEVAQCGNGARCFARFVRLKGLTNKRDIRVSTANGRMVLTVTDDDLVRVNMGEPNFEPSAVPFRANKAEKTYIMRAAEQTILCGVVSMGNPHCVIQVDDVDTAAVETLGPVLESHERFPERANIGFMQVVKREHIRLRVYERGAGETQACGSGACAAVAVGIQQGLLAEEVRVELPGGRLDIAWKGPGHPLYMTGPAVHVADGFIHL'
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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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molecule keywords Diaminopimelate epimerase
publication title Dimerization of bacterial diaminopimelate epimerase is essential for catalysis
pubmed doi rcsb
source organism Escherichia coli
molecule tags Isomerase
total genus 76
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 4ik0A02
3.10.310.10 Alpha Beta Roll Diaminopimelate Epimerase; Chain A, domain 1 Diaminopimelate Epimerase; Chain A, domain 1 4ik0A01
1W62A 2GKJA 1U1VA 4LB0A 3EKMA 2OTNA 1U0KA 2PVZA 5IWEA 1YM5A 3FVEA 5M47A 4Q2HA 4J9WA 1XUBA 2PW0A 1T6KA 2GKEA 4JUUA 4JBDA 1QY9A 4K8LA 1BWZA 1TM0A 2AZPA 1QYAA 1W61A 3EJXA 2Q9JA 3G7KA 4K7GB 1U1XA 4JCIA 4DUNA 1S7JA 5H2YA 1U1WA 4JD7A 1XUAA 5H2GA 4J9XA 1GQZA 1SDJA 2Q9HA 2H9FA 4K7XA 4IK0A 5HA4A 3EDNA 4Q60A 4IJZA
chains in the Genus database with same CATH superfamily
1WPMA 2GKJA 3FVEA 4GL6A 2GKEA 4JUUA 2ENXA 2Q9HA 3PW9A 4LS9A 2H9FA 3PVHA 1U1VA 3EKMA 2ZXOA 5IWEA 4OA3A 2EB0A 2HAWA 4Q2HA 4J9WA 2PW0A 1QY9A 1BWZA 4K7GB 1TM0A 2AZPA 3EJXA 2Q9JA 2MPBA 2YMAA 5H2YA 1U1WA 2QB6A 4JD7A 5H2GA 1K20A 1SDJA 2QB8A 5HA4A 4Q60A 1I74A 4IJZA 1W62A 2LT2A 2PVZA 5M47A 1T6KA 3G7KA 1W61A 1U1XA 4RPAA 1IR6A 1S7JA 3PTJA 4IK0A 3EDNA 4LB0A 5ANPA 2OTNA 1U0KA 2KPTA 1YM5A 1K23A 2IW4A 1XUBA 3G98A 2ZXRA 4JBDA 4K8LA 3IGHX 1QYAA 4JCIA 4DUNA 3WQZA 3ICJA 2ZXPA 2QB7A 1XUAA 1WPPA 3DEVA 2ZVFA 4J9XA 1GQZA 4LG3A 4K7XA 3W5WA 2KW7A 4PY9A
chains in the Genus database with same CATH topology
1WPMA 2GKJA 3FVEA 4GL6A 2GKEA 4JUUA 2ENXA 2Q9HA 3PW9A 4LS9A 2H9FA 3PVHA 1U1VA 3EKMA 2ZXOA 5IWEA 4OA3A 2EB0A 2HAWA 4Q2HA 4J9WA 2PW0A 1QY9A 1BWZA 4K7GB 1TM0A 2AZPA 3EJXA 2Q9JA 2MPBA 2YMAA 5H2YA 1U1WA 2QB6A 4JD7A 5H2GA 1K20A 1SDJA 2QB8A 5HA4A 4Q60A 1I74A 4IJZA 1W62A 2LT2A 2PVZA 5M47A 1T6KA 3G7KA 1W61A 1U1XA 4RPAA 1IR6A 1S7JA 3PTJA 4IK0A 3EDNA 4LB0A 5ANPA 2OTNA 1U0KA 2KPTA 1YM5A 1K23A 2IW4A 1XUBA 3G98A 2ZXRA 4JBDA 4K8LA 3IGHX 1QYAA 4JCIA 4DUNA 3WQZA 3ICJA 2ZXPA 2QB7A 1XUAA 1WPPA 3DEVA 2ZVFA 4J9XA 1GQZA 4LG3A 4K7XA 3W5WA 2KW7A 4PY9A
chains in the Genus database with same CATH homology


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

 
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