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


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