4JI2R

Crystal structure of 30s ribosomal subunit from thermus thermophilus
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
70
structure length
70
Chain Sequence
KAKVKATLGEFDLRDYRNVEVLKRFLSETGKILPRRRTGLSAKEQRILAKTIKRARILGLLPFTEKLVRK
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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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publication title The central role of protein S12 in organizing the structure of the decoding site of the ribosome.
pubmed doi rcsb
molecule tags Ribosome
molecule keywords 16S rRNA
total genus 16
structure length 70
sequence length 70
ec nomenclature
pdb deposition date 2013-03-05

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 4ji2R00
4DV1R 4YHHR 3OTOR 4JI4R 2F4VR 4LFAR 4DR6R 4JI1R 1FKAR 1XMOR 1N34R 4JI5R 4B3RR 1FJGR 4NXNR 4DV7R 2VQER 1J5ER 1XNQR 4B3SR 2UU9R 1HNZR 4LF4R 1XNRR 1IBMR 4LF7R 4LF9R 2UXDR 4OX9R 4KHPR 2UUCR 1IBKR 4NXMR 5LMUR 3T1YR 4AQYR 4GKKR 4DV6R 4LFCR 4DUZR 4X64R 2UXBR 1HR0R 4GKJR 4DR2R 4X65R 2E5LR 1HNWR 2UXCR 4K0KR 1I94R 4JI7R 4X62R 4JYAR 4DUYR 4JV5R 4DR5R 4B3MR 2HHHR 5BR8R 2UUBR 4DV0R 4LF8R 4JI2R 4DV4R 4B3TR 4YY3R 4DR4R 1XMQR 1N32R 1G1XC 3T1HR 4DV5R 1N36R 5LMNR 4JI0R 4DR1R 4LF6R 1IBLR 4JI8R 2UUAR 2ZM6R 4LFBR 4LF5R 4JI3R 4JI6R 4DR7R 4DR3R 4DV2R 2VQFR 4X66R 1HNXR 4DV3R 1N33R
chains in the Genus database with same CATH superfamily
4DV1R 4YHHR 3OTOR 4JI4R 2F4VR 4LFAR 4DR6R 4JI1R 1FKAR 1XMOR 1N34R 4JI5R 4B3RR 1FJGR 4NXNR 4DV7R 2VQER 1J5ER 1XNQR 4B3SR 2UU9R 1HNZR 4LF4R 1XNRR 1IBMR 4LF7R 4LF9R 2UXDR 4OX9R 4KHPR 2UUCR 1IBKR 4NXMR 5LMUR 3T1YR 4AQYR 4GKKR 4DV6R 4LFCR 4DUZR 4X64R 2UXBR 1HR0R 4GKJR 4DR2R 4X65R 2E5LR 1HNWR 2UXCR 4K0KR 1I94R 4JI7R 4X62R 4JYAR 4DUYR 4JV5R 4DR5R 4B3MR 2HHHR 5BR8R 2UUBR 4DV0R 4LF8R 4JI2R 4DV4R 4B3TR 4YY3R 4DR4R 1XMQR 1N32R 1G1XC 3T1HR 4DV5R 1N36R 5LMNR 4JI0R 4DR1R 4LF6R 1IBLR 4JI8R 2UUAR 2ZM6R 4LFBR 4LF5R 4JI3R 4JI6R 4DR7R 4DR3R 4DV2R 2VQFR 4X66R 1HNXR 4DV3R 1N33R
chains in the Genus database with same CATH topology
4DV1R 4YHHR 3OTOR 4JI4R 2F4VR 4LFAR 4DR6R 4JI1R 1FKAR 1XMOR 1N34R 4JI5R 4B3RR 1FJGR 4NXNR 4DV7R 2VQER 1J5ER 1XNQR 4B3SR 2UU9R 1HNZR 4LF4R 1XNRR 1IBMR 4LF7R 4LF9R 2UXDR 4OX9R 4KHPR 2UUCR 1IBKR 4NXMR 5LMUR 3T1YR 4AQYR 4GKKR 4DV6R 4LFCR 4DUZR 4X64R 2UXBR 1HR0R 4GKJR 4DR2R 4X65R 2E5LR 1HNWR 2UXCR 4K0KR 1I94R 4JI7R 4X62R 4JYAR 4DUYR 4JV5R 4DR5R 4B3MR 2HHHR 5BR8R 2UUBR 4DV0R 4LF8R 4JI2R 4DV4R 4B3TR 4YY3R 4DR4R 1XMQR 1N32R 1G1XC 3T1HR 4DV5R 1N36R 5LMNR 4JI0R 4DR1R 4LF6R 1IBLR 4JI8R 2UUAR 2ZM6R 4LFBR 4LF5R 4JI3R 4JI6R 4DR7R 4DR3R 4DV2R 2VQFR 4X66R 1HNXR 4DV3R 1N33R
chains in the Genus database with same CATH homology


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