5EP8A

X-ray structure of the complex pyrimidine-nucleoside phosphorylase from bacillus subtilis with sulfate ion
Total Genus 146
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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
146
sequence length
433
structure length
433
Chain Sequence
b'MRMVDIIIKKQNGKELTTEEIQFFVNGYTDGSIPDYQASALAMAIFFRDMSDRERADLTMAMVNSGETIDLSAIEGIKVDKHSTGGVGDTTTLVLAPLVAALDVPVAKMSGRGLGHTGGTIDKLEAIDGFHVELTKREFIKLVNRDKVAVIGQSGNLTPADKKLYALRDVTGTVNSIPLIASSIMSKKIAAGADAIVLDVKTGAGAFMKTEEDAAELAKAMVRIGNNVGRQTMAVISDMSQPLGFAIGNALEVKEAIDTLKGEGPEDLHELVLTLGSQMVVLAKKADTLDEARAKLEEVMKNGKALEKFKDFLKNQGGDSSIVDDPSKLPQAAYQIDVPAKEAGVVSEIVADEIGVAAMLLGAGRATKEDEIDLAVGIMLRKKVGDKVEKGEPLVTLYANRENVDEVIAKVYDNIRIAAEAKAPKLIHTLITE'
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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 Pyrimidine-nucleoside phosphorylase
publication title X-Ray Structure of the Complex Pyrimidine-nucleoside phosphorylase from Bacillus subtilis with Sulfate Ion
rcsb
source organism Bacillus subtilis subsp. subtilis str. 168
molecule tags Transferase
total genus 146
structure length 433
sequence length 433
chains with identical sequence B
ec nomenclature ec 2.4.2.2: Pyrimidine-nucleoside phosphorylase.
pdb deposition date 2015-11-11

