4JI6 | Genus

Total Genus 59

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

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

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reading 208 atoms

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208 atoms created

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

molecule tags	Ribosome
publication title	The central role of protein S12 in organizing the structure of the decoding site of the ribosome. pubmed doi rcsb
molecule keywords	16S rRNA
total genus	59
structure length	208
sequence length	208
ec nomenclature
pdb deposition date	2013-03-05

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	Class	Architecture	Topology	Homology	Domain
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	4ji6D01
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	4ji6D02

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

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

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

#chains in the Genus database with same CATH superfamily
 4YHH D;  3T1Y D;  1XNR D;  4JI7 D;  4B3S D;  1C06 A;  4DR5 D;  4JI1 D;  4DR3 D;  4OX9 D;  2JAN A;  5BR8 D;  2UUC D;  2K6P A;  4LF6 D;  1IBK D;  1FKA D;  4JI5 D;  4GKJ D;  1HNX D;  2KTL A;  2VQE D;  3OTO D;  4YY3 D;  3T1H D;  4LFB D;  4DR4 D;  4JI3 D;  2UXC D;  3DH3 A;  4LF7 D;  4LF5 D;  4JI6 D;  1DM9 A;  1IBL D;  1HR0 D;  4DV0 D;  4NXN D;  4X64 D;  2UU9 D;  2UUB D;  4LF9 D;  4DR2 D;  2UXD D;  1XMQ D;  1KSK A;  4LFC D;  1I94 D;  1FJG D;  5LMU D;  1J5E D;  1HNZ D;  4LF4 D;  4LGT A;  4DV7 D;  4X62 D;  1C05 A;  4DUY D;  4DV1 D;  4JV5 D;  4DV3 D;  4KHP D;  2VQF D;  4DR6 D;  4DV5 D;  4JI4 D;  4DR1 D;  1XNQ D;  1KSV A;  3KBG A;  4DR7 D;  1KSL A;  1IBM D;  4B3M D;  4DUZ D;  1VIO A;  2F4V D;  1N36 D;  4NXM D;  2E5L D;  2UUA D;  1N32 D;  1P9K A;  4AQY D;  4X65 D;  4OUD A;  2ZM6 D;  2IST A;  4B3R D;  3HP7 A;  4JI8 D;  4GKK D;  1H3E A;  5LMN D;  4DV2 D;  4B3T D;  4DV4 D;  1H3F A;  4JI2 D;  1HNW D;  4LF8 D;  4X66 D;  1JH3 A;  5IWA D;  1XMO D;  2HHH D;  4LFA D;  4JI0 D;  1N34 D;  4JYA D;  2UXB D;  4DV6 D;  1N33 D;  4K0K D; 
#chains in the Genus database with same CATH topology
 4YHH D;  3T1Y D;  1XNR D;  4II2 A;  2ZTB A;  3FN1 A;  4JI7 D;  4B3S D;  5KNL A;  1C06 A;  4DR5 D;  4JI1 D;  4DR3 D;  4OX9 D;  2JAN A;  5BR8 D;  2UUC D;  2K6P A;  4LF6 D;  2LQ7 A;  4NNJ A;  1IBK D;  1FKA D;  4JI5 D;  5LL6 S;  4GKJ D;  1HNX D;  2KTL A;  2VQE D;  3OTO D;  4YY3 D;  3T1H D;  4LFB D;  4DR4 D;  4JI3 D;  3ONG A;  2UXC D;  3DH3 A;  4LF7 D;  4LF5 D;  4JI6 D;  1DM9 A;  1IBL D;  1HR0 D;  4DV0 D;  4NXN D;  4X64 D;  2UU9 D;  2UUB D;  4LF9 D;  4DR2 D;  2UXD D;  1XMQ D;  1KSK A;  4LFC D;  5FLX E;  1I94 D;  1Y8R B;  1FJG D;  5LMU D;  1J5E D;  1HNZ D;  4LF4 D;  5FQ2 B;  4LGT A;  2NVU B;  4DV7 D;  4X62 D;  1C05 A;  4DUY D;  4DV1 D;  4JV5 D;  4DV3 D;  4KHP D;  2VQF D;  5A2Q E;  4DR6 D;  4DV5 D;  3ONH A;  4JI4 D;  3JAM E;  4DR1 D;  1XNQ D;  1KSV A;  3KYC B;  3KBG A;  4DR7 D;  3J80 E;  1KSL A;  1IBM D;  4B3M D;  4DUZ D;  1VIO A;  2L3N A;  2F4V D;  1N36 D;  4NXM D;  2E5L D;  2UUA D;  1N32 D;  1P9K A;  3KYD B;  4AQY D;  4X65 D;  4OUD A;  2ZM6 D;  2IST A;  4B3R D;  3HP7 A;  2I1S A;  4JI8 D;  4GKK D;  1H3E A;  5LMN D;  4DV2 D;  3CMM A;  4B3T D;  1Y8Q B;  4DV4 D;  4W5V B;  1H3F A;  4JI2 D;  1HNW D;  4LF8 D;  5IT9 E;  4X66 D;  3J7A F;  1JH3 A;  5IWA D;  1XMO D;  2HHH D;  4LFA D;  4JI0 D;  1Y8X B;  1N34 D;  4JYA D;  4II3 A;  2UXB D;  4DV6 D;  1N33 D;  3J81 E;  4K0K D; 
#chains in the Genus database with same CATH homology
 4YHH D;  3T1Y D;  1XNR D;  4JI7 D;  4B3S D;  1C06 A;  4DR5 D;  4JI1 D;  4DR3 D;  4OX9 D;  2JAN A;  5BR8 D;  2UUC D;  2K6P A;  4LF6 D;  1IBK D;  1FKA D;  4JI5 D;  4GKJ D;  1HNX D;  2KTL A;  2VQE D;  3OTO D;  4YY3 D;  3T1H D;  4LFB D;  4DR4 D;  4JI3 D;  2UXC D;  3DH3 A;  4LF7 D;  4LF5 D;  4JI6 D;  1DM9 A;  1IBL D;  1HR0 D;  4DV0 D;  4NXN D;  4X64 D;  2UU9 D;  2UUB D;  4LF9 D;  4DR2 D;  2UXD D;  1XMQ D;  1KSK A;  4LFC D;  1I94 D;  1FJG D;  5LMU D;  1J5E D;  1HNZ D;  4LF4 D;  4LGT A;  4DV7 D;  4X62 D;  1C05 A;  4DUY D;  4DV1 D;  4JV5 D;  4DV3 D;  4KHP D;  2VQF D;  4DR6 D;  4DV5 D;  4JI4 D;  4DR1 D;  1XNQ D;  1KSV A;  3KBG A;  4DR7 D;  1KSL A;  1IBM D;  4B3M D;  4DUZ D;  1VIO A;  2L3N A;  2F4V D;  1N36 D;  4NXM D;  2E5L D;  2UUA D;  1N32 D;  1P9K A;  4AQY D;  4X65 D;  4OUD A;  2ZM6 D;  2IST A;  4B3R D;  3HP7 A;  4JI8 D;  4GKK D;  1H3E A;  5LMN D;  4DV2 D;  4B3T D;  4DV4 D;  1H3F A;  4JI2 D;  1HNW D;  4LF8 D;  4X66 D;  1JH3 A;  5IWA D;  1XMO D;  2HHH D;  4LFA D;  4JI0 D;  1N34 D;  4JYA D;  2UXB D;  4DV6 D;  1N33 D;  4K0K 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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4JI6D

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations