Sequence Similarity Clusters for the Entities in PDB 2E2I

Entity #1 | Chains: R
5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*A)-3' rna, length: 10 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | Chains: I
DNA-directed RNA polymerase II subunit 9 protein, length: 122 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 80 133 258
95 % 80 133 347 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 80 133 367
70 % 81 152 346
50 % 81 154 397
40 % 81 169 389
30 % 81 184 367
Entity #11 | Chains: J
DNA-directed RNA polymerases I/II/III subunit 10 protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 84 177 187
95 % 84 177 246 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 84 177 257
70 % 85 213 240
50 % 85 213 248
40 % 85 213 262
30 % 85 213 281
Entity #12 | Chains: K
DNA-directed RNA polymerase II 13.6 kDa polypeptide protein, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 80 134 252
95 % 80 134 339 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 80 134 355
70 % 80 134 391
50 % 81 153 406
40 % 81 155 420
30 % 81 155 430
Entity #13 | Chains: L
DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 82 173 191
95 % 82 173 250 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 82 173 262
70 % 82 173 302
50 % 83 192 314
40 % 83 192 328
30 % 83 192 346
Entity #2 | Chains: T
28-MER DNA template strand dna, length: 28 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #3 | Chains: N
5'-D(*CP*TP*GP*CP*TP*TP*AP*TP*CP*GP*GP*TP*AP*G)-3' dna, length: 14 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #4 | Chains: A
DNA-directed RNA polymerase II largest subunit protein, length: 1733 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 80 132 262
95 % 80 132 352 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 1.6
PDBFlex
90 % 80 132 369
70 % 81 151 350
50 % 81 153 401
40 % 81 153 426
30 % 81 153 438
Entity #5 | Chains: B
DNA-directed RNA polymerase II 140 kDa polypeptide protein, length: 1224 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 79 133 254
95 % 80 134 338 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.2
PDBFlex
90 % 80 134 354
70 % 81 155 339
50 % 81 170 361
40 % 84 178 353
30 % 84 193 339
Entity #6 | Chains: C
DNA-directed RNA polymerase II 45 kDa polypeptide protein, length: 318 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 78 129 279
95 % 78 129 373 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 78 129 388
70 % 78 129 420
50 % 78 129 468
40 % 78 131 491
30 % 78 131 519
Entity #7 | Chains: E
DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide protein, length: 215 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 85 178 185
95 % 85 178 244 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 85 178 254
70 % 86 197 263
50 % 86 199 290
40 % 86 214 259
30 % 86 214 278
Entity #8 | Chains: F
DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 82 172 192
95 % 82 172 251 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 82 172 263
70 % 82 172 303
50 % 83 193 307
40 % 83 193 321
30 % 83 193 336
Entity #9 | Chains: H
DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide protein, length: 146 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 83 177 186
95 % 84 178 243 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 84 178 253
70 % 84 178 292
50 % 85 197 300
40 % 85 197 311
30 % 85 213 288

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 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 3S1M 9 K DNA-directed RNA polymerase II subunit RPB11 4932
8 4A3E 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
9 5OT2 11 K DNA-directed RNA polymerase II subunit RPB11 4932
10 3S1R 9 K DNA-directed RNA polymerase II subunit RPB11 4932
11 4A3D 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
12 3S1N 9 K DNA-directed RNA polymerase II subunit RPB11 4932
13 5IP7 11 K DNA-directed RNA polymerase II subunit RPB11 4932
14 4A3F 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
15 4A93 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
16 1K83 9 K DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE 4932 2.7.7.6 | Details
17 1I50 9 K DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE 4932 2.7.7.6 | Details
18 4BY7 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
19 3S2D 9 K DNA-directed RNA polymerase II subunit RPB11 4932
20 4A3C 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
21 4A3K 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
22 3S15 9 K DNA-directed RNA polymerase II subunit RPB11 4932
23 4A3L 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
24 4BXX 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
25 3S1Q 9 K DNA-directed RNA polymerase II subunit RPB11 4932
26 3S16 9 K DNA-directed RNA polymerase II subunit RPB11 4932
27 3S17 9 K DNA-directed RNA polymerase II subunit RPB11 4932
28 4A3G 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
29 4A3B 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
30 4BBR 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
31 2NVQ 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
32 3RZD 9 K DNA-directed RNA polymerase II subunit RPB11 4932
33 4A3J 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
34 3S2H 9 K DNA-directed RNA polymerase II subunit RPB11 4932
35 3M3Y 9 K DNA-directed RNA polymerase II subunit RPB11 4932
36 4A3I 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
37 6BM4 9 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 6BLP 9 K DNA-directed RNA polymerase II subunit RPB11 4932
41 4Y7N 9 K DNA-directed RNA polymerase II subunit RPB11 4932
42 5IP9 11 K DNA-directed RNA polymerase II subunit RPB11 4932
43 1I3Q 9 K DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE 4932 2.7.7.6 | Details
44 4BBS 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
45 6BLO 9 K DNA-directed RNA polymerase II subunit RPB11 4932
