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The crystal structure of the eukaryotic 40S ribosomal subunit in complex with eIF1 and eIF1A - Complex 3
4BPO

Structural Similarities for the Entities in PDB 4BPO

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].

Entity #1: Chains: 0
Description: TRANSLATION INITIATION FACTOR EIF-1A FAMILY PROTEIN protein
Length: 211
No structure alignment results are available for 4BPO.0 explicitly.

It is represented by chain 4BPN.0 which is 100% sequence identical.

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Entity #10: Chains: 9
Description: 40S RIBOSOMAL PROTEIN RPS31E protein
Length: 189
No structure alignment results are available for 4BPO.9 explicitly.

It is represented by chain 4BPN.9 which is 100% sequence identical.

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Entity #11: Chains: A
Description: 18S RRNA rna
Length: 1753

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

 




Entity #12: Chains: B
Description: 40S RIBOSOMAL PROTEIN SA protein
Length: 241
No structure alignment results are available for 4BPO.B explicitly.

It is represented by chain 3U5C.A which has more than 40% sequence identity.

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Entity #13: Chains: C
Description: 40S RIBOSOMAL PROTEIN RPS3E protein
Length: 243
No structure alignment results are available for 4BPO.C explicitly.

It is represented by chain 4BSZ.A which has more than 40% sequence identity.

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Entity #14: Chains: D
Description: 40S RIBOSOMAL PROTEIN RPS9E protein
Length: 181
No structure alignment results are available for 4BPO.D explicitly.

It is represented by chain 3U5C.J which has more than 50% sequence identity.

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Entity #15: Chains: E
Description: 40S RIBOSOMAL PROTEIN RPS2E protein
Length: 296
No structure alignment results are available for 4BPO.E explicitly.

It is represented by chain 4BPN.E which is 100% sequence identical.

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Entity #16: Chains: F
Description: EIF1 protein
Length: 101
No structure alignment results are available for 4BPO.F explicitly.

It is represented by chain 4BPN.F which is 100% sequence identical.

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Entity #17: Chains: G
Description: 40S RIBOSOMAL PROTEIN RPS5E protein
Length: 200
No structure alignment results are available for 4BPO.G explicitly.

It is represented by chain 1IQV.A which has more than 40% sequence identity.

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Entity #18: Chains: H
Description: 40S RIBOSOMAL PROTEIN RPS22E protein
Length: 130
No structure alignment results are available for 4BPO.H explicitly.

It is represented by chain 1I6U.A which has more than 50% sequence identity.

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Entity #19: Chains: I
Description: 40S RIBOSOMAL PROTEIN RPS16E protein
Length: 145
No structure alignment results are available for 4BPO.I explicitly.

It is represented by chain 3U5C.Q which has more than 50% sequence identity.

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Entity #2: Chains: 1
Description: 40S RIBOSOMAL PROTEIN RPS28E protein
Length: 68
No structure alignment results are available for 4BPO.1 explicitly.

It is represented by chain 3U5C.c which has more than 50% sequence identity.

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Entity #20: Chains: J
Description: 40S RIBOSOMAL PROTEIN RPS20E protein
Length: 120
No structure alignment results are available for 4BPO.J explicitly.

It is represented by chain 3U5C.U which has more than 40% sequence identity.

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Entity #21: Chains: K
Description: 40S RIBOSOMAL PROTEIN RPS14E protein
Length: 151
No structure alignment results are available for 4BPO.K explicitly.

It is represented by chain 4CVN.E which has more than 50% sequence identity.

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Entity #22: Chains: L
Description: 40S RIBOSOMAL PROTEIN S12 protein
Length: 142
No structure alignment results are available for 4BPO.L explicitly.

It is represented by chain 3U5C.X which has more than 70% sequence identity.

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Entity #23: Chains: M
Description: 40S RIBOSOMAL PROTEIN RPS18E protein
Length: 155
No structure alignment results are available for 4BPO.M explicitly.

It is represented by chain 3U5C.S which has more than 50% sequence identity.

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Entity #24: Chains: N
Description: 40S RIBOSOMAL PROTEIN RPS29E protein
Length: 55
No structure alignment results are available for 4BPO.N explicitly.

It is represented by chain 3U5C.d which has more than 50% sequence identity.

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Entity #25: Chains: O
Description: 40S RIBOSOMAL PROTEIN RPS13E protein
Length: 153
No structure alignment results are available for 4BPO.O explicitly.

It is represented by chain 3U5C.N which has more than 50% sequence identity.

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Entity #26: Chains: P
Description: 40S RIBOSOMAL PROTEIN S24 protein
Length: 149
No structure alignment results are available for 4BPO.P explicitly.

It is represented by chain 4BPN.P which is 100% sequence identical.

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Entity #27: Chains: Q
Description: 40S RIBOSOMAL PROTEIN RPS11E protein
Length: 157
No structure alignment results are available for 4BPO.Q explicitly.

It is represented by chain 3U5C.L which has more than 50% sequence identity.

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Entity #28: Chains: R
Description: 40S RIBOSOMAL PROTEIN RACK1 protein
Length: 343
No structure alignment results are available for 4BPO.R explicitly.

