4JI2 | Genus

Total Genus 61

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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	61
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

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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	61
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	4ji2D01
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	4ji2D02

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

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

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

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

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#similar chains, but unknotted
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4JI2D

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations