Structural Similarities for the Entities in PDB 2JA7

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].

Currently viewing only significant results (P-value < 0.001). Show all available results.

Cluster data are up-to-date as of: Jul-19-2016

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A detailed description of the procedure for the all vs. all alignments is available.

Entity #1 | Chains 1,4

Description: 5'-D(*TP*AP*AP*GP*TP*AP*CP*TP*TP*GP *AP*GP*CP*T)-3' dna | Length: 14

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


Entity #10 | Chains G,S

Description: DNA-DIRECTED RNA POLYMERASE II 19KDA POLYPEPTIDE protein | Length: 171

No structure alignment results are available for 2JA7.G, 2JA7.S explicitly.

These chains are represented by chain 1Y14.b which is 100% sequence identical.

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Entity #11 | Chains H,T

Description: DNA-DIRECTED RNA POLYMERASES I, II, AND III 14.5 KDA POLYPEPTIDE protein | Length: 146

No structure alignment results are available for 2JA7.H, 2JA7.T explicitly.

These chains are represented by chain 4C2M.H which is 100% sequence identical.

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Entity #12 | Chains I,U

Description: DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 protein | Length: 122

No structure alignment results are available for 2JA7.I, 2JA7.U explicitly.

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

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Entity #13 | Chains J,V

Description: DNA-DIRECTED RNA POLYMERASES I/II/III SUBUNIT 10 protein | Length: 70

No structure alignment results are available for 2JA7.J, 2JA7.V explicitly.

These chains are represented by chain 4C2M.J which is 100% sequence identical.

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Entity #14 | Chains K,W

Description: DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE protein | Length: 120

No structure alignment results are available for 2JA7.K, 2JA7.W explicitly.

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

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Entity #15 | Chains L,X

Description: DNA-DIRECTED RNA POLYMERASES I, II, AND III 7.7 KDA POLYPEPTIDE protein | Length: 70

No structure alignment results are available for 2JA7.L, 2JA7.X explicitly.

These chains are represented by chain 4C2M.1 which is 100% sequence identical.

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Entity #2 | Chains 2,5

Description: 5'-D(*AP*GP*CP*TP*CP*AP*AP*GP*TP*AP *CP*TP*TP*TP*TTP*CP*CP*BRUP*GP*GP*TP*CP*AP*TP*T)-3' dna | Length: 25

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


Entity #3 | Chains 3,6

Description: 5'-R(*UP*UP*CP*GP*AP*CP*CP*AP*GP*GP*AP)-3' rna | Length: 11

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


Entity #4 | Chains A,M

Description: DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT protein | Length: 1733

No structure alignment results are available for 2JA7.A, 2JA7.M explicitly.

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

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Entity #5 | Chains B,N

Description: DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE protein | Length: 1224

No structure alignment results are available for 2JA7.B, 2JA7.N explicitly.

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

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Entity #6 | Chains C,O

Description: DNA-DIRECTED RNA POLYMERASE II 45KDA POLYPEPTIDE protein | Length: 318

No structure alignment results are available for 2JA7.C, 2JA7.O explicitly.

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

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Entity #7 | Chains D,P

Description: DNA-DIRECTED RNA POLYMERASE II 32KDA POLYPEPTIDE protein | Length: 221

No structure alignment results are available for 2JA7.D, 2JA7.P explicitly.

These chains are represented by chain 3PO2.D which is 100% sequence identical.

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Entity #8 | Chains E,Q

Description: DNA-DIRECTED RNA POLYMERASES I, II, AND III 27 KDA POLYPEPTIDE protein | Length: 215

No structure alignment results are available for 2JA7.E, 2JA7.Q explicitly.

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

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Entity #9 | Chains F,R

Description: DNA-DIRECTED RNA POLYMERASES I, II, AND III 23 KDA POLYPEPTIDE protein | Length: 155

No structure alignment results are available for 2JA7.F, 2JA7.R explicitly.

These chains are represented by chain 4C2M.F which is 100% sequence identical.

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References