2QEXH

Negamycin binds to the wall of the nascent chain exit tunnel of the 50s ribosomal subunit
Total Genus 35
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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
35
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 Negamycin binds to the wall of the nascent chain exit tunnel of the 50S ribosomal subunit.
pubmed doi rcsb
molecule tags Ribosome
molecule keywords 23S ribosomal RNA
total genus 35
structure length 160
sequence length 171
ec nomenclature
pdb deposition date 2007-06-26

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
H PF00252 Ribosomal_L16 Ribosomal protein L16p/L10e
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 2qexH00
3CCVH 2OTJH 1KD1J 4WFNJ 2ZJPJ 3CD6H 1QVGH 5GAGN 1VQLH 3CCSH 3G71H 3G6EH 1QVFH 2PA2A 1Y69K 5MLCO 5JVHJ 1YJWH 1K73J 1NJIJ 1KC8J 4WFAJ 1YJ9H 5AN9F 1YIJH 1K8AJ 4WCEJ 3CCJH 3CCRH 4IOCJ 3CMAH 3CXCH 5GAHN 1VQ8H 5GAEN 2QA4H 3DLLJ 3CCLH 3CCUH 3OW2H 4IO9J 5JVGJ 2ZJQJ 1YHQH 3CC7H 5GADN 1VQ9H 2ZJRJ 3G4SH 1K9MJ 3PIOJ 5H1SO 3CCMH 1VQPH 3CC2H 1VQNH 2OTLH 1JJ2H 3CC4H 3CMEH 4U67J 1M1KJ 1W2BH 1VQMH 1VQ4H 2QEXH 1WKIA 1KQSH 5DM6J 4UY8M 1Q86J 1Q81J 3I56H 1YJNH 5DM7J 5HL7J 3CPWH 3I55H 1N8RJ 3CCEH 1VQKH 1Q7YJ 1Q82J 1YITH 1VQ7H 3PIPJ 1VQ6H 4WF9J 1VQOH 3J7ZM 3CCQH 1YI2H 3CF5J 1M90J 1S72H 4WFBJ 1VQ5H 4IOAJ
chains in the Genus database with same CATH superfamily
4YYYA 2WP4A 3C2FA 3H5QA 3WNZA 2OMDA 3CCVH 2OTJH 1FFUB 1KD1J 4WFNJ 3PAJA 2ZJPJ 3CD6H 4LHMA 1QVGH 1V97A 5GAGN 4US8A 4KWWA 1VQLH 1YTKA 3CCSH 1QPNA 3G71H 3G6EH 2W3RB 1SIJA 1QVFH 1NVIE 1QPOA 2PA2A 1Y69K 5MLCO 5JVHJ 3C2OA 1YJWH 2JBMA 1K73J 1NJIJ 1KC8J 4C7ZA 3VMMA 4WFAJ 1N63B 1YJ9H 3FC4A 5AN9F 1YIJH 1K8AJ 4EADA 4GA4A 4WCEJ 3CCJH 2I1OA 4AP8A 3CCRH 1SB3A 1N62B 4IOCJ 1YTDA 3CMAH 2W55B 4YEKA 3CXCH 5GAHN 4XR5A 1VQ8H 5GAEN 1QPRA 4KWVA 1ZXIB 2QA4H 3L0GA 3DLLJ 3CCLH 3CCUH 3OW2H 3WO1A 2WK5A 4IO9J 5JVGJ 2ZJQJ 5AYYA 1YHQH 3ETRC 3CC7H 3NS1C 1FMAE 4GA6A 5GADN 1VQ9H 2ZJRJ 3G4SH 3NVVC 1K9MJ 1VDVA 3C2EA 4C7YA 1OTPA 2J0FA 3NVWC 2E3TA 3EUB4 3PIOJ 5HUPA 3L4PA 5H1SO 3B9JC 3NVZC 1N5XA 3CCMH 4USAA 1FO4A 2QIEA 3CC2H 1VQPH 2W54B 1VQNH 1NVJA 2OTLH 1VLBA 4GA5A 1JJ2H 3CC4H 1WYGA 1N60B 3WO0A 3CMEH 1QPQA 4U67J 4US9A 1UOUA 5AYZA 1M1KJ 2DSJA 3AN1A 3RPFA 1W2BH 1VQMH 1VQ4H 2QEXH 1WKIA 1KQSH 5DM6J 4UY8M 1Q86J 1Q81J 4C80A 3I56H 1YJNH 5DM7J 5HL7J 3GNNA 3AMZA 4I9AA 3CPWH 2B7PA 4IOAJ 1DGJA 1FIQC 3FAHA 3I55H 2W3SB 1N8RJ 1FM0E 3CCEH 1X1OA 5HULA 1VQKH 3NVYC 2WK6A 1Q7YJ 3TQVA 5HUOA 5MPOC 1AZYA 3BIIE 4X46A 1Q82J 3NRZC 1YITH 3AM9A 1VQ7H 3PIPJ 1VQ6H 1JRPB 2B7NA 4WF9J 1VQOH 1N5WB 2Q5WE 1QAPA 1JROB 4EAFA 1N61B 1BRWA 3J7ZM 1FFVB 3CCQH 5EY3A 1YI2H 3CF5J 1M90J 5EP8A 1S72H 3C2RA 1RM6A 4WFBJ 1VQ5H 2I14A 3SR6C 1YTEA 3C2VA 5AYXA 2B7QA 4ZOHA 1O4UA 2TPTA
chains in the Genus database with same CATH topology
3CCVH 2OTJH 1KD1J 4WFNJ 2ZJPJ 3CD6H 1QVGH 5GAGN 1VQLH 3CCSH 3G71H 3G6EH 1QVFH 2PA2A 1Y69K 5MLCO 5JVHJ 1YJWH 1K73J 1NJIJ 1KC8J 4WFAJ 1YJ9H 5AN9F 1YIJH 1K8AJ 4WCEJ 3CCJH 3CCRH 4IOCJ 3CMAH 3CXCH 5GAHN 1VQ8H 5GAEN 2QA4H 3DLLJ 3CCLH 3CCUH 3OW2H 4IO9J 5JVGJ 2ZJQJ 1YHQH 3CC7H 5GADN 1VQ9H 2ZJRJ 3G4SH 1K9MJ 3PIOJ 5H1SO 3CCMH 1VQPH 3CC2H 1VQNH 2OTLH 1JJ2H 3CC4H 3CMEH 4U67J 1M1KJ 1W2BH 1VQMH 1VQ4H 2QEXH 1WKIA 1KQSH 5DM6J 4UY8M 1Q86J 1Q81J 3I56H 1YJNH 5DM7J 5HL7J 3CPWH 3I55H 1N8RJ 3CCEH 1VQKH 1Q7YJ 1Q82J 1YITH 1VQ7H 3PIPJ 1VQ6H 4WF9J 1VQOH 3J7ZM 3CCQH 1YI2H 3CF5J 1M90J 1S72H 4WFBJ 1VQ5H 4IOAJ
chains in the Genus database with same CATH homology


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