5EY3 | Genus

Total Genus 156

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	156
sequence length	442
structure length	442
Chain Sequence	GSMFLAQEIIRKKRDGHALSDEEIRFFINGIRDNTISEGQIAALAMTIFFHDMTMPERVSLTMAMRDSGTVLDWKSLNLNGPIVDKHSTGGVGDVTSLMLGPMVAACGGYVPMISGRGLGHTGGTLDKLEAIPGFDIFPDDNRFREIIQDVGVAIIGQTSSLAPADKRFYATRDITATVDSIPLITGSILAKKLAEGLDALVMDVKVGSGAFMPTYELSEALAEAIVGVANGAGVRTTALLTDMNQVLASSAGNAVEVREAVQFLTGEYRNPRLFDVTMALCVEMLISGQLAKDDAEARAKLQAVLDNGKAAEVFGRMVAAQKGPSDFVENYDKYLPTAMLSKAVYADTEGFISAMDTRALGMAVVSMGGGRRQASDTIDYSVGFTDMARLGDSIDGQRPLAVIHAKDEASWQEAAKAVKAAIILDDKAPASTPSVYRRITE

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

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reading 442 atoms

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442 atoms created

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

molecule tags	Transferase
source organism	Salmonella typhimurium (strain lt2 / sgsc1412 / atcc 700720)
publication title	X-ray structure of the thymidine phosphorylase from Salmonella typhimurium in complex with cytidine and sulphate rcsb
molecule keywords	Thymidine phosphorylase
total genus	156
structure length	442
sequence length	442
chains with identical sequence	B
ec nomenclature	ec 2.4.2.4: Thymidine phosphorylase.
pdb deposition date	2015-11-24

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00591	Glycos_transf_3	Glycosyl transferase family, a/b domain
A	PF02885	Glycos_trans_3N	Glycosyl transferase family, helical bundle domain
A	PF07831	PYNP_C	Pyrimidine nucleoside phosphorylase C-terminal domain

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
1.20.970.10	Mainly Alpha	Up-down Bundle	Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3	Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C	5ey3A01
3.40.1030.10	Alpha Beta	3-Layer(aba) Sandwich	Pyrimidine Nucleoside Phosphorylase; Chain A, domain 2	Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain	5ey3A02
3.90.1170.30	Alpha Beta	Alpha-Beta Complex	Aldehyde Oxidoreductase; domain 3	Pyrimidine nucleoside phosphorylase-like, C-terminal domain	5ey3A03

4X5AA 4GKMA 5BO3A 3R88A 4MUOA 3QS8A 4HKMA 5BNEA 4ZOFA 5EP8A 4GA5A 1V8GA 2GVQA 1ZVWA 4N8QA 4OWUA 1OTPA 1GXBA 4OWOA 4X59A 4EAFA 1BRWA 1KGZA 3TWPA 4ZOJA 1O17A 1ZXYA 4GA4A 4N93A 4X5BA 4YEKA 4X5EA 4OWSA 3H5QA 4ZTVA 4EADA 5EY3A 3GBRA 1UOUA 3QSAA 4OWMA 4IJ1A 2WK5A 4YYYA 5C1RA 2J0FA 4M0RA 4OWVA 1AZYA 4LHMA 2DSJA 5C2LA 2ELCA 1VQUA 4N5VA 4GTNA 2BPQA 3UU1A 4X5CA 4ZOKA 4X58A 3R6CA 4YI7A 5C7SA 5BO2A 4GA6A 4XR5A 1KHDA 1ZYKA 5BYTA 3QR9A 4OWNA 4OWQA 4X5DA 2TPTA 4X46A 3QQSA 4GIUA 2WK6A
chains in the Genus database with same CATH superfamily

