1Y2MA

Crystal structure of phenylalanine ammonia-lyase from yeast rhododporidium toruloides
Total Genus 244
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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
244
sequence length
690
structure length
665
Chain Sequence
ASTNLAVAGSHLPTTQVTQVDIVEKMLAAPTDSTLELDGYSLNLGDVVSAARKGRPVRVKDSDEIRSKIDKSVEFLRTEDAISLQKALLEHQLCGVLPSSFDSFRLGRGLENSLPLEVVRGAMTIRVNSLTRGHSAVRLVVLEALTNFLNHGITPIVPLRGTISASGDLSPLSYIAAAISGHPDSKVHVVHEGKEKILYAREAMALFNLEPVVLGPKEGLGLVNGTAVSASMATLALHDAHMLSLLSQSLTAMTVEAMVGHAGSFHPFLHDVTRPHPTQIEVAGNIRKLLEGSRFAVHHEEEVDEGILRQDRYPLRTSPQWLGPLVSDLIHAHAVLTIEAGQSTTDNPLIDVENKTSHHGGNFQAAAVANTMEKTRLGLAQIGKLNFTQLTEMLNAGMNRGLPSCLAAEDPSLSYHCKGLDIAAAAYTSELGHLANPVTTHVQPAEMANQAVNSLALISARRTTESNDVLSLLLATHLYCVLQAIDLRAIEFEFKKQFGPAIVSLIDQHFGSAMTGSNLRDELVEKVNKTLAKRLEQTNSYDLVPRWHDAFSFAAGTVVEVLSSTSLSLAAVNAWKVAAAESAISLTRQVRETFWSAASTSSPALSYLSPRTQILYAFVREELGVKARRGDVFLGKQEVTIGSNVSKIYEAIKSGRINNVLLKML
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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.

publication title Structure-based chemical modification strategy for enzyme replacement treatment of phenylketonuria.
pubmed doi rcsb
source organism Rhodosporidium toruloides
molecule tags Lyase
molecule keywords Phenylalanine ammonia-lyase
total genus 244
structure length 665
sequence length 690
chains with identical sequence B, C, D
ec nomenclature ec 4.3.1.25: Phenylalanine/tyrosine ammonia-lyase.
pdb deposition date 2004-11-22

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
ClassArchitectureTopologyHomologyDomain
1.10.274.20 Mainly Alpha Orthogonal Bundle Enzyme I; Chain A, domain 2 Phenylalanine ammonia-lyase 1; domain 3 1y2mA03
1.10.275.10 Mainly Alpha Orthogonal Bundle Fumarase C; Chain B, domain 1 Fumarase/aspartase (N-terminal domain) 1y2mA01
1.20.200.10 Mainly Alpha Up-down Bundle Fumarase C; Chain A, domain 2 Fumarase/aspartase (Central domain) 1y2mA02
2PTQA 2PTRA 1HY1A 2X75A 3C8TA 1JSWA 2O7DA 1YFMA 4C5SA 3RRPA 3TV2A 4C5UA 3QBPA 1T6PA 3R6YA 1Q5NA 1C3CA 3GZHA 2QVEA 2NYNA 1W27A 2J91A 3R6QA 2RJSA 4V2RA 3CZOA 1GKMA 4NLEA 3KDZA 1T6JA 1J3UA 4ADLA 5F91A 5EYVA 4FFXA 4ADMA 1TJUA 1GKJA 2PTSA 1YFEA 1KQ7A 4HGVA 2E9FA 1DOFA 1RE5A 5D6BA 3NO9A 1K62A 1TJVA 2O7FA 2O78A 3BHGA 2O7EA 1YISA 1FURA 1FUQA 3RD8A 1VDKA 3NZ4A 1I0AA 5EYTA 1EB4A 1GK3A 1FUPA 2PFMA 2QGAB 4NSLA 1TJWA 4FLCA 4V2QA 4BAAA 4C6GA 4BABA 2O6YA 1XWOA 3OCFA 3OCEA 1C3UA 1GK2A 5F92A 3R6VA 2VD6A 2YIIA 3E04A 4MX2A 2NYFA 1AUWA 4CQ5A 1B8FA 1HY0A 1DCNA 4APBA 2RJRA 3KDYA 3GTDA 4APAA 1Y2MA 4EFCA 4EEIA 1U16A 5HW2A 2O7BA 2OHYA 1TJ7A 2FUSA 1FUOA 1U15A 3UNVA 1K7WA 2HVGA 4C5RA
chains in the Genus database with same CATH superfamily
2PTQA 2PTRA 1HY1A 2X75A 3C8TA 1JSWA 2B63A 2O7DA 1YFMA 2VSFA 4C5SA 3LR2A 1TWCA 2EZCA 3RRPA 3TV2A 1YNND 4C5UA 1I3QA 3QBPA 2FIOA 1T6PA 3R6YA 1Q5NA 2EZAA 1R9TA 1C3CA 3GZHA 1Y1VA 2QVEA 2N1DB 2NYNA 1XL8A 1W27A 2F5JA 3GTQA 2J91A 4A15A 3LR6A 1I50A 2JA7A 3GTMA 3R6QA 4FBSA 2HROA 4V2RA 3GTLA 2RJSA 2MQAA 3CZOA 1GKMA 2A68D 1TWGA 2JA5A 4NLEA 2K3QA 3KDZA 1T6JA 1J3UA 4ADLA 3H0GA 2LTHA 5F91A 2FIPA 2R7ZA 5EYVA 1TWFA 1ZYRD 5IZ2A 2X0QA 1Y1WA 4FFXA 4ADMA 1TJUA 4WNLA 1GKJA 2VK9A 2HWGA 3GTKA 2PTSA 1YFEA 1KQ7A 4HGVA 2VUMA 2EZBA 2E9FA 1IW7D 2LPJA 1DOFA 1RE5A 5D6BA 3NO9A 1K62A 1TJVA 2MX9A 2O7FA 2N3EA 2R92A 2JA6A 2O78A 2E2HA 3BHGA 1TWHA 1YISA 1HQMD 1FURA 2O7EA 1WCMA 1FUQA 3RD8A 3CQZA 4CEHA 1XMCA 1VDKA 3NZ4A 1I0AA 4CEIA 5EYTA 1EB4A 4QIWA 1GK3A 2AQLA 2A6ED 1FUPA 1XLYA 1TWAA 2PFMA 2CW0D 2QGAB 2X0PA 2R93A 4NSLA 1EZBA 1TJWA 4FLCA 5H8WA 4V2QA 2LKMB 4BAAA 3EZAA 4C6GA 3GTPA 2NVYA 2NVXA 4BABA 2A69D 2O6YA 2E2IA 1XWOA 1YNJD 3OCFA 3FKIA 3GTOA 2O5JD 2LYIA 2MX8A 3EZEA 3LR8A 3LRDA 1C3UA 1XL7A 3OCEA 2X0OA 1GK2A 5F92A 3R6VA 2VD6A 2YIIA 3E04A 4MX2A 2Y0NA 2NYFA 1AUWA 2VL7A 3U44A 4CQ5A 4CEJA 1B8FA 2YU9A 1DCNA 1HY0A 4APBA 3GTGA 1EZAA 2LPIA 1XMDA 2A6HD 3EZBA 3GTJA 2RJRA 3KDYA 2K3NA 5M0IA 2FELA 3GTDA 1ZYMA 4APAA 1Y2MA 2MP0A 4EFCA 4EEIA 1U16A 5HW2A 2O7BA 3U4QA 1K83A 1SMYD 2OHYA 1SFOA 1TJ7A 3CRW1 5M0JA 2FENA 2FUSA 3CRVA 2K3OA 1FUOA 1U15A 3UNVA 1I6VD 1K7WA 2BE5D 4C2MA 2HVGA 4C5RA
chains in the Genus database with same CATH topology
2PTQA 2PTRA 1HY1A 2X75A 3C8TA 1JSWA 2O7DA 1YFMA 4C5SA 3RRPA 3TV2A 4C5UA 3QBPA 1T6PA 3R6YA 1Q5NA 1C3CA 3GZHA 2QVEA 2NYNA 1W27A 2J91A 3R6QA 2RJSA 4V2RA 3CZOA 1GKMA 4NLEA 3KDZA 1T6JA 1J3UA 4ADLA 5F91A 5EYVA 4FFXA 4ADMA 1TJUA 1GKJA 2PTSA 1YFEA 1KQ7A 4HGVA 2E9FA 1DOFA 1RE5A 5D6BA 3NO9A 1K62A 1TJVA 2O7FA 2O78A 3BHGA 2O7EA 1YISA 1FURA 1FUQA 3RD8A 1VDKA 3NZ4A 1I0AA 5EYTA 1EB4A 1GK3A 1FUPA 2PFMA 2QGAB 4NSLA 1TJWA 4FLCA 4V2QA 4BAAA 4C6GA 4BABA 2O6YA 