Structural Similarities for the Entities in PDB 1Y1W

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 T

Description: 5'-D(P*AP*GP*TP*AP*CP*TP*TP*AP*CP*GP*CP*CP*TP*GP*GP*TP*CP*AP*T)-3' dna | Length: 19

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


Entity #10 | Chains G

Description: DNA-directed RNA polymerase II 19 kDa polypeptide protein | Length: 171

No structure alignment results are available for 1Y1W.G explicitly.

It is represented by chain 1Y14.b which is 100% sequence identical.

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Entity #11 | Chains H

Description: DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide protein | Length: 146

No structure alignment results are available for 1Y1W.H explicitly.

It is represented by chain 4C2M.H which is 100% sequence identical.

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Entity #12 | Chains I

Description: DNA-directed RNA polymerase II subunit 9 protein | Length: 122

No structure alignment results are available for 1Y1W.I explicitly.

It is represented by chain 1TWF.i which is 100% sequence identical.

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Entity #13 | Chains J

Description: DNA-directed RNA polymerases I/II/III subunit 10 protein | Length: 70

No structure alignment results are available for 1Y1W.J explicitly.

It is represented by chain 4C2M.J which is 100% sequence identical.

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Entity #14 | Chains K

Description: DNA-directed RNA polymerase II 13.6 kDa polypeptide protein | Length: 120

No structure alignment results are available for 1Y1W.K explicitly.

It is represented by chain 1TWF.k which is 100% sequence identical.

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Entity #15 | Chains L

Description: DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide protein | Length: 70

No structure alignment results are available for 1Y1W.L explicitly.

It is represented by chain 4C2M.1 which is 100% sequence identical.

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Entity #2 | Chains N

Description: 5'-D(*AP*AP*GP*TP*AP*CP*T)-3' dna | Length: 7

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


Entity #3 | Chains P

Description: 5'-R(*AP*AP*GP*AP*CP*CP*AP*GP*GP*C)-3' rna | Length: 10

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


Entity #4 | Chains A

Description: DNA-directed RNA polymerase II largest subunit protein | Length: 1733

No structure alignment results are available for 1Y1W.A explicitly.

It is represented by chain 1TWF.a which is 100% sequence identical.

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Entity #5 | Chains B

Description: DNA-directed RNA polymerase II 140 kDa polypeptide protein | Length: 1224

No structure alignment results are available for 1Y1W.B explicitly.

It is represented by chain 1TWF.b which is 100% sequence identical.

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Entity #6 | Chains C

Description: DNA-directed RNA polymerase II 45 kDa polypeptide protein | Length: 318

No structure alignment results are available for 1Y1W.C explicitly.

It is represented by chain 1TWF.c which is 100% sequence identical.

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Entity #7 | Chains D

Description: DNA-directed RNA polymerase II 32 kDa polypeptide protein | Length: 221

No structure alignment results are available for 1Y1W.D explicitly.

It is represented by chain 3PO2.D which is 100% sequence identical.

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Entity #8 | Chains E

Description: DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide protein | Length: 215

No structure alignment results are available for 1Y1W.E explicitly.

It is represented by chain 1DZF.a which is 100% sequence identical.

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Entity #9 | Chains F

Description: DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide protein | Length: 155

No structure alignment results are available for 1Y1W.F explicitly.

It is represented by chain 4C2M.F which is 100% sequence identical.

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References