1GQZA

Refinement of haemophilus influenzae diaminopimelate epimerase at 1.7a
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
MQFSKMHGLGNDFVVVDGVTQNVFFTPETIRRLANRHCGIGFDQLLIVEAPYDPELDFHYRIFNADGSEVSQCGNGARCFARFVTLKGLTNKKDISVSTQKGNMVLTVKDDNQIRVNMGEPIWEPAKIPFTANKFEKNYILRTDIQTVLCGAVSMGNPHCVVQVDDIQTANVEQLGPLLESHERFPERVNAGFMQIINKEHIKLRVYERGAGETQACGSGACAAVAVGIMQGLLNNNVQVDLPGGSLMIEWNGVGHPLYMTGEATHIYDGFITL
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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 Refinement of Haemophilus influenzae diaminopimelic acid epimerase (DapF) at 1.75 A resolution suggests a mechanism for stereocontrol during catalysis.
pubmed doi rcsb
source organism Haemophilus influenzae
molecule tags Isomerase
molecule keywords DIAMINOPIMELATE EPIMERASE
total genus 76
structure length 274
sequence length 274
ec nomenclature ec 5.1.1.7: Diaminopimelate epimerase.
pdb deposition date 2001-12-07

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 1gqzA02
3.10.310.10 Alpha Beta Roll Diaminopimelate Epimerase; Chain A, domain 1 Diaminopimelate Epimerase; Chain A, domain 1 1gqzA01
4JUUA 2AZPA 4Q2HA 4K7GB 3EJXA 3G7KA 4LB0A 3FVEA 4J9XA 5M47A 1SDJA 1YM5A 1U1WA 5IWEA 1BWZA 4JCIA 2GKJA 4JBDA 1TM0A 4JD7A 5HA4A 4DUNA 5H2YA 3EDNA 2GKEA 2H9FA 1QYAA 4Q60A 4K7XA 3EKMA 1GQZA 1XUAA 2OTNA 4J9WA 1S7JA 4K8LA 1U1VA 2Q9HA 4IK0A 4IJZA 2PVZA 1W62A 1T6KA 1QY9A 2PW0A 1XUBA 2Q9JA 1U0KA 1W61A 5H2GA 1U1XA
chains in the Genus database with same CATH superfamily
4PY9A 2ZXRA 4LB0A 2EB0A 2ENXA 1SDJA 3G98A 2GKJA 1WPPA 1QYAA 1GQZA 1S7JA 4K8LA 2PVZA 2ZXPA 1XUBA 1W61A 2AZPA 3ICJA 4J9XA 2LT2A 5M47A 2KPTA 2MPBA 4JCIA 4JBDA 1TM0A 3DEVA 3EDNA 2H9FA 1IR6A 1WPMA 3PTJA 4GL6A 4LS9A 1XUAA 4J9WA 3PVHA 1U1VA 2Q9HA 3WQZA 1W62A 1U0KA 1U1XA 5IWEA 1K20A 4OA3A 2YMAA 4K7GB 3G7KA 3FVEA 2QB6A 4RPAA 1I74A 2KW7A 2ZVFA 4JD7A 3IGHX 5HA4A 2GKEA 4K7XA 1K23A 2OTNA 2ZXOA 4IJZA 3W5WA 1T6KA 5H2GA 4JUUA 4Q2HA 3EJXA 2HAWA 5ANPA 1YM5A 1U1WA 3PW9A 1BWZA 2QB7A 4LG3A 2IW4A 4DUNA 5H2YA 2QB8A 4Q60A 3EKMA 4IK0A 2Q9JA 1QY9A 2PW0A
chains in the Genus database with same CATH topology
4PY9A 2ZXRA 4LB0A 2EB0A 2ENXA 1SDJA 3G98A 2GKJA 1WPPA 1QYAA 1GQZA 1S7JA 4K8LA 2PVZA 2ZXPA 1XUBA 1W61A 2AZPA 3ICJA 4J9XA 2LT2A 5M47A 2KPTA 2MPBA 4JCIA 4JBDA 1TM0A 3DEVA 3EDNA 2H9FA 1IR6A 1WPMA 3PTJA 4GL6A 4LS9A 1XUAA 4J9WA 3PVHA 1U1VA 2Q9HA 3WQZA 1W62A 1U0KA 1U1XA 5IWEA 1K20A 4OA3A 2YMAA 4K7GB 3G7KA 3FVEA 2QB6A 4RPAA 1I74A 2KW7A 2ZVFA 4JD7A 3IGHX 5HA4A 2GKEA 4K7XA 1K23A 2OTNA 2ZXOA 4IJZA 3W5WA 1T6KA 5H2GA 4JUUA 4Q2HA 3EJXA 2HAWA 5ANPA 1YM5A 1U1WA 3PW9A 1BWZA 2QB7A 4LG3A 2IW4A 4DUNA 5H2YA 2QB8A 4Q60A 3EKMA 4IK0A 2Q9JA 1QY9A 2PW0A
chains in the Genus database with same CATH homology


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