Structural Similarities for the Entities in PDB 1JD2

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: Nov-29-2016

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

Entity #1 | Chains A,V

Description: PROTEASOME COMPONENT Y7 protein | Length: 250

No structure alignment results are available for 1JD2.A, 1JD2.V explicitly.

These chains are represented by chain 5LE5.A which has more than 50% sequence identity.

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View how chain 1JD2.V compares with the representative chain PDP:5LE5Aa. Select a comparison method:


Entity #10 | Chains J,Q

Description: PROTEASOME COMPONENT C11 protein | Length: 198

No structure alignment results are available for 1JD2.J, 1JD2.Q explicitly.

These chains are represented by chain 5LE5.J which has more than 40% sequence identity.

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View how chain 1JD2.Q compares with the representative chain PDP:5LE5Ja. Select a comparison method:


Entity #11 | Chains K,R

Description: PROTEASOME COMPONENT PRE2 protein | Length: 212

No structure alignment results are available for 1JD2.K, 1JD2.R explicitly.

These chains are represented by chain 5LE5.K which has more than 70% sequence identity.

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View how chain 1JD2.R compares with the representative chain PDP:5LE5Ka. Select a comparison method:


Entity #12 | Chains L,S

Description: PROTEASOME COMPONENT C5 protein | Length: 222

No structure alignment results are available for 1JD2.L, 1JD2.S explicitly.

These chains are represented by chain 5LE5.L which has more than 40% sequence identity.

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View how chain 1JD2.S compares with the representative chain PDP:5LE5La. Select a comparison method:


Entity #13 | Chains M,T

Description: PROTEASOME COMPONENT PRE4 protein | Length: 233

No structure alignment results are available for 1JD2.M, 1JD2.T explicitly.

These chains are represented by chain 5LE5.M which has more than 40% sequence identity.

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Entity #14 | Chains N,U

Description: PROTEASOME COMPONENT PRE3 protein | Length: 196

No structure alignment results are available for 1JD2.N, 1JD2.U explicitly.

These chains are represented by chain 5LE5.N which has more than 50% sequence identity.

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View how chain 1JD2.U compares with the representative chain PDP:5LE5Na. Select a comparison method:


Entity #15 | Chains 8,9

Description: TMC-95A inhibitor protein | Length: 5

This entity is too short to be considered for the all vs. all structure alignments.


Entity #2 | Chains B,W

Description: PROTEASOME COMPONENT Y13 protein | Length: 244

No structure alignment results are available for 1JD2.B, 1JD2.W explicitly.

These chains are represented by chain 5LE5.A which has more than 40% sequence identity.

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Entity #3 | Chains C,X

Description: PROTEASOME COMPONENT PRE6 protein | Length: 241

No structure alignment results are available for 1JD2.C, 1JD2.X explicitly.

These chains are represented by chain 5LE5.A which has more than 40% sequence identity.

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Entity #4 | Chains D,Y

Description: PROTEASOME COMPONENT PUP2 protein | Length: 242

No structure alignment results are available for 1JD2.D, 1JD2.Y explicitly.

These chains are represented by chain 5LE5.A which has more than 40% sequence identity.

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Entity #5 | Chains E,Z

Description: PROTEASOME COMPONENT PRE5 protein | Length: 233

No structure alignment results are available for 1JD2.E, 1JD2.Z explicitly.

These chains are represented by chain 5LE5.E which has more than 50% sequence identity.

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Entity #6 | Chains 1,F

Description: PROTEASOME COMPONENT C1 protein | Length: 244

No structure alignment results are available for 1JD2.1, 1JD2.F explicitly.

These chains are represented by chain 5LE5.F which has more than 50% sequence identity.

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View how chain 1JD2.F compares with the representative chain PDP:5LE5Fa. Select a comparison method:


Entity #7 | Chains 2,G

Description: PROTEASOME COMPONENT C7-ALPHA protein | Length: 243

No structure alignment results are available for 1JD2.2, 1JD2.G explicitly.

These chains are represented by chain 5LE5.G which has more than 50% sequence identity.

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Entity #8 | Chains H,O

Description: PROTEASOME COMPONENT PUP1 protein | Length: 222

No structure alignment results are available for 1JD2.H, 1JD2.O explicitly.

These chains are represented by chain 5LE5.H which has more than 50% sequence identity.

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Entity #9 | Chains I,P

Description: PROTEASOME COMPONENT PUP3 protein | Length: 204

No structure alignment results are available for 1JD2.I, 1JD2.P explicitly.

These chains are represented by chain 5LE5.I which has more than 50% sequence identity.

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References