3RD8 | Genus

Total Genus 181

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	181
sequence length	459
structure length	457
Chain Sequence	EYRIEHDTMGEVRVPKDALWRAQTQRAVENFPISFRGLERTQIRALGLLKAACAQVNKDLGLLDPEKADAIIAAAGEIAEGKHDDQFPIDVFQTGSGTSSNMNTNEVIASIAAANGVTVHPNDHVNMSQSSNDTFPTATHIAATEAAVRHLIPALEVLHASLAAKAKQWRTVVKSGRTHLMDAVPVTLGQEFGGYARQIEAGIERVKATLPRLGELAIGGTAVGTGLNAPEGFGAKVVEVLVNETGLAELRTAVDSFEAQAARDGLVEASGALRTIAVSLTKIANDIRWMGSGPLTGLAEIQLPDLQPGSSIMPGKVNPVLPEAVTQVACQVVGNDAAIAFGGASGAFELNVYIPMMARNLLESFTLLSNVSRLFAERCIDGLVANEERLRELAESSPSIVTPLNSAIGYEEAAKVAKQALAEKKTIRQTVIDRGLIGLSLEELDRRLDVLAMARVK

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

molecule tags	Lyase
source organism	Mycobacterium smegmatis
publication title	Increasing the structural coverage of tuberculosis drug targets. pubmed doi rcsb
molecule keywords	Fumarate hydratase class II
total genus	181
structure length	457
sequence length	459
ec nomenclature	ec 4.2.1.2: Fumarate hydratase.
pdb deposition date	2011-04-01

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00206	Lyase_1	Lyase
A	PF10415	FumaraseC_C	Fumarase C C-terminus

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
1.10.40.30	Mainly Alpha	Orthogonal Bundle	Ribonucleotide Reductase Protein R1; domain 1	Fumarase/aspartase (C-terminal domain)	3rd8A03
1.10.275.10	Mainly Alpha	Orthogonal Bundle	Fumarase C; Chain B, domain 1	Fumarase/aspartase (N-terminal domain)	3rd8A01
1.20.200.10	Mainly Alpha	Up-down Bundle	Fumarase C; Chain A, domain 2	Fumarase/aspartase (Central domain)	3rd8A02

3NO9A 1GK2A 2NYNA 4FFXA 3GZHA 1XWOA 1AUWA 1FUOA 4FLCA 4APBA 2O7FA 1GKJA 4BAAA 1T6JA 1FUQA 2O7BA 2PTQA 2QGAB 1W27A 4CQ5A 3R6VA 1FURA 1TJWA 3BHGA 1FUPA 1I0AA 3KDZA 3CZOA 2O6YA 3RRPA 1U15A 5F91A 4ADLA 1KQ7A 3RD8A 1GK3A 1U16A 3NZ4A 1YFMA 2J91A 1TJUA 1YISA 3OCEA 4V2RA 4HGVA 2O7DA 4C6GA 4NSLA 4EFCA 4C5SA 2OHYA 3R6QA 1YFEA 1DOFA 3E04A 1Q5NA 2VD6A 4V2QA 1TJVA 1K7WA 3TV2A 3KDYA 4C5RA 3C8TA 3QBPA 5HW2A 2QVEA 1RE5A 2RJSA 2PTSA 1HY0A 2NYFA 1DCNA 2PFMA 1K62A 2O78A 3R6YA 1Y2MA 2HVGA 4ADMA 2E9FA 1J3UA 1HY1A 1EB4A 5EYTA 5EYVA 1TJ7A 1B8FA 2O7EA 4APAA 3GTDA 2YIIA 1T6PA 4MX2A 4EEIA 1GKMA 4C5UA 2PTRA 4BABA 1C3CA 1JSWA 5D6BA 1C3UA 2FUSA 3OCFA 1VDKA 4NLEA 3UNVA 2RJRA 2X75A 5F92A
chains in the Genus database with same CATH superfamily

