2PVZA

Crystal structure of methylaconitate isomerase prpf from shewanella oneidensis
Total Genus 96
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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
96
sequence length
393
structure length
386
Chain Sequence
LFPPQIKVAATYMRGGTSKGVFFRLQDLPEAAQVPGPARDALLLRVIGSPDPYAKQIDGMGGATSSTSKTVILSHSSKANHDVDYLFGQVSIDKPFVDWSGNGNLTAAVGAFAISNGLIDAARIPRNGVCTVRIWQANIGKTIIAHVPITDGAVQETGDFELDGVTFPAAEVQIEFMNPAADCMFPTGNLVDVLEVPGIGRFNATMINAGIPTIFINAEDLGYTGTELQDDINSDNAALAKFETIRAHGALRMGLIKHIDEAASRQHTPKIAFVAPPKSYASSSGKTVAAEDVDLLVRALSMGKLHHAMMGTAAVAIGTAAAIPGTLVNLAAGGGEKEAVRFGHPSGTLRVGAQAVQENGEWTVIKAIMSRSARVLMEGFVRVPKP
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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 The three-dimensional crystal structure of the PrpF protein of Shewanella oneidensis complexed with trans-aconitate: insights into its biological function.
pubmed doi rcsb
source organism Shewanella oneidensis
molecule tags Unknown function
molecule keywords PrpF methylaconitate isomerase
total genus 96
structure length 386
sequence length 393
chains with identical sequence B
ec nomenclature
pdb deposition date 2007-05-10

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF04303 PrpF PrpF protein
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 2pvzA02
3.10.310.10 Alpha Beta Roll Diaminopimelate Epimerase; Chain A, domain 1 Diaminopimelate Epimerase; Chain A, domain 1 2pvzA01
2PVZA 1YM5A 4JD7A 1S7JA 4DUNA 1TM0A 1XUBA 3G7KA 3FVEA 4J9WA 4K7XA 4LB0A 1U1VA 5HA4A 1T6KA 1GQZA 3EDNA 2Q9JA 4K7GB 4Q60A 1QY9A 5H2GA 1XUAA 1QYAA 2OTNA 1U1WA 2GKJA 1W62A 4IJZA 5M47A 4JUUA 4K8LA 1U0KA 5IWEA 1BWZA 2PW0A 3EJXA 4JBDA 2Q9HA 1W61A 4J9XA 1U1XA 4JCIA 1SDJA 3EKMA 4Q2HA 2H9FA 2AZPA 2GKEA 5H2YA 4IK0A
chains in the Genus database with same CATH superfamily
4J9WA 1U1VA 5ANPA 4K7GB 5H2GA 2GKJA 1W62A 1WPPA 4IJZA 1K20A 4JUUA 4K8LA 2ZXRA 5IWEA 1BWZA 1U1XA 1SDJA 3G98A 2H9FA 2MPBA 2ZVFA 4OA3A 5H2YA 4IK0A 3PW9A 1YM5A 2ZXPA 1TM0A 4LB0A 1WPMA 2YMAA 1IR6A 2IW4A 4Q60A 2OTNA 4J9XA 4PY9A 4LS9A 3EKMA 4Q2HA 2ENXA 3WQZA 2AZPA 2QB8A 2PVZA 1S7JA 1XUBA 3IGHX 3FVEA 4K7XA 2QB7A 2QB6A 1T6KA 1GQZA 2KW7A 4RPAA 2LT2A 1U1WA 5M47A 3DEVA 1U0KA 2HAWA 2EB0A 2PW0A 3EJXA 4JBDA 2Q9HA 1W61A 1K23A 2GKEA 2KPTA 3W5WA 4JD7A 4DUNA 3G7KA 3PTJA 3PVHA 5HA4A 4GL6A 3EDNA 2Q9JA 3ICJA 1QY9A 4LG3A 1QYAA 1XUAA 1I74A 4JCIA 2ZXOA
chains in the Genus database with same CATH topology
4J9WA 1U1VA 5ANPA 4K7GB 5H2GA 2GKJA 1W62A 1WPPA 4IJZA 1K20A 4JUUA 4K8LA 2ZXRA 5IWEA 1BWZA 1U1XA 1SDJA 3G98A 2H9FA 2MPBA 2ZVFA 4OA3A 5H2YA 4IK0A 3PW9A 1YM5A 2ZXPA 1TM0A 4LB0A 1WPMA 2YMAA 1IR6A 2IW4A 4Q60A 2OTNA 4J9XA 4PY9A 4LS9A 3EKMA 4Q2HA 2ENXA 3WQZA 2AZPA 2QB8A 2PVZA 1S7JA 1XUBA 3IGHX 3FVEA 4K7XA 2QB7A 2QB6A 1T6KA 1GQZA 2KW7A 4RPAA 2LT2A 1U1WA 5M47A 3DEVA 1U0KA 2HAWA 2EB0A 2PW0A 3EJXA 4JBDA 2Q9HA 1W61A 1K23A 2GKEA 2KPTA 3W5WA 4JD7A 4DUNA 3G7KA 3PTJA 3PVHA 5HA4A 4GL6A 3EDNA 2Q9JA 3ICJA 1QY9A 4LG3A 1QYAA 1XUAA 1I74A 4JCIA 2ZXOA
chains in the Genus database with same CATH homology


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