Sequence Similarity Clusters for the Entities in PDB 1NT9

Entity #1 | 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 % 127 127 241
95 % 127 127 316 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 1.6
PDBFlex
90 % 127 127 328
70 % 132 132 352
50 % 145 145 391
40 % 145 145 414
30 % 145 145 410
Entity #10 | Chains: J
DNA-directed RNA polymerases I, II, and III 8.3 kDa polypeptide protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 162 162 186
95 % 162 162 238 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 162 162 248
70 % 180 180 236
50 % 188 188 237
40 % 188 188 262
30 % 188 188 278
Entity #11 | Chains: K
DNA-DIRECTED RNA POLYMERASE II 13.6 KD POLYPEPTIDE protein, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 129 129 236
95 % 129 129 305 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 129 129 317
70 % 129 129 368
50 % 134 134 418
40 % 136 136 433
30 % 136 136 433
Entity #12 | 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 % 158 158 188
95 % 158 158 244 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 158 158 253
70 % 158 158 284
50 % 163 163 305
40 % 163 163 338
30 % 163 163 343
Entity #2 | Chains: B
DNA-directed polymerase II SECOND LARGEST SUBUNIT protein, length: 1224 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 129 129 237
95 % 129 129 310 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.2
PDBFlex
90 % 129 129 321
70 % 136 136 341
50 % 147 147 383
40 % 155 155 365
30 % 316 318 139
Entity #3 | 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 % 124 124 250
95 % 124 124 326 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 124 124 337
70 % 124 124 382
50 % 124 124 450
40 % 124 124 483
30 % 124 124 488
Entity #4 | Chains: D
YEAST DNA-DIRECTED RNA POLYMERASE II 32 KD POLYPEPTIDE protein, length: 221 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 66 66 619
95 % 66 66 757 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.8
PDBFlex
90 % 66 66 785
70 % 69 69 794
50 % 74 74 761
40 % 74 74 790
30 % 74 74 796
Entity #5 | 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 % 163 163 185
95 % 163 163 236 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 163 163 245
70 % 168 168 261
50 % 170 170 282
40 % 181 181 283
30 % 181 181 298
Entity #6 | 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 % 157 157 189
95 % 157 157 245 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 157 157 254
70 % 157 157 287
50 % 175 176 267
40 % 175 176 295
30 % 175 176 305
Entity #7 | Chains: G
DNA-DIRECTED RNA POLYMERASE II 19 KD POLYPEPTIDE protein, length: 171 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 69 69 555
95 % 69 69 690 Flexibility: Low
Max RMSD: 4.4, Avg RMSD: 0.7
PDBFlex
90 % 69 69 717
70 % 69 69 762
50 % 88 88 572
40 % 88 88 614
30 % 88 88 614
Entity #8 | Chains: H
DNA-DIRECTED RNA POLYMERASES I, II, AND III 14.5 KD POLYPEPTIDE protein, length: 146 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 161 162 187
95 % 162 163 237 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.9
PDBFlex
90 % 162 163 247
70 % 162 163 278
50 % 167 168 292
40 % 167 168 325
30 % 181 182 292
Entity #9 | Chains: I
DNA-directed RNA polymerase II 14.2 kDa polypeptide protein, length: 122 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 128 128 239
95 % 128 128 311 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 128 128 322
70 % 133 133 348
50 % 135 135 415
40 % 135 135 438
30 % 146 146 409

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 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
2 3S14 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
3 3CQZ 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
4 3PO2 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
5 3RZO 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
6 3PO3 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
7 3S1M 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
8 4A3E 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
9 5OT2 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
10 3S1R 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
11 4A3D 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
12 3S1N 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
13 5IP7 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
14 4A3F 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
15 4A93 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
16 1K83 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
17 1I50 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
18 4BY7 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
19 3S2D 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
20 4A3C 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
21 4A3K 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
22 3S15 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
23 4A3L 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
24 4BXX 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
25 3S1Q 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
26 3S16 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
27 3S17 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
28 4A3G 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
29 4A3B 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
30 4BBR 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
31 2NVQ 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
32 3RZD 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
33 4A3J 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
34 3S2H 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
35 3M3Y 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
36 4A3I 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
37 6BM4 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
38 4BY1 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
39 4A3M 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
40 6BLP 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
41 4Y7N 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
42 5IP9 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
43 1I3Q 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
44 4BBS 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
45 6BLO 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
46 1TWC 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
47 4Y52 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
48 6BQF 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
49 3HOU 1 A, M DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
50 3HOY 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
51 3HOV 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
52 6BM2 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
53 1TWA 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
54 5C3E 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
55 5W51 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
56 2NVT 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
57 3HOZ 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
58 3HOW 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
59 3HOX 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
60 1I6H 3 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
61 2R92 3 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
62 5W4U 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
63 2R7Z 4 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
64 1R9T 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
65 3I4M 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
66 3H3V 1 B DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
67 5U5Q 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
68 1TWH 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
69 2NVY 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
70 2E2J 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
71 5C4X 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
72 2VUM 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
73 5C44 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
74 3M4O 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
75 5C4J 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
76 2R93 2 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
77 1TWG 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
78 3GTM 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
79 3I4N 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
80 2E2I 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
81 3GTL 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
82 4BXZ 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
83 3GTK 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
84 5C4A 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
85 3K1F 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
86 3GTJ 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
87 3GTG 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
88 2YU9 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
89 1WCM 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
90 2JA7 4 A, M DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
91 4X6A 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
92 4X67 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
93 1Y1W 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
94 3QT1 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
95 3K7A 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
96 2JA8 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
97 2JA5 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
98 2NVX 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
99 2B63 2 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
100 3GTQ 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
101 3GTP 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
102 1Y1V 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
103 3GTO 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
104 3FKI 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
105 1Y1Y 3 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
106 1SFO 3 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
107 2E2H 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
108 2JA6 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
109 2NVZ 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
110 1Y77 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
111 1NIK 1 A RPB1 4932 2.7.7.6 | Details
112 1R9S 3 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
113 1R5U 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
114 2B8K 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
115 5OQM 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
116 5OQJ 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
117 5VVS 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
118 5VVR 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
119 5SVA 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
120 5FYW 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
121 5FZ5 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
122 5FMF 3 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
123 4V1M 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
124 4V1N 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
125 4V1O 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
126 1PQV 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
127 1NT9 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details