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Rabbit 40S ribosomal subunit in complex with mRNA, initiator tRNA and eIF1A
4KZZ

Structural Similarities for the Entities in PDB 4KZZ

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: A
Description: 40S Ribosomal Protein SA protein
Length: 295
No structure alignment results are available for 4KZZ.A explicitly.

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

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Entity #10: Chains: J
Description: 40S Ribosomal Protein S9 protein
Length: 194
No structure alignment results are available for 4KZZ.J explicitly.

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

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Entity #11: Chains: K
Description: 40S Ribosomal Protein S10 protein
Length: 165
 
 
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Entity #12: Chains: L
Description: 40S Ribosomal Protein S11 protein
Length: 158
No structure alignment results are available for 4KZZ.L explicitly.

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

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Entity #13: Chains: M
Description: 40S Ribosomal Protein S12 protein
Length: 132
 
 
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Entity #14: Chains: N
Description: 40S Ribosomal Protein S13 protein
Length: 151
No structure alignment results are available for 4KZZ.N explicitly.

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

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Entity #15: Chains: O
Description: 40S Ribosomal Protein S14 protein
Length: 151
No structure alignment results are available for 4KZZ.O explicitly.

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

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Entity #16: Chains: P
Description: 40S Ribosomal Protein S15 protein
Length: 145
No structure alignment results are available for 4KZZ.P explicitly.

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

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Entity #17: Chains: Q
Description: 40S Ribosomal Protein S16 protein
Length: 146
No structure alignment results are available for 4KZZ.Q explicitly.

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

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Entity #18: Chains: R
Description: 40S Ribosomal Protein S17 protein
Length: 135
No structure alignment results are available for 4KZZ.R explicitly.

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

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Entity #19: Chains: S
Description: 40S Ribosomal Protein S18 protein
Length: 152
No structure alignment results are available for 4KZZ.S explicitly.

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

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Entity #2: Chains: B
Description: 40S Ribosomal Protein S3A protein
Length: 264
No structure alignment results are available for 4KZZ.B explicitly.

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

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Entity #20: Chains: T
Description: 40S Ribosomal Protein S19 protein
Length: 145
No structure alignment results are available for 4KZZ.T explicitly.

It is represented by chain 2V7F.A which has more than 40% sequence identity.

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Entity #21: Chains: U
Description: 40S Ribosomal Protein S20 protein
Length: 119
No structure alignment results are available for 4KZZ.U explicitly.

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

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Entity #22: Chains: V
Description: 40S Ribosomal Protein S21 protein
Length: 83
No structure alignment results are available for 4KZZ.V explicitly.

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

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Entity #23: Chains: W
Description: 40S Ribosomal Protein S15A protein
Length: 130
No structure alignment results are available for 4KZZ.W explicitly.

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

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Entity #24: Chains: X
Description: 40S Ribosomal Protein S23 protein
Length: 143
No structure alignment results are available for 4KZZ.X explicitly.

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

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Entity #25: Chains: Y
Description: 40S Ribosomal Protein S24 protein
Length: 133
No structure alignment results are available for 4KZZ.Y explicitly.

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

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Entity #26: Chains: Z
Description: 40S Ribosomal Protein S25 protein
Length: 125
No structure alignment results are available for 4KZZ.Z explicitly.

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

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Entity #27: Chains: a
Description: 40S Ribosomal Protein S26 protein
Length: 115
No structure alignment results are available for 4KZZ.a explicitly.

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

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Entity #28: Chains: b
Description: 40S Ribosomal Protein S27 protein
Length: 84
No structure alignment results are available for 4KZZ.b explicitly.

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

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Entity #29: Chains: c
Description: 40S Ribosomal Protein S28 protein
Length: 69
No structure alignment results are available for 4KZZ.c explicitly.

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

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Entity #3: Chains: C
Description: 40S Ribosomal Protein S2 protein
Length: 278
No structure alignment results are available for 4KZZ.C explicitly.

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

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Entity #30: Chains: d
Description: 40S Ribosomal Protein S29 protein
Length: 56
No structure alignment results are available for 4KZZ.d explicitly.

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

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Entity #31: Chains: e
Description: 40S Ribosomal Protein S30 protein
Length: 133
 
 
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Entity #32: Chains: f
Description: 40S Ribosomal Protein S27A protein
Length: 156
No structure alignment results are available for 4KZZ.f explicitly.

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

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Entity #33: Chains: g
Description: 40S Ribosomal Protein RACK1 protein
Length: 317
No structure alignment results are available for 4KZZ.g explicitly.

It is represented by chain 3FRX.A which has more than 50% sequence identity.

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Entity #34: Chains: i
Description: 18S Ribosomal RNA rna
Length: 1863

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

 




Entity #35: Chains: j
Description: initiator Met-RNA-i rna
Length: 75

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

 




Entity #36: Chains: k
Description: mRNA rna
Length: 24

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

 




Entity #37: Chains: n
Description: human initiation factor eIF1A protein
Length: 144
 
 
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Entity #4: Chains: D
Description: 40S Ribosomal Protein S3 protein
Length: 243
No structure alignment results are available for 4KZZ.D explicitly.

It is represented by chain 4BSZ.A which has more than 50% sequence identity.

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Entity #5: Chains: E
Description: 40S Ribosomal Protein S4X protein
Length: 263
No structure alignment results are available for 4KZZ.E explicitly.

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

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

 
 
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Entity #6: Chains: F
Description: 40S Ribosomal Protein S5 protein
Length: 204
No structure alignment results are available for 4KZZ.F explicitly.

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

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Entity #7: Chains: G
Description: 40S Ribosomal Protein S6 protein
Length: 249
No structure alignment results are available for 4KZZ.G explicitly.

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

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Entity #8: Chains: H
Description: 40S Ribosomal Protein S7 protein
Length: 194
No structure alignment results are available for 4KZZ.H explicitly.

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

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Entity #9: Chains: I
Description: 40S Ribosomal Protein S8 protein
Length: 208
No structure alignment results are available for 4KZZ.I explicitly.

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

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  • Update Status Hide
    Oct 14 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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