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


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