It is represented by chain 3FRX.A which has more than 40% sequence identity.

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Entity #29: Chains: S
Description: 40S RIBOSOMAL PROTEIN RPS15E protein
Length: 144
No structure alignment results are available for 4BPO.S explicitly.

It is represented by chain 4BPN.S which is 100% sequence identical.

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Entity #3: Chains: 2
Description: 40S RIBOSOMAL PROTEIN S8 protein
Length: 208
No structure alignment results are available for 4BPO.2 explicitly.

It is represented by chain 3U5C.I which has more than 50% sequence identity.

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Entity #30: Chains: T
Description: 40S RIBOSOMAL PROTEIN RPS19E protein
Length: 155
No structure alignment results are available for 4BPO.T explicitly.

It is represented by chain 4BPN.T which is 100% sequence identical.

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Entity #31: Chains: U
Description: 40S RIBOSOMAL PROTEIN RPS12E protein
Length: 126
No structure alignment results are available for 4BPO.U explicitly.

It is represented by chain 4BPN.U which is 100% sequence identical.

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Entity #32: Chains: V
Description: 40S RIBOSOMAL PROTEIN RPS17E protein
Length: 130
No structure alignment results are available for 4BPO.V explicitly.

It is represented by chain 3U5C.R which has more than 50% sequence identity.

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Entity #33: Chains: W
Description: 40S RIBOSOMAL PROTEIN RPS4E protein
Length: 259
No structure alignment results are available for 4BPO.W explicitly.

It is represented by chain 3U5C.E which has more than 50% sequence identity.

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Entity #34: Chains: X
Description: 40S RIBOSOMAL PROTEIN RPS30E protein
Length: 80
No structure alignment results are available for 4BPO.X explicitly.

It is represented by chain 4BPN.X which is 100% sequence identical.

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Entity #35: Chains: Y
Description: 40S RIBOSOMAL PROTEIN S6 protein
Length: 293
No structure alignment results are available for 4BPO.Y explicitly.

It is represented by chain 4BPN.Y which is 100% sequence identical.

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Entity #36: Chains: Z
Description: 40S RIBOSOMAL PROTEIN RPS21E protein
Length: 97
No structure alignment results are available for 4BPO.Z explicitly.

It is represented by chain 4BPN.Z which is 100% sequence identical.

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Entity #4: Chains: 3
Description: 40S RIBOSOMAL PROTEIN RPS7E protein
Length: 197
No structure alignment results are available for 4BPO.3 explicitly.

It is represented by chain 4BPN.3 which is 100% sequence identical.

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Entity #5: Chains: 4
Description: 40S RIBOSOMAL PROTEIN S3A protein
Length: 265
No structure alignment results are available for 4BPO.4 explicitly.

It is represented by chain 3U5C.B which has more than 50% sequence identity.

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Entity #6: Chains: 5
Description: 40S RIBOSOMAL PROTEIN RPS26E protein
Length: 119
No structure alignment results are available for 4BPO.5 explicitly.

It is represented by chain 3U5C.a which has more than 40% sequence identity.

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Entity #7: Chains: 6
Description: 40S RIBOSOMAL PROTEIN S27 protein
Length: 81
No structure alignment results are available for 4BPO.6 explicitly.

It is represented by chain 3U5C.b which has more than 50% sequence identity.

 Click here to show the structure comparison results for representative 3U5C.b

 
 
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Entity #8: Chains: 7
Description: 40S RIBOSOMAL PROTEIN RPS10E protein
Length: 162
No structure alignment results are available for 4BPO.7 explicitly.

It is represented by chain 4BPN.7 which is 100% sequence identical.

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Entity #9: Chains: 8
Description: 40S RIBOSOMAL PROTEIN RPS25E protein
Length: 143
No structure alignment results are available for 4BPO.8 explicitly.

It is represented by chain 4BPN.8 which is 100% sequence identical.

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  • Update Status Hide
    Oct 21 2014

    Cluster data are up-to-date as of:
     
  • Table Legend Hide
    • Rank: current row position. Changes with different sorting orders and filter rules
    • Domain 2: Domain name of 2nd domain. Can be either a SCOP ID (d<PDB ID><Chain ID><Domain ID>), ProteinDomainParser ID (PDP:<PDB ID><Chain ID><Domain ID>)
    • Title: Protein chain description
    • P-value: P-value of this alignment (FATCAT) (default sorted by this)
    • Score: Raw alignment score (FATCAT)
    • RMSD: RMSD value of the alignment
    • Len1: Domain 1 length
    • Len2: Domain 2 length
    • %ID: % sequence identity in the alignment. A 40% sequence identity filter is applied before the structure alignments are calculated, so most results show low similarity. If the sequences are of vastly different lengths, the clustering procedure will group them in different clusters, even if they share a region of high sequence similarity.
    • %Cov1: The coverage, or %, of aligned residues in chain 1
    • %Cov2: The coverage, or %, of aligned residues in chain 2

    The table is sorting is by P-value by default. Clicking on the column header will change the sort order. Select the Filter Results lense img icon to apply other filtering criteria.

     
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Documentation

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