1J5ED

Structure of the thermus thermophilus 30s ribosomal subunit
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 Structure of the 30S ribosomal subunit.
pubmed doi rcsb
molecule tags Ribosome
molecule keywords 16S ribosomal RNA
total genus 59
structure length 208
sequence length 208
ec nomenclature
pdb deposition date 2002-04-08

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 1j5eD01
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 1j5eD02
4NXND 2E5LD 4LFCD 4LFAD 4YHHD 4B3SD 4DR6D 1C06A 4GKKD 1J5ED 1IBKD 1H3EA 4LGTA 4DV2D 2UXCD 4JI6D 4LFBD 1DM9A 1XMOD 4LF9D 4AQYD 4DUYD 4JI4D 1KSKA 2F4VD 2VQED 4LF6D 3DH3A 2UU9D 1N34D 4JV5D 2UUBD 1XNQD 1JH3A 4DV7D 4DR3D 4KHPD 3KBGA 5BR8D 1HNZD 3HP7A 4JI8D 1HNXD 4DUZD 4LF5D 2ISTA 4DV0D 4GKJD 1KSLA 4X66D 1IBMD 4JI2D 4K0KD 2ZM6D 4JI0D 3OTOD 4OX9D 1FKAD 4DR2D 1N33D 4NXMD 4DV1D 1N36D 4B3RD 4JI5D 1XNRD 2VQFD 1HNWD 1C05A 3T1HD 2UXBD 4B3TD 4DR7D 4DV3D 2JANA 4DR5D 4OUDA 4X65D 4JI1D 4X62D 1N32D 1KSVA 1XMQD 4YY3D 2KTLA 4X64D 4DR1D 4DV5D 4B3MD 2UUCD 5LMUD 2UXDD 5LMND 4DV6D 1IBLD 1HR0D 1P9KA 4DV4D 4JI7D 1FJGD 1H3FA 3T1YD 4LF7D 1VIOA 4DR4D 5IWAD 2UUAD 1I94D 4LF8D 4JI3D 2K6PA 2HHHD 4JYAD 4LF4D
chains in the Genus database with same CATH superfamily
4NXND 2E5LD 4LFCD 4LFAD 4YHHD 4B3SD 4DR6D 1C06A 4GKKD 1J5ED 1IBKD 1H3EA 4LGTA 4DV2D 2UXCD 5FQ2B 4JI6D 2ZTBA 4LFBD 3KYDB 1DM9A 1Y8XB 1XMOD 4LF9D 5A2QE 4AQYD 4DUYD 4JI4D 1KSKA 2VQED 2F4VD 4LF6D 3KYCB 3DH3A 4W5VB 2UU9D 1N34D 4JV5D 2UUBD 1XNQD 3CMMA 4II2A 1JH3A 4DV7D 2NVUB 1Y8QB 4DR3D 4KHPD 3KBGA 5BR8D 1HNZD 3J81E 3HP7A 4JI8D 1HNXD 4DUZD 4LF5D 2ISTA 4DV0D 4GKJD 3J80E 1KSLA 4X66D 1IBMD 4JI2D 4K0KD 5KNLA 5FLXE 2ZM6D 5LL6S 4JI0D 3OTOD 4OX9D 1FKAD 4DR2D 1N33D 4NXMD 4DV1D 2I1SA 3ONGA 1N36D 4B3RD 4JI5D 1XNRD 2L3NA 2VQFD 1HNWD 1C05A 3T1HD 2UXBD 3ONHA 3JAME 4B3TD 4DR7D 4DV3D 2JANA 4DR5D 4OUDA 4X65D 4JI1D 4X62D 1N32D 1KSVA 1XMQD 4YY3D 2KTLA 4X64D 4DR1D 4DV5D 4B3MD 2UUCD 5LMUD 2UXDD 5LMND 4DV6D 2LQ7A 1IBLD 1HR0D 1P9KA 4DV4D 4JI7D 1FJGD 1H3FA 3T1YD 4LF7D 4NNJA 5IT9E 1VIOA 4DR4D 5IWAD 2UUAD 1Y8RB 3FN1A 3J7AF 1I94D 4LF8D 4JI3D 2K6PA 2HHHD 4II3A 4JYAD 4LF4D
chains in the Genus database with same CATH topology
4NXND 2E5LD 4LFCD 4LFAD 4YHHD 4B3SD 4DR6D 1C06A 4GKKD 1J5ED 1IBKD 1H3EA 4LGTA 4DV2D 2UXCD 4JI6D 4LFBD 1DM9A 1XMOD 4LF9D 4AQYD 4DUYD 4JI4D 1KSKA 2VQED 2F4VD 4LF6D 3DH3A 2UU9D 1N34D 4JV5D 2UUBD 1XNQD 1JH3A 4DV7D 4DR3D 4KHPD 3KBGA 5BR8D 1HNZD 3HP7A 4JI8D 1HNXD 4DUZD 4LF5D 2ISTA 4DV0D 4GKJD 1KSLA 4X66D 1IBMD 4JI2D 4K0KD 2ZM6D 4JI0D 3OTOD 4OX9D 1FKAD 4DR2D 1N33D 4NXMD 4DV1D 1N36D 4B3RD 4JI5D 1XNRD 2L3NA 2VQFD 1HNWD 1C05A 3T1HD 2UXBD 4B3TD 4DR7D 4DV3D 2JANA 4DR5D 4OUDA 4X65D 4JI1D 4X62D 1N32D 1KSVA 1XMQD 4YY3D 2KTLA 4X64D 4DR1D 4DV5D 4B3MD 2UUCD 5LMUD 2UXDD 5LMND 4DV6D 1IBLD 1HR0D 1P9KA 4DV4D 4JI7D 1FJGD 1H3FA 3T1YD 4LF7D 1VIOA 4DR4D 5IWAD 2UUAD 1I94D 4LF8D 4JI3D 2K6PA 2HHHD 4JYAD 4LF4D
chains in the Genus database with same CATH homology


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