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 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 3NQU 1 A Histone H3-like centromeric protein A 9606
60 3AFA 1 A, E Histone H3.1 9606
61 5E5A 2 A, E Histone H3.2 8355
62 3REJ 1 A, E Histone H3.2 8355
63 3AZF 1 A, E Histone H3.1 9606
64 5GTC 1 A, E Histone H3.1 9606
65 1P3P 2 A, E Histone H3 8355
66 3AV1 1 A, E Histone H3.2 9606
67 1M1A 2 A, E Histone H3.2 8355
68 5CPK 1 A, E Histone H3.1 9606
69 5AY8 1 A, E H3.Y 9606
70 3MNN 1 A, E Histone H3.2 8355
71 1P3G 2 A, E Histone H3 8355
72 4J8W 1 A, E Histone H3.2 8355
73 1P34 2 A, E Histone H3 8355
74 5XF3 1 A, E Histone H3.1 9606
75 3X1V 2 A, E Histone H3.1 9606
76 5ONG 3 A, E Histone H3.2 8355
77 5ONW 3 A, E Histone H3.2 8355
78 5DNM 1 A, E Histone H3.2 8355
79 4HGA 2 B Histone H3.3 9606
80 4UUZ 1 A HISTONE H3 7227
81 3MGQ 1 A, E Histone H3.2 8355
82 3WTP 1 A Histone H3-like centromeric protein A 9606
83 3WTP 5 E Histone H3.3 9606
84 3X1T 2 A, E Histone H3.1 9606
85 2NZD 3 A, E Histone H3 8355
86 3A6N 1 A, E Histone H3.1t 9606
87 5DNN 1 A, E Histone H3.2 8355
88 5GT3 1 A, E Histone H3.1 9606
89 5GT0 1 A, E Histone H3.1 9606
90 3LJA 1 A, E Histone H3.2 8355
91 3AZI 1 A, E Histone H3.1 9606
92 3TU4 1 A, E Histone H3.2 8355
93 1P3O 2 A, E Histone H3 8355
94 1KX4 2 A, E histone H3 8355
95 3AZN 1 A, E Histone H3.1 9606
96 1P3M 2 A, E Histone H3 8355
97 4J8V 1 A, E Histone H3.2 8355
98 5B33 1 A, E Histone H3.3 9606
99 3X1S 1 A, E Histone H3.1 9606
100 3LZ0 1 A, E Histone H3.2 8355
101 1P3F 2 A, E Histone H3 8355
102 1P3K 2 A, E Histone H3 8355
103 5B2I 1 A, E Histone H3.1 9606
104 1P3A 2 A, E Histone H3 8355
105 3LZ1 1 A, E Histone H3.2 8355
106 2IO5 2 B Histone H3.1 8355
107 5GXQ 1 A, E Histone H3.6 9606
108 2F8N 2 A, E Histone H3.1 8355
109 4Z5T 1 A, E Histone H3.3C 9606
110 1U35 2 A, E Histone H3.1 10090
111 5XM0 1 A, E Histone H3.3 10090
112 3AV2 1 A, E Histone H3.3 9606
113 3AYW 1 A, E Histone H3.1 9606
114 5XF5 1 A, E Histone H3.1 9606
115 3AZJ 1 A, E Histone H3.1 9606
116 3REK 1 A, E Histone H3.2 8355
117 4KGC 1 A, E Histone H3.2 8355
118 1ZLA 2 A, E histone H3 8355
119 5GSU 1 A, E Histone H3.1 9606
120 5XF4 1 A, E Histone H3.1 9606
121 3REL 1 A, E Histone H3.2 8355
122 5GSE 1 A, E, K, O Histone H3.1 9606
123 3REI 1 A, E Histone H3.2 8355
124 1P3B 2 A, E Histone H3 8355
125 3WKJ 1 A, E Histone H3.1 9606
126 4KUD 1 A, E Histone H3 4932
127 3AZK 1 A, E Histone H3.1 9606
128 4J8X 1 A, E Histone H3.2 8355
129 3LEL 1 A, E, K, O Histone H3.2 8355
130 3KUY 1 A, E Histone H3.2 8355
131 4R8P 1 A, E Histone H3.2 8355
132 3AZM 1 A, E Histone H3.1 9606
133 3X1U 2 A, E Histone H3.1 9606
134 3MGS 1 A, E Histone H3.2 8355
135 3WA9 1 A, E Histone H3.1 9606
136 1ID3 2 A, E HISTONE H3 4932
137 3C1C 1 A, E Histone H3-like 8355
138 3AZH 1 A, E Histone H3.1 9606
139 5B40 1 A, E Histone H3.2 9606
140 3WAA 1 A, E Histone H3.1 9606
141 5CPI 1 A, E Histone H3.1 9606
142 4JJN 1 A, E Histone H3 4932
143 3W99 1 A, E Histone H3.1 9606
144 3AZE 1 A, E Histone H3.1 9606
145 3W96 1 A, E Histone H3.1 9606
146 5XM1 1 A, E Histone H3mm7 10090
147 5CPJ 1 A, E Histone H3.1 9606
148 5B24 1 A, E Histone H3.1 9606
149 5C3I 2 B, F, J, N, R, V Histone H3.1 9606
150 2HIO 3 C PROTEIN (HISTONE H3) 9031
151 4QLC 3 A, E Histone H3 7227
152 4LD9 1 A, E Histone H3.2 8355
153 5ZBB 3 C Histone H3 4932
154 3O62 1 A, E Histone H3.2 8355
155 4XUJ 1 A, E Histone H3.2 UNP residues 2-136 8355
156 5KDM 1 A Histone H3.3 9606
157 3W97 1 A, E Histone H3.1 9606
158 4YM5 1 A, E Histone H3.1 9606
159 5ZBA 3 C Histone H3 4932
160 4YM6 1 A, E Histone H3.1 9606
161 2FJ7 3 A, E histone H3 8355
162 4ZUX 1 A, E, K, O Histone H3.2 8355
163 3AN2 1 A, E Histone H3-like centromeric protein A 9606
164 3B6F 3 A, E Histone H3.2 8355
165 5OY7 2 A, E, I, M, Q, U, Y, c Histone H3 8355
166 3B6G 3 A, E Histone H3.2 8355
167 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
168 3KXB 1 A, E Histone H3.2 8355
169 5HQ2 1 A Histone H3.2 8355
170 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
171 5OXV 5 A, E, K, O Histone H3.2 8355
172 1ZBB 3 A, E, a, e HISTONE H3 8355
173 6J99 1 A, E Histone H3 8355
174 6NQA 8 A, E Histone H3.2 8355
175 6NOG 1 A, E Histone H3.2 8355
176 6NN6 1 A, E Histone H3.2 8355
177 6J4W 19 a, e Histone H3.3 9606
178 6J4X 19 a, e Histone H3.3 9606
179 6J4Y 19 a, e Histone H3.3 9606
180 6J4Z 18 a, e Histone H3.3 9606
181 6J50 18 a, e Histone H3.3 9606
182 6J51 19 a, e Histone H3.3 9606
183 6NJ9 6 A, E Histone H3.2 8355
184 6I84 1 M, S Histone H3.2 8355
185 6IR9 19 a, e Histone H3.3 9606
186 6HTS 5 I, M Histone H3.1 9606
187 6A5O 16 a, e Histone H3.3 9606
188 6A5P 16 a, e Histone H3.3 9606
189 6A5R 16 a, e Histone H3.3 9606
190 6A5T 16 a, e Histone H3.3 9606
191 6A5U 16 a, e Histone H3.3 9606
192 6A5V 16 a, e Histone H3.3 9606
193 6A5L 16 a, e Histone H3.3 9606
194 6GEN 2 A, B Histone H3 4932
195 6GEJ 2 A, B Histone H3 4932
196 6G0L 1 A, E Histone H3 Histone H3 sequence from X. Laevis. The N-terminal region from 1-39 is not resolved. 8355
197 6FML 9 M, Q Histone H3.2 9606
198 6C0W 1 A, E Histone H3-like centromeric protein A 9606
199 6ESF 1 A, E Histone H3.2 8355
200 6ESG 1 A, E Histone H3.2 8355
201 6ESH 1 A, E Histone H3.2 8355
202 6ESI 1 A, E Histone H3.2 8355
203 5O9G 1 A, E Histone H3.2 8355
204 5X0X 1 A, E Histone H3.2 8355
205 5X0Y 1 A, E Histone H3.2 8355
206 5KGF 1 A, E Histone H3.2 8355
207 3C9K 3 C, G Histone H3.2 9031