1VQ9U

The structure of cca-phe-cap-bio and the antibiotic sparsomycin bound to the large ribosomal subunit of haloarcula marismortui
Total Genus 11
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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
11
sequence length
53
structure length
53
Chain Sequence
RECDYCGTDIEPGTGTMFVHKDGATTHFCSSKCENNADLGREARNLEWTDTAR
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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 ribosomal rna
publication title Structural Insights into the Roles of Water and the 2' Hydroxyl of the P Site tRNA in the Peptidyl Transferase Reaction.
pubmed doi rcsb
total genus 11
structure length 53
sequence length 53
ec nomenclature
pdb deposition date 2004-12-16

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
U PF01246 Ribosomal_L24e Ribosomal protein L24e
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.30.170.20 Mainly Beta Roll Ribosomal Protein L24e; Chain: T; Ribosomal Protein L24e; Chain: T; 1vq9U00
1VQ6U 1Q7YV 1YJ9U 1Q82V 1K9MV 1YI2U 3CXCT 1W2BT 3CCJU 1VQ5U 1YJNU 3CC4U 1KC8V 3CCLU 1S72U 2QA4U 1M90V 3CCUU 1YITU 3G6EU 3CCEU 3G4SU 1N8RV 3CCQU 1K8AV 3CCVU 1M1KV 1VQMU 1VQ4U 1VQNU 5AN9G 1VQPU 2OTJU 1VQLU 1NJIV 3I56U 3CPWT 1YIJU 1YJWU 3CMEU 3CCSU 1VQOU 1Q86V 3CCRU 1Q81V 1VQ8U 1KQST 3G71U 1VQ7U 1VQ9U 2OTLU 3I55U 1JJ2T 3CC2U 1VQKU 1K73V 1KD1V 3OW2T 2QEXU 1QVGT 3CC7U 3CMAU 3CCMU 1QVFT 3CD6U 1YHQU
chains in the Genus database with same CATH superfamily
1Q7YV 3CC4U 3CCLU 2QA4U 3G6EU 3CCEU 1M1KV 1VQLU 3CMEU 3CCRU 3AO0A 1Q81V 3G71U 1VQ9U 1JJ2T 1YI2U 3CXCT 1W2BT 3CCJU 1VQ5U 5H1SY 5DM6U 1YJNU 2JZ6A 1YITU 3G4SU 1K8AV 3I56U 1YIJU 1Q86V 1VQ8U 1KQST 5MLCY 3ABSA 3CC2U 3ABRA 1KD1V 2QEXU 1QVGT 3CC7U 2QEZA 1QVFT 1YHQU 1K9MV 1KC8V 3J7ZX 4UY8X 1VQ4U 1N8RV 3CCVU 5AN9G 1VQPU 1YJWU 1VQOU 3I55U 3ABQA 1K73V 3ABOA 1JJDA 3CMAU 3CCMU 1VQ6U 1YJ9U 1Q82V 1S72U 1M90V 3CCUU 1VQNU 3CCQU 2OTJU 1VQMU 3ANYA 1NJIV 3CPWT 3CCSU 1VQ7U 2OTLU 1VQKU 3OW2T 3CD6U
chains in the Genus database with same CATH topology
1VQ6U 1Q7YV 1YJ9U 1Q82V 1K9MV 1YI2U 3CXCT 1W2BT 3CCJU 1VQ5U 1YJNU 3CC4U 1KC8V 3CCLU 1S72U 2QA4U 1M90V 3CCUU 1YITU 3G6EU 3CCEU 3G4SU 1N8RV 3CCQU 1K8AV 3CCVU 1M1KV 1VQMU 1VQ4U 1VQNU 5AN9G 1VQPU 2OTJU 1VQLU 1NJIV 3I56U 3CPWT 1YIJU 1YJWU 3CMEU 3CCSU 1VQOU 1Q86V 3CCRU 1Q81V 1VQ8U 1KQST 3G71U 1VQ7U 1VQ9U 2OTLU 3I55U 1JJ2T 3CC2U 1VQKU 1K73V 1KD1V 3OW2T 2QEXU 1QVGT 3CC7U 1JJDA 3CMAU 3CCMU 1QVFT 3CD6U 1YHQU
