2UU9D

Structure of the thermus thermophilus 30s ribosomal subunit complexed with a valine-asl with cmo5u in position 34 bound to an mrna with a gug-codon in the a-site and paromomycin.
Total Genus 61
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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
61
sequence length
208
structure length
208
Chain Sequence
GRYIGPVCRLCRREGVKLYLKGERCYSPKCAMERRPYPPGQHGQKRARRPSDYAVRLREKQKLRRIYGISERQFRNLFEEASKKKGVTGSVFLGLLESRLDNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAVAEKSRNLELIRQNLEAMKGRKVGPWLSLDVEGMKGKFLRLPDREDLALPVNEQLVIEFYSR
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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
molecule keywords 16S RRNA
publication title Mechanism for expanding the decoding capacity of transfer RNAs by modification of uridines.
pubmed doi rcsb
total genus 61
structure length 208
sequence length 208
ec nomenclature
pdb deposition date 2007-03-01

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 2uu9D01
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 2uu9D02
4JI5D 4DR3D 4DR5D 1KSLA 4AQYD 5LMND 2UXCD 2KTLA 4DR4D 4B3TD 4GKJD 4NXMD 4JI3D 2UUBD 4LF7D 1XNQD 2VQFD 4LFBD 4JI1D 4LGTA 4DR7D 4OX9D 1XNRD 4JI6D 2E5LD 3T1HD 4JI8D 4K0KD 1H3FA 4LF9D 4DV5D 1JH3A 1DM9A 1IBLD 2ISTA 4YY3D 4JI0D 4LF6D 2K6PA 3HP7A 1HNXD 5BR8D 4DV7D 4LF5D 1FJGD 1H3EA 4OUDA 5LMUD 2JANA 3OTOD 1HR0D 4LFAD 1N34D 1VIOA 4NXND 4LF4D 1C05A 1KSKA 1N33D 1P9KA 4DR1D 4JI2D 2UU9D 1KSVA 4JYAD 4GKKD 4DV3D 1I94D 3KBGA 4X66D 1XMQD 1HNZD 1N36D 1IBKD 4LF8D 2F4VD 4DR2D 4JI7D 2UXBD 4KHPD 4DV2D 4DV0D 1C06A 1IBMD 4X65D 2UUAD 2HHHD 4B3MD 4YHHD 4DUYD 4DV1D 1XMOD 2ZM6D 1N32D 4JV5D 4X64D 4DV6D 4DV4D 3T1YD 1J5ED 3DH3A 1FKAD 2UXDD 1HNWD 5IWAD 4X62D 4B3SD 4DR6D 4B3RD 4DUZD 4JI4D 2UUCD 4LFCD 2VQED
chains in the Genus database with same CATH superfamily
4JI5D 2LQ7A 5FLXE 4DR3D 4DR5D 1KSLA 4AQYD 5LMND 2UXCD 2KTLA 4DR4D 4B3TD 1Y8XB 4GKJD 4NXMD 4JI3D 2UUBD 4LF7D 3CMMA 2L3NA 1XNQD 2VQFD 4LFBD 3KYCB 4JI1D 4LGTA 5IT9E 4DR7D 4OX9D 1XNRD 4JI6D 3J81E 2E5LD 3T1HD 4JI8D 4K0KD 1H3FA 4LF9D 4DV5D 1Y8QB 1JH3A 1DM9A 1IBLD 2ISTA 4YY3D 4JI0D 4LF6D 2K6PA 3HP7A 1HNXD 5BR8D 4DV7D 4LF5D 1FJGD 1H3EA 4OUDA 5LMUD 2JANA 3J80E 3OTOD 1HR0D 4LFAD 1N34D 5FQ2B 5LL6S 1VIOA 4NXND 4W5VB 4LF4D 1C05A 1KSKA 1N33D 1P9KA 4DR1D 4JI2D 2UU9D 1KSVA 4JYAD 4GKKD 4DV3D 1I94D 2I1SA 3KBGA 4X66D 1XMQD 5A2QE 1HNZD 2ZTBA 1N36D 1IBKD 4LF8D 2F4VD 4DR2D 5KNLA 4JI7D 2UXBD 4KHPD 4DV2D 4DV0D 1C06A 1IBMD 4X65D 2UUAD 2HHHD 3KYDB 4B3MD 4YHHD 4DUYD 4DV1D 1XMOD 2ZM6D 1N32D 1Y8RB 4JV5D 4X64D 4DV6D 4DV4D 3T1YD 1J5ED 3DH3A 1FKAD 2UXDD 4II2A 3ONGA 2NVUB 3JAME 3ONHA 1HNWD 3FN1A 5IWAD 4X62D 4B3SD 4DR6D 4B3RD 4DUZD 4JI4D 4NNJA 2UUCD 3J7AF 4LFCD 4II3A 2VQED
chains in the Genus database with same CATH topology
4JI5D 4DR3D 4DR5D 1KSLA 4AQYD 5LMND 2UXCD 2KTLA 4DR4D 4B3TD 4GKJD 4NXMD 4JI3D 2UUBD 4LF7D 2L3NA 1XNQD 2VQFD 4LFBD 4JI1D 4LGTA 4DR7D 4OX9D 1XNRD 4JI6D 2E5LD 3T1HD 4JI8D 4K0KD 1H3FA 4LF9D 4DV5D 1JH3A 1DM9A 1IBLD 2ISTA 4YY3D 4JI0D 4LF6D 2K6PA 3HP7A 1HNXD 5BR8D 4DV7D 4LF5D 1FJGD 1H3EA 4OUDA 5LMUD 2JANA 3OTOD 1HR0D 4LFAD 1N34D 1VIOA 4NXND 4LF4D 1C05A 1KSKA 1N33D 1P9KA 4DR1D 4JI2D 2UU9D 1KSVA 4JYAD 4GKKD 4DV3D 1I94D 3KBGA 4X66D 1XMQD 1HNZD 1N36D 1IBKD 4LF8D 2F4VD 4DR2D 4JI7D 2UXBD 4KHPD 4DV2D 4DV0D 1C06A 1IBMD 4X65D 2UUAD 2HHHD 4B3MD 4YHHD 4DUYD 4DV1D 1XMOD 2ZM6D 1N32D 4JV5D 4X64D 4DV6D 4DV4D 3T1YD 1J5ED 3DH3A 1FKAD 2UXDD 1HNWD 5IWAD 4X62D 4B3SD 4DR6D 4B3RD 4DUZD 4JI4D 2UUCD 4LFCD 2VQED
chains in the Genus database with same CATH homology


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