Structural Similarities for the Entities in PDB 6IR9

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: Sep-27-2017

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

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Entity #1 | Chains A

Description: DNA-directed RNA polymerase subunit protein | Length: 1743

No structure alignment results are available for 6IR9.A explicitly.

It is represented by chain 1TWF.a which has more than 70% sequence identity.

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Entity #10 | Chains J

Description: RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III protein | Length: 72

No structure alignment results are available for 6IR9.J explicitly.

It is represented by chain 4C2M.J which has more than 70% sequence identity.

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Entity #11 | Chains K

Description: RNA polymerase II subunit B12.5 protein | Length: 118

No structure alignment results are available for 6IR9.K explicitly.

It is represented by chain 1TWF.k which has more than 50% sequence identity.

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Entity #12 | Chains L

Description: RNA polymerase subunit ABC10-alpha protein | Length: 72

No structure alignment results are available for 6IR9.L explicitly.

It is represented by chain 4C2M.1 which has more than 50% sequence identity.

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Entity #13 | Chains P

Description: RNA (5'-R(P*GP*CP*CP*UP*GP*GP*UP*GP*UP*CP*UP*UP*GP*GP*GP*U)-3') rna | Length: 16

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


Entity #14 | Chains T

Description: DNA (198-MER) dna | Length: 198

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


Entity #15 | Chains N

Description: DNA (198-MER) dna | Length: 198

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


Entity #16 | Chains M

Description: Transcription elongation factor 1 homolog protein | Length: 113

No structure alignment results are available for 6IR9.M explicitly.

It is represented by chain XXXX.null which is 100% sequence identical.

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Entity #17 | Chains V

Description: Transcription elongation factor SPT4 protein | Length: 108

No structure alignment results are available for 6IR9.V explicitly.

It is represented by chain XXXX.null which is 100% sequence identical.

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Entity #18 | Chains W

Description: Spt5 protein | Length: 911

No structure alignment results are available for 6IR9.W explicitly.

It is represented by chain XXXX.null which is 100% sequence identical.

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Entity #19 | Chains a,e

Description: Histone H3.3 protein | Length: 139

No structure alignment results are available for 6IR9.a, 6IR9.e explicitly.

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

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Entity #2 | Chains B

Description: DNA-directed RNA polymerase subunit beta protein | Length: 1227

No structure alignment results are available for 6IR9.B explicitly.

It is represented by chain 1TWF.b which has more than 70% sequence identity.

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Entity #20 | Chains b,f

Description: Histone H4 protein | Length: 106

No structure alignment results are available for 6IR9.b, 6IR9.f explicitly.

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

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Entity #21 | Chains c,g

Description: Histone H2A type 1-B/E protein | Length: 133

No structure alignment results are available for 6IR9.c, 6IR9.g explicitly.

These chains are represented by chain XXXX.null which has more than 95% sequence identity.

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Entity #22 | Chains d,h

Description: Histone H2B type 1-J protein | Length: 129

No structure alignment results are available for 6IR9.d, 6IR9.h explicitly.

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

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Entity #3 | Chains C

Description: RNA polymerase II third largest subunit B44, part of central core protein | Length: 304

No structure alignment results are available for 6IR9.C explicitly.

It is represented by chain XXXX.null which is 100% sequence identical.

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Entity #4 | Chains D

Description: RNA polymerase II subunit B32 protein | Length: 186

No structure alignment results are available for 6IR9.D explicitly.

It is represented by chain XXXX.null which is 100% sequence identical.

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Entity #5 | Chains E

Description: RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III protein | Length: 214

No structure alignment results are available for 6IR9.E explicitly.

It is represented by chain 1DZF.a which has more than 70% sequence identity.

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Entity #6 | Chains F

Description: RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III protein | Length: 155

No structure alignment results are available for 6IR9.F explicitly.

It is represented by chain 4C2M.F which has more than 50% sequence identity.

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Entity #7 | Chains G

Description: RNA polymerase II subunit protein | Length: 171

No structure alignment results are available for 6IR9.G explicitly.

It is represented by chain 1Y14.b which has more than 50% sequence identity.

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Entity #8 | Chains H

Description: DNA-directed RNA polymerases I, II, and III subunit RPABC3 protein | Length: 145

No structure alignment results are available for 6IR9.H explicitly.

It is represented by chain 4C2M.H which has more than 50% sequence identity.

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Entity #9 | Chains I

Description: DNA-directed RNA polymerase subunit protein | Length: 115

No structure alignment results are available for 6IR9.I explicitly.

It is represented by chain 1TWF.i which has more than 70% sequence identity.

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References