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


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