3T1Y | 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

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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/antibiotic
publication title	Human tRNA(Lys3)(UUU) Is Pre-Structured by Natural Modifications for Cognate and Wobble Codon Binding through Keto-Enol Tautomerism. pubmed doi rcsb
molecule keywords	16S rRNA
total genus	59
structure length	208
sequence length	208
ec nomenclature
pdb deposition date	2011-07-22

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	3t1yD01
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	3t1yD02

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

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

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

#chains in the Genus database with same CATH superfamily
 1HNX D;  4X66 D;  4DV5 D;  4GKJ D;  1I94 D;  3T1Y D;  4AQY D;  2VQF D;  1FKA D;  2UUB D;  5LMU D;  1H3E A;  4JI5 D;  4DV0 D;  4LF4 D;  4LF5 D;  5BR8 D;  1N32 D;  4JI8 D;  4OUD A;  2HHH D;  4LFB D;  3OTO D;  4X64 D;  1J5E D;  4DR5 D;  4DV7 D;  4JI3 D;  2UUA D;  4B3S D;  4LGT A;  4B3M D;  1IBK D;  4JYA D;  4DR7 D;  4JV5 D;  1KSK A;  3KBG A;  4DR3 D;  2K6P A;  4K0K D;  2VQE D;  3T1H D;  4DR1 D;  1H3F A;  1KSV A;  4DR6 D;  4YHH D;  1N36 D;  2UXD D;  4LFA D;  1XMO D;  4X65 D;  3DH3 A;  4DR2 D;  4DV2 D;  2JAN A;  2UU9 D;  4DUY D;  4B3T D;  1HR0 D;  2UUC D;  4OX9 D;  4YY3 D;  1P9K A;  1XNR D;  5IWA D;  1N33 D;  4DR4 D;  2E5L D;  4LFC D;  4JI6 D;  4KHP D;  1HNZ D;  4GKK D;  2UXB D;  1C06 A;  1C05 A;  2UXC D;  4DV1 D;  4JI4 D;  4JI1 D;  4LF7 D;  4JI0 D;  1XMQ D;  1IBM D;  4DUZ D;  4NXM D;  4DV3 D;  1KSL A;  4B3R D;  2ZM6 D;  1HNW D;  1DM9 A;  1VIO A;  4DV6 D;  4DV4 D;  2KTL A;  5LMN D;  4X62 D;  1JH3 A;  1N34 D;  1FJG D;  2IST A;  2F4V D;  1IBL D;  3HP7 A;  4LF8 D;  1XNQ D;  4LF6 D;  4NXN D;  4LF9 D;  4JI7 D;  4JI2 D; 
#chains in the Genus database with same CATH topology
 1HNX D;  3CMM A;  4X66 D;  4DV5 D;  4GKJ D;  1I94 D;  3T1Y D;  4AQY D;  2VQF D;  3KYD B;  1FKA D;  2UUB D;  5LMU D;  3JAM E;  1H3E A;  4JI5 D;  4DV0 D;  4LF4 D;  4LF5 D;  5BR8 D;  1N32 D;  4JI8 D;  4OUD A;  4NNJ A;  2HHH D;  4LFB D;  3OTO D;  4X64 D;  1J5E D;  4DR5 D;  4DV7 D;  4JI3 D;  1Y8R B;  5FLX E;  5KNL A;  2UUA D;  4B3S D;  4LGT A;  4B3M D;  1IBK D;  4JYA D;  3J7A F;  1Y8X B;  4DR7 D;  4JV5 D;  1KSK A;  4II3 A;  5A2Q E;  3KBG A;  4DR3 D;  4W5V B;  2K6P A;  4K0K D;  2VQE D;  3T1H D;  3J80 E;  4DR1 D;  2NVU B;  1H3F A;  1KSV A;  2I1S A;  3FN1 A;  4DR6 D;  4YHH D;  1N36 D;  2UXD D;  4LFA D;  1XMO D;  2LQ7 A;  4X65 D;  3ONG A;  1Y8Q B;  3DH3 A;  4DR2 D;  4DV2 D;  2JAN A;  2UU9 D;  4DUY D;  2L3N A;  4B3T D;  1HR0 D;  2UUC D;  4OX9 D;  4YY3 D;  1P9K A;  1XNR D;  5IWA D;  5IT9 E;  1N33 D;  4DR4 D;  2E5L D;  4LFC D;  3KYC B;  4JI6 D;  4KHP D;  1HNZ D;  4GKK D;  2UXB D;  1C06 A;  1C05 A;  2UXC D;  4DV1 D;  4JI4 D;  4JI1 D;  4LF7 D;  4JI0 D;  1XMQ D;  1IBM D;  4DUZ D;  4NXM D;  4DV3 D;  1KSL A;  4B3R D;  2ZM6 D;  1HNW D;  1DM9 A;  1VIO A;  4DV6 D;  4DV4 D;  2KTL A;  5LMN D;  4X62 D;  4II2 A;  1JH3 A;  1N34 D;  1FJG D;  2IST A;  5LL6 S;  3J81 E;  2F4V D;  1IBL D;  3HP7 A;  3ONH A;  4LF8 D;  2ZTB A;  1XNQ D;  4LF6 D;  5FQ2 B;  4NXN D;  4LF9 D;  4JI7 D;  4JI2 D; 
#chains in the Genus database with same CATH homology
 1HNX D;  4X66 D;  4DV5 D;  4GKJ D;  1I94 D;  3T1Y D;  4AQY D;  2VQF D;  1FKA D;  2UUB D;  5LMU D;  1H3E A;  4JI5 D;  4DV0 D;  4LF4 D;  4LF5 D;  5BR8 D;  1N32 D;  4JI8 D;  4OUD A;  2HHH D;  4LFB D;  3OTO D;  4X64 D;  1J5E D;  4DR5 D;  4DV7 D;  4JI3 D;  2UUA D;  4B3S D;  4LGT A;  4B3M D;  1IBK D;  4JYA D;  4DR7 D;  4JV5 D;  1KSK A;  3KBG A;  4DR3 D;  2K6P A;  4K0K D;  2VQE D;  3T1H D;  4DR1 D;  1H3F A;  1KSV A;  4DR6 D;  4YHH D;  1N36 D;  2UXD D;  4LFA D;  1XMO D;  4X65 D;  3DH3 A;  4DR2 D;  4DV2 D;  2JAN A;  2UU9 D;  4DUY D;  2L3N A;  4B3T D;  1HR0 D;  2UUC D;  4OX9 D;  4YY3 D;  1P9K A;  1XNR D;  5IWA D;  1N33 D;  4DR4 D;  2E5L D;  4LFC D;  4JI6 D;  4KHP D;  1HNZ D;  4GKK D;  2UXB D;  1C06 A;  1C05 A;  2UXC D;  4DV1 D;  4JI4 D;  4JI1 D;  4LF7 D;  4JI0 D;  1XMQ D;  1IBM D;  4DUZ D;  4NXM D;  4DV3 D;  1KSL A;  4B3R D;  2ZM6 D;  1HNW D;  1DM9 A;  1VIO A;  4DV6 D;  4DV4 D;  2KTL A;  5LMN D;  4X62 D;  1JH3 A;  1N34 D;  1FJG D;  2IST A;  2F4V D;  1IBL D;  3HP7 A;  4LF8 D;  1XNQ D;  4LF6 D;  4NXN D;  4LF9 D;  4JI7 D;  4JI2 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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3T1YD

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations