4DR7R

Crystal structure of the thermus thermophilus (hb8) 30s ribosomal subunit with codon, crystallographically disordered near-cognate transfer rna anticodon stem-loop mismatched at the second codon position, and streptomycin bound
Total Genus 16
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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
16
sequence length
71
structure length
71
Chain Sequence
RKAKVKATLGEFDLRDYRNVEVLKRFLSETGKILPRRRTGLSAKEQRILAKTIKRARILGLLPFTEKLVRK
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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/antibiotic
molecule keywords 16S rRNA
publication title A structural basis for streptomycin-induced misreading of the genetic code.
pubmed doi rcsb
total genus 16
structure length 71
sequence length 71
ec nomenclature
pdb deposition date 2012-02-16

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
R PF01084 Ribosomal_S18 Ribosomal protein S18
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
4.10.640.10 Few Secondary Structures Irregular 30s Ribosomal Protein S18 Ribosomal protein S18 4dr7R00
1N36R 3OTOR 1IBKR 4YHHR 4DR6R 2UU9R 4JI5R 4JV5R 4GKJR 4DV1R 4LF4R 1HNZR 4DV4R 4DUZR 4OX9R 4DV6R 5BR8R 5LMUR 4AQYR 4GKKR 1I94R 2UUAR 4DV5R 4JYAR 4DR3R 1IBMR 4DR5R 1HNWR 4X66R 1XNQR 4B3TR 2HHHR 4DV7R 4DR1R 4B3SR 4B3RR 4K0KR 4JI1R 4JI6R 4JI0R 1FKAR 4DUYR 4KHPR 4JI4R 4NXNR 4LF6R 4LFAR 4YY3R 1FJGR 4JI8R 3T1HR 1G1XC 2VQFR 4X64R 2F4VR 4LFCR 4JI2R 4DV0R 4DR4R 4LF9R 1XMQR 2UXCR 1N33R 4JI3R 2UXDR 4DR2R 4NXMR 1J5ER 4LFBR 4DV2R 1IBLR 2VQER 2UUCR 2ZM6R 4B3MR 1N32R 4LF7R 2UUBR 1HR0R 4X62R 4DR7R 4DV3R 4X65R 1XMOR 1N34R 1HNXR 4LF5R 5LMNR 3T1YR 4JI7R 2UXBR 4LF8R 1XNRR 2E5LR
chains in the Genus database with same CATH superfamily
1N36R 3OTOR 1IBKR 4YHHR 4DR6R 2UU9R 4JI5R 4JV5R 4GKJR 4DV1R 4LF4R 1HNZR 4DV4R 4DUZR 4OX9R 4DV6R 5BR8R 5LMUR 4AQYR 4GKKR 1I94R 2UUAR 4DV5R 4JYAR 4DR3R 1IBMR 4DR5R 1HNWR 4X66R 1XNQR 4B3TR 2HHHR 4DV7R 4DR1R 4B3SR 4B3RR 4K0KR 4JI1R 4JI6R 4JI0R 1FKAR 4DUYR 4KHPR 4JI4R 4NXNR 4LF6R 4LFAR 4YY3R 1FJGR 4JI8R 3T1HR 1G1XC 2VQFR 4X64R 2F4VR 4LFCR 4JI2R 4DV0R 4DR4R 4LF9R 1XMQR 2UXCR 1N33R 4JI3R 2UXDR 4DR2R 4NXMR 1J5ER 4LFBR 4DV2R 1IBLR 2VQER 2UUCR 2ZM6R 4B3MR 1N32R 4LF7R 2UUBR 1HR0R 4X62R 4DR7R 4DV3R 4X65R 1XMOR 1N34R 1HNXR 4LF5R 5LMNR 3T1YR 4JI7R 2UXBR 4LF8R 1XNRR 2E5LR
chains in the Genus database with same CATH topology
1N36R 3OTOR 1IBKR 4YHHR 4DR6R 2UU9R 4JI5R 4JV5R 4GKJR 4DV1R 4LF4R 1HNZR 4DV4R 4DUZR 4OX9R 4DV6R 5BR8R 5LMUR 4AQYR 4GKKR 1I94R 2UUAR 4DV5R 4JYAR 4DR3R 1IBMR 4DR5R 1HNWR 4X66R 1XNQR 4B3TR 2HHHR 4DV7R 4DR1R 4B3SR 4B3RR 4K0KR 4JI1R 4JI6R 4JI0R 1FKAR 4DUYR 4KHPR 4JI4R 4NXNR 4LF6R 4LFAR 4YY3R 1FJGR 4JI8R 3T1HR 1G1XC 2VQFR 4X64R 2F4VR 4LFCR 4JI2R 4DV0R 4DR4R 4LF9R 1XMQR 2UXCR 1N33R 4JI3R 2UXDR 4DR2R 4NXMR 1J5ER 4LFBR 4DV2R 1IBLR 2VQER 2UUCR 2ZM6R 4B3MR 1N32R 4LF7R 2UUBR 1HR0R 4X62R 4DR7R 4DV3R 4X65R 1XMOR 1N34R 1HNXR 4LF5R 5LMNR 3T1YR 4JI7R 2UXBR 4LF8R 1XNRR 2E5LR