3NO9A 1GK2A 2NYNA 2YV5A 3F4TA 3GZHA 4FFXA 2FELA 1XWOA 1AUWA 1FUOA 4FLCA 3CRVA 4APBA 2O7FA 1GKJA 2VSFA 4BAAA 3F4RA 1T6JA 1FUQA 2O7BA 2JAUA 1Z4KA 2PTQA 2QGAB 1W27A 4CQ5A 3R6VA 1FURA 1TJWA 3BHGA 1Z4JA 4YIKA 1MH9A 2JARA 1FUPA 1I0AA 4YIHA 3KDZA 3CZOA 2O6YA 3RRPA 1U15A 5F91A 4ADLA 2FENA 1KQ7A 1XL7A 3RD8A 1GK3A 1U16A 3NZ4A 1YFMA 2J91A 1XLYA 1TJUA 1YISA 3OCEA 4V2RA 2D28C 4MUMA 2VL7A 4HGVA 2O7DA 4C6GA 4NSLA 1XMCA 3CRW1 3U19A 4EFCA 4C5SA 1Q92A 2OHYA 4IQJM 1U0LA 3R6QA 3E04A 1DOFA 1YFEA 4L57A 1Q5NA 2VD6A 4V2QA 1TJVA 1K7WA 4E88A 3TV2A 3KDYA 4C5RA 3C8TA 3QBPA 5HW2A 2I7DA 2QVEA 2JAOA 1RE5A 4WNLA 2RJSA 2PTSA 1HY0A 1XL8A 2NYFA 2D27A 4NFLA 1Z4LA 5H8WA 1DCNA 2PFMA 4A15A 1K62A 2O78A 3R6YA 1Y2MA 2HVGA 4L6AA 4ADMA 1Z4IA 2E9FA 1J3UA 3F4SA 3BWVA 1HY1A 1EB4A 1T9HA 5EYTA 5EYVA 1TJ7A 4MWOA 1XMDA 1B8FA 2O7EA 4APAA 4L6CA 1IW7D 3GTDA 2YIIA 1T6PA 4MX2A 5M0IA 4EEIA 1GKMA 4C5UA 2PTRA 1Q91A 3U13A 4BABA 2JAWA 1C3CA 5M0JA 1JSWA 1Z4PX 5D6BA 1Z4MA 2RCNA 1C3UA 2FUSA 3OCFA 1VDKA 4NLEA 1Z4QA 3UNVA 3CI0K 2RJRA 2X75A 5F92A
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 3NO9 A;  1GK2 A;  2NYN A;  4FFX A;  3GZH A;  1XWO A;  1AUW A;  1FUO A;  4FLC A;  4APB A;  2O7F A;  1GKJ A;  4BAA A;  1T6J A;  1FUQ A;  2O7B A;  2PTQ A;  2QGA B;  1W27 A;  4CQ5 A;  3R6V A;  1FUR A;  1TJW A;  3BHG A;  1FUP A;  1I0A A;  3KDZ A;  3CZO A;  2O6Y A;  3RRP A;  1U15 A;  5F91 A;  4ADL A;  1KQ7 A;  3RD8 A;  1GK3 A;  1U16 A;  3NZ4 A;  1YFM A;  2J91 A;  1TJU A;  1YIS A;  3OCE A;  4V2R A;  4HGV A;  2O7D A;  4C6G A;  4NSL A;  4EFC A;  4C5S A;  2OHY A;  3R6Q A;  1YFE A;  1DOF A;  3E04 A;  1Q5N A;  2VD6 A;  4V2Q A;  1TJV A;  1K7W A;  3TV2 A;  3KDY A;  4C5R A;  3C8T A;  3QBP A;  5HW2 A;  2QVE A;  1RE5 A;  2RJS A;  2PTS A;  1HY0 A;  2NYF A;  1DCN A;  2PFM A;  1K62 A;  2O78 A;  3R6Y A;  1Y2M A;  2HVG A;  4ADM A;  2E9F A;  1J3U A;  1HY1 A;  1EB4 A;  5EYT A;  5EYV A;  1TJ7 A;  1B8F A;  2O7E A;  4APA A;  3GTD A;  2YII A;  1T6P A;  4MX2 A;  4EEI A;  1GKM A;  4C5U A;  2PTR A;  4BAB A;  1C3C A;  1JSW A;  5D6B A;  1C3U A;  2FUS A;  3OCF A;  1VDK A;  4NLE A;  3UNV A;  2RJR A;  2X75 A;  5F92 A; 
#chains in the Genus database with same CATH topology
 3NO9 A;  1GK2 A;  2NYN A;  2YV5 A;  3F4T A;  3GZH A;  4FFX A;  2FEL A;  1XWO A;  1AUW A;  1FUO A;  4FLC A;  3CRV A;  4APB A;  2O7F A;  1GKJ A;  2VSF A;  4BAA A;  3F4R A;  1T6J A;  1FUQ A;  2O7B A;  2JAU A;  1Z4K A;  2PTQ A;  2QGA B;  1W27 A;  4CQ5 A;  3R6V A;  1FUR A;  1TJW A;  3BHG A;  1Z4J A;  4YIK A;  1MH9 A;  2JAR A;  1FUP A;  1I0A A;  4YIH A;  3KDZ A;  3CZO A;  2O6Y A;  3RRP A;  1U15 A;  5F91 A;  4ADL A;  2FEN A;  1KQ7 A;  1XL7 A;  3RD8 A;  1GK3 A;  1U16 A;  3NZ4 A;  1YFM A;  2J91 A;  1XLY A;  1TJU A;  1YIS A;  3OCE A;  4V2R A;  2D28 C;  4MUM A;  2VL7 A;  4HGV A;  2O7D A;  4C6G A;  4NSL A;  1XMC A;  3CRW 1;  3U19 A;  4EFC A;  4C5S A;  1Q92 A;  2OHY A;  4IQJ M;  1U0L A;  3R6Q A;  3E04 A;  1DOF A;  1YFE A;  4L57 A;  1Q5N A;  2VD6 A;  4V2Q A;  1TJV A;  1K7W A;  4E88 A;  3TV2 A;  3KDY A;  4C5R A;  3C8T A;  3QBP A;  5HW2 A;  2I7D A;  2QVE A;  2JAO A;  1RE5 A;  4WNL A;  2RJS A;  2PTS A;  1HY0 A;  1XL8 A;  2NYF A;  2D27 A;  4NFL A;  1Z4L A;  5H8W A;  1DCN A;  2PFM A;  4A15 A;  1K62 A;  2O78 A;  3R6Y A;  1Y2M A;  2HVG A;  4L6A A;  4ADM A;  1Z4I A;  2E9F A;  1J3U A;  3F4S A;  3BWV A;  1HY1 A;  1EB4 A;  1T9H A;  5EYT A;  5EYV A;  1TJ7 A;  4MWO A;  1XMD A;  1B8F A;  2O7E A;  4APA A;  4L6C A;  1IW7 D;  3GTD A;  2YII A;  1T6P A;  4MX2 A;  5M0I A;  4EEI A;  1GKM A;  4C5U A;  2PTR A;  1Q91 A;  3U13 A;  4BAB A;  2JAW A;  1C3C A;  5M0J A;  1JSW A;  1Z4P X;  5D6B A;  1Z4M A;  2RCN A;  1C3U A;  2FUS A;  3OCF A;  1VDK A;  4NLE A;  1Z4Q A;  3UNV A;  3CI0 K;  2RJR A;  2X75 A;  5F92 A; 
#chains in the Genus database with same CATH homology
 3NO9 A;  1GK2 A;  2NYN A;  4FFX A;  3GZH A;  1XWO A;  1AUW A;  1FUO A;  4FLC A;  4APB A;  2O7F A;  1GKJ A;  4BAA A;  1T6J A;  1FUQ A;  2O7B A;  2PTQ A;  2QGA B;  1W27 A;  4CQ5 A;  3R6V A;  1FUR A;  1TJW A;  3BHG A;  1FUP A;  1I0A A;  3KDZ A;  3CZO A;  2O6Y A;  3RRP A;  1U15 A;  5F91 A;  4ADL A;  1KQ7 A;  3RD8 A;  1GK3 A;  1U16 A;  3NZ4 A;  1YFM A;  2J91 A;  1TJU A;  1YIS A;  3OCE A;  4V2R A;  4HGV A;  2O7D A;  4C6G A;  4NSL A;  4EFC A;  4C5S A;  2OHY A;  3R6Q A;  1YFE A;  1DOF A;  3E04 A;  1Q5N A;  2VD6 A;  4V2Q A;  1TJV A;  1K7W A;  3TV2 A;  3KDY A;  4C5R A;  3C8T A;  3QBP A;  5HW2 A;  2QVE A;  1RE5 A;  2RJS A;  2PTS A;  1HY0 A;  2NYF A;  1DCN A;  2PFM A;  1K62 A;  2O78 A;  3R6Y A;  1Y2M A;  2HVG A;  4ADM A;  2E9F A;  1J3U A;  1HY1 A;  1EB4 A;  5EYT A;  5EYV A;  1TJ7 A;  1B8F A;  2O7E A;  4APA A;  3GTD A;  2YII A;  1T6P A;  4MX2 A;  4EEI A;  1GKM A;  4C5U A;  2PTR A;  4BAB A;  1C3C A;  1JSW A;  5D6B A;  1C3U A;  2FUS A;  3OCF A;  1VDK A;  4NLE A;  3UNV A;  2RJR A;  2X75 A;  5F92 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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3RD8A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations