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


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