4PJO

Minimal U1 snRNP


Structural Similarities for the Entities in PDB 4PJO

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

Info & Help Documentation



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,O,a,o

Description: Small nuclear ribonucleoprotein Sm D3 protein | Length: 126

No structure alignment results are available for 4PJO.A, 4PJO.O, 4PJO.a, 4PJO.o explicitly.

These chains are represented by chain XXXX.null which is 100% sequence identical.

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Entity #10 | Chains 1,2,3,4

Description: U1 RNA variant (48-MER) with 4-helix junction replaced by kissing loop (HIV-1 (Mal) DIS) and shorter stem-loop 4. rna | Length: 60

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


Entity #11 | Chains X,Y,x,y

Description: RNA (5'-R(*AP*GP*GP*UP*AP*AP*GP*UP*CP*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 #2 | Chains B,P,b,p

Description: Small nuclear ribonucleoprotein-associated proteins B and B' protein | Length: 95

No structure alignment results are available for 4PJO.B, 4PJO.P, 4PJO.b, 4PJO.p explicitly.

These chains are represented by chain 1D3B.b which is 100% sequence identical.

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Entity #3 | Chains C,Q,c,q

Description: Small nuclear ribonucleoprotein Sm D1 protein | Length: 91

No structure alignment results are available for 4PJO.C, 4PJO.Q, 4PJO.c, 4PJO.q explicitly.

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

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Entity #4 | Chains D,R,d,r

Description: Small nuclear ribonucleoprotein Sm D2 protein | Length: 118

No structure alignment results are available for 4PJO.D, 4PJO.R, 4PJO.d, 4PJO.r explicitly.

These chains are represented by chain 4F7U.B which is 100% sequence identical.

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Entity #5 | Chains E,S,e,s

Description: Small nuclear ribonucleoprotein E protein | Length: 92

No structure alignment results are available for 4PJO.E, 4PJO.S, 4PJO.e, 4PJO.s explicitly.

These chains are represented by chain 4F7U.E which is 100% sequence identical.

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Entity #6 | Chains F,T,f,t

Description: Small nuclear ribonucleoprotein F protein | Length: 75

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Entity #7 | Chains G,U,g,u

Description: Small nuclear ribonucleoprotein G protein | Length: 76

No structure alignment results are available for 4PJO.G, 4PJO.U, 4PJO.g, 4PJO.u explicitly.

These chains are represented by chain 4F7U.G which is 100% sequence identical.

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Entity #8 | Chains K,N,k,n

Description: U1 small nuclear ribonucleoprotein 70 kDa protein | Length: 60

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Entity #9 | Chains L,M,l,m

Description: U1 small nuclear ribonucleoprotein C protein | Length: 61

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References