3CD6 | Genus

Total Genus 33

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	33
sequence length	171
structure length	160
Chain Sequence	KPASMYRDIDKPAYTRREYITGIPGSKIAQHKMGRKQKDADDYPVQISLIVEETVQLRHGSLEASRLSANRHLIKELGEEGDYKMTLRKFPHQVLRENKDGMRAAFGKIVGTAARVQAGEQLFTAYCNVEDAEHVKEAFRRAYNKITPSCRIKVERGEEL

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

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The Resolver thinks Pdb

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Time for openFile(/file/5d26412cc860e9af5e17c34e/pdb.gz): 1484 ms

reading 160 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

Default Van der Waals type for model set to Jmol

160 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

Time for creating model: 23 ms

Adding embedded #jmolscript: select ({0:159});backbone only;select *;

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

molecule tags	Ribosome
publication title	Mutations outside the anisomycin-binding site can make ribosomes drug-resistant. pubmed doi rcsb
molecule keywords	50S ribosomal protein L2P
total genus	33
structure length	160
sequence length	171
ec nomenclature
pdb deposition date	2008-02-26

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	Class	Architecture	Topology	Homology	Domain
3.90.1170.10	Alpha Beta	Alpha-Beta Complex	Aldehyde Oxidoreductase; domain 3	Ribosomal protein L10e/L16	3cd6H00

1VQOH 1M1KJ 1K73J 5JVHJ 1YJWH 5DM7J 5MLCO 3CMEH 1VQ9H 4WFBJ 1QVGH 4WCEJ 1KQSH 1Q82J 3J7ZM 3CCQH 2ZJPJ 1VQNH 1VQ7H 1K9MJ 3CCUH 5AN9F 3DLLJ 4WFAJ 4WFNJ 3PIOJ 2ZJQJ 2OTJH 5H1SO 1YIJH 1VQLH 5JVGJ 1VQPH 1JJ2H 1VQ5H 5DM6J 3CC4H 2QEXH 1Y69K 1YHQH 3OW2H 1Q7YJ 1VQKH 4IOAJ 3CCEH 3G71H 1S72H 4IO9J 1YJNH 1VQ6H 2QA4H 5GAHN 3CCJH 1QVFH 4IOCJ 3I56H 1VQMH 3CC7H 3CPWH 2OTLH 3I55H 3CC2H 3CCLH 5GAEN 3CMAH 2PA2A 3CCMH 1YI2H 1K8AJ 1N8RJ 3CCRH 5HL7J 3CCSH 5GADN 3CD6H 3CCVH 1YITH 1M90J 4UY8M 1Q81J 1W2BH 3G6EH 1Q86J 3G4SH 3CXCH 1WKIA 1VQ4H 4WF9J 1NJIJ 1VQ8H 1KC8J 3CF5J 1KD1J 3PIPJ 1YJ9H 4U67J 5GAGN 2ZJRJ
chains in the Genus database with same CATH superfamily

