3R6QA

A triclinic-lattice structure of aspartase from bacillus sp. ym55-1
Total Genus 168
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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
168
sequence length
462
structure length
462
Chain Sequence
VRIEKDFLGEKEIPKDAYYGVQTIRATENFPITGYRIHPELIKSLGIVKKSAALANMEVGLLDKEVGQYIVKAADEVIEGKWNDQFIVDPIQGGAGTSINMNANEVIANRALELMGEEKGNYSKISPNSHVNMSQSTNDAFPTATHIAVLSLLNQLIETTKYMQQEFMKKADEFAGVIKMGRTHLQDAVPILLGQEFEAYARVIARDIERIANTRNNLYDINMGATAVGTGLNADPEYISIVTEHLAKFSGHPLRSAQHLVDATQNTDCYTEVSSALKVCMINMSKIANDLRLMASGPRAGLSEIVLPARQPGSSIMPGKVNPVMPEVMNQVAFQVFGNDLTITSASEAGQFELNVMEPVLFFNLIQSISIMTNVFKSFTENCLKGIKANEERMKEYVEKSIGIITAINPHVGYETAAKLAREAYLTGESIRELCIKYGVLTEEQLNEILNPYEMIHPGIAG
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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

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

Chord Diagram
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publication title Structural basis for the catalytic mechanism of aspartate ammonia lyase.
pubmed doi rcsb
source organism Bacillus sp.
molecule tags Lyase
molecule keywords Aspartase
total genus 168
structure length 462
sequence length 462
chains with identical sequence B, C, D, E, F, G, H
ec nomenclature ec 4.3.1.1: Aspartate ammonia-lyase.
pdb deposition date 2011-03-22

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
ClassArchitectureTopologyHomologyDomain
1.10.40.30 Mainly Alpha Orthogonal Bundle Ribonucleotide Reductase Protein R1; domain 1 Fumarase/aspartase (C-terminal domain) 3r6qA03
1.10.275.10 Mainly Alpha Orthogonal Bundle Fumarase C; Chain B, domain 1 Fumarase/aspartase (N-terminal domain) 3r6qA01
1.20.200.10 Mainly Alpha Up-down Bundle Fumarase C; Chain A, domain 2 Fumarase/aspartase (Central domain) 3r6qA02
1B8FA 3TV2A 4C5RA 1JSWA 1HY0A 1Q5NA 1FURA 1XWOA 3GZHA 4APBA 3C8TA 2O78A 1Y2MA 4FLCA 4C6GA 1FUQA 2PFMA 1YFEA 2QGAB 1DOFA 2O7EA 1K7WA 1GK3A 1I0AA 3OCEA 1RE5A 3KDZA 2PTRA 2YIIA 2NYFA 4CQ5A 4V2QA 2PTQA 2PTSA 4HGVA 4ADMA 4APAA 5F92A 1HY1A 1U15A 3CZOA 3RRPA 2NYNA 2RJRA 4EFCA 2OHYA 5F91A 1FUOA 4V2RA 2O7DA 4EEIA 2FUSA 5EYTA 1GK2A 4ADLA 3NZ4A 1U16A 1T6JA 4C5SA 2RJSA 1YISA 1J3UA 1TJ7A 3GTDA 3R6YA 1VDKA 1GKJA 4FFXA 3RD8A 3E04A 1C3CA 4C5UA 2O7BA 1AUWA 1FUPA 1TJVA 4NLEA 3QBPA 5D6BA 1TJWA 2VD6A 4BAAA 1GKMA 3R6QA 2J91A 1TJUA 4MX2A 2E9FA 5HW2A 4BABA 3NO9A 5EYVA 1DCNA 3UNVA 1EB4A 3KDYA 1K62A 1T6PA 3OCFA 1YFMA 4NSLA 2X75A 2HVGA 3BHGA 1KQ7A 2O7FA 2QVEA 3R6VA 1C3UA 1W27A 2O6YA
chains in the Genus database with same CATH superfamily
1B8FA 3TV2A 4C5RA 2FELA 1JSWA 1HY0A 2JAUA 1Q5NA 1FURA 2JAOA 1XWOA 3GZHA 4APBA 3C8TA 2O78A 1Y2MA 4FLCA 4C6GA 5M0IA 1FUQA 2PFMA 1YFEA 2QGAB 1Z4IA 4MWOA 2FENA 1DOFA 1Z4LA 2O7EA 1K7WA 1GK3A 1I0AA 3OCEA 1RE5A 1Z4PX 4YIKA 3KDZA 2PTRA 2YIIA 2NYFA 4CQ5A 4V2QA 2PTQA 2PTSA 4HGVA 5H8WA 4ADMA 4APAA 1XMCA 4NFLA 3F4RA 5F92A 4L6AA 1Q92A 1Z4QA 2RCNA 2I7DA 1XMDA 3F4TA 5M0JA 1HY1A 1U15A 3CZOA 3RRPA 4YIHA 2D28C 1XL8A 2NYNA 2RJRA 4EFCA 2OHYA 1MH9A 3CRW1 5F91A 2JARA 1FUOA 4V2RA 2O7DA 4EEIA 2FUSA 4A15A 5EYTA 1GK2A 4ADLA 3NZ4A 1U16A 1T6JA 1XLYA 3F4SA 4C5SA 2YV5A 2RJSA 1YISA 1J3UA 1TJ7A 3GTDA 3R6YA 1VDKA 2D27A 1XL7A 2VL7A 1GKJA 4FFXA 1U0LA 3RD8A 3E04A 1C3CA 4C5UA 2O7BA 4IQJM 4L6CA 1AUWA 1FUPA 2JAWA 4MUMA 4WNLA 2VSFA 1TJVA 3U13A 4NLEA 3QBPA 5D6BA 3CRVA 1TJWA 2VD6A 4BAAA 1GKMA 3R6QA 2J91A 1TJUA 4MX2A 2E9FA 5HW2A 4BABA 3NO9A 5EYVA 1DCNA 1T9HA 3UNVA 1IW7D 1EB4A 1Z4MA 4E88A 1Q91A 3BWVA 3KDYA 1K62A 1T6PA 3OCFA 1YFMA 1Z4KA 4L57A 4NSLA 2X75A 2HVGA 3BHGA 1KQ7A 3CI0K 2O7FA 3U19A 2QVEA 3R6VA 1C3UA 1Z4JA 1W27A 2O6YA
chains in the Genus database with same CATH topology
1B8FA 3TV2A 4C5RA 1JSWA 1HY0A 1Q5NA 1FURA 1XWOA 3GZHA 4APBA 3C8TA 2O78A 1Y2MA 4FLCA 4C6GA 1FUQA 2PFMA 1YFEA 2QGAB 1DOFA 2O7EA 1K7WA 1GK3A 1I0AA 3OCEA 1RE5A 3KDZA 2PTRA 2YIIA 2NYFA 4CQ5A 4V2QA 2PTQA 2PTSA 4HGVA 4ADMA 4APAA 5F92A 1HY1A 1U15A 3CZOA 3RRPA 2NYNA 2RJRA 4EFCA 2OHYA 5F91A 1FUOA 4V2RA 2O7DA 4EEIA 2FUSA 5EYTA 1GK2A 4ADLA 3NZ4A 1U16A 1T6JA 4C5SA 2RJSA 1YISA 1J3UA 1TJ7A 3GTDA 3R6YA 1VDKA 1GKJA 4FFXA 3RD8A 3E04A 1C3CA 4C5UA 2O7BA 1AUWA 1FUPA 1TJVA 4NLEA 3QBPA 5D6BA 1TJWA 2VD6A 4BAAA 1GKMA 3R6QA 2J91A 1TJUA 4MX2A 2E9FA 5HW2A 4BABA 3NO9A 5EYVA 1DCNA 3UNVA 1EB4A 3KDYA 1K62A 1T6PA 3OCFA 1YFMA 4NSLA 2X75A 2HVGA 3BHGA 1KQ7A 2O7FA 2QVEA 3R6VA 1C3UA 1W27A 2O6YA
chains in the Genus database with same CATH homology


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