Sequence Similarity Clusters for the Entities in PDB 6J4W

Entity #1 | Chains: A
DNA-directed RNA polymerase subunit protein, length: 1743 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 5 19 2721
95 % 5 19 3417
90 % 5 19 3482
70 % 119 150 329
50 % 120 152 385
40 % 120 152 403
30 % 120 152 417
Entity #10 | Chains: J
RNA polymerase subunit ABC10-beta protein, length: 72 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 5 19 2772
95 % 5 19 3477
90 % 5 19 3542
70 % 125 210 200
50 % 125 210 222
40 % 125 210 238
30 % 125 210 254
Entity #11 | Chains: K
RNA polymerase II subunit B12.5 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 5 19 2771
95 % 5 19 3476
90 % 5 19 3541
70 % 5 19 3528
50 % 119 152 389
40 % 120 154 397
30 % 120 154 411
Entity #12 | Chains: L
RNA polymerase subunit ABC10-alpha protein, length: 72 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 2 16 4066
95 % 5 19 3450
90 % 5 19 3516
70 % 5 19 3499
50 % 122 191 254
40 % 122 191 268
30 % 122 191 284
Entity #13 | Chains: P
RNA (5'-R(P*GP*UP*GP*UP*UP*UP*GP*GP*GP*UP*GP*GP*UP*GP*GP*C)-3') rna, length: 16 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #14 | Chains: T
DNA (198-MER) dna, length: 198 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #15 | Chains: N
DNA (198-MER) dna, length: 198 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #16 | Chains: M
Transcription elongation factor 1 homolog protein, length: 113 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 5 18723
95 % 1 5 17452
90 % 1 5 17151
70 % 1 5 16018
50 % 1 5 14429
40 % 1 5 13409
30 % 1 5 12191
Entity #17 | Chains: V
Transcription elongation factor SPT4 protein, length: 108 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 8 11030
95 % 1 8 11122
90 % 1 8 11027
70 % 1 8 10551
50 % 1 8 9701
40 % 1 8 9183
30 % 1 8 8505
Entity #18 | Chains: W
Spt5 protein, length: 911 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 7 12537
95 % 1 7 12476
90 % 1 7 12336
70 % 1 7 10978
50 % 1 7 10121
40 % 1 7 9477
30 % 1 7 9349
Entity #19 | Chains: a,e
Histone H3.3 protein, length: 139 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 9 22 1146
95 % 170 206 66
90 % 176 214 65
70 % 179 217 74
50 % 182 221 93
40 % 182 221 112
30 % 182 221 118
Entity #2 | Chains: B
DNA-directed RNA polymerase subunit beta protein, length: 1227 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 5 19 2784
95 % 5 19 3352
90 % 5 19 3553
70 % 120 154 319
50 % 120 167 344
40 % 128 175 315
30 % 128 190 285
Entity #20 | Chains: b,f
Histone H4 protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 163 203 44
95 % 182 223 58
90 % 189 232 62
70 % 190 233 68
50 % 190 233 91
40 % 190 233 108
30 % 190 233 113
Entity #21 | Chains: c,g
Histone H2A type 1-B/E protein, length: 133 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 63 80 187
95 % 160 207 62
90 % 154 196 76
70 % 157 200 82
50 % 159 202 103
40 % 159 202 124
30 % 159 202 133
Entity #22 | Chains: d,h
Histone H2B type 1-J protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 76 193
95 % 119 142 124
90 % 157 200 75
70 % 165 209 76
50 % 169 215 97
40 % 169 215 117
30 % 169 215 126
Entity #3 | Chains: C
RNA polymerase II third largest subunit B44, part of central core protein, length: 304 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 5 19 2783
95 % 5 19 3486
90 % 5 19 3552
70 % 5 19 3536
50 % 5 19 3485
40 % 5 19 3476
30 % 5 19 3399
Entity #4 | Chains: D
RNA polymerase II subunit B32 protein, length: 186 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 5 19 2743
95 % 5 19 3443
90 % 5 19 3518
70 % 5 19 3503
50 % 5 19 3454
40 % 6 21 3184
30 % 6 21 3122
Entity #5 | Chains: E
RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III protein, length: 214 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 5 19 2671
95 % 5 19 3374
90 % 5 19 3416
70 % 125 196 236
50 % 126 198 240
40 % 126 211 236
30 % 126 211 251
Entity #6 | Chains: F
RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 5 19 2685
95 % 5 19 3350
90 % 5 19 3415
70 % 5 19 3403
50 % 123 192 250
40 % 123 192 261
30 % 123 192 280
Entity #7 | Chains: G
RNA polymerase II subunit protein, length: 171 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 5 19 2702
95 % 5 19 3394
90 % 5 19 3464
70 % 5 19 3446
50 % 62 108 489
40 % 62 108 526
30 % 62 108 549
Entity #8 | Chains: H
DNA-directed RNA polymerases I, II, and III subunit RPABC3 protein, length: 145 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 5 19 2746
95 % 5 19 3471
90 % 5 19 3535
70 % 5 19 3523
50 % 124 196 246
40 % 124 196 257
30 % 124 210 255
Entity #9 | Chains: I
DNA-directed RNA polymerase subunit protein, length: 115 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 5 19 2687
95 % 5 19 3378
90 % 5 19 3444
70 % 118 151 326
50 % 119 153 382
40 % 119 153 401
30 % 119 168 376

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