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 1077
95 % 1 85 689
90 % 1 85 721
70 % 1 85 752
50 % 39 174 306
40 % 39 174 317
30 % 41 177 324
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 1801
95 % 1 40 1559
90 % 1 52 1235
70 % 1 53 1248
50 % 1 56 1221
40 % 1 56 1259
30 % 1 56 1291
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 84 525
95 % 1 85 683
90 % 1 85 710
70 % 1 91 691
50 % 39 182 294
40 % 39 187 288
30 % 39 187 307
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 85 513
95 % 1 85 699
90 % 1 85 730
70 % 39 185 250
50 % 41 200 233
40 % 41 208 233
30 % 41 208 246
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 64 706
95 % 1 77 772
90 % 1 77 805
70 % 1 82 773
50 % 1 83 806
40 % 1 83 833
30 % 1 83 872
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 85 514
95 % 1 85 701
90 % 1 85 732
70 % 39 194 240
50 % 41 197 243
40 % 41 205 237
30 % 41 206 249
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 73 608
95 % 1 73 818
90 % 1 81 762
70 % 41 198 224
50 % 41 199 237
40 % 41 199 247
30 % 41 199 260
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 86 505
95 % 1 86 673
90 % 1 86 698
70 % 40 201 232
50 % 43 212 221
40 % 43 214 227
30 % 43 214 238
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 77 577
95 % 1 85 687
90 % 1 85 718
70 % 1 86 740
50 % 38 192 263
40 % 38 192 276
30 % 38 192 291
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 57 802
95 % 1 57 1082
90 % 1 57 1122
70 % 1 58 1146
50 % 1 58 1187
40 % 1 59 1206
30 % 1 59 1240
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 85 509
95 % 1 85 682
90 % 1 85 709
70 % 38 175 270
50 % 40 187 264
40 % 40 187 277
30 % 40 187 293
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 54 886
95 % 1 56 1097
90 % 1 56 1138
70 % 1 57 1165
50 % 1 59 1156
40 % 1 59 1191
30 % 1 59 1232
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 13960
95 % 1 4 10302
90 % 1 31 2054
70 % 1 31 2129
50 % 1 32 2055
40 % 1 32 2093
30 % 1 32 2122
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 1869
95 % 1 54 1158
90 % 1 54 1197
70 % 1 54 1226
50 % 1 54 1271
40 % 1 54 1309
30 % 1 54 1346
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 51 920
95 % 1 58 1067
90 % 1 58 1106
70 % 1 58 1141
50 % 1 60 1149
40 % 40 161 337
30 % 40 161 355
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 1153
95 % 1 73 820
90 % 1 73 850
70 % 1 74 871
50 % 40 168 322
40 % 40 168 334
30 % 40 168 349
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 54 878
95 % 1 73 810
90 % 1 85 712
70 % 38 181 260
50 % 40 191 252
40 % 40 195 258
30 % 40 204 254
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 86 498
95 % 1 86 675
90 % 1 86 701
70 % 1 101 614
50 % 41 201 232
40 % 41 201 244
30 % 41 201 258
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 84 523
95 % 1 85 696
90 % 1 85 711
70 % 1 86 739
50 % 38 188 270
40 % 38 188 284
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 77 573
95 % 1 85 685
90 % 1 85 713
70 % 1 85 743
