4YHHD

Crystal structure of the 30s ribosomal subunit from thermus thermophilus in complex with tigecycline
Total Genus 38
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
38
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.


  Genus data interpretation
Chord Diagram
Updating...
connected with : NaN
molecule tags Ribosome
publication title Structural characterization of an alternative mode of tigecycline binding to the bacterial ribosome.
pubmed doi rcsb
molecule keywords 16S ribosomal RNA
total genus 38
structure length 208
sequence length 208
ec nomenclature
pdb deposition date 2015-02-27

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 4yhhD01
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 4yhhD02
5IWAD 4LF6D 4JI8D 4K0KD 4JYAD 2VQED 4LFBD 4DR3D 4DUYD 4JI7D 4B3MD 4X64D 1HNZD 1VIOA 4B3RD 4X65D 4LFAD 2UUBD 2KTLA 2UUAD 4DV7D 4JI5D 4JV5D 4LF8D 3OTOD 4YY3D 4NXMD 1HNXD 4LF7D 4LF9D 4OX9D 1I94D 4OUDA 1XMQD 4JI4D 3DH3A 1DM9A 1XNRD 1IBKD 4DV2D 1N32D 4GKKD 2ISTA 4X66D 1IBMD 1J5ED 1FKAD 4B3TD 1N33D 4YHHD 2UU9D 2UXDD 1H3EA 1P9KA 5LMND 4JI6D 4GKJD 4DR1D 4DR4D 2HHHD 4LF5D 4JI2D 5BR8D 3T1HD 1HR0D 4KHPD 2UUCD 4JI3D 3KBGA 3T1YD 1XMOD 4JI1D 4AQYD 4DUZD 2K6PA 1XNQD 2JANA 2ZM6D 1N34D 3HP7A 1JH3A 2F4VD 1H3FA 2UXBD 4LGTA 4B3SD 4LF4D 1C06A 5LMUD 4DV0D 4DV5D 4X62D 4DV4D 1N36D 4LFCD 4DR7D 4JI0D 1C05A 4DV1D 4DR6D 4DR2D 2UXCD 1KSVA 2VQFD 2E5LD 1KSLA 4DV6D 4NXND 1HNWD 1KSKA 4DV3D 4DR5D 1IBLD 1FJGD
chains in the Genus database with same CATH superfamily
5IWAD 3KYDB 2L3NA 4JI8D 4LF6D 4K0KD 4JYAD 3ONHA 2VQED 4LFBD 4DR3D 4DUYD 4JI7D 4B3MD 4X64D 1HNZD 1VIOA 4B3RD 4X65D 4LFAD 2UUBD 2KTLA 2UUAD 4DV7D 4JI5D 2ZTBA 4JV5D 4LF8D 3OTOD 4YY3D 4NXMD 1HNXD 4LF7D 4LF9D 4OX9D 1I94D 4OUDA 3J81E 1XMQD 4JI4D 2I1SA 3J7AF 3DH3A 1DM9A 4II3A 1XNRD 1IBKD 4DV2D 1N32D 5IT9E 4GKKD 3FN1A 2ISTA 2LQ7A 4X66D 1IBMD 1J5ED 1FKAD 4B3TD 4NNJA 1N33D 4YHHD 2UU9D 2UXDD 1H3EA 1P9KA 5LMND 4JI6D 4GKJD 4DR1D 2NVUB 4DR4D 2HHHD 5KNLA 4LF5D 4JI2D 5BR8D 3T1HD 3CMMA 3ONGA 1HR0D 5LL6S 4KHPD 2UUCD 4JI3D 3JAME 3KBGA 3T1YD 1XMOD 1Y8XB 4JI1D 5FLXE 4AQYD 5FQ2B 4DUZD 2K6PA 1XNQD 2JANA 2ZM6D 1N34D 3HP7A 1JH3A 2F4VD 1H3FA 2UXBD 1Y8RB 4LGTA 4B3SD 4LF4D 1C06A 5LMUD 4DV0D 1Y8QB 4DV5D 4X62D 4DV4D 1N36D 4W5VB 4LFCD 4DR7D 4JI0D 1C05A 4DV1D 3KYCB 4DR6D 4DR2D 2UXCD 1KSVA 2VQFD 5A2QE 2E5LD 1KSLA 4DV6D 4NXND 1HNWD 1KSKA 4DV3D 4DR5D 1IBLD 1FJGD 3J80E 4II2A
chains in the Genus database with same CATH topology
5IWAD 2L3NA 4JI8D 4LF6D 4K0KD 4JYAD 2VQED 4LFBD 4DR3D 4DUYD 4JI7D 4B3MD 4X64D 1HNZD 1VIOA 4B3RD 4X65D 4LFAD 2UUBD 2KTLA 2UUAD 4DV7D 4JI5D 4JV5D 4LF8D 3OTOD 4YY3D 4NXMD 1HNXD 4LF7D 4LF9D 4OX9D 1I94D 4OUDA 1XMQD 4JI4D 3DH3A 1DM9A 1XNRD 1IBKD 4DV2D 1N32D 4GKKD 2ISTA 4X66D 1IBMD 1J5ED 1FKAD 4B3TD 1N33D 4YHHD 2UU9D 2UXDD 1H3EA 1P9KA 5LMND 4JI6D 4GKJD 4DR1D 4DR4D 2HHHD 4LF5D 4JI2D 5BR8D 3T1HD 1HR0D 4KHPD 2UUCD 4JI3D 3KBGA 3T1YD 1XMOD 4JI1D 4AQYD 4DUZD 2K6PA 1XNQD 2JANA 2ZM6D 1N34D 3HP7A 1JH3A 2F4VD 1H3FA 2UXBD 4LGTA 4B3SD 4LF4D 1C06A 5LMUD 4DV0D 4DV5D 4X62D 4DV4D 1N36D 4LFCD 4DR7D 4JI0D 1C05A 4DV1D 4DR6D 4DR2D 2UXCD 1KSVA 2VQFD 2E5LD 1KSLA 4DV6D 4NXND 1HNWD 1KSKA 4DV3D 4DR5D 1IBLD 1FJGD
chains in the Genus database with same CATH homology

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