4GKK

Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a human mitochondrial anticodon stem loop (ASL) of transfer RNA Methionine (TRNAMET) bound to an mRNA with an AUA-codon in the A-site and paromomycin


Structural Similarities for the Entities in PDB 4GKK

The following structural similarities have been found using the jFATCAT-rigid algorithm [1,2].

To reduce the number of hits, a 40% sequence identity clustering has been applied and a representative chain taken from each cluster. If the representative chain consists of multiple domains, each domain is included in the search. If available, the SCOP 1.75 domain assignment [3] is used. Otherwise algorithmic domain assignments are computed using the ProteinDomainParser [4].

Currently viewing only significant results (P-value < 0.001). Show all available results.

Cluster data are up-to-date as of: Aug-23-2016

Info & Help Documentation



A detailed description of the procedure for the all vs. all alignments is available.

Entity #1 | Chains A

Description: 16S rRNA rna | Length: 1513

This entity is NOT a polypeptide entity and therefore cannot be considered for the all vs. all structure alignments.


Entity #10 | Chains J

Description: 30S ribosomal protein S10 protein | Length: 98

No structure alignment results are available for 4GKK.J explicitly.

It is represented by chain 3D3B.J which has more than 50% sequence identity.

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Entity #11 | Chains K

Description: 30S ribosomal protein S11 protein | Length: 119

No structure alignment results are available for 4GKK.K explicitly.

It is represented by chain 4CVN.E which has more than 40% sequence identity.

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Entity #12 | Chains L

Description: 30S ribosomal protein S12 protein | Length: 124

No structure alignment results are available for 4GKK.L explicitly.

It is represented by chain XXXX.null which has more than 70% sequence identity.

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Entity #13 | Chains M

Description: 30S ribosomal protein S13 protein | Length: 125

No structure alignment results are available for 4GKK.M explicitly.

It is represented by chain XXXX.null which is 100% sequence identical.

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Entity #14 | Chains N

Description: 30S ribosomal protein S14 type Z protein | Length: 60

No structure alignment results are available for 4GKK.N explicitly.

It is represented by chain XXXX.null which is 100% sequence identical.

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Entity #15 | Chains O

Description: 30S ribosomal protein S15 protein | Length: 88

No structure alignment results are available for 4GKK.O explicitly.

It is represented by chain 4A5U.B which has more than 50% sequence identity.

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Entity #16 | Chains P

Description: 30S ribosomal protein S16 protein | Length: 83

No structure alignment results are available for 4GKK.P explicitly.

It is represented by chain XXXX.null which is 100% sequence identical.

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Entity #17 | Chains Q

Description: 30S ribosomal protein S17 protein | Length: 104

No structure alignment results are available for 4GKK.Q explicitly.

It is represented by chain XXXX.null which has more than 95% sequence identity.

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Entity #18 | Chains R

Description: 30S ribosomal protein S18 protein | Length: 73

No structure alignment results are available for 4GKK.R explicitly.

It is represented by chain XXXX.null which has more than 95% sequence identity.

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Entity #19 | Chains S

Description: 30S ribosomal protein S19 protein | Length: 80

No structure alignment results are available for 4GKK.S explicitly.

It is represented by chain XXXX.null which has more than 50% sequence identity.

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Entity #2 | Chains B

Description: 30S ribosomal protein S2 protein | Length: 234

No structure alignment results are available for 4GKK.B explicitly.

It is represented by chain XXXX.null which has more than 50% sequence identity.

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Entity #20 | Chains T

Description: 30S ribosomal protein S20 protein | Length: 99

No structure alignment results are available for 4GKK.T explicitly.

It is represented by chain XXXX.null which has more than 95% sequence identity.

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Entity #21 | Chains V

Description: 30S ribosomal protein Thx protein | Length: 24

No structure alignment results are available for 4GKK.V explicitly.

It is represented by chain XXXX.null which is 100% sequence identical.

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Entity #22 | Chains W

Description: mRNA A-site fragment rna | Length: 6

This entity is NOT a polypeptide entity and therefore cannot be considered for the all vs. all structure alignments.


Entity #23 | Chains X

Description: tRNA ASL human mitochondrial Met rna | Length: 17

This entity is NOT a polypeptide entity and therefore cannot be considered for the all vs. all structure alignments.


Entity #3 | Chains C

Description: 30S ribosomal protein S3 protein | Length: 206

No structure alignment results are available for 4GKK.C explicitly.

It is represented by chain XXXX.null which has more than 50% sequence identity.

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Entity #4 | Chains D

Description: 30S ribosomal protein S4 protein | Length: 208

No structure alignment results are available for 4GKK.D explicitly.

It is represented by chain XXXX.null which has more than 50% sequence identity.

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Entity #5 | Chains E

Description: 30S ribosomal protein S5 protein | Length: 150

No structure alignment results are available for 4GKK.E explicitly.

It is represented by chain XXXX.null which has more than 50% sequence identity.

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Entity #6 | Chains F

Description: 30S ribosomal protein S6 protein | Length: 101

No structure alignment results are available for 4GKK.F explicitly.

It is represented by chain 1CQM.a which has more than 95% sequence identity.

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Entity #7 | Chains G

Description: 30S ribosomal protein S7 protein | Length: 155

No structure alignment results are available for 4GKK.G explicitly.

It is represented by chain 1RSS.a which is 100% sequence identical.

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Entity #8 | Chains H

Description: 30S ribosomal protein S8 protein | Length: 138

No structure alignment results are available for 4GKK.H explicitly.

It is represented by chain 1SEI.a which has more than 50% sequence identity.

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Entity #9 | Chains I

Description: 30S ribosomal protein S9 protein | Length: 127

No structure alignment results are available for 4GKK.I explicitly.

It is represented by chain XXXX.null which has more than 50% sequence identity.

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References