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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molecule tags Ribosome
molecule keywords 23S ribosomal rna
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
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
5DM6J 3CC7H 1YJ9H 1VQLH 3J7ZM 1QVFH 1YIJH 1Q82J 1YJNH 5AN9F 1YJWH 1M1KJ 3G4SH 3I55H 1VQMH 3OW2H 1VQ5H 1VQKH 5GAGN 3CF5J 1YHQH 1WKIA 1Y69K 1KC8J 2ZJRJ 1VQ9H 3PIOJ 4WFNJ 3G71H 3CCEH 2OTJH 1S72H 5H1SO 5HL7J 3CCQH 3DLLJ 5GAEN 5JVHJ 4WCEJ 3CCLH 1K73J 1Q86J 1VQNH 3CCSH 3CMEH 1VQOH 4WFBJ 1VQPH 4WFAJ 4UY8M 3CCRH 1K8AJ 1YITH 1Q81J 5MLCO 3PIPJ 3G6EH 1KQSH 3CXCH 1VQ4H 1W2BH 1KD1J 1N8RJ 4IOCJ 1VQ8H 1Q7YJ 2QEXH 5JVGJ 4WF9J 3CC4H 3CC2H 3CPWH 2ZJPJ 1VQ7H 3CCVH 1M90J 1JJ2H 2ZJQJ 4IOAJ 1VQ6H 1QVGH 4U67J 3CCMH 1K9MJ 3I56H 4IO9J 1NJIJ 2PA2A 3CD6H 1YI2H 5GAHN 5DM7J 2QA4H 2OTLH 3CCUH 3CCJH 5GADN 3CMAH
chains in the Genus database with same CATH superfamily
4X46A 1QPNA 5DM6J 3CC7H 1FIQC 1X1OA 1YJ9H 1VQLH 1FMAE 2I1OA 3SR6C 3J7ZM 1QVFH 4AP8A 1YIJH 1Q82J 1YJNH 2JBMA 3NVYC 5AN9F 1YJWH 1M1KJ 1V97A 3G4SH 1SB3A 3I55H 1BRWA 3B9JC 1VQMH 2E3TA 3OW2H 3AM9A 1SIJA 3ETRC 4LHMA 1QPOA 1VQ5H 1VQKH 5HUOA 4C80A 1FM0E 2TPTA 5GAGN 3CF5J 2OMDA 3EUB4 3L4PA 1YHQH 2I14A 1WKIA 3AN1A 1Y69K 1NVIE 1KC8J 2W55B 1JRPB 2WK6A 2DSJA 2Q5WE 2ZJRJ 5HULA 3NRZC 3GNNA 1VQ9H 3PIOJ 1NVJA 3VMMA 4WFNJ 3NS1C 3G71H 3CCEH 1N5XA 3RPFA 1ZXIB 2OTJH 1S72H 4C7ZA 4I9AA 5H1SO 4GA4A 5AYYA 5HL7J 3CCQH 3DLLJ 1YTEA 1N63B 5GAEN 2W3SB 1JROB 3H5QA 4US9A 5JVHJ 4WCEJ 3CCLH 3L0GA 1K73J 1Q86J 2WK5A 1VQNH 3CCSH 2W54B 1QPQA 3CMEH 1VQOH 4WFBJ 1VQPH 3PAJA 4WFAJ 3NVZC 4UY8M 4US8A 3CCRH 4C7YA 1K8AJ 1FFVB 3C2VA 3NVWC 3TQVA 1N62B 1YITH 2J0FA 1FFUB 1Q81J 2WP4A 5MLCO 1VDVA 3PIPJ 1AZYA 3G6EH 2B7NA 5EY3A 1KQSH 4EAFA 5HUPA 3CXCH 1VQ4H 1UOUA 1W2BH 1KD1J 1N8RJ 4IOCJ 1VQ8H 4KWVA 1VLBA 1Q7YJ 4GA6A 2QEXH 3C2EA 1WYGA 2B7PA 3C2RA 1N60B 2B7QA 1YTDA 3WNZA 1QPRA 3WO1A 4EADA 5JVGJ 3NVVC 3C2FA 5AYXA 4YEKA 4WF9J 1RM6A 4YYYA 3CC2H 1QAPA 3CC4H 3WO0A 3CPWH 3FAHA 1N5WB 2ZJPJ 1VQ7H 3CCVH 1M90J 1JJ2H 2ZJQJ 2W3RB 5AYZA 3FC4A 4IOAJ 1VQ6H 4USAA 5EP8A 1QVGH 4U67J 3CCMH 1K9MJ 3I56H 4IO9J 3BIIE 1N61B 1NJIJ 4XR5A 4ZOHA 5MPOC 2PA2A 4GA5A 3AMZA 1DGJA 3CD6H 1YI2H 2QIEA 5GAHN 5DM7J 4KWWA 2QA4H 2OTLH 1YTKA 3C2OA 1FO4A 3CCUH 1O4UA 1OTPA 3CCJH 5GADN 3CMAH
chains in the Genus database with same CATH topology
5DM6J 3CC7H 1YJ9H 1VQLH 3J7ZM 1QVFH 1YIJH 1Q82J 1YJNH 5AN9F 1YJWH 1M1KJ 3G4SH 3I55H 1VQMH 3OW2H 1VQ5H 1VQKH 5GAGN 3CF5J 1YHQH 1WKIA 1Y69K 1KC8J 2ZJRJ 1VQ9H 3PIOJ 4WFNJ 3G71H 3CCEH 2OTJH 1S72H 5H1SO 5HL7J 3CCQH 3DLLJ 5GAEN 5JVHJ 4WCEJ 3CCLH 1K73J 1Q86J 1VQNH 3CCSH 3CMEH 1VQOH 4WFBJ 1VQPH 4WFAJ 4UY8M 3CCRH 1K8AJ 1YITH 1Q81J 5MLCO 3PIPJ 3G6EH 1KQSH 3CXCH 1VQ4H 1W2BH 1KD1J 1N8RJ 4IOCJ 1VQ8H 1Q7YJ 2QEXH 5JVGJ 4WF9J 3CC4H 3CC2H 3CPWH 2ZJPJ 1VQ7H 3CCVH 1M90J 1JJ2H 2ZJQJ 4IOAJ 1VQ6H 1QVGH 4U67J 3CCMH 1K9MJ 3I56H 4IO9J 1NJIJ 2PA2A 3CD6H 1YI2H 5GAHN 5DM7J 2QA4H 2OTLH 3CCUH 3CCJH 5GADN 3CMAH
chains in the Genus database with same CATH homology


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