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 % 18 118 231
95 % 18 118 321 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.6
PDBFlex
90 % 18 118 337
70 % 19 123 360
50 % 19 135 381
40 % 19 135 404
30 % 19 135 402
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 % 20 145 240 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 20 145 255
70 % 21 162 252
50 % 21 170 247
40 % 21 170 268
30 % 21 170 272
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 % 18 120 225
95 % 18 120 316 Flexibility: No
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 18 120 331
70 % 18 120 372
50 % 19 125 419
40 % 19 127 433
30 % 19 127 437
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 % 19 141 183
95 % 19 141 246 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 19 141 262
70 % 19 141 299
50 % 20 146 321
40 % 20 146 341
30 % 20 146 349
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 28951
95 % 1 3 24043 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.5
PDBFlex
90 % 1 3 23246
70 % 1 3 21174
50 % 1 3 18322
40 % 1 3 16325
30 % 1 3 13960
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 % 18 119 226
95 % 18 120 314 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.3
PDBFlex
90 % 18 120 328
70 % 19 127 342
50 % 19 137 373
40 % 19 145 336
30 % 19 148 334
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 % 17 115 234
95 % 17 115 331 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 17 115 349
70 % 17 115 382
50 % 17 117 445
40 % 17 117 473
30 % 17 117 469
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 64 550
95 % 9 64 744 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.7
PDBFlex
90 % 9 64 774
70 % 9 65 808
50 % 10 72 731
40 % 10 72 765
30 % 10 72 758
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 % 21 146 237 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 21 146 251
70 % 22 151 279
50 % 22 153 293
40 % 22 163 290
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 % 19 140 185
95 % 19 140 248 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 19 140 263
70 % 19 140 300
50 % 20 158 279
40 % 20 158 296
30 % 20 158 305
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 67 493
95 % 10 67 685 Flexibility: Low
Max RMSD: 4.2, Avg RMSD: 0.7
PDBFlex
90 % 10 67 715
70 % 10 67 760
50 % 12 85 564
40 % 12 85 600
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 65539
95 % 20 146 238 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 20 146 252
70 % 20 146 287
50 % 21 151 307
40 % 21 151 322
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 % 18 119 230
95 % 18 119 319 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 18 119 335
70 % 19 124 359
50 % 19 126 408
40 % 19 126 439
30 % 19 129 429

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 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
2 3S14 7 I DNA-directed RNA polymerase II subunit RPB9 4932
3 3CQZ 7 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
4 3PO2 9 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
5 3RZO 7 I DNA-directed RNA polymerase II subunit RPB9 4932
6 3PO3 9 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
7 3S1M 7 I DNA-directed RNA polymerase II subunit RPB9 4932
8 4A3E 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
9 5OT2 9 I DNA-directed RNA polymerase II subunit RPB9 4932
10 3S1R 7 I DNA-directed RNA polymerase II subunit RPB9 4932
11 4A3D 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
12 3S1N 7 I DNA-directed RNA polymerase II subunit RPB9 4932
13 5IP7 9 I DNA-directed RNA polymerase II subunit RPB9 4932
14 4A3F 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
15 4A93 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
16 1K83 7 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932 2.7.7.6 | Details
17 1I50 7 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932 2.7.7.6 | Details
18 4BY7 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
19 3S2D 7 I DNA-directed RNA polymerase II subunit RPB9 4932
20 4A3C 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
21 4A3K 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
22 3S15 7 I DNA-directed RNA polymerase II subunit RPB9 4932
23 4A3L 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
24 4BXX 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
25 3S1Q 7 I DNA-directed RNA polymerase II subunit RPB9 4932
26 3S16 7 I DNA-directed RNA polymerase II subunit RPB9 4932
27 3S17 7 I DNA-directed RNA polymerase II subunit RPB9 4932
28 4A3G 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
29 4A3B 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
30 4BBR 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
31 2NVQ 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
32 3RZD 7 I DNA-directed RNA polymerase II subunit RPB9 4932
33 4A3J 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
34 3S2H 7 I DNA-directed RNA polymerase II subunit RPB9 4932
35 3M3Y 7 I DNA-directed RNA polymerase II subunit RPB9 4932
36 4A3I 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
37 4BY1 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
38 4A3M 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
39 4Y7N 7 I DNA-directed RNA polymerase II subunit RPB9 4932
40 5IP9 9 I DNA-directed RNA polymerase II subunit RPB9 4932
