2HVG | Genus

Total Genus 162

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	162
sequence length	458
structure length	447
Chain Sequence	HLKNISPIDGRYKKACGELSAFFSEHALIKHRIIVEVRWLLFLNEEELFFEKVTDHSVEVLNQIATNITDSDIARVKAIEHDVKAVEYFVKEKLKNSKREDLLKIKEYVHYLCTSEDINNVAYATCLKACLNDVVIPCLEKIMLKLKDLAVEYSHVPLLSRTHGQPASSTTFGKEMANFYARIHHHVGVIRRVKVCAKFNGAVGNFNAHKVASKDTDWVNTIGLFLKKHFNLTYSIYCTQIQDHDYICELCDGLARANGTLIDLCVDIWLYISNNLLKLKSSTMPHKVNPIDFENAEGNLHIANAFFKLFSSKLPTSRLQRDLSDSTVLRNIGSSLAYCLIAYKSVLKGLNKIDIDRRNLEEELNQNWSTLAEPIQIVMKRHNYVDAYEELKQFTRGKVIDQKIMQEFIKTKCAFLPQDVVDQLLELTPATYTGYADYLAKNVERLS

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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The Resolver thinks Pdb

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Time for openFile(/file/5cfd297500b4f1fd3642c17b/pdb.gz): 1051 ms

reading 447 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

Default Van der Waals type for model set to Jmol

447 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

Time for creating model: 30 ms

Adding embedded #jmolscript: select ({0:446});backbone only;select *;

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	Plasmodium vivax
publication title	Genome-scale protein expression and structural biology of Plasmodium falciparum and related Apicomplexan organisms. pubmed doi rcsb
molecule keywords	Adenylosuccinate lyase
total genus	162
structure length	447
sequence length	458
chains with identical sequence	B
ec nomenclature	ec 4.3.2.2: Adenylosuccinate lyase.
pdb deposition date	2006-07-28

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00206	Lyase_1	Lyase
A	PF08328	ASL_C	Adenylosuccinate lyase C-terminal

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)	2hvgA03
1.10.275.10	Mainly Alpha	Orthogonal Bundle	Fumarase C; Chain B, domain 1	Fumarase/aspartase (N-terminal domain)	2hvgA01
1.20.200.10	Mainly Alpha	Up-down Bundle	Fumarase C; Chain A, domain 2	Fumarase/aspartase (Central domain)	2hvgA02

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

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

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

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations