3DB0A

Crystal structure of putative pyridoxamine 5'-phosphate oxidase (np_472219.1) from listeria innocua at 2.00 a resolution
Total Genus 20

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
20
sequence length
126
structure length
116
Chain Sequence
MENELEDKILAILEQHQVGVLTSVQGDFPHARYMTFLHDGLTLYTPSPKTEEVRRNPHVCVLIGYDSPGSAFLEINGLASLEEDESIKERIWENISKDWFQFVVIKIVPEQIRILN

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
AH1 (2-15)EMPTYS5 (62-67)S1 (19-25)TIV1 (24-27)S3 (37-39)TIV2 (38-41)TI1 (52-55)S6 (76-86)S7 (113-125)AH2 (89-99)S2 (28-32)S4 (42-47)TI3 (100-103)TI2 (71-74)Updating...
connected with : NaN
publication title Crystal structure of Putative Pyridoxamine 5'-phosphate oxidase (NP_472219.1) from LISTERIA INNOCUA at 2.00 A resolution
rcsb
molecule keywords Lin2891 protein
molecule tags Oxidoreductase
source organism Listeria innocua
total genus 20
structure length 116
sequence length 126
chains with identical sequence B
ec nomenclature
pdb deposition date 2008-05-30
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 3db0A00
2IABA 3H96A 4HMWA 2NR4A 4HMSA 2IG6A 3BA3A 3BPKA 3CP3A 3K86A 1WGBA 1NRGA 4Y9IA 3E4VA 3SWJA 1YLNA 1USFA 4YWNA 3ZOGA 3U35A 3A20A 5JABA 2GJGA 3CB0A 2OU5A 2D37A 3VYAA 1G77A 1W3OA 3AWHA 3K88A 2ECRA 2PTFA 2D5MA 4HMVA 4HMXA 3DB0A 2X1JA 2QCKA 3HMZA 3F7EA 3RH7A 5BNCA 3VY5A 3K87A 4XHYA 3EC6A 1T9MA 2OL5A 2Q9KA 2D38A 1Y30A 1YOAA 1JNWA 3DNHA 3R5WA 4HMTA 4ZKYA 2HTIA 3KYFA 2ECUA 2AQ6A 3ZODA 3R5ZA 4HMUA 4Z85A 1WLIA 3R5LA 1W3QA 3U34A 1W3PA 1CI0A 4IRAA 2R0XA 2VPAA 3PFTA 4R82A 3IN6A 5CHOA 1G76A 2I02A 2RE7A 2FG9A 3NFWA 1WLKA 2A2JA 1RZ1A 5CHEC 1DNLA 2RDEA 3ZOHA 4YBNA 1AXJA 3BNKA 1XHNA 1TY9A 1G78A 2D36A 3AMFA 3DMBA 3FKHA 3FGEA 1RFEA 2R6VA 4N7RC 3U5WA 4L82A 2ASFA 4F07A 5ESCA 1WV4A 1USCA 2X1KA 2HHZA 3A6QA 3KYGA 3U0IA 1RZ0A 2ED4A 1I0SA 3B5MA 3R5RA 2HQ9A 2FURA 3ZOEA 3VY2A 2E83A 4HX6A 3ZOFA 3ZOCA 1G79A 1FLMA 4QVBA 2HQ7A 2I51A 1XXOA 1I0RA 1W9AA 4XJ2A 3A6RA 2ARZA 2IMLA 3HY8A 1VL7A 3R5PA 3R5YA 1W3RA 3TGVA 2FHQA 2HTDA 3GASA 2QEAA 1EJEA
chains in the Genus database with same CATH superfamily
