2Q9HA

Crystal structure of the c73s mutant of diaminopimelate epimerase
Total Genus 69
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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
69
sequence length
274
structure length
274
Chain Sequence
MQFSKMHGLGNDFVVVDGVTQNVFFTPETIRRLANRHCGIGFDQLLIVEAPYDPELDFHYRIFNADGSEVSQSGNGARCFARFVTLKGLTNKKDISVSTQKGNMVLTVKDDNQIRVNMGEPIWEPAKIPFTANKFEKNYILRTDIQTVLCGAVSMGNPHCVVQVDDIQTANVEQLGPLLESHERFPERVNAGFMQIINKEHIKLRVYERGAGETQACGSGACAAVAVGIMQGLLNNNVQVDLPGGSLMIEWNGVGHPLYMTGEATHIYDGFITL
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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 Dynamics of catalysis revealed from the crystal structures of mutants of diaminopimelate epimerase.
pubmed doi rcsb
source organism Haemophilus influenzae
molecule tags Isomerase
total genus 69
structure length 274
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 2q9hA02
3.10.310.10 Alpha Beta Roll Diaminopimelate Epimerase; Chain A, domain 1 Diaminopimelate Epimerase; Chain A, domain 1 2q9hA01
1U1WA 4JBDA 4JD7A 4JCIA 1W62A 1XUAA 1W61A 3EJXA 4J9WA 5M47A 2AZPA 1U1VA 3G7KA 5H2YA 2PVZA 4IK0A 4K8LA 2Q9HA 4Q2HA 1XUBA 1SDJA 4JUUA 1TM0A 1QYAA 2OTNA 4K7XA 2PW0A 3FVEA 4DUNA 5H2GA 1BWZA 2Q9JA 4J9XA 2GKEA 4IJZA 2GKJA 1YM5A 2H9FA 1S7JA 1GQZA 1U1XA 1QY9A 3EDNA 1T6KA 4LB0A 5IWEA 3EKMA 4Q60A 1U0KA 4K7GB 5HA4A
chains in the Genus database with same CATH superfamily
1U1WA 4JBDA 4JD7A 4JCIA 4LG3A 4J9WA 2ZXPA 2QB6A 2KW7A 2KPTA 2PVZA 4K8LA 1SDJA 3ICJA 4K7XA 2HAWA 4J9XA 2H9FA 1I74A 3EDNA 3DEVA 5IWEA 2ZXOA 2ZVFA 2EB0A 4K7GB 3EJXA 1U1VA 4RPAA 2ZXRA 4GL6A 1QYAA 2Q9JA 1YM5A 1S7JA 1U1XA 4LB0A 1T6KA 2IW4A 3PW9A 4Q60A 1WPPA 4PY9A 1W62A 1XUAA 5M47A 2YMAA 3IGHX 5H2YA 4IK0A 4Q2HA 1XUBA 4OA3A 1TM0A 2OTNA 1WPMA 3FVEA 5H2GA 2GKEA 4IJZA 1GQZA 3G98A 2QB7A 2ENXA 3EKMA 1U0KA 4LS9A 3WQZA 5HA4A 1IR6A 3PVHA 2QB8A 1W61A 2LT2A 2AZPA 1K23A 3G7KA 2Q9HA 3W5WA 4JUUA 1K20A 2PW0A 4DUNA 3PTJA 1BWZA 2GKJA 1QY9A 2MPBA 5ANPA
chains in the Genus database with same CATH topology
1U1WA 4JBDA 4JD7A 4JCIA 4LG3A 4J9WA 2ZXPA 2QB6A 2KW7A 2KPTA 2PVZA 4K8LA 1SDJA 3ICJA 4K7XA 2HAWA 4J9XA 2H9FA 1I74A 3EDNA 3DEVA 5IWEA 2ZXOA 2ZVFA 2EB0A 4K7GB 3EJXA 1U1VA 4RPAA 2ZXRA 4GL6A 1QYAA 2Q9JA 1YM5A 1S7JA 1U1XA 4LB0A 1T6KA 2IW4A 3PW9A 4Q60A 1WPPA 4PY9A 1W62A 1XUAA 5M47A 2YMAA 3IGHX 5H2YA 4IK0A 4Q2HA 1XUBA 4OA3A 1TM0A 2OTNA 1WPMA 3FVEA 5H2GA 2GKEA 4IJZA 1GQZA 3G98A 2QB7A 2ENXA 3EKMA 1U0KA 4LS9A 3WQZA 5HA4A 1IR6A 3PVHA 2QB8A 1W61A 2LT2A 2AZPA 1K23A 3G7KA 2Q9HA 3W5WA 4JUUA 1K20A 2PW0A 4DUNA 3PTJA 1BWZA 2GKJA 1QY9A 2MPBA 5ANPA
chains in the Genus database with same CATH homology


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

 
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