Structural Similarities for the Entities in PDB 4V88

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 A2

Description: 18S RIBOSOMAL RNA rna | Length: 1800

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


Entity #10 | Chains AI,CI

Description: 40S ribosomal protein S8-A protein | Length: 200

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Entity #11 | Chains AJ,CJ

Description: 40S ribosomal protein S9-A protein | Length: 197

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Entity #12 | Chains AK,CK

Description: 40S ribosomal protein S10-A protein | Length: 105

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Entity #13 | Chains AL,CL

Description: 40S ribosomal protein S11-A protein | Length: 156

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Entity #14 | Chains AM,CM

Description: 40S ribosomal protein S12 protein | Length: 143

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Entity #15 | Chains AN,CN

Description: 40S ribosomal protein S13 protein | Length: 151

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Entity #16 | Chains AO,CO

Description: 40S ribosomal protein S14-A protein | Length: 137

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Entity #17 | Chains AP,CP

Description: 40S ribosomal protein S15 protein | Length: 142

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Entity #18 | Chains AQ,CQ

Description: 40S ribosomal protein S16-A protein | Length: 143

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Entity #19 | Chains AR,CR

Description: 40S ribosomal protein S17-A protein | Length: 136

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Entity #2 | Chains AA,CA

Description: 40S ribosomal protein S0-A protein | Length: 252

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Entity #20 | Chains AS,CS

Description: 40S ribosomal protein S18-A protein | Length: 146

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Entity #21 | Chains AT,CT

Description: 40S ribosomal protein S19-A protein | Length: 144

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Entity #22 | Chains AU,CU

Description: 40S ribosomal protein S20 protein | Length: 121

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Entity #23 | Chains AV,CV

Description: 40S ribosomal protein S21-A protein | Length: 87

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Entity #24 | Chains AW,CW

Description: 40S ribosomal protein S22-A protein | Length: 130

No structure alignment results are available for 4V88.AW, 4V88.CW explicitly.

These chains are represented by chain 1I6U.a which has more than 50% sequence identity.

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Entity #25 | Chains AX,CX

Description: 40S ribosomal protein S23-A protein | Length: 145

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Entity #26 | Chains AY,CY

Description: 40S ribosomal protein S24-A protein | Length: 135

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Entity #27 | Chains AZ,CZ

Description: 40S ribosomal protein S25-A protein | Length: 108

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Entity #28 | Chains Aa,Ca

Description: 40S ribosomal protein S26-A protein | Length: 119

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Entity #29 | Chains Ab,Cb

Description: 40S ribosomal protein S27-A protein | Length: 82

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Entity #3 | Chains AB,CB

Description: 40S ribosomal protein S1-A protein | Length: 255

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Entity #30 | Chains Ac,Cc

Description: 40S ribosomal protein S28-A protein | Length: 67

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Entity #31 | Chains Ad,Cd

Description: 40S ribosomal protein S29-A protein | Length: 56

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Entity #32 | Chains Ae,Ce

Description: 40S ribosomal protein S30-A protein | Length: 63

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Entity #33 | Chains Af,Cf

Description: 40S ribosomal protein S31 protein | Length: 152

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Entity #34 | Chains Ag,Cg

Description: Guanine nucleotide-binding protein subunit beta-like protein (ASC1, RACK1) protein | Length: 319

No structure alignment results are available for 4V88.Ag, 4V88.Cg explicitly.

These chains are represented by chain 3FRX.A which is 100% sequence identical.

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Entity #35 | Chains Ah

Description: Suppressor protein STM1 protein | Length: 273

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Entity #36 | Chains A1,A5

Description: 25S rRNA rna | Length: 3396

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


Entity #37 | Chains A3,A7

Description: 5S rRNA rna | Length: 121

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


Entity #38 | Chains A4,A8

Description: 5.8S rRNA rna | Length: 158

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


Entity #39 | Chains BA,DA

Description: 60S ribosomal protein L2-A protein | Length: 254

No structure alignment results are available for 4V88.BA, 4V88.DA explicitly.

These chains are represented by chain XXXX.null which has more than 40% sequence identity.

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Entity #4 | Chains AC,CC

Description: 40S ribosomal protein S2 protein | Length: 254

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Entity #40 | Chains BB,DB

Description: 60S ribosomal protein L3 protein | Length: 387

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Entity #41 | Chains BC,DC

Description: 60S ribosomal protein L4-A protein | Length: 362

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Entity #42 | Chains BD,DD

Description: 60S ribosomal protein L5 protein | Length: 297

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Entity #43 | Chains BE,DE

Description: 60S ribosomal protein L6-A protein | Length: 176

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Entity #44 | Chains BF,DF

Description: 60S ribosomal protein L7-A protein | Length: 244

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Entity #45 | Chains BG,DG

Description: 60S ribosomal protein L8-A protein | Length: 256

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Entity #46 | Chains BH,DH

Description: 60S ribosomal protein L9-A protein | Length: 191

No structure alignment results are available for 4V88.BH, 4V88.DH explicitly.

These chains are represented by chain XXXX.null which has more than 40% sequence identity.

