Sequence Similarity Clusters for the Entities in PDB 1NIK

Entity #1 | Chains: A
RPB1 protein, length: 1733 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 104 118 229
95 % 104 118 318 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.6
PDBFlex
90 % 104 118 335
70 % 106 123 358
50 % 107 135 363
40 % 107 135 385
30 % 107 135 386
Entity #10 | Chains: J
DNA-directed RNA polymerase II, chain RPB10 protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 109 145 178
95 % 109 145 239 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 109 145 254
70 % 112 162 251
50 % 120 170 246
40 % 120 170 267
30 % 120 170 271
Entity #11 | Chains: K
DNA-directed RNA polymerase II, chain RPB11 protein, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 104 120 224
95 % 104 120 314 Flexibility: No
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 104 120 330
70 % 104 120 372
50 % 106 125 412
40 % 107 127 422
30 % 107 127 430
Entity #12 | Chains: L
DNA-directed RNA polymerase II, chain RPB12 protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 107 141 183
95 % 107 141 243 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 107 141 260
70 % 107 141 293
50 % 109 146 312
40 % 109 146 327
30 % 109 146 339
Entity #2 | Chains: B
ORF YOR151c protein, length: 1224 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 103 119 225
95 % 104 120 312 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.3
PDBFlex
90 % 104 120 327
70 % 107 127 332
50 % 107 137 351
40 % 115 145 325
30 % 115 148 329
Entity #3 | Chains: C
DNA-directed RNA polymerase II, chain RPB3 protein, length: 318 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 102 115 233
95 % 102 115 329 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 102 115 348
70 % 102 115 382
50 % 103 117 443
40 % 103 117 472
30 % 103 117 468
Entity #4 | Chains: D
DNA-directed RNA polymerase II, chain RPB4 protein, length: 161 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #5 | Chains: E
DNA-directed RNA polymerase II, chain RPB5 protein, length: 215 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 110 146 176
95 % 110 146 236 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 110 146 250
70 % 112 151 276
50 % 113 153 291
40 % 113 163 288
30 % 113 163 295
Entity #6 | Chains: F
DNA-directed RNA polymerase I, II and III 23 kDa polypeptide protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 107 140 184
95 % 107 140 245
90 % 107 140 261
70 % 107 140 294
50 % 110 158 277
40 % 110 158 293
30 % 110 158 301
Entity #7 | Chains: G
DNA-directed RNA polymerase II, chain RPB7 protein, length: 170 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #8 | Chains: H
DNA-directed RNA polymerase subunit RPB8 protein, length: 146 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 108 145 177
95 % 109 146 237 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 109 146 251
70 % 109 146 284
50 % 111 151 301
40 % 111 151 313
30 % 112 164 292
Entity #9 | Chains: I
DNA-directed RNA polymerase II, chain RPB9 protein, length: 122 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 103 119 228
95 % 103 119 316 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 103 119 333
70 % 105 124 356
50 % 106 126 402
40 % 106 126 429
30 % 106 129 421

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.