46 1TWC 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
47 4Y52 9 K DNA-directed RNA polymerase II subunit RPB11 4932
48 6BQF 9 K DNA-directed RNA polymerase II subunit RPB11 4932
49 3HOU 11 K, W DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
50 3HOY 11 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
51 3HOV 11 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
52 6BM2 9 K DNA-directed RNA polymerase II subunit RPB11 4932
53 1TWA 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
54 5C3E 11 K DNA-directed RNA polymerase II subunit RPB11 4932
55 5W51 9 K DNA-directed RNA polymerase II subunit RPB11 4932
56 2NVT 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
57 3HOZ 11 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
58 3HOW 11 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
59 3HOX 11 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
60 1I6H 11 K DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE 4932 2.7.7.6 | Details
61 2R92 13 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
62 5W4U 9 K DNA-directed RNA polymerase II subunit RPB11 4932
63 2R7Z 14 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
64 1R9T 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
65 3I4M 11 K DNA-directed RNA polymerase II subunit RPB11 4932
66 3H3V 11 L DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
67 5U5Q 11 K DNA-directed RNA polymerase II subunit RPB11 4932
68 1TWH 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
69 2NVY 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
70 2E2J 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
71 5C4X 11 K DNA-directed RNA polymerase II subunit RPB11 4932
72 2VUM 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932 2.7.7.6 | Details
73 5C44 11 K DNA-directed RNA polymerase II subunit RPB11 4932
74 3M4O 9 K DNA-directed RNA polymerase II subunit RPB11 4932
75 5C4J 9 K DNA-directed RNA polymerase II subunit RPB11 4932
76 2R93 12 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
77 1TWG 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
78 3GTM 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932
79 3I4N 11 K DNA-directed RNA polymerase II subunit RPB11 4932
80 2E2I 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
81 3GTL 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932
82 4BXZ 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932 2.7.7.6 | Details
83 3GTK 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932
84 5C4A 11 K DNA-directed RNA polymerase II subunit RPB11 4932
85 3K1F 11 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
86 3GTJ 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932
87 3GTG 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932
88 2YU9 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
89 1WCM 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
90 2JA7 14 K, W DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
91 4X6A 9 K DNA-directed RNA polymerase II subunit RPB11 4932
92 4X67 9 K DNA-directed RNA polymerase II subunit RPB11 4932
93 1Y1W 14 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
94 3QT1 11 K DNA-directed RNA polymerase II subunit RPB11 4932 2.7.7.6 | Details
95 3K7A 9 K DNA-directed RNA polymerase II subunit RPB11 4932
96 2JA8 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
97 2JA5 11 K DNA-directed RNA polymerase II subunit RPB11 4932
98 2NVX 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
99 2B63 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
100 3GTQ 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932
101 3GTP 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932
102 1Y1V 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
103 3GTO 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932
104 3FKI 11 K DNA-directed RNA polymerase II subunit RPB11 4932
105 1Y1Y 13 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
106 1SFO 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
107 2E2H 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
108 2JA6 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
109 2NVZ 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
110 1Y77 14 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
111 1NIK 11 K DNA-directed RNA polymerase II, chain RPB11 4932 2.7.7.6 | Details
112 1R9S 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
113 1R5U 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
114 2B8K 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
115 6O6C 9 I DNA-directed RNA polymerase II subunit RPB11 4932
116 6I84 17 K DNA-directed RNA polymerase II subunit RPB11 4932
117 6GYK 11 K DNA-directed RNA polymerase II subunit RPB11 4932
118 6GYL 11 K DNA-directed RNA polymerase II subunit RPB11 4932
119 6GYM 19 K DNA-directed RNA polymerase II subunit RPB11 4932
120 5OQM 11 K DNA-directed RNA polymerase II subunit RPB11 4932
121 5OQJ 11 K DNA-directed RNA polymerase II subunit RPB11 4932
122 5VVS 11 K DNA-directed RNA polymerase II subunit RPB11 4932
123 5VVR 11 K DNA-directed RNA polymerase II subunit RPB11 4932
124 5SVA 11 K DNA-directed RNA polymerase II subunit RPB11 4932
125 5FYW 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
126 5FZ5 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
127 5FMF 13 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
128 4V1M 9 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932
129 4V1N 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 2.7.7.6 4932
130 4V1O 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 2.7.7.6 4932
131 3J1N 11 K DNA-directed RNA polymerase II subunit RPB11 4932
132 3J0K 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 9606 2.7.7.6 | Details
133 1PQV 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932 2.7.7.6 | Details
134 1NT9 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 KD POLYPEPTIDE 4932 2.7.7.6 | Details