4LF8D

Crystal structure of 30s ribosomal subunit from thermus thermophilus
Total Genus 59
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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
59
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 59
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 4lf8D01
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 4lf8D02
4DR1D 2JANA 4DV6D 4DV3D 4B3TD 2ISTA 4DV1D 4LF8D 2UXBD 5LMUD 4X66D 4DV4D 4OUDA 4GKJD 2UUAD 3DH3A 4GKKD 4B3RD 4LFCD 4JV5D 4JI7D 4JI1D 1J5ED 1N33D 1FJGD 1IBLD 4DR6D 4DV7D 1FKAD 1XMOD 4AQYD 4DR7D 1KSKA 4LF7D 3OTOD 4LF6D 2HHHD 2UUCD 2F4VD 3T1HD 2UXCD 4DUZD 4DV2D 3HP7A 2UU9D 1VIOA 1XMQD 2E5LD 4LFAD 1C06A 4JI8D 1H3FA 4DR3D 4B3MD 1KSLA 4LF4D 1IBMD 4LF5D 1N32D 4DUYD 4DR2D 1HNZD 4B3SD 4JI0D 1HR0D 4X64D 1XNQD 4JYAD 4K0KD 4JI6D 2K6PA 4DV5D 1DM9A 4YY3D 1N36D 4KHPD 5BR8D 4DR5D 4JI2D 2VQED 5IWAD 4JI4D 1P9KA 1H3EA 4LGTA 2ZM6D 2UXDD 1KSVA 3T1YD 1C05A 3KBGA 4X62D 4LF9D 1JH3A 1HNXD 4JI3D 4OX9D 1HNWD 4JI5D 2UUBD 1N34D 2KTLA 4X65D 4LFBD 4NXND 4YHHD 1I94D 4DR4D 2VQFD 5LMND 4NXMD 1IBKD 1XNRD 4DV0D
chains in the Genus database with same CATH superfamily
4DR1D 2JANA 2LQ7A 3J7AF 4DV6D 4DV3D 4B3TD 2ISTA 4DV1D 4LF8D 2UXBD 5LMUD 4X66D 4DV4D 4W5VB 4OUDA 4GKJD 2UUAD 3FN1A 3DH3A 4GKKD 4B3RD 4LFCD 4JV5D 4JI7D 4JI1D 1J5ED 1N33D 1FJGD 1IBLD 4DR6D 4DV7D 1FKAD 1XMOD 3ONHA 1Y8RB 4AQYD 4DR7D 1KSKA 4LF7D 3OTOD 4LF6D 2HHHD 2UUCD 2F4VD 2I1SA 4NNJA 3J81E 3T1HD 2UXCD 4DUZD 4DV2D 3KYDB 3HP7A 2UU9D 1VIOA 1XMQD 2E5LD 4LFAD 1C06A 4JI8D 5FQ2B 1H3FA 4DR3D 4B3MD 1KSLA 4LF4D 5FLXE 2ZTBA 1IBMD 4LF5D 1N32D 4DUYD 4DR2D 3CMMA 1HNZD 4B3SD 4JI0D 1HR0D 4X64D 3J80E 5A2QE 1XNQD 4JYAD 4K0KD 4JI6D 2K6PA 3JAME 4DV5D 1DM9A 1Y8XB 4YY3D 1N36D 4KHPD 1Y8QB 5BR8D 4DR5D 4JI2D 2VQED 5IWAD 4JI4D 3ONGA 3KYCB 1P9KA 5LL6S 4II3A 1H3EA 4LGTA 2ZM6D 2UXDD 1KSVA 3T1YD 1C05A 3KBGA 4X62D 2NVUB 4LF9D 1JH3A 1HNXD 4JI3D 4OX9D 1HNWD 4JI5D 2UUBD 1N34D 4II2A 2KTLA 4X65D 4LFBD 4NXND 4YHHD 1I94D 2L3NA 5IT9E 4DR4D 2VQFD 5KNLA 5LMND 4NXMD 1IBKD 1XNRD 4DV0D
chains in the Genus database with same CATH topology
4DR1D 2JANA 4DV6D 4DV3D 4B3TD 2ISTA 4DV1D 4LF8D 2UXBD 5LMUD 4X66D 4DV4D 4OUDA 4GKJD 2UUAD 3DH3A 4GKKD 4B3RD 4LFCD 4JV5D 4JI7D 4JI1D 1J5ED 1N33D 1FJGD 1IBLD 4DR6D 4DV7D 1FKAD 1XMOD 4AQYD 4DR7D 1KSKA 4LF7D 3OTOD 4LF6D 2HHHD 2UUCD 2F4VD 3T1HD 2UXCD 4DUZD 4DV2D 3HP7A 2UU9D 1VIOA 1XMQD 2E5LD 4LFAD 1C06A 4JI8D 1H3FA 4DR3D 4B3MD 1KSLA 4LF4D 1IBMD 4LF5D 1N32D 4DUYD 4DR2D 1HNZD 4B3SD 4JI0D 1HR0D 4X64D 1XNQD 4JYAD 4K0KD 4JI6D 2K6PA 4DV5D 1DM9A 4YY3D 1N36D 4KHPD 5BR8D 4DR5D 4JI2D 2VQED 5IWAD 4JI4D 1P9KA 1H3EA 4LGTA 2ZM6D 2UXDD 1KSVA 3T1YD 1C05A 3KBGA 4X62D 4LF9D 1JH3A 1HNXD 4JI3D 4OX9D 1HNWD 4JI5D 2UUBD 1N34D 2KTLA 4X65D 4LFBD 4NXND 4YHHD 1I94D 2L3NA 4DR4D 2VQFD 5LMND 4NXMD 1IBKD 1XNRD 4DV0D
chains in the Genus database with same CATH homology


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