1WV4A

X-ray structure of escherichia coli pyridoxine 5'-phosphate oxidase in tetragonal crystal form
Total Genus 33

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
33
sequence length
208
structure length
162
Chain Sequence
AHLRREYTKGGLRRRDLPADPLTLFERWLSQACEAKLADPTAMVVATVDEHGQPYQRIVLLKHYDEKGMVFYTNLGSRKAHQIENNPRVSLLFPWHTLERQVMVIGKAERLSTLEVMKYSFWGGFRVSLEQIEFWQGGEHRLHDRFLYQRENDAWKIDRLAP
2040608010012014016016014012010080604020
051015202530Genus Matrix

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
EMPTYTI1 (12-15)TI2 (23-26)TI3 (24-27)AH1 (31-45)S4 (98-103)TI5 (59-62)AH2 (88-95)S2 (63-75)TIV5 (124-127)S3 (78-84)S5 (111-120)3H1 (106-108)TIV2 (84-87)O1 (103-105)TVIII2 (125-128)TIV4 (123-126)TIV3 (122-125)S1 (52-59)TI6 (75-78)TVIII1 (28-31)TIV1 (47-50)Updating...
connected with : NaN
molecule tags Oxidoreductase
source organism Escherichia coli
publication title Structure of Escherichia coli pyridoxine 5'-phosphate oxidase in a tetragonal crystal form: insights into the mechanistic pathway of the enzyme.
pubmed doi rcsb
molecule keywords Pyridoxamine 5'-phosphate oxidase
total genus 33
structure length 162
sequence length 208
chains with identical sequence B
ec nomenclature ec 1.4.3.5: Pyridoxal 5'-phosphate synthase.
pdb deposition date 2004-12-11

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01243 Putative_PNPOx Pyridoxamine 5'-phosphate oxidase
A PF10590 PNP_phzG_C Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.30.110.10 Mainly Beta Roll Pnp Oxidase; Chain A Electron Transport, Fmn-binding Protein; Chain A 1wv4A00
1WGBA 3CB0A 2HTIA 3IN6A 4R82A 2QEAA 3DMBA 3K86A 3U0IA 1USCA 5BNCA 1NRGA 3R5RA 3ZOFA 3VY2A 2HQ7A 2RDEA 3ZOHA 3SWJA 4HMUA 1WLKA 1VL7A 1EJEA 3ZOEA 1CI0A 4N7RC 4HMSA 3HY8A 2ARZA 3U5WA 3K88A 3U34A 3HMZA 3AMFA 3R5YA 5ESCA 1TY9A 1W3OA 4YWNA 3ZOCA 1G79A 1W9AA 1XXOA 1T9MA 1W3RA 2PTFA 3TGVA 1G78A 3K87A 3R5LA 1WV4A 3AWHA 2A2JA 2X1JA 2I51A 3ZODA 2IMLA 4HX6A 1WLIA 3FGEA 1RZ0A 2QCKA 2R0XA 4HMWA 2ECUA 1I0RA 3DB0A 2D5MA 1DNLA 2FURA 5CHEC 1W3QA 4QVBA 2HTDA 4HMVA 3H96A 4IRAA 3EC6A 5JABA 3VYAA 1W3PA 4XHYA 5CHOA 3KYFA 4L82A 2R6VA 1JNWA 2GJGA 3VY5A 3FKHA 2IABA 2D36A 2OL5A 2VPAA 2HQ9A 2FG9A 2X1KA 4HMXA 2I02A 3A6QA 2Q9KA 3BPKA 3ZOGA 1YOAA 4YBNA 1YLNA 4ZKYA 2HHZA 2D38A 2ECRA 3NFWA 4F07A 2RE7A 2OU5A 1FLMA 2NR4A 3R5PA 1G77A 2IG6A 3BA3A 1RZ1A 2ASFA 2AQ6A 3DNHA 1Y30A 1XHNA 2D37A 3A6RA 3BNKA 3A20A 3RH7A 4HMTA 3PFTA 1AXJA 2E83A 3CP3A 1RFEA 2FHQA 3R5WA 1G76A 2ED4A 3KYGA 3GASA 3B5MA 4Y9IA 3F7EA 4XJ2A 3U35A 3R5ZA 1I0SA 4Z85A 1USFA 3E4VA
chains in the Genus database with same CATH superfamily
4TV4A 1WGBA 3CB0A 2HTIA 3IN6A 4R82A 2QEAA 3DMBA 3K86A 3U0IA 1USCA 5BNCA 1NRGA 3R5RA 3ZOFA 3VY2A 2HQ7A 2RDEA 3ZOHA 3SWJA 4HMUA 1WLKA 1VL7A 1EJEA 2GUJA 3ZOEA 1CI0A 4N7RC 4HMSA 3HY8A 2ARZA 3U5WA 3K88A 3U34A 3HMZA 3AMFA 3R5YA 5ESCA 1TY9A 1W3OA 4YWNA 3ZOCA 1G79A 1W9AA 1XXOA 1T9MA 1W3RA 2PTFA 3TGVA 1G78A 3K87A 3R5LA 1WV4A 2P5ZX 3EAAA 3AWHA 2A2JA 2X1JA 2I51A 3ZODA 2IMLA 4HX6A 1WLIA 3FGEA 1RZ0A 2QCKA 2R0XA 4HMWA 2ECUA 1I0RA 3DB0A 2D5MA 1DNLA 2FURA 5CHEC 1W3QA 4QVBA 2HTDA 4HMVA 3H96A 4IRAA 3EC6A 5JABA 4UHVA 3VYAA 1W3PA 4XHYA 5CHOA 3KYFA 4L82A 2R6VA 1JNWA 2GJGA 3VY5A 3FKHA 2IABA 2D36A 2OL5A 2VPAA 4W64A 2HQ9A 2FG9A 2X1KA 4HMXA 2I02A 3A6QA 2Q9KA 1Y12A 3BPKA 3ZOGA 1YOAA 4YBNA 1YLNA 4ZKYA 2HHZA 2D38A 4HKHA 2ECRA 3NFWA 4F07A 2RE7A 2OU5A 1FLMA 2NR4A 3R5PA 1G77A 2IG6A 3BA3A 1RZ1A 2ASFA 2AQ6A 3DNHA 1Y30A 1XHNA 2D37A 3A6RA 3BNKA 3HE1A 3A20A 3RH7A 4HMTA 3PFTA 4MTKA 1AXJA 2E83A 2K4QA 3CP3A 1RFEA 2FHQA 3R5WA 1G76A 2ED4A 3KYGA 3GASA 3V4HA 3B5MA 4Y9IA 3F7EA 4XJ2A 3U35A 2L1TA 3R5ZA 1I0SA 4Z85A 1USFA 3E4VA
chains in the Genus database with same CATH topology
1WGBA 3CB0A 2HTIA 3IN6A 4R82A 2QEAA 3DMBA 3K86A 3U0IA 1USCA 5BNCA 1NRGA 3R5RA 3ZOFA 3VY2A 2HQ7A 2RDEA 3ZOHA 3SWJA 4HMUA 1WLKA 1VL7A 1EJEA 3ZOEA 1CI0A 4N7RC 4HMSA 3HY8A 2ARZA 3U5WA 3K88A 3U34A 3HMZA 3AMFA 3R5YA 5ESCA 1TY9A 1W3OA 4YWNA 3ZOCA 1G79A 1W9AA 1XXOA 1T9MA 1W3RA 2PTFA 3TGVA 1G78A 3K87A 3R5LA 1WV4A 3AWHA 2A2JA 2X1JA 2I51A 3ZODA 2IMLA 4HX6A 1WLIA 3FGEA 1RZ0A 2QCKA 2R0XA 4HMWA 2ECUA 1I0RA 3DB0A 2D5MA 1DNLA 2FURA 5CHEC 1W3QA 4QVBA 2HTDA 4HMVA 3H96A 4IRAA 3EC6A 5JABA 3VYAA 1W3PA 4XHYA 5CHOA 3KYFA 4L82A 2R6VA 1JNWA 2GJGA 3VY5A 3FKHA 2IABA 2D36A 2OL5A 2VPAA 2HQ9A 2FG9A 2X1KA 4HMXA 2I02A 3A6QA 2Q9KA 3BPKA 3ZOGA 1YOAA 4YBNA 1YLNA 4ZKYA 2HHZA 2D38A 2ECRA 3NFWA 4F07A 2RE7A 2OU5A 1FLMA 2NR4A 3R5PA 1G77A 2IG6A 3BA3A 1RZ1A 2ASFA 2AQ6A 3DNHA 1Y30A 1XHNA 2D37A 3A6RA 3BNKA 3A20A 3RH7A 4HMTA 3PFTA 1AXJA 2E83A 3CP3A 1RFEA 2FHQA 3R5WA 1G76A 2ED4A 3KYGA 3GASA 3B5MA 4Y9IA 3F7EA 4XJ2A 3U35A 3R5ZA 