5DGE

Coping with proline stalling: structural basis of hypusine-induced protein synthesis by the eukaryotic ribosome


Structural Similarities for the Entities in PDB 5DGE

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 2,6

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 S8,s8

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

No structure alignment results are available for 5DGE.S8, 5DGE.s8 explicitly.

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

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Entity #11 | Chains S9,s9

Description: 40S ribosomal protein S9-A protein | Length: 196

No structure alignment results are available for 5DGE.S9, 5DGE.s9 explicitly.

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

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Entity #12 | Chains C0,c0

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

No structure alignment results are available for 5DGE.C0, 5DGE.c0 explicitly.

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

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Entity #13 | Chains C1,c1

Description: 40S ribosomal protein S11-A protein | Length: 155

No structure alignment results are available for 5DGE.C1, 5DGE.c1 explicitly.

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

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Entity #14 | Chains C2,c2

Description: 40S ribosomal protein S12 protein | Length: 142

No structure alignment results are available for 5DGE.C2, 5DGE.c2 explicitly.

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

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Entity #15 | Chains C3,c3

Description: 40S ribosomal protein S13 protein | Length: 150

No structure alignment results are available for 5DGE.C3, 5DGE.c3 explicitly.

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

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Entity #16 | Chains C4,c4

Description: 40S ribosomal protein S14-A protein | Length: 136

No structure alignment results are available for 5DGE.C4, 5DGE.c4 explicitly.

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

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Entity #17 | Chains C5,c5

Description: 40S ribosomal protein S15 protein | Length: 141

No structure alignment results are available for 5DGE.C5, 5DGE.c5 explicitly.

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

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Entity #18 | Chains C6,c6

Description: 40S ribosomal protein S16-A protein | Length: 142

No structure alignment results are available for 5DGE.C6, 5DGE.c6 explicitly.

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

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Entity #19 | Chains C7,c7

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

No structure alignment results are available for 5DGE.C7, 5DGE.c7 explicitly.

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

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Entity #2 | Chains S0,s0

Description: 40S ribosomal protein S0-A protein | Length: 251

No structure alignment results are available for 5DGE.S0, 5DGE.s0 explicitly.

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

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Entity #20 | Chains C8,c8

Description: 40S ribosomal protein S18-A protein | Length: 145

No structure alignment results are available for 5DGE.C8, 5DGE.c8 explicitly.

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

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Entity #21 | Chains C9,c9

Description: 40S ribosomal protein S19-A protein | Length: 143

No structure alignment results are available for 5DGE.C9, 5DGE.c9 explicitly.

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

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Entity #22 | Chains D0,d0

Description: 40S ribosomal protein S20 protein | Length: 120

No structure alignment results are available for 5DGE.D0, 5DGE.d0 explicitly.

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

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Entity #23 | Chains D1,d1

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

No structure alignment results are available for 5DGE.D1, 5DGE.d1 explicitly.

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

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Entity #24 | Chains D2,d2

Description: 40S ribosomal protein S22-A protein | Length: 129

No structure alignment results are available for 5DGE.D2, 5DGE.d2 explicitly.

These chains are represented by chain 1I6U.a which has more than 40% sequence identity.

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Entity #25 | Chains D3,d3

Description: 40S ribosomal protein S23-A protein | Length: 144

No structure alignment results are available for 5DGE.D3, 5DGE.d3 explicitly.

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

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Entity #26 | Chains D4,d4

Description: 40S ribosomal protein S24-A protein | Length: 134

No structure alignment results are available for 5DGE.D4, 5DGE.d4 explicitly.

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

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Entity #27 | Chains D5,d5

Description: 40S ribosomal protein S25-A protein | Length: 107

No structure alignment results are available for 5DGE.D5, 5DGE.d5 explicitly.

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

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Entity #28 | Chains D6,d6

Description: 40S ribosomal protein S26-A protein | Length: 97

No structure alignment results are available for 5DGE.D6, 5DGE.d6 explicitly.

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

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Entity #29 | Chains D7,d7

Description: 40S ribosomal protein S27-A protein | Length: 81

No structure alignment results are available for 5DGE.D7, 5DGE.d7 explicitly.

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

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Entity #3 | Chains S1,s1

Description: 40S ribosomal protein S1-A protein | Length: 254

No structure alignment results are available for 5DGE.S1, 5DGE.s1 explicitly.

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

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Entity #30 | Chains D8,d8

Description: 40S ribosomal protein S28-A protein | Length: 66

No structure alignment results are available for 5DGE.D8, 5DGE.d8 explicitly.

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

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Entity #31 | Chains D9,d9

Description: 40S ribosomal protein S29-A protein | Length: 55

No structure alignment results are available for 5DGE.D9, 5DGE.d9 explicitly.

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

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Entity #32 | Chains E0

Description: 40S ribosomal protein S30-A protein | Length: 60

No structure alignment results are available for 5DGE.E0 explicitly.

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

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Entity #33 | Chains E1,e1

Description: Ubiquitin-40S ribosomal protein S31 protein | Length: 76

No structure alignment results are available for 5DGE.E1, 5DGE.e1 explicitly.

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

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Entity #34 | Chains SR,sR

Description: Guanine nucleotide-binding protein subunit beta-like protein protein | Length: 318

No structure alignment results are available for 5DGE.SR, 5DGE.sR explicitly.

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

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Entity #35 | Chains SM,sM

Description: Suppressor protein STM1 protein | Length: 273

No structure alignment results are available for 5DGE.SM, 5DGE.sM explicitly.

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

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Entity #36 | Chains 1,5

Description: 25S ribosomal RNA 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 3,7

Description: 5S ribosomal RNA 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 4,8

Description: 5.8S ribosomal RNA 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 L2,l2

Description: 60S ribosomal protein L2-A protein | Length: 253

No structure alignment results are available for 5DGE.L2, 5DGE.l2 explicitly.

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

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Entity #4 | Chains S2,s2

Description: 40S ribosomal protein S2 protein | Length: 253

No structure alignment results are available for 5DGE.S2, 5DGE.s2 explicitly.

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

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Entity #40 | Chains L3,l3

Description: 60S ribosomal protein L3 protein | Length: 386

No structure alignment results are available for 5DGE.L3, 5DGE.l3 explicitly.

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

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Entity #41 | Chains L4,l4

Description: 60S ribosomal protein L4-A protein | Length: 361

No structure alignment results are available for 5DGE.L4, 5DGE.l4 explicitly.

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

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Entity #42 | Chains L5,l5

Description: 60S ribosomal protein L5 protein | Length: 296

No structure alignment results are available for 5DGE.L5, 5DGE.l5 explicitly.

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

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Entity #43 | Chains L6,l6

Description: 60S ribosomal protein L6-A protein | Length: 175

No structure alignment results are available for 5DGE.L6, 5DGE.l6 explicitly.

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

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Entity #44 | Chains L7,l7

Description: 60S ribosomal protein L7-A protein | Length: 243

No structure alignment results are available for 5DGE.L7, 5DGE.l7 explicitly.

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

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Entity #45 | Chains L8,l8

Description: 60S ribosomal protein L8-A protein | Length: 255

No structure alignment results are available for 5DGE.L8, 5DGE.l8 explicitly.

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

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Entity #46 | Chains L9,l9

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

No structure alignment results are available for 5DGE.L9, 5DGE.l9 explicitly.

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

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Entity #47 | Chains M0,m0

Description: 60S ribosomal protein L10 protein | Length: 220

No structure alignment results are available for 5DGE.M0, 5DGE.m0 explicitly.

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

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Entity #48 | Chains M1,m1

Description: 60S ribosomal protein L11-A protein | Length: 173

No structure alignment results are available for 5DGE.M1, 5DGE.m1 explicitly.

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

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Entity #49 | Chains M3,m3

Description: 60S ribosomal protein L13-A protein | Length: 198

No structure alignment results are available for 5DGE.M3, 5DGE.m3 explicitly.

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

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Entity #5 | Chains S3,s3

Description: 40S ribosomal protein S3 protein | Length: 239

No structure alignment results are available for 5DGE.S3, 5DGE.s3 explicitly.

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

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Entity #50 | Chains M4,m4

Description: 60S ribosomal protein L14-A protein | Length: 137

No structure alignment results are available for 5DGE.M4, 5DGE.m4 explicitly.

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

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Entity #51 | Chains M5,m5

Description: 60S ribosomal protein L15-A protein | Length: 203

No structure alignment results are available for 5DGE.M5, 5DGE.m5 explicitly.

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

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Entity #52 | Chains M6,m6

Description: 60S ribosomal protein L16-A protein | Length: 198

No structure alignment results are available for 5DGE.M6, 5DGE.m6 explicitly.

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

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Entity #53 | Chains M7,m7

Description: 60S ribosomal protein L17-A protein | Length: 183

No structure alignment results are available for 5DGE.M7, 5DGE.m7 explicitly.

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

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Entity #54 | Chains M8,m8

Description: 60S ribosomal protein L18-A protein | Length: 185

No structure alignment results are available for 5DGE.M8, 5DGE.m8 explicitly.

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

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Entity #55 | Chains M9,m9

Description: 60S ribosomal protein L19-A protein | Length: 188

No structure alignment results are available for 5DGE.M9, 5DGE.m9 explicitly.

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

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Entity #56 | Chains N0,n0

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

No structure alignment results are available for 5DGE.N0, 5DGE.n0 explicitly.

