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


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