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Entity #47 | Chains BI,DI

Description: 60S ribosomal protein L10 protein | Length: 221

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Entity #48 | Chains BJ,DJ

Description: 60S ribosomal protein L11-A protein | Length: 174

No structure alignment results are available for 4V88.BJ, 4V88.DJ explicitly.

These chains are represented by chain XXXX.null which has more than 70% sequence identity.

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Entity #49 | Chains BL,DL

Description: 60S ribosomal protein L13-A protein | Length: 199

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Entity #5 | Chains AD,CD

Description: 40S ribosomal protein S3 protein | Length: 240

No structure alignment results are available for 4V88.AD, 4V88.CD explicitly.

These chains are represented by chain 4BSZ.A which is 100% sequence identical.

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Entity #50 | Chains BM,DM

Description: 60S ribosomal protein L14-A protein | Length: 138

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Entity #51 | Chains BN,DN

Description: 60S ribosomal protein L15-A protein | Length: 204

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Entity #52 | Chains BO,DO

Description: 60S ribosomal protein L16-A, 60S ribosomal protein L16-B protein | Length: 199

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Entity #53 | Chains BP,DP

Description: 60S ribosomal protein L17-A protein | Length: 184

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Entity #54 | Chains BQ,DQ

Description: 60S ribosomal protein L18-A protein | Length: 186

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Entity #55 | Chains BR,DR

Description: 60S ribosomal protein L19-A protein | Length: 189

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Entity #56 | Chains BS,DS

Description: 60S ribosomal protein L20-A protein | Length: 172

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Entity #57 | Chains BT,DT

Description: 60S ribosomal protein L21-A protein | Length: 160

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Entity #58 | Chains BU,DU

Description: 60S ribosomal protein L22-A protein | Length: 121

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Entity #59 | Chains BV,DV

Description: 60S ribosomal protein L23-A protein | Length: 137

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Entity #6 | Chains AE,CE

Description: 40S ribosomal protein S4-A protein | Length: 261

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Entity #60 | Chains BW,DW

Description: 60S ribosomal protein L24-A protein | Length: 155

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Entity #61 | Chains BX,DX

Description: 60S ribosomal protein L25 protein | Length: 142

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Entity #62 | Chains BY,DY

Description: 60S ribosomal protein L26-A protein | Length: 127

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Entity #63 | Chains BZ,DZ

Description: 60S ribosomal protein L27-A protein | Length: 136

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Entity #64 | Chains Ba,Da

Description: 60S ribosomal protein L28 protein | Length: 149

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Entity #65 | Chains Bb,Db

Description: 60S ribosomal protein L29 protein | Length: 59

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Entity #66 | Chains Bc,Dc

Description: 60S ribosomal protein L30 protein | Length: 105

No structure alignment results are available for 4V88.Bc, 4V88.Dc explicitly.

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

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Entity #67 | Chains Bd,Dd

Description: 60S ribosomal protein L31-A protein | Length: 113

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Entity #68 | Chains Be,De

Description: 60S ribosomal protein L32 protein | Length: 130

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Entity #69 | Chains Bf,Df

Description: 60S ribosomal protein L33-A protein | Length: 107

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Entity #7 | Chains AF,CF

Description: 40S ribosomal protein S5 protein | Length: 225

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Entity #70 | Chains Bg,Dg

Description: 60S ribosomal protein L34-A protein | Length: 121

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Entity #71 | Chains Bh,Dh

Description: 60S ribosomal protein L35-A protein | Length: 120

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Entity #72 | Chains Bi,Di

Description: 60S ribosomal protein L36-A protein | Length: 100

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Entity #73 | Chains Bj,Dj

Description: 60S ribosomal protein L37-A protein | Length: 88

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Entity #74 | Chains Bk,Dk

Description: 60S ribosomal protein L38 protein | Length: 78

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Entity #75 | Chains Bl,Dl

Description: 60S ribosomal protein L39 protein | Length: 51

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Entity #76 | Chains Bm,Dm

Description: 60S ribosomal protein L40 protein | Length: 128

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Entity #77 | Chains Bn,Dn

Description: 60S ribosomal protein L41-A protein | Length: 25

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Entity #78 | Chains Bo,Do

Description: 60S ribosomal protein L42-A protein | Length: 106

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Entity #79 | Chains Bp,Dp

Description: 60S ribosomal protein L43-A protein | Length: 92

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Entity #8 | Chains AG,CG

Description: 40S ribosomal protein S6-A protein | Length: 236

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Entity #80 | Chains A6

Description: 18S rRNA rna | Length: 1800

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


Entity #81 | Chains Ch

Description: Suppressor protein STM1 protein | Length: 273

No structure alignment results are available for 4V88.Ch explicitly.

It is represented by chain XXXX.null which has more than 90% sequence identity.

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Entity #82 | Chains DK

Description: Ribosomal protein L12 protein | Length: 155

Entity #83 | Chains Dq

Description: 60S acidic ribosomal protein P0 protein | Length: 312

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Entity #84 | Chains Dr

Description: Ribosomal protein P1 alpha protein | Length: 47

Entity #85 | Chains Ds

Description: Ribosomal protein P2 beta protein | Length: 46

Entity #9 | Chains AH,CH

Description: 40S ribosomal protein S7-A protein | Length: 190

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References