1N34D

Structure of the thermus thermophilus 30s ribosomal subunit in the presence of codon and crystallographically disordered near-cognate transfer rna anticodon stem-loop mismatched at the first codon position
Total Genus 57
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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
57
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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publication title Selection of tRNA by the Ribosome Requires a Transition from an Open to a Closed Form
pubmed doi rcsb
molecule tags Ribosome
molecule keywords 16S RIBOSOMAL RNA
total genus 57
structure length 208
sequence length 208
ec nomenclature
pdb deposition date 2002-10-25

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 1n34D01
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 1n34D02
4YY3D 1C06A 2K6PA 4NXMD 4DV4D 4JI2D 2UXCD 4JI3D 4LF4D 4DV7D 4B3MD 4JI7D 4DUYD 5IWAD 4DR2D 1KSVA 3T1HD 2UXDD 4LF8D 4DV3D 1JH3A 4DV2D 4AQYD 1N32D 4X65D 3OTOD 4DR3D 1DM9A 3KBGA 4LF5D 3HP7A 5LMUD 4LFCD 1XMOD 2UXBD 1J5ED 1KSLA 4B3SD 1H3FA 2F4VD 1N33D 1XNQD 1HNZD 1N36D 2ZM6D 4JV5D 4NXND 4OX9D 2JANA 4JYAD 4DUZD 4JI0D 4JI6D 4LF9D 4LF7D 1H3EA 1VIOA 1N34D 4DR1D 4DV5D 4DR7D 1IBMD 4B3RD 4LGTA 4DV6D 1FKAD 1IBKD 4YHHD 1HNWD 5LMND 1P9KA 4LF6D 4LFAD 2UUAD 4JI8D 4X66D 1XNRD 2UUBD 1C05A 4KHPD 4K0KD 4JI4D 4GKKD 4B3TD 4OUDA 1XMQD 1IBLD 2KTLA 4JI5D 4X62D 1HR0D 1HNXD 1I94D 1FJGD 4X64D 2VQFD 2UU9D 2ISTA 2E5LD 4JI1D 4LFBD 4DV1D 5BR8D 3DH3A 2HHHD 4DR5D 4DR6D 2UUCD 4DR4D 4GKJD 2VQED 4DV0D 1KSKA 3T1YD
chains in the Genus database with same CATH superfamily
2ZTBA 4YY3D 1C06A 3JAME 2K6PA 4NXMD 1Y8QB 4NNJA 4DV4D 4JI2D 2UXCD 3J81E 2L3NA 4JI3D 3ONGA 4LF4D 4DV7D 2I1SA 4B3MD 4JI7D 4DUYD 5IWAD 4DR2D 1KSVA 3T1HD 2UXDD 4LF8D 4DV3D 1JH3A 4DV2D 4AQYD 1N32D 4X65D 3OTOD 4DR3D 1DM9A 3FN1A 5KNLA 3KBGA 4LF5D 3HP7A 5LMUD 4LFCD 3ONHA 1XMOD 2UXBD 1J5ED 3KYDB 1KSLA 4B3SD 1H3FA 2F4VD 1N33D 5LL6S 1XNQD 1HNZD 5FQ2B 1N36D 2ZM6D 2LQ7A 4JV5D 4NXND 3KYCB 4OX9D 2JANA 4JYAD 4DUZD 4JI0D 4JI6D 4LF9D 4LF7D 3CMMA 1H3EA 1VIOA 1N34D 4DR1D 4DV5D 4DR7D 1IBMD 4B3RD 4LGTA 5IT9E 4DV6D 1FKAD 1IBKD 4YHHD 1HNWD 5LMND 1P9KA 4LF6D 4LFAD 5FLXE 3J7AF 2UUAD 4JI8D 4X66D 1XNRD 2UUBD 1C05A 4KHPD 4K0KD 4JI4D 4GKKD 4B3TD 4OUDA 1XMQD 1IBLD 4II3A 2KTLA 4JI5D 4X62D 1HR0D 1HNXD 3J80E 1Y8RB 1I94D 1FJGD 4X64D 2VQFD 2UU9D 2ISTA 2E5LD 4JI1D 4LFBD 4DV1D 1Y8XB 5BR8D 4II2A 3DH3A 2HHHD 4DR5D 4DR6D 2UUCD 4DR4D 5A2QE 4GKJD 2VQED 4DV0D 1KSKA 2NVUB 3T1YD 4W5VB
chains in the Genus database with same CATH topology
4YY3D 1C06A 2K6PA 4NXMD 4DV4D 4JI2D 2UXCD 2L3NA 4JI3D 4LF4D 4DV7D 4B3MD 4JI7D 4DUYD 5IWAD 4DR2D 1KSVA 3T1HD 2UXDD 4LF8D 4DV3D 1JH3A 4DV2D 4AQYD 1N32D 4X65D 3OTOD 4DR3D 1DM9A 3KBGA 4LF5D 3HP7A 5LMUD 4LFCD 1XMOD 2UXBD 1J5ED 1KSLA 4B3SD 1H3FA 2F4VD 1N33D 1XNQD 1HNZD 1N36D 2ZM6D 4JV5D 4NXND 4OX9D 2JANA 4JYAD 4DUZD 4JI0D 4JI6D 4LF9D 4LF7D 1H3EA 1VIOA 1N34D 4DR1D 4DV5D 4DR7D 1IBMD 4B3RD 4LGTA 4DV6D 1FKAD 1IBKD 4YHHD 1HNWD 5LMND 1P9KA 4LF6D 4LFAD 2UUAD 4JI8D 4X66D 1XNRD 2UUBD 1C05A 4KHPD 4K0KD 4JI4D 4GKKD 4B3TD 4OUDA 1XMQD 1IBLD 2KTLA 4JI5D 4X62D 1HR0D 1HNXD 1I94D 1FJGD 4X64D 2VQFD 2UU9D 2ISTA 2E5LD 4JI1D 4LFBD 4DV1D 5BR8D 3DH3A 2HHHD 4DR5D 4DR6D 2UUCD 4DR4D 4GKJD 2VQED 4DV0D 1KSKA 3T1YD
chains in the Genus database with same CATH homology


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