1DNL | Genus

Total Genus 44

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	44
sequence length	199
structure length	199
Chain Sequence	GGLRRRDLPADPLTLFERWLSQACEAKLADPTAMVVATVDEHGQPYQRIVLLKHYDEKGMVFYTNLGSRKAHQIENNPRVSLLFPWHTLERQVMVIGKAERLSTLEVMKYFHSRPRDSQIGAWVSKQSSRISARGILESKFLELKQKFQQGEVPLPSFWGGFRVSLEQIEFWQGGEHRLHDRFLYQRENDAWKIDRLAP

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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

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

publication title	X-ray structure of Escherichia coli pyridoxine 5'-phosphate oxidase complexed with FMN at 1.8 A resolution. pubmed doi rcsb
molecule keywords	PYRIDOXINE 5'-PHOSPHATE OXIDASE
molecule tags	Oxidoreductase
source organism	Escherichia coli k12
total genus	44
structure length	199
sequence length	199
ec nomenclature	ec 1.4.3.5: Pyridoxal 5'-phosphate synthase.
pdb deposition date	1999-12-16

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	Class	Architecture	Topology	Homology	Domain
2.30.110.10	Mainly Beta	Roll	Pnp Oxidase; Chain A	Electron Transport, Fmn-binding Protein; Chain A	1dnlA00

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

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

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

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similar chains in the Genus database (?% sequence similarity)

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similar chains in the pdb database (?% sequence similarity)

#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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1DNLA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations