4WFND

Crystal structure of the large ribosomal subunit (50s) of deinococcus radiodurans containing a three residue insertion in l22 in complex with erythromycin
Total Genus 29
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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
29
sequence length
177
structure length
177
Chain Sequence
QLKTKYNDQVRPALMQQFGYSSVMAVPRIEKIVVNEGLGSSKEDSKAIDKAAKELALITLQKPIITKAKKSISNFKLRQGMPVGIKVTLRGERMYVFLEKLINIGLPRIRDFRGINPNAFDGRGNYNLGIKEQLIFPEITYDMVDKTRGMDITIVTTAKTDEEARALLQSMGLPFRK
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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 50S ribosomal protein L2
publication title The Ribosomal Protein uL22 Modulates the Shape of the Protein Exit Tunnel.
pubmed doi rcsb
total genus 29
structure length 177
sequence length 177
ec nomenclature
pdb deposition date 2014-09-16

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, 4wfnD00
3CCQD 1M90F 2OTJD 5GAEF 5MLCG 5GADF 2OGKA 3CCJD 4WCED 1KQSD 5DM7D 3CCMD 1Q7YF 5JVGD 3CF5D 1JJ2D 3CD6D 1VQOD 3OW2D 3CCED 1VQ5D 1MJIA 3I55D 1KC8F 3PIPD 1VQ6D 1VQ9D 1QVGD 3CC4D 3G71D 3CCVD 1VQ8D 1Q82F 3CCRD 2OTLD 1YJND 4WFND 3DLLD 3CCLD 1YIJD 3CMED 1M1KF 1S72D 5GAHF 1KD1F 5H1SH 3I56D 1W2BD 3G4SD 2NRQA 1VQLD 3J7ZF 4IO9D 3CC7D 1YJWD 4WFAD 1K8AF 4IOCD 1K9MF 5GAGF 1VQKD 3CMAD 3CC2D 4WFBD 1VQMD 2QA4D 3CPWD 4U67D 1QVFD 1VQ7D 1VQPD 5HL7D 2WNYA 3PIOD 3G6ED 1VQ4D 2NWUA 2QEXD 1N8RF 3CCSD 3D7AA 5JVHD 1VQND 1IQ4A 2ZJQD 5DM6D 2PZZA 3CXCD 4IOAD 2ZJPD 1Q81F 1YHQD 1K73F 1YI2D 1YITD 4UY8F 1YJ9D 3CCUD 3C9GA 1Q86F 4WF9D 1NJIF 2ZJRD
chains in the Genus database with same CATH superfamily
3CCQD 1M90F 2OTJD 5GAEF 5MLCG 5GADF 2OGKA 3CCJD 4WCED 1KQSD 5DM7D 3CCMD 1Q7YF 5JVGD 3CF5D 1JJ2D 3CD6D 1VQOD 3OW2D 3CCED 1VQ5D 1MJIA 3I55D 1KC8F 3PIPD 1VQ6D 1VQ9D 1QVGD 3CC4D 3G71D 3CCVD 1VQ8D 1Q82F 3CCRD 2OTLD 1YJND 4WFND 3DLLD 3CCLD 1YIJD 3CMED 1M1KF 1S72D 5GAHF 1KD1F 5H1SH 3I56D 1W2BD 3G4SD 2NRQA 1VQLD 3J7ZF 4IO9D 3CC7D 1YJWD 4WFAD 1K8AF 4IOCD 1K9MF 5GAGF 1VQKD 3CMAD 3CC2D 4WFBD 1VQMD 2QA4D 3CPWD 4U67D 1QVFD 1VQ7D 1VQPD 5HL7D 2WNYA 3PIOD 3G6ED 1VQ4D 2NWUA 2QEXD 1N8RF 3CCSD 3D7AA 5JVHD 1VQND 1IQ4A 2ZJQD 5DM6D 2PZZA 3CXCD 4IOAD 2ZJPD 1Q81F 1YHQD 1K73F 1YI2D 1YITD 4UY8F 1YJ9D 3CCUD 3C9GA 1Q86F 4WF9D 1NJIF 2ZJRD
chains in the Genus database with same CATH topology
3CCQD 1M90F 2OTJD 5GAEF 5MLCG 5GADF 2OGKA 3CCJD 4WCED 1KQSD 5DM7D 3CCMD 1Q7YF 5JVGD 3CF5D 1JJ2D 3CD6D 1VQOD 3OW2D 3CCED 1VQ5D 1MJIA 3I55D 1KC8F 3PIPD 1VQ6D 1VQ9D 1QVGD 3CC4D 3G71D 3CCVD 1VQ8D 1Q82F 3CCRD 2OTLD 1YJND 4WFND 3DLLD 3CCLD 1YIJD 3CMED 1M1KF 1S72D 5GAHF 1KD1F 5H1SH 3I56D 1W2BD 3G4SD 2NRQA 1VQLD 3J7ZF 4IO9D 3CC7D 1YJWD 4WFAD 1K8AF 4IOCD 1K9MF 5GAGF 1VQKD 3CMAD 3CC2D 4WFBD 1VQMD 2QA4D 3CPWD 4U67D 1QVFD 1VQ7D 1VQPD 5HL7D 2WNYA 3PIOD 3G6ED 1VQ4D 2NWUA 2QEXD 1N8RF 3CCSD 3D7AA 5JVHD 1VQND 1IQ4A 2ZJQD 5DM6D 2PZZA 3CXCD 4IOAD 2ZJPD 1Q81F 1YHQD 1K73F 1YI2D 1YITD 4UY8F 1YJ9D 3CCUD 3C9GA 1Q86F 4WF9D 1NJIF 2ZJRD
chains in the Genus database with same CATH homology


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