41 1I3Q 7 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932 2.7.7.6 | Details
42 4BBS 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
43 1TWC 7 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932 2.7.7.6 | Details
44 4Y52 7 I DNA-directed RNA polymerase II subunit RPB9 4932
45 3HOU 9 I, U DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
46 3HOY 9 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
47 3HOV 9 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
48 1TWA 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
49 5C3E 9 I DNA-directed RNA polymerase II subunit RPB9 4932
50 2NVT 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
51 3HOZ 9 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
52 3HOW 9 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
53 3HOX 9 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
54 1I6H 9 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932 2.7.7.6 | Details
55 2R92 11 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
56 2R7Z 12 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
57 1R9T 10 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
58 3I4M 9 I DNA-directed RNA polymerase II subunit RPB9 4932
59 3H3V 9 J DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
60 5U5Q 9 I DNA-directed RNA polymerase II subunit RPB9 4932
61 1TWH 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
62 2NVY 7 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
63 2E2J 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
64 5C4X 9 I DNA-directed RNA polymerase II subunit RPB9 4932
65 2VUM 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932 2.7.7.6 | Details
66 5C44 9 I DNA-directed RNA polymerase II subunit RPB9 4932
67 3M4O 7 I DNA-directed RNA polymerase II subunit RPB9 4932
68 5C4J 7 I DNA-directed RNA polymerase II subunit RPB9 4932
69 2R93 10 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
70 1TWG 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
71 3GTM 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932
72 3I4N 9 I DNA-directed RNA polymerase II subunit RPB9 4932
73 2E2I 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
74 3GTL 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932
75 4BXZ 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932 2.7.7.6 | Details
76 3GTK 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932
77 5C4A 9 I DNA-directed RNA polymerase II subunit RPB9 4932
78 3K1F 9 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
79 3GTJ 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932
80 3GTG 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932
81 2YU9 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
82 1WCM 9 I DNA-DIRECTED RNA POLYMERASE II 14.2 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
83 2JA7 12 I, U DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932 2.7.7.6 | Details
84 4X6A 7 I DNA-directed RNA polymerase II subunit RPB9 4932
85 4X67 7 I DNA-directed RNA polymerase II subunit RPB9 4932
86 1Y1W 12 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
87 3K7A 7 I DNA-directed RNA polymerase II subunit RPB9 4932
88 2JA8 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932 2.7.7.6 | Details
89 2JA5 9 I DNA-directed RNA polymerase II subunit RPB9 4932
90 2NVX 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
91 2B63 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
92 3GTQ 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932
93 3GTP 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932
94 1Y1V 9 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
95 3GTO 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932
96 3FKI 9 I DNA-directed RNA polymerase II subunit RPB9 4932
97 1Y1Y 11 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
98 1SFO 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
99 2E2H 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
100 2JA6 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932 2.7.7.6 | Details
101 2NVZ 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
102 1Y77 12 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
103 1NIK 9 I DNA-directed RNA polymerase II, chain RPB9 4932 2.7.7.6 | Details
104 1R9S 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
105 1R5U 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
106 2B8K 9 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
107 5VVS 9 I DNA-directed RNA polymerase II subunit RPB9 4932
108 5VVR 9 I DNA-directed RNA polymerase II subunit RPB9 4932
109 5SVA 9 I DNA-directed RNA polymerase II subunit RPB9 4932
110 5FYW 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
111 5FZ5 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
112 5FMF 11 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
113 4V1M 7 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
114 4V1N 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
115 4V1O 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
116 3J1N 9 I DNA-directed RNA polymerase II subunit RPB9 4932
117 3J0K 9 I DNA-directed RNA polymerase II subunit 9 9606 2.7.7.6 | Details
118 1PQV 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
119 1NT9 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details