2HHHR

Crystal structure of kasugamycin bound to the 30s ribosomal subunit
Total Genus 15
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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
15
sequence length
73
structure length
73
Chain Sequence
PSRKAKVKATLGEFDLRDYRNVEVLKRFLSETGKILPRRRTGLSGKEQRILAKTIKRARILGLLPFTEKLVRK
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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 antibiotic kasugamycin mimics mRNA nucleotides to destabilize tRNA binding and inhibit canonical translation initiation.
pubmed doi rcsb
molecule tags Ribosome
molecule keywords 16S ribosomal RNA
total genus 15
structure length 73
sequence length 73
ec nomenclature
pdb deposition date 2006-06-28

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 2hhhR00
1IBKR 1J5ER 4JI2R 4LFCR 4DR7R 4LFBR 4LF7R 4X64R 4JV5R 4DV3R 2F4VR 1N32R 4YY3R 4K0KR 4LFAR 4JI4R 3T1YR 2UUCR 5LMUR 4YHHR 4OX9R 4GKKR 4KHPR 4DV7R 1HNWR 4DR4R 4B3MR 1I94R 5BR8R 2E5LR 2UUBR 4JI7R 4X62R 4X65R 4DUYR 4LF6R 4DR2R 4B3RR 5LMNR 1G1XC 4LF9R 3T1HR 1XMOR 1N36R 4LF8R 1IBMR 1IBLR 4JI5R 2UXDR 4DV1R 1HNXR 1HR0R 4X66R 4NXMR 1FJGR 4JI0R 4DV0R 1XNQR 4JI8R 4JI1R 2VQER 4DV5R 4JI6R 3OTOR 1FKAR 4B3SR 4B3TR 4DR1R 4DR3R 4DV6R 1N33R 2UU9R 4LF4R 1XMQR 4LF5R 4AQYR 4JI3R 2VQFR 1XNRR 4JYAR 2ZM6R 1N34R 4DV4R 1HNZR 2UUAR 4NXNR 2UXCR 4DV2R 4DR5R 4GKJR 2UXBR 2HHHR 4DUZR 4DR6R
chains in the Genus database with same CATH superfamily
1IBKR 1J5ER 4JI2R 4LFCR 4DR7R 4LFBR 4LF7R 4X64R 4JV5R 4DV3R 2F4VR 1N32R 4YY3R 4K0KR 4LFAR 4JI4R 3T1YR 2UUCR 5LMUR 4YHHR 4OX9R 4GKKR 4KHPR 4DV7R 1HNWR 4DR4R 4B3MR 1I94R 5BR8R 2E5LR 2UUBR 4JI7R 4X62R 4X65R 4DUYR 4LF6R 4DR2R 4B3RR 5LMNR 1G1XC 4LF9R 3T1HR 1XMOR 1N36R 4LF8R 1IBMR 1IBLR 4JI5R 2UXDR 4DV1R 1HNXR 1HR0R 4X66R 4NXMR 1FJGR 4JI0R 4DV0R 1XNQR 4JI8R 4JI1R 2VQER 4DV5R 4JI6R 3OTOR 1FKAR 4B3SR 4B3TR 4DR1R 4DR3R 4DV6R 1N33R 2UU9R 4LF4R 1XMQR 4LF5R 4AQYR 4JI3R 2VQFR 1XNRR 4JYAR 2ZM6R 1N34R 4DV4R 1HNZR 2UUAR 4NXNR 2UXCR 4DV2R 4DR5R 4GKJR 2UXBR 2HHHR 4DUZR 4DR6R
chains in the Genus database with same CATH topology
1IBKR 1J5ER 4JI2R 4LFCR 4DR7R 4LFBR 4LF7R 4X64R 4JV5R 4DV3R 2F4VR 1N32R 4YY3R 4K0KR 4LFAR 4JI4R 3T1YR 2UUCR 5LMUR 4YHHR 4OX9R 4GKKR 4KHPR 4DV7R 1HNWR 4DR4R 4B3MR 1I94R 5BR8R 2E5LR 2UUBR 4JI7R 4X62R 4X65R 4DUYR 4LF6R 4DR2R 4B3RR 5LMNR 1G1XC 4LF9R 3T1HR 1XMOR 1N36R 4LF8R 1IBMR 1IBLR 4JI5R 2UXDR 4DV1R 1HNXR 1HR0R 4X66R 4NXMR 1FJGR 4JI0R 4DV0R 1XNQR 4JI8R 4JI1R 2VQER 4DV5R 4JI6R 3OTOR 1FKAR 4B3SR 4B3TR 4DR1R 4DR3R 4DV6R 1N33R 2UU9R 4LF4R 1XMQR 4LF5R 4AQYR 4JI3R 2VQFR 1XNRR 4JYAR 2ZM6R 1N34R 4DV4R 1HNZR 2UUAR 4NXNR 2UXCR 4DV2R 4DR5R 4GKJR 2UXBR 2HHHR 4DUZR 4DR6R
chains in the Genus database with same CATH homology


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