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

#chains in the Genus database with same CATH superfamily
 1VQO H;  1M1K J;  1K73 J;  5JVH J;  1YJW H;  5DM7 J;  5MLC O;  3CME H;  1VQ9 H;  4WFB J;  1QVG H;  4WCE J;  1KQS H;  1Q82 J;  3J7Z M;  3CCQ H;  2ZJP J;  1VQN H;  1VQ7 H;  1K9M J;  3CCU H;  5AN9 F;  3DLL J;  4WFA J;  4WFN J;  3PIO J;  2ZJQ J;  2OTJ H;  5H1S O;  1YIJ H;  1VQL H;  5JVG J;  1VQP H;  1JJ2 H;  1VQ5 H;  5DM6 J;  3CC4 H;  2QEX H;  1Y69 K;  1YHQ H;  3OW2 H;  1Q7Y J;  1VQK H;  4IOA J;  3CCE H;  3G71 H;  1S72 H;  4IO9 J;  1YJN H;  1VQ6 H;  2QA4 H;  5GAH N;  3CCJ H;  1QVF H;  4IOC J;  3I56 H;  1VQM H;  3CC7 H;  3CPW H;  2OTL H;  3I55 H;  3CC2 H;  3CCL H;  5GAE N;  3CMA H;  2PA2 A;  3CCM H;  1YI2 H;  1K8A J;  1N8R J;  3CCR H;  5HL7 J;  3CCS H;  5GAD N;  3CD6 H;  3CCV H;  1YIT H;  1M90 J;  4UY8 M;  1Q81 J;  1W2B H;  3G6E H;  1Q86 J;  3G4S H;  3CXC H;  1WKI A;  1VQ4 H;  4WF9 J;  1NJI J;  1VQ8 H;  1KC8 J;  3CF5 J;  1KD1 J;  3PIP J;  1YJ9 H;  4U67 J;  5GAG N;  2ZJR J; 
#chains in the Genus database with same CATH topology
 4X46 A;  5AYZ A;  1VQO H;  1M1K J;  3WNZ A;  1K73 J;  3C2F A;  2DSJ A;  5JVH J;  1YJW H;  2W54 B;  1UOU A;  3NVY C;  5DM7 J;  5MLC O;  3CME H;  1QPQ A;  1VDV A;  5HUL A;  3FC4 A;  4XR5 A;  1VQ9 H;  4WFB J;  3ETR C;  3C2R A;  1QVG H;  1DGJ A;  4GA6 A;  1FM0 E;  3TQV A;  4WCE J;  5AYY A;  1KQS H;  1Q82 J;  1FFU B;  1NVI E;  2ZJQ J;  2W3S B;  3AM9 A;  1V97 A;  3J7Z M;  1N5X A;  3CCQ H;  4I9A A;  2ZJP J;  1FIQ C;  1SB3 A;  1VQN H;  3NRZ C;  3BII E;  1VQ7 H;  3C2E A;  1K9M J;  3AN1 A;  2E3T A;  3EUB 4;  3NVV C;  3L4P A;  1N63 B;  2W55 B;  3CCU H;  5AN9 F;  2OTJ H;  3DLL J;  1FFV B;  1N60 B;  2W3R B;  1RM6 A;  1QAP A;  4KWV A;  5H1S O;  4WFN J;  4WFA J;  3PIO J;  1YIJ H;  3H5Q A;  2I14 A;  1YTK A;  1VQL H;  3B9J C;  2QIE A;  5JVG J;  5MPO C;  1VQP H;  1JJ2 H;  4C80 A;  1VQ5 H;  1JRP B;  5DM6 J;  3CC4 H;  5EP8 A;  2QEX H;  1Y69 K;  3WO0 A;  4GA4 A;  1OTP A;  2B7P A;  3FAH A;  1FMA E;  1YHQ H;  3OW2 H;  1Q7Y J;  1VQK H;  4IOA J;  5EY3 A;  1YTD A;  4ZOH A;  4AP8 A;  3PAJ A;  3NS1 C;  2B7Q A;  1AZY A;  1N5W B;  3AMZ A;  3CCE H;  3G71 H;  1WYG A;  3C2O A;  4USA A;  4C7Y A;  1S72 H;  4IO9 J;  1YJN H;  1X1O A;  1QPO A;  4US9 A;  1VQ6 H;  4C7Z A;  2QA4 H;  2J0F A;  5GAH N;  3CCJ H;  1JRO B;  1QVF H;  1ZXI B;  4IOC J;  1FO4 A;  2WP4 A;  1O4U A;  3I56 H;  1VQM H;  4GA5 A;  3CC7 H;  3CPW H;  2OTL H;  1QPR A;  2I1O A;  3I55 H;  3CC2 H;  3CCL H;  5GAE N;  2OMD A;  5HUO A;  3GNN A;  3CMA H;  1NVJ A;  2PA2 A;  3CCM H;  2B7N A;  3VMM A;  1YI2 H;  3WO1 A;  1SIJ A;  1K8A J;  1VLB A;  3NVW C;  3CCR H;  2JBM A;  1QPN A;  3L0G A;  1N8R J;  5HL7 J;  3CCS H;  5GAD N;  3CD6 H;  3CCV H;  1YIT H;  1M90 J;  4UY8 M;  1Q81 J;  4EAF A;  1W2B H;  3RPF A;  5AYX A;  2WK5 A;  3G6E H;  3G4S H;  1Q86 J;  1N62 B;  4KWW A;  3CXC H;  1WKI A;  2Q5W E;  1VQ4 H;  5HUP A;  1N61 B;  4WF9 J;  1YTE A;  1NJI J;  1VQ8 H;  3NVZ C;  1KC8 J;  4US8 A;  3CF5 J;  1BRW A;  4LHM A;  4EAD A;  2WK6 A;  4YEK A;  1KD1 J;  3SR6 C;  4YYY A;  3PIP J;  1YJ9 H;  2TPT A;  4U67 J;  5GAG N;  2ZJR J;  3C2V A; 
#chains in the Genus database with same CATH homology
 1VQO H;  1M1K J;  1K73 J;  5JVH J;  1YJW H;  5DM7 J;  5MLC O;  3CME H;  1VQ9 H;  4WFB J;  1QVG H;  4WCE J;  1KQS H;  1Q82 J;  3J7Z M;  3CCQ H;  2ZJP J;  1VQN H;  1VQ7 H;  1K9M J;  3CCU H;  5AN9 F;  3DLL J;  4WFA J;  4WFN J;  3PIO J;  2ZJQ J;  2OTJ H;  5H1S O;  1YIJ H;  1VQL H;  5JVG J;  1VQP H;  1JJ2 H;  1VQ5 H;  5DM6 J;  3CC4 H;  2QEX H;  1Y69 K;  1YHQ H;  3OW2 H;  1Q7Y J;  1VQK H;  4IOA J;  3CCE H;  3G71 H;  1S72 H;  4IO9 J;  1YJN H;  1VQ6 H;  2QA4 H;  5GAH N;  3CCJ H;  1QVF H;  4IOC J;  3I56 H;  1VQM H;  3CC7 H;  3CPW H;  2OTL H;  3I55 H;  3CC2 H;  3CCL H;  5GAE N;  3CMA H;  2PA2 A;  3CCM H;  1YI2 H;  1K8A J;  1N8R J;  3CCR H;  5HL7 J;  3CCS H;  5GAD N;  3CD6 H;  3CCV H;  1YIT H;  1M90 J;  4UY8 M;  1Q81 J;  1W2B H;  3G6E H;  1Q86 J;  3G4S H;  3CXC H;  1WKI A;  1VQ4 H;  4WF9 J;  1NJI J;  1VQ8 H;  1KC8 J;  3CF5 J;  1KD1 J;  3PIP J;  1YJ9 H;  4U67 J;  5GAG N;  2ZJR 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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#similar chains in the pdb database (?% sequence similarity)
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3CD6H

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations