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An Information Portal to 105025 Biological Macromolecular Structures

High-resolution cryo-electron microscopy structure of the Trypanosoma brucei ribosome
3ZF7

Structural Similarities for the Entities in PDB 3ZF7

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: I
Description: 60S RIBOSOMAL PROTEIN L18 protein
Length: 193
No structure alignment results are available for 3ZF7.I explicitly.

It is represented by chain 3U5E.Q which has more than 50% sequence identity.

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Entity #10: Chains: R
Description: 60S RIBOSOMAL PROTEIN L17, PUTATIVE protein
Length: 166
No structure alignment results are available for 3ZF7.R explicitly.

It is represented by chain 3U5E.P which has more than 50% sequence identity.

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Entity #11: Chains: S
Description: 60S RIBOSOMAL PROTEIN L18A protein
Length: 179
 
 
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Entity #12: Chains: T
Description: 60S RIBOSOMAL PROTEIN L19, PUTATIVE protein
Length: 260
 
 
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Entity #13: Chains: U
Description: 60S RIBOSOMAL PROTEIN L21E, PUTATIVE protein
Length: 159
 
 
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Entity #14: Chains: V
Description: 60S RIBOSOMAL PROTEIN L22, PUTATIVE protein
Length: 130
No structure alignment results are available for 3ZF7.V explicitly.

It is represented by chain 3U5E.U which has more than 40% sequence identity.

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Entity #15: Chains: W
Description: 60S RIBOSOMAL PROTEIN L23, PUTATIVE protein
Length: 139
No structure alignment results are available for 3ZF7.W explicitly.

It is represented by chain 4HUB.K which has more than 50% sequence identity.

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Entity #16: Chains: X
Description: 60S RIBOSOMAL PROTEIN L23A protein
Length: 164
No structure alignment results are available for 3ZF7.X explicitly.

It is represented by chain 3U5E.X which has more than 50% sequence identity.

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Entity #17: Chains: Y
Description: 60S RIBOSOMAL PROTEIN L24, PUTATIVE protein
Length: 125
 
 
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Entity #18: Chains: Z
Description: 60S RIBOSOMAL PROTEIN L26, PUTATIVE protein
Length: 143
No structure alignment results are available for 3ZF7.Z explicitly.

It is represented by chain 4HUB.T which has more than 50% sequence identity.

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Entity #19: Chains: a
Description: 60S RIBOSOMAL PROTEIN L27, PUTATIVE protein
Length: 133
No structure alignment results are available for 3ZF7.a explicitly.

It is represented by chain 3U5E.Z which has more than 40% sequence identity.

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Entity #2: Chains: J
Description: RIBOSOMAL PROTEIN protein
Length: 214
No structure alignment results are available for 3ZF7.J explicitly.

It is represented by chain 3O58.A which has more than 50% sequence identity.

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Entity #20: Chains: b
Description: 60S RIBOSOMAL PROTEIN L27A protein
Length: 145
No structure alignment results are available for 3ZF7.b explicitly.

It is represented by chain 3U5E.a which has more than 50% sequence identity.

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Entity #21: Chains: c
Description: 60S RIBOSOMAL PROTEIN L28, PUTATIVE protein
Length: 146
 
 
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Entity #22: Chains: d
Description: 60S RIBOSOMAL PROTEIN L29, PUTATIVE protein
Length: 71
No structure alignment results are available for 3ZF7.d explicitly.

It is represented by chain 3U5E.b which has more than 40% sequence identity.

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Entity #23: Chains: e
Description: 60S RIBOSOMAL PROTEIN L2, PUTATIVE protein
Length: 260
No structure alignment results are available for 3ZF7.e explicitly.

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

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Entity #24: Chains: f
Description: RIBOSOMAL PROTEIN L3, MITOCHONDRIAL, PUTATIVE protein
Length: 429
No structure alignment results are available for 3ZF7.f explicitly.

It is represented by chain 4HUB.B which has more than 40% sequence identity.

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Entity #25: Chains: g
Description: 60S RIBOSOMAL PROTEIN L30 protein
Length: 105
No structure alignment results are available for 3ZF7.g explicitly.

It is represented by chain 3VI6.A which has more than 50% sequence identity.

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Entity #26: Chains: h
Description: 60S RIBOSOMAL SUBUNIT PROTEIN L31, PUTATIVE protein
Length: 188
 
 
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Entity #27: Chains: i
Description: 60S RIBOSOMAL PROTEIN L32, PUTATIVE protein
Length: 132
No structure alignment results are available for 3ZF7.i explicitly.

It is represented by chain 3U5E.e which has more than 50% sequence identity.

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Entity #28: Chains: j
Description: 60S RIBOSOMAL PROTEIN L34, PUTATIVE protein
Length: 170
 
 
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Entity #29: Chains: k
Description: 60S RIBOSOMAL PROTEIN L35, PUTATIVE protein
Length: 127
No structure alignment results are available for 3ZF7.k explicitly.

It is represented by chain 3U5E.h which has more than 40% sequence identity.

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Entity #3: Chains: K
Description: 60S RIBOSOMAL PROTEIN L10, PUTATIVE protein
Length: 213
No structure alignment results are available for 3ZF7.K explicitly.

It is represented by chain 3U5E.I which has more than 50% sequence identity.

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Entity #30: Chains: l
Description: 60S RIBOSOMAL PROTEIN L35A, PUTATIVE protein
Length: 149
 
 
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Entity #31: Chains: m
Description: RIBOSOMAL PROTEIN L36, PUTATIVE protein
Length: 109
 
 
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Entity #32: Chains: n
Description: RIBOSOMAL PROTEIN L37 protein
Length: 84
No structure alignment results are available for 3ZF7.n explicitly.

It is represented by chain 3U5E.j which has more than 50% sequence identity.

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Entity #33: Chains: o
Description: 60S RIBOSOMAL PROTEIN L37A, PUTATIVE protein
Length: 93
No structure alignment results are available for 3ZF7.o explicitly.

It is represented by chain 1S72.Z which has more than 40% sequence identity.

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Entity #34: Chains: p
Description: 60S RIBOSOMAL PROTEIN L38, PUTATIVE protein
Length: 82
 
 
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Entity #35: Chains: q
Description: 60S RIBOSOMAL PROTEIN L39, PUTATIVE protein
Length: 51
No structure alignment results are available for 3ZF7.q explicitly.

It is represented by chain 4HUB.2 which has more than 50% sequence identity.

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Entity #36: Chains: r
Description: 60S RIBOSOMAL PROTEIN L4 protein
Length: 374
No structure alignment results are available for 3ZF7.r explicitly.

It is represented by chain 3U5E.C which has more than 50% sequence identity.

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Entity #37: Chains: s
Description: UBIQUITIN-60S RIBOSOMAL PROTEIN L40 protein
Length: 128
No structure alignment results are available for 3ZF7.s explicitly.

It is represented by chain 3U5E.m which has more than 70% sequence identity.

 Click here to show the structure comparison results for representative 3U5E.m

 
 
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Entity #38: Chains: t
Description: 60S RIBOSOMAL PROTEIN L44 protein
Length: 106
No structure alignment results are available for 3ZF7.t explicitly.

It is represented by chain 3U5E.o which has more than 50% sequence identity.

 Click here to show the structure comparison results for representative 3U5E.o

 
 
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Entity #39: Chains: u
Description: 60S RIBOSOMAL PROTEIN L5, PUTATIVE protein
Length: 308
No structure alignment results are available for 3ZF7.u explicitly.

It is represented by chain 3U5E.D which has more than 50% sequence identity.

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Entity #4: Chains: L
Description: 60S RIBOSOMAL PROTEIN L11, PUTATIVE protein
Length: 194
 
 
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Entity #40: Chains: v
Description: 60S RIBOSOMAL PROTEIN L6, PUTATIVE protein
Length: 192
No structure alignment results are available for 3ZF7.v explicitly.

It is represented by chain 3U5E.E which has more than 40% sequence identity.

 Click here to show the structure comparison results for representative 3U5E.E

 
 
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Entity #41: Chains: w
Description: 60S RIBOSOMAL PROTEIN L7, PUTATIVE protein
Length: 257
No structure alignment results are available for 3ZF7.w explicitly.

It is represented by chain 3U5E.F which has more than 30% sequence identity.

 Click here to show the structure comparison results for representative 3U5E.F

 
 
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Entity #42: Chains: x
Description: 60S RIBOSOMAL PROTEIN L7A, PUTATIVE protein
Length: 276
No structure alignment results are available for 3ZF7.x explicitly.

It is represented by chain 3U5E.G which has more than 40% sequence identity.

 Click here to show the structure comparison results for representative 3U5E.G

 
 
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Entity #43: Chains: y
Description: 60S RIBOSOMAL PROTEIN L9, PUTATIVE protein
Length: 189
No structure alignment results are available for 3ZF7.y explicitly.

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

 Click here to show the structure comparison results for representative 4HUB.E

 
 
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Entity #5: Chains: M
Description: 60S RIBOSOMAL PROTEIN L12, PUTATIVE protein
Length: 164
No structure alignment results are available for 3ZF7.M explicitly.

It is represented by chain 3O5H.L which has more than 50% sequence identity.

 Click here to show the structure comparison results for representative 3O5H.L

 
 
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Entity #6: Chains: N
Description: 60S RIBOSOMAL PROTEIN L13 protein
Length: 218
No structure alignment results are available for 3ZF7.N explicitly.

It is represented by chain 3U5E.L which has more than 40% sequence identity.

 Click here to show the structure comparison results for representative 3U5E.L

 
 
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Entity #7: Chains: O
Description: 60S RIBOSOMAL PROTEIN L13A, PUTATIVE protein
Length: 222
 
 
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Entity #8: Chains: P
Description: PROBABLE 60S RIBOSOMAL PROTEIN L14 protein
Length: 189
 
 
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Entity #9: Chains: Q
Description: RIBOSOMAL PROTEIN L15 protein
Length: 221
No structure alignment results are available for 3ZF7.Q explicitly.

It is represented by chain 4HUB.M which has more than 50% sequence identity.

 Click here to show the structure comparison results for representative 4HUB.M

 
 
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  • Update Status Hide
    Nov 18 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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