Structural Similarities for the Entities in PDB 3GTK

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.

You can also use the structure comparison tool to compare any 2 given structures

Entity #1 | Chains A

Description: DNA-directed RNA polymerase II subunit RPB1 protein | Length: 1733

No structure alignment results are available for 3GTK.A explicitly.

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

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Entity #10 | Chains L

Description: DNA-directed RNA polymerases I, II, and III subunit RPABC4 protein | Length: 70

No structure alignment results are available for 3GTK.L explicitly.

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

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Entity #11 | Chains R

Description: DNA/RNA (5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*AP*UP*GP*C)-D(P*AP*GP*AP*CP*G)-3') hybrid | Length: 18

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


Entity #12 | Chains T

Description: DNA (29-MER) dna | Length: 29

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


Entity #13 | Chains N

Description: DNA (5'-D(*CP*TP*GP*CP*TP*TP*AP*TP*CP*GP*GP*TP*AP*G)-3') dna | Length: 14

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


Entity #2 | Chains B

Description: DNA-directed RNA polymerase II subunit RPB2 protein | Length: 1224

No structure alignment results are available for 3GTK.B explicitly.

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

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Entity #3 | Chains C

Description: DNA-directed RNA polymerase II subunit RPB3 protein | Length: 318

No structure alignment results are available for 3GTK.C explicitly.

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

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Entity #4 | Chains E

Description: DNA-directed RNA polymerases I, II, and III subunit RPABC1 protein | Length: 215

No structure alignment results are available for 3GTK.E explicitly.

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

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Entity #5 | Chains F

Description: DNA-directed RNA polymerases I, II, and III subunit RPABC2 protein | Length: 155

No structure alignment results are available for 3GTK.F explicitly.

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

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Entity #6 | Chains H

Description: DNA-directed RNA polymerases I, II, and III subunit RPABC3 protein | Length: 146

No structure alignment results are available for 3GTK.H explicitly.

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

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Entity #7 | Chains I

Description: DNA-directed RNA polymerase II subunit RPB9 protein | Length: 122

No structure alignment results are available for 3GTK.I explicitly.

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

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Entity #8 | Chains J

Description: DNA-directed RNA polymerases I, II, and III subunit RPABC5 protein | Length: 70

No structure alignment results are available for 3GTK.J explicitly.

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

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Entity #9 | Chains K

Description: DNA-directed RNA polymerase II subunit RPB11 protein | Length: 120

No structure alignment results are available for 3GTK.K explicitly.

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

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References