4K0KD

Crystal structure of the thermus thermophilus 30s ribosomal subunit complexed with a serine-asl and mrna containing a stop codon
Total Genus 54
Loading diagram...

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
54
sequence length
208
structure length
208
Chain Sequence
GRYIGPVCRLCRREGVKLYLKGERCYSPKCAMERRPYPPGQHGQKRARRPSDYAVRLREKQKLRRIYGISERQFRNLFEEASKKKGVTGSVFLGLLESRLDNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAVAEKSRNLELIRQNLEAMKGRKVGPWLSLDVEGMKGKFLRLPDREDLALPVNEQLVIEFYSR
Loading diagram...

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
{{ tooltip.sname }} connected with {{ tooltip.tname }} : {{qFormat(tooltip.svalue) }}
molecule tags Ribosome
molecule keywords 16S ribosomal RNA
publication title Unusual base pairing during the decoding of a stop codon by the ribosome.
pubmed doi rcsb
total genus 54
structure length 208
sequence length 208
ec nomenclature
pdb deposition date 2013-04-04

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
D PF00163 Ribosomal_S4 Ribosomal protein S4/S9 N-terminal domain
D PF01479 S4 S4 domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.1050.10 Mainly Alpha Orthogonal Bundle Ribosomal Protein S4 Delta 41; Chain A, domain 1 Ribosomal Protein S4 Delta 41; Chain A, domain 1 4k0kD01
3.10.290.10 Alpha Beta Roll Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region; Chain A RNA-binding S4 domain 4k0kD02
4LF5D 4DV4D 1C05A 4JI4D 4DR4D 1IBKD 2HHHD 5IWAD 4GKKD 3OTOD 4LF4D 2UU9D 4JI7D 1FKAD 1N32D 4DR3D 3HP7A 2F4VD 2UUCD 4B3SD 1IBMD 4LF6D 1HNWD 4JYAD 2ISTA 2K6PA 4JI1D 4DR7D 4X62D 4DV0D 4LF8D 4OX9D 4DV1D 4YHHD 4DR1D 1XMQD 4LGTA 1N33D 4NXMD 1KSVA 4DUYD 4X65D 4GKJD 3DH3A 4LFAD 2UXDD 1N36D 2ZM6D 1FJGD 4K0KD 4JI8D 2UUAD 4LFCD 1HNXD 4LFBD 1P9KA 1N34D 4B3MD 1KSLA 4JI3D 1H3FA 2UXBD 4DV2D 3KBGA 1J5ED 1XNQD 4NXND 2KTLA 4B3TD 1KSKA 4JI0D 4KHPD 4JI5D 1DM9A 4DR2D 4DR6D 1I94D 2UUBD 3T1HD 3T1YD 4DV5D 4OUDA 2E5LD 4X64D 4LF9D 2JANA 4B3RD 4DV7D 4YY3D 4DV3D 1C06A 4DR5D 1IBLD 1VIOA 4JV5D 4DV6D 4JI2D 5LMUD 1HNZD 1JH3A 4DUZD 4AQYD 5LMND 4X66D 2VQFD 4LF7D 1XNRD 1XMOD 5BR8D 4JI6D 1H3EA 1HR0D 2VQED 2UXCD
chains in the Genus database with same CATH superfamily
4LF5D 4DV4D 5FQ2B 1C05A 4JI4D 4DR4D 1IBKD 2HHHD 5IWAD 4GKKD 3OTOD 4LF4D 2UU9D 4JI7D 1FKAD 3CMMA 1N32D 4DR3D 3HP7A 2F4VD 3J80E 2UUCD 4B3SD 1IBMD 1Y8QB 4LF6D 2LQ7A 1HNWD 4JYAD 2ISTA 2K6PA 5IT9E 4JI1D 4DR7D 4X62D 4DV0D 4LF8D 4OX9D 4DV1D 4YHHD 4W5VB 4DR1D 2NVUB 1XMQD 3J81E 4LGTA 4II3A 1Y8XB 1N33D 4NXMD 1KSVA 4DUYD 4X65D 4GKJD 3DH3A 4LFAD 2UXDD 1N36D 3J7AF 2ZM6D 3ONGA 1FJGD 4K0KD 4JI8D 2UUAD 4LFCD 1HNXD 5KNLA 4LFBD 1P9KA 1N34D 2ZTBA 4B3MD 1KSLA 4JI3D 1H3FA 2UXBD 4DV2D 3KBGA 1J5ED 1XNQD 2I1SA 4NXND 2KTLA 2L3NA 4B3TD 1KSKA 5FLXE 4JI0D 5A2QE 4KHPD 4JI5D 1DM9A 4DR2D 4DR6D 1I94D 2UUBD 3T1HD 3T1YD 4DV5D 4OUDA 2E5LD 4X64D 4LF9D 2JANA 4B3RD 4DV7D 4YY3D 4DV3D 1C06A 4DR5D 1IBLD 1VIOA 3ONHA 4JV5D 4DV6D 4JI2D 5LMUD 1HNZD 3FN1A 1JH3A 4DUZD 4AQYD 3JAME 3KYCB 5LMND 4X66D 1Y8RB 2VQFD 4LF7D 1XNRD 1XMOD 5LL6S 5BR8D 4JI6D 1H3EA 1HR0D 2VQED 4II2A 4NNJA 2UXCD 3KYDB
chains in the Genus database with same CATH topology
4LF5D 4DV4D 1C05A 4JI4D 4DR4D 1IBKD 2HHHD 5IWAD 4GKKD 3OTOD 4LF4D 2UU9D 4JI7D 1FKAD 1N32D 4DR3D 3HP7A 2F4VD 2UUCD 4B3SD 1IBMD 4LF6D 1HNWD 4JYAD 2ISTA 2K6PA 4JI1D 4DR7D 4X62D 4DV0D 4LF8D 4OX9D 4DV1D 4YHHD 4DR1D 1XMQD 4LGTA 1N33D 4NXMD 1KSVA 4DUYD 4X65D 4GKJD 3DH3A 4LFAD 2UXDD 1N36D 2ZM6D 1FJGD 4K0KD 4JI8D 2UUAD 4LFCD 1HNXD 4LFBD 1P9KA 1N34D 4B3MD 1KSLA 4JI3D 1H3FA 2UXBD 4DV2D 3KBGA 1J5ED 1XNQD 4NXND 2KTLA 2L3NA 4B3TD 1KSKA 4JI0D 4KHPD 4JI5D 1DM9A 4DR2D 4DR6D 1I94D 2UUBD 3T1HD 3T1YD 4DV5D 4OUDA 2E5LD 4X64D 4LF9D 2JANA 4B3RD 4DV7D 4YY3D 4DV3D 1C06A 4DR5D 1IBLD 1VIOA 4JV5D 4DV6D 4JI2D 5LMUD 1HNZD 1JH3A 4DUZD 4AQYD 5LMND 4X66D 2VQFD 4LF7D 1XNRD 1XMOD 5BR8D 4JI6D 1H3EA 1HR0D 2VQED 2UXCD
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4LF5 D;  4DV4 D;  1C05 A;  4JI4 D;  4DR4 D;  1IBK D;  2HHH D;  5IWA D;  4GKK D;  3OTO D;  4LF4 D;  2UU9 D;  4JI7 D;  1FKA D;  1N32 D;  4DR3 D;  3HP7 A;  2F4V D;  2UUC D;  4B3S D;  1IBM D;  4LF6 D;  1HNW D;  4JYA D;  2IST A;  2K6P A;  4JI1 D;  4DR7 D;  4X62 D;  4DV0 D;  4LF8 D;  4OX9 D;  4DV1 D;  4YHH D;  4DR1 D;  1XMQ D;  4LGT A;  1N33 D;  4NXM D;  1KSV A;  4DUY D;  4X65 D;  4GKJ D;  3DH3 A;  4LFA D;  2UXD D;  1N36 D;  2ZM6 D;  1FJG D;  4K0K D;  4JI8 D;  2UUA D;  4LFC D;  1HNX D;  4LFB D;  1P9K A;  1N34 D;  4B3M D;  1KSL A;  4JI3 D;  1H3F A;  2UXB D;  4DV2 D;  3KBG A;  1J5E D;  1XNQ D;  4NXN D;  2KTL A;  4B3T D;  1KSK A;  4JI0 D;  4KHP D;  4JI5 D;  1DM9 A;  4DR2 D;  4DR6 D;  1I94 D;  2UUB D;  3T1H D;  3T1Y D;  4DV5 D;  4OUD A;  2E5L D;  4X64 D;  4LF9 D;  2JAN A;  4B3R D;  4DV7 D;  4YY3 D;  4DV3 D;  1C06 A;  4DR5 D;  1IBL D;  1VIO A;  4JV5 D;  4DV6 D;  4JI2 D;  5LMU D;  1HNZ D;  1JH3 A;  4DUZ D;  4AQY D;  5LMN D;  4X66 D;  2VQF D;  4LF7 D;  1XNR D;  1XMO D;  5BR8 D;  4JI6 D;  1H3E A;  1HR0 D;  2VQE D;  2UXC D; 
#chains in the Genus database with same CATH topology
 4LF5 D;  4DV4 D;  5FQ2 B;  1C05 A;  4JI4 D;  4DR4 D;  1IBK D;  2HHH D;  5IWA D;  4GKK D;  3OTO D;  4LF4 D;  2UU9 D;  4JI7 D;  1FKA D;  3CMM A;  1N32 D;  4DR3 D;  3HP7 A;  2F4V D;  3J80 E;  2UUC D;  4B3S D;  1IBM D;  1Y8Q B;  4LF6 D;  2LQ7 A;  1HNW D;  4JYA D;  2IST A;  2K6P A;  5IT9 E;  4JI1 D;  4DR7 D;  4X62 D;  4DV0 D;  4LF8 D;  4OX9 D;  4DV1 D;  4YHH D;  4W5V B;  4DR1 D;  2NVU B;  1XMQ D;  3J81 E;  4LGT A;  4II3 A;  1Y8X B;  1N33 D;  4NXM D;  1KSV A;  4DUY D;  4X65 D;  4GKJ D;  3DH3 A;  4LFA D;  2UXD D;  1N36 D;  3J7A F;  2ZM6 D;  3ONG A;  1FJG D;  4K0K D;  4JI8 D;  2UUA D;  4LFC D;  1HNX D;  5KNL A;  4LFB D;  1P9K A;  1N34 D;  2ZTB A;  4B3M D;  1KSL A;  4JI3 D;  1H3F A;  2UXB D;  4DV2 D;  3KBG A;  1J5E D;  1XNQ D;  2I1S A;  4NXN D;  2KTL A;  2L3N A;  4B3T D;  1KSK A;  5FLX E;  4JI0 D;  5A2Q E;  4KHP D;  4JI5 D;  1DM9 A;  4DR2 D;  4DR6 D;  1I94 D;  2UUB D;  3T1H D;  3T1Y D;  4DV5 D;  4OUD A;  2E5L D;  4X64 D;  4LF9 D;  2JAN A;  4B3R D;  4DV7 D;  4YY3 D;  4DV3 D;  1C06 A;  4DR5 D;  1IBL D;  1VIO A;  3ONH A;  4JV5 D;  4DV6 D;  4JI2 D;  5LMU D;  1HNZ D;  3FN1 A;  1JH3 A;  4DUZ D;  4AQY D;  3JAM E;  3KYC B;  5LMN D;  4X66 D;  1Y8R B;  2VQF D;  4LF7 D;  1XNR D;  1XMO D;  5LL6 S;  5BR8 D;  4JI6 D;  1H3E A;  1HR0 D;  2VQE D;  4II2 A;  4NNJ A;  2UXC D;  3KYD B; 
#chains in the Genus database with same CATH homology
 4LF5 D;  4DV4 D;  1C05 A;  4JI4 D;  4DR4 D;  1IBK D;  2HHH D;  5IWA D;  4GKK D;  3OTO D;  4LF4 D;  2UU9 D;  4JI7 D;  1FKA D;  1N32 D;  4DR3 D;  3HP7 A;  2F4V D;  2UUC D;  4B3S D;  1IBM D;  4LF6 D;  1HNW D;  4JYA D;  2IST A;  2K6P A;  4JI1 D;  4DR7 D;  4X62 D;  4DV0 D;  4LF8 D;  4OX9 D;  4DV1 D;  4YHH D;  4DR1 D;  1XMQ D;  4LGT A;  1N33 D;  4NXM D;  1KSV A;  4DUY D;  4X65 D;  4GKJ D;  3DH3 A;  4LFA D;  2UXD D;  1N36 D;  2ZM6 D;  1FJG D;  4K0K D;  4JI8 D;  2UUA D;  4LFC D;  1HNX D;  4LFB D;  1P9K A;  1N34 D;  4B3M D;  1KSL A;  4JI3 D;  1H3F A;  2UXB D;  4DV2 D;  3KBG A;  1J5E D;  1XNQ D;  4NXN D;  2KTL A;  2L3N A;  4B3T D;  1KSK A;  4JI0 D;  4KHP D;  4JI5 D;  1DM9 A;  4DR2 D;  4DR6 D;  1I94 D;  2UUB D;  3T1H D;  3T1Y D;  4DV5 D;  4OUD A;  2E5L D;  4X64 D;  4LF9 D;  2JAN A;  4B3R D;  4DV7 D;  4YY3 D;  4DV3 D;  1C06 A;  4DR5 D;  1IBL D;  1VIO A;  4JV5 D;  4DV6 D;  4JI2 D;  5LMU D;  1HNZ D;  1JH3 A;  4DUZ D;  4AQY D;  5LMN D;  4X66 D;  2VQF D;  4LF7 D;  1XNR D;  1XMO D;  5BR8 D;  4JI6 D;  1H3E A;  1HR0 D;  2VQE D;  2UXC D; 
...loading similar chains, please wait...
similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...