1VQ7H

The structure of the transition state analogue "dca" 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 An induced-fit mechanism to promote peptide bond formation and exclude hydrolysis of peptidyl-tRNA.
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 1vq7H00
4WFBJ 1Q82J 1VQ9H 3CC4H 1KC8J 1KQSH 1QVGH 3PIPJ 1K9MJ 1VQ5H 3CXCH 1YIJH 1QVFH 4WFNJ 1NJIJ 3CCMH 5GAGN 3CCLH 4IOCJ 1Q86J 1KD1J 1VQPH 4WF9J 1VQ6H 5JVHJ 3I55H 3G71H 3DLLJ 1VQOH 3I56H 3CCEH 1M90J 4WCEJ 5MLCO 2QA4H 5GADN 3CF5J 3CMAH 4U67J 4WFAJ 1VQ7H 1WKIA 3G4SH 2ZJPJ 4UY8M 1VQLH 1VQKH 2ZJRJ 5HL7J 3PIOJ 5GAHN 1K73J 1VQNH 3CMEH 3CC7H 3CCUH 5H1SO 1W2BH 2ZJQJ 3CCVH 1VQ8H 1S72H 1K8AJ 3G6EH 3CD6H 1YJNH 5DM7J 3CCJH 3CC2H 1JJ2H 3OW2H 1YJ9H 2PA2A 1YITH 1YHQH 3CPWH 1YJWH 3CCQH 2QEXH 3CCSH 5JVGJ 1VQ4H 2OTJH 5AN9F 4IOAJ 1YI2H 5GAEN 3CCRH 1N8RJ 1Y69K 5DM6J 1Q7YJ 1Q81J 1M1KJ 1VQMH 2OTLH 3J7ZM 4IO9J
chains in the Genus database with same CATH superfamily
4WFBJ 4KWWA 1Q82J 1VQ9H 5HUOA 3CC4H 1FMAE 1N5WB 4C7ZA 1KC8J 1KQSH 1QVGH 1WYGA 3PIPJ 1K9MJ 1DGJA 2W3RB 1YTDA 1VQ5H 1NVJA 3CXCH 1YIJH 1QVFH 1FFUB 3FC4A 3AM9A 3WO1A 4WFNJ 2W55B 1NJIJ 3NVYC 5AYXA 1NVIE 4X46A 3CCMH 1ZXIB 5GAGN 3CCLH 4IOCJ 4EAFA 1Q86J 1KD1J 1VQPH 3C2VA 2JBMA 4WF9J 4C7YA 2Q5WE 1VQ6H 5JVHJ 3I55H 3G71H 3FAHA 3DLLJ 5MPOC 3NRZC 1VQOH 3I56H 3TQVA 3CCEH 1M90J 4EADA 3AN1A 3NVVC 4WCEJ 1YTKA 5MLCO 2QA4H 2WP4A 5GADN 3CF5J 3CMAH 4U67J 1V97A 4WFAJ 1JROB 4GA5A 3C2EA 1WKIA 2B7QA 2TPTA 3G4SH 2ZJPJ 1VQ7H 3L0GA 5AYZA 1RM6A 4I9AA 4USAA 2W54B 1VQLH 4UY8M 1VQKH 3NS1C 5EY3A 2ZJRJ 4GA6A 5HL7J 5HUPA 3VMMA 3B9JC 1QPRA 3PIOJ 2WK5A 3WNZA 5GAHN 1K73J 1AZYA 1QPQA 3PAJA 3CMEH 3CC7H 1VQNH 1VLBA 3CCUH 3BIIE 5H1SO 1W2BH 2ZJQJ 3CCVH 2E3TA 3C2RA 1YTEA 1JJ2H 1VQ8H 1S72H 1K8AJ 4C80A 3G6EH 1N5XA 3CD6H 1YJNH 5DM7J 1X1OA 4US9A 3ETRC 2I14A 3L4PA 2B7NA 1QPNA 2WK6A 3CCJH 3CC2H 3GNNA 4GA4A 1SB3A 4AP8A 3WO0A 4ZOHA 5EP8A 2B7PA 5HULA 3NVWC 3C2OA 2W3SB 2DSJA 3RPFA 4YEKA 5AYYA 4US8A 2PA2A 3OW2H 1N60B 1YJ9H 1YITH 1YHQH 3CPWH 1YJWH 1FM0E 3CCQH 1BRWA 2QEXH 3CCSH 1JRPB 1QAPA 2I1OA 1N63B 5JVGJ 1FO4A 1VQ4H 1N62B 2OTJH 2OMDA 5AN9F 1SIJA 4KWVA 1YI2H 4IOAJ 5GAEN 3CCRH 1N8RJ 1Y69K 3SR6C 4XR5A 5DM6J 1Q7YJ 1Q81J 1OTPA 1N61B 1FIQC 1VDVA 4LHMA 1M1KJ 1VQMH 3C2FA 1O4UA 2OTLH 1QPOA 1UOUA 1FFVB 4YYYA 3EUB4 3NVZC 3AMZA 3H5QA 3J7ZM 4IO9J 2J0FA 2QIEA
chains in the Genus database with same CATH topology
4WFBJ 1Q82J 1VQ9H 3CC4H 1KC8J 1KQSH 1QVGH 3PIPJ 1K9MJ 1VQ5H 3CXCH 1YIJH 1QVFH 4WFNJ 1NJIJ 3CCMH 5GAGN 3CCLH 4IOCJ 1Q86J 1KD1J 1VQPH 4WF9J 1VQ6H 5JVHJ 3I55H 3G71H 3DLLJ 1VQOH 3I56H 3CCEH 1M90J 4WCEJ 5MLCO 2QA4H 5GADN 3CF5J 3CMAH 4U67J 4WFAJ 1VQ7H 1WKIA 3G4SH 2ZJPJ 4UY8M 1VQLH 1VQKH 2ZJRJ 5HL7J 3PIOJ 5GAHN 1K73J 1VQNH 3CMEH 3CC7H 3CCUH 5H1SO 1W2BH 2ZJQJ 3CCVH 1VQ8H 1S72H 1K8AJ 3G6EH 3CD6H 1YJNH 5DM7J 3CCJH 3CC2H 1JJ2H 3OW2H 1YJ9H 2PA2A 1YITH 1YHQH 3CPWH 1YJWH 3CCQH 2QEXH 3CCSH 5JVGJ 1VQ4H 2OTJH 5AN9F 4IOAJ 1YI2H 5GAEN 3CCRH 1N8RJ 1Y69K 5DM6J 1Q7YJ 1Q81J 1M1KJ 1VQMH 2OTLH 3J7ZM 4IO9J
chains in the Genus database with same CATH homology


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