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


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