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 % 18 125 241
95 % 18 125 319 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.6
PDBFlex
90 % 18 125 328
70 % 19 130 352
50 % 19 143 376
40 % 19 143 407
30 % 19 143 408
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 % 20 160 183
95 % 20 160 234 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 20 160 241
70 % 21 178 234
50 % 21 186 230
40 % 21 186 256
30 % 21 186 276
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 % 18 127 231
95 % 18 127 308 Flexibility: No
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 18 127 318
70 % 18 127 369
50 % 19 132 411
40 % 19 134 427
30 % 19 134 437
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 % 19 156 187
95 % 19 156 240 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 19 156 249
70 % 19 156 280
50 % 20 161 294
40 % 20 161 322
30 % 20 161 330
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 26530
95 % 1 3 23376 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.5
PDBFlex
90 % 1 3 22618
70 % 1 3 20604
50 % 1 3 17736
40 % 1 3 15697
30 % 1 3 13158
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 % 18 127 233
95 % 18 127 309 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.3
PDBFlex
90 % 18 127 319
70 % 19 134 334
50 % 19 145 371
40 % 19 153 350
30 % 33 306 144
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 % 17 122 246
95 % 17 122 326 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 17 122 339
70 % 17 122 382
50 % 17 122 450
40 % 17 122 479
30 % 17 122 484
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 66 598
95 % 9 66 734 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.7
PDBFlex
90 % 9 66 759
70 % 9 69 766
50 % 10 74 744
40 % 10 74 777
30 % 10 74 779
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 % 21 161 182
95 % 21 161 233 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 21 161 239
70 % 22 166 254
50 % 22 168 271
40 % 22 179 281
30 % 22 179 295
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 % 19 155 188
95 % 19 155 241 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 19 155 250
70 % 19 155 281
50 % 20 174 260
40 % 20 174 288
30 % 20 174 301
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 69 537
95 % 10 69 673 Flexibility: Low
Max RMSD: 4.2, Avg RMSD: 0.7
PDBFlex
90 % 10 69 698
70 % 10 69 740
50 % 12 88 559
40 % 12 88 601
30 % 12 88 605
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 52572
95 % 20 161 232 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 20 161 240
70 % 20 161 270
50 % 21 166 280
40 % 21 166 312
30 % 21 180 292
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 % 18 126 236
95 % 18 126 313 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 18 126 323
70 % 19 131 348
50 % 19 133 401
40 % 19 133 432
30 % 19 144 405

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


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 5OT2 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
10 3S1R 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
11 4A3D 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
12 3S1N 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
13 5IP7 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
14 4A3F 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
15 4A93 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
16 1K83 2 B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE 4932 2.7.7.6 | Details
17 1I50 2 B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE 4932 2.7.7.6 | Details
18 4BY7 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
19 3S2D 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
20 4A3C 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
21 4A3K 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
22 3S15 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
23 4A3L 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
24 4BXX 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
25 3S1Q 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
26 3S16 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
27 3S17 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
28 4A3G 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
29 4A3B 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
30 4BBR 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
31 2NVQ 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
32 3RZD 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
33 4A3J 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
34 3S2H 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
35 3M3Y 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
36 4A3I 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
37 6BM4 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
38 4BY1 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
39 4A3M 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
40 6BLP 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
41 4Y7N 2 B DNA-directed RNA polymerase II subunit RPB2,DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
42 5IP9 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
43 1I3Q 2 B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE 4932 2.7.7.6 | Details
44 4BBS 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
45 6BLO 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
46 1TWC 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
47 4Y52 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
48 6BQF 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
49 3HOU 2 B, N DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
50 3HOY 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
51 3HOV 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
52 6BM2 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
53 1TWA 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
54 5C3E 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
55 2NVT 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
56 3HOZ 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
57 3HOW 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
58 3HOX 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
59 1I6H 4 B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE 4932 2.7.7.6 | Details
60 2R92 4 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
61 2R7Z 5 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
62 1R9T 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
63 3I4M 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
64 3H3V 2 C DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
65 5U5Q 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
66 1TWH 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
67 2NVY 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
68 2E2J 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
69 5C4X 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
70 2VUM 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
71 5C44 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
72 3M4O 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
73 5C4J 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
74 2R93 3 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
75 1TWG 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
76 3GTM 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
77 3I4N 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
78 2E2I 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
79 3GTL 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
80 4BXZ 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
81 3GTK 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
82 5C4A 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
83 3K1F 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
84 3GTJ 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
85 3GTG 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
86 2YU9 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
87 1WCM 2 B DNA-DIRECTED RNA POLYMERASE II SECOND LARGEST SUBUNIT 4932 2.7.7.6 | Details
88 2JA7 5 B, N DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
89 4X6A 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
90 4X67 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
91 1Y1W 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
92 3QT1 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
93 3K7A 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
94 2JA8 2 B DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
95 2JA5 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
96 2NVX 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
97 2B63 3 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
98 3GTQ 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
99 3GTP 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
100 1Y1V 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
101 3GTO 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
102 3FKI 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
103 1Y1Y 4 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
104 1SFO 4 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
105 2E2H 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
106 2JA6 2 B DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
107 2NVZ 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
108 1Y77 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
109 1NIK 2 B ORF YOR151c 4932 2.7.7.6 | Details
110 1R9S 4 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
111 1R5U 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
112 2B8K 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
113 5OQM 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
114 5OQJ 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
115 5VVS 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
116 5VVR 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
117 5SVA 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
118 5FYW 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
119 5FZ5 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
120 5FMF 4 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
121 4V1M 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
122 4V1N 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
123 4V1O 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
124 3J1N 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
125 3J0K 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 9606 2.7.7.6 | Details
126 1PQV 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
127 1NT9 2 B DNA-directed polymerase II SECOND LARGEST SUBUNIT 4932 2.7.7.6 | Details