5M47A

Crystal strcuture of dapf from corynebacterium glutamicum in complex with d,l-diaminopimelate
Total Genus 73
Loading diagram...

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
73
sequence length
280
structure length
280
Chain Sequence
MNLTIPFAKGHATENDFIIIPDEDARLDLTPEMVVTLCDRRAGIGADGILRVVKAADVEGSTVDPSLWFMDYRNADGSLAEMCGNGVRLFAHWLYSRGLVDNTSFDIGTRAGVRHVDILQADQHSAQVRVDMGIPDVTGLSTCDINGQVFAGLGVDMGNPHLACVVPGLSASALADMELRAPTFDQEFFPHGVNVEIVTELEDDAVSMRVWERGVGETRSCGTGTVAAACAALADAGLGEGTVKVCVPGGEVEVQIFDDGSTLTGPSAIIALGEVQIHHH
Loading diagram...

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
{{ tooltip.sname }} connected with {{ tooltip.tname }} : {{qFormat(tooltip.svalue) }}
publication title Structural basis for redox sensitivity in Corynebacterium glutamicum diaminopimelate epimerase: an enzyme involved in l-lysine biosynthesis.
pubmed doi rcsb
source organism Corynebacterium glutamicum (strain atcc 13032 / dsm 20300 / jcm 1318 / lmg 3730
molecule tags Isomerase
molecule keywords Diaminopimelate epimerase
total genus 73
structure length 280
sequence length 280
ec nomenclature ec 5.1.1.7: Diaminopimelate epimerase.
pdb deposition date 2016-10-18

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 5m47A01
3.10.310.10 Alpha Beta Roll Diaminopimelate Epimerase; Chain A, domain 1 Diaminopimelate Epimerase; Chain A, domain 1 5m47A02
2PW0A 1XUAA 1SDJA 2PVZA 5M47A 2OTNA 4K7XA 4IK0A 1YM5A 4J9XA 5IWEA 5H2YA 1U1XA 1BWZA 1XUBA 3EDNA 4J9WA 5H2GA 2GKJA 5HA4A 4JUUA 2H9FA 1U1VA 1QYAA 2Q9JA 1U0KA 1S7JA 1U1WA 1GQZA 3EJXA 4K8LA 2Q9HA 4JBDA 4Q2HA 3G7KA 1TM0A 1QY9A 4Q60A 1W62A 4JCIA 4JD7A 1W61A 4K7GB 4DUNA 1T6KA 3FVEA 4LB0A 3EKMA 2AZPA 2GKEA 4IJZA
chains in the Genus database with same CATH superfamily
2PW0A 1SDJA 4GL6A 5IWEA 5H2YA 3EDNA 4JUUA 1WPMA 1U1VA 4RPAA 2HAWA 1K23A 1QY9A 4K7GB 4DUNA 1T6KA 4PY9A 3EKMA 4J9XA 1GQZA 2QB7A 1XUAA 2ZXOA 2QB8A 4J9WA 2GKJA 2EB0A 2H9FA 2ZXRA 1S7JA 4JBDA 3W5WA 4Q2HA 4OA3A 3G7KA 3IGHX 1I74A 2ZXPA 4JCIA 2YMAA 2AZPA 3G98A 2GKEA 2ENXA 4IJZA 2LT2A 5M47A 3DEVA 1K20A 1WPPA 1U1XA 1BWZA 1XUBA 5ANPA 2Q9JA 1U0KA 3ICJA 3EJXA 4K8LA 2Q9HA 2ZVFA 1TM0A 2MPBA 4JD7A 1W61A 1IR6A 4LB0A 4Q60A 2KW7A 2PVZA 2IW4A 2OTNA 4K7XA 4IK0A 1YM5A 2QB6A 3PVHA 3PW9A 4LG3A 5H2GA 3WQZA 5HA4A 1QYAA 1U1WA 3PTJA 2KPTA 4LS9A 1W62A 3FVEA
chains in the Genus database with same CATH topology
2PW0A 1SDJA 4GL6A 5IWEA 5H2YA 3EDNA 4JUUA 1WPMA 1U1VA 4RPAA 2HAWA 1K23A 1QY9A 4K7GB 4DUNA 1T6KA 4PY9A 3EKMA 4J9XA 1GQZA 2QB7A 1XUAA 2ZXOA 2QB8A 4J9WA 2GKJA 2EB0A 2H9FA 2ZXRA 1S7JA 4JBDA 3W5WA 4Q2HA 4OA3A 3G7KA 3IGHX 1I74A 2ZXPA 4JCIA 2YMAA 2AZPA 3G98A 2GKEA 2ENXA 4IJZA 2LT2A 5M47A 3DEVA 1K20A 1WPPA 1U1XA 1BWZA 1XUBA 5ANPA 2Q9JA 1U0KA 3ICJA 3EJXA 4K8LA 2Q9HA 2ZVFA 1TM0A 2MPBA 4JD7A 1W61A 1IR6A 4LB0A 4Q60A 2KW7A 2PVZA 2IW4A 2OTNA 4K7XA 4IK0A 1YM5A 2QB6A 3PVHA 3PW9A 4LG3A 5H2GA 3WQZA 5HA4A 1QYAA 1U1WA 3PTJA 2KPTA 4LS9A 1W62A 3FVEA
chains in the Genus database with same CATH homology


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...