4X5AA 2E3TA 4WFNJ 4GKMA 5BO3A 1QPQA 3R88A 4MUOA 1N60B 5DM7J 3I55H 3CCQH 3QS8A 2OTLH 1FFUB 2B7PA 4HKMA 5BNEA 1JJ2H 4I9AA 4ZOFA 3B9JC 1WKIA 3CCJH 3NVVC 5EP8A 3TQVA 1YJNH 3CCVH 2W3SB 1O4UA 4GA5A 3WO1A 4US8A 2PA2A 3C2OA 1V8GA 3NRZC 5GAHN 2GVQA 1QAPA 1ZVWA 3PAJA 5HULA 4N8QA 3WO0A 4WCEJ 3CCSH 1VQKH 4OWUA 5MLCO 4AP8A 2I1OA 1YJWH 3J7ZM 2ZJRJ 1OTPA 1GXBA 1VQ5H 1RF8B 4OWOA 4X59A 5HUPA 1FFVB 5AYZA 3G6EH 5AN9F 2QA4H 4EAFA 2WP4A 5GAEN 1RRZA 1BRWA 3CC7H 1KGZA 1VQPH 2QIEA 1K73J 3RPFA 3C2EA 1Q86J 1K9MJ 2I14A 1JROB 4WFBJ 2ZJPJ 3TWPA 5HL7J 2OTJH 3FC4A 4US9A 3C2RA 4ZOJA 3NVWC 1N8RJ 3PIOJ 4C7ZA 3CCEH 1N61B 1SIJA 3L0GA 5GAGN 1YI2H 4KWVA 5AYYA 1QPNA 1O17A 2W55B 2W54B 1FO4A 4IO9J 3CMAH 1Q7YJ 1N63B 1VQ7H 1N5WB 1ZXYA 4ZOHA 4F3FC 3OW2H 1M1KJ 3CMEH 2OMDA 1X1OA 3G4SH 1VQNH 3EUB4 4GA4A 5GADN 1VQLH 3ETRC 1QPRA 5H1SO 1Q81J 4N93A 4X5BA 1FMAE 1KD1J 4YEKA 1YHQH 4X5EA 1QVFH 4OWSA 3CPWH 4IOCJ 1Y69K 3NVYC 3H5QA 4ZTVA 4EADA 1QVGH 4USAA 5EY3A 1RM6A 3GBRA 1SB3A 1UOUA 3QSAA 1VLBA 5HUOA 4OWMA 4U67J 4IJ1A 2WK5A 4YYYA 1N62B 3PIPJ 1N5XA 3G71H 5C1RA 1VQ4H 3NVZC 3CXCH 4C80A 2J0FA 3BIIE 4M0RA 3CCUH 4OWVA 1AZYA 1FIQC 4LHMA 1KC8J 2DSJA 3FAHA 3CC4H 1DGJA 4WFAJ 1K8AJ 4UY8M 2JBMA 5C2LA 5MPOC 4IOAJ 2B7QA 3CF5J 2ELCA 3AM9A 1YJ9H 1FM0E 1V97A 4C7YA 1VQUA 2W3RB 4N5VA 1Q82J 3DLLJ 1VQ6H 1S72H 4GTNA 3VMMA 2BPQA 3UU1A 1VQOH 4X5CA 4ZOKA 1JRPB 1ZXIB 1NVJA 3AMZA 3NS1C 2ZJQJ 1VQ8H 4X58A 5JVHJ 3SR6C 1VQMH 3R6CA 4YI7A 1WYGA 3CCMH 5C7SA 4GA6A 5BO2A 3L4PA 1NJIJ 1VQ9H 5AYXA 4KWWA 3CCRH 3CCLH 2QEXH 4XR5A 1YIJH 3C2VA 1M90J 1KQSH 1KHDA 1QPOA 1YTEA 3GNNA 3CC2H 1YTKA 3C2FA 4WF9J 1YITH 1ZYKA 2B7NA 5BYTA 5JVGJ 3QR9A 5DM6J 3WNZA 4OWNA 4OWQA 3I56H 4X5DA 3AN1A 2TPTA 4X46A 3QQSA 1NVIE 1VDVA 4GIUA 2WK6A 1W2BH 2Q5WE 1YTDA 3CD6H
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 4X5A A;  4GKM A;  5BO3 A;  3R88 A;  4MUO A;  3QS8 A;  4HKM A;  5BNE A;  4ZOF A;  5EP8 A;  4GA5 A;  1V8G A;  2GVQ A;  1ZVW A;  4N8Q A;  4OWU A;  1OTP A;  1GXB A;  4OWO A;  4X59 A;  4EAF A;  1BRW A;  1KGZ A;  3TWP A;  4ZOJ A;  1O17 A;  1ZXY A;  4GA4 A;  