1JJ2E

Fully refined crystal structure of the haloarcula marismortui large ribosomal subunit at 2.4 angstrom resolution
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
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 RRNA
publication title The kink-turn: a new RNA secondary structure motif.
pubmed doi rcsb
total genus 37
structure length 172
sequence length 172
ec nomenclature
pdb deposition date 2001-07-03

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 1jj2E01
3.90.930.12 Alpha Beta Alpha-Beta Complex Outer Surface Protein A; domain 3 Ribosomal protein L6, alpha-beta domain 1jj2E02
1VQ8E 2ZJPE 3CCVE 1VQ6E 3CC2E 5GAGG 1VQLE 2OTLE 4IO9E 3CMAE 1VQNE 1Q82G 3CPWE 4WF9E 1VQ4E 3CCJE 1KD1G 1VQ9E 3CXCE 4WFAE 4IOCE 4UY8G 4WFBE 5DM7E 1VQOE 1YJ9E 1NJIG 1K73G 1KC8G 1JJ2E 1VQ7E 2QEXE 5H1SI 3CC7E 1YI2E 2ZJRE 3CCRE 1S72E 2QA4E 1N8RG 2OTJE 1QVFE 2ZJQE 1RL6A 1VQ5E 5DM6E 3CMEE 3G71E 5JVGE 2CQLA 1M90G 4U67E 3PIOE 1VQPE 1K8AG 3CF5E 1Q81G 4WCEE 3I56E 1YIJE 3G4SE 1Q7YG 3G6EE 1W2BE 3J7ZG 4WFNE 1KQSE 5HL7E 3CCSE 5GAHG 1YJNE 5JVHE 3CCLE 3CD6E 1VQME 5MLCH 5GAEG 5GADG 1YHQE 1VQKE 4IOAE 3CC4E 1QVGE 1YJWE 1Q86G 1K9MG 3CCEE 1YITE 3DLLE 1M1KG 3CCQE 5AN9B 3CCUE 3OW2E 3PIPE 3CCME 3I55E
chains in the Genus database with same CATH superfamily
1VQ8E 2ZJPE 3CCVE 1VQ6E 3CC2E 5GAGG 1VQLE 2OTLE 4IO9E 3CMAE 2AF5A 1Q82G 1VQNE 2PI3O 3CPWE 4WF9E 1VQ4E 3CCJE 1KD1G 2OL7A 1VQ9E 3CXCE 4WFAE 4IOCE 4UY8G 4WFBE 3CKFA 5DM7E 1VQOE 1YJ9E 1NJIG 1K73G 1KC8G 3IG9A 1JJ2E 2OL6O 2OY5O 1VQ7E 2QEXE 5H1SI 3CC7E 1YI2E 2ZJRE 3CCRE 1S72E 2I5ZO 2QA4E 1N8RG 1OSPO 3EC5A 3IGEA 2FKJA 2OTJE 1QVFE 2I5VO 2ZJQE 1RL6A 5B11O 1VQ5E 2HKDA 5DM6E 3CMEE 3G71E 3AUMO 5JVGE 2CQLA 2G8CO 1M90G 4U67E 3PIOE 1VQPE 1K8AG 2OL8O 3CF5E 1Q81G 4WCEE 2FKGA 3I56E 3G4SE 1YIJE 1Q7YG 3G6EE 5B3MO 1P4PA 1W2BE 3J7ZG 4WFNE 1FJ1E 1KQSE 5HL7E 3CCSE 5GAHG 5B2AO 1YJNE 2OYBO 5JVHE 3CCLE 3CD6E 5B10O 1VQME 5MLCH 5GAEG 5GADG 1YHQE 1VQKE 4IOAE 3CC4E 1QVGE 2OY1O 1YJWE 1Q86G 1K9MG 1RJLC 3CCEE 1YITE 2OY8A 3DLLE 3CKGA 1M1KG 3CCQE 5AN9B 3CCUE 3OW2E 2OY7A 3PIPE 3CCME 3I55E
chains in the Genus database with same CATH topology
1VQ8E 2ZJPE 3CCVE 1VQ6E 3CC2E 5GAGG 1VQLE 2OTLE 4IO9E 3CMAE 1VQNE 1Q82G 3CPWE 4WF9E 1VQ4E 3CCJE 1KD1G 1VQ9E 3CXCE 4WFAE 4IOCE 4UY8G 4WFBE 5DM7E 1VQOE 1YJ9E 1NJIG 1K73G 1KC8G 1JJ2E 1VQ7E 2QEXE 5H1SI 3CC7E 1YI2E 2ZJRE 3CCRE 1S72E 2QA4E 1N8RG 2OTJE 1QVFE 2ZJQE 1RL6A 1VQ5E 5DM6E 3CMEE 3G71E 5JVGE 2CQLA 1M90G 4U67E 3PIOE 1VQPE 1K8AG 3CF5E 1Q81G 4WCEE 3I56E 1YIJE 3G4SE 1Q7YG 3G6EE 1W2BE 3J7ZG 4WFNE 1KQSE 5HL7E 3CCSE 5GAHG 1YJNE 5JVHE 3CCLE 3CD6E 1VQME 5MLCH 5GAEG 5GADG 1YHQE 1VQKE 4IOAE 3CC4E 1QVGE 1YJWE 1Q86G 1K9MG 3CCEE 1YITE 3DLLE 1M1KG 3CCQE 5AN9B 3CCUE 3OW2E 3PIPE 3CCME 3I55E
chains in the Genus database with same CATH homology


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