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 6996
95 % 12 179 74 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 0.5
PDBFlex
90 % 12 188 73
70 % 13 196 82
50 % 14 207 105
40 % 14 207 125
30 % 14 207 140
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 22 963
95 % 6 108 156 Flexibility: No
Max RMSD: 9.7, Avg RMSD: 0.5
PDBFlex
90 % 12 174 80
70 % 12 188 90
50 % 12 188 122
40 % 12 188 144
30 % 12 188 158
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 % 17 182 73 Flexibility: Low
Max RMSD: 11.4, Avg RMSD: 1.1
PDBFlex
90 % 17 189 77
70 % 17 192 88
50 % 17 196 116
40 % 17 196 139
30 % 17 196 153
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 % 17 195 53
95 % 17 198 67 Flexibility: Low
Max RMSD: 13.3, Avg RMSD: 1.2
PDBFlex
90 % 17 206 67
70 % 17 206 81
50 % 17 206 110
40 % 17 206 130
30 % 17 206 144

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 3 C, G HISTONE H3 9031
2 4H9N 1 A Histone H3.3 9606
3 4H9Q 1 A Histone H3.3 9606
4 1KX5 3 A, E histone H3 8355
5 4H9O 1 A Histone H3.3 9606
6 2ARO 3 C, G HISTONE H3 9031
7 5B0Z 1 A, E Histone H3.2 9606
8 5Y0D 1 A, E Histone H3.1 9606
9 5Y0C 2 A, E Histone H3.1 9606
10 4H9R 1 A Histone H3.3 9606
11 1S32 2 A, E histone H3 8355
12 4H9P 1 A Histone H3.3 9606
13 5AV8 1 A, E Histone H3.1 9606
14 1KX3 2 A, E histone H3 8355
15 5AV9 1 A, E Histone H3.1 9606
16 5AV6 1 A, E Histone H3.1 9606
17 1HQ3 3 C, G HISTONE H3 9031
18 3UTA 1 A, E Histone H3.2 8355
19 5X7X 1 A, E Histone H3.3 9606
20 5B31 1 A, E Histone H3.1 9606
21 5B1L 1 A, E Histone H3t 10090
22 3UTB 1 A, E Histone H3.2 8355
23 1M19 2 A, E Histone H3.2 8355
24 5AVB 1 A, E Histone H3.1 9606
25 5AVC 1 A, E Histone H3.1 9606
26 5AV5 1 A, E Histone H3.1 9606
27 3C1B 1 A, E Histone H3-like 8355
28 5B1M 1 A, E Histone H3.1 10090
29 2NQB 2 A, E Histone H3 7227
30 5OMX 3 A, E Histone H3.2 8355
31 5F99 1 A, E Histone H3.2 8355
32 5Z30 1 A, E Histone H3.1 9606
33 5JRG 1 A, E Histone H3.1 9606
34 3UT9 1 A, E Histone H3.2 8355
35 5B32 1 A, E Histone H3.3 9606
36 4WU8 3 A, E Histone H3.2 8355
37 1P3I 2 A, E Histone H3 8355
38 3MGR 1 A, E Histone H3.2 8355
39 1F66 2 A, E HISTONE H3 8355
40 3AZG 1 A, E Histone H3.1 9606
41 4H9S 1 A, B Histone H3.3 9606
42 1M18 2 A, E Histone H3.2 8355
43 5B2J 1 A, E Histone H3.1 9606
44 2PYO 3 A, E Histone H3 7227
45 1P3L 2 A, E Histone H3 8355
46 1EQZ 4 C, G PROTEIN (HISTONE H3) SUBUNIT OF SALT-EXTRACTED HISTONE OCTAMER 9031
