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


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...

Application loaded.