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 % 17 115 226
95 % 17 115 318 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 1.6
PDBFlex
90 % 17 115 335
70 % 18 120 352
50 % 18 131 363
40 % 18 131 387
30 % 18 131 395
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 % 19 142 173
95 % 19 142 233 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 19 142 248
70 % 20 158 251
50 % 20 166 247
40 % 20 166 264
30 % 20 166 271
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 % 17 117 221
95 % 17 117 311 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 17 117 328
70 % 17 117 365
50 % 18 122 410
40 % 18 124 426
30 % 18 124 427
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 % 18 138 180
95 % 18 138 242 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 18 138 256
70 % 18 138 286
50 % 19 143 309
40 % 19 143 321
30 % 19 143 334
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 28095
95 % 1 3 23310 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.5
PDBFlex
90 % 1 3 22555
70 % 1 3 20626
50 % 1 3 17889
40 % 1 3 15946
30 % 1 3 13637
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
100 % 17 116 223
95 % 17 117 308
90 % 17 117 324
70 % 18 124 332
50 % 18 133 349
40 % 18 141 322
30 % 18 144 328
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 % 16 112 230
95 % 16 112 322 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 16 112 341
70 % 16 112 376
50 % 16 114 437
40 % 16 114 465
30 % 16 114 467
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 % 8 61 562
95 % 8 61 780 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.7
PDBFlex
90 % 8 61 808
70 % 8 62 832
50 % 9 69 749
40 % 9 69 778
30 % 9 69 773
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 % 20 143 170
95 % 20 143 231 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 20 143 246
70 % 21 148 268
50 % 21 150 289
40 % 21 159 285
30 % 21 159 293
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 % 18 137 183
95 % 18 137 245 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 18 137 259
70 % 18 137 290
50 % 19 154 281
40 % 19 154 297
30 % 19 154 308
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 % 9 64 514
95 % 9 64 706 Flexibility: Low
Max RMSD: 4.4, Avg RMSD: 0.6
PDBFlex
90 % 9 64 735
70 % 9 64 788
50 % 11 81 569
40 % 11 81 609
30 % 11 81 604
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 63749
95 % 19 143 232 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.9
PDBFlex
90 % 19 143 247
70 % 19 143 277
50 % 20 148 293
40 % 20 148 307
30 % 20 160 292
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 % 17 116 225
95 % 17 116 317 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 17 116 334
70 % 18 121 351
50 % 18 123 402
40 % 18 123 431
30 % 18 126 420

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 3 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
2 3S14 3 C DNA-directed RNA polymerase II subunit RPB3 4932
3 3CQZ 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
4 3PO2 3 C DNA-directed RNA polymerase II subunit RPB3 4932 2.7.7.6 | Details
5 3RZO 3 C DNA-directed RNA polymerase II subunit RPB3 4932
6 3PO3 3 C DNA-directed RNA polymerase II subunit RPB3 4932 2.7.7.6 | Details
7 3S1M 3 C DNA-directed RNA polymerase II subunit RPB3 4932
8 4A3E 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
9 3S1R 3 C DNA-directed RNA polymerase II subunit RPB3 4932
10 4A3D 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
11 3S1N 3 C DNA-directed RNA polymerase II subunit RPB3 4932
12 4A3F 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
13 4A93 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
14 1K83 3 C DNA-DIRECTED RNA POLYMERASE II 45KD POLYPEPTIDE 4932 2.7.7.6 | Details
15 1I50 3 C DNA-DIRECTED RNA POLYMERASE II 45KD POLYPEPTIDE 4932 2.7.7.6 | Details
16 4BY7 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
17 3S2D 3 C DNA-directed RNA polymerase II subunit RPB3 4932
18 4A3C 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
19 4A3K 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
20 3S15 3 C DNA-directed RNA polymerase II subunit RPB3 4932
21 4A3L 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
22 4BXX 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
23 3S1Q 3 C DNA-directed RNA polymerase II subunit RPB3 4932
24 3S16 3 C DNA-directed RNA polymerase II subunit RPB3 4932
25 3S17 3 C DNA-directed RNA polymerase II subunit RPB3 4932
26 4A3G 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
27 4A3B 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
28 4BBR 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
29 2NVQ 6 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
30 3RZD 3 C DNA-directed RNA polymerase II subunit RPB3 4932
31 4A3J 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
32 3S2H 3 C DNA-directed RNA polymerase II subunit RPB3 4932
33 3M3Y 3 C DNA-directed RNA polymerase II subunit RPB3 4932
34 4A3I 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
35 4BY1 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
36 4A3M 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
37 4Y7N 3 C DNA-directed RNA polymerase II subunit RPB3 4932
38 1I3Q 3 C DNA-DIRECTED RNA POLYMERASE II 45KD POLYPEPTIDE 4932 2.7.7.6 | Details
39 4BBS 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
40 1TWC 3 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