3EAAA 2IABA 4UHVA 3H96A 4HMWA 2NR4A 4HMSA 2IG6A 3BA3A 3BPKA 3CP3A 3K86A 1WGBA 1NRGA 4Y9IA 1Y12A 3E4VA 3SWJA 1YLNA 1USFA 4YWNA 3ZOGA 3U35A 3A20A 5JABA 2GJGA 3CB0A 2K4QA 2OU5A 2D37A 3VYAA 1G77A 1W3OA 3AWHA 3K88A 4TV4A 2ECRA 2PTFA 2D5MA 4HMVA 4HMXA 3DB0A 2X1JA 2QCKA 3HMZA 3F7EA 3RH7A 5BNCA 3VY5A 3K87A 4XHYA 3EC6A 1T9MA 2OL5A 2Q9KA 2D38A 1Y30A 2P5ZX 1YOAA 1JNWA 3DNHA 3R5WA 4W64A 4HMTA 4ZKYA 2HTIA 3KYFA 4HKHA 2ECUA 2AQ6A 3ZODA 3R5ZA 4HMUA 4Z85A 2L1TA 1WLIA 3R5LA 1W3QA 3U34A 1W3PA 1CI0A 4IRAA 2R0XA 2VPAA 3PFTA 4R82A 3IN6A 5CHOA 1G76A 2I02A 2RE7A 2FG9A 3NFWA 1WLKA 2A2JA 1RZ1A 5CHEC 1DNLA 2RDEA 3ZOHA 4YBNA 1AXJA 3BNKA 1XHNA 1TY9A 1G78A 2D36A 3AMFA 3DMBA 3FKHA 3FGEA 1RFEA 2R6VA 4N7RC 3U5WA 4L82A 2ASFA 4F07A 5ESCA 1WV4A 1USCA 2X1KA 2HHZA 3A6QA 3KYGA 3U0IA 3V4HA 1RZ0A 2ED4A 1I0SA 3B5MA 3R5RA 2HQ9A 2FURA 3ZOEA 3VY2A 2E83A 4HX6A 3ZOFA 3ZOCA 1G79A 1FLMA 4QVBA 2HQ7A 2I51A 1XXOA 1I0RA 1W9AA 2GUJA 4XJ2A 3A6RA 4MTKA 2ARZA 2IMLA 3HY8A 1VL7A 3HE1A 3R5PA 3R5YA 1W3RA 3TGVA 2FHQA 2HTDA 3GASA 2QEAA 1EJEA
chains in the Genus database with same CATH topology
2IABA 3H96A 4HMWA 2NR4A 4HMSA 2IG6A 3BA3A 3BPKA 3CP3A 3K86A 1WGBA 1NRGA 4Y9IA 3E4VA 3SWJA 1YLNA 1USFA 4YWNA 3ZOGA 3U35A 3A20A 5JABA 2GJGA 3CB0A 2OU5A 2D37A 3VYAA 1G77A 1W3OA 3AWHA 3K88A 2ECRA 2PTFA 2D5MA 4HMVA 4HMXA 3DB0A 2X1JA 2QCKA 3HMZA 3F7EA 3RH7A 5BNCA 3VY5A 3K87A 4XHYA 3EC6A 1T9MA 2OL5A 2Q9KA 2D38A 1Y30A 1YOAA 1JNWA 3DNHA 3R5WA 4HMTA 4ZKYA 2HTIA 3KYFA 2ECUA 2AQ6A 3ZODA 3R5ZA 4HMUA 4Z85A 1WLIA 3R5LA 1W3QA 3U34A 1W3PA 1CI0A 4IRAA 2R0XA 2VPAA 3PFTA 4R82A 3IN6A 5CHOA 1G76A 2I02A 2RE7A 2FG9A 3NFWA 1WLKA 2A2JA 1RZ1A 5CHEC 1DNLA 2RDEA 3ZOHA 4YBNA 1AXJA 3BNKA 1XHNA 1TY9A 1G78A 2D36A 3AMFA 3DMBA 3FKHA 3FGEA 1RFEA 2R6VA 4N7RC 3U5WA 4L82A 2ASFA 4F07A 5ESCA 1WV4A 1USCA 2X1KA 2HHZA 3A6QA 3KYGA 3U0IA 1RZ0A 2ED4A 1I0SA 3B5MA 3R5RA 2HQ9A 2FURA 3ZOEA 3VY2A 2E83A 4HX6A 3ZOFA 3ZOCA 1G79A 1FLMA 4QVBA 2HQ7A 2I51A 1XXOA 1I0RA 1W9AA 4XJ2A 3A6RA 2ARZA 2IMLA 3HY8A 1VL7A 3R5PA 3R5YA 1W3RA 3TGVA 2FHQA 2HTDA 3GASA 2QEAA 1EJEA
chains in the Genus database with same CATH homology


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