Sequence Similarity Clusters for the Entities in PDB 4BY7

Entity #1 | Chains: A
DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 protein, length: 1733 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 18 118 229
95 % 18 118 318 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.6
PDBFlex
90 % 18 118 335
70 % 19 123 358
50 % 19 135 363
40 % 19 135 385
30 % 19 135 386
Entity #10 | Chains: J
DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 5 protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 20 145 178
95 % 20 145 239 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 20 145 254
70 % 21 162 251
50 % 21 170 246
40 % 21 170 267
30 % 21 170 271
Entity #11 | Chains: K
DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 protein, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 18 120 224
95 % 18 120 314 Flexibility: No
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 18 120 330
70 % 18 120 372
50 % 19 125 412
40 % 19 127 422
30 % 19 127 430
Entity #12 | Chains: L
DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 4 protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 19 141 183
95 % 19 141 243 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 19 141 260
70 % 19 141 293
50 % 20 146 312
40 % 20 146 327
30 % 20 146 339
Entity #13 | Chains: N
, 5'-D(*DAP*AP*AP*GP*TP*AP*CP*TP*TP*GP*AP*GP*CP*DTP)-3' dna, length: 14 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #14 | Chains: P
5'-R(*UP*UP*CP*GP*AP*CP*CP*AP*GP*GP*AP)-3' rna, length: 11 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #15 | Chains: T
5'-D(*DAP*GP*CP*TP*CP*AP*AP*GP*TP*AP*CP*TP*TP*DAP *TP*TP*CP*CP*BP*GP*GP*TP*CP*AP*TP*T)-3' dna, length: 26 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #16 | Chains: X
TRANSCRIPTION FACTOR BYE1 protein, length: 146 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 3 28824
95 % 1 3 23926 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.5
PDBFlex
90 % 1 3 23143
70 % 1 3 21089
50 % 1 3 18252
40 % 1 3 16265
30 % 1 3 13908
Entity #2 | Chains: B
DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 protein, length: 1224 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 18 119 225
95 % 18 120 312 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.3
PDBFlex
90 % 18 120 327
70 % 19 127 332
50 % 19 137 351
40 % 19 145 325
30 % 19 148 329
Entity #3 | Chains: C
DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 protein, length: 318 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 17 115 233
95 % 17 115 329 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 17 115 348
70 % 17 115 382
50 % 17 117 443
40 % 17 117 472
30 % 17 117 468
Entity #4 | Chains: D
DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 protein, length: 221 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 9 64 542
95 % 9 64 735 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.7
PDBFlex
90 % 9 64 766
70 % 9 65 807
50 % 10 72 728
40 % 10 72 763
30 % 10 72 756
Entity #5 | Chains: E
DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 1 protein, length: 215 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 21 146 176
95 % 21 146 236 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 21 146 250
70 % 22 151 276
50 % 22 153 291
40 % 22 163 288
30 % 22 163 295
Entity #6 | Chains: F
DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 2 protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 19 140 184
95 % 19 140 245 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 19 140 261
70 % 19 140 294
50 % 20 158 277
40 % 20 158 293
30 % 20 158 301
Entity #7 | Chains: G
DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 protein, length: 171 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 67 488
95 % 10 67 676 Flexibility: Low
Max RMSD: 4.2, Avg RMSD: 0.7
PDBFlex
90 % 10 67 703
70 % 10 67 758
50 % 12 85 560
40 % 12 85 598
30 % 12 85 591
Entity #8 | Chains: H
DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 protein, length: 146 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 1 65239
95 % 20 146 237 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 20 146 251
70 % 20 146 284
50 % 21 151 301
40 % 21 151 313
30 % 21 164 292
Entity #9 | Chains: I
DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 protein, length: 122 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 18 119 228
95 % 18 119 316 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 18 119 333
70 % 19 124 356
50 % 19 126 402
40 % 19 126 429
30 % 19 129 421

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.


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 1TWF 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
2 3S14 9 K DNA-directed RNA polymerase II subunit RPB11 4932
3 3CQZ 9 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
4 3PO2 11 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
5 3RZO 9 K DNA-directed RNA polymerase II subunit RPB11 4932
6 3PO3 11 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
7 5XOG 11 K RNA polymerase II subunit B12.5 460519
8 3S1M 9 K DNA-directed RNA polymerase II subunit RPB11 4932
9 4A3E 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
10 5OT2 11 K DNA-directed RNA polymerase II subunit RPB11 4932
11 3S1R 9 K DNA-directed RNA polymerase II subunit RPB11 4932
12 4A3D 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
13 3S1N 9 K DNA-directed RNA polymerase II subunit RPB11 4932
14 5IP7 11 K DNA-directed RNA polymerase II subunit RPB11 4932
15 4A3F 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
16 4A93 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
17 1K83 9 K DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE 4932 2.7.7.6 | Details
18 1I50 9 K DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE 4932 2.7.7.6 | Details
19 4BY7 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
20 3S2D 9 K DNA-directed RNA polymerase II subunit RPB11 4932
21 4A3C 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
22 4A3K 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
23 3S15 9 K DNA-directed RNA polymerase II subunit RPB11 4932
24 4A3L 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
25 4BXX 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
26 3S1Q 9 K DNA-directed RNA polymerase II subunit RPB11 4932
27 3S16 9 K DNA-directed RNA polymerase II subunit RPB11 4932
28 3S17 9 K DNA-directed RNA polymerase II subunit RPB11 4932
29 4A3G 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
30 4A3B 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
31 4BBR 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
32 2NVQ 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
33 3RZD 9 K DNA-directed RNA polymerase II subunit RPB11 4932
34 4A3J 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
35 3S2H 9 K DNA-directed RNA polymerase II subunit RPB11 4932
36 3M3Y 9 K DNA-directed RNA polymerase II subunit RPB11 4932
37 4A3I 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
38 4BY1 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
39 4A3M 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
40 4Y7N 9 K DNA-directed RNA polymerase II subunit RPB11 4932
41 5IP9 11 K DNA-directed RNA polymerase II subunit RPB11 4932
42 1I3Q 9 K DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE 4932 2.7.7.6 | Details
43 4BBS 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
44 1TWC 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
45 4Y52 9 K DNA-directed RNA polymerase II subunit RPB11 4932
46 3HOU 11 K, W DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
47 3HOY 11 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
48 3HOV 11 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
49 1TWA 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
50 5C3E 11 K DNA-directed RNA polymerase II subunit RPB11 4932
51 2NVT 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
52 3HOZ 11 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
53 3HOW 11 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
54 3HOX 11 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
55 1I6H 11 K DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE 4932 2.7.7.6 | Details
56 2R92 13 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
57 2R7Z 14 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
58 1R9T 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
59 3I4M 11 K DNA-directed RNA polymerase II subunit RPB11 4932
60 3H3V 11 L DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
61 5U5Q 11 K DNA-directed RNA polymerase II subunit RPB11 4932
62 1TWH 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
63 2NVY 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
64 2E2J 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
65 5C4X 11 K DNA-directed RNA polymerase II subunit RPB11 4932
66 2VUM 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932 2.7.7.6 | Details
67 5C44 11 K DNA-directed RNA polymerase II subunit RPB11 4932
68 3M4O 9 K DNA-directed RNA polymerase II subunit RPB11 4932
69 5C4J 9 K DNA-directed RNA polymerase II subunit RPB11 4932
70 2R93 12 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
71 1TWG 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
72 3GTM 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932
73 3I4N 11 K DNA-directed RNA polymerase II subunit RPB11 4932
74 2E2I 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
75 3GTL 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932
76 4BXZ 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932 2.7.7.6 | Details
77 3GTK 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932
78 5C4A 11 K DNA-directed RNA polymerase II subunit RPB11 4932
79 3K1F 11 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
80 3GTJ 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932
81 3GTG 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932
82 2YU9 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
83 1WCM 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
84 2JA7 14 K, W DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
85 4X6A 9 K DNA-directed RNA polymerase II subunit RPB11 4932
86 4X67 9 K DNA-directed RNA polymerase II subunit RPB11 4932
87 1Y1W 14 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
88 3QT1 11 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
89 3K7A 9 K DNA-directed RNA polymerase II subunit RPB11 4932
90 5X50 11 K RNA polymerase II subunit B12.5 460519
91 2JA8 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
92 2JA5 11 K DNA-directed RNA polymerase II subunit RPB11 4932
93 2NVX 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
94 2B63 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
95 3GTQ 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932
96 3GTP 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932
97 1Y1V 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
98 3GTO 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932
99 3H0G 11 K, W DNA-directed RNA polymerase II subunit RPB11 4896
100 3FKI 11 K DNA-directed RNA polymerase II subunit RPB11 4932
101 1Y1Y 13 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
102 1SFO 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
103 2E2H 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
104 2JA6 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
105 2NVZ 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
106 1Y77 14 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
107 1NIK 11 K DNA-directed RNA polymerase II, chain RPB11 4932 2.7.7.6 | Details
108 1R9S 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
109 1R5U 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
110 2B8K 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
111 5X51 11 K, W RNA polymerase II subunit B12.5 460519
112 5X4Z 11 K, W RNA polymerase II subunit B12.5 460519
113 5XON 11 K RNA polymerase II subunit B12.5 460519
114 5VVS 11 K DNA-directed RNA polymerase II subunit RPB11 4932
115 5VVR 11 K DNA-directed RNA polymerase II subunit RPB11 4932
116 5U0S 27 k RNA polymerase II subunit Rpb11 4896
117 5SVA 11 K DNA-directed RNA polymerase II subunit RPB11 4932
118 5FYW 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
119 5FZ5 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
120 5FMF 13 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
121 4V1M 9 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
122 4V1N 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 2.7.7.6 4932
123 4V1O 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 2.7.7.6 4932
124 3J1N 11 K DNA-directed RNA polymerase II subunit RPB11 4932
125 3J0K 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 9606 2.7.7.6 | Details
126 1PQV 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
127 1NT9 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 KD POLYPEPTIDE 4932 2.7.7.6 | Details