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1N36 R;  3OTO R;  1IBK R;  4YHH R;  4DR6 R;  2UU9 R;  4JI5 R;  4JV5 R;  4GKJ R;  4DV1 R;  4LF4 R;  1HNZ R;  4DV4 R;  4DUZ R;  4OX9 R;  4DV6 R;  5BR8 R;  5LMU R;  4AQY R;  4GKK R;  1I94 R;  2UUA R;  4DV5 R;  4JYA R;  4DR3 R;  1IBM R;  4DR5 R;  1HNW R;  4X66 R;  1XNQ R;  4B3T R;  2HHH R;  4DV7 R;  4DR1 R;  4B3S R;  4B3R R;  4K0K R;  4JI1 R;  4JI6 R;  4JI0 R;  1FKA R;  4DUY R;  4KHP R;  4JI4 R;  4NXN R;  4LF6 R;  4LFA R;  4YY3 R;  1FJG R;  4JI8 R;  3T1H R;  1G1X C;  2VQF R;  4X64 R;  2F4V R;  4LFC R;  4JI2 R;  4DV0 R;  4DR4 R;  4LF9 R;  1XMQ R;  2UXC R;  1N33 R;  4JI3 R;  2UXD R;  4DR2 R;  4NXM R;  1J5E R;  4LFB R;  4DV2 R;  1IBL R;  2VQE R;  2UUC R;  2ZM6 R;  4B3M R;  1N32 R;  4LF7 R;  2UUB R;  1HR0 R;  4X62 R;  4DR7 R;  4DV3 R;  4X65 R;  1XMO R;  1N34 R;  1HNX R;  4LF5 R;  5LMN R;  3T1Y R;  4JI7 R;  2UXB R;  4LF8 R;  1XNR R;  2E5L R; 
#chains in the Genus database with same CATH topology
 1N36 R;  3OTO R;  1IBK R;  4YHH R;  4DR6 R;  2UU9 R;  4JI5 R;  4JV5 R;  4GKJ R;  4DV1 R;  4LF4 R;  1HNZ R;  4DV4 R;  4DUZ R;  4OX9 R;  4DV6 R;  5BR8 R;  5LMU R;  4AQY R;  4GKK R;  1I94 R;  2UUA R;  4DV5 R;  4JYA R;  4DR3 R;  1IBM R;  4DR5 R;  1HNW R;  4X66 R;  1XNQ R;  4B3T R;  2HHH R;  4DV7 R;  4DR1 R;  4B3S R;  4B3R R;  4K0K R;  4JI1 R;  4JI6 R;  4JI0 R;  1FKA R;  4DUY R;  4KHP R;  4JI4 R;  4NXN R;  4LF6 R;  4LFA R;  4YY3 R;  1FJG R;  4JI8 R;  3T1H R;  1G1X C;  2VQF R;  4X64 R;  2F4V R;  4LFC R;  4JI2 R;  4DV0 R;  4DR4 R;  4LF9 R;  1XMQ R;  2UXC R;  1N33 R;  4JI3 R;  2UXD R;  4DR2 R;  4NXM R;  1J5E R;  4LFB R;  4DV2 R;  1IBL R;  2VQE R;  2UUC R;  2ZM6 R;  4B3M R;  1N32 R;  4LF7 R;  2UUB R;  1HR0 R;  4X62 R;  4DR7 R;  4DV3 R;  4X65 R;  1XMO R;  1N34 R;  1HNX R;  4LF5 R;  5LMN R;  3T1Y R;  4JI7 R;  2UXB R;  4LF8 R;  1XNR R;  2E5L R; 
#chains in the Genus database with same CATH homology
 1N36 R;  3OTO R;  1IBK R;  4YHH R;  4DR6 R;  2UU9 R;  4JI5 R;  4JV5 R;  4GKJ R;  4DV1 R;  4LF4 R;  1HNZ R;  4DV4 R;  4DUZ R;  4OX9 R;  4DV6 R;  5BR8 R;  5LMU R;  4AQY R;  4GKK R;  1I94 R;  2UUA R;  4DV5 R;  4JYA R;  4DR3 R;  1IBM R;  4DR5 R;  1HNW R;  4X66 R;  1XNQ R;  4B3T R;  2HHH R;  4DV7 R;  4DR1 R;  4B3S R;  4B3R R;  4K0K R;  4JI1 R;  4JI6 R;  4JI0 R;  1FKA R;  4DUY R;  4KHP R;  4JI4 R;  4NXN R;  4LF6 R;  4LFA R;  4YY3 R;  1FJG R;  4JI8 R;  3T1H R;  1G1X C;  2VQF R;  4X64 R;  2F4V R;  4LFC R;  4JI2 R;  4DV0 R;  4DR4 R;  4LF9 R;  1XMQ R;  2UXC R;  1N33 R;  4JI3 R;  2UXD R;  4DR2 R;  4NXM R;  1J5E R;  4LFB R;  4DV2 R;  1IBL R;  2VQE R;  2UUC R;  2ZM6 R;  4B3M R;  1N32 R;  4LF7 R;  2UUB R;  1HR0 R;  4X62 R;  4DR7 R;  4DV3 R;  4X65 R;  1XMO R;  1N34 R;  1HNX R;  4LF5 R;  5LMN R;  3T1Y R;  4JI7 R;  2UXB R;  4LF8 R;  1XNR R;  2E5L R; 
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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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