4JD7A

Crystal structure of pput_1285, a putative hydroxyproline epimerase from pseudomonas putida f1 (target efi-506500), open form, space group p212121, bound sulfate
Total Genus 79
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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
79
sequence length
314
structure length
314
Chain Sequence
NLYFQSMKQIHVIDSHTGGEPTRLVMKGFPQLHGRSMAEQRDELRELHDRWRRACLLEPRGNDVLVGALYCPPVSADATCGVIFFNNAGYLNMCGHGTIGLVASLQHLGLIAPGVHKIDTPVGQVSATLHEDGAITVANVPSYRYRQHVAVNVPGHGVVHGDIAWGGNWFFLVAEHGQRIELDNREVLTEYTWAMLKALEAQGITGENGAPIDHVELFADDPNADSRNFVMCPGKAYDRSPCGTGTSAKLACLAADGTLAEGQTWVQASITGSQFHGRYERDGERIRPFITGRAHMTADSTLLIDEQDPFAWGI
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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 tags Isomerase
molecule keywords Proline racemase
publication title Crystal structure of pput_1285, a putative hydroxyproline epimerase from Pseudomonas putida f1 (target EFI-506500), open form, space group P212121, bound sulfate
rcsb
source organism Pseudomonas putida
total genus 79
structure length 314
sequence length 314
chains with identical sequence D
ec nomenclature ec 5.1.1.8: 4-hydroxyproline epimerase.
pdb deposition date 2013-02-24

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF05544 Pro_racemase Proline racemase
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 4jd7A02
3.10.310.10 Alpha Beta Roll Diaminopimelate Epimerase; Chain A, domain 1 Diaminopimelate Epimerase; Chain A, domain 1 4jd7A01
4IJZA 1U1XA 4IK0A 4Q2HA 2AZPA 2GKJA 2Q9HA 1BWZA 1W62A 4LB0A 4J9XA 2H9FA 5IWEA 5H2YA 1S7JA 3EKMA 1U1WA 1TM0A 1QY9A 1W61A 2PW0A 2PVZA 1QYAA 1T6KA 4K7GB 1XUAA 4JBDA 4Q60A 5H2GA 1GQZA 5HA4A 1U1VA 1YM5A 2OTNA 4JUUA 5M47A 1SDJA 1XUBA 3G7KA 4K8LA 3EDNA 1U0KA 3EJXA 3FVEA 4JD7A 2Q9JA 4DUNA 4J9WA 4JCIA 4K7XA 2GKEA
chains in the Genus database with same CATH superfamily
1U1XA 1I74A 4IK0A 2AZPA 2ZXOA 2Q9HA 1W62A 3W5WA 4J9XA 2H9FA 5ANPA 5IWEA 5H2YA 1S7JA 1QYAA 4Q60A 4JBDA 4OA3A 1XUBA 2KPTA 3PW9A 3EDNA 1U0KA 2ENXA 3PVHA 2ZVFA 2KW7A 2YMAA 2GKEA 4IJZA 4PY9A 4Q2HA 2QB8A 1BWZA 2MPBA 1K20A 4LB0A 2EB0A 1TM0A 3ICJA 4RPAA 5HA4A 1U1VA 2OTNA 4LG3A 3EJXA 3FVEA 2Q9JA 2LT2A 2IW4A 2QB7A 3DEVA 1U1WA 1QY9A 1T6KA 4K7GB 2QB6A 4GL6A 5H2GA 4JUUA 1WPMA 1YM5A 5M47A 1IR6A 3G7KA 4K8LA 4LS9A 4DUNA 4JCIA 3WQZA 1WPPA 2GKJA 3EKMA 1K23A 2PW0A 1W61A 2PVZA 2HAWA 1XUAA 1GQZA 1SDJA 3G98A 2ZXRA 3IGHX 4JD7A 4J9WA 4K7XA 2ZXPA 3PTJA
chains in the Genus database with same CATH topology
1U1XA 1I74A 4IK0A 2AZPA 2ZXOA 2Q9HA 1W62A 3W5WA 4J9XA 2H9FA 5ANPA 5IWEA 5H2YA 1S7JA 1QYAA 4Q60A 4JBDA 4OA3A 1XUBA 2KPTA 3PW9A 3EDNA 1U0KA 2ENXA 3PVHA 2ZVFA 2KW7A 2YMAA 2GKEA 4IJZA 4PY9A 4Q2HA 2QB8A 1BWZA 2MPBA 1K20A 4LB0A 2EB0A 1TM0A 3ICJA 4RPAA 5HA4A 1U1VA 2OTNA 4LG3A 3EJXA 3FVEA 2Q9JA 2LT2A 2IW4A 2QB7A 3DEVA 1U1WA 1QY9A 1T6KA 4K7GB 2QB6A 4GL6A 5H2GA 4JUUA 1WPMA 1YM5A 5M47A 1IR6A 3G7KA 4K8LA 4LS9A 4DUNA 4JCIA 3WQZA 1WPPA 2GKJA 3EKMA 1K23A 2PW0A 1W61A 2PVZA 2HAWA 1XUAA 1GQZA 1SDJA 3G98A 2ZXRA 3IGHX 4JD7A 4J9WA 4K7XA 2ZXPA 3PTJA
chains in the Genus database with same CATH homology


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