2Q9JA

Crystal structure of the c217s mutant of diaminopimelate epimerase
Total Genus 70
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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
70
sequence length
274
structure length
273
Chain Sequence
MQFSKMHGLGNDFVVVDGVTQNVFFTPETIRRLANRHCGIGFDQLLIVEAPYDPELDFHYRIFNADGSEVSQGNGARCFARFVTLKGLTNKKDISVSTQKGNMVLTVKDDNQIRVNMGEPIWEPAKIPFTANKFEKNYILRTDIQTVLCGAVSMGNPHCVVQVDDIQTANVEQLGPLLESHERFPERVNAGFMQIINKEHIKLRVYERGAGETQASGSGACAAVAVGIMQGLLNNNVQVDLPGGSLMIEWNGVGHPLYMTGEATHIYDGFITL
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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 Dynamics of catalysis revealed from the crystal structures of mutants of diaminopimelate epimerase.
pubmed doi rcsb
source organism Haemophilus influenzae
molecule tags Isomerase
molecule keywords Diaminopimelate epimerase
total genus 70
structure length 273
sequence length 274
ec nomenclature ec 5.1.1.7: Diaminopimelate epimerase.
pdb deposition date 2007-06-12

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 2q9jA02
3.10.310.10 Alpha Beta Roll Diaminopimelate Epimerase; Chain A, domain 1 Diaminopimelate Epimerase; Chain A, domain 1 2q9jA01
2PVZA 5M47A 1U1XA 1SDJA 4Q60A 1YM5A 2PW0A 3EJXA 1XUAA 5H2YA 4DUNA 5IWEA 1T6KA 3FVEA 4J9WA 1XUBA 4JD7A 4JUUA 1W61A 4IK0A 1U1WA 5HA4A 2OTNA 4K7GB 5H2GA 2Q9JA 1S7JA 4JCIA 1GQZA 2GKJA 2AZPA 4K8LA 1U0KA 4LB0A 1TM0A 1U1VA 3EDNA 4Q2HA 1QY9A 2Q9HA 3EKMA 3G7KA 1W62A 4JBDA 2GKEA 2H9FA 4IJZA 1QYAA 4J9XA 1BWZA 4K7XA
chains in the Genus database with same CATH superfamily
5M47A 3ICJA 1YM5A 1WPPA 2QB8A 1W61A 2ZVFA 4IK0A 2EB0A 5HA4A 1WPMA 5H2GA 4LS9A 3DEVA 2AZPA 4RPAA 4LB0A 1TM0A 2ENXA 3EKMA 2YMAA 2GKEA 2H9FA 4PY9A 2ZXPA 3W5WA 3G98A 4Q60A 3EJXA 1XUAA 5H2YA 4DUNA 4OA3A 1K23A 2IW4A 4K8LA 1U0KA 3PTJA 2QB7A 2Q9HA 2ZXRA 2ZXOA 3IGHX 1U1XA 1SDJA 5IWEA 3FVEA 2HAWA 4JD7A 4JUUA 2OTNA 3PW9A 2GKJA 1I74A 3PVHA 5ANPA 2MPBA 4LG3A 1W62A 4GL6A 4IJZA 1QYAA 4J9XA 3WQZA 4J9WA 1BWZA 4K7XA 2PVZA 1K20A 2KW7A 2PW0A 1T6KA 1XUBA 1U1WA 4K7GB 2Q9JA 1S7JA 4JCIA 2LT2A 1GQZA 1U1VA 3EDNA 2KPTA 4Q2HA 2QB6A 1QY9A 3G7KA 1IR6A 4JBDA
chains in the Genus database with same CATH topology
5M47A 3ICJA 1YM5A 1WPPA 2QB8A 1W61A 2ZVFA 4IK0A 2EB0A 5HA4A 1WPMA 5H2GA 4LS9A 3DEVA 2AZPA 4RPAA 4LB0A 1TM0A 2ENXA 3EKMA 2YMAA 2GKEA 2H9FA 4PY9A 2ZXPA 3W5WA 3G98A 4Q60A 3EJXA 1XUAA 5H2YA 4DUNA 4OA3A 1K23A 2IW4A 4K8LA 1U0KA 3PTJA 2QB7A 2Q9HA 2ZXRA 2ZXOA 3IGHX 1U1XA 1SDJA 5IWEA 3FVEA 2HAWA 4JD7A 4JUUA 2OTNA 3PW9A 2GKJA 1I74A 3PVHA 5ANPA 2MPBA 4LG3A 1W62A 4GL6A 4IJZA 1QYAA 4J9XA 3WQZA 4J9WA 1BWZA 4K7XA 2PVZA 1K20A 2KW7A 2PW0A 1T6KA 1XUBA 1U1WA 4K7GB 2Q9JA 1S7JA 4JCIA 2LT2A 1GQZA 1U1VA 3EDNA 2KPTA 4Q2HA 2QB6A 1QY9A 3G7KA 1IR6A 4JBDA
chains in the Genus database with same CATH homology


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