1VQ8H

The structure of ccda-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 1vq8H00
1YI2H 4U67J 3G4SH 3CD6H 5GAGN 1VQNH 1VQ8H 5JVHJ 3CCUH 3CCEH 3CC7H 1YJNH 3CCMH 1Q81J 5JVGJ 1YJWH 1YIJH 3I56H 1VQ6H 2QA4H 1QVFH 3CC2H 3DLLJ 1YITH 1VQOH 2ZJRJ 1VQ7H 1VQPH 1K73J 4WFNJ 2ZJPJ 2PA2A 1K9MJ 5H1SO 3CCVH 5GAEN 3G71H 3OW2H 1Q82J 1VQ9H 5MLCO 1VQ5H 1M1KJ 4WFBJ 3CMEH 1Q86J 1VQKH 1KD1J 3CCLH 4IOAJ 3CCJH 1VQLH 5AN9F 1YJ9H 3PIOJ 1Y69K 3PIPJ 1W2BH 4UY8M 3J7ZM 4WCEJ 2ZJQJ 5GAHN 5DM7J 3CCQH 1M90J 3I55H 3CF5J 4WF9J 3CC4H 2OTJH 1Q7YJ 3G6EH 1KQSH 5HL7J 2OTLH 3CXCH 1N8RJ 4IO9J 1VQMH 1YHQH 1S72H 4WFAJ 1NJIJ 3CMAH 1VQ4H 4IOCJ 1KC8J 5GADN 1K8AJ 3CPWH 3CCRH 1WKIA 2QEXH 1QVGH 1JJ2H 5DM6J 3CCSH
chains in the Genus database with same CATH superfamily
1BRWA 1YI2H 4U67J 3G4SH 3PAJA 3CD6H 3WNZA 1N5XA 2B7PA 5GAGN 1VQNH 1VDVA 3NVWC 1VQ8H 4C7ZA 5JVHJ 4EADA 1JRPB 3CCUH 4EAFA 3CCEH 1FFVB 1QPQA 5AYYA 3CC7H 1QPRA 1QPNA 3SR6C 4YYYA 1YJNH 3CCMH 1Q81J 5JVGJ 1YJWH 1YIJH 3WO1A 3I56H 4US9A 5EP8A 1VQ6H 4I9AA 3NVZC 1X1OA 2QA4H 2E3TA 1QVFH 5MPOC 3CC2H 1VLBA 3DLLJ 1YITH 1N60B 2DSJA 4LHMA 4US8A 2B7QA 1VQOH 2ZJRJ 1VQ7H 5HUPA 1VQPH 1K73J 4KWWA 3ETRC 4WFNJ 2ZJPJ 2PA2A 1K9MJ 5H1SO 5AYZA 1DGJA 3CCVH 5GAEN 3G71H 3OW2H 2WK6A 1Q82J 1SIJA 4USAA 1QPOA 1VQ9H 3L4PA 3RPFA 4GA5A 5MLCO 1VQ5H 2WP4A 1FIQC 1M1KJ 4WFBJ 3C2EA 1N5WB 3CMEH 1YTDA 1ZXIB 4KWVA 1Q86J 4ZOHA 5EY3A 1VQKH 1KD1J 3CCLH 4GA6A 1SB3A 4IOAJ 3AN1A 3CCJH 4X46A 1VQLH 5AYXA 3C2FA 3FC4A 5AN9F 1YJ9H 3PIOJ 1Y69K 3PIPJ 1W2BH 4C7YA 3EUB4 3B9JC 3J7ZM 4WCEJ 3NRZC 1FM0E 4AP8A 2ZJQJ 4UY8M 5GAHN 5DM7J 2J0FA 1N63B 4YEKA 2W55B 1OTPA 4XR5A 3CCQH 1FFUB 1YTEA 3C2OA 3I55H 1M90J 3CF5J 1O4UA 4C80A 4WF9J 3CC4H 2I14A 2OTJH 2W3RB 3BIIE 1AZYA 1Q7YJ 2I1OA 3GNNA 1N61B 1UOUA 2QIEA 3G6EH 1KQSH 2B7NA 1WYGA 5HL7J 3WO0A 3CXCH 2OTLH 5HULA 3AMZA 1NVIE 1FMAE 1JROB 1FO4A 2W54B 2OMDA 1N8RJ 4IO9J 4GA4A 1VQMH 3VMMA 1YTKA 1N62B 1NVJA 3NVVC 1YHQH 3AM9A 1S72H 4WFAJ 1NJIJ 3CMAH 3C2VA 1VQ4H 2WK5A 3C2RA 4IOCJ 2Q5WE 2JBMA 5HUOA 5GADN 3H5QA 1KC8J 1K8AJ 3CPWH 1QAPA 3CCRH 2TPTA 1WKIA 3NS1C 2QEXH 1QVGH 1JJ2H 3FAHA 5DM6J 3CCSH 1V97A 1RM6A 3L0GA 3NVYC 2W3SB 3TQVA
chains in the Genus database with same CATH topology
1YI2H 4U67J 3G4SH 3CD6H 5GAGN 1VQNH 1VQ8H 5JVHJ 3CCUH 3CCEH 3CC7H 1YJNH 3CCMH 1Q81J 5JVGJ 1YJWH 1YIJH 3I56H 1VQ6H 2QA4H 1QVFH 3CC2H 3DLLJ 1YITH 1VQOH 2ZJRJ 1VQ7H 1VQPH 1K73J 4WFNJ 2ZJPJ 2PA2A 1K9MJ 5H1SO 3CCVH 5GAEN 3G71H 3OW2H 1Q82J 1VQ9H 5MLCO 1VQ5H 1M1KJ 4WFBJ 3CMEH 1Q86J 1VQKH 1KD1J 3CCLH 4IOAJ 3CCJH 1VQLH 5AN9F 1YJ9H 3PIOJ 1Y69K 3PIPJ 1W2BH 4UY8M 3J7ZM 4WCEJ 2ZJQJ 5GAHN 5DM7J 3CCQH 1M90J 3I55H 3CF5J 4WF9J 3CC4H 2OTJH 1Q7YJ 3G6EH 1KQSH 5HL7J 2OTLH 3CXCH 1N8RJ 4IO9J 1VQMH 1YHQH 1S72H 4WFAJ 1NJIJ 3CMAH 1VQ4H 4IOCJ 1KC8J 5GADN 1K8AJ 3CPWH 3CCRH 1WKIA 2QEXH 1QVGH 1JJ2H 5DM6J 3CCSH
chains in the Genus database with same CATH homology


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