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

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

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

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

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