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.

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


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