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


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