1XMQ | Genus

Total Genus 58

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	58
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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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 role of modifications in codon discrimination by tRNA(Lys)(UUU). pubmed doi rcsb
molecule keywords	16s ribosomal RNA
total genus	58
structure length	208
sequence length	208
ec nomenclature
pdb deposition date	2004-10-04

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	1xmqD01
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	1xmqD02

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

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

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

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

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations