1W2BD

Trigger factor ribosome binding domain in complex with 50s
Total Genus 19
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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
19
sequence length
165
structure length
140
Chain Sequence
FHEMREPRIEKVVVHMGIGHANAEDILGEITGQMPVRTKAKRTVGEFDIREGDPIGAKVTLRDEMAEEFLQTALPLAELATSQFDDTGNFSFGLDVTVNLVRPGYRVAKRDKASRSIPTKHRLNPADAVAFIESTYDVEV
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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 Trigger Factor in Complex with the Ribosome Forms a Molecular Cradle for Nascent Proteins
pubmed doi rcsb
source organism Escherichia coli
total genus 19
structure length 140
sequence length 165
ec nomenclature
pdb deposition date 2004-07-01

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
D PF00281 Ribosomal_L5 Ribosomal protein L5
D PF00673 Ribosomal_L5_C ribosomal L5P family C-terminus
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.1440.10 Alpha Beta 2-Layer Sandwich 50s Ribosomal Protein L5; Chain: A, 50s Ribosomal Protein L5; Chain: A, 1w2bD00
1YIJD 1Q86F 1QVFD 3CCED 4UY8F 1JJ2D 2PZZA 1VQ6D 1VQ5D 5GAEF 1YITD 1KD1F 1MJIA 1M1KF 3G6ED 2WNYA 1K73F 3CCLD 3C9GA 1VQPD 1KC8F 5GADF 2OGKA 1K8AF 1YHQD 2ZJRD 2NWUA 3I56D 5HL7D 1YJND 1VQ7D 1VQ9D 1YJ9D 3D7AA 3CCVD 4WFAD 2QEXD 2OTJD 4IOAD 5H1SH 3CC7D 3CD6D 3J7ZF 3CCUD 1QVGD 1Q82F 3CMED 3DLLD 1VQKD 3G4SD 1M90F 3CC2D 5GAHF 1NJIF 5DM6D 3CCJD 3CXCD 3CCQD 1KQSD 3PIPD 5GAGF 5JVGD 4IO9D 1VQLD 4U67D 4WFND 3CPWD 1S72D 1VQ8D 3CCRD 3I55D 3OW2D 2QA4D 1IQ4A 3PIOD 5DM7D 2ZJPD 4WF9D 3CMAD 4IOCD 1K9MF 1Q81F 1Q7YF 1YJWD 5JVHD 1VQMD 1YI2D 1VQND 3CCSD 1W2BD 2NRQA 5MLCG 3CCMD 3G71D 3CC4D 1N8RF 2ZJQD 1VQOD 4WFBD 1VQ4D 2OTLD 3CF5D 4WCED
chains in the Genus database with same CATH superfamily
1YIJD 1Q86F 1QVFD 3CCED 4UY8F 1JJ2D 2PZZA 1VQ6D 1VQ5D 5GAEF 1YITD 1KD1F 1MJIA 1M1KF 3G6ED 2WNYA 1K73F 3CCLD 3C9GA 1VQPD 1KC8F 5GADF 2OGKA 1K8AF 1YHQD 2ZJRD 2NWUA 3I56D 5HL7D 1YJND 1VQ7D 1VQ9D 1YJ9D 3D7AA 3CCVD 4WFAD 2QEXD 2OTJD 4IOAD 5H1SH 3CC7D 3CD6D 3J7ZF 3CCUD 1QVGD 1Q82F 3CMED 3DLLD 1VQKD 3G4SD 1M90F 3CC2D 5GAHF 1NJIF 5DM6D 3CCJD 3CXCD 3CCQD 1KQSD 3PIPD 5GAGF 5JVGD 4IO9D 1VQLD 4U67D 4WFND 3CPWD 1S72D 1VQ8D 3CCRD 3I55D 3OW2D 2QA4D 1IQ4A 3PIOD 5DM7D 2ZJPD 4WF9D 3CMAD 4IOCD 1K9MF 1Q81F 1Q7YF 1YJWD 5JVHD 1VQMD 1YI2D 1VQND 3CCSD 1W2BD 2NRQA 5MLCG 3CCMD 3G71D 3CC4D 1N8RF 2ZJQD 1VQOD 4WFBD 1VQ4D 2OTLD 3CF5D 4WCED
chains in the Genus database with same CATH topology
1YIJD 1Q86F 1QVFD 3CCED 4UY8F 1JJ2D 2PZZA 1VQ6D 1VQ5D 5GAEF 1YITD 1KD1F 1MJIA 1M1KF 3G6ED 2WNYA 1K73F 3CCLD 3C9GA 1VQPD 1KC8F 5GADF 2OGKA 1K8AF 1YHQD 2ZJRD 2NWUA 3I56D 5HL7D 1YJND 1VQ7D 1VQ9D 1YJ9D 3D7AA 3CCVD 4WFAD 2QEXD 2OTJD 4IOAD 5H1SH 3CC7D 3CD6D 3J7ZF 3CCUD 1QVGD 1Q82F 3CMED 3DLLD 1VQKD 3G4SD 1M90F 3CC2D 5GAHF 1NJIF 5DM6D 3CCJD 3CXCD 3CCQD 1KQSD 3PIPD 5GAGF 5JVGD 4IO9D 1VQLD 4U67D 4WFND 3CPWD 1S72D 1VQ8D 3CCRD 3I55D 3OW2D 2QA4D 1IQ4A 3PIOD 5DM7D 2ZJPD 4WF9D 3CMAD 4IOCD 1K9MF 1Q81F 1Q7YF 1YJWD 5JVHD 1VQMD 1YI2D 1VQND 3CCSD 1W2BD 2NRQA 5MLCG 3CCMD 3G71D 3CC4D 1N8RF 2ZJQD 1VQOD 4WFBD 1VQ4D 2OTLD 3CF5D 4WCED
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1YIJ D;  1Q86 F;  1QVF D;  3CCE D;  4UY8 F;  1JJ2 D;  2PZZ A;  1VQ6 D;  1VQ5 D;  5GAE F;  1YIT D;  1KD1 F;  1MJI A;  1M1K F;  3G6E D;  2WNY A;  1K73 F;  3CCL D;  3C9G A;  1VQP D;  1KC8 F;  5GAD F;  2OGK A;  1K8A F;  1YHQ D;  2ZJR D;  2NWU A;  3I56 D;  5HL7 D;  1YJN D;  1VQ7 D;  1VQ9 D;  1YJ9 D;  3D7A A;  3CCV D;  4WFA D;  2QEX D;  2OTJ D;  4IOA D;  5H1S H;  3CC7 D;  3CD6 D;  3J7Z F;  3CCU D;  1QVG D;  1Q82 F;  3CME D;  3DLL D;  1VQK D;  3G4S D;  1M90 F;  3CC2 D;  5GAH F;  1NJI F;  5DM6 D;  3CCJ D;  3CXC D;  3CCQ D;  1KQS D;  3PIP D;  5GAG F;  5JVG D;  4IO9 D;  1VQL D;  4U67 D;  4WFN D;  3CPW D;  1S72 D;  1VQ8 D;  3CCR D;  3I55 D;  3OW2 D;  2QA4 D;  1IQ4 A;  3PIO D;  5DM7 D;  2ZJP D;  4WF9 D;  3CMA D;  4IOC D;  1K9M F;  1Q81 F;  1Q7Y F;  1YJW D;  5JVH D;  1VQM D;  1YI2 D;  1VQN D;  3CCS D;  1W2B D;  2NRQ A;  5MLC G;  3CCM D;  3G71 D;  3CC4 D;  1N8R F;  2ZJQ D;  1VQO D;  4WFB D;  1VQ4 D;  2OTL D;  3CF5 D;  4WCE D; 
#chains in the Genus database with same CATH topology
 1YIJ D;  1Q86 F;  1QVF D;  3CCE D;  4UY8 F;  1JJ2 D;  2PZZ A;  1VQ6 D;  1VQ5 D;  5GAE F;  1YIT D;  1KD1 F;  1MJI A;  1M1K F;  3G6E D;  2WNY A;  1K73 F;  3CCL D;  3C9G A;  1VQP D;  1KC8 F;  5GAD F;  2OGK A;  1K8A F;  1YHQ D;  2ZJR D;  2NWU A;  3I56 D;  5HL7 D;  1YJN D;  1VQ7 D;  1VQ9 D;  1YJ9 D;  3D7A A;  3CCV D;  4WFA D;  2QEX D;  2OTJ D;  4IOA D;  5H1S H;  3CC7 D;  3CD6 D;  3J7Z F;  3CCU D;  1QVG D;  1Q82 F;  3CME D;  3DLL D;  1VQK D;  3G4S D;  1M90 F;  3CC2 D;  5GAH F;  1NJI F;  5DM6 D;  3CCJ D;  3CXC D;  3CCQ D;  1KQS D;  3PIP D;  5GAG F;  5JVG D;  4IO9 D;  1VQL D;  4U67 D;  4WFN D;  3CPW D;  1S72 D;  1VQ8 D;  3CCR D;  3I55 D;  3OW2 D;  2QA4 D;  1IQ4 A;  3PIO D;  5DM7 D;  2ZJP D;  4WF9 D;  3CMA D;  4IOC D;  1K9M F;  1Q81 F;  1Q7Y F;  1YJW D;  5JVH D;  1VQM D;  1YI2 D;  1VQN D;  3CCS D;  1W2B D;  2NRQ A;  5MLC G;  3CCM D;  3G71 D;  3CC4 D;  1N8R F;  2ZJQ D;  1VQO D;  4WFB D;  1VQ4 D;  2OTL D;  3CF5 D;  4WCE D; 
#chains in the Genus database with same CATH homology
 1YIJ D;  1Q86 F;  1QVF D;  3CCE D;  4UY8 F;  1JJ2 D;  2PZZ A;  1VQ6 D;  1VQ5 D;  5GAE F;  1YIT D;  1KD1 F;  1MJI A;  1M1K F;  3G6E D;  2WNY A;  1K73 F;  3CCL D;  3C9G A;  1VQP D;  1KC8 F;  5GAD F;  2OGK A;  1K8A F;  1YHQ D;  2ZJR D;  2NWU A;  3I56 D;  5HL7 D;  1YJN D;  1VQ7 D;  1VQ9 D;  1YJ9 D;  3D7A A;  3CCV D;  4WFA D;  2QEX D;  2OTJ D;  4IOA D;  5H1S H;  3CC7 D;  3CD6 D;  3J7Z F;  3CCU D;  1QVG D;  1Q82 F;  3CME D;  3DLL D;  1VQK D;  3G4S D;  1M90 F;  3CC2 D;  5GAH F;  1NJI F;  5DM6 D;  3CCJ D;  3CXC D;  3CCQ D;  1KQS D;  3PIP D;  5GAG F;  5JVG D;  4IO9 D;  1VQL D;  4U67 D;  4WFN D;  3CPW D;  1S72 D;  1VQ8 D;  3CCR D;  3I55 D;  3OW2 D;  2QA4 D;  1IQ4 A;  3PIO D;  5DM7 D;  2ZJP D;  4WF9 D;  3CMA D;  4IOC D;  1K9M F;  1Q81 F;  1Q7Y F;  1YJW D;  5JVH D;  1VQM D;  1YI2 D;  1VQN D;  3CCS D;  1W2B D;  2NRQ A;  5MLC G;  3CCM D;  3G71 D;  3CC4 D;  1N8R F;  2ZJQ D;  1VQO D;  4WFB D;  1VQ4 D;  2OTL D;  3CF5 D;  4WCE D; 
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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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