1VQ9H

The structure of cca-phe-cap-bio and the antibiotic sparsomycin bound to the large ribosomal subunit of haloarcula marismortui
Total Genus 39
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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
39
sequence length
171
structure length
160
Chain Sequence
KPASMYRDIDKPAYTRREYITGIPGSKIAQHKMGRKQKDADDYPVQISLIVEETVQLRHGSLEASRLSANRHLIKELGEEGDYKMTLRKFPHQVLRENKDGMRAAFGKIVGTAARVQAGEQLFTAYCNVEDAEHVKEAFRRAYNKITPSCRIDSSPAGNA
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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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publication title Structural Insights into the Roles of Water and the 2' Hydroxyl of the P Site tRNA in the Peptidyl Transferase Reaction.
pubmed doi rcsb
molecule tags Ribosome
molecule keywords 23S ribosomal rna
total genus 39
structure length 160
sequence length 171
ec nomenclature
pdb deposition date 2004-12-16
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.90.1170.10 Alpha Beta Alpha-Beta Complex Aldehyde Oxidoreductase; domain 3 Ribosomal protein L10e/L16 1vq9H00
5HL7J 1YITH 1W2BH 1VQ8H 1VQMH 1K9MJ 3CMEH 4IO9J 1WKIA 2QEXH 4IOAJ 1VQ9H 5JVHJ 1VQ5H 2QA4H 3CPWH 3PIPJ 1VQPH 3CF5J 1YI2H 3CCJH 2ZJPJ 1YHQH 1Q7YJ 1YIJH 1VQOH 5DM7J 4UY8M 5GAGN 1QVFH 1NJIJ 1N8RJ 1YJNH 4IOCJ 3OW2H 1K73J 2OTLH 1Y69K 2ZJQJ 3CCMH 5H1SO 3G6EH 1KC8J 1Q82J 3CD6H 1VQ6H 5JVGJ 1S72H 3PIOJ 1VQ4H 5GAHN 1YJWH 3I55H 3J7ZM 1YJ9H 3CCQH 5MLCO 3CXCH 4WF9J 3CCVH 1Q81J 2OTJH 3DLLJ 3CCSH 3CC4H 4U67J 3CMAH 3CC2H 4WFNJ 1VQ7H 4WFBJ 1QVGH 3G71H 1KD1J 1Q86J 1VQKH 1VQLH 2PA2A 3I56H 4WFAJ 1M1KJ 1KQSH 5GADN 3CC7H 2ZJRJ 1VQNH 5GAEN 3CCEH 1JJ2H 3CCRH 5AN9F 1K8AJ 5DM6J 3CCUH 3CCLH 3G4SH 4WCEJ 1M90J
chains in the Genus database with same CATH superfamily
4X46A 1N63B 5HL7J 1YITH 1W2BH 1K9MJ 1VQ8H 1VQMH 3CMEH 4IO9J 2J0FA 1WKIA 2QEXH 1N62B 1ZXIB 3C2FA 1QPOA 1SB3A 5AYXA 1VQ9H 4KWVA 5JVHJ 4IOAJ 1VQ5H 2QA4H 1UOUA 4LHMA 3AM9A 2B7NA 2Q5WE 4I9AA 5EP8A 3CPWH 3PIPJ 1VQPH 3CF5J 1YI2H 3CCJH 2ZJPJ 1NVIE 1YHQH 1Q7YJ 1YIJH 1OTPA 1VQOH 5DM7J 4UY8M 1AZYA 1VDVA 5GAGN 1QVFH 1NJIJ 4GA5A 1YTKA 1N8RJ 1YJNH 2OMDA 3RPFA 4IOCJ 2W3SB 1WYGA 4GA4A 3AMZA 5AYYA 4C7YA 4YEKA 3OW2H 1K73J 2OTLH 1Y69K 2ZJQJ 3CCMH 3FC4A 3VMMA 1QPRA 5H1SO 3G6EH 1KC8J 2E3TA 1Q82J 4C7ZA 3CD6H 1RM6A 2I14A 3GNNA 1VQ6H 3L4PA 2W3RB 1FO4A 5JVGJ 3PAJA 2WP4A 1QPQA 3C2OA 3WO0A 4C80A 5MPOC 3PIOJ 1S72H 4GA6A 5EY3A 1N5XA 1SIJA 1VQ4H 1FIQC 3NVZC 5GAHN 1YJWH 3WNZA 1FFVB 1VLBA 3NVWC 2DSJA 3EUB4 1FMAE 3I55H 3J7ZM 2W54B 5AYZA 1YJ9H 3CCQH 3NVVC 5MLCO 1DGJA 3TQVA 3CXCH 4WF9J 4EADA 5HUPA 3ETRC 3CCVH 3NRZC 4USAA 1Q81J 2OTJH 3DLLJ 3CCSH 1YTDA 3CC4H 3FAHA 4U67J 3CMAH 3CC2H 1QAPA 4WFNJ 3C2RA 1VQ7H 4WFBJ 1QVGH 1N5WB 3SR6C 3G71H 3NVYC 1KD1J 1Q86J 3AN1A 1VQKH 1VQLH 1BRWA 1FFUB 1FM0E 1YTEA 2PA2A 1N61B 3I56H 4WFAJ 3WO1A 1O4UA 3C2EA 1M1KJ 1KQSH 4XR5A 2WK6A 5GADN 1QPNA 3L0GA 4AP8A 3CC7H 2B7QA 2ZJRJ 1JROB 1VQNH 4ZOHA 5GAEN 3CCEH 1NVJA 4YYYA 1JJ2H 3CCRH 2JBMA 2TPTA 4KWWA 1JRPB 1N60B 5AN9F 1K8AJ 1X1OA 3NS1C 2WK5A 5HULA 5DM6J 3CCUH 3H5QA 4US8A 3CCLH 3G4SH 4US9A 4EAFA 3C2VA 4WCEJ 2I1OA 1M90J 5HUOA 2W55B 3BIIE 1V97A 2B7PA 3B9JC 2QIEA
chains in the Genus database with same CATH topology
5HL7J 1YITH 1W2BH 1VQ8H 1VQMH 1K9MJ 3CMEH 4IO9J 1WKIA 2QEXH 4IOAJ 1VQ9H 5JVHJ 1VQ5H 2QA4H 3CPWH 3PIPJ 1VQPH 3CF5J 1YI2H 3CCJH 2ZJPJ 1YHQH 1Q7YJ 1YIJH 1VQOH 5DM7J 4UY8M 5GAGN 1QVFH 1NJIJ 1N8RJ 1YJNH 4IOCJ 3OW2H 1K73J 2OTLH 1Y69K 2ZJQJ 3CCMH 5H1SO 3G6EH 1KC8J 1Q82J 3CD6H 1VQ6H 5JVGJ 1S72H 3PIOJ 1VQ4H 5GAHN 1YJWH 3I55H 3J7ZM 1YJ9H 3CCQH 5MLCO 3CXCH 4WF9J 3CCVH 1Q81J 2OTJH 3DLLJ 3CCSH 3CC4H 4U67J 3CMAH 3CC2H 4WFNJ 1VQ7H 4WFBJ 1QVGH 3G71H 1KD1J 1Q86J 1VQKH 1VQLH 2PA2A 3I56H 4WFAJ 1M1KJ 1KQSH 5GADN 3CC7H 2ZJRJ 1VQNH 5GAEN 3CCEH 1JJ2H 3CCRH 5AN9F 1K8AJ 5DM6J 3CCUH 3CCLH 3G4SH 4WCEJ 1M90J
chains in the Genus database with same CATH homology


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