1I0SA 4Z85A 1USFA 3E4VA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1WGB A;  3CB0 A;  2HTI A;  3IN6 A;  4R82 A;  2QEA A;  3DMB A;  3K86 A;  3U0I A;  1USC A;  5BNC A;  1NRG A;  3R5R A;  3ZOF A;  3VY2 A;  2HQ7 A;  2RDE A;  3ZOH A;  3SWJ A;  4HMU A;  1WLK A;  1VL7 A;  1EJE A;  3ZOE A;  1CI0 A;  4N7R C;  4HMS A;  3HY8 A;  2ARZ A;  3U5W A;  3K88 A;  3U34 A;  3HMZ A;  3AMF A;  3R5Y A;  5ESC A;  1TY9 A;  1W3O A;  4YWN A;  3ZOC A;  1G79 A;  1W9A A;  1XXO A;  1T9M A;  1W3R A;  2PTF A;  3TGV A;  1G78 A;  3K87 A;  3R5L A;  1WV4 A;  3AWH A;  2A2J A;  2X1J A;  2I51 A;  3ZOD A;  2IML A;  4HX6 A;  1WLI A;  3FGE A;  1RZ0 A;  2QCK A;  2R0X A;  4HMW A;  2ECU A;  1I0R A;  3DB0 A;  2D5M A;  1DNL A;  2FUR A;  5CHE C;  1W3Q A;  4QVB A;  2HTD A;  4HMV A;  3H96 A;  4IRA A;  3EC6 A;  5JAB A;  3VYA A;  1W3P A;  4XHY A;  5CHO A;  3KYF A;  4L82 A;  2R6V A;  1JNW A;  2GJG A;  3VY5 A;  3FKH A;  2IAB A;  2D36 A;  2OL5 A;  2VPA A;  2HQ9 A;  2FG9 A;  2X1K A;  4HMX A;  2I02 A;  3A6Q A;  2Q9K A;  3BPK A;  3ZOG A;  1YOA A;  4YBN A;  1YLN A;  4ZKY A;  2HHZ A;  2D38 A;  2ECR A;  3NFW A;  4F07 A;  2RE7 A;  2OU5 A;  1FLM A;  2NR4 A;  3R5P A;  1G77 A;  2IG6 A;  3BA3 A;  1RZ1 A;  2ASF A;  2AQ6 A;  3DNH A;  1Y30 A;  1XHN A;  2D37 A;  3A6R A;  3BNK A;  3A20 A;  3RH7 A;  4HMT A;  3PFT A;  1AXJ A;  2E83 A;  3CP3 A;  1RFE A;  2FHQ A;  3R5W A;  1G76 A;  2ED4 A;  3KYG A;  3GAS A;  3B5M A;  4Y9I A;  3F7E A;  4XJ2 A;  3U35 A;  3R5Z A;  1I0S A;  4Z85 A;  1USF A;  3E4V A; 
#chains in the Genus database with same CATH topology
 4TV4 A;  1WGB A;  3CB0 A;  2HTI A;  3IN6 A;  4R82 A;  2QEA A;  3DMB A;  3K86 A;  3U0I A;  1USC A;  5BNC A;  1NRG A;  3R5R A;  3ZOF A;  3VY2 A;  2HQ7 A;  2RDE A;  3ZOH A;  3SWJ A;  4HMU A;  1WLK A;  1VL7 A;  1EJE A;  2GUJ A;  3ZOE A;  1CI0 A;  4N7R C;  4HMS A;  3HY8 A;  2ARZ A;  3U5W A;  3K88 A;  3U34 A;  3HMZ A;  3AMF A;  3R5Y A;  5ESC A;  1TY9 A;  1W3O A;  4YWN A;  3ZOC A;  1G79 A;  1W9A A;  1XXO A;  1T9M A;  1W3R A;  2PTF A;  3TGV A;  1G78 A;  3K87 A;  3R5L A;  1WV4 A;  2P5Z X;  3EAA A;  3AWH A;  2A2J A;  2X1J A;  2I51 A;  3ZOD A;  2IML A;  4HX6 A;  1WLI A;  3FGE A;  1RZ0 A;  2QCK A;  2R0X A;  4HMW A;  2ECU A;  1I0R A;  3DB0 A;  2D5M A;  1DNL A;  2FUR A;  5CHE C;  1W3Q A;  4QVB A;  2HTD A;  4HMV A;  3H96 A;  4IRA A;  3EC6 A;  5JAB A;  4UHV A;  3VYA A;  1W3P A;  4XHY A;  5CHO A;  3KYF A;  4L82 A;  2R6V A;  1JNW A;  2GJG A;  3VY5 A;  3FKH A;  2IAB A;  2D36 A;  2OL5 A;  2VPA A;  4W64 A;  2HQ9 A;  2FG9 A;  2X1K A;  4HMX A;  2I02 A;  3A6Q A;  2Q9K A;  1Y12 A;  3BPK A;  3ZOG A;  1YOA A;  4YBN A;  1YLN A;  4ZKY A;  2HHZ A;  2D38 A;  4HKH A;  2ECR A;  3NFW A;  4F07 A;  2RE7 A;  2OU5 A;  1FLM A;  2NR4 A;  3R5P A;  1G77 A;  2IG6 A;  3BA3 A;  1RZ1 A;  2ASF A;  2AQ6 A;  3DNH A;  1Y30 A;  1XHN A;  2D37 A;  3A6R A;  3BNK A;  3HE1 A;  3A20 A;  3RH7 A;  4HMT A;  3PFT A;  4MTK A;  1AXJ A;  2E83 A;  2K4Q A;  3CP3 A;  1RFE A;  2FHQ A;  3R5W A;  1G76 A;  2ED4 A;  3KYG A;  3GAS A;  3V4H A;  3B5M A;  4Y9I A;  3F7E A;  4XJ2 A;  3U35 A;  2L1T A;  3R5Z A;  1I0S A;  4Z85 A;  1USF A;  3E4V A; 
#chains in the Genus database with same CATH homology
 1WGB A;  3CB0 A;  2HTI A;  3IN6 A;  4R82 A;  2QEA A;  3DMB A;  3K86 A;  3U0I A;  1USC A;  5BNC A;  1NRG A;  3R5R A;  3ZOF A;  3VY2 A;  2HQ7 A;  2RDE A;  3ZOH A;  3SWJ A;  4HMU A;  1WLK A;  1VL7 A;  1EJE A;  3ZOE A;  1CI0 A;  4N7R C;  4HMS A;  3HY8 A;  2ARZ A;  3U5W A;  3K88 A;  3U34 A;  3HMZ A;  3AMF A;  3R5Y A;  5ESC A;  1TY9 A;  1W3O A;  4YWN A;  3ZOC A;  1G79 A;  1W9A A;  1XXO A;  1T9M A;  1W3R A;  2PTF A;  3TGV A;  1G78 A;  3K87 A;  3R5L A;  1WV4 A;  3AWH A;  2A2J A;  2X1J A;  2I51 A;  3ZOD A;  2IML A;  4HX6 A;  1WLI A;  3FGE A;  1RZ0 A;  2QCK A;  2R0X A;  4HMW A;  2ECU A;  1I0R A;  3DB0 A;  2D5M A;  1DNL A;  2FUR A;  5CHE C;  1W3Q A;  4QVB A;  2HTD A;  4HMV A;  3H96 A;  4IRA A;  3EC6 A;  5JAB A;  3VYA A;  1W3P A;  4XHY A;  5CHO A;  3KYF A;  4L82 A;  2R6V A;  1JNW A;  2GJG A;  3VY5 A;  3FKH A;  2IAB A;  2D36 A;  2OL5 A;  2VPA A;  2HQ9 A;  2FG9 A;  2X1K A;  4HMX A;  2I02 A;  3A6Q A;  2Q9K A;  3BPK A;  3ZOG A;  1YOA A;  4YBN A;  1YLN A;  4ZKY A;  2HHZ A;  2D38 A;  2ECR A;  3NFW A;  4F07 A;  2RE7 A;  2OU5 A;  1FLM A;  2NR4 A;  3R5P A;  1G77 A;  2IG6 A;  3BA3 A;  1RZ1 A;  2ASF A;  2AQ6 A;  3DNH A;  1Y30 A;  1XHN A;  2D37 A;  3A6R A;  3BNK A;  3A20 A;  3RH7 A;  4HMT A;  3PFT A;  1AXJ A;  2E83 A;  3CP3 A;  1RFE A;  2FHQ A;  3R5W A;  1G76 A;  2ED4 A;  3KYG A;  3GAS A;  3B5M A;  4Y9I A;  3F7E A;  4XJ2 A;  3U35 A;  3R5Z A;  1I0S A;  4Z85 A;  1USF A;  3E4V A; 
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