4LF6D

Crystal structure of 30s ribosomal subunit from thermus thermophilus
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 Crystal Structure of 30S ribosomal subunit from Thermus thermophilus
rcsb
molecule tags Ribosome
molecule keywords 16S rRNA
total genus 57
structure length 208
sequence length 208
ec nomenclature
pdb deposition date 2013-06-26

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 4lf6D01
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 4lf6D02
5BR8D 5LMUD 4B3MD 4JI3D 2HHHD 4OUDA 2F4VD 4OX9D 4YHHD 1VIOA 1C06A 2ISTA 1IBMD 2UXDD 4DV3D 2UUBD 2UXBD 1IBLD 4LFCD 4DR7D 4DUZD 4JI6D 5LMND 1KSVA 2JANA 4LGTA 1FJGD 4DV7D 2UUCD 2VQFD 4B3RD 4LFAD 2K6PA 1N32D 1HR0D 4LF7D 4X62D 4DV6D 1XMQD 4LF5D 1N33D 4JV5D 4K0KD 2UUAD 4JI2D 4JI0D 4LF6D 3T1HD 1HNXD 1FKAD 1HNWD 4GKKD 2KTLA 1IBKD 1KSKA 1C05A 4LFBD 2VQED 4LF4D 4DV4D 4X66D 4DV0D 4JI5D 4GKJD 4AQYD 3KBGA 1J5ED 4DR3D 2ZM6D 1KSLA 1P9KA 3DH3A 4KHPD 1JH3A 1XNRD 2UXCD 4JI4D 1H3EA 4B3SD 5IWAD 4JYAD 4DR5D 4DR2D 1N34D 2E5LD 3T1YD 1XMOD 4JI7D 4NXMD 1N36D 1I94D 4DR1D 4LF9D 1HNZD 3HP7A 2UU9D 4YY3D 4DR6D 3OTOD 4JI1D 1H3FA 4X64D 4LF8D 1XNQD 4X65D 4DUYD 4DR4D 4DV1D 4B3TD 4NXND 4JI8D 1DM9A 4DV5D 4DV2D
chains in the Genus database with same CATH superfamily
5BR8D 5LMUD 4B3MD 4JI3D 2HHHD 4OUDA 2F4VD 4OX9D 4YHHD 3J80E 1VIOA 1C06A 2ISTA 1IBMD 2UXDD 4DV3D 2UUBD 2UXBD 5FLXE 1IBLD 4LFCD 4DR7D 4DUZD 4JI6D 5LMND 3CMMA 1KSVA 2JANA 2L3NA 4LGTA 1FJGD 4DV7D 2UUCD 2VQFD 5LL6S 4B3RD 4LFAD 2K6PA 1N32D 1HR0D 4LF7D 4X62D 4DV6D 1XMQD 3J7AF 4LF5D 1N33D 4JV5D 4K0KD 3KYCB 1Y8RB 5KNLA 2UUAD 4JI2D 2NVUB 4JI0D 3KYDB 4LF6D 1Y8QB 3T1HD 1HNXD 2ZTBA 1FKAD 1HNWD 3ONGA 4W5VB 4GKKD 3JAME 3J81E 2KTLA 4II3A 5A2QE 1IBKD 1KSKA 1C05A 2I1SA 4LFBD 2VQED 4LF4D 4DV4D 4X66D 4DV0D 4JI5D 4GKJD 4AQYD 1Y8XB 3KBGA 1J5ED 5IT9E 4DR3D 2ZM6D 1KSLA 1P9KA 3DH3A 4KHPD 1JH3A 1XNRD 2UXCD 4JI4D 1H3EA 4B3SD 5IWAD 4JYAD 4DR5D 4DR2D 1N34D 2E5LD 3T1YD 3FN1A 4NNJA 1XMOD 5FQ2B 4JI7D 4NXMD 1N36D 1I94D 4DR1D 4LF9D 1HNZD 3HP7A 2UU9D 4II2A 4YY3D 4DR6D 3OTOD 4JI1D 1H3FA 4X64D 4LF8D 1XNQD 3ONHA 4X65D 4DUYD 4DR4D 2LQ7A 4DV1D 4B3TD 4NXND 4JI8D 1DM9A 4DV5D 4DV2D
chains in the Genus database with same CATH topology
5BR8D 5LMUD 4B3MD 4JI3D 2HHHD 4OUDA 2F4VD 4OX9D 4YHHD 1VIOA 1C06A 2ISTA 1IBMD 2UXDD 4DV3D 2UUBD 2UXBD 1IBLD 4LFCD 4DR7D 4DUZD 4JI6D 5LMND 1KSVA 2JANA 2L3NA 4LGTA 1FJGD 4DV7D 2UUCD 2VQFD 4B3RD 4LFAD 2K6PA 1N32D 1HR0D 4LF7D 4X62D 4DV6D 1XMQD 4LF5D 1N33D 4JV5D 4K0KD 2UUAD 4JI2D 4JI0D 4LF6D 3T1HD 1HNXD 1FKAD 1HNWD 4GKKD 2KTLA 1IBKD 1KSKA 1C05A 4LFBD 2VQED 4LF4D 4DV4D 4X66D 4DV0D 4JI5D 4GKJD 4AQYD 3KBGA 1J5ED 4DR3D 2ZM6D 1KSLA 1P9KA 3DH3A 4KHPD 1JH3A 1XNRD 2UXCD 4JI4D 1H3EA 4B3SD 5IWAD 4JYAD 4DR5D 4DR2D 1N34D 2E5LD 3T1YD 1XMOD 4JI7D 4NXMD 1N36D 1I94D 4DR1D 4LF9D 1HNZD 3HP7A 2UU9D 4YY3D 4DR6D 3OTOD 4JI1D 1H3FA 4X64D 4LF8D 1XNQD 4X65D 4DUYD 4DR4D 4DV1D 4B3TD 4NXND 4JI8D 1DM9A 4DV5D 4DV2D
chains in the Genus database with same CATH homology


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