1VQLE

The structure of the transition state analogue "dcsn" 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
172
structure length
172
Chain Sequence
PRVELEIPEDVDAEQDHLDITVEGDNGSVTRRLWYPDIDVSVDGDTVVIESDEDNAKTMSTIGTFQSHIENMFHGVTEGWEYGMEVFYSHFPMQVNVEGDEVVIENFLGEKAPRRTTIHGDTDVEIDGEELTVSGPDIEAVGQTAADIEQLTRINDKDVRVFQDGVYITRKP
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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 172
sequence length 172
ec nomenclature
pdb deposition date 2004-12-16

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
E PF00347 Ribosomal_L6 Ribosomal protein L6
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.90.930.12 Alpha Beta Alpha-Beta Complex Outer Surface Protein A; domain 3 Ribosomal protein L6, alpha-beta domain 1vqlE02
3.90.930.12 Alpha Beta Alpha-Beta Complex Outer Surface Protein A; domain 3 Ribosomal protein L6, alpha-beta domain 1vqlE01
3CCVE 2ZJPE 4WFAE 1VQ7E 5GAEG 1K73G 5MLCH 1KC8G 1W2BE 1VQ8E 3CC7E 1YJ9E 5JVHE 1YIJE 3I56E 1VQNE 3CCLE 3G4SE 2QA4E 1S72E 1YJNE 1YJWE 3OW2E 3PIPE 4WFBE 4WCEE 3PIOE 4IOAE 5DM6E 1VQ9E 1VQME 1RL6A 1M90G 1Q86G 2QEXE 3CCEE 4IOCE 3CPWE 4IO9E 5JVGE 3CCJE 1VQ4E 3G6EE 3CCQE 1JJ2E 1QVGE 4WF9E 5GADG 2ZJRE 2CQLA 1YI2E 3I55E 1K9MG 3CD6E 1VQLE 1QVFE 1YITE 5DM7E 5GAGG 1Q82G 2OTJE 1YHQE 1M1KG 1VQKE 3G71E 3CC4E 2OTLE 3J7ZG 4WFNE 3CCRE 3CMAE 1KQSE 4U67E 5AN9B 3DLLE 2ZJQE 3CCUE 1K8AG 4UY8G 1VQ5E 3CC2E 5GAHG 1KD1G 1Q7YG 3CMEE 1N8RG 3CXCE 3CF5E 1Q81G 3CCME 3CCSE 5HL7E 1VQOE 1VQ6E 1VQPE 5H1SI 1NJIG
chains in the Genus database with same CATH superfamily
3CCVE 2ZJPE 4WFAE 1VQ7E 2OL6O 5GAEG 2PI3O 5MLCH 1K73G 1KC8G 1W2BE 2FKJA 2AF5A 1VQ8E 3CC7E 1YJ9E 2I5ZO 5B10O 5JVHE 1YIJE 3I56E 1VQNE 1FJ1E 3CCLE 3G4SE 2QA4E 1S72E 2FKGA 1YJNE 1YJWE 3OW2E 3PIPE 4WFBE 4WCEE 3PIOE 4IOAE 5DM6E 1VQ9E 1VQME 1RL6A 2OY7A 1M90G 2HKDA 1Q86G 2I5VO 2QEXE 3CCEE 4IOCE 1P4PA 3EC5A 3CPWE 4IO9E 5JVGE 2OY5O 3CCJE 1VQ4E 3IG9A 3G6EE 3CCQE 1JJ2E 3IGEA 1QVGE 4WF9E 5B3MO 5GADG 2ZJRE 2CQLA 1YI2E 3I55E 1K9MG 3CD6E 1VQLE 1QVFE 1YITE 5DM7E 5GAGG 1Q82G 2OTJE 1YHQE 1M1KG 1VQKE 3G71E 3CC4E 5B11O 2OTLE 3J7ZG 4WFNE 3CCRE 3CMAE 1KQSE 4U67E 5AN9B 3DLLE 1OSPO 2OYBO 2ZJQE 2OL8O 3CCUE 1K8AG 4UY8G 1VQ5E 3CC2E 5GAHG 1KD1G 1Q7YG 3CMEE 1N8RG 3CXCE 2OY8A 3CF5E 2OL7A 1Q81G 2G8CO 5B2AO 3CCME 3CCSE 5HL7E 2OY1O 1RJLC 3AUMO 3CKFA 1VQOE 1VQ6E 1VQPE 3CKGA 5H1SI 1NJIG
