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 % 118 118 235
95 % 118 118 323 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.6
PDBFlex
90 % 118 118 341
70 % 123 123 367
50 % 135 135 384
40 % 135 135 414
30 % 135 135 413
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 % 153 153 176
95 % 153 153 238 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 153 153 250
70 % 170 170 246
50 % 178 178 235
40 % 178 178 254
30 % 178 178 263
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 % 120 120 230
95 % 120 120 319 Flexibility: No
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 120 120 336
70 % 120 120 378
50 % 125 125 427
40 % 127 127 441
30 % 127 127 444
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 % 149 149 181
95 % 149 149 241 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 149 149 254
70 % 149 149 289
50 % 154 154 304
40 % 154 154 322
30 % 154 154 326
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 % 119 119 231
95 % 120 120 318 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.3
PDBFlex
90 % 120 120 334
70 % 127 127 348
50 % 137 137 376
40 % 145 145 347
30 % 156 156 315
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 % 115 115 237
95 % 115 115 332 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 115 115 352
70 % 115 115 388
50 % 117 117 448
40 % 117 117 478
30 % 117 117 471
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 % 64 64 555
95 % 64 64 751 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.7
PDBFlex
90 % 64 64 780
70 % 65 65 815
50 % 72 72 741
40 % 72 72 777
30 % 72 72 769
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 % 154 154 172
95 % 154 154 233 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 154 154 245
70 % 159 159 267
50 % 161 161 282
40 % 171 171 274
30 % 171 171 283
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 % 148 148 182
95 % 148 148 243 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 148 148 256
70 % 148 148 291
50 % 165 166 273
40 % 165 166 287
30 % 165 166 297
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 % 67 67 499
95 % 67 67 692 Flexibility: Low
Max RMSD: 4.2, Avg RMSD: 0.7
PDBFlex
90 % 67 67 723
70 % 67 67 764
50 % 85 85 570
40 % 85 85 607
30 % 85 85 598
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 % 152 153 175
95 % 153 154 234 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 153 154 246
70 % 153 154 280
50 % 158 159 287
40 % 158 159 307
30 % 171 172 281
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 % 119 119 234
95 % 119 119 321 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 119 119 339
70 % 124 124 366
50 % 126 126 418
40 % 126 126 446
30 % 137 137 405

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.

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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 5XOG 1 A DNA-directed RNA polymerase subunit 460519 2.7.7.6 | Details
8 3S1M 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
9 4A3E 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
10 5OT2 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
11 3S1R 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
12 4A3D 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
13 3S1N 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
14 5IP7 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
15 4A3F 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
16 4A93 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
17 1K83 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
18 1I50 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
19 4BY7 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
20 3S2D 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
21 4A3C 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
22 4A3K 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
23 3S15 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
24 4A3L 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
25 4BXX 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
26 3S1Q 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
27 3S16 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
28 3S17 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
29 4A3G 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
30 4A3B 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
31 4BBR 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
32 2NVQ 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
33 3RZD 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
34 4A3J 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
35 3S2H 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
36 3M3Y 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
37 4A3I 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 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 4Y7N 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
41 5IP9 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
42 1I3Q 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
43 4BBS 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
44 1TWC 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
45 4Y52 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
46 3HOU 1 A, M DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
47 3HOY 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
48 3HOV 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
49 1TWA 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
50 5C3E 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
51 2NVT 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
52 3HOZ 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
53 3HOW 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
54 3HOX 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
55 1I6H 3 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
56 2R92 3 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
57 2R7Z 4 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
58 1R9T 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
59 3I4M 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
60 3H3V 1 B DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
61 5U5Q 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
62 1TWH 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
63 2NVY 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
64 2E2J 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
65 5C4X 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
66 2VUM 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
67 5C44 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
68 3M4O 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
69 5C4J 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
70 2R93 2 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
71 1TWG 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
72 3GTM 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
73 3I4N 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
74 2E2I 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
75 3GTL 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
76 4BXZ 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
77 3GTK 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
78 5C4A 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
79 3K1F 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
80 3GTJ 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
81 3GTG 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
82 2YU9 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
83 1WCM 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
84 2JA7 4 A, M DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
85 4X6A 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
86 4X67 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
87 1Y1W 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
88 3QT1 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
89 3K7A 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
90 5X50 1 A DNA-directed RNA polymerase subunit 460519 2.7.7.6 | Details
91 2JA8 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
92 2JA5 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
93 2NVX 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
94 2B63 2 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
95 3GTQ 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
96 3GTP 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
97 1Y1V 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
98 3GTO 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
99 3H0G 1 A, M DNA-directed RNA polymerase II subunit rpb1 4896 2.7.7.6 | Details
100 3FKI 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
101 1Y1Y 3 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
102 1SFO 3 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
103 2E2H 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
104 2JA6 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
105 2NVZ 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
106 1Y77 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
107 1NIK 1 A RPB1 4932 2.7.7.6 | Details
108 1R9S 3 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
109 1R5U 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
110 2B8K 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
111 5X51 1 A, M DNA-directed RNA polymerase subunit 460519 2.7.7.6 | Details
112 5X4Z 1 A, M DNA-directed RNA polymerase subunit 460519 2.7.7.6 | Details
113 5OIK 1 A DNA-directed RNA polymerase II subunit RPB1 9913 2.7.7.6 | Details
114 5XON 1 A DNA-directed RNA polymerase subunit 460519 2.7.7.6 | Details
115 5VVS 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
116 5VVR 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
117 5U0S 17 a RNA polymerase II subunit Rpb1 4896 2.7.7.6 | Details
118 5SVA 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
119 5IY6 1 A DNA-directed RNA polymerase II subunit RPB1 9606 2.7.7.6 | Details
120 5IY7 1 A DNA-directed RNA polymerase II subunit RPB1 9606 2.7.7.6 | Details
121 5IY8 1 A DNA-directed RNA polymerase II subunit RPB1 9606 2.7.7.6 | Details
122 5IY9 1 A DNA-directed RNA polymerase II subunit RPB1 9606 2.7.7.6 | Details
123 5IYA 1 A DNA-directed RNA polymerase II subunit RPB1 9606 2.7.7.6 | Details
124 5IYB 1 A DNA-directed RNA polymerase II subunit RPB1 9606 2.7.7.6 | Details
125 5IYC 1 A DNA-directed RNA polymerase II subunit RPB1 9606 2.7.7.6 | Details
126 5IYD 1 A DNA-directed RNA polymerase II subunit RPB1 9606 2.7.7.6 | Details
127 5FYW 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
128 5FZ5 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
129 5FMF 3 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
130 5FLM 1 A DNA-DIRECTED RNA POLYMERASE 9913 2.7.7.6 | Details
131 4V1M 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
132 4V1N 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
133 4V1O 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
134 1PQV 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
135 1NT9 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details