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1VQ6 U;  1Q7Y V;  1YJ9 U;  1Q82 V;  1K9M V;  1YI2 U;  3CXC T;  1W2B T;  3CCJ U;  1VQ5 U;  1YJN U;  3CC4 U;  1KC8 V;  3CCL U;  1S72 U;  2QA4 U;  1M90 V;  3CCU U;  1YIT U;  3G6E U;  3CCE U;  3G4S U;  1N8R V;  3CCQ U;  1K8A V;  3CCV U;  1M1K V;  1VQM U;  1VQ4 U;  1VQN U;  5AN9 G;  1VQP U;  2OTJ U;  1VQL U;  1NJI V;  3I56 U;  3CPW T;  1YIJ U;  1YJW U;  3CME U;  3CCS U;  1VQO U;  1Q86 V;  3CCR U;  1Q81 V;  1VQ8 U;  1KQS T;  3G71 U;  1VQ7 U;  1VQ9 U;  2OTL U;  3I55 U;  1JJ2 T;  3CC2 U;  1VQK U;  1K73 V;  1KD1 V;  3OW2 T;  2QEX U;  1QVG T;  3CC7 U;  3CMA U;  3CCM U;  1QVF T;  3CD6 U;  1YHQ U; 
#chains in the Genus database with same CATH topology
 1Q7Y V;  3CC4 U;  3CCL U;  2QA4 U;  3G6E U;  3CCE U;  1M1K V;  1VQL U;  3CME U;  3CCR U;  3AO0 A;  1Q81 V;  3G71 U;  1VQ9 U;  1JJ2 T;  1YI2 U;  3CXC T;  1W2B T;  3CCJ U;  1VQ5 U;  5H1S Y;  5DM6 U;  1YJN U;  2JZ6 A;  1YIT U;  3G4S U;  1K8A V;  3I56 U;  1YIJ U;  1Q86 V;  1VQ8 U;  1KQS T;  5MLC Y;  3ABS A;  3CC2 U;  3ABR A;  1KD1 V;  2QEX U;  1QVG T;  3CC7 U;  2QEZ A;  1QVF T;  1YHQ U;  1K9M V;  1KC8 V;  3J7Z X;  4UY8 X;  1VQ4 U;  1N8R V;  3CCV U;  5AN9 G;  1VQP U;  1YJW U;  1VQO U;  3I55 U;  3ABQ A;  1K73 V;  3ABO A;  1JJD A;  3CMA U;  3CCM U;  1VQ6 U;  1YJ9 U;  1Q82 V;  1S72 U;  1M90 V;  3CCU U;  1VQN U;  3CCQ U;  2OTJ U;  1VQM U;  3ANY A;  1NJI V;  3CPW T;  3CCS U;  1VQ7 U;  2OTL U;  1VQK U;  3OW2 T;  3CD6 U; 
#chains in the Genus database with same CATH homology
 1VQ6 U;  1Q7Y V;  1YJ9 U;  1Q82 V;  1K9M V;  1YI2 U;  3CXC T;  1W2B T;  3CCJ U;  1VQ5 U;  1YJN U;  3CC4 U;  1KC8 V;  3CCL U;  1S72 U;  2QA4 U;  1M90 V;  3CCU U;  1YIT U;  3G6E U;  3CCE U;  3G4S U;  1N8R V;  3CCQ U;  1K8A V;  3CCV U;  1M1K V;  1VQM U;  1VQ4 U;  1VQN U;  5AN9 G;  1VQP U;  2OTJ U;  1VQL U;  1NJI V;  3I56 U;  3CPW T;  1YIJ U;  1YJW U;  3CME U;  3CCS U;  1VQO U;  1Q86 V;  3CCR U;  1Q81 V;  1VQ8 U;  1KQS T;  3G71 U;  1VQ7 U;  1VQ9 U;  2OTL U;  3I55 U;  1JJ2 T;  3CC2 U;  1VQK U;  1K73 V;  1KD1 V;  3OW2 T;  2QEX U;  1QVG T;  3CC7 U;  1JJD A;  3CMA U;  3CCM U;  1QVF T;  3CD6 U;  1YHQ U; 
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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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