Sequence Similarity Clusters for the Entities in PDB 1HQ3

Entity #1 | Chains: A,E
HISTONE H2A-IV protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 3 6 7015
95 % 12 189 73 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 0.5
PDBFlex
90 % 12 198 68
70 % 13 206 78
50 % 14 217 102
40 % 14 217 120
30 % 14 217 131
Entity #2 | Chains: B,F
HISTONE H2B protein, length: 126 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 3 22 966
95 % 6 111 152 Flexibility: No
Max RMSD: 9.7, Avg RMSD: 0.5
PDBFlex
90 % 12 184 79
70 % 12 198 87
50 % 12 198 116
40 % 12 198 139
30 % 12 198 152
Entity #3 | Chains: C,G
HISTONE H3 protein, length: 136 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 9 70 203
95 % 17 192 71 Flexibility: Low
Max RMSD: 11.4, Avg RMSD: 1.1
PDBFlex
90 % 17 199 71
70 % 17 202 83
50 % 17 206 111
40 % 17 206 131
30 % 17 206 144
Entity #4 | Chains: D,H
HISTONE H4-VI protein, length: 103 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 17 205 49
95 % 17 208 60 Flexibility: Low
Max RMSD: 13.3, Avg RMSD: 1.2
PDBFlex
90 % 17 216 64
70 % 17 216 75
50 % 17 216 104
40 % 17 216 124
30 % 17 216 138

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


ACTION - (A) Select for download / view details OR (B) Select two chains for comparison
Rank PDB ID Entity ID Chains Description Details Taxonomy EC Number
1 1TZY 2 B, F Histone H2B 9031
2 1KX5 6 D, H histone H2B.2 8355
3 2ARO 2 B, F Histone H2B 9031
4 5B0Z 4 D, H Histone H2B type 1-J 9606
5 5Y0D 4 D, H Histone H2B type 1-J 9606
6 5Y0C 5 D, H Histone H2B type 1-J 9606
7 1S32 5 D, H Histone H2B 8355
8 5AV8 4 D, H Histone H2B type 1-J 9606
9 1KX3 5 D, H histone H2B.2 8355
10 5AV9 4 D, H Histone H2B type 1-J 9606
11 5AV6 4 D, H Histone H2B type 1-J 9606
12 1HQ3 2 B, F HISTONE H2B 9031
13 3UTA 4 D, H Histone H2B 1.1 8355
14 5X7X 4 D, H Histone H2B type 1-J 9606
15 5B31 4 D, H Histone H2B type 1-J 9606
16 5B1L 4 D, H Histone H2B type 3-A 10090
17 3UTB 4 D, H Histone H2B 1.1 8355
18 1M19 5 D, H Histone H2B.1 8355
19 5AVB 4 D, H Histone H2B type 1-J 9606
20 5AVC 4 D, H Histone H2B type 1-J 9606
21 5AV5 4 D, H Histone H2B type 1-J 9606
22 3C1B 4 D, H Histone 2, H2bf 8364
23 5B1M 4 D, H Histone H2B type 3-A 10090
24 2NQB 5 D, H Histone H2B 7227
25 5OMX 6 D, H Histone H2B 1.1 8355
26 5F99 4 D, H Histone H2B 1.1 8355
27 5Z30 4 D, H Histone H2B type 1-J 9606
28 5JRG 4 D, H Histone H2B type 1-J 9606
29 3UT9 4 D, H Histone H2B 1.1 8355
30 5B32 4 D, H Histone H2B type 1-J 9606
31 4WU8 6 D, H Histone H2B 1.1 8355
32 1P3I 5 D, H Histone H2B 8355
33 3MGR 4 D, H Histone H2B 1.1 8355
34 1F66 5 D, H HISTONE H2B 8355
35 3AZG 4 D, H Histone H2B type 1-J 9606
36 1M18 5 D, H Histone H2B.1 8355
37 5B2J 4 D, H Histone H2B type 1-J 9606
38 2PYO 6 D, H Histone H2B 7227
39 1P3L 5 D, H Histone H2B 8355
40 1EQZ 3 B, F PROTEIN (HISTONE H2B) SUBUNIT OF SALT-EXTRACTED HISTONE OCTAMER 9031
41 5B0Y 4 D, H Histone H2B type 1-J 9606
42 2CV5 5 D, H Histone H2B K 9606
43 5CP6 6 D, H Histone H2B 1.1 8355
44 5ZBX 4 D, H Histone H2B type 1-J 9606
45 5BT1 3 D Histone H2B.1 4932
46 5XF6 4 D, H Histone H2B 1.1 8355
47 3MGP 4 D, H Histone H2B 1.1 8355
48 3MVD 4 D, H Histone H2B 1.1 8355
49 4J8U 4 D, H Histone H2B 1.1 8355
50 4WU9 4 D, H Histone H2B 1.1 8355
51 3REH 4 D, H Histone H2B 1.1 8355
52 3AZL 4 D, H Histone H2B type 1-J 9606
53 5Z23 4 D, H Histone H2B type 1-J Se-Met-substituted H2B 9606
54 3AFA 4 D, H Histone H2B type 1-J 9606
55 5E5A 5 D, H Histone H2B 1.1 8355
56 3REJ 4 D, H Histone H2B 1.1 8355
57 3AZF 4 D, H Histone H2B type 1-J 9606
58 5GTC 4 D, H Histone H2B type 1-J 9606
59 1P3P 5 D, H Histone H2B 8355
60 3AV1 4 D, H Histone H2B type 1-J 9606
61 1M1A 5 D, H Histone H2B.1 8355
62 5CPK 4 D, H Histone H2B type 1-J 9606
63 5AY8 4 D, H Histone H2B type 1-J 9606
64 3MNN 4 D, H Histone H2B 1.1 8355
65 1P3G 5 D, H Histone H2B 8355
66 4J8W 4 D, H Histone H2B 1.1 8355
67 1P34 5 D, H Histone H2B 8355
68 5XF3 4 D, H Histone H2B type 1-J 9606
69 3X1V 5 D, H Histone H2B type 1-A 10090
70 5ONG 6 D, H Histone H2B 1.1 8355
71 5ONW 6 D, H Histone H2B 1.1 8355
72 5DNM 4 D, H Histone H2B 1.1 8355
73 3MGQ 4 D, H Histone H2B 1.1 8355
74 3WTP 4 D, H Histone H2B type 1-J 9606
75 3X1T 5 D, H Histone H2B type 1-A 10090
76 2NZD 6 D, H Histone H2B 8355
77 3A6N 4 D, H Histone H2B type 1-J 9606
78 5DNN 4 D, H Histone H2B 1.1 8355
79 5GT3 4 D, H Histone H2B type 1-A 9606
80 5GT0 4 D, H Histone H2B type 1-J 9606
81 3LJA 4 D, H Histone H2B 1.1 8355
82 3AZI 4 D, H Histone H2B type 1-J 9606
83 3TU4 4 D, H Histone H2B 1.1 8355
84 1P3O 5 D, H Histone H2B 8355
85 1KX4 5 D, H histone H2B.2 8355
86 3AZN 4 D, H Histone H2B type 1-J 9606
87 1P3M 5 D, H Histone H2B 8355
88 4J8V 4 D, H Histone H2B 1.1 8355
89 5B33 4 D, H Histone H2B type 1-J 9606
90 3X1S 4 D, H Histone H2B type 1-B 9606
91 3LZ0 4 D, H Histone H2B 1.1 8355
92 1P3F 5 D, H Histone H2B 8355
93 1P3K 5 D, H Histone H2B 8355
94 5B2I 4 D, H Histone H2B type 1-J 9606
95 1P3A 5 D, H Histone H2B 8355
96 3LZ1 4 D, H Histone H2B 1.1 8355
97 5GXQ 4 D, H Histone H2B type 1-J 9606
98 2F8N 4 D Histone 3, H2ba 10090
99 2F8N 5 H Histone H2B.1 8355
100 4Z5T 4 D, H Histone H2B type 1-J 9606
101 1U35 5 D, H histone 3, H2ba 10090
102 5XM0 4 D, H Histone H2B type 3-A 10090
103 3AV2 4 D, H Histone H2B type 1-J 9606
104 3AYW 4 D, H Histone H2B type 1-J 9606
105 5XF5 4 D, H Histone H2B type 1-J 9606
106 3AZJ 4 D, H Histone H2B type 1-J 9606
107 3REK 4 D, H Histone H2B 1.1 8355
108 4KGC 4 D, H Histone H2B 1.1 8355
109 1ZLA 5 D, H histone H2B 8355
110 5GSU 4 D, H Histone H2B type 1-A 9606
111 5XF4 4 D, H Histone H2B type 1-J 9606
112 3REL 4 D, H Histone H2B 1.1 8355
113 5GSE 4 D, H, N Histone H2B type 1-J 9606
114 3REI 4 D, H Histone H2B 1.1 8355
115 1P3B 5 D, H Histone H2B 8355
116 3WKJ 4 D, H Histone H2B type 1-A 9606
117 4KUD 4 D, H Histone H2B.1 4932
118 3AZK 4 D, H Histone H2B type 1-J 9606
119 4J8X 4 D, H Histone H2B 1.1 8355
120 3LEL 4 D, H, N, R Histone H2B 1.1 8355
121 3KUY 4 D, H Histone H2B 8355
122 4R8P 4 D, H Histone H2B 1.1 8355
123 3AZM 4 D, H Histone H2B type 1-J 9606
124 3X1U 5 D, H Histone H2B type 1-B 9606
125 3MGS 4 D, H Histone H2B 1.1 8355
126 3WA9 4 D, H Histone H2B type 1-J 9606
127 1ID3 5 D, H HISTONE H2B.2 4932
128 3C1C 4 D, H Histone 2, H2bf 8364
129 3AZH 4 D, H Histone H2B type 1-J 9606
130 5B40 4 D, H Histone H2B type 1-J 9606
131 3WAA 4 D, H Histone H2B type 1-J 9606
132 5CPI 4 D, H Histone H2B type 1-J 9606
133 4JJN 4 D, H Histone H2B.2 4932
134 3W99 4 D, H Histone H2B type 1-J 9606
135 3AZE 4 D, H Histone H2B type 1-J 9606
136 3W96 4 D, H Histone H2B type 1-J 9606
137 5XM1 4 D, H Histone H2B type 3-A 10090
138 5CPJ 4 D, H Histone H2B type 1-J 9606
139 5B24 4 D, H Histone H2B type 1-J 9606
140 2HIO 2 B PROTEIN (HISTONE H2B) 9031
141 4QLC 6 D, H Histone H2B 7227
142 4LD9 4 D, H Histone H2B 1.1 8355
143 3O62 4 D, H Histone H2B 1.1 8355
144 4XUJ 4 D, H Histone H2B 1.1 UNP residues 2-126 8355
145 4YM5 4 D, H Histone H2B type 1-J 9606
146 4YM6 4 D, H Histone H2B type 1-J 9606
147 2FJ7 6 D, H Histone H2B 8355
148 3W98 4 D, H Histone H2B type 1-J 9606
149 4ZUX 4 D, H, N, R Histone H2B 1.1 8355
150 3AN2 4 D, H Histone H2B type 1-J 9606
151 3B6F 6 D, H Histone H2B 1.1 8355
152 5OY7 1 D, H, L, P, T, X, b, f Histone H2B 1.1 8355
153 3B6G 6 D, H Histone H2B 1.1 8355
154 5NL0 4 D, H, N Histone H2B 1.1 The core histones in the uploaded coordinates are those from X. laevis while those in the crystal are human. The reason for the discrepancy is that the structure was solved using pdb 3UT9 as a molecular replacement template (because it had the same 601L DNA sequence and therefore was the closest high-res structure available). 8355
155 3KXB 4 D, H Histone H2B 1.1 8355
156 5HQ2 4 H Histone H2B 1.1 8355
157 6HKT 4 1, 3, D, H, N, R, X, d, h, n, r, x Histone H2B type 1-J THE 3 N-TERMINAL RESIDUES (GSH) COME FROM THE EXPRESSION TAG 9606
158 5OXV 2 D, H, N, R Histone H2B 1.1 8355
159 1ZBB 6 D, H, d, h Histone H2B.1 8355
160 6NQA 5 D, H Histone H2B 1.1 8355
161 6NOG 4 D, H Histone H2B 1.1 8355
162 6NN6 4 D, H Histone H2B 1.1 8355
163 6J4W 22 d, h Histone H2B type 1-J 9606
164 6J4X 22 d, h Histone H2B type 1-J 9606
165 6J4Y 22 d, h Histone H2B type 1-J 9606
166 6J4Z 21 d, h Histone H2B type 1-J 9606
167 6J50 21 d, h Histone H2B type 1-J 9606
168 6J51 22 d, h Histone H2B type 1-J 9606
169 6NJ9 3 D, H Histone H2B 1.1 8355
170 6I84 6 R, W Histone H2B 1.1 8355
171 6IR9 22 d, h Histone H2B type 1-J 9606
172 6HTS 8 L, P Histone H2B type 1-J 9606
173 6A5O 19 d, h Histone H2B type 1-J 9606
174 6A5P 19 d, h Histone H2B type 1-J 9606
175 6A5R 19 d, h Histone H2B type 1-J 9606
176 6A5T 19 d, h Histone H2B type 1-J 9606
177 6A5U 19 d, h Histone H2B, Histone H2B type 1-J 9606
178 6A5V 19 d, h Histone H2B, Histone H2B type 1-J 9606
179 6A5L 19 d, h Histone H2B type 1-J 9606
180 6GEN 5 G, H Histone H2B.1 4932
181 6GEJ 5 G, H Histone H2B.1 4932
182 6G0L 4 D, H Histone H4 8355
183 6FTX 4 D, H Histone H2B 8364
184 6FML 12 P, T Histone H2B type 1-C/E/F/G/I 9606
185 6C0W 4 D, H Histone H2B 9606
186 6BUZ 4 D, H Histone H2B 9606
187 6ESF 4 D, H Histone H2B 1.1 8355
188 6ESG 4 D, H Histone H2B 1.1 8355
189 6ESH 4 D, H Histone H2B 1.1 8355
190 6ESI 4 D Histone H2B 1.1 8355
191 6ESI 5 H Histone H2B 1.1 8355
192 5O9G 4 D Histone H2B 1.1 8355
193 5O9G 5 H Histone H2B 1.1 8355
194 5X0X 4 D, H Histone H2B 1.1 8355
195 5X0Y 4 D, H Histone H2B 1.1 8355
196 5KGF 4 D, H Histone H2B type 1-C/E/F/G/I 9606
197 2RVQ 2 D Histone H2B type 1-J 9606
198 3C9K 2 B, F Histone H2B 7 9031