2UU9 | Genus

Total Genus 61

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

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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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	Mechanism for expanding the decoding capacity of transfer RNAs by modification of uridines. pubmed doi rcsb
molecule keywords	16S RRNA
total genus	61
structure length	208
sequence length	208
ec nomenclature
pdb deposition date	2007-03-01

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	2uu9D01
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	2uu9D02

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

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

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

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

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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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2UU9D

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations