5VYC

Crystal structure of the human 40S ribosomal subunit in complex with DENR-MCT-1.


Sequence Similarity Clusters for the Entities in PDB 5VYC

Entity #1 | Chains: T1,T2,T3,T4,T5,T6
40S ribosomal protein S19 protein, length: 145 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 43 1084
95 % 1 85 693
90 % 1 85 724
70 % 1 85 757
50 % 1 87 768
40 % 1 87 798
30 % 3 90 775
Entity #10 | Chains: C1,C2,C3,C4,C5,C6
40S ribosomal protein S2 protein, length: 293 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 27 1823
95 % 1 40 1577
90 % 1 52 1240
70 % 1 53 1258
50 % 1 56 1235
40 % 1 56 1261
30 % 1 56 1302
Entity #11 | Chains: G1,G2,G3,G4,G5,G6
40S ribosomal protein S6 protein, length: 249 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 84 529
95 % 1 85 698
90 % 1 85 729
70 % 1 91 702
50 % 39 182 294
40 % 39 187 294
30 % 39 187 311
Entity #12 | Chains: J1,J2,J3,J4,J5,J6
40S ribosomal protein S9 protein, length: 194 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 85 521
95 % 1 85 687
90 % 1 85 715
70 % 39 185 251
50 % 41 200 237
40 % 41 208 236
30 % 41 208 249
Entity #13 | Chains: M1,M2,M3,M4,M5,M6
40S ribosomal protein S12 protein, length: 132 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 64 712
95 % 1 77 768
90 % 1 77 806
70 % 1 82 783
50 % 1 83 808
40 % 1 83 838
30 % 1 83 882
Entity #14 | Chains: N1,N2,N3,N4,N5,N6
40S ribosomal protein S13 protein, length: 151 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 85 513
95 % 1 85 685
90 % 1 85 714
70 % 39 190 248
50 % 41 197 246
40 % 41 205 240
30 % 41 206 251
Entity #15 | Chains: O1,O2,O3,O4,O5,O6
40S ribosomal protein S14 protein, length: 151 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 73 612
95 % 1 73 820
90 % 1 81 773
70 % 41 198 231
50 % 41 199 238
40 % 41 199 250
30 % 41 199 262
Entity #16 | Chains: W1,W2,W3,W4,W5,W6
40S ribosomal protein S15a protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 86 509
95 % 1 86 677
90 % 1 86 706
70 % 42 203 225
50 % 42 204 230
40 % 43 214 230
30 % 391 808 22
Entity #17 | Chains: Y1,Y2,Y3,Y4,Y5,Y6
40S ribosomal protein S24 protein, length: 133 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 77 576
95 % 1 85 690
90 % 1 85 717
70 % 1 86 737
50 % 38 192 266
40 % 38 192 280
30 % 38 192 293
Entity #18 | Chains: Z1,Z2,Z3,Z4,Z5,Z6
40S ribosomal protein S25 protein, length: 125 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 57 810
95 % 1 57 1098
90 % 1 57 1137
70 % 1 58 1150
50 % 1 58 1208
40 % 1 59 1214
30 % 1 59 1256
Entity #19 | Chains: b1,b2,b3,b4,b5,b6
40S ribosomal protein S27 protein, length: 84 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 85 520
95 % 1 85 683
90 % 1 85 713
70 % 38 175 271
50 % 40 187 269
40 % 40 187 285
30 % 40 187 298
Entity #2 | Chains: U1,U2,U3,U4,U5,U6
40S ribosomal protein S20 protein, length: 119 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 54 887
95 % 1 56 1105
90 % 1 56 1149
70 % 1 57 1172
50 % 1 59 1164
40 % 1 59 1195
30 % 1 59 1237
Entity #20 | Chains: e1,e2,e3,e4,e5,e6
40S ribosomal protein S30 protein, length: 133 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 2 13142
95 % 1 31 1949
90 % 1 31 2011
70 % 1 31 2072
50 % 1 32 2082
40 % 1 32 2111
30 % 1 32 2144
Entity #21 | Chains: i1,i2,i3,i4,i5,i6
Human 18S ribosomal RNA rna, length: 1869 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #22 | Chains: A1,A2,A3,A4,A5,A6
40S ribosomal protein SA protein, length: 295 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 26 1880
95 % 1 54 1167
90 % 1 54 1206
70 % 1 54 1240
50 % 1 54 1283
40 % 1 54 1314
30 % 1 54 1353
Entity #23 | Chains: B1,B2,B3,B4,B5,B6
40S ribosomal protein S3a protein, length: 264 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 51 925
95 % 1 58 1078
90 % 1 58 1119
70 % 1 58 1151
50 % 1 60 1156
40 % 40 161 340
30 % 40 161 361
Entity #24 | Chains: D1,D2,D3,D4,D5,D6
40S ribosomal protein S3 protein, length: 243 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 41 1143
95 % 1 73 821
90 % 1 73 853
70 % 1 74 877
50 % 40 168 321
40 % 40 168 336
30 % 40 168 353
Entity #25 | Chains: E1,E2,E3,E4,E5,E6
40S ribosomal protein S4, X isoform protein, length: 263 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 54 883
95 % 1 73 812
90 % 1 85 712
70 % 38 181 261
50 % 40 191 255
40 % 40 191 267
30 % 40 199 267
Entity #26 | Chains: F1,F2,F3,F4,F5,F6
40S ribosomal protein S5 protein, length: 204 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 86 505
95 % 1 86 679
90 % 1 86 707
70 % 1 101 624
50 % 41 201 235
40 % 41 201 246
30 % 41 201 260
Entity #27 | Chains: H1,H2,H3,H4,H5,H6
40S ribosomal protein S7 protein, length: 194 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 84 530
95 % 1 85 696
90 % 1 85 727
70 % 1 86 740
50 % 38 188 273
40 % 38 188 288
30 % 40 191 283
Entity #28 | Chains: I1,I2,I3,I4,I5,I6
40S ribosomal protein S8 protein, length: 208 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 77 577
95 % 1 85 702
90 % 1 85 736
70 % 1 85 756
50 % 40 190 259
40 % 40 194 262
30 % 40 194 275
Entity #29 | Chains: K1,K2,K3,K4,K5,K6
40S ribosomal protein S10 protein, length: 165 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 51 919
95 % 1 53 1192
90 % 1 53 1215
70 % 1 53 1269
50 % 1 54 1273
40 % 1 55 1305
30 % 1 55 1339
Entity #3 | Chains: V1,V2,V3,V4,V5,V6
40S ribosomal protein S21 protein, length: 83 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 65 704
95 % 1 84 704
90 % 1 84 743
70 % 1 85 747
50 % 38 176 306
40 % 38 176 320
30 % 38 176 337
Entity #30 | Chains: L1,L2,L3,L4,L5,L6
40S ribosomal protein S11 protein, length: 158 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 86 508
95 % 1 86 676
90 % 1 86 705
70 % 1 87 733
50 % 41 197 245
40 % 41 197 256
30 % 41 197 268
Entity #31 | Chains: P1,P2,P3,P4,P5,P6
40S ribosomal protein S15 protein, length: 145 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 31 1561
95 % 1 84 709
90 % 1 84 745
70 % 1 86 745
50 % 40 179 299
40 % 40 186 292
30 % 40 187 306
Entity #32 | Chains: Q1,Q2,Q3,Q4,Q5,Q6
40S ribosomal protein S16 protein, length: 146 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 76 587
95 % 1 76 784
90 % 1 76 826
70 % 1 79 818
50 % 41 190 253
40 % 41 198 255
30 % 41 199 263
Entity #33 | Chains: R1,R2,R3,R4,R5,R6
40S ribosomal protein S17 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 29 1663
95 % 1 85 691
90 % 1 85 718
70 % 1 86 738
50 % 40 176 301
40 % 40 176 313
30 % 40 176 332
Entity #34 | Chains: S1,S2,S3,S4,S5,S6
40S ribosomal protein S18 protein, length: 152 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 86 506
95 % 1 86 680
90 % 1 86 708
70 % 39 183 254
50 % 41 192 251
40 % 41 202 243
30 % 41 202 257
Entity #35 | Chains: j1,j2,j3,j4,j5,j6
60S ribosomal protein L41 protein, length: 25 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 79 557
95 % 1 82 722
90 % 1 82 761
70 % 38 163 284
50 % 38 163 331
40 % 38 163 348
30 % 38 163 365
Entity #36 | Chains: k1,k2,k3,k4,k5,k6
Malignant T-cell-amplified sequence 1 protein, length: 181 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 3 12031
95 % 4 4 4080
90 % 4 4 4242
70 % 4 4 4116
50 % 4 4 4153
40 % 4 4 3997
30 % 4 4 4007
Entity #37 | Chains: l1,l2,l3,l4,l5,l6
Density-regulated protein protein, length: 198 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 3 5443
95 % 3 3 6028
90 % 3 3 6227
70 % 3 3 6115
50 % 3 3 5869
40 % 3 3 5589
30 % 3 3 5343
Entity #4 | Chains: X1,X2,X3,X4,X5,X6
40S ribosomal protein S23 protein, length: 143 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 84 526
95 % 1 88 660
90 % 1 89 687
70 % 41 204 222
50 % 41 214 220
40 % 41 214 231
30 % 41 214 240
Entity #5 | Chains: a1,a2,a3,a4,a5,a6
40S ribosomal protein S26 protein, length: 115 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 35 1336
95 % 1 49 1281
90 % 1 49 1318
70 % 1 50 1322
50 % 3 81 779
40 % 5 83 757
30 % 5 83 792
Entity #6 | Chains: c1,c2,c3,c4,c5,c6
40S ribosomal protein S28 protein, length: 69 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 67 676
95 % 1 67 918
90 % 1 67 961
70 % 39 191 247
50 % 41 202 232
40 % 41 203 242
30 % 41 203 254
Entity #7 | Chains: d1,d2,d3,d4,d5,d6
40S ribosomal protein S29 protein, length: 56 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 79 560
95 % 1 83 711
90 % 1 83 747
70 % 39 169 280
50 % 39 177 302
40 % 39 177 314
30 % 39 177 333
Entity #8 | Chains: f1,f2,f3,f4,f5,f6
Ribosomal protein S27a protein, length: 156 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 3 11798
95 % 1 50 1265
90 % 1 50 1297
70 % 4 82 729
50 % 6 86 728
40 % 6 89 734
30 % 6 89 768
Entity #9 | Chains: g1,g2,g3,g4,g5,g6
Receptor of activated protein C kinase 1 protein, length: 317 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 2 85 500
95 % 2 85 669
90 % 2 85 700
70 % 3 87 713
50 % 46 176 281
40 % 48 182 274
30 % 48 183 285

Instructions

In the table for each entity, view a list of similar sequences by selecting the link associated with the percentage cutoff.



View more detailed documentation on the redundancy reduction and sequence clustering procedure used by RCSB PDB.

You can also use the structure comparison tool to compare any 2 given structures


ACTION - (A) Select for download / view details OR (B) Select two chains for comparison
Rank PDB ID Entity ID Chains Description Details Taxonomy EC Number
1 5VYC 18 Z1, Z2, Z3, Z4, Z5, Z6 40S ribosomal protein S25 9606
2 4KZZ 26 Z 40S Ribosomal Protein S25 9986
3 4KZX 26 Z 40S ribosomal protein S25 9986
4 4KZY 26 Z 40S Ribosomal Protein S25 9986
5 6YAL 32 n 40S ribosomal protein eS25 9986
6 6W2S 31 a eS25 9986
7 6W2T 30 i eS25 9986
8 6Y57 74 SZ 40S ribosomal protein S25 9606
9 6Y2L 74 SZ 40S ribosomal protein S25 9606
10 6Y0G 75 SZ 40S ribosomal protein S25 9606
11 6SGC 27 a1 eS25 9986
12 6P5I 27 a eS25 9986
13 6P5J 27 a eS25 9986
14 6P5K 73 a eS25 9986
15 6P5N 73 a eS25 9986
16 6P4G 27 a eS25 9986
17 6P4H 28 a eS25 9986
18 6IP5 77 3O 40S ribosomal protein S25 9606
19 6IP6 76 3O 40S ribosomal protein S25 9606
20 6IP8 76 3O 40S ribosomal protein S25 9606
21 6HCQ 30 a2 eS25 9986
22 6HCJ 30 a2 eS25 9986
23 6HCM 27 a1 eS25 9986
24 6HCF 27 a1 eS25 9986
25 6D9J 75 aa eS25 9986
26 6D90 76 aa eS25 9986
27 6G5H 32 Z 40S ribosomal protein S25 9606
28 6G5I 27 Z 40S ribosomal protein S25 9606
29 6G4S 13 Z 40S ribosomal protein S25 9606
30 6G4W 11 Z 40S ribosomal protein S25 9606
31 6G51 35 Z 40S ribosomal protein S25 9606
32 6G53 34 Z 40S ribosomal protein S25 9606
33 6G18 9 Z 40S ribosomal protein S25 9606
34 6EK0 78 SZ 40S ribosomal protein S25 9606
35 5OA3 30 Z 40S ribosomal protein S25 9606
36 5LZS 76 ZZ eS25 9986
37 5LZT 77 ZZ eS25 9986
38 5LZU 76 ZZ eS25 9986
39 5LZV 77 ZZ eS25 9986
40 5LZW 77 ZZ eS25 9986
41 5LZX 77 ZZ eS25 9986
42 5LZY 75 ZZ eS25 9986
43 5LZZ 77 ZZ eS25 9986
44 5T2C 59 AR 40S ribosomal protein S25 9606
45 5LKS 77 SZ 40S ribosomal protein S25 9606
46 5FLX 27 Z 40S RIBOSOMAL PROTEIN S25 9986
47 5A2Q 28 Z RIBOSOMAL PROTEIN ES25 9606
48 4UG0 79 SZ 40S RIBOSOMAL PROTEIN S25 9606
49 5AJ0 75 BZ 40S ribosomal protein S25 9606
50 4D61 27 Z 40S RIBOSOMAL PROTEIN S25 9986
51 4D5L 27 Z 40S RIBOSOMAL PROTEIN ES25 9986
52 3J7P 75 SZ Ribosomal protein es25 9823
53 3J7R 76 SZ Ribosomal protein es25 9823
54 4UJC 76 CZ 40S RIBOSOMAL PROTEIN ES25 9986
55 4UJD 76 CZ 40S RIBOSOMAL PROTEIN ES25 9986
56 4UJE 30 BZ 40S RIBOSOMAL PROTEIN S25 9986
57 4V6X 19 AZ 40S ribosomal protein S25 9606