1XWOA 3OCFA 3OCEA 1C3UA 1GK2A 5F92A 3R6VA 2VD6A 2YIIA 3E04A 4MX2A 2NYFA 1AUWA 4CQ5A 1B8FA 1HY0A 1DCNA 4APBA 2RJRA 3KDYA 3GTDA 4APAA 1Y2MA 4EFCA 4EEIA 1U16A 5HW2A 2O7BA 2OHYA 1TJ7A 2FUSA 1FUOA 1U15A 3UNVA 1K7WA 2HVGA 4C5RA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2PTQ A;  2PTR A;  1HY1 A;  2X75 A;  3C8T A;  1JSW A;  2O7D A;  1YFM A;  4C5S A;  3RRP A;  3TV2 A;  4C5U A;  3QBP A;  1T6P A;  3R6Y A;  1Q5N A;  1C3C A;  3GZH A;  2QVE A;  2NYN A;  1W27 A;  2J91 A;  3R6Q A;  2RJS A;  4V2R A;  3CZO A;  1GKM A;  4NLE A;  3KDZ A;  1T6J A;  1J3U A;  4ADL A;  5F91 A;  5EYV A;  4FFX A;  4ADM A;  1TJU A;  1GKJ A;  2PTS A;  1YFE A;  1KQ7 A;  4HGV A;  2E9F A;  1DOF A;  1RE5 A;  5D6B A;  3NO9 A;  1K62 A;  1TJV A;  2O7F A;  2O78 A;  3BHG A;  2O7E A;  1YIS A;  1FUR A;  1FUQ A;  3RD8 A;  1VDK A;  3NZ4 A;  1I0A A;  5EYT A;  1EB4 A;  1GK3 A;  1FUP A;  2PFM A;  2QGA B;  4NSL A;  1TJW A;  4FLC A;  4V2Q A;  4BAA A;  4C6G A;  4BAB A;  2O6Y A;  1XWO A;  3OCF A;  3OCE A;  1C3U A;  1GK2 A;  5F92 A;  3R6V A;  2VD6 A;  2YII A;  3E04 A;  4MX2 A;  2NYF A;  1AUW A;  4CQ5 A;  1B8F A;  1HY0 A;  1DCN A;  4APB A;  2RJR A;  3KDY A;  3GTD A;  4APA A;  1Y2M A;  4EFC A;  4EEI A;  1U16 A;  5HW2 A;  2O7B A;  2OHY A;  1TJ7 A;  2FUS A;  1FUO A;  1U15 A;  3UNV A;  1K7W A;  2HVG A;  4C5R A; 
#chains in the Genus database with same CATH topology
 2PTQ A;  2PTR A;  1HY1 A;  2X75 A;  3C8T A;  1JSW A;  2B63 A;  2O7D A;  1YFM A;  2VSF A;  4C5S A;  3LR2 A;  1TWC A;  2EZC A;  3RRP A;  3TV2 A;  1YNN D;  4C5U A;  1I3Q A;  3QBP A;  2FIO A;  1T6P A;  3R6Y A;  1Q5N A;  2EZA A;  1R9T A;  1C3C A;  3GZH A;  1Y1V A;  2QVE A;  2N1D B;  2NYN A;  1XL8 A;  1W27 A;  2F5J A;  3GTQ A;  2J91 A;  4A15 A;  3LR6 A;  1I50 A;  2JA7 A;  3GTM A;  3R6Q A;  4FBS A;  2HRO A;  4V2R A;  3GTL A;  2RJS A;  2MQA A;  3CZO A;  1GKM A;  2A68 D;  1TWG A;  2JA5 A;  4NLE A;  2K3Q A;  3KDZ A;  1T6J A;  1J3U A;  4ADL A;  3H0G A;  2LTH A;  5F91 A;  2FIP A;  2R7Z A;  5EYV A;  1TWF A;  1ZYR D;  5IZ2 A;  2X0Q A;  1Y1W A;  4FFX A;  4ADM A;  1TJU A;  4WNL A;  1GKJ A;  2VK9 A;  2HWG A;  3GTK A;  2PTS A;  1YFE A;  1KQ7 A;  4HGV A;  2VUM A;  2EZB A;  2E9F A;  1IW7 D;  2LPJ A;  1DOF A;  1RE5 A;  5D6B A;  3NO9 A;  1K62 A;  1TJV A;  2MX9 A;  2O7F A;  2N3E A;  2R92 A;  2JA6 A;  2O78 A;  2E2H A;  3BHG A;  1TWH A;  