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 7081
95 % 12 191 73 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 0.5
PDBFlex
90 % 12 200 70
70 % 13 208 79
50 % 14 219 103
40 % 14 219 121
30 % 14 219 132
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 22 974
95 % 6 113 151 Flexibility: No
Max RMSD: 9.7, Avg RMSD: 0.5
PDBFlex
90 % 12 186 80
70 % 12 200 88
50 % 12 200 117
40 % 12 200 139
30 % 12 200 152
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 71 200
95 % 17 193 74 Flexibility: Low
Max RMSD: 11.4, Avg RMSD: 1.1
PDBFlex
90 % 17 200 74
70 % 17 203 85
50 % 17 207 112
40 % 17 207 132
30 % 17 207 146
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 % 17 206 51
95 % 17 209 62 Flexibility: Low
Max RMSD: 13.3, Avg RMSD: 1.1
PDBFlex
90 % 17 217 67
70 % 17 217 77
50 % 17 217 106
40 % 17 217 125
30 % 17 217 141

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 6N1Z 3 C, F Histone H2B 1.1 HISTONE H2B 1.1 8355
55 3AFA 4 D, H Histone H2B type 1-J 9606
56 5E5A 5 D, H Histone H2B 1.1 8355
57 3REJ 4 D, H Histone H2B 1.1 8355
58 3AZF 4 D, H Histone H2B type 1-J 9606
59 5GTC 4 D, H Histone H2B type 1-J 9606
60 1P3P 5 D, H Histone H2B 8355
61 3AV1 4 D, H Histone H2B type 1-J 9606
62 1M1A 5 D, H Histone H2B.1 8355
63 5CPK 4 D, H Histone H2B type 1-J 9606
64 5AY8 4 D, H Histone H2B type 1-J 9606
65 3MNN 4 D, H Histone H2B 1.1 8355
66 1P3G 5 D, H Histone H2B 8355
67 4J8W 4 D, H Histone H2B 1.1 8355
68 1P34 5 D, H Histone H2B 8355
69 5XF3 4 D, H Histone H2B type 1-J 9606
70 3X1V 5 D, H Histone H2B type 1-A 10090
71 5ONG 6 D, H Histone H2B 1.1 8355
72 5ONW 6 D, H Histone H2B 1.1 8355
73 5DNM 4 D, H Histone H2B 1.1 8355
74 3MGQ 4 D, H Histone H2B 1.1 8355
75 3WTP 4 D, H Histone H2B type 1-J 9606
76 3X1T 5 D, H Histone H2B type 1-A 10090
77 2NZD 6 D, H Histone H2B 8355
78 3A6N 4 D, H Histone H2B type 1-J 9606
79 5DNN 4 D, H Histone H2B 1.1 8355
80 5GT3 4 D, H Histone H2B type 1-A 9606
81 5GT0 4 D, H Histone H2B type 1-J 9606
82 3LJA 4 D, H Histone H2B 1.1 8355
83 3AZI 4 D, H Histone H2B type 1-J 9606
84 3TU4 4 D, H Histone H2B 1.1 8355
85 1P3O 5 D, H Histone H2B 8355
86 1KX4 5 D, H histone H2B.2 8355
87 3AZN 4 D, H Histone H2B type 1-J 9606
88 1P3M 5 D, H Histone H2B 8355
89 4J8V 4 D, H Histone H2B 1.1 8355
90 5B33 4 D, H Histone H2B type 1-J 9606
91 3X1S 4 D, H Histone H2B type 1-B 9606
92 3LZ0 4 D, H Histone H2B 1.1 8355
93 1P3F 5 D, H Histone H2B 8355
94 1P3K 5 D, H Histone H2B 8355
95 5B2I 4 D, H Histone H2B type 1-J 9606
96 1P3A 5 D, H Histone H2B 8355
97 3LZ1 4 D, H Histone H2B 1.1 8355
98 5GXQ 4 D, H Histone H2B type 1-J 9606
99 2F8N 4 D Histone 3, H2ba 10090
100 2F8N 5 H Histone H2B.1 8355
101 4Z5T 4 D, H Histone H2B type 1-J 9606
102 1U35 5 D, H histone 3, H2ba 10090
103 5XM0 4 D, H Histone H2B type 3-A 10090
104 3AV2 4 D, H Histone H2B type 1-J 9606
105 3AYW 4 D, H Histone H2B type 1-J 9606
106 5XF5 4 D, H Histone H2B type 1-J 9606
107 3AZJ 4 D, H Histone H2B type 1-J 9606
108 3REK 4 D, H Histone H2B 1.1 8355
109 4KGC 4 D, H Histone H2B 1.1 8355
110 1ZLA 5 D, H histone H2B 8355
111 5GSU 4 D, H Histone H2B type 1-A 9606
112 5XF4 4 D, H Histone H2B type 1-J 9606
113 3REL 4 D, H Histone H2B 1.1 8355
114 5GSE 4 D, H, N Histone H2B type 1-J 9606
115 3REI 4 D, H Histone H2B 1.1 8355
116 1P3B 5 D, H Histone H2B 8355
117 3WKJ 4 D, H Histone H2B type 1-A 9606
118 4KUD 4 D, H Histone H2B.1 4932
119 3AZK 4 D, H Histone H2B type 1-J 9606
120 4J8X 4 D, H Histone H2B 1.1 8355
121 3LEL 4 D, H, N, R Histone H2B 1.1 8355
122 3KUY 4 D, H Histone H2B 8355
123 4R8P 4 D, H Histone H2B 1.1 8355
124 3AZM 4 D, H Histone H2B type 1-J 9606
125 3X1U 5 D, H Histone H2B type 1-B 9606
126 3MGS 4 D, H Histone H2B 1.1 8355
127 3WA9 4 D, H Histone H2B type 1-J 9606
128 1ID3 5 D, H HISTONE H2B.2 4932
129 3C1C 4 D, H Histone 2, H2bf 8364
130 3AZH 4 D, H Histone H2B type 1-J 9606
131 5B40 4 D, H Histone H2B type 1-J 9606
132 3WAA 4 D, H Histone H2B type 1-J 9606
133 5CPI 4 D, H Histone H2B type 1-J 9606
134 4JJN 4 D, H Histone H2B.2 4932
135 3W99 4 D, H Histone H2B type 1-J 9606
136 3AZE 4 D, H Histone H2B type 1-J 9606
137 3W96 4 D, H Histone H2B type 1-J 9606
138 5XM1 4 D, H Histone H2B type 3-A 10090
139 5CPJ 4 D, H Histone H2B type 1-J 9606
140 5B24 4 D, H Histone H2B type 1-J 9606
141 2HIO 2 B PROTEIN (HISTONE H2B) 9031
142 4QLC 6 D, H Histone H2B 7227
143 4LD9 4 D, H Histone H2B 1.1 8355
144 3O62 4 D, H Histone H2B 1.1 8355
145 4XUJ 4 D, H Histone H2B 1.1 UNP residues 2-126 8355
146 4YM5 4 D, H Histone H2B type 1-J 9606
147 4YM6 4 D, H Histone H2B type 1-J 9606
148 2FJ7 6 D, H Histone H2B 8355
149 3W98 4 D, H Histone H2B type 1-J 9606
150 4ZUX 4 D, H, N, R Histone H2B 1.1 8355
151 3AN2 4 D, H Histone H2B type 1-J 9606
152 3B6F 6 D, H Histone H2B 1.1 8355
153 5OY7 1 D, H, L, P, T, X, b, f Histone H2B 1.1 8355
154 3B6G 6 D, H Histone H2B 1.1 8355
155 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
156 3KXB 4 D, H Histone H2B 1.1 8355
157 5HQ2 4 H Histone H2B 1.1 8355
158 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
159 5OXV 2 D, H, N, R Histone H2B 1.1 8355
160 1ZBB 6 D, H, d, h Histone H2B.1 8355
161 6J99 4 D, H Histone H2B 1.1 8355
162 6NQA 5 D, H Histone H2B 1.1 8355
163 6NOG 4 D, H Histone H2B 1.1 8355
164 6NN6 4 D, H Histone H2B 1.1 8355
165 6J4W 22 d, h Histone H2B type 1-J 9606
166 6J4X 22 d, h Histone H2B type 1-J 9606
167 6J4Y 22 d, h Histone H2B type 1-J 9606
168 6J4Z 21 d, h Histone H2B type 1-J 9606
169 6J50 21 d, h Histone H2B type 1-J 9606
170 6J51 22 d, h Histone H2B type 1-J 9606
171 6NJ9 3 D, H Histone H2B 1.1 8355
172 6I84 6 R, W Histone H2B 1.1 8355
173 6IR9 22 d, h Histone H2B type 1-J 9606
174 6HTS 8 L, P Histone H2B type 1-J 9606
175 6A5O 19 d, h Histone H2B type 1-J 9606
176 6A5P 19 d, h Histone H2B type 1-J 9606
177 6A5R 19 d, h Histone H2B type 1-J 9606
178 6A5T 19 d, h Histone H2B type 1-J 9606
179 6A5U 19 d, h Histone H2B, Histone H2B type 1-J 9606
180 6A5V 19 d, h Histone H2B, Histone H2B type 1-J 9606
181 6A5L 19 d, h Histone H2B type 1-J 9606
182 6GEN 5 G, H Histone H2B.1 4932
183 6GEJ 5 G, H Histone H2B.1 4932
184 6G0L 4 D, H Histone H4 8355
185 6FTX 4 D, H Histone H2B 8364
186 6FML 12 P, T Histone H2B type 1-C/E/F/G/I 9606
187 6C0W 4 D, H Histone H2B 9606
188 6BUZ 4 D, H Histone H2B 9606
189 6ESF 4 D, H Histone H2B 1.1 8355
190 6ESG 4 D, H Histone H2B 1.1 8355
191 6ESH 4 D, H Histone H2B 1.1 8355
192 6ESI 4 D Histone H2B 1.1 8355
193 6ESI 5 H Histone H2B 1.1 8355
194 5O9G 4 D Histone H2B 1.1 8355
195 5O9G 5 H Histone H2B 1.1 8355
196 5X0X 4 D, H Histone H2B 1.1 8355
197 5X0Y 4 D, H Histone H2B 1.1 8355
198 5KGF 4 D, H Histone H2B type 1-C/E/F/G/I 9606
199 2RVQ 2 D Histone H2B type 1-J 9606
200 3C9K 2 B, F Histone H2B 7 9031