47 5B0Y 1 A, E Histone H3.2 9606
48 2CV5 2 A, E Histone H3.1 9606
49 5CP6 3 A, E Histone H3.2 8355
50 5XF6 1 A, E Histone H3.2 8355
51 3MGP 1 A, E Histone H3.2 8355
52 3MVD 1 A, E Histone H3.2 8355
53 4J8U 1 A, E Histone H3.2 8355
54 4WU9 1 A, E Histone H3.2 8355
55 3REH 1 A, E Histone H3.2 8355
56 3AZL 1 A, E Histone H3.1 9606
57 3AFA 1 A, E Histone H3.1 9606
58 5E5A 2 A, E Histone H3.2 8355
59 3REJ 1 A, E Histone H3.2 8355
60 3AZF 1 A, E Histone H3.1 9606
61 5GTC 1 A, E Histone H3.1 9606
62 1P3P 2 A, E Histone H3 8355
63 3AV1 1 A, E Histone H3.2 9606
64 1M1A 2 A, E Histone H3.2 8355
65 5CPK 1 A, E Histone H3.1 9606
66 3MNN 1 A, E Histone H3.2 8355
67 1P3G 2 A, E Histone H3 8355
68 4J8W 1 A, E Histone H3.2 8355
69 1P34 2 A, E Histone H3 8355
70 5XF3 1 A, E Histone H3.1 9606
71 3X1V 2 A, E Histone H3.1 9606
72 5ONG 3 A, E Histone H3.2 8355
73 5ONW 3 A, E Histone H3.2 8355
74 5DNM 1 A, E Histone H3.2 8355
75 4HGA 2 B Histone H3.3 9606
76 4UUZ 1 A HISTONE H3 7227
77 3MGQ 1 A, E Histone H3.2 8355
78 3WTP 5 E Histone H3.3 9606
79 3X1T 2 A, E Histone H3.1 9606
80 2NZD 3 A, E Histone H3 8355
81 3A6N 1 A, E Histone H3.1t 9606
82 5DNN 1 A, E Histone H3.2 8355
83 5GT3 1 A, E Histone H3.1 9606
84 5GT0 1 A, E Histone H3.1 9606
85 3LJA 1 A, E Histone H3.2 8355
86 3AZI 1 A, E Histone H3.1 9606
87 3TU4 1 A, E Histone H3.2 8355
88 1P3O 2 A, E Histone H3 8355
89 1KX4 2 A, E histone H3 8355
90 3AZN 1 A, E Histone H3.1 9606
91 1P3M 2 A, E Histone H3 8355
92 4J8V 1 A, E Histone H3.2 8355
93 5B33 1 A, E Histone H3.3 9606
94 3X1S 1 A, E Histone H3.1 9606
95 3LZ0 1 A, E Histone H3.2 8355
96 1P3F 2 A, E Histone H3 8355
97 1P3K 2 A, E Histone H3 8355
98 5B2I 1 A, E Histone H3.1 9606
99 1P3A 2 A, E Histone H3 8355
100 3LZ1 1 A, E Histone H3.2 8355
101 2IO5 2 B Histone H3.1 8355
102 5GXQ 1 A, E Histone H3.6 9606
103 2F8N 2 A, E Histone H3.1 8355
104 4Z5T 1 A, E Histone H3.3C 9606
105 1U35 2 A, E Histone H3.1 10090
106 5XM0 1 A, E Histone H3.3 10090
107 3AV2 1 A, E Histone H3.3 9606
108 3AYW 1 A, E Histone H3.1 9606
109 5XF5 1 A, E Histone H3.1 9606
110 3AZJ 1 A, E Histone H3.1 9606
111 3REK 1 A, E Histone H3.2 8355
112 4KGC 1 A, E Histone H3.2 8355
113 1ZLA 2 A, E histone H3 8355
114 5GSU 1 A, E Histone H3.1 9606
115 5XF4 1 A, E Histone H3.1 9606
116 3REL 1 A, E Histone H3.2 8355
117 5GSE 1 A, E, K, O Histone H3.1 9606
118 3REI 1 A, E Histone H3.2 8355
119 1P3B 2 A, E Histone H3 8355
120 3WKJ 1 A, E Histone H3.1 9606
121 3AZK 1 A, E Histone H3.1 9606
122 4J8X 1 A, E Histone H3.2 8355
123 3LEL 1 A, E, K, O Histone H3.2 8355
124 3KUY 1 A, E Histone H3.2 8355
125 4R8P 1 A, E Histone H3.2 8355
126 3AZM 1 A, E Histone H3.1 9606
127 3X1U 2 A, E Histone H3.1 9606
128 3MGS 1 A, E Histone H3.2 8355
129 3WA9 1 A, E Histone H3.1 9606
130 3C1C 1 A, E Histone H3-like 8355
131 3AZH 1 A, E Histone H3.1 9606
132 5B40 1 A, E Histone H3.2 9606
133 3WAA 1 A, E Histone H3.1 9606
134 5CPI 1 A, E Histone H3.1 9606
135 3W99 1 A, E Histone H3.1 9606
136 3AZE 1 A, E Histone H3.1 9606
137 3W96 1 A, E Histone H3.1 9606
138 5XM1 1 A, E Histone H3mm7 10090
139 5CPJ 1 A, E Histone H3.1 9606
140 5B24 1 A, E Histone H3.1 9606
141 5C3I 2 B, F, J, N, R, V Histone H3.1 9606
142 2HIO 3 C PROTEIN (HISTONE H3) 9031
143 4QLC 3 A, E Histone H3 7227
144 4LD9 1 A, E Histone H3.2 8355
145 3O62 1 A, E Histone H3.2 8355
146 4XUJ 1 A, E Histone H3.2 UNP residues 2-136 8355
147 5KDM 1 A Histone H3.3 9606
148 3W97 1 A, E Histone H3.1 9606
149 4YM5 1 A, E Histone H3.1 9606
150 4YM6 1 A, E Histone H3.1 9606
151 2FJ7 3 A, E histone H3 8355
152 4ZUX 1 A, E, K, O Histone H3.2 8355
153 3B6F 3 A, E Histone H3.2 8355
154 5OY7 2 A, E, I, M, Q, U, Y, c Histone H3 8355
155 3B6G 3 A, E Histone H3.2 8355
156 5NL0 1 A, E, K Histone H3.2 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
157 3KXB 1 A, E Histone H3.2 8355
158 5HQ2 1 A Histone H3.2 8355
159 6HKT 1 A, E, K, O, U, Y, a, e, k, o, u, y Histone H3.1 THE 3 N-TERMINAL RESIDUES (GSH) COME FROM THE EXPRESSION TAG 9606
160 5OXV 5 A, E, K, O Histone H3.2 8355
161 1ZBB 3 A, E, a, e HISTONE H3 8355
162 6NN6 1 A, E Histone H3.2 8355
163 6I84 1 M, S Histone H3.2 8355
164 6HTS 5 I, M Histone H3.1 9606
165 6A5O 16 a, e Histone H3.3 9606
166 6A5P 16 a, e Histone H3.3 9606
167 6A5R 16 a, e Histone H3.3 9606
168 6A5T 16 a, e Histone H3.3 9606
169 6A5U 16 a, e Histone H3.3 9606
170 6A5V 16 a, e Histone H3.3 9606
171 6A5L 16 a, e Histone H3.3 9606
172 6G0L 1 A, E Histone H3 Histone H3 sequence from X. Laevis. The N-terminal region from 1-39 is not resolved. 8355
173 6FML 9 M, Q Histone H3.2 9606
174 6ESF 1 A, E Histone H3.2 8355
175 6ESG 1 A, E Histone H3.2 8355
176 6ESH 1 A, E Histone H3.2 8355
177 6ESI 1 A, E Histone H3.2 8355
178 5O9G 1 A, E Histone H3.2 8355
179 5X0X 1 A, E Histone H3.2 8355
180 5X0Y 1 A, E Histone H3.2 8355
181 5KGF 1 A, E Histone H3.2 8355
182 3C9K 3 C, G Histone H3.2 9031