6N8J

Cryo-EM structure of late nuclear (LN) pre-60S ribosomal subunit


Structural Similarities for the Entities in PDB 6N8J

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].

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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 D

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

No structure alignment results are available for 6N8J.D explicitly.

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

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Entity #10 | Chains E

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

No structure alignment results are available for 6N8J.E explicitly.

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

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Entity #11 | Chains e

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

No structure alignment results are available for 6N8J.e explicitly.

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

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Entity #12 | Chains F

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

No structure alignment results are available for 6N8J.F explicitly.

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

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Entity #13 | Chains f

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

No structure alignment results are available for 6N8J.f explicitly.

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

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Entity #14 | Chains G

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

No structure alignment results are available for 6N8J.G explicitly.

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

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Entity #15 | Chains g

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

No structure alignment results are available for 6N8J.g explicitly.

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

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Entity #16 | Chains I

Description: Bud site selection protein 20 protein | Length: 166

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Entity #17 | Chains H

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

No structure alignment results are available for 6N8J.H explicitly.

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

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Entity #18 | Chains h

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

No structure alignment results are available for 6N8J.h explicitly.

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

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Entity #19 | Chains i

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

No structure alignment results are available for 6N8J.i explicitly.

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

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Entity #2 | Chains J

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

No structure alignment results are available for 6N8J.J explicitly.

It is represented by chain XXXX.null which has more than 70% sequence identity.

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Entity #20 | Chains j

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

No structure alignment results are available for 6N8J.j explicitly.

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

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Entity #21 | Chains k

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

No structure alignment results are available for 6N8J.k explicitly.

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

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Entity #22 | Chains m

Description: Nucleolar GTP-binding protein 2 protein | Length: 486

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Entity #23 | Chains L

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

No structure alignment results are available for 6N8J.L explicitly.

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

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Entity #24 | Chains l

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

No structure alignment results are available for 6N8J.l explicitly.

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

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Entity #25 | Chains M

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

No structure alignment results are available for 6N8J.M explicitly.

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

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Entity #26 | Chains p

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

No structure alignment results are available for 6N8J.p explicitly.

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

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Entity #27 | Chains N

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

No structure alignment results are available for 6N8J.N explicitly.

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

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Entity #28 | Chains u

Description: Ribosome biogenesis protein RLP24 protein | Length: 199

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Entity #29 | Chains O

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

No structure alignment results are available for 6N8J.O explicitly.

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

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Entity #3 | Chains A

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

No structure alignment results are available for 6N8J.A explicitly.

It is represented by chain XXXX.null which has more than 40% sequence identity.

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Entity #30 | Chains P

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

No structure alignment results are available for 6N8J.P explicitly.

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

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Entity #31 | Chains Q

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

No structure alignment results are available for 6N8J.Q explicitly.

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

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Entity #32 | Chains R

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

No structure alignment results are available for 6N8J.R explicitly.

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

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Entity #33 | Chains r

Description: Ribosome biogenesis protein NSA2 protein | Length: 261

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Entity #34 | Chains S

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

No structure alignment results are available for 6N8J.S explicitly.

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

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Entity #35 | Chains T

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

No structure alignment results are available for 6N8J.T explicitly.

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

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Entity #36 | Chains U

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

No structure alignment results are available for 6N8J.U explicitly.

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

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Entity #37 | Chains V

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

No structure alignment results are available for 6N8J.V explicitly.

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

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Entity #38 | Chains W

Description: Ribosome assembly factor MRT4 protein | Length: 236

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Entity #39 | Chains X

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

No structure alignment results are available for 6N8J.X explicitly.

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

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Entity #4 | Chains a

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

No structure alignment results are available for 6N8J.a explicitly.

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

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Entity #40 | Chains Y

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

No structure alignment results are available for 6N8J.Y explicitly.

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

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Entity #41 | Chains y

Description: Eukaryotic translation initiation factor 6 protein | Length: 245

No structure alignment results are available for 6N8J.y explicitly.

It is represented by chain 5M3Q.A which has more than 70% sequence identity.

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Entity #42 | Chains Z

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

No structure alignment results are available for 6N8J.Z explicitly.

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

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Entity #43 | Chains z

Description: UPF0642 protein YBL028C protein | Length: 106

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Entity #44 | Chains K

Description: 60S ribosomal protein L12 protein | Length: 165

No structure alignment results are available for 6N8J.K explicitly.

It is represented by chain XXXX.null which has more than 50% sequence identity.

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Entity #45 | Chains q

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

No structure alignment results are available for 6N8J.q explicitly.

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

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Entity #46 | Chains o

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

No structure alignment results are available for 6N8J.o explicitly.

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

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Entity #47 | Chains 1

Description: Saccharomyces cerevisiae S288C 35S pre-ribosomal RNA (RDN37-1), miscRNA rna | Length: 3396

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


Entity #48 | Chains 2

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 #49 | Chains 3

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 #5 | Chains B

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

No structure alignment results are available for 6N8J.B explicitly.

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

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Entity #6 | Chains b

Description: Nucleolar GTP-binding protein 1 protein | Length: 647

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Entity #7 | Chains C

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

No structure alignment results are available for 6N8J.C explicitly.

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

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Entity #8 | Chains c

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

No structure alignment results are available for 6N8J.c explicitly.

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

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Entity #9 | Chains d

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

No structure alignment results are available for 6N8J.d explicitly.

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

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References