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 % 118 118 236
95 % 118 118 325 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.6
PDBFlex
90 % 118 118 343
70 % 123 123 368
50 % 135 135 386
40 % 135 135 416
30 % 135 135 414
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 % 153 153 239 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 153 153 251
70 % 170 170 246
50 % 178 178 236
40 % 178 178 255
30 % 178 178 264
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 % 120 120 231
95 % 120 120 320 Flexibility: No
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 120 120 337
70 % 120 120 379
50 % 125 125 429
40 % 127 127 442
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 % 149 149 242 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 149 149 255
70 % 149 149 291
50 % 154 154 306
40 % 154 154 325
30 % 154 154 329
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 % 119 119 232
95 % 120 120 319 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.3
PDBFlex
90 % 120 120 335
70 % 127 127 351
50 % 137 137 377
40 % 145 145 348
30 % 156 156 317
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 % 115 115 238
95 % 115 115 333 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 115 115 353
70 % 115 115 389
50 % 117 117 449
40 % 117 117 479
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 64 557
95 % 64 64 753 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.7
PDBFlex
90 % 64 64 783
70 % 65 65 817
50 % 72 72 741
40 % 72 72 778
30 % 72 72 771
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 % 154 154 234 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 154 154 246
70 % 159 159 268
50 % 161 161 285
40 % 171 171 274
30 % 171 171 284
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 % 148 148 245 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 148 148 258
70 % 148 148 293
50 % 165 166 274
40 % 165 166 288
30 % 165 166 299
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 67 500
95 % 67 67 693 Flexibility: Low
Max RMSD: 4.2, Avg RMSD: 0.7
PDBFlex
90 % 67 67 724
70 % 67 67 765
50 % 85 85 571
40 % 85 85 608
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 % 153 154 235 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 153 154 247
70 % 153 154 281
50 % 158 159 289
40 % 158 159 309
30 % 171 172 282
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 % 119 119 235
95 % 119 119 322 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 119 119 340
70 % 124 124 367
50 % 126 126 419
40 % 126 126 447
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.

You can also use the structure comparison tool to compare any 2 given structures


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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 4BY1 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
38 4A3M 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932 2.7.7.6 | Details
39 4Y7N 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
40 5IP9 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
41 1I3Q 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
42 4BBS 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
43 1TWC 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
44 4Y52 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
45 3HOU 1 A, M DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
46 3HOY 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
47 3HOV 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
48 1TWA 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
49 5C3E 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
50 2NVT 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
51 3HOZ 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
52 3HOW 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
53 3HOX 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
54 1I6H 3 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
55 2R92 3 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
56 2R7Z 4 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
57 1R9T 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
58 3I4M 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
59 3H3V 1 B DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
60 5U5Q 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
61 1TWH 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
62 2NVY 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
63 2E2J 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
64 5C4X 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
65 2VUM 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
66 5C44 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
67 3M4O 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
68 5C4J 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
69 2R93 2 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
70 1TWG 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
71 3GTM 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
72 3I4N 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
73 2E2I 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
74 3GTL 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
75 4BXZ 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
76 3GTK 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
77 5C4A 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
78 3K1F 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
79 3GTJ 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
80 3GTG 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
81 2YU9 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
82 1WCM 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
83 2JA7 4 A, M DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
84 4X6A 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
85 4X67 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
86 1Y1W 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
87 3QT1 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
88 3K7A 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
89 2JA8 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
90 2JA5 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
91 2NVX 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
92 2B63 2 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
93 3GTQ 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
94 3GTP 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
95 1Y1V 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
96 3GTO 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
97 3FKI 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
98 1Y1Y 3 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
99 1SFO 3 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
100 2E2H 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
101 2JA6 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details
102 2NVZ 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
103 1Y77 4 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
104 1NIK 1 A RPB1 4932 2.7.7.6 | Details
105 1R9S 3 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
106 1R5U 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
107 2B8K 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
108 5VVS 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
109 5VVR 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
110 5SVA 1 A DNA-directed RNA polymerase II subunit RPB1 4932 2.7.7.6 | Details
111 5FYW 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
112 5FZ5 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
113 5FMF 3 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
114 4V1M 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
115 4V1N 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
116 4V1O 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932 2.7.7.6 | Details
117 1PQV 1 A DNA-directed RNA polymerase II largest subunit 4932 2.7.7.6 | Details
118 1NT9 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932 2.7.7.6 | Details