4N93 A;  4X5B A;  4YEK A;  4X5E A;  4OWS A;  3H5Q A;  4ZTV A;  4EAD A;  5EY3 A;  3GBR A;  1UOU A;  3QSA A;  4OWM A;  4IJ1 A;  2WK5 A;  4YYY A;  5C1R A;  2J0F A;  4M0R A;  4OWV A;  1AZY A;  4LHM A;  2DSJ A;  5C2L A;  2ELC A;  1VQU A;  4N5V A;  4GTN A;  2BPQ A;  3UU1 A;  4X5C A;  4ZOK A;  4X58 A;  3R6C A;  4YI7 A;  5C7S A;  5BO2 A;  4GA6 A;  4XR5 A;  1KHD A;  1ZYK A;  5BYT A;  3QR9 A;  4OWN A;  4OWQ A;  4X5D A;  2TPT A;  4X46 A;  3QQS A;  4GIU A;  2WK6 A; 
#chains in the Genus database with same CATH topology
 4X5A A;  2E3T A;  4WFN J;  4GKM A;  5BO3 A;  1QPQ A;  3R88 A;  4MUO A;  1N60 B;  5DM7 J;  3I55 H;  3CCQ H;  3QS8 A;  2OTL H;  1FFU B;  2B7P A;  4HKM A;  5BNE A;  1JJ2 H;  4I9A A;  4ZOF A;  3B9J C;  1WKI A;  3CCJ H;  3NVV C;  5EP8 A;  3TQV A;  1YJN H;  3CCV H;  2W3S B;  1O4U A;  4GA5 A;  3WO1 A;  4US8 A;  2PA2 A;  3C2O A;  1V8G A;  3NRZ C;  5GAH N;  2GVQ A;  1QAP A;  1ZVW A;  3PAJ A;  5HUL A;  4N8Q A;  3WO0 A;  4WCE J;  3CCS H;  1VQK H;  4OWU A;  5MLC O;  4AP8 A;  2I1O A;  1YJW H;  3J7Z M;  2ZJR J;  1OTP A;  1GXB A;  1VQ5 H;  1RF8 B;  4OWO A;  4X59 A;  5HUP A;  1FFV B;  5AYZ A;  3G6E H;  5AN9 F;  2QA4 H;  4EAF A;  2WP4 A;  5GAE N;  1RRZ A;  1BRW A;  3CC7 H;  1KGZ A;  1VQP H;  2QIE A;  1K73 J;  3RPF A;  3C2E A;  1Q86 J;  1K9M J;  2I14 A;  1JRO B;  4WFB J;  2ZJP J;  3TWP A;  5HL7 J;  2OTJ H;  3FC4 A;  4US9 A;  3C2R A;  4ZOJ A;  3NVW C;  1N8R J;  3PIO J;  4C7Z A;  3CCE H;  1N61 B;  1SIJ A;  3L0G A;  5GAG N;  1YI2 H;  4KWV A;  5AYY A;  1QPN A;  1O17 A;  2W55 B;  2W54 B;  1FO4 A;  4IO9 J;  3CMA H;  1Q7Y J;  1N63 B;  1VQ7 H;  1N5W B;  1ZXY A;  4ZOH A;  4F3F C;  3OW2 H;  1M1K J;  3CME H;  2OMD A;  1X1O A;  3G4S H;  1VQN H;  3EUB 4;  4GA4 A;  5GAD N;  1VQL H;  3ETR C;  1QPR A;  5H1S O;  1Q81 J;  4N93 A;  4X5B A;  1FMA E;  1KD1 J;  4YEK A;  1YHQ H;  4X5E A;  1QVF H;  4OWS A;  3CPW H;  4IOC J;  1Y69 K;  3NVY C;  3H5Q A;  4ZTV A;  4EAD A;  1QVG H;  4USA A;  5EY3 A;  1RM6 A;  3GBR A;  1SB3 A;  1UOU A;  3QSA A;  1VLB A;  5HUO A;  4OWM A;  4U67 J;  4IJ1 