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 7061
95 % 12 190 74 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 0.5
PDBFlex
90 % 12 199 70
70 % 13 207 79
50 % 14 218 103
40 % 14 218 121
30 % 14 218 132
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 22 970
95 % 6 112 151 Flexibility: No
Max RMSD: 9.7, Avg RMSD: 0.5
PDBFlex
90 % 12 185 80
70 % 12 199 88
50 % 12 199 117
40 % 12 199 139
30 % 12 199 153
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 73 Flexibility: Low
Max RMSD: 11.4, Avg RMSD: 1.1
PDBFlex
90 % 17 200 74
70 % 17 203 84
50 % 17 207 112
40 % 17 207 132
30 % 17 207 145
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 % 17 217 139

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 5ZBX 1 A, E Histone H3.1,Histone H3-like centromeric protein A,Histone H3.1 Chimera protein H3CATD, in which amino acid residues 76-113 of human histone H3.1 were replaced by the corresponding amino acid residues 75-114 of human CENP-A. 9606
51 5XF6 1 A, E Histone H3.2 8355
52 3MGP 1 A, E Histone H3.2 8355
53 3MVD 1 A, E Histone H3.2 8355
54 4J8U 1 A, E Histone H3.2 8355
55 4WU9 1 A, E Histone H3.2 8355
56 3REH 1 A, E Histone H3.2 8355
57 3AZL 1 A, E Histone H3.1 9606
58 5Z23 1 A, E Histone H3.1,Histone H3-like centromeric protein A,Histone H3.1 Chimera protein H3CATD, in which amino acid residues 76-113 of human histone H3.1 were replaced by corresponding amino acid residues 75-114 of human CENP-A. 9606
59 3AFA 1 A, E Histone H3.1 9606
60 5E5A 2 A, E Histone H3.2 8355
61 3REJ 1 A, E Histone H3.2 8355
62 3AZF 1 A, E Histone H3.1 9606
63 5GTC 1 A, E Histone H3.1 9606
64 1P3P 2 A, E Histone H3 8355
65 3AV1 1 A, E Histone H3.2 9606
66 1M1A 2 A, E Histone H3.2 8355
67 5CPK 1 A, E Histone H3.1 9606
68 5AY8 1 A, E H3.Y 9606
69 3MNN 1 A, E Histone H3.2 8355
70 1P3G 2 A, E Histone H3 8355
71 4J8W 1 A, E Histone H3.2 8355
72 1P34 2 A, E Histone H3 8355
73 5XF3 1 A, E Histone H3.1 9606
74 3X1V 2 A, E Histone H3.1 9606
75 5ONG 3 A, E Histone H3.2 8355
76 5ONW 3 A, E Histone H3.2 8355
77 5DNM 1 A, E Histone H3.2 8355
78 4HGA 2 B Histone H3.3 9606
79 4UUZ 1 A HISTONE H3 7227
80 3MGQ 1 A, E Histone H3.2 8355
81 3WTP 5 E Histone H3.3 9606
82 3X1T 2 A, E Histone H3.1 9606
83 2NZD 3 A, E Histone H3 8355
84 3A6N 1 A, E Histone H3.1t 9606
85 5DNN 1 A, E Histone H3.2 8355
86 5GT3 1 A, E Histone H3.1 9606
87 5GT0 1 A, E Histone H3.1 9606
88 3LJA 1 A, E Histone H3.2 8355
89 3AZI 1 A, E Histone H3.1 9606
90 3TU4 1 A, E Histone H3.2 8355
91 1P3O 2 A, E Histone H3 8355
92 1KX4 2 A, E histone H3 8355
93 3AZN 1 A, E Histone H3.1 9606
94 1P3M 2 A, E Histone H3 8355
95 4J8V 1 A, E Histone H3.2 8355
96 5B33 1 A, E Histone H3.3 9606
97 3X1S 1 A, E Histone H3.1 9606
98 3LZ0 1 A, E Histone H3.2 8355
99 1P3F 2 A, E Histone H3 8355
100 1P3K 2 A, E Histone H3 8355
101 5B2I 1 A, E Histone H3.1 9606
102 1P3A 2 A, E Histone H3 8355
103 3LZ1 1 A, E Histone H3.2 8355
104 2IO5 2 B Histone H3.1 8355
105 5GXQ 1 A, E Histone H3.6 9606
106 2F8N 2 A, E Histone H3.1 8355
107 4Z5T 1 A, E Histone H3.3C 9606
108 1U35 2 A, E Histone H3.1 10090
109 5XM0 1 A, E Histone H3.3 10090
110 3AV2 1 A, E Histone H3.3 9606
111 3AYW 1 A, E Histone H3.1 9606
112 5XF5 1 A, E Histone H3.1 9606
113 3AZJ 1 A, E Histone H3.1 9606
