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 % 125 125 241
95 % 125 125 319 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.6
PDBFlex
90 % 125 125 328
70 % 130 130 352
50 % 143 143 376
40 % 143 143 407
30 % 143 143 408
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 % 160 160 183
95 % 160 160 234 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 160 160 241
70 % 178 178 234
50 % 186 186 230
40 % 186 186 256
30 % 186 186 276
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 % 127 127 231
95 % 127 127 308 Flexibility: No
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 127 127 318
70 % 127 127 369
50 % 132 132 411
40 % 134 134 427
30 % 134 134 437
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 % 156 156 187
95 % 156 156 240 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 156 156 249
70 % 156 156 280
50 % 161 161 294
40 % 161 161 322
30 % 161 161 330
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 % 127 127 233
95 % 127 127 309 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.3
PDBFlex
90 % 127 127 319
70 % 134 134 334
50 % 145 145 371
40 % 153 153 350
30 % 304 306 144
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 % 122 122 246
95 % 122 122 326 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 122 122 339
70 % 122 122 382
50 % 122 122 450
40 % 122 122 479
30 % 122 122 484
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 66 598
95 % 66 66 734 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.7
PDBFlex
90 % 66 66 759
70 % 69 69 766
50 % 74 74 744
40 % 74 74 777
30 % 74 74 779
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 % 161 161 182
95 % 161 161 233 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 161 161 239
70 % 166 166 254
50 % 168 168 271
40 % 179 179 281
30 % 179 179 295
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 % 155 155 188
95 % 155 155 241 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 155 155 250
70 % 155 155 281
50 % 173 174 260
40 % 173 174 288
30 % 173 174 301
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 69 537
95 % 69 69 673 Flexibility: Low
Max RMSD: 4.2, Avg RMSD: 0.7
PDBFlex
90 % 69 69 698
70 % 69 69 740
50 % 88 88 559
40 % 88 88 601
30 % 88 88 605
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 % 159 160 184
95 % 160 161 232 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 160 161 240
70 % 160 161 270
50 % 165 166 280
40 % 165 166 312
30 % 179 180 292
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 % 126 126 236
95 % 126 126 313 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 126 126 323
70 % 131 131 348
50 % 133 133 401
40 % 133 133 432
30 % 144 144 405

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 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
2 3S14 7 I DNA-directed RNA polymerase II subunit RPB9 4932
3 3CQZ 7 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
4 3PO2 9 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
5 3RZO 7 I DNA-directed RNA polymerase II subunit RPB9 4932
6 3PO3 9 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
7 3S1M 7 I DNA-directed RNA polymerase II subunit RPB9 4932
8 4A3E 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
9 5OT2 9 I DNA-directed RNA polymerase II subunit RPB9 4932
10 3S1R 7 I DNA-directed RNA polymerase II subunit RPB9 4932
11 4A3D 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
12 3S1N 7 I DNA-directed RNA polymerase II subunit RPB9 4932
13 5IP7 9 I DNA-directed RNA polymerase II subunit RPB9 4932
14 4A3F 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
15 4A93 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
16 1K83 7 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932 2.7.7.6 | Details
17 1I50 7 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932 2.7.7.6 | Details
18 4BY7 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
19 3S2D 7 I DNA-directed RNA polymerase II subunit RPB9 4932
20 4A3C 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
21 4A3K 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
22 3S15 7 I DNA-directed RNA polymerase II subunit RPB9 4932
23 4A3L 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
24 4BXX 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
25 3S1Q 7 I DNA-directed RNA polymerase II subunit RPB9 4932
26 3S16 7 I DNA-directed RNA polymerase II subunit RPB9 4932
27 3S17 7 I DNA-directed RNA polymerase II subunit RPB9 4932
28 4A3G 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
29 4A3B 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
30 4BBR 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
31 2NVQ 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
32 3RZD 7 I DNA-directed RNA polymerase II subunit RPB9 4932
33 4A3J 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
34 3S2H 7 I DNA-directed RNA polymerase II subunit RPB9 4932
35 3M3Y 7 I DNA-directed RNA polymerase II subunit RPB9 4932
36 4A3I 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
37 6BM4 7 I DNA-directed RNA polymerase II subunit RPB9 4932
38 4BY1 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
39 4A3M 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
40 6BLP 7 I DNA-directed RNA polymerase II subunit RPB9 4932
41 4Y7N 7 I DNA-directed RNA polymerase II subunit RPB9 4932
42 5IP9 9 I DNA-directed RNA polymerase II subunit RPB9 4932
43 1I3Q 7 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932 2.7.7.6 | Details
44 4BBS 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
45 6BLO 7 I DNA-directed RNA polymerase II subunit RPB9 4932
46 1TWC 7 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932 2.7.7.6 | Details
47 4Y52 7 I DNA-directed RNA polymerase II subunit RPB9 4932
48 6BQF 7 I DNA-directed RNA polymerase II subunit RPB9 4932
49 3HOU 9 I, U DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
50 3HOY 9 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
51 3HOV 9 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
52 6BM2 7 I DNA-directed RNA polymerase II subunit RPB9 4932
53 1TWA 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
54 5C3E 9 I DNA-directed RNA polymerase II subunit RPB9 4932
55 2NVT 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
56 3HOZ 9 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
57 3HOW 9 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
58 3HOX 9 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
59 1I6H 9 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932 2.7.7.6 | Details
60 2R92 11 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
61 2R7Z 12 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
62 1R9T 10 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
63 3I4M 9 I DNA-directed RNA polymerase II subunit RPB9 4932
64 3H3V 9 J DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
65 5U5Q 9 I DNA-directed RNA polymerase II subunit RPB9 4932
66 1TWH 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
67 2NVY 7 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
68 2E2J 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
69 5C4X 9 I DNA-directed RNA polymerase II subunit RPB9 4932
70 2VUM 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932 2.7.7.6 | Details
71 5C44 9 I DNA-directed RNA polymerase II subunit RPB9 4932
72 3M4O 7 I DNA-directed RNA polymerase II subunit RPB9 4932
73 5C4J 7 I DNA-directed RNA polymerase II subunit RPB9 4932
74 2R93 10 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
75 1TWG 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
76 3GTM 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932
77 3I4N 9 I DNA-directed RNA polymerase II subunit RPB9 4932
78 2E2I 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
79 3GTL 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932
80 4BXZ 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932 2.7.7.6 | Details
81 3GTK 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932
82 5C4A 9 I DNA-directed RNA polymerase II subunit RPB9 4932
83 3K1F 9 I DNA-directed RNA polymerase II subunit RPB9 4932 2.7.7.6 | Details
84 3GTJ 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932
85 3GTG 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932
86 2YU9 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
87 1WCM 9 I DNA-DIRECTED RNA POLYMERASE II 14.2 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
88 2JA7 12 I, U DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932 2.7.7.6 | Details
89 4X6A 7 I DNA-directed RNA polymerase II subunit RPB9 4932
90 4X67 7 I DNA-directed RNA polymerase II subunit RPB9 4932
91 1Y1W 12 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
92 3K7A 7 I DNA-directed RNA polymerase II subunit RPB9 4932
93 2JA8 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932 2.7.7.6 | Details
94 2JA5 9 I DNA-directed RNA polymerase II subunit RPB9 4932
95 2NVX 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
96 2B63 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
97 3GTQ 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932
98 3GTP 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932
99 1Y1V 9 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
100 3GTO 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932
101 3FKI 9 I DNA-directed RNA polymerase II subunit RPB9 4932
102 1Y1Y 11 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
103 1SFO 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
104 2E2H 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
105 2JA6 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932 2.7.7.6 | Details
106 2NVZ 10 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
107 1Y77 12 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
108 1NIK 9 I DNA-directed RNA polymerase II, chain RPB9 4932 2.7.7.6 | Details
109 1R9S 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
110 1R5U 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
111 2B8K 9 I DNA-directed RNA polymerase II subunit 9 4932 2.7.7.6 | Details
112 5OQM 9 I DNA-directed RNA polymerase II subunit RPB9 4932
113 5OQJ 9 I DNA-directed RNA polymerase II subunit RPB9 4932
114 5VVS 9 I DNA-directed RNA polymerase II subunit RPB9 4932
115 5VVR 9 I DNA-directed RNA polymerase II subunit RPB9 4932
116 5SVA 9 I DNA-directed RNA polymerase II subunit RPB9 4932
117 5FYW 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
118 5FZ5 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
119 5FMF 11 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
120 4V1M 7 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
121 4V1N 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
122 4V1O 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932
123 3J1N 9 I DNA-directed RNA polymerase II subunit RPB9 4932
124 3J0K 9 I DNA-directed RNA polymerase II subunit 9 9606 2.7.7.6 | Details
125 1PQV 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details
126 1NT9 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932 2.7.7.6 | Details