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


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