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
ClassArchitectureTopologyHomologyDomain
1.20.970.10 Mainly Alpha Up-down Bundle Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 5ep8A01
3.40.1030.10 Alpha Beta 3-Layer(aba) Sandwich Pyrimidine Nucleoside Phosphorylase; Chain A, domain 2 Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain 5ep8A02
3.90.1170.30 Alpha Beta Alpha-Beta Complex Aldehyde Oxidoreductase; domain 3 Pyrimidine nucleoside phosphorylase-like, C-terminal domain 5ep8A03
5BYTA 4X5BA 5EP8A 1ZYKA 2WK6A 4N93A 4OWUA 3R6CA 5C2LA 1O17A 4YI7A 4OWVA 4X46A 4ZOJA 4OWQA 1V8GA 4ZOKA 4GA6A 2GVQA 4X5EA 2WK5A 4EAFA 1KHDA 3QS8A 4X58A 4HKMA 4OWOA 2ELCA 4OWMA 4N8QA 1BRWA 4X5DA 1ZXYA 5C7SA 1KGZA 3QSAA 5BO2A 5EY3A 4X5CA 3H5QA 4GTNA 2TPTA 1AZYA 4GIUA 1OTPA 4GKMA 4EADA 5BNEA 4N5VA 2DSJA 4M0RA 1VQUA 4IJ1A 4OWSA 3TWPA 2BPQA 4YEKA 4GA4A 4LHMA 2J0FA 4X59A 3GBRA 4YYYA 1ZVWA 5C1RA 3QQSA 1UOUA 4MUOA 4X5AA 4ZTVA 4GA5A 3UU1A 1GXBA 4ZOFA 5BO3A 3R88A 4XR5A 3QR9A 4OWNA
chains in the Genus database with same CATH superfamily
5BYTA 4X5BA 5EP8A 4US9A 1ZYKA 1FFUB 2WK6A 1V97A 4N93A 1WYGA 4OWUA 1QPQA 5AYXA 3R6CA 5C2LA 3G6EH 1O17A 4YI7A 1YTEA 4KWWA 3OW2H 3CCJH 1VQ7H 1N60B 3SR6C 1NVIE 3G4SH 1M90J 4OWVA 4X46A 1JRPB 1N8RJ 1N5WB 1Q86J 4ZOJA 3EUB4 1VQOH 4OWQA 1QPNA 3ETRC 3CXCH 1V8GA 1VDVA 1W2BH 1K9MJ 3CD6H 4ZOKA 4GA6A 2E3TA 1FIQC 4KWVA 2GVQA 4X5EA 1YJNH 1K8AJ 2WK5A 3CCEH 3VMMA 4EAFA 1KHDA 3CF5J 5HL7J 3QS8A 3CCLH 1NVJA 1VQKH 4X58A 4F3FC 4HKMA 5GAEN 4OWOA 5DM6J 5JVGJ 1VQ5H 4IOAJ 1K73J 3AN1A 1N5XA 4AP8A 2ELCA 2QIEA 4OWMA 5GAHN 3CCVH 4N8QA 1VQ8H 3L0GA 3RPFA 2W55B 1BRWA 3FC4A 5DM7J 3C2RA 1YTDA 3DLLJ 1YTKA 4X5DA 1QAPA 3WO0A 1ZXYA 5HULA 3PIPJ 5GADN 1QPOA 5C7SA 5AN9F 3BIIE 1KGZA 3B9JC 2W54B 2W3SB 3QSAA 4WFAJ 5BO2A 4C80A 5EY3A 3NVVC 2ZJQJ 4X5CA 1QPRA 3H5QA 3CCSH 1JROB 4WFNJ 1VQLH 2I1OA 2QA4H 1VQMH 1SB3A 1RM6A 1VQNH 1WKIA 1VQ4H 5HUOA 1Q82J 1KD1J 1KQSH 1KC8J 3PIOJ 5H1SO 4GTNA 3C2EA 3TQVA 2TPTA 3CMEH 1AZYA 4GIUA 1X1OA 2PA2A 3I55H 4IO9J 3CPWH 1SIJA 4UY8M 1OTPA 5AYYA 4C7YA 4I9AA 2JBMA 4GKMA 4EADA 3WO1A 5BNEA 1FFVB 3G71H 1RRZA 1YIJH 4N5VA 2DSJA 3AM9A 1Q81J 4M0RA 1VQUA 2OTLH 3I56H 4US8A 5MPOC 4IJ1A 4OWSA 1NJIJ 3CCMH 4ZOHA 3TWPA 3NS1C 2BPQA 4C7ZA 4YEKA 5MLCO 4GA4A 4LHMA 4WF9J 3NVWC 1VLBA 4U67J 2J0FA 4X59A 3PAJA 5AYZA 1Q7YJ 1QVFH 3AMZA 3CC7H 2OTJH 2ZJPJ 3GBRA 4YYYA 1VQ6H 3NVZC 1ZVWA 2B7PA 3L4PA 3CCQH 1YJWH 2B7QA 1O4UA 2B7NA 1M1KJ 1YJ9H 3NRZC 1QVGH 2W3RB 3CCRH 4WCEJ 1YI2H 3CCUH 5C1RA 2WP4A 1FO4A 3NVYC 3C2OA 3QQSA 1FM0E 1YITH 1VQPH 4USAA 1YHQH 1DGJA 5HUPA 1UOUA 3FAHA 4MUOA 2I14A 4WFBJ 4X5AA 4ZTVA 2OMDA 4GA5A 1N61B 3WNZA 5GAGN 2QEXH 1Y69K 3J7ZM 1RF8B 1JJ2H 3UU1A 1GXBA 4ZOFA 1N62B 1N63B 3C2FA 3CC2H 3CC4H 1S72H 2Q5WE 5BO3A 3C2VA 4IOCJ 2ZJRJ 1FMAE 1VQ9H 3R88A 3GNNA 4XR5A 1ZXIB 3QR9A 3CMAH 4OWNA 5JVHJ
chains in the Genus database with same CATH topology
5BYTA 4X5BA 5EP8A 1ZYKA 2WK6A 4N93A 4OWUA 3R6CA 5C2LA 1O17A 4YI7A 4OWVA 4X46A 4ZOJA 4OWQA 1V8GA 4ZOKA 4GA6A 2GVQA 4X5EA 2WK5A 4EAFA 1KHDA 3QS8A 4X58A 4HKMA 4OWOA 2ELCA 4OWMA 4N8QA 1BRWA 4X5DA 1ZXYA 5C7SA 1KGZA 3QSAA 5BO2A 5EY3A 4X5CA 3H5QA 4GTNA 2TPTA 1AZYA 4GIUA 1OTPA 4GKMA 4EADA 5BNEA 4N5VA 2DSJA 4M0RA 1VQUA 4IJ1A 4OWSA 3TWPA 2BPQA 4YEKA 4GA4A 4LHMA 2J0FA 4X59A 3GBRA 4YYYA 1ZVWA 5C1RA 3QQSA 1UOUA 4MUOA 4X5AA 4ZTVA 4GA5A 3UU1A 1GXBA 4ZOFA 5BO3A 3R88A 4XR5A 3QR9A 4OWNA
chains in the Genus database with same CATH homology


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