1VQOE

The structure of ccpmn bound to the large ribosomal subunit haloarcula marismortui
Total Genus 38
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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
38
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 38
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 1vqoE02
3.90.930.12 Alpha Beta Alpha-Beta Complex Outer Surface Protein A; domain 3 Ribosomal protein L6, alpha-beta domain 1vqoE01
1VQNE 1QVFE 3CF5E 4IO9E 5GAEG 1YITE 5AN9B 1QVGE 1VQ8E 5HL7E 1YJ9E 5JVGE 1Q86G 3CXCE 3CC4E 3CD6E 1RL6A 1K73G 1VQKE 4WF9E 3J7ZG 1K9MG 3CCEE 1W2BE 3G4SE 3CCUE 1YHQE 3CPWE 3CMEE 1N8RG 4U67E 3DLLE 1VQ7E 5GAHG 4IOCE 4WFAE 1VQ9E 3CMAE 1Q81G 1M1KG 1VQPE 3PIOE 4WFNE 1K8AG 5H1SI 1JJ2E 3G6EE 1VQOE 2ZJQE 4IOAE 3OW2E 1YJWE 3CC2E 3CCQE 3G71E 1KQSE 5GADG 1VQLE 2OTLE 4WFBE 1NJIG 1YIJE 1VQ6E 3CCJE 5MLCH 3CCVE 3CCRE 2ZJPE 1KC8G 1VQ5E 1VQME 2QA4E 1KD1G 5DM7E 1M90G 2ZJRE 1VQ4E 2OTJE 2QEXE 1Q82G 4WCEE 5DM6E 3CCSE 3PIPE 3CCLE 5GAGG 1YJNE 1YI2E 1Q7YG 3CC7E 3CCME 2CQLA 3I55E 5JVHE 1S72E 3I56E 4UY8G
chains in the Genus database with same CATH superfamily
3IG9A 1VQNE 1QVFE 5B11O 3EC5A 3CF5E 4IO9E 1RJLC 5GAEG 1YITE 2OY5O 5AN9B 1QVGE 1VQ8E 3CKFA 5HL7E 1YJ9E 5JVGE 1Q86G 3CXCE 3CC4E 3CD6E 1RL6A 1K73G 1VQKE 4WF9E 3J7ZG 1K9MG 3CCEE 1W2BE 3G4SE 1FJ1E 2FKJA 2G8CO 3CCUE 1YHQE 3CPWE 3CMEE 1N8RG 4U67E 2OY8A 3DLLE 1VQ7E 5GAHG 4IOCE 4WFAE 2I5ZO 2OY1O 1VQ9E 3CMAE 1Q81G 2OL6O 1OSPO 2OL7A 5B2AO 2I5VO 1M1KG 5B3MO 3PIOE 1VQPE 2PI3O 2OL8O 4WFNE 3AUMO 5H1SI 1K8AG 1JJ2E 3G6EE 1VQOE 2ZJQE 4IOAE 3OW2E 1YJWE 3CC2E 3CCQE 3G71E 1KQSE 2OYBO 5GADG 1VQLE 2OTLE 4WFBE 1NJIG 1YIJE 3IGEA 1VQ6E 3CCJE 5MLCH 3CCVE 3CCRE 2ZJPE 2OY7A 1KC8G 1VQ5E 1VQME 2QA4E 1KD1G 5DM7E 1M90G 2ZJRE 1VQ4E 2OTJE 2QEXE 5B10O 1Q82G 4WCEE 5DM6E 3CCSE 3PIPE 3CCLE 2FKGA 2AF5A 5GAGG 2HKDA 1YJNE 1YI2E 1Q7YG 1P4PA 3CC7E 3CCME 2CQLA 3CKGA 3I55E 5JVHE 1S72E 3I56E 4UY8G
chains in the Genus database with same CATH topology
1VQNE 1QVFE 3CF5E 4IO9E 5GAEG 1YITE 5AN9B 1QVGE 1VQ8E 5HL7E 1YJ9E 5JVGE 1Q86G 3CXCE 3CC4E 3CD6E 1RL6A 1K73G 1VQKE 4WF9E 3J7ZG 1K9MG 3CCEE 1W2BE 3G4SE 3CCUE 1YHQE 3CPWE 3CMEE 1N8RG 4U67E 3DLLE 1VQ7E 5GAHG 4IOCE 4WFAE 1VQ9E 3CMAE 1Q81G 1M1KG 1VQPE 3PIOE 4WFNE 1K8AG 5H1SI 1JJ2E 3G6EE 1VQOE 2ZJQE 4IOAE 3OW2E 1YJWE 3CC2E 3CCQE 3G71E 1KQSE 5GADG 1VQLE 2OTLE 4WFBE 1NJIG 1YIJE 1VQ6E 3CCJE 5MLCH 3CCVE 3CCRE 2ZJPE 1KC8G 1VQ5E 1VQME 2QA4E 1KD1G 5DM7E 1M90G 2ZJRE 1VQ4E 2OTJE 2QEXE 1Q82G 4WCEE 5DM6E 3CCSE 3PIPE 3CCLE 5GAGG 1YJNE 1YI2E 1Q7YG 3CC7E 3CCME 2CQLA 3I55E 5JVHE 1S72E 3I56E 4UY8G
chains in the Genus database with same CATH homology


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