1GKM | Genus

Total Genus 202

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	202
sequence length	507
structure length	506
Chain Sequence	TELTLKPGTLTLAQLRAIHAAPVRLQLDASAAPAIDASVACVEQIIAEDRTAYGINTGFGLLASTRIASHDLENLQRSLVLSHAAGIGAPLDDDLVRLIMVLKINSLSRGFSGIRRKVIDALIALVNAEVYPHIPLKGSVGDLAPLAHMSLVLLGEGKARYKGQWLSATEALAVAGLEPLTLAAKEGLALLNGTQASTAYALRGLFYAEDLYAAAIACGGLSVEAVLGSRSPFDARIHEARGQRGQIDTAACFRDLLGDSSEVSLSHKNADKVQDPYSLRCQPQVMGACLTQLRQAAEVLGIEANAVSDNPLVFAAEGDVISGGNFHAEPVAMAADNLALAIAEIGSLSERRISLMMDKHMSQLPPFLVENGGVNSGFMIAQVTAAALASENKALSHPHSVDSLPTSANQEDHVSMAPAAGKRLWEMAENTRGVLAIEWLGACQGLDLRKGLKTSAKLEKARQALRSEVAHYDRDRFFAPDIEKAVELLAKGSLTGLLPAGVLPSL

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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

molecule tags	Lyase
source organism	Pseudomonas putida
publication title	Structures of Two Histidine Ammonia-Lyase Modifications and Implications for the Catalytic Mechanism pubmed doi rcsb
molecule keywords	HISTIDINE AMMONIA-LYASE
total genus	202
structure length	506
sequence length	507
ec nomenclature	ec 4.3.1.3: Histidine ammonia-lyase.
pdb deposition date	2001-08-16

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00221	Lyase_aromatic	Aromatic amino acid lyase

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

cath code	Class	Architecture	Topology	Homology	Domain
1.10.275.10	Mainly Alpha	Orthogonal Bundle	Fumarase C; Chain B, domain 1	Fumarase/aspartase (N-terminal domain)	1gkmA01
1.20.200.10	Mainly Alpha	Up-down Bundle	Fumarase C; Chain A, domain 2	Fumarase/aspartase (Central domain)	1gkmA02

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

1JSWA 2YIIA 1J3UA 5EYTA 1U16A 1Q5NA 2O7FA 3R6VA 4WNLA 3TV2A 5M0JA 1VDKA 2NYFA 5HW2A 4HGVA 2FENA 1FUOA 3BHGA 1K7WA 3KDZA 3RRPA 3OCFA 4NSLA 1YFEA 1GK2A 1TJ7A 1RE5A 1XMCA 3UNVA 1XMDA 4FFXA 3CRW1 1XL8A 5M0IA 2QGAB 3OCEA 5D6BA 1FUPA 2FUSA 2O7DA 2J91A 3E04A 2X75A 4C5RA 2FELA 2PFMA 2O78A 3NO9A 4EEIA 2RJSA 1TJVA 2E9FA 1B8FA 3C8TA 4FLCA 1YISA 1HY1A 4ADLA 2RJRA 1HY0A 1GK3A 2VL7A 2QVEA 1YFMA 1Y2MA 2PTRA 3GTDA 5F91A 1AUWA 4ADMA 1FURA 4BABA 3KDYA 2HVGA 5F92A 4EFCA 2O7EA 1W27A 3R6YA 1C3UA 3R6QA 4BAAA 1GKJA 4CQ5A 1C3CA 2O7BA 1K62A 1XWOA 4C5UA 4V2QA 4APBA 2PTSA 2O6YA 4APAA 1XL7A 3NZ4A 3RD8A 5H8WA 1U15A 4C5SA 1KQ7A 2VSFA 2NYNA 3GZHA 1I0AA 5EYVA 3CRVA 1T6JA 4MX2A 1DOFA 1T6PA 1GKMA 1DCNA 3CZOA 1TJWA 1EB4A 1FUQA 2PTQA 2OHYA 4C6GA 4A15A 1TJUA 1XLYA 2VD6A 4NLEA 4V2RA 3QBPA
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 1JSW A;  2YII A;  1J3U A;  5EYT A;  1U16 A;  1Q5N A;  2O7F A;  3R6V A;  3TV2 A;  1VDK A;  2NYF A;  5HW2 A;  4HGV A;  1FUO A;  3BHG A;  1K7W A;  3KDZ A;  3RRP A;  3OCF A;  4NSL A;  1YFE A;  1GK2 A;  1TJ7 A;  1RE5 A;  3UNV A;  4FFX A;  2QGA B;  3OCE A;  5D6B A;  1FUP A;  2FUS A;  2O7D A;  2J91 A;  3E04 A;  2X75 A;  4C5R A;  2PFM A;  2O78 A;  3NO9 A;  4EEI A;  2RJS A;  1TJV A;  2E9F A;  1B8F A;  3C8T A;  4FLC A;  1YIS A;  1HY1 A;  4ADL A;  2RJR A;  1HY0 A;  1GK3 A;  2QVE A;  1YFM A;  1Y2M A;  2PTR A;  3GTD A;  5F91 A;  1AUW A;  4ADM A;  1FUR A;  4BAB A;  3KDY A;  2HVG A;  5F92 A;  4EFC A;  2O7E A;  1W27 A;  3R6Y A;  1C3U A;  3R6Q A;  4BAA A;  1GKJ A;  4CQ5 A;  1C3C A;  2O7B A;  1K62 A;  1XWO A;  4C5U A;  4V2Q A;  4APB A;  2PTS A;  2O6Y A;  4APA A;  3NZ4 A;  3RD8 A;  1U15 A;  4C5S A;  1KQ7 A;  2NYN A;  3GZH A;  1I0A A;  5EYV A;  1T6J A;  4MX2 A;  1DOF A;  1T6P A;  1GKM A;  1DCN A;  3CZO A;  1TJW A;  1EB4 A;  1FUQ A;  2PTQ A;  2OHY A;  4C6G A;  1TJU A;  2VD6 A;  4V2R A;  4NLE A;  3QBP A; 
#chains in the Genus database with same CATH topology
 1JSW A;  2YII A;  1J3U A;  5EYT A;  1U16 A;  1Q5N A;  2O7F A;  3R6V A;  4WNL A;  3TV2 A;  5M0J A;  1VDK A;  2NYF A;  5HW2 A;  4HGV A;  2FEN A;  1FUO A;  3BHG A;  1K7W A;  3KDZ A;  3RRP A;  3OCF A;  4NSL A;  1YFE A;  1GK2 A;  1TJ7 A;  1RE5 A;  1XMC A;  3UNV A;  1XMD A;  4FFX A;  3CRW 1;  1XL8 A;  5M0I A;  2QGA B;  3OCE A;  5D6B A;  1FUP A;  2FUS A;  2O7D A;  2J91 A;  3E04 A;  2X75 A;  4C5R A;  2FEL A;  2PFM A;  2O78 A;  3NO9 A;  4EEI A;  2RJS A;  1TJV A;  2E9F A;  1B8F A;  3C8T A;  4FLC A;  1YIS A;  1HY1 A;  4ADL A;  2RJR A;  1HY0 A;  1GK3 A;  2VL7 A;  2QVE A;  1YFM A;  1Y2M A;  2PTR A;  3GTD A;  5F91 A;  1AUW A;  4ADM A;  1FUR A;  4BAB A;  3KDY A;  2HVG A;  5F92 A;  4EFC A;  2O7E A;  1W27 A;  3R6Y A;  1C3U A;  3R6Q A;  4BAA A;  1GKJ A;  4CQ5 A;  1C3C A;  2O7B A;  1K62 A;  1XWO A;  4C5U A;  4V2Q A;  4APB A;  2PTS A;  2O6Y A;  4APA A;  1XL7 A;  3NZ4 A;  3RD8 A;  5H8W A;  1U15 A;  4C5S A;  1KQ7 A;  2VSF A;  2NYN A;  3GZH A;  1I0A A;  5EYV A;  3CRV A;  1T6J A;  4MX2 A;  1DOF A;  1T6P A;  1GKM A;  1DCN A;  3CZO A;  1TJW A;  1EB4 A;  1FUQ A;  2PTQ A;  2OHY A;  4C6G A;  4A15 A;  1TJU A;  1XLY A;  2VD6 A;  4NLE A;  4V2R A;  3QBP A; 
#chains in the Genus database with same CATH homology
 1JSW A;  2YII A;  1J3U A;  5EYT A;  1U16 A;  1Q5N A;  2O7F A;  3R6V A;  3TV2 A;  1VDK A;  2NYF A;  5HW2 A;  4HGV A;  1FUO A;  3BHG A;  1K7W A;  3KDZ A;  3RRP A;  3OCF A;  4NSL A;  1YFE A;  1GK2 A;  1TJ7 A;  1RE5 A;  3UNV A;  4FFX A;  2QGA B;  3OCE A;  5D6B A;  1FUP A;  2FUS A;  2O7D A;  2J91 A;  3E04 A;  2X75 A;  4C5R A;  2PFM A;  2O78 A;  3NO9 A;  4EEI A;  2RJS A;  1TJV A;  2E9F A;  1B8F A;  3C8T A;  4FLC A;  1YIS A;  1HY1 A;  4ADL A;  2RJR A;  1HY0 A;  1GK3 A;  2QVE A;  1YFM A;  1Y2M A;  2PTR A;  3GTD A;  5F91 A;  1AUW A;  4ADM A;  1FUR A;  4BAB A;  3KDY A;  2HVG A;  5F92 A;  4EFC A;  2O7E A;  1W27 A;  3R6Y A;  1C3U A;  3R6Q A;  4BAA A;  1GKJ A;  4CQ5 A;  1C3C A;  2O7B A;  1K62 A;  1XWO A;  4C5U A;  4V2Q A;  4APB A;  2PTS A;  2O6Y A;  4APA A;  3NZ4 A;  3RD8 A;  1U15 A;  4C5S A;  1KQ7 A;  2NYN A;  3GZH A;  1I0A A;  5EYV A;  1T6J A;  4MX2 A;  1DOF A;  1T6P A;  1GKM A;  1DCN A;  3CZO A;  1TJW A;  1EB4 A;  1FUQ A;  2PTQ A;  2OHY A;  4C6G A;  1TJU A;  2VD6 A;  4V2R A;  4NLE A;  3QBP 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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#similar chains in the pdb database (?% sequence similarity)
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1GKMA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations