5DM6E

Crystal structure of the 50s ribosomal subunit from deinococcus radiodurans
Total Genus 26
Loading diagram...

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
26
sequence length
171
structure length
171
Chain Sequence
GKQPIAVPSGVTVNAQDGVFKVKGPKGELTVPYNTELTVRQDGDQLLVERPSDAQKHRALHGLTRTLVANAVKGVSDGYTINLELRGVGFRAKLTGKALEMNIGYSHPVIIEPPAGVTFAVPEPTRIDVSGIDKQLVGQVAANVRKVRKPDAYHGKGVRFVGEQIALKAGK
Loading diagram...

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
{{ tooltip.sname }} connected with {{ tooltip.tname }} : {{qFormat(tooltip.svalue) }}
molecule tags Ribosome
molecule keywords 50S ribosomal protein L1
publication title Crystallographic characterization of the ribosomal binding site and molecular mechanism of action of Hygromycin A.
pubmed doi rcsb
total genus 26
structure length 171
sequence length 171
ec nomenclature
pdb deposition date 2015-09-08

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 5dm6E02
3.90.930.12 Alpha Beta Alpha-Beta Complex Outer Surface Protein A; domain 3 Ribosomal protein L6, alpha-beta domain 5dm6E01
2ZJQE 2ZJRE 3CCQE 3CC4E 2ZJPE 2QEXE 1S72E 1VQLE 3CMEE 1QVFE 1N8RG 1VQ4E 4WFNE 3CMAE 3G4SE 1KC8G 1VQ6E 3OW2E 1YIJE 1YJNE 1KQSE 1VQNE 2CQLA 4U67E 4WFAE 3J7ZG 1K73G 5JVHE 3PIPE 3DLLE 3CC2E 1Q7YG 3G6EE 3CF5E 5GAEG 5MLCH 5DM7E 1YITE 1Q82G 1YJ9E 1W2BE 3CCME 1QVGE 5GAGG 4IOAE 1JJ2E 1RL6A 1VQ8E 1VQ7E 4WF9E 5AN9B 1VQPE 1Q86G 3CCUE 3I55E 1Q81G 4UY8G 5DM6E 3CXCE 3CCEE 5JVGE 5HL7E 3G71E 3CC7E 3CPWE 5GAHG 1VQOE 1NJIG 1VQ9E 1KD1G 1K9MG 3CCJE 1YI2E 1VQME 3CCLE 2QA4E 1YJWE 2OTLE 3I56E 4WFBE 4IO9E 5H1SI 4WCEE 3CCVE 1VQ5E 1VQKE 3CD6E 5GADG 3CCRE 1YHQE 2OTJE 1M90G 3CCSE 1K8AG 1M1KG 3PIOE 4IOCE
chains in the Genus database with same CATH superfamily
2ZJQE 2ZJRE 3CCQE 2OL7A 3CC4E 2HKDA 2OL8O 2ZJPE 2QEXE 1S72E 1VQLE 3CMEE 1QVFE 2I5VO 1N8RG 1VQ4E 4WFNE 3CMAE 3G4SE 1KC8G 1VQ6E 3OW2E 1YIJE 1YJNE 1KQSE 1OSPO 1VQNE 2CQLA 4U67E 4WFAE 3CKFA 2OY5O 3J7ZG 1K73G 2FKJA 5JVHE 3PIPE 3DLLE 3CC2E 1Q7YG 3G6EE 3CF5E 1FJ1E 5GAEG 2AF5A 5MLCH 5DM7E 1YITE 1Q82G 1YJ9E 1W2BE 3CCME 2OYBO 2OY7A 1QVGE 5GAGG 4IOAE 1JJ2E 3AUMO 1RL6A 3IG9A 5B3MO 1VQ8E 1VQ7E 5B2AO 4WF9E 5AN9B 1VQPE 1Q86G 2OY8A 3CCUE 3I55E 1Q81G 4UY8G 1P4PA 3CKGA 5DM6E 3CXCE 3CCEE 5JVGE 5HL7E 3G71E 3CC7E 3CPWE 5GAHG 1VQOE 1NJIG 1VQ9E 1KD1G 2PI3O 1K9MG 3CCJE 1YI2E 5B10O 1VQME 1RJLC 3CCLE 2QA4E 1YJWE 2OTLE 3I56E 4WFBE 3EC5A 4IO9E 5H1SI 4WCEE 2G8CO 3CCVE 1VQ5E 1VQKE 3CD6E 5B11O 5GADG 3CCRE 2OL6O 2FKGA 2OY1O 1YHQE 2OTJE 2I5ZO 1M90G 3IGEA 3CCSE 1K8AG 1M1KG 3PIOE 4IOCE
chains in the Genus database with same CATH topology
2ZJQE 2ZJRE 3CCQE 3CC4E 2ZJPE 2QEXE 1S72E 1VQLE 3CMEE 1QVFE 1N8RG 1VQ4E 4WFNE 3CMAE 3G4SE 1KC8G 1VQ6E 3OW2E 1YIJE 1YJNE 1KQSE 1VQNE 2CQLA 4U67E 4WFAE 3J7ZG 1K73G 5JVHE 3PIPE 3DLLE 3CC2E 1Q7YG 3G6EE 3CF5E 5GAEG 5MLCH 5DM7E 1YITE 1Q82G 1YJ9E 1W2BE 3CCME 1QVGE 5GAGG 4IOAE 1JJ2E 1RL6A 1VQ8E 1VQ7E 4WF9E 5AN9B 1VQPE 1Q86G 3CCUE 3I55E 1Q81G 4UY8G 5DM6E 3CXCE 3CCEE 5JVGE 5HL7E 3G71E 3CC7E 3CPWE 5GAHG 1VQOE 1NJIG 1VQ9E 1KD1G 1K9MG 3CCJE 1YI2E 1VQME 3CCLE 2QA4E 1YJWE 2OTLE 3I56E 4WFBE 4IO9E 5H1SI 4WCEE 3CCVE 1VQ5E 1VQKE 3CD6E 5GADG 3CCRE 1YHQE 2OTJE 1M90G 3CCSE 1K8AG 1M1KG 3PIOE 4IOCE
chains in the Genus database with same CATH homology


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...