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

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Entity #57 | Chains N1,n1

Description: 60S ribosomal protein L21-A protein | Length: 159

No structure alignment results are available for 5DGE.N1, 5DGE.n1 explicitly.

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

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Entity #58 | Chains N2,n2

Description: 60S ribosomal protein L22-A protein | Length: 120

No structure alignment results are available for 5DGE.N2, 5DGE.n2 explicitly.

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

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Entity #59 | Chains N3,n3

Description: 60S ribosomal protein L23-A protein | Length: 136

No structure alignment results are available for 5DGE.N3, 5DGE.n3 explicitly.

These chains are represented by chain XXXX.null which has more than 50% sequence identity.

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Entity #6 | Chains S4,s4

Description: 40S ribosomal protein S4-A protein | Length: 260

No structure alignment results are available for 5DGE.S4, 5DGE.s4 explicitly.

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

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Entity #60 | Chains N4,n4

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

No structure alignment results are available for 5DGE.N4, 5DGE.n4 explicitly.

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

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Entity #61 | Chains N5,n5

Description: 60S ribosomal protein L25 protein | Length: 141

No structure alignment results are available for 5DGE.N5, 5DGE.n5 explicitly.

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

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Entity #62 | Chains N6,n6

Description: 60S ribosomal protein L26-A protein | Length: 126

No structure alignment results are available for 5DGE.N6, 5DGE.n6 explicitly.

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

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Entity #63 | Chains N7,n7

Description: 60S ribosomal protein L27-A protein | Length: 135

No structure alignment results are available for 5DGE.N7, 5DGE.n7 explicitly.

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

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Entity #64 | Chains N8,n8

Description: 60S ribosomal protein L28 protein | Length: 148

No structure alignment results are available for 5DGE.N8, 5DGE.n8 explicitly.

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

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Entity #65 | Chains N9,n9

Description: 60S ribosomal protein L29 protein | Length: 58

No structure alignment results are available for 5DGE.N9, 5DGE.n9 explicitly.

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

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Entity #66 | Chains O0,o0

Description: 60S ribosomal protein L30 protein | Length: 104

No structure alignment results are available for 5DGE.O0, 5DGE.o0 explicitly.

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

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Entity #67 | Chains O1,o1

Description: 60S ribosomal protein L31-A protein | Length: 112

No structure alignment results are available for 5DGE.O1, 5DGE.o1 explicitly.

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

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Entity #68 | Chains O2,o2

Description: 60S ribosomal protein L32 protein | Length: 129

No structure alignment results are available for 5DGE.O2, 5DGE.o2 explicitly.

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

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Entity #69 | Chains O3,o3

Description: 60S ribosomal protein L33-A protein | Length: 106

No structure alignment results are available for 5DGE.O3, 5DGE.o3 explicitly.

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

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Entity #7 | Chains S5,s5

Description: 40S ribosomal protein S5 protein | Length: 224

No structure alignment results are available for 5DGE.S5, 5DGE.s5 explicitly.

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

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Entity #70 | Chains O4,o4

Description: 60S ribosomal protein L34-A protein | Length: 119

No structure alignment results are available for 5DGE.O4, 5DGE.o4 explicitly.

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

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Entity #71 | Chains O5,o5

Description: 60S ribosomal protein L35-A protein | Length: 119

No structure alignment results are available for 5DGE.O5, 5DGE.o5 explicitly.

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

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Entity #72 | Chains O6,o6

Description: 60S ribosomal protein L36-A protein | Length: 99

No structure alignment results are available for 5DGE.O6, 5DGE.o6 explicitly.

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

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Entity #73 | Chains O7,o7

Description: 60S ribosomal protein L37-A protein | Length: 87

No structure alignment results are available for 5DGE.O7, 5DGE.o7 explicitly.

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

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Entity #74 | Chains O8,o8

Description: 60S ribosomal protein L38 protein | Length: 77

No structure alignment results are available for 5DGE.O8, 5DGE.o8 explicitly.

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

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Entity #75 | Chains O9,o9

Description: 60S ribosomal protein L39 protein | Length: 50

No structure alignment results are available for 5DGE.O9, 5DGE.o9 explicitly.

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

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Entity #76 | Chains Q0,q0

Description: Ubiquitin-60S ribosomal protein L40 protein | Length: 52

No structure alignment results are available for 5DGE.Q0, 5DGE.q0 explicitly.

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

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Entity #77 | Chains Q1,q1

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

No structure alignment results are available for 5DGE.Q1, 5DGE.q1 explicitly.

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

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Entity #78 | Chains Q2,q2

Description: 60S ribosomal protein L42-A protein | Length: 105

No structure alignment results are available for 5DGE.Q2, 5DGE.q2 explicitly.

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

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