1VQMH

The structure of the transition state analogue "dan" bound to the large ribosomal subunit of haloarcula marismortui
Total Genus 37
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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
37
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 37
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 1vqmH00
1W2BH 1KQSH 3PIOJ 1K73J 1VQ8H 3CC2H 4IOCJ 3CCUH 4IO9J 1S72H 1VQMH 4UY8M 5HL7J 3CCLH 5H1SO 1YITH 5GAHN 1N8RJ 4WFAJ 3CD6H 3J7ZM 3CCRH 1YJNH 3PIPJ 1Q82J 2ZJQJ 3CCMH 3CCVH 3DLLJ 2PA2A 1YHQH 1VQLH 4WFNJ 1K8AJ 3CPWH 3CC7H 2OTJH 1Q7YJ 5DM6J 3CXCH 4WCEJ 1KD1J 3CMAH 1YJ9H 1QVFH 1K9MJ 3CF5J 5MLCO 3CC4H 1VQ9H 5DM7J 1VQ6H 4U67J 1VQ7H 1VQ4H 3CMEH 1KC8J 5GAEN 2QA4H 5GADN 3I56H 2ZJPJ 3G71H 3CCQH 5JVHJ 1Q86J 4WFBJ 1VQPH 2OTLH 5GAGN 1WKIA 1Q81J 1VQNH 3OW2H 3G6EH 1M90J 1VQ5H 4WF9J 1JJ2H 2QEXH 1Y69K 3G4SH 2ZJRJ 3CCSH 3CCJH 4IOAJ 1M1KJ 1YI2H 5JVGJ 1QVGH 3I55H 5AN9F 1VQOH 1NJIJ 1YIJH 1VQKH 1YJWH 3CCEH
chains in the Genus database with same CATH superfamily
1JROB 1N62B 5EY3A 5AYXA 4EADA 1YTKA 1W2BH 1KQSH 3PIOJ 1K73J 1VQ8H 3CC2H 1FO4A 4AP8A 5MPOC 4IOCJ 3CCUH 4IO9J 1S72H 1VQMH 4UY8M 3ETRC 5HL7J 2TPTA 4YEKA 4EAFA 3AM9A 3CCLH 1VDVA 2W54B 4US8A 1ZXIB 4ZOHA 5H1SO 1YITH 5GAHN 3PAJA 1N8RJ 4GA4A 4WFAJ 3CD6H 3J7ZM 3CCRH 1YJNH 3GNNA 2E3TA 1FFUB 3PIPJ 2I1OA 3L4PA 2W55B 1Q82J 3AN1A 2ZJQJ 3C2EA 3NS1C 4USAA 3CCMH 3CCVH 3EUB4 3DLLJ 4KWWA 1FFVB 2PA2A 2QIEA 3FAHA 2WP4A 1YHQH 1VQLH 2WK5A 2Q5WE 1FIQC 4WFNJ 1K8AJ 3SR6C 3CPWH 3VMMA 3CC7H 1YTEA 2OTJH 1VLBA 2OMDA 1Q7YJ 5HUPA 5DM6J 2W3SB 2B7QA 3CXCH 4WCEJ 2DSJA 1KD1J 3CMAH 1QAPA 3AMZA 1YJ9H 1QVFH 3NVWC 2W3RB 4XR5A 1K9MJ 3C2VA 3CF5J 1AZYA 5MLCO 3CC4H 1JRPB 1VQ9H 1QPOA 3RPFA 1X1OA 4KWVA 5DM7J 1VQ6H 5HUOA 4U67J 3B9JC 3WNZA 1VQ7H 1NVJA 1VQ4H 3CMEH 3NVVC 1KC8J 5EP8A 1FMAE 5GAEN 2QA4H 1WYGA 3WO1A 2J0FA 5GADN 3I56H 3BIIE 2ZJPJ 3G71H 3CCQH 5JVHJ 1Q86J 2JBMA 3NVZC 4WFBJ 1VQPH 4GA6A 1O4UA 4GA5A 1QPRA 3H5QA 2OTLH 3FC4A 5GAGN 1WKIA 3NVYC 1Q81J 4US9A 3OW2H 1VQNH 1N5WB 1N63B 3G6EH 1M90J 1VQ5H 4C7ZA 4WF9J 1N5XA 2WK6A 3L0GA 1JJ2H 2QEXH 1Y69K 3G4SH 2ZJRJ 1OTPA 3CCSH 1BRWA 2I14A 1DGJA 1N60B 1SIJA 3CCJH 4IOAJ 1M1KJ 1V97A 1QPNA 1YTDA 4X46A 1N61B 4LHMA 1SB3A 1NVIE 3C2OA 4I9AA 1RM6A 4C7YA 4C80A 1UOUA 5HULA 4YYYA 1YI2H 1QPQA 3C2FA 5AYZA 5JVGJ 3WO0A 5AYYA 1QVGH 3I55H 5AN9F 1VQOH 2B7NA 1NJIJ 3TQVA 1YIJH 1VQKH 3C2RA 1FM0E 3NRZC 2B7PA 1YJWH 3CCEH
chains in the Genus database with same CATH topology
1W2BH 1KQSH 3PIOJ 1K73J 1VQ8H 3CC2H 4IOCJ 3CCUH 4IO9J 1S72H 1VQMH 4UY8M 5HL7J 3CCLH 5H1SO 1YITH 5GAHN 1N8RJ 4WFAJ 3CD6H 3J7ZM 3CCRH 1YJNH 3PIPJ 1Q82J 2ZJQJ 3CCMH 3CCVH 3DLLJ 2PA2A 1YHQH 1VQLH 4WFNJ 1K8AJ 3CPWH 3CC7H 2OTJH 1Q7YJ 5DM6J 3CXCH 4WCEJ 1KD1J 3CMAH 1YJ9H 1QVFH 1K9MJ 3CF5J 5MLCO 3CC4H 1VQ9H 5DM7J 1VQ6H 4U67J 1VQ7H 1VQ4H 3CMEH 1KC8J 5GAEN 2QA4H 5GADN 3I56H 2ZJPJ 3G71H 3CCQH 5JVHJ 1Q86J 4WFBJ 1VQPH 2OTLH 5GAGN 1WKIA 1Q81J 1VQNH 3OW2H 3G6EH 1M90J 1VQ5H 4WF9J 1JJ2H 2QEXH 1Y69K 3G4SH 2ZJRJ 3CCSH 3CCJH 4IOAJ 1M1KJ 1YI2H 5JVGJ 1QVGH 3I55H 5AN9F 1VQOH 1NJIJ 1YIJH 1VQKH 1YJWH 3CCEH
chains in the Genus database with same CATH homology


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