chains in the Genus database with same CATH topology
3CCVE 2ZJPE 4WFAE 1VQ7E 5GAEG 1K73G 5MLCH 1KC8G 1W2BE 1VQ8E 3CC7E 1YJ9E 5JVHE 1YIJE 3I56E 1VQNE 3CCLE 3G4SE 2QA4E 1S72E 1YJNE 1YJWE 3OW2E 3PIPE 4WFBE 4WCEE 3PIOE 4IOAE 5DM6E 1VQ9E 1VQME 1RL6A 1M90G 1Q86G 2QEXE 3CCEE 4IOCE 3CPWE 4IO9E 5JVGE 3CCJE 1VQ4E 3G6EE 3CCQE 1JJ2E 1QVGE 4WF9E 5GADG 2ZJRE 2CQLA 1YI2E 3I55E 1K9MG 3CD6E 1VQLE 1QVFE 1YITE 5DM7E 5GAGG 1Q82G 2OTJE 1YHQE 1M1KG 1VQKE 3G71E 3CC4E 2OTLE 3J7ZG 4WFNE 3CCRE 3CMAE 1KQSE 4U67E 5AN9B 3DLLE 2ZJQE 3CCUE 1K8AG 4UY8G 1VQ5E 3CC2E 5GAHG 1KD1G 1Q7YG 3CMEE 1N8RG 3CXCE 3CF5E 1Q81G 3CCME 3CCSE 5HL7E 1VQOE 1VQ6E 1VQPE 5H1SI 1NJIG
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3CCV E;  2ZJP E;  4WFA E;  1VQ7 E;  5GAE G;  1K73 G;  5MLC H;  1KC8 G;  1W2B E;  1VQ8 E;  3CC7 E;  1YJ9 E;  5JVH E;  1YIJ E;  3I56 E;  1VQN E;  3CCL E;  3G4S E;  2QA4 E;  1S72 E;  1YJN E;  1YJW E;  3OW2 E;  3PIP E;  4WFB E;  4WCE E;  3PIO E;  4IOA E;  5DM6 E;  1VQ9 E;  1VQM E;  1RL6 A;  1M90 G;  1Q86 G;  2QEX E;  3CCE E;  4IOC E;  3CPW E;  4IO9 E;  5JVG E;  3CCJ E;  1VQ4 E;  3G6E E;  3CCQ E;  1JJ2 E;  1QVG E;  4WF9 E;  5GAD G;  2ZJR E;  2CQL A;  1YI2 E;  3I55 E;  1K9M G;  3CD6 E;  1VQL E;  1QVF E;  1YIT E;  5DM7 E;  5GAG G;  1Q82 G;  2OTJ E;  1YHQ E;  1M1K G;  1VQK E;  3G71 E;  3CC4 E;  2OTL E;  3J7Z G;  4WFN E;  3CCR E;  3CMA E;  1KQS E;  4U67 E;  5AN9 B;  3DLL E;  2ZJQ E;  3CCU E;  1K8A G;  4UY8 G;  1VQ5 E;  3CC2 E;  5GAH G;  1KD1 G;  1Q7Y G;  3CME E;  1N8R G;  3CXC E;  3CF5 E;  1Q81 G;  3CCM E;  3CCS E;  5HL7 E;  1VQO E;  1VQ6 E;  1VQP E;  5H1S I;  1NJI G; 
#chains in the Genus database with same CATH topology
 3CCV E;  2ZJP E;  4WFA E;  1VQ7 E;  2OL6 O;  5GAE G;  2PI3 O;  5MLC H;  1K73 G;  1KC8 G;  1W2B E;  2FKJ A;  2AF5 A;  1VQ8 E;  3CC7 E;  1YJ9 E;  2I5Z O;  5B10 O;  5JVH E;  1YIJ E;  3I56 E;  1VQN E;  1FJ1 E;  3CCL E;  3G4S E;  2QA4 E;  1S72 E;  2FKG A;  1YJN E;  1YJW E;  3OW2 E;  3PIP E;  4WFB E;  4WCE E;  3PIO E;  4IOA E;  5DM6 E;  1VQ9 E;  1VQM E;  1RL6 A;  2OY7 A;  1M90 G;  2HKD A;  1Q86 G;  2I5V O;  2QEX E;  3CCE E;  4IOC E;  1P4P A;  3EC5 A;  3CPW E;  4IO9 E;  5JVG E;  2OY5 O;  3CCJ E;  1VQ4 E;  3IG9 A;  3G6E E;  3CCQ E;  1JJ2 E;  3IGE A;  1QVG E;  4WF9 E;  5B3M O;  5GAD G;  2ZJR E;  2CQL A;  1YI2 E;  3I55 E;  1K9M G;  3CD6 E;  1VQL E;  1QVF E;  1YIT E;  5DM7 E;  5GAG G;  1Q82 G;  2OTJ E;  1YHQ E;  1M1K G;  1VQK E;  3G71 E;  3CC4 E;  5B11 O;  2OTL E;  3J7Z G;  4WFN E;  3CCR E;  3CMA E;  1KQS E;  4U67 E;  5AN9 B;  3DLL E;  1OSP O;  2OYB O;  2ZJQ E;  2OL8 O;  3CCU E;  1K8A G;  4UY8 G;  1VQ5 E;  3CC2 E;  5GAH G;  1KD1 G;  1Q7Y G;  3CME E;  1N8R G;  3CXC E;  2OY8 A;  3CF5 E;  2OL7 A;  1Q81 G;  2G8C O;  5B2A O;  3CCM E;  3CCS E;  5HL7 E;  2OY1 O;  1RJL C;  3AUM O;  3CKF A;  1VQO E;  1VQ6 E;  1VQP E;  3CKG A;  5H1S I;  1NJI G; 
#chains in the Genus database with same CATH homology
 3CCV E;  2ZJP E;  4WFA E;  1VQ7 E;  5GAE G;  1K73 G;  5MLC H;  1KC8 G;  1W2B E;  1VQ8 E;  3CC7 E;  1YJ9 E;  5JVH E;  1YIJ E;  3I56 E;  1VQN E;  3CCL E;  3G4S E;  2QA4 E;  1S72 E;  1YJN E;  1YJW E;  3OW2 E;  3PIP E;  4WFB E;  4WCE E;  3PIO E;  4IOA E;  5DM6 E;  1VQ9 E;  1VQM E;  1RL6 A;  1M90 G;  1Q86 G;  2QEX E;  3CCE E;  4IOC E;  3CPW E;  4IO9 E;  5JVG E;  3CCJ E;  1VQ4 E;  3G6E E;  3CCQ E;  1JJ2 E;  1QVG E;  4WF9 E;  5GAD G;  2ZJR E;  2CQL A;  1YI2 E;  3I55 E;  1K9M G;  3CD6 E;  1VQL E;  1QVF E;  1YIT E;  5DM7 E;  5GAG G;  1Q82 G;  2OTJ E;  1YHQ E;  1M1K G;  1VQK E;  3G71 E;  3CC4 E;  2OTL E;  3J7Z G;  4WFN E;  3CCR E;  3CMA E;  1KQS E;  4U67 E;  5AN9 B;  3DLL E;  2ZJQ E;  3CCU E;  1K8A G;  4UY8 G;  1VQ5 E;  3CC2 E;  5GAH G;  1KD1 G;  1Q7Y G;  3CME E;  1N8R G;  3CXC E;  3CF5 E;  1Q81 G;  3CCM E;  3CCS E;  5HL7 E;  1VQO E;  1VQ6 E;  1VQP E;  5H1S I;  1NJI G; 
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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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