3FVEA

Crystal structure of diaminopimelate epimerase mycobacterium tuberculosis dapf
Total Genus 69
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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
69
sequence length
290
structure length
283
Chain Sequence
HMIFAKGHGTQNDFVLLPDVDAELVLTAARVAALCDRRKGLGADGVLRVTTAGAAQAVGVLDSLPEGVRVTDWYMDYRNADGSAAQMCGNGVRVFAHYLRASGLEVRDEFVVGSLAGPRPVTCHHVEAAYADVSVDMGKANRLGAGEAVFHGLAVDVGNPHLACVDSQLTVDGLAALDVGVSFDGAQFPDGVNVEVLTAPVDGAVWMRVHERGVGETRSCGTGTVAAAVAALAAVGSPTGTLTVHVPGGEVVVTVTDATSFLRGPSVLVARGDLADDWWNAMG
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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 Structure of the diaminopimelate epimerase DapF from Mycobacterium tuberculosis
pubmed doi rcsb
source organism Mycobacterium tuberculosis
molecule tags Isomerase
molecule keywords Diaminopimelate epimerase
total genus 69
structure length 283
sequence length 290
ec nomenclature ec 5.1.1.7: Diaminopimelate epimerase.
pdb deposition date 2009-01-15

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 3fveA01
3.10.310.10 Alpha Beta Roll Diaminopimelate Epimerase; Chain A, domain 1 Diaminopimelate Epimerase; Chain A, domain 1 3fveA02
1GQZA 3EDNA 4LB0A 1S7JA 2OTNA 5H2YA 4JUUA 5H2GA 1U1VA 4JCIA 4IK0A 4DUNA 2PVZA 1W61A 4K7GB 5IWEA 5M47A 1BWZA 1U1XA 4K7XA 4Q60A 2H9FA 1QYAA 1U1WA 3EKMA 2Q9JA 4Q2HA 1TM0A 2GKJA 4J9WA 2Q9HA 5HA4A 4IJZA 1W62A 1QY9A 1YM5A 2PW0A 3G7KA 1T6KA 1XUBA 4K8LA 3EJXA 4JD7A 1SDJA 1XUAA 2GKEA 4JBDA 1U0KA 4J9XA 2AZPA 3FVEA
chains in the Genus database with same CATH superfamily
1GQZA 2ZXOA 2QB6A 4LB0A 5H2YA 5H2GA 4JUUA 2ZVFA 1K23A 2PVZA 4K7GB 5IWEA 1BWZA 1U1WA 3EKMA 2Q9JA 4Q2HA 5ANPA 2GKJA 1YM5A 3G7KA 4LG3A 4K8LA 1SDJA 1XUAA 1IR6A 4JD7A 2AZPA 3FVEA 2QB8A 3EDNA 2OTNA 3IGHX 2KPTA 4JCIA 1WPMA 3G98A 2ZXPA 1U1XA 2H9FA 1QYAA 1K20A 1TM0A 3PTJA 4J9WA 2Q9HA 4GL6A 4IJZA 2PW0A 1I74A 3WQZA 2MPBA 1S7JA 2ZXRA 4DUNA 2ENXA 4RPAA 5M47A 4Q60A 3PW9A 2LT2A 5HA4A 3PVHA 2QB7A 3W5WA 1XUBA 2IW4A 3ICJA 4PY9A 3EJXA 4OA3A 2GKEA 4J9XA 2KW7A 2YMAA 4LS9A 1U1VA 4IK0A 1W61A 1WPPA 4K7XA 2EB0A 1W62A 3DEVA 1T6KA 2HAWA 4JBDA 1U0KA 1QY9A
chains in the Genus database with same CATH topology
1GQZA 2ZXOA 2QB6A 4LB0A 5H2YA 5H2GA 4JUUA 2ZVFA 1K23A 2PVZA 4K7GB 5IWEA 1BWZA 1U1WA 3EKMA 2Q9JA 4Q2HA 5ANPA 2GKJA 1YM5A 3G7KA 4LG3A 4K8LA 1SDJA 1XUAA 1IR6A 4JD7A 2AZPA 3FVEA 2QB8A 3EDNA 2OTNA 3IGHX 2KPTA 4JCIA 1WPMA 3G98A 2ZXPA 1U1XA 2H9FA 1QYAA 1K20A 1TM0A 3PTJA 4J9WA 2Q9HA 4GL6A 4IJZA 2PW0A 1I74A 3WQZA 2MPBA 1S7JA 2ZXRA 4DUNA 2ENXA 4RPAA 5M47A 4Q60A 3PW9A 2LT2A 5HA4A 3PVHA 2QB7A 3W5WA 1XUBA 2IW4A 3ICJA 4PY9A 3EJXA 4OA3A 2GKEA 4J9XA 2KW7A 2YMAA 4LS9A 1U1VA 4IK0A 1W61A 1WPPA 4K7XA 2EB0A 1W62A 3DEVA 1T6KA 2HAWA 4JBDA 1U0KA 1QY9A
chains in the Genus database with same CATH homology


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