114 3REK 1 A, E Histone H3.2 8355
115 4KGC 1 A, E Histone H3.2 8355
116 1ZLA 2 A, E histone H3 8355
117 5GSU 1 A, E Histone H3.1 9606
118 5XF4 1 A, E Histone H3.1 9606
119 3REL 1 A, E Histone H3.2 8355
120 5GSE 1 A, E, K, O Histone H3.1 9606
121 3REI 1 A, E Histone H3.2 8355
122 1P3B 2 A, E Histone H3 8355
123 3WKJ 1 A, E Histone H3.1 9606
124 4KUD 1 A, E Histone H3 4932
125 3AZK 1 A, E Histone H3.1 9606
126 4J8X 1 A, E Histone H3.2 8355
127 3LEL 1 A, E, K, O Histone H3.2 8355
128 3KUY 1 A, E Histone H3.2 8355
129 4R8P 1 A, E Histone H3.2 8355
130 3AZM 1 A, E Histone H3.1 9606
131 3X1U 2 A, E Histone H3.1 9606
132 3MGS 1 A, E Histone H3.2 8355
133 3WA9 1 A, E Histone H3.1 9606
134 1ID3 2 A, E HISTONE H3 4932
135 3C1C 1 A, E Histone H3-like 8355
136 3AZH 1 A, E Histone H3.1 9606
137 5B40 1 A, E Histone H3.2 9606
138 3WAA 1 A, E Histone H3.1 9606
139 5CPI 1 A, E Histone H3.1 9606
140 4JJN 1 A, E Histone H3 4932
141 3W99 1 A, E Histone H3.1 9606
142 3AZE 1 A, E Histone H3.1 9606
143 3W96 1 A, E Histone H3.1 9606
144 5XM1 1 A, E Histone H3mm7 10090
145 5CPJ 1 A, E Histone H3.1 9606
146 5B24 1 A, E Histone H3.1 9606
147 5C3I 2 B, F, J, N, R, V Histone H3.1 9606
148 2HIO 3 C PROTEIN (HISTONE H3) 9031
149 4QLC 3 A, E Histone H3 7227
150 4LD9 1 A, E Histone H3.2 8355
151 5ZBB 3 C Histone H3 4932
152 3O62 1 A, E Histone H3.2 8355
153 4XUJ 1 A, E Histone H3.2 UNP residues 2-136 8355
154 5KDM 1 A Histone H3.3 9606
155 3W97 1 A, E Histone H3.1 9606
156 4YM5 1 A, E Histone H3.1 9606
157 5ZBA 3 C Histone H3 4932
158 4YM6 1 A, E Histone H3.1 9606
159 2FJ7 3 A, E histone H3 8355
160 4ZUX 1 A, E, K, O Histone H3.2 8355
161 3B6F 3 A, E Histone H3.2 8355
162 5OY7 2 A, E, I, M, Q, U, Y, c Histone H3 8355
163 3B6G 3 A, E Histone H3.2 8355
164 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
165 3KXB 1 A, E Histone H3.2 8355
166 5HQ2 1 A Histone H3.2 8355
167 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
168 5OXV 5 A, E, K, O Histone H3.2 8355
169 1ZBB 3 A, E, a, e HISTONE H3 8355
170 6J99 1 A, E Histone H3 8355
171 6NQA 8 A, E Histone H3.2 8355
172 6NOG 1 A, E Histone H3.2 8355
173 6NN6 1 A, E Histone H3.2 8355
174 6J4W 19 a, e Histone H3.3 9606
175 6J4X 19 a, e Histone H3.3 9606
176 6J4Y 19 a, e Histone H3.3 9606
177 6J4Z 18 a, e Histone H3.3 9606
178 6J50 18 a, e Histone H3.3 9606
179 6J51 19 a, e Histone H3.3 9606
180 6NJ9 6 A, E Histone H3.2 8355
181 6I84 1 M, S Histone H3.2 8355
182 6IR9 19 a, e Histone H3.3 9606
183 6HTS 5 I, M Histone H3.1 9606
184 6A5O 16 a, e Histone H3.3 9606
185 6A5P 16 a, e Histone H3.3 9606
186 6A5R 16 a, e Histone H3.3 9606
187 6A5T 16 a, e Histone H3.3 9606
188 6A5U 16 a, e Histone H3.3 9606
189 6A5V 16 a, e Histone H3.3 9606
190 6A5L 16 a, e Histone H3.3 9606
191 6GEN 2 A, B Histone H3 4932
192 6GEJ 2 A, B Histone H3 4932
193 6G0L 1 A, E Histone H3 Histone H3 sequence from X. Laevis. The N-terminal region from 1-39 is not resolved. 8355
194 6FML 9 M, Q Histone H3.2 9606
195 6ESF 1 A, E Histone H3.2 8355
196 6ESG 1 A, E Histone H3.2 8355
197 6ESH 1 A, E Histone H3.2 8355
198 6ESI 1 A, E Histone H3.2 8355
199 5O9G 1 A, E Histone H3.2 8355
200 5X0X 1 A, E Histone H3.2 8355
201 5X0Y 1 A, E Histone H3.2 8355
202 5KGF 1 A, E Histone H3.2 8355
203 3C9K 3 C, G Histone H3.2 9031