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 % 17 115 317 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 1.7
PDBFlex
90 % 17 115 334
70 % 17 118 356
50 % 17 129 371
40 % 17 129 398
30 % 17 129 405
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 % 19 141 175
95 % 19 141 234 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 19 141 250
70 % 19 155 255
50 % 19 163 251
40 % 19 163 268
30 % 19 163 278
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 % 17 117 310 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 17 117 327
70 % 17 117 365
50 % 17 120 412
40 % 17 122 429
30 % 17 122 433
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 % 18 137 183
95 % 18 137 245 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 18 137 258
70 % 18 137 289
50 % 18 140 313
40 % 18 140 329
30 % 18 140 338
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 27927
95 % 1 3 23180 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.5
PDBFlex
90 % 1 3 22431
70 % 1 3 20517
50 % 1 3 17805
40 % 1 3 15871
30 % 1 3 13575
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 % 17 116 223
95 % 17 117 308 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.2
PDBFlex
90 % 17 117 324
70 % 17 122 341
50 % 17 131 360
40 % 17 139 325
30 % 17 142 331
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 % 16 112 377
50 % 16 114 437
40 % 16 114 464
30 % 16 114 465
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 61 559
95 % 8 61 775 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.7
PDBFlex
90 % 8 61 803
70 % 8 62 828
50 % 8 67 755
40 % 8 67 786
30 % 8 67 780
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 % 20 142 171
95 % 20 142 231 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 20 142 246
70 % 20 145 272
50 % 20 147 292
40 % 20 156 292
30 % 20 156 298
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 % 18 136 185
95 % 18 136 247 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 18 136 261
70 % 18 136 291
50 % 18 151 284
40 % 18 151 300
30 % 18 151 315
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 64 506
95 % 9 64 701 Flexibility: Low
Max RMSD: 4.4, Avg RMSD: 0.8
PDBFlex
90 % 9 64 731
70 % 9 64 784
50 % 10 79 582
40 % 10 79 619
30 % 10 79 614
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 63432
95 % 19 142 232 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 19 142 247
70 % 19 142 279
50 % 19 145 301
40 % 19 145 310
30 % 19 157 293
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 % 17 116 316 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 17 116 333
70 % 17 119 354
50 % 17 121 407
40 % 17 121 433
30 % 17 124 426

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 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
2 3S14 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
3 3CQZ 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
4 3PO2 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
5 3RZO 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
6 3PO3 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
7 3S1M 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
8 4A3E 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
9 3S1R 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
10 4A3D 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
11 3S1N 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
12 5IP7 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
13 4A3F 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
14 4A93 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
15 1K83 2 B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE 4932 2.7.7.6 | Details
16 1I50 2 B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE 4932 2.7.7.6 | Details
17 4BY7 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
18 3S2D 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
19 4A3C 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
20 4A3K 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
21 3S15 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
22 4A3L 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
23 4BXX 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
24 3S1Q 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
25 3S16 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
26 3S17 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
27 4A3G 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
28 4A3B 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
29 4BBR 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
30 2NVQ 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
31 3RZD 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
32 4A3J 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
33 3S2H 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
34 3M3Y 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
35 4A3I 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
36 4A3M 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
37 4Y7N 2 B DNA-directed RNA polymerase II subunit RPB2,DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
38 5IP9 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
39 1I3Q 2 B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE 4932 2.7.7.6 | Details
40 4BBS 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
41 1TWC 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
42 4Y52 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
43 3HOU 2 B, N DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
44 3HOY 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
45 3HOV 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
46 1TWA 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
47 5C3E 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
48 2NVT 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
49 3HOZ 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
50 3HOW 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
51 3HOX 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
52 1I6H 4 B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE 4932 2.7.7.6 | Details
53 2R92 4 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
54 2R7Z 5 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
55 1R9T 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
56 3I4M 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
57 3H3V 2 C DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
58 5U5Q 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
59 1TWH 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
60 2NVY 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
61 2E2J 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
62 5C4X 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
63 2VUM 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
64 5C44 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
65 3M4O 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
66 5C4J 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
67 2R93 3 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
68 1TWG 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
69 3GTM 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
70 3I4N 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
71 2E2I 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
72 3GTL 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
73 4BXZ 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
74 3GTK 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
75 5C4A 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
76 3K1F 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
77 3GTJ 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
78 3GTG 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
79 2YU9 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
80 1WCM 2 B DNA-DIRECTED RNA POLYMERASE II SECOND LARGEST SUBUNIT 4932 2.7.7.6 | Details
81 2JA7 5 B, N DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
82 4X6A 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
83 4X67 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
84 1Y1W 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
85 3QT1 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
86 3K7A 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
87 2JA8 2 B DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
88 2JA5 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
89 2NVX 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
90 2B63 3 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
91 3GTQ 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
92 3GTP 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
93 1Y1V 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
94 3GTO 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
95 3FKI 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
96 1Y1Y 4 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
97 1SFO 4 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
98 2E2H 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
99 2JA6 2 B DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
100 2NVZ 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
101 1Y77 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
102 1NIK 2 B ORF YOR151c 4932 2.7.7.6 | Details
103 1R9S 4 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
104 1R5U 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
105 2B8K 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
106 5SVA 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
107 5FYW 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
108 5FZ5 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
109 5FMF 4 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
110 4V1M 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
111 4V1N 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
112 4V1O 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
113 3J1N 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
114 3J0K 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 9606 2.7.7.6 | Details
115 1PQV 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
116 1NT9 2 B DNA-directed polymerase II SECOND LARGEST SUBUNIT 4932 2.7.7.6 | Details