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Crystal structure of Salinosporamide A in complex with the yeast 20S proteasome
2FAK

Structural Similarities for the Entities in PDB 2FAK

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,O
Description: Proteasome component Y7 protein
Length: 250
No structure alignment results are available for 2FAK.A, 2FAK.O explicitly.

These chains are represented by chain 1YAR.A which has more than 40% sequence identity.

 Click here to show the structure comparison results for representative 1YAR.A

 
 
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To see how chain 2FAK.O compares with the representative chain d1yara1 select a method below:





Entity #10: Chains: J,X
Description: Proteasome component C11 protein
Length: 198
No structure alignment results are available for 2FAK.J, 2FAK.X explicitly.

These chains are represented by chain 1RYP.K which is 100% sequence identical.

 Click here to show the structure comparison results for representative 1RYP.K

 
 
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Entity #11: Chains: K,Y
Description: Proteasome component PRE2 protein
Length: 212
No structure alignment results are available for 2FAK.K, 2FAK.Y explicitly.

These chains are represented by chain 1RYP.L which has more than 95% sequence identity.

 Click here to show the structure comparison results for representative 1RYP.L

 
 
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Entity #12: Chains: L,Z
Description: Proteasome component C5 protein
Length: 222
No structure alignment results are available for 2FAK.L, 2FAK.Z explicitly.

These chains are represented by chain 1RYP.1 which is 100% sequence identical.

 Click here to show the structure comparison results for representative 1RYP.1

 
 
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Entity #13: Chains: 1,M
Description: Proteasome component PRE4 protein
Length: 233
No structure alignment results are available for 2FAK.1, 2FAK.M explicitly.

These chains are represented by chain 1RYP.2 which is 100% sequence identical.

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Entity #14: Chains: 2,N
Description: Proteasome component PRE3 protein
Length: 196
No structure alignment results are available for 2FAK.2, 2FAK.N explicitly.

These chains are represented by chain 1RYP.H which is 100% sequence identical.

 Click here to show the structure comparison results for representative 1RYP.H

 
 
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Entity #2: Chains: B,P
Description: Proteasome component Y13 protein
Length: 244
No structure alignment results are available for 2FAK.B, 2FAK.P explicitly.

These chains are represented by chain 1YAR.A which has more than 40% sequence identity.

 Click here to show the structure comparison results for representative 1YAR.A

 
 
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Entity #3: Chains: C,Q
Description: Proteasome component PRE6 protein
Length: 241
No structure alignment results are available for 2FAK.C, 2FAK.Q explicitly.

These chains are represented by chain 1YAR.A which has more than 40% sequence identity.

 Click here to show the structure comparison results for representative 1YAR.A

 
 
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Entity #4: Chains: D,R
Description: Proteasome component PUP2 protein
Length: 242
No structure alignment results are available for 2FAK.D, 2FAK.R explicitly.

These chains are represented by chain 1YAR.A which has more than 40% sequence identity.

 Click here to show the structure comparison results for representative 1YAR.A

 
 
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Entity #5: Chains: E,S
Description: Proteasome component PRE5 protein
Length: 233
No structure alignment results are available for 2FAK.E, 2FAK.S explicitly.

These chains are represented by chain 1RYP.F which is 100% sequence identical.

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Entity #6: Chains: F,T
Description: Proteasome component C1 protein
Length: 244
No structure alignment results are available for 2FAK.F, 2FAK.T explicitly.

These chains are represented by chain 1RYP.G which is 100% sequence identical.

 Click here to show the structure comparison results for representative 1RYP.G

 
 
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Entity #7: Chains: G,U
Description: Proteasome component C7-alpha protein
Length: 243
No structure alignment results are available for 2FAK.G, 2FAK.U explicitly.

These chains are represented by chain 1RYP.A which is 100% sequence identical.

 Click here to show the structure comparison results for representative 1RYP.A

 
 
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Entity #8: Chains: H,V
Description: Proteasome component PUP1 protein
Length: 222
No structure alignment results are available for 2FAK.H, 2FAK.V explicitly.

These chains are represented by chain 1RYP.I which is 100% sequence identical.

 Click here to show the structure comparison results for representative 1RYP.I

 
 
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Entity #9: Chains: I,W
Description: Proteasome component PUP3 protein
Length: 204
No structure alignment results are available for 2FAK.I, 2FAK.W explicitly.

These chains are represented by chain 1RYP.J which is 100% sequence identical.

 Click here to show the structure comparison results for representative 1RYP.J

 
 
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  • Update Status Hide
    Sep 09 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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