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
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 tags Transferase
source organism Bacillus subtilis subsp. subtilis str. 168
publication title X-Ray Structure of the Complex Pyrimidine-nucleoside phosphorylase from Bacillus subtilis with Sulfate Ion
rcsb
molecule keywords Pyrimidine-nucleoside phosphorylase
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
4OWMA 4X5DA 1KHDA 3QQSA 4OWVA 5BYTA 3GBRA 1OTPA 5BNEA 4YI7A 1VQUA 1UOUA 1O17A 2GVQA 2BPQA 4HKMA 4YEKA 3R88A 4ZTVA 1V8GA 1ZVWA 4OWUA 4XR5A 4GA4A 4X59A 4MUOA 2TPTA 4GA5A 4X5EA 3QS8A 1BRWA 2ELCA 3R6CA 4X5AA 4ZOJA 4X46A 2DSJA 4M0RA 4ZOKA 1GXBA 5BO3A 4X5BA 5EP8A 5C2LA 3H5QA 4N5VA 1AZYA 3QSAA 5EY3A 4IJ1A 3QR9A 2J0FA 4EAFA 4X5CA 4OWSA 4N8QA 4LHMA 1ZYKA 4X58A 4OWQA 4GA6A 4GTNA 4GKMA 1ZXYA 4EADA 4ZOFA 5C7SA 4GIUA 2WK5A 1KGZA 4N93A 5C1RA 2WK6A 5BO2A 4OWOA 4YYYA 3UU1A 4OWNA 3TWPA
chains in the Genus database with same CATH superfamily
3NVZC 3CC7H 4OWMA 4X5DA 3C2OA 5MPOC 1KHDA 5HULA 4US8A 3QQSA 3G6EH 1VQ6H 4OWVA 5BYTA 2QEXH 3GBRA 2OMDA 5HUPA 5AYZA 1OTPA 2B7PA 5MLCO 3GNNA 5BNEA 4YI7A 3AN1A 1VQUA 4C7YA 1UOUA 1O17A 1N5WB 2GVQA 2BPQA 1WKIA 1WYGA 4HKMA 3CC4H 4YEKA 3CCSH 3R88A 4ZTVA 1JROB 5JVHJ 1VQ4H 2E3TA 1V8GA 1FM0E 3J7ZM 1YJWH 3FC4A 1ZVWA 4KWVA 3CPWH 4WFNJ 3CCRH 4OWUA 3PIOJ 3WO1A 1VQ8H 2QIEA 4XR5A 1YJ9H 3C2FA 1FMAE 4GA4A 4X59A 3EUB4 3G4SH 1VLBA 4MUOA 1VQMH 3CCLH 2TPTA 4GA5A 1K73J 1M1KJ 5AN9F 1FFUB 4X5EA 4WFBJ 3PIPJ 3QS8A 1N63B 3AM9A 4UY8M 1BRWA 3L0GA 3CD6H 5DM6J 1VQOH 2ELCA 3R6CA 4C80A 4X5AA 4ZOJA 4X46A 2DSJA 4M0RA 4ZOKA 2I14A 3C2VA 3CC2H 4I9AA 4F3FC 3PAJA 3CF5J 3B9JC 1GXBA 3VMMA 1QVFH 3WNZA 3CCQH 5BO3A 3NRZC 2B7NA 4X5BA 5EP8A 4WCEJ 1K9MJ 4IOAJ 4WFAJ 2I1OA 1YJNH 5GAGN 5C2LA 1N61B 1QPNA 4U67J 3OW2H 1NVJA 1Q82J 5H1SO 1YI2H 1KC8J 1JRPB 3H5QA 5HUOA 4N5VA 1ZXIB 1V97A 1AZYA 5GAEN 3CCUH 3CCJH 2PA2A 1SB3A 3QSAA 3L4PA 3CCEH 1KD1J 5EY3A 3NVWC 1RRZA 1VQ9H 1FIQC 4IJ1A 3QR9A 2ZJPJ 2J0FA 1YHQH 1K8AJ 1Q81J 4EAFA 4X5CA 1N60B 2W3RB 1YITH 4OWSA 1DGJA 1N62B 1RM6A 4N8QA 1QPRA 3NVVC 1VQPH 4LHMA 1QAPA 4C7ZA 3G71H 3CCMH 1VQ7H 3FAHA 1YIJH 1RF8B 2QA4H 1ZYKA 3NVYC 2W55B 4X58A 3RPFA 5DM7J 5JVGJ 1KQSH 1N8RJ 3C2EA 5GADN 4OWQA 1SIJA 1Q7YJ 5GAHN 3CMAH 2B7QA 1VQNH 3CCVH 1NVIE 2Q5WE 4GA6A 3CXCH 3C2RA 4GTNA 4GKMA 1VQLH 1QPQA 5AYYA 1YTKA 4US9A 1YTDA 1FO4A 1ZXYA 4WF9J 1W2BH 2W3SB 4EADA 5AYXA 2OTLH 1Q86J 4ZOFA 1QVGH 5HL7J 2ZJRJ 5C7SA 3ETRC 1YTEA 1M90J 3SR6C 4GIUA 3I56H 2WP4A 4IOCJ 1S72H 2WK5A 1QPOA 1N5XA 4KWWA 3WO0A 1KGZA 4N93A 1JJ2H 2ZJQJ 5C1RA 4USAA 2JBMA 1NJIJ 1VQ5H 4ZOHA 2W54B 2WK6A 4IO9J 3I55H 5BO2A 3NS1C 1Y69K 2OTJH 4OWOA 1X1OA 3TQVA 3DLLJ 4AP8A 1VQKH 4YYYA 1O4UA 3UU1A 3AMZA 1VDVA 1FFVB 4OWNA 3BIIE 3TWPA 3CMEH
chains in the Genus database with same CATH topology
4OWMA 4X5DA 1KHDA 3QQSA 4OWVA 5BYTA 3GBRA 1OTPA 5BNEA 4YI7A 1VQUA 1UOUA 1O17A 2GVQA 2BPQA 4HKMA 4YEKA 3R88A 4ZTVA 1V8GA 1ZVWA 4OWUA 4XR5A 4GA4A 4X59A 4MUOA 2TPTA 4GA5A 4X5EA 3QS8A 1BRWA 2ELCA 3R6CA 4X5AA 4ZOJA 4X46A 2DSJA 4M0RA 4ZOKA 1GXBA 5BO3A 4X5BA 5EP8A 5C2LA 3H5QA 4N5VA 1AZYA 3QSAA 5EY3A 4IJ1A 3QR9A 2J0FA 4EAFA 4X5CA 4OWSA 4N8QA 4LHMA 1ZYKA 4X58A 4OWQA 4GA6A 4GTNA 4GKMA 1ZXYA 4EADA 4ZOFA 5C7SA 4GIUA 2WK5A 1KGZA 4N93A 5C1RA 2WK6A 5BO2A 4OWOA 4YYYA 3UU1A 4OWNA 3TWPA
chains in the Genus database with same CATH homology


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