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


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