1J3UA

Crystal structure of aspartase from bacillus sp. ym55-1
Total Genus 164
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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
164
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 Crystal Structure of Thermostable Aspartase from Bacillus sp. YM55-1: Structure-based Exploration of Functional Sites in the Aspartase Family
pubmed doi rcsb
source organism Bacillus sp. ym55-1
molecule tags Lyase
molecule keywords aspartase
total genus 164
structure length 462
sequence length 462
chains with identical sequence B
ec nomenclature ec 4.3.1.1: Aspartate ammonia-lyase.
pdb deposition date 2003-02-16

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) 1j3uA03
1.10.275.10 Mainly Alpha Orthogonal Bundle Fumarase C; Chain B, domain 1 Fumarase/aspartase (N-terminal domain) 1j3uA01
1.20.200.10 Mainly Alpha Up-down Bundle Fumarase C; Chain A, domain 2 Fumarase/aspartase (Central domain) 1j3uA02
1C3CA 1YISA 1U15A 5EYVA 3E04A 2O6YA 4FFXA 3BHGA 4NSLA 1I0AA 2PTSA 1TJWA 1C3UA 4C5SA 2HVGA 2VD6A 3R6VA 2PFMA 1JSWA 1HY0A 1TJUA 1FUOA 1VDKA 3C8TA 4V2RA 2OHYA 1TJVA 2O7EA 1K7WA 4BAAA 2NYFA 1FURA 1GKJA 3R6QA 1YFEA 2E9FA 3RD8A 2QVEA 1Q5NA 1J3UA 1Y2MA 3CZOA 4EFCA 2FUSA 1B8FA 2RJSA 4CQ5A 2O7DA 3GZHA 1T6JA 1AUWA 2QGAB 3OCEA 1EB4A 1KQ7A 4MX2A 1GK3A 2X75A 4C6GA 2RJRA 4APBA 2O78A 4ADMA 3R6YA 5F91A 2J91A 5HW2A 2NYNA 3NO9A 1FUPA 4V2QA 2PTRA 2PTQA 1DCNA 1YFMA 1GK2A 5F92A 4BABA 1W27A 3QBPA 5D6BA 2O7BA 3OCFA 4APAA 3TV2A 2YIIA 3NZ4A 4ADLA 1DOFA 4C5UA 3RRPA 3KDZA 1TJ7A 1FUQA 1GKMA 4HGVA 4FLCA 1T6PA 2O7FA 1HY1A 1XWOA 4EEIA 3UNVA 4C5RA 1RE5A 3KDYA 1U16A 1K62A 3GTDA 4NLEA 5EYTA
chains in the Genus database with same CATH superfamily
1C3CA 1YISA 4NFLA 1U15A 5EYVA 3E04A 2O6YA 4FFXA 1U0LA 3BHGA 2FENA 4NSLA 2JAOA 1I0AA 2PTSA 1TJWA 4A15A 1C3UA 4C5SA 2HVGA 2VD6A 1IW7D 2PFMA 3R6VA 2YV5A 3CRW1 1JSWA 1HY0A 1TJUA 1FUOA 1VDKA 3C8TA 1Z4PX 1Z4MA 4V2RA 2OHYA 1TJVA 2D28C 2O7EA 1K7WA 4BAAA 4L6CA 2FELA 2NYFA 1FURA 4L57A 2VSFA 1GKJA 3R6QA 1YFEA 2E9FA 3RD8A 2QVEA 2JAWA 1Q5NA 1J3UA 1Y2MA 3CZOA 4EFCA 5M0IA 3CI0K 2FUSA 1B8FA 1Z4LA 1Z4QA 2RJSA 4CQ5A 2VL7A 2O7DA 3GZHA 1T6JA 1AUWA 1T9HA 1Z4JA 2QGAB 1XL8A 3OCEA 1EB4A 1KQ7A 1Z4IA 4MX2A 2D27A 3BWVA 4L6AA 1GK3A 2X75A 4C6GA 2RJRA 4YIHA 4APBA 2O78A 4ADMA 3R6YA 5F91A 2J91A 3F4TA 5HW2A 2NYNA 5H8WA 3NO9A 1FUPA 4MWOA 3CRVA 4V2QA 2PTRA 2PTQA 2JARA 1DCNA 1YFMA 1GK2A 2I7DA 5F92A 3U13A 4BABA 3F4SA 1XL7A 1W27A 1Q91A 3QBPA 5D6BA 2O7BA 3OCFA 4APAA 1Z4KA 3TV2A 4MUMA 2YIIA 1Q92A 3NZ4A 1DOFA 4ADLA 4C5UA 3RRPA 3U19A 1XLYA 4IQJM 3KDZA 1XMCA 1TJ7A 3F4RA 1FUQA 1GKMA 4HGVA 1MH9A 2RCNA 4FLCA 4YIKA 1T6PA 2O7FA 1HY1A 1XWOA 4EEIA 3UNVA 4C5RA 1RE5A 3KDYA 1U16A 1K62A 4E88A 2JAUA 3GTDA 4NLEA 4WNLA 5M0JA 5EYTA 1XMDA
chains in the Genus database with same CATH topology
1C3CA 1YISA 1U15A 5EYVA 3E04A 2O6YA 4FFXA 3BHGA 4NSLA 1I0AA 2PTSA 1TJWA 1C3UA 4C5SA 2HVGA 2VD6A 3R6VA 2PFMA 1JSWA 1HY0A 1TJUA 1FUOA 1VDKA 3C8TA 4V2RA 2OHYA 1TJVA 2O7EA 1K7WA 4BAAA 2NYFA 1FURA 1GKJA 3R6QA 1YFEA 2E9FA 3RD8A 2QVEA 1Q5NA 1J3UA 1Y2MA 3CZOA 4EFCA 2FUSA 1B8FA 2RJSA 4CQ5A 2O7DA 3GZHA 1T6JA 1AUWA 2QGAB 3OCEA 1EB4A 1KQ7A 4MX2A 1GK3A 2X75A 4C6GA 2RJRA 4APBA 2O78A 4ADMA 3R6YA 5F91A 2J91A 5HW2A 2NYNA 3NO9A 1FUPA 4V2QA 2PTRA 2PTQA 1DCNA 1YFMA 1GK2A 5F92A 4BABA 1W27A 3QBPA 5D6BA 2O7BA 3OCFA 4APAA 3TV2A 2YIIA 3NZ4A 4ADLA 1DOFA 4C5UA 3RRPA 3KDZA 1TJ7A 1FUQA 1GKMA 4HGVA 4FLCA 1T6PA 2O7FA 1HY1A 1XWOA 4EEIA 3UNVA 4C5RA 1RE5A 3KDYA 1U16A 1K62A 3GTDA 4NLEA 5EYTA
chains in the Genus database with same CATH homology


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