A;  2WK5 A;  4YYY A;  1N62 B;  3PIP J;  1N5X A;  3G71 H;  5C1R A;  1VQ4 H;  3NVZ C;  3CXC H;  4C80 A;  2J0F A;  3BII E;  4M0R A;  3CCU H;  4OWV A;  1AZY A;  1FIQ C;  4LHM A;  1KC8 J;  2DSJ A;  3FAH A;  3CC4 H;  1DGJ A;  4WFA J;  1K8A J;  4UY8 M;  2JBM A;  5C2L A;  5MPO C;  4IOA J;  2B7Q A;  3CF5 J;  2ELC A;  3AM9 A;  1YJ9 H;  1FM0 E;  1V97 A;  4C7Y A;  1VQU A;  2W3R B;  4N5V A;  1Q82 J;  3DLL J;  1VQ6 H;  1S72 H;  4GTN A;  3VMM A;  2BPQ A;  3UU1 A;  1VQO H;  4X5C A;  4ZOK A;  1JRP B;  1ZXI B;  1NVJ A;  3AMZ A;  3NS1 C;  2ZJQ J;  1VQ8 H;  4X58 A;  5JVH J;  3SR6 C;  1VQM H;  3R6C A;  4YI7 A;  1WYG A;  3CCM H;  5C7S A;  4GA6 A;  5BO2 A;  3L4P A;  1NJI J;  1VQ9 H;  5AYX A;  4KWW A;  3CCR H;  3CCL H;  2QEX H;  4XR5 A;  1YIJ H;  3C2V A;  1M90 J;  1KQS H;  1KHD A;  1QPO A;  1YTE A;  3GNN A;  3CC2 H;  1YTK A;  3C2F A;  4WF9 J;  1YIT H;  1ZYK A;  2B7N A;  5BYT A;  5JVG J;  3QR9 A;  5DM6 J;  3WNZ A;  4OWN A;  4OWQ A;  3I56 H;  4X5D A;  3AN1 A;  2TPT A;  4X46 A;  3QQS A;  1NVI E;  1VDV A;  4GIU A;  2WK6 A;  1W2B H;  2Q5W E;  1YTD A;  3CD6 H; 
#chains in the Genus database with same CATH homology
 4X5A A;  4GKM A;  5BO3 A;  3R88 A;  4MUO A;  3QS8 A;  4HKM A;  5BNE A;  4ZOF A;  5EP8 A;  4GA5 A;  1V8G A;  2GVQ A;  1ZVW A;  4N8Q A;  4OWU A;  1OTP A;  1GXB A;  4OWO A;  4X59 A;  4EAF A;  1BRW A;  1KGZ A;  3TWP A;  4ZOJ A;  1O17 A;  1ZXY A;  4GA4 A;  4N93 A;  4X5B A;  4YEK A;  4X5E A;  4OWS A;  3H5Q A;  4ZTV A;  4EAD A;  5EY3 A;  3GBR A;  1UOU A;  3QSA A;  4OWM A;  4IJ1 A;  2WK5 A;  4YYY A;  5C1R A;  2J0F A;  4M0R A;  4OWV A;  1AZY A;  4LHM A;  2DSJ A;  5C2L A;  2ELC A;  1VQU A;  4N5V A;  4GTN A;  2BPQ A;  3UU1 A;  4X5C A;  4ZOK A;  4X58 A;  3R6C A;  4YI7 A;  5C7S A;  5BO2 A;  4GA6 A;  4XR5 A;  1KHD A;  1ZYK A;  5BYT A;  3QR9 A;  4OWN A;  4OWQ A;  4X5D A;  2TPT A;  4X46 A;  3QQS A;  4GIU A;  2WK6 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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5EY3A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations