4KHP | Genus

Total Genus 64

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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	64
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	Crystal Structure of a Bioactive Pactamycin Analog Bound to the 30S Ribosomal Subunit. pubmed doi rcsb
molecule keywords	16S Ribosomal RNA
total genus	64
structure length	208
sequence length	208
ec nomenclature
pdb deposition date	2013-05-01

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	4khpD01
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	4khpD02

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

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

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

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

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations