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
1G78A 2AQ6A 4N7RC 3VY5A 2D38A 3RH7A 2FHQA 3BPKA 3KYGA 2HTIA 4Y9IA 3R5RA 3EC6A 3R5PA 3ZOEA 3CB0A 1DNLA 3A20A 3SWJA 2A2JA 4HMXA 2D36A 1USCA 1Y30A 2IMLA 3B5MA 3DMBA 4YBNA 2ARZA 3ZOHA 1W3QA 4HMWA 1WV4A 5JABA 1W3PA 2D5MA 3DNHA 4HMTA 5CHOA 2D37A 3FGEA 4HMUA 2ECUA 2R6VA 1USFA 3R5ZA 3HY8A 2E83A 2IABA 3K88A 1CI0A 2I02A 3ZOCA 3H96A 3PFTA 2FURA 4HX6A 1AXJA 2HHZA 3K86A 4L82A 4F07A 1RZ1A 2QCKA 2QEAA 1YLNA 1FLMA 2ED4A 3K87A 4IRAA 3ZOGA 1JNWA 4XJ2A 2X1JA 3NFWA 2Q9KA 2ECRA 3AMFA 3F7EA 3AWHA 3ZOFA 1T9MA 2FG9A 4QVBA 3IN6A 2ASFA 1RZ0A 3R5YA 5BNCA 2I51A 4XHYA 2PTFA 3U5WA 3BNKA 3A6QA 3E4VA 1XHNA 3FKHA 3KYFA 1TY9A 4Z85A 1WGBA 3A6RA 4YWNA 2VPAA 1NRGA 1G76A 1G79A 4HMSA 4ZKYA 1VL7A 2OL5A 3ZODA 2GJGA 1EJEA 1YOAA 2HQ7A 3DB0A 2OU5A 3R5LA 3TGVA 1I0SA 1G77A 1WLKA 1W3RA 1W3OA 1XXOA 4R82A 3BA3A 1W9AA 2R0XA 2HTDA 3GASA 2HQ9A 3CP3A 5ESCA 2NR4A 1WLIA 1I0RA 2X1KA 3VY2A 3VYAA 1RFEA 2RE7A 4HMVA 3U35A 5CHEC 3U0IA 2RDEA 3U34A 2IG6A 3HMZA 3R5WA
chains in the Genus database with same CATH superfamily
1G78A 2AQ6A 4N7RC 3VY5A 2D38A 3RH7A 2FHQA 4W64A 3BPKA 3KYGA 2HTIA 4Y9IA 3R5RA 3EC6A 3R5PA 3ZOEA 3CB0A 1DNLA 3A20A 3SWJA 2A2JA 4HMXA 2D36A 1USCA 1Y30A 2IMLA 3B5MA 3DMBA 4YBNA 2ARZA 3ZOHA 1W3QA 4HMWA 1WV4A 5JABA 1W3PA 2D5MA 3DNHA 4HMTA 5CHOA 2D37A 3FGEA 4HMUA 2ECUA 2R6VA 1USFA 3R5ZA 3HY8A 2P5ZX 2E83A 2K4QA 2IABA 2GUJA 3K88A 1CI0A 2I02A 3ZOCA 3H96A 3PFTA 2FURA 4HX6A 1AXJA 2HHZA 3K86A 4L82A 4F07A 1RZ1A 2QCKA 2QEAA 1YLNA 1FLMA 2ED4A 3K87A 4IRAA 3ZOGA 3EAAA 4HKHA 1JNWA 4XJ2A 2X1JA 3NFWA 3HE1A 2Q9KA 2L1TA 2ECRA 3AMFA 4TV4A 3F7EA 3AWHA 3ZOFA 1T9MA 2FG9A 4QVBA 3IN6A 2ASFA 1RZ0A 3R5YA 5BNCA 2I51A 4XHYA 2PTFA 3U5WA 3BNKA 3A6QA 3E4VA 1XHNA 3FKHA 3KYFA 1TY9A 4Z85A 1WGBA 3A6RA 4YWNA 2VPAA 1NRGA 1G76A 1G79A 4HMSA 4ZKYA 1VL7A 2OL5A 3ZODA 2GJGA 1EJEA 1YOAA 2HQ7A 3DB0A 1Y12A 2OU5A 3R5LA 3TGVA 1I0SA 1G77A 1WLKA 4MTKA 4UHVA 1W3RA 1W3OA 1XXOA 4R82A 3BA3A 1W9AA 2R0XA 2HTDA 3GASA 2HQ9A 3CP3A 5ESCA 2NR4A 1WLIA 1I0RA 2X1KA 3VY2A 3VYAA 3V4HA 1RFEA 2RE7A 4HMVA 3U35A 5CHEC 3U0IA 2RDEA 3U34A 2IG6A 3HMZA 3R5WA
chains in the Genus database with same CATH topology
1G78A 2AQ6A 4N7RC 3VY5A 2D38A 3RH7A 2FHQA 3BPKA 3KYGA 2HTIA 4Y9IA 3R5RA 3EC6A 3R5PA 3ZOEA 3CB0A 1DNLA 3A20A 3SWJA 2A2JA 4HMXA 2D36A 1USCA 1Y30A 2IMLA 3B5MA 3DMBA 4YBNA 2ARZA 3ZOHA 1W3QA 4HMWA 1WV4A 5JABA 1W3PA 2D5MA 3DNHA 4HMTA 5CHOA 2D37A 3FGEA 4HMUA 2ECUA 2R6VA 1USFA 3R5ZA 3HY8A 2E83A 2IABA 3K88A 1CI0A 2I02A 3ZOCA 3H96A 3PFTA 2FURA 4HX6A 1AXJA 2HHZA 3K86A 4L82A 4F07A 1RZ1A 2QCKA 2QEAA 1YLNA 1FLMA 2ED4A 3K87A 4IRAA 3ZOGA 1JNWA 4XJ2A 2X1JA 3NFWA 2Q9KA 2ECRA 3AMFA 3F7EA 3AWHA 3ZOFA 1T9MA 2FG9A 4QVBA 3IN6A 2ASFA 1RZ0A 3R5YA 5BNCA 2I51A 4XHYA 2PTFA 3U5WA 3BNKA 3A6QA 3E4VA 1XHNA 3FKHA 3KYFA 1TY9A 4Z85A 1WGBA 3A6RA 4YWNA 2VPAA 1NRGA 1G76A 1G79A 4HMSA 4ZKYA 1VL7A 2OL5A 3ZODA 2GJGA 1EJEA 1YOAA 2HQ7A 3DB0A 2OU5A 3R5LA 3TGVA 1I0SA 1G77A 1WLKA 1W3RA 1W3OA 1XXOA 4R82A 3BA3A 1W9AA 2R0XA 2HTDA 3GASA 2HQ9A 3CP3A 5ESCA 2NR4A 1WLIA 1I0RA 2X1KA 3VY2A 3VYAA 1RFEA 2RE7A 4HMVA 3U35A 5CHEC 3U0IA 2RDEA 3U34A 2IG6A 3HMZA 3R5WA
chains in the Genus database with same CATH homology


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