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 % 130 130 245
95 % 130 130 313 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 1.6
PDBFlex
90 % 130 130 326
70 % 142 142 339
50 % 157 157 366
40 % 157 157 399
30 % 157 157 403
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 % 171 171 184
95 % 171 171 233 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 171 171 242
70 % 198 198 216
50 % 206 206 223
40 % 206 206 252
30 % 206 206 267
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 % 132 132 234
95 % 132 132 301 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 132 132 312
70 % 132 132 362
50 % 144 144 403
40 % 146 146 422
30 % 146 146 420
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 % 167 167 187
95 % 167 167 238 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 167 167 245
70 % 167 167 280
50 % 179 179 278
40 % 179 179 313
30 % 179 179 321
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 % 132 132 237
95 % 132 132 302 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.2
PDBFlex
90 % 132 132 313
70 % 146 146 332
50 % 159 159 359
40 % 167 167 357
30 % 338 340 143
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 % 127 127 248
95 % 127 127 323 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 127 127 336
70 % 127 127 385
50 % 127 127 453
40 % 127 127 491
30 % 127 127 496
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 % 69 69 598
95 % 69 69 736 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.8
PDBFlex
90 % 69 69 769
70 % 72 72 781
50 % 84 84 680
40 % 84 84 718
30 % 84 84 722
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 % 172 172 181
95 % 172 172 230 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 172 172 239
70 % 184 184 241
50 % 186 186 263
40 % 199 199 270
30 % 199 199 284
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 % 166 166 188
95 % 166 166 240 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 166 166 247
70 % 166 166 283
50 % 193 194 245
40 % 193 194 277
30 % 193 194 291
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 % 72 72 551
95 % 72 72 686 Flexibility: Low
Max RMSD: 4.4, Avg RMSD: 0.7
PDBFlex
90 % 72 72 708
70 % 72 72 754
50 % 100 100 519
40 % 100 100 563
30 % 100 100 573
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 % 170 171 185
95 % 171 172 231 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.9
PDBFlex
90 % 171 172 240
70 % 171 172 268
50 % 183 184 266
40 % 183 184 302
30 % 199 200 282
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 % 131 131 240
95 % 131 131 304 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 131 131 316
70 % 143 143 336
50 % 145 145 398
40 % 145 145 423
30 % 160 160 393

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 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
2 3S14 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
3 3CQZ 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
4 3PO2 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
5 3RZO 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
6 3PO3 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
7 3S1M 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
8 4A3E 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
9 5OT2 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
10 3S1R 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
11 4A3D 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
12 3S1N 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
13 5IP7 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
14 4A3F 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
15 4A93 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
16 1K83 2 B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE 4932 2.7.7.6 | Details
17 1I50 2 B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE 4932 2.7.7.6 | Details
18 4BY7 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
19 3S2D 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
20 4A3C 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
21 4A3K 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
22 3S15 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
23 4A3L 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
24 4BXX 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
25 3S1Q 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
26 3S16 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
27 3S17 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
28 4A3G 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
29 4A3B 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
30 4BBR 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
31 2NVQ 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
32 3RZD 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
33 4A3J 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
34 3S2H 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
35 3M3Y 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
36 4A3I 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
37 6BM4 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
38 4BY1 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
39 4A3M 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
40 6BLP 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
41 4Y7N 2 B DNA-directed RNA polymerase II subunit RPB2,DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
42 5IP9 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
43 1I3Q 2 B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE 4932 2.7.7.6 | Details
44 4BBS 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
45 6BLO 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
46 1TWC 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
47 4Y52 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
48 6BQF 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
49 3HOU 2 B, N DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
50 3HOY 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
51 3HOV 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
52 6BM2 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
53 1TWA 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
54 5C3E 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
55 5W51 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
56 2NVT 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
57 3HOZ 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
58 3HOW 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
59 3HOX 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
60 1I6H 4 B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE 4932 2.7.7.6 | Details
61 2R92 4 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
62 5W4U 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
63 2R7Z 5 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
64 1R9T 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
65 3I4M 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
66 3H3V 2 C DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
67 5U5Q 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
68 1TWH 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
69 2NVY 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
70 2E2J 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
71 5C4X 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
72 2VUM 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
73 5C44 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
74 3M4O 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
75 5C4J 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
76 2R93 3 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
77 1TWG 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
78 3GTM 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
79 3I4N 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
80 2E2I 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
81 3GTL 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
82 4BXZ 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
83 3GTK 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
84 5C4A 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
85 3K1F 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
86 3GTJ 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
87 3GTG 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
88 2YU9 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
89 1WCM 2 B DNA-DIRECTED RNA POLYMERASE II SECOND LARGEST SUBUNIT 4932 2.7.7.6 | Details
90 2JA7 5 B, N DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
91 4X6A 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
92 4X67 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
93 1Y1W 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
94 3QT1 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
95 3K7A 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
96 2JA8 2 B DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
97 2JA5 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
98 2NVX 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
99 2B63 3 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
100 3GTQ 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
101 3GTP 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
102 1Y1V 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
103 3GTO 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
104 3FKI 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
105 1Y1Y 4 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
106 1SFO 4 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
107 2E2H 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
108 2JA6 2 B DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE 4932 2.7.7.6 | Details
109 2NVZ 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
110 1Y77 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
111 1NIK 2 B ORF YOR151c 4932 2.7.7.6 | Details
112 1R9S 4 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
113 1R5U 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
114 2B8K 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
115 6GYK 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
116 6GYL 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
117 6GYM 10 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
118 5OQM 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
119 5OQJ 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
120 5VVS 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
121 5VVR 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
122 5SVA 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
123 5FYW 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
124 5FZ5 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
125 5FMF 4 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
126 4V1M 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
127 4V1N 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
128 4V1O 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932 2.7.7.6 | Details
129 3J1N 2 B DNA-directed RNA polymerase II subunit RPB2 4932 2.7.7.6 | Details
130 3J0K 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 9606 2.7.7.6 | Details
131 1PQV 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932 2.7.7.6 | Details
132 1NT9 2 B DNA-directed polymerase II SECOND LARGEST SUBUNIT 4932 2.7.7.6 | Details