1YIS A;  1HQM D;  1FUR A;  2O7E A;  1WCM A;  1FUQ A;  3RD8 A;  3CQZ A;  4CEH A;  1XMC A;  1VDK A;  3NZ4 A;  1I0A A;  4CEI A;  5EYT A;  1EB4 A;  4QIW A;  1GK3 A;  2AQL A;  2A6E D;  1FUP A;  1XLY A;  1TWA A;  2PFM A;  2CW0 D;  2QGA B;  2X0P A;  2R93 A;  4NSL A;  1EZB A;  1TJW A;  4FLC A;  5H8W A;  4V2Q A;  2LKM B;  4BAA A;  3EZA A;  4C6G A;  3GTP A;  2NVY A;  2NVX A;  4BAB A;  2A69 D;  2O6Y A;  2E2I A;  1XWO A;  1YNJ D;  3OCF A;  3FKI A;  3GTO A;  2O5J D;  2LYI A;  2MX8 A;  3EZE A;  3LR8 A;  3LRD A;  1C3U A;  1XL7 A;  3OCE A;  2X0O A;  1GK2 A;  5F92 A;  3R6V A;  2VD6 A;  2YII A;  3E04 A;  4MX2 A;  2Y0N A;  2NYF A;  1AUW A;  2VL7 A;  3U44 A;  4CQ5 A;  4CEJ A;  1B8F A;  2YU9 A;  1DCN A;  1HY0 A;  4APB A;  3GTG A;  1EZA A;  2LPI A;  1XMD A;  2A6H D;  3EZB A;  3GTJ A;  2RJR A;  3KDY A;  2K3N A;  5M0I A;  2FEL A;  3GTD A;  1ZYM A;  4APA A;  1Y2M A;  2MP0 A;  4EFC A;  4EEI A;  1U16 A;  5HW2 A;  2O7B A;  3U4Q A;  1K83 A;  1SMY D;  2OHY A;  1SFO A;  1TJ7 A;  3CRW 1;  5M0J A;  2FEN A;  2FUS A;  3CRV A;  2K3O A;  1FUO A;  1U15 A;  3UNV A;  1I6V D;  1K7W A;  2BE5 D;  4C2M A;  2HVG A;  4C5R A; 
#chains in the Genus database with same CATH homology
 2PTQ A;  2PTR A;  1HY1 A;  2X75 A;  3C8T A;  1JSW A;  2O7D A;  1YFM A;  4C5S A;  3RRP A;  3TV2 A;  4C5U A;  3QBP A;  1T6P A;  3R6Y A;  1Q5N A;  1C3C A;  3GZH A;  2QVE A;  2NYN A;  1W27 A;  2J91 A;  3R6Q A;  2RJS A;  4V2R A;  3CZO A;  1GKM A;  4NLE A;  3KDZ A;  1T6J A;  1J3U A;  4ADL A;  5F91 A;  5EYV A;  4FFX A;  4ADM A;  1TJU A;  1GKJ A;  2PTS A;  1YFE A;  1KQ7 A;  4HGV A;  2E9F A;  1DOF A;  1RE5 A;  5D6B A;  3NO9 A;  1K62 A;  1TJV A;  2O7F A;  2O78 A;  3BHG A;  2O7E A;  1YIS A;  1FUR A;  1FUQ A;  3RD8 A;  1VDK A;  3NZ4 A;  1I0A A;  5EYT A;  1EB4 A;  1GK3 A;  1FUP A;  2PFM A;  2QGA B;  4NSL A;  1TJW A;  4FLC A;  4V2Q A;  4BAA A;  4C6G A;  4BAB A;  2O6Y A;  1XWO A;  3OCF A;  3OCE A;  1C3U A;  1GK2 A;  5F92 A;  3R6V A;  2VD6 A;  2YII A;  3E04 A;  4MX2 A;  2NYF A;  1AUW A;  4CQ5 A;  1B8F A;  1HY0 A;  1DCN A;  4APB A;  2RJR A;  3KDY A;  3GTD A;  4APA A;  1Y2M A;  4EFC A;  4EEI A;  1U16 A;  5HW2 A;  2O7B A;  2OHY A;  1TJ7 A;  2FUS A;  1FUO A;  1U15 A;  3UNV A;  1K7W A;  2HVG A;  4C5R 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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