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 6954
95 % 12 177 73 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 0.5
PDBFlex
90 % 12 186 74
70 % 13 194 85
50 % 14 205 107
40 % 14 205 127
30 % 14 205 139
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 22 952
95 % 12 171 77 Flexibility: No
Max RMSD: 9.7, Avg RMSD: 0.5
PDBFlex
90 % 12 171 82
70 % 12 185 92
50 % 12 185 126
40 % 12 185 145
30 % 12 185 160
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 70 202
95 % 17 181 72 Flexibility: Low
Max RMSD: 11.4, Avg RMSD: 1.1
PDBFlex
90 % 17 188 76
70 % 17 189 88
50 % 17 193 118
40 % 17 193 142
30 % 17 193 153
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 % 17 192 53
95 % 17 195 66 Flexibility: Low
Max RMSD: 13.3, Avg RMSD: 1.2
PDBFlex
90 % 17 203 69
70 % 17 203 83
50 % 17 203 111
40 % 17 203 132
30 % 17 203 144

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 5BT1 3 D Histone H2B.1 4932
45 5XF6 4 D, H Histone H2B 1.1 8355
46 3MGP 4 D, H Histone H2B 1.1 8355
47 3MVD 4 D, H Histone H2B 1.1 8355
48 4J8U 4 D, H Histone H2B 1.1 8355
49 4WU9 4 D, H Histone H2B 1.1 8355
50 3REH 4 D, H Histone H2B 1.1 8355
51 3AZL 4 D, H Histone H2B type 1-J 9606
52 3AFA 4 D, H Histone H2B type 1-J 9606
53 5E5A 5 D, H Histone H2B 1.1 8355
54 3REJ 4 D, H Histone H2B 1.1 8355
55 3AZF 4 D, H Histone H2B type 1-J 9606
56 5GTC 4 D, H Histone H2B type 1-J 9606
57 1P3P 5 D, H Histone H2B 8355
58 3AV1 4 D, H Histone H2B type 1-J 9606
59 1M1A 5 D, H Histone H2B.1 8355
60 5CPK 4 D, H Histone H2B type 1-J 9606
61 5AY8 4 D, H Histone H2B type 1-J 9606
62 3MNN 4 D, H Histone H2B 1.1 8355
63 1P3G 5 D, H Histone H2B 8355
64 4J8W 4 D, H Histone H2B 1.1 8355
65 1P34 5 D, H Histone H2B 8355
66 5XF3 4 D, H Histone H2B type 1-J 9606
67 3X1V 5 D, H Histone H2B type 1-A 10090
68 5ONG 6 D, H Histone H2B 1.1 8355
69 5ONW 6 D, H Histone H2B 1.1 8355
70 5DNM 4 D, H Histone H2B 1.1 8355
71 3MGQ 4 D, H Histone H2B 1.1 8355
72 3WTP 4 D, H Histone H2B type 1-J 9606
73 3X1T 5 D, H Histone H2B type 1-A 10090
74 2NZD 6 D, H Histone H2B 8355
75 3A6N 4 D, H Histone H2B type 1-J 9606
76 5DNN 4 D, H Histone H2B 1.1 8355
77 5GT3 4 D, H Histone H2B type 1-A 9606
78 5GT0 4 D, H Histone H2B type 1-J 9606
79 3LJA 4 D, H Histone H2B 1.1 8355
80 3AZI 4 D, H Histone H2B type 1-J 9606
81 3TU4 4 D, H Histone H2B 1.1 8355
82 1P3O 5 D, H Histone H2B 8355
83 1KX4 5 D, H histone H2B.2 8355
84 3AZN 4 D, H Histone H2B type 1-J 9606
85 1P3M 5 D, H Histone H2B 8355
86 4J8V 4 D, H Histone H2B 1.1 8355
87 5B33 4 D, H Histone H2B type 1-J 9606
88 3X1S 4 D, H Histone H2B type 1-B 9606
89 3LZ0 4 D, H Histone H2B 1.1 8355
90 1P3F 5 D, H Histone H2B 8355
91 1P3K 5 D, H Histone H2B 8355
92 5B2I 4 D, H Histone H2B type 1-J 9606
93 1P3A 5 D, H Histone H2B 8355
94 3LZ1 4 D, H Histone H2B 1.1 8355
95 5GXQ 4 D, H Histone H2B type 1-J 9606
96 2F8N 4 D Histone 3, H2ba 10090
97 2F8N 5 H Histone H2B.1 8355
98 4Z5T 4 D, H Histone H2B type 1-J 9606
99 1U35 5 D, H histone 3, H2ba 10090
100 5XM0 4 D, H Histone H2B type 3-A 10090
101 3AV2 4 D, H Histone H2B type 1-J 9606
102 3AYW 4 D, H Histone H2B type 1-J 9606
103 5XF5 4 D, H Histone H2B type 1-J 9606
104 3AZJ 4 D, H Histone H2B type 1-J 9606
105 3REK 4 D, H Histone H2B 1.1 8355
106 4KGC 4 D, H Histone H2B 1.1 8355
107 1ZLA 5 D, H histone H2B 8355
108 5GSU 4 D, H Histone H2B type 1-A 9606
109 5XF4 4 D, H Histone H2B type 1-J 9606
110 3REL 4 D, H Histone H2B 1.1 8355
111 5GSE 4 D, H, N Histone H2B type 1-J 9606
112 3REI 4 D, H Histone H2B 1.1 8355
113 1P3B 5 D, H Histone H2B 8355
114 3WKJ 4 D, H Histone H2B type 1-A 9606
115 4KUD 4 D, H Histone H2B.1 4932
116 3AZK 4 D, H Histone H2B type 1-J 9606
117 4J8X 4 D, H Histone H2B 1.1 8355
118 3LEL 4 D, H, N, R Histone H2B 1.1 8355
119 3KUY 4 D, H Histone H2B 8355
120 4R8P 4 D, H Histone H2B 1.1 8355
121 3AZM 4 D, H Histone H2B type 1-J 9606
122 3X1U 5 D, H Histone H2B type 1-B 9606
123 3MGS 4 D, H Histone H2B 1.1 8355
124 3WA9 4 D, H Histone H2B type 1-J 9606
125 1ID3 5 D, H HISTONE H2B.2 4932
126 3C1C 4 D, H Histone 2, H2bf 8364
127 3AZH 4 D, H Histone H2B type 1-J 9606
128 5B40 4 D, H Histone H2B type 1-J 9606
129 3WAA 4 D, H Histone H2B type 1-J 9606
130 5CPI 4 D, H Histone H2B type 1-J 9606
131 4JJN 4 D, H Histone H2B.2 4932
132 3W99 4 D, H Histone H2B type 1-J 9606
133 3AZE 4 D, H Histone H2B type 1-J 9606
134 3W96 4 D, H Histone H2B type 1-J 9606
135 5XM1 4 D, H Histone H2B type 3-A 10090
136 5CPJ 4 D, H Histone H2B type 1-J 9606
137 5B24 4 D, H Histone H2B type 1-J 9606
138 2HIO 2 B PROTEIN (HISTONE H2B) 9031
139 4QLC 6 D, H Histone H2B 7227
140 4LD9 4 D, H Histone H2B 1.1 8355
141 3O62 4 D, H Histone H2B 1.1 8355
142 4XUJ 4 D, H Histone H2B 1.1 UNP residues 2-126 8355
143 4YM5 4 D, H Histone H2B type 1-J 9606
144 4YM6 4 D, H Histone H2B type 1-J 9606
145 2FJ7 6 D, H Histone H2B 8355
146 3W98 4 D, H Histone H2B type 1-J 9606
147 4ZUX 4 D, H, N, R Histone H2B 1.1 8355
148 3AN2 4 D, H Histone H2B type 1-J 9606
149 3B6F 6 D, H Histone H2B 1.1 8355
150 5OY7 1 D, H, L, P, T, X, b, f Histone H2B 1.1 8355
151 3B6G 6 D, H Histone H2B 1.1 8355
152 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
153 3KXB 4 D, H Histone H2B 1.1 8355
154 5HQ2 4 H Histone H2B 1.1 8355
155 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
156 5OXV 2 D, H, N, R Histone H2B 1.1 8355
157 1ZBB 6 D, H, d, h Histone H2B.1 8355
158 6I84 6 R, W Histone H2B 1.1 8355
159 6HTS 8 L, P Histone H2B type 1-J 9606
160 6A5O 19 d, h Histone H2B type 1-J 9606
161 6A5P 19 d, h Histone H2B type 1-J 9606
162 6A5R 19 d, h Histone H2B type 1-J 9606
163 6A5T 19 d, h Histone H2B type 1-J 9606
164 6A5U 19 d, h Histone H2B, Histone H2B type 1-J 9606
165 6A5V 19 d, h Histone H2B, Histone H2B type 1-J 9606
166 6A5L 19 d, h Histone H2B type 1-J 9606
167 6GEN 5 G, H Histone H2B.1 4932
168 6GEJ 5 G, H Histone H2B.1 4932
169 6G0L 4 D, H Histone H4 8355
170 6FTX 4 D, H Histone H2B 8364
171 6FML 12 P, T Histone H2B type 1-C/E/F/G/I 9606
172 6C0W 4 D, H Histone H2B 9606
173 6BUZ 4 D, H Histone H2B 9606
174 6ESF 4 D, H Histone H2B 1.1 8355
175 6ESG 4 D, H Histone H2B 1.1 8355
176 6ESH 4 D, H Histone H2B 1.1 8355
177 6ESI 4 D Histone H2B 1.1 8355
178 6ESI 5 H Histone H2B 1.1 8355
179 5O9G 4 D Histone H2B 1.1 8355
180 5O9G 5 H Histone H2B 1.1 8355
181 5X0X 4 D, H Histone H2B 1.1 8355
182 5X0Y 4 D, H Histone H2B 1.1 8355
183 5KGF 4 D, H Histone H2B type 1-C/E/F/G/I 9606
184 2RVQ 2 D Histone H2B type 1-J 9606
185 3C9K 2 B, F Histone H2B 7 9031