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 % 127 127 248
95 % 127 127 322 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 1.6
PDBFlex
90 % 127 127 334
70 % 139 139 345
50 % 154 154 373
40 % 154 154 406
30 % 154 154 406
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 % 168 168 185
95 % 168 168 237 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 168 168 244
70 % 195 195 216
50 % 203 203 225
40 % 203 203 251
30 % 203 203 264
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 % 129 129 242
95 % 129 129 309 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 129 129 320
70 % 129 129 373
50 % 141 141 407
40 % 143 143 426
30 % 143 143 421
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 % 164 164 187
95 % 164 164 239 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 164 164 248
70 % 164 164 277
50 % 176 176 279
40 % 176 176 309
30 % 176 176 319
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 % 129 129 244
95 % 129 129 315 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.2
PDBFlex
90 % 129 129 325
70 % 143 143 332
50 % 156 156 359
40 % 164 164 349
30 % 330 332 142
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 % 124 124 256
95 % 124 124 331 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 124 124 345
70 % 124 124 389
50 % 124 124 456
40 % 124 124 493
30 % 124 124 496
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 66 636
95 % 66 66 778 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.8
PDBFlex
90 % 66 66 806
70 % 69 69 808
50 % 81 81 692
40 % 81 81 727
30 % 81 81 740
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 % 169 169 184
95 % 169 169 234 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 169 169 241
70 % 181 181 241
50 % 183 183 260
40 % 196 196 270
30 % 196 196 286
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 % 163 163 189
95 % 163 163 241 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 163 163 250
70 % 163 163 282
50 % 190 191 246
40 % 190 191 278
30 % 190 191 291
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 69 565
95 % 69 69 703 Flexibility: Low
Max RMSD: 4.4, Avg RMSD: 0.7
PDBFlex
90 % 69 69 732
70 % 69 69 776
50 % 97 97 533
40 % 97 97 576
30 % 97 97 581
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 % 167 168 186
95 % 168 169 235 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.9
PDBFlex
90 % 168 169 242
70 % 168 169 271
50 % 180 181 267
40 % 180 181 299
30 % 196 197 282
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 % 128 128 245
95 % 128 128 316 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 128 128 326
70 % 140 140 341
50 % 142 142 404
40 % 142 142 431
30 % 157 157 397

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 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