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


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