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Crystal structure of Ubiquitin activating enzyme 1 (Uba1) in complex with the Ub E2 Ubc4, ubiquitin, and ATP/Mg
4II2

Structural Similarities for the Entities in PDB 4II2

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: Ubiquitin-activating enzyme E1 1 protein
Length: 1001
No structure alignment results are available for 4II2.A explicitly.

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

 Click here to show the structure comparison results for representative 4NNJ.A

 
 
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Entity #2: Chains: B
Description: Ubiquitin-60S ribosomal protein L40 protein
Length: 83
No structure alignment results are available for 4II2.B explicitly.

It is represented by chain 3A9J.A which has more than 90% sequence identity.

 Click here to show the structure comparison results for representative 3A9J.A

 
 
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Entity #3: Chains: C
Description: Ubiquitin-conjugating enzyme E2 4 protein
Length: 163
No structure alignment results are available for 4II2.C explicitly.

It is represented by chain 1Z2U.A which has more than 70% sequence identity.

 Click here to show the structure comparison results for representative 1Z2U.A

 
 
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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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