5GADF

Rnc-srp-sr complex early state
Total Genus 38
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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
38
sequence length
177
structure length
177
Chain Sequence
AKLHDYYKDEVVKKLMTEFNYNSVMQVPRVEKITLNMGVGEAIADKKLLDNAAADLAAISGQKPLITKARKSVAGFKIRQGYPIGCKVTLRGERMWEFFERLITIAVPRIRDFRGLSAKSFDGRGNYSMGVREQIIFPEIDYDKVDRVRGLDITITTTAKSDEEGRALLAAFDFPFR
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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 ESRP 4.5S RNA
publication title Structures of the E. coli translating ribosome with SRP and its receptor and with the translocon.
pubmed doi rcsb
total genus 38
structure length 177
sequence length 177
ec nomenclature
pdb deposition date 2015-11-24

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
F PF00281 Ribosomal_L5 Ribosomal protein L5
F 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, 5gadF00
5HL7D 1Q86F 4UY8F 5GAGF 1VQ7D 1VQPD 4WF9D 1NJIF 3CD6D 4WFAD 3G71D 2NRQA 4IOAD 2NWUA 3CMED 3CF5D 3CXCD 3CPWD 3CCUD 3D7AA 5GAEF 1W2BD 3CMAD 2ZJPD 1JJ2D 3PIPD 1K73F 1YIJD 1VQLD 3PIOD 3CCJD 1MJIA 1YHQD 1VQKD 1VQND 1Q81F 1K8AF 3CCMD 5JVHD 3G4SD 2QA4D 3CC2D 3CCSD 3DLLD 2ZJRD 1YJND 1S72D 4WFBD 3CC4D 1QVGD 4IO9D 1YJWD 1Q7YF 1VQMD 4IOCD 2OTJD 3CCVD 1QVFD 3CC7D 1K9MF 1M90F 3CCED 3C9GA 1KC8F 2PZZA 2QEXD 1M1KF 3I56D 4U67D 2OTLD 5DM6D 3CCLD 3CCRD 2WNYA 3G6ED 1Q82F 3J7ZF 4WCED 1IQ4A 1VQ9D 3I55D 5DM7D 1YJ9D 5GAHF 5H1SH 1KD1F 1VQ5D 1VQOD 3OW2D 1YITD 1N8RF 1YI2D 5MLCG 1VQ8D 3CCQD 1KQSD 5GADF 4WFND 5JVGD 2ZJQD 1VQ6D 2OGKA 1VQ4D
chains in the Genus database with same CATH superfamily
5HL7D 1Q86F 4UY8F 5GAGF 1VQ7D 1VQPD 4WF9D 1NJIF 3CD6D 4WFAD 3G71D 2NRQA 4IOAD 2NWUA 3CMED 3CF5D 3CXCD 3CPWD 3CCUD 3D7AA 5GAEF 1W2BD 3CMAD 2ZJPD 1JJ2D 3PIPD 1K73F 1YIJD 1VQLD 3PIOD 3CCJD 1MJIA 1YHQD 1VQKD 1VQND 1Q81F 1K8AF 3CCMD 5JVHD 3G4SD 2QA4D 3CC2D 3CCSD 3DLLD 2ZJRD 1YJND 1S72D 4WFBD 3CC4D 1QVGD 4IO9D 1YJWD 1Q7YF 1VQMD 4IOCD 2OTJD 3CCVD 1QVFD 3CC7D 1K9MF 1M90F 3CCED 3C9GA 1KC8F 2PZZA 2QEXD 1M1KF 3I56D 4U67D 2OTLD 5DM6D 3CCLD 3CCRD 2WNYA 3G6ED 1Q82F 3J7ZF 4WCED 1IQ4A 1VQ9D 3I55D 5DM7D 1YJ9D 5GAHF 5H1SH 1KD1F 1VQ5D 1VQOD 3OW2D 1YITD 1N8RF 1YI2D 5MLCG 1VQ8D 3CCQD 1KQSD 5GADF 4WFND 5JVGD 2ZJQD 1VQ6D 2OGKA 1VQ4D
chains in the Genus database with same CATH topology
5HL7D 1Q86F 4UY8F 5GAGF 1VQ7D 1VQPD 4WF9D 1NJIF 3CD6D 4WFAD 3G71D 2NRQA 4IOAD 2NWUA 3CMED 3CF5D 3CXCD 3CPWD 3CCUD 3D7AA 5GAEF 1W2BD 3CMAD 2ZJPD 1JJ2D 3PIPD 1K73F 1YIJD 1VQLD 3PIOD 3CCJD 1MJIA 1YHQD 1VQKD 1VQND 1Q81F 1K8AF 3CCMD 5JVHD 3G4SD 2QA4D 3CC2D 3CCSD 3DLLD 2ZJRD 1YJND 1S72D 4WFBD 3CC4D 1QVGD 4IO9D 1YJWD 1Q7YF 1VQMD 4IOCD 2OTJD 3CCVD 1QVFD 3CC7D 1K9MF 1M90F 3CCED 3C9GA 1KC8F 2PZZA 2QEXD 1M1KF 3I56D 4U67D 2OTLD 5DM6D 3CCLD 3CCRD 2WNYA 3G6ED 1Q82F 3J7ZF 4WCED 1IQ4A 1VQ9D 3I55D 5DM7D 1YJ9D 5GAHF 5H1SH 1KD1F 1VQ5D 1VQOD 3OW2D 1YITD 1N8RF 1YI2D 5MLCG 1VQ8D 3CCQD 1KQSD 5GADF 4WFND 5JVGD 2ZJQD 1VQ6D 2OGKA 1VQ4D
chains in the Genus database with same CATH homology


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