41 4Y52 3 C DNA-directed RNA polymerase II subunit RPB3 4932
42 3HOU 3 C, O DNA-directed RNA polymerase II subunit RPB3 4932 2.7.7.6 | Details
43 3HOY 3 C DNA-directed RNA polymerase II subunit RPB3 4932 2.7.7.6 | Details
44 3HOV 3 C DNA-directed RNA polymerase II subunit RPB3 4932 2.7.7.6 | Details
45 1TWA 3 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
46 5C3E 3 C DNA-directed RNA polymerase II subunit RPB3 4932
47 2NVT 6 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
48 3HOZ 3 C DNA-directed RNA polymerase II subunit RPB3 4932 2.7.7.6 | Details
49 3HOW 3 C DNA-directed RNA polymerase II subunit RPB3 4932 2.7.7.6 | Details
50 3HOX 3 C DNA-directed RNA polymerase II subunit RPB3 4932 2.7.7.6 | Details
51 1I6H 5 C DNA-DIRECTED RNA POLYMERASE II 45KD POLYPEPTIDE 4932 2.7.7.6 | Details
52 2R92 5 C DNA-directed RNA polymerase II subunit RPB3 4932 2.7.7.6 | Details
53 2R7Z 6 C DNA-directed RNA polymerase II subunit RPB3 4932 2.7.7.6 | Details
54 1R9T 6 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
55 3I4M 3 C DNA-directed RNA polymerase II subunit RPB3 4932
56 3H3V 3 D DNA-directed RNA polymerase II subunit RPB3 4932 2.7.7.6 | Details
57 5U5Q 3 C DNA-directed RNA polymerase II subunit RPB3 4932
58 1TWH 3 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
59 2NVY 3 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
60 2E2J 6 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
61 5C4X 3 C DNA-directed RNA polymerase II subunit RPB3 4932
62 2VUM 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932 2.7.7.6 | Details
63 5C44 3 C DNA-directed RNA polymerase II subunit RPB3 4932
64 3M4O 3 C DNA-directed RNA polymerase II subunit RPB3 4932
65 5C4J 3 C DNA-directed RNA polymerase II subunit RPB3 4932
66 2R93 4 C DNA-directed RNA polymerase II subunit RPB3 4932 2.7.7.6 | Details
67 1TWG 3 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
68 3GTM 3 C DNA-directed RNA polymerase II subunit RPB3 DNA-directed RNA polymerase II 45 kDa polypeptide 4932
69 3I4N 3 C DNA-directed RNA polymerase II subunit RPB3 4932
70 2E2I 6 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
71 3GTL 3 C DNA-directed RNA polymerase II subunit RPB3 DNA-directed RNA polymerase II 45 kDa polypeptide 4932
72 4BXZ 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932 2.7.7.6 | Details
73 3GTK 3 C DNA-directed RNA polymerase II subunit RPB3 DNA-directed RNA polymerase II 45 kDa polypeptide 4932
74 5C4A 3 C DNA-directed RNA polymerase II subunit RPB3 4932
75 3K1F 3 C DNA-directed RNA polymerase II subunit RPB3 4932 2.7.7.6 | Details
76 3GTJ 3 C DNA-directed RNA polymerase II subunit RPB3 DNA-directed RNA polymerase II 45 kDa polypeptide 4932
77 3GTG 3 C DNA-directed RNA polymerase II subunit RPB3 DNA-directed RNA polymerase II 45 kDa polypeptide 4932
78 2YU9 6 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
79 1WCM 3 C DNA-DIRECTED RNA POLYMERASE II 45 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
80 2JA7 6 C, O DNA-DIRECTED RNA POLYMERASE II 45KDA POLYPEPTIDE 4932 2.7.7.6 | Details
81 4X6A 3 C DNA-directed RNA polymerase II subunit RPB3 4932
82 4X67 3 C DNA-directed RNA polymerase II subunit RPB3 4932
83 1Y1W 6 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
84 3QT1 3 C DNA-directed RNA polymerase II subunit RPB3 4932 2.7.7.6 | Details
85 3K7A 3 C DNA-directed RNA polymerase II subunit RPB3 4932
86 2JA8 3 C DNA-DIRECTED RNA POLYMERASE II 45KDA POLYPEPTIDE 4932 2.7.7.6 | Details
87 2JA5 3 C DNA-directed RNA polymerase II subunit RPB3 4932
88 2NVX 6 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
89 2B63 4 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
90 3GTQ 3 C DNA-directed RNA polymerase II subunit RPB3 DNA-directed RNA polymerase II 45 kDa polypeptide 4932
91 3GTP 3 C DNA-directed RNA polymerase II subunit RPB3 DNA-directed RNA polymerase II 45 kDa polypeptide 4932
92 1Y1V 3 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
93 3GTO 3 C DNA-directed RNA polymerase II subunit RPB3 DNA-directed RNA polymerase II 45 kDa polypeptide 4932
94 3FKI 3 C DNA-directed RNA polymerase II subunit RPB3 4932
95 1Y1Y 5 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
96 1SFO 5 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
97 2E2H 6 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
98 2JA6 3 C DNA-DIRECTED RNA POLYMERASE II 45KDA POLYPEPTIDE 4932 2.7.7.6 | Details
99 2NVZ 6 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
100 1Y77 6 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
101 1NIK 3 C DNA-directed RNA polymerase II, chain RPB3 4932 2.7.7.6 | Details
102 1R9S 5 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
103 1R5U 3 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
104 2B8K 3 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
105 5SVA 3 C DNA-directed RNA polymerase II subunit RPB3 4932
106 5FYW 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
107 5FZ5 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
108 4V1M 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
109 4V1N 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
110 4V1O 3 C DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 4932
111 1PQV 3 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details
112 1NT9 3 C DNA-directed RNA polymerase II 45 kDa polypeptide 4932 2.7.7.6 | Details