4AQYD

Structure of ribosome-apramycin complexes
Total Genus 52
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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
52
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 RIBOSOMAL RNA
publication title Dissociation of Antibacterial Activity and Aminoglycoside Ototoxicity in the 4-Monosubstituted 2-Deoxystreptamine Apramycin.
pubmed doi rcsb
total genus 52
structure length 208
sequence length 208
ec nomenclature
pdb deposition date 2012-04-20

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 4aqyD01
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 4aqyD02
4DV1D 2ISTA 4OX9D 1C06A 2UXCD 1HNWD 4JYAD 1H3EA 4DR3D 4NXND 2KTLA 1DM9A 4DV7D 4JI6D 4JI7D 3OTOD 2JANA 1FJGD 1XNRD 2VQFD 1KSVA 4YHHD 4B3MD 5LMND 4X64D 4DV6D 4X62D 4DV2D 4JI1D 1VIOA 4DR5D 1H3FA 1HR0D 4B3SD 4B3RD 4KHPD 3HP7A 4JI5D 4JV5D 2K6PA 4DV4D 2ZM6D 4JI4D 4DR6D 4X65D 4DR2D 4LFBD 2VQED 5LMUD 4GKKD 4DV5D 5IWAD 4AQYD 2UUAD 4LF7D 1N36D 4LF6D 4DUZD 1XNQD 4OUDA 4LFAD 1IBLD 4B3TD 3T1YD 4NXMD 4YY3D 2E5LD 1XMQD 1KSKA 3DH3A 1IBKD 1HNXD 4LGTA 1N33D 1N34D 4DR1D 4DV3D 4JI0D 2UXBD 4JI2D 1FKAD 1KSLA 4JI8D 1P9KA 1I94D 4JI3D 2UUBD 4K0KD 5BR8D 4GKJD 4LF9D 2HHHD 4DUYD 1J5ED 1N32D 4LF8D 2UXDD 1IBMD 4DR7D 4X66D 4LF5D 2F4VD 2UU9D 1C05A 3KBGA 2UUCD 4DV0D 1XMOD 3T1HD 1HNZD 4DR4D 4LFCD 1JH3A 4LF4D
chains in the Genus database with same CATH superfamily
4DV1D 3J81E 2ISTA 4OX9D 2LQ7A 1C06A 2UXCD 1HNWD 4JYAD 3KYCB 1H3EA 4II3A 4DR3D 4NXND 2KTLA 1DM9A 3KYDB 1Y8RB 4DV7D 4JI6D 3ONHA 4JI7D 3OTOD 2JANA 1FJGD 1XNRD 2VQFD 1KSVA 4YHHD 4B3MD 5LMND 4X64D 4DV6D 4NNJA 4X62D 2NVUB 4DV2D 4JI1D 3ONGA 1VIOA 4DR5D 1H3FA 1HR0D 4B3SD 4B3RD 4KHPD 3HP7A 4JI5D 5FQ2B 4JV5D 5A2QE 2K6PA 4DV4D 2ZM6D 4JI4D 4DR6D 4X65D 1Y8XB 4DR2D 4LFBD 2VQED 5LMUD 4GKKD 4DV5D 5IWAD 4II2A 4AQYD 2UUAD 4LF7D 1N36D 4LF6D 4DUZD 2L3NA 1XNQD 4OUDA 4LFAD 1IBLD 4B3TD 3T1YD 4NXMD 4YY3D 2E5LD 1XMQD 1KSKA 3DH3A 3JAME 1IBKD 1HNXD 4LGTA 1N33D 1N34D 1Y8QB 4DR1D 4DV3D 4JI0D 2UXBD 4JI2D 1FKAD 1KSLA 4JI8D 1P9KA 1I94D 4JI3D 2UUBD 4K0KD 5BR8D 4GKJD 5LL6S 3CMMA 4LF9D 2ZTBA 3J7AF 2HHHD 3J80E 4DUYD 1J5ED 1N32D 4LF8D 2UXDD 1IBMD 4DR7D 3FN1A 4X66D 4LF5D 4W5VB 2F4VD 2UU9D 1C05A 3KBGA 2UUCD 5IT9E 4DV0D 1XMOD 5FLXE 3T1HD 1HNZD 4DR4D 4LFCD 5KNLA 1JH3A 2I1SA 4LF4D
chains in the Genus database with same CATH topology
4DV1D 2ISTA 4OX9D 1C06A 2UXCD 1HNWD 4JYAD 1H3EA 4DR3D 4NXND 2KTLA 1DM9A 4DV7D 4JI6D 4JI7D 3OTOD 2JANA 1FJGD 1XNRD 2VQFD 1KSVA 4YHHD 4B3MD 5LMND 4X64D 4DV6D 4X62D 4DV2D 4JI1D 1VIOA 4DR5D 1H3FA 1HR0D 4B3SD 4B3RD 4KHPD 3HP7A 4JI5D 4JV5D 2K6PA 4DV4D 2ZM6D 4JI4D 4DR6D 4X65D 4DR2D 4LFBD 2VQED 5LMUD 4GKKD 4DV5D 5IWAD 4AQYD 2UUAD 4LF7D 1N36D 4LF6D 4DUZD 2L3NA 1XNQD 4OUDA 4LFAD 1IBLD 4B3TD 3T1YD 4NXMD 4YY3D 2E5LD 1XMQD 1KSKA 3DH3A 1IBKD 1HNXD 4LGTA 1N33D 1N34D 4DR1D 4DV3D 4JI0D 2UXBD 4JI2D 1FKAD 1KSLA 4JI8D 1P9KA 1I94D 4JI3D 2UUBD 4K0KD 5BR8D 4GKJD 4LF9D 2HHHD 4DUYD 1J5ED 1N32D 4LF8D 2UXDD 1IBMD 4DR7D 4X66D 4LF5D 2F4VD 2UU9D 1C05A 3KBGA 2UUCD 4DV0D 1XMOD 3T1HD 1HNZD 4DR4D 4LFCD 1JH3A 4LF4D
chains in the Genus database with same CATH homology


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