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 % 127 127 243
95 % 127 127 319 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 1.6
PDBFlex
90 % 127 127 331
70 % 132 132 357
50 % 147 147 386
40 % 147 147 415
30 % 147 147 412
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 % 168 168 236 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 168 168 243
70 % 188 188 230
50 % 196 196 231
40 % 196 196 255
30 % 196 196 269
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 % 129 129 237
95 % 129 129 306 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 129 129 318
70 % 129 129 370
50 % 134 134 418
40 % 136 136 435
30 % 136 136 436
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 % 164 164 238 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 164 164 247
70 % 164 164 273
50 % 169 169 289
40 % 169 169 320
30 % 169 169 328
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 % 129 129 240
95 % 129 129 313 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.2
PDBFlex
90 % 129 129 324
70 % 136 136 343
50 % 149 149 377
40 % 157 157 360
30 % 323 325 139
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 % 124 124 251
95 % 124 124 328 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 124 124 341
70 % 124 124 385
50 % 124 124 452
40 % 124 124 487
30 % 124 124 490
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 66 624
95 % 66 66 766 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.8
PDBFlex
90 % 66 66 793
70 % 69 69 800
50 % 74 74 767
40 % 74 74 796
30 % 74 74 799
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 % 169 169 232 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 169 169 240
70 % 174 174 251
50 % 176 176 270
40 % 189 189 275
30 % 189 189 287
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 % 163 163 240 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 163 163 249
70 % 163 163 277
50 % 183 184 251
40 % 183 184 278
30 % 183 184 293
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 69 694 Flexibility: Low
Max RMSD: 4.4, Avg RMSD: 0.7
PDBFlex
90 % 69 69 721
70 % 69 69 766
50 % 90 90 563
40 % 90 90 608
30 % 90 90 606
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 % 168 169 234 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.9
PDBFlex
90 % 168 169 241
70 % 168 169 267
50 % 173 174 278
40 % 173 174 304
30 % 189 190 286
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 % 128 128 241
95 % 128 128 314 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 128 128 325
70 % 133 133 351
50 % 135 135 415
40 % 135 135 440
30 % 150 150 403

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 6BM4 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
39 4BY1 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
40 4A3M 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
41 6BLP 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
42 4Y7N 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
43 5IP9 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
44 1I3Q 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
45 4BBS 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
46 6BLO 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
47 1TWC 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
48 4Y52 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
49 6BQF 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
50 3HOU 1 A, M DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
51 3HOY 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
52 3HOV 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
53 6BM2 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
54 1TWA 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
55 5C3E 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
56 5W51 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
57 2NVT 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
58 3HOZ 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
59 3HOW 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
60 3HOX 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
61 1I6H 3 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
62 2R92 3 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
63 5W4U 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
64 2R7Z 4 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
65 1R9T 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
66 3I4M 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
67 3H3V 1 B DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
68 5U5Q 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
69 1TWH 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
70 2NVY 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
71 2E2J 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
72 5C4X 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
73 2VUM 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
74 5C44 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
75 3M4O 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
76 5C4J 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
77 2R93 2 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
78 1TWG 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
79 3GTM 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
80 3I4N 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
81 2E2I 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
82 3GTL 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
83 4BXZ 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
84 3GTK 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
85 5C4A 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
86 3K1F 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
87 3GTJ 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
88 3GTG 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
89 2YU9 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
90 1WCM 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
91 2JA7 4 A, M DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
92 4X6A 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
93 4X67 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
94 1Y1W 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
95 3QT1 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
96 3K7A 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
97 5X50 1 A DNA-directed RNA polymerase subunit 460519 2.7.7.6 | Details
98 2JA8 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
99 2JA5 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
100 2NVX 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
101 2B63 2 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
102 3GTQ 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
103 3GTP 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
104 1Y1V 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
105 3GTO 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
106 3FKI 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
107 1Y1Y 3 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
108 1SFO 3 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
109 2E2H 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
110 2JA6 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
111 2NVZ 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
112 1Y77 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
113 1NIK 1 A RPB1 4932 2.7.7.6 | Details
114 1R9S 3 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
115 1R5U 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
116 2B8K 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
117 5X51 1 A, M DNA-directed RNA polymerase subunit 460519 2.7.7.6 | Details
118 5X4Z 1 A, M DNA-directed RNA polymerase subunit 460519 2.7.7.6 | Details
119 5OQM 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
120 5OQJ 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
121 5XON 1 A DNA-directed RNA polymerase subunit 460519 2.7.7.6 | Details
122 5VVS 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
123 5VVR 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
124 5SVA 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
125 5FYW 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
126 5FZ5 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
127 5FMF 3 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
128 4V1M 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
129 4V1N 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
130 4V1O 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
131 1PQV 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
132 1NT9 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details