50 % 40 190 256
40 % 40 194 260
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 51 928
95 % 1 53 1167
90 % 1 53 1205
70 % 1 53 1239
50 % 1 54 1264
40 % 1 55 1278
30 % 1 55 1323
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 65 700
95 % 1 84 707
90 % 1 84 739
70 % 1 85 745
50 % 38 171 316
40 % 38 171 328
30 % 38 171 345
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 86 679
90 % 1 86 704
70 % 1 87 725
50 % 41 197 242
40 % 41 197 253
30 % 41 197 266
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 1547
95 % 1 84 705
90 % 1 84 737
70 % 1 86 735
50 % 40 179 298
40 % 40 187 286
30 % 40 187 305
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 76 582
95 % 1 76 782
90 % 1 76 814
70 % 1 79 809
50 % 41 190 251
40 % 41 198 251
30 % 41 199 262
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 55 864
95 % 1 85 693
90 % 1 85 723
70 % 1 86 738
50 % 40 176 301
40 % 40 176 310
30 % 40 176 331
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 86 502
95 % 1 86 672
90 % 1 86 697
70 % 39 183 254
50 % 41 192 248
40 % 41 202 241
30 % 41 202 255
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 78 569
95 % 1 81 732
90 % 1 81 767
70 % 38 162 285
50 % 38 162 335
40 % 38 162 348
30 % 38 162 365
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 12954
95 % 4 4 4254
90 % 4 4 4305
70 % 4 4 4285
50 % 4 4 4192
40 % 4 4 4127
30 % 4 4 4028
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 5346
95 % 3 3 6433
90 % 3 3 6426
70 % 3 3 6290
50 % 3 3 6048
40 % 3 3 5874
30 % 3 3 5610
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 84 522
95 % 1 88 658
90 % 1 89 680
70 % 41 204 214
50 % 41 214 219
40 % 41 214 228
30 % 41 214 239
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 1339
95 % 1 49 1274
90 % 1 49 1319
70 % 1 50 1319
50 % 3 81 776
40 % 5 83 751
30 % 5 83 785
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 67 673
95 % 1 67 907
90 % 1 67 939
70 % 39 191 246
50 % 41 202 229
40 % 41 203 240
30 % 41 203 253
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 79 554
95 % 1 83 718
90 % 1 83 749
70 % 39 168 279
50 % 39 177 302
40 % 39 177 311
30 % 39 177 332
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 12242
95 % 1 50 1265
90 % 1 50 1299
70 % 4 82 720
50 % 6 86 725
40 % 6 89 727
30 % 6 89 752
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 85 492
95 % 2 85 659
90 % 2 85 690
70 % 3 87 708
50 % 46 176 278
40 % 46 180 282
30 % 48 183 282

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 24 D1, D2, D3, D4, D5, D6 40S ribosomal protein S3 9606 4.2.99.18 | Details
2 4KZZ 4 D 40S Ribosomal Protein S3 9986
3 4KZX 4 D 40S ribosomal protein S3 9986
4 4KZY 4 D 40S Ribosomal Protein S3 9986
5 6YAL 6 F 40S Ribosomal protein uS3 9986
6 6YAM 6 F 40S ribosomal protein uS3 9986
7 6YAN 5 F Ribosomal protein S3 9986
8 6Y57 53 SD 40S ribosomal protein S3 9606 4.2.99.18 | Details
9 6Y2L 53 SD 40S ribosomal protein S3 9606 4.2.99.18 | Details
10 6Y0G 53 SD 40S ribosomal protein S3 9606 4.2.99.18 | Details
11 6SGC 5 E1 uS5 9986
12 6OM7 4 SD 40S ribosomal protein S3 9606 4.2.99.18 | Details
13 6OLZ 50 BD 40S ribosomal protein S3 9606 4.2.99.18 | Details
14 6OM0 4 SD 40S ribosomal protein S3 9606 4.2.99.18 | Details
15 6OLE 4 SD 40S ribosomal protein S3 9606 4.2.99.18 | Details
16 6OLF 4 SD 40S ribosomal protein S3 9606 4.2.99.18 | Details
17 6OLG 53 BD 40S ribosomal protein S3 9606 4.2.99.18 | Details
18 6OLI 4 SD 40S ribosomal protein S3 9606 4.2.99.18 | Details
19 6R7Q 78 w Ribosomal protein S3 9986
20 6R6G 82 w Ribosomal protein S3 9986
21 6R6P 72 DD Ribosomal protein S3 9986
22 6R5Q 55 w Ribosomal protein S3 9986
23 6QZP 51 SD 40S ribosomal protein S3 9606 4.2.99.18 | Details
24 6IP5 50 2p 40S ribosomal protein S3 9606 4.2.99.18 | Details
25 6IP6 49 2p 40S ribosomal protein S3 9606 4.2.99.18 | Details
26 6IP8 49 2p 40S ribosomal protein S3 9606 4.2.99.18 | Details
27 6MTB 54 DD 40S ribosomal protein S3 9986
28 6MTC 53 DD 40S ribosomal protein S3 9986
29 6MTD 55 DD uS3 9986 4.2.99.18 | Details
30 6MTE 54 DD uS3 9986 4.2.99.18 | Details
31 6HCQ 8 E2 uS3 9986
32 6HCJ 8 E2 uS3 9986
33 6HCM 5 E1 uS3 9986
34 6HCF 5 E1 uS3 9986
35 6GZ3 6 BD ribosomal protein uS3 9986
36 6GZ4 12 BD ribosomal protein uS3 9986
37 6GZ5 6 BD ribosomal protein uS3 9986
38 6G5H 22 D 40S ribosomal protein S3 9606 4.2.99.18 | Details
39 6G5I 5 D 40S ribosomal protein S3 9606 4.2.99.18 | Details
40 6G51 26 D 40S ribosomal protein S3 9606 4.2.99.18 | Details
41 6G53 25 D 40S ribosomal protein S3 9606 4.2.99.18 | Details
42 6FEC 35 g 40S ribosomal protein S3 9606 4.2.99.18 | Details
43 6EK0 51 SD 40S ribosomal protein S3 9606 4.2.99.18 | Details
44 5OA3 8 D 40S ribosomal protein S3 9606 4.2.99.18 | Details
45 5LZS 54 DD uS4 9986
46 5LZT 55 DD uS3 9986
47 5LZU 54 DD uS3 9986
48 5LZV 55 DD uS3 9986
49 5LZW 55 DD uS3 9986
50 5LZX 55 DD uS3 9986
51 5LZY 53 DD uS3 9986
52 5LZZ 55 DD uS3 9986
53 5T2C 64 Aq 40S ribosomal protein S3 9606 4.2.99.18 | Details
54 5LKS 50 SD 40S ribosomal protein S3 9606 4.2.99.18 | Details
55 5K0Y 29 g ribosomal protein uS3 9986
56 5FLX 5 D 40S RIBOSOMAL PROTEIN S3 9986 4.2.99.18 | Details
57 3JAN 72 SD Ribosomal protein uS3 SEE REMARK 999 9986
58 3JAJ 73 SD Ribosomal protein uS3 SEE REMARK 999 9986
59 3JAG 55 DD uS3 9986
60 3JAH 55 DD uS3 9986
61 3JAI 55 DD uS3 9986
62 5A2Q 6 D RIBOSOMAL PROTEIN US3 9606 4.2.99.18 | Details
63 4UG0 51 SD 40S RIBOSOMAL PROTEIN S3 9606 4.2.99.18 | Details
64 5AJ0 53 BD 40S ribosomal protein S3 9606 4.2.99.18 | Details
65 4D61 5 D 40S RIBOSOMAL PROTEIN S3 9986
66 4D5L 5 D 40S RIBOSOMAL PROTEIN US14 9986
67 3J7P 53 SD Ribosomal protein uS3 9823 4.2.99.18 | Details
68 3J7R 54 SD Ribosomal protein uS3 9823 4.2.99.18 | Details
69 4UJC 54 CD 40S RIBOSOMAL PROTEIN US3 9986
70 4UJD 54 CD 40S RIBOSOMAL PROTEIN US3 9986
71 4UJE 8 BD 40S RIBOSOMAL PROTEIN S3 9986
72 4V6X 23 AD 40S ribosomal protein S3 9606 4.2.99.18 | Details
73 4V5Z 11 Ac 40S Ribosomal protein S3e 9612