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 6667
95 % 12 166 76 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 0.5
PDBFlex
90 % 12 174 73
70 % 13 180 90
50 % 14 191 110
40 % 14 191 131
30 % 14 191 144
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 % 5 74 197
95 % 12 161 89 Flexibility: No
Max RMSD: 9.7, Avg RMSD: 0.5
PDBFlex
90 % 12 161 92
70 % 12 173 101
50 % 12 173 133
40 % 12 173 151
30 % 12 173 164
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 % 3 24 817
95 % 17 171 75 Flexibility: Low
Max RMSD: 11.4, Avg RMSD: 1.1
PDBFlex
90 % 17 176 78
70 % 17 177 92
50 % 17 181 124
40 % 17 181 145
30 % 17 181 156
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 % 17 182 55
95 % 17 185 69 Flexibility: Low
Max RMSD: 13.3, Avg RMSD: 1.2
PDBFlex
90 % 17 191 72
70 % 17 191 86
50 % 17 191 116
40 % 17 191 139
30 % 17 191 148

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 3NQU 1 A Histone H3-like centromeric protein A 9606
58 3AFA 1 A, E Histone H3.1 9606
59 5E5A 2 A, E Histone H3.2 8355
60 3REJ 1 A, E Histone H3.2 8355
61 3AZF 1 A, E Histone H3.1 9606
62 5GTC 1 A, E Histone H3.1 9606
63 1P3P 2 A, E Histone H3 8355
64 3AV1 1 A, E Histone H3.2 9606
65 1M1A 2 A, E Histone H3.2 8355
66 5CPK 1 A, E Histone H3.1 9606
67 5AY8 1 A, E H3.Y 9606
68 3MNN 1 A, E Histone H3.2 8355
69 1P3G 2 A, E Histone H3 8355
70 4J8W 1 A, E Histone H3.2 8355
71 1P34 2 A, E Histone H3 8355
72 5XF3 1 A, E Histone H3.1 9606
73 3X1V 2 A, E Histone H3.1 9606
74 5ONG 3 A, E Histone H3.2 8355
75 5ONW 3 A, E Histone H3.2 8355
76 5DNM 1 A, E Histone H3.2 8355
77 4HGA 2 B Histone H3.3 9606
78 4UUZ 1 A HISTONE H3 7227
79 3MGQ 1 A, E Histone H3.2 8355
80 3WTP 1 A Histone H3-like centromeric protein A 9606
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 3AN2 1 A, E Histone H3-like centromeric protein A 9606
162 3B6F 3 A, E Histone H3.2 8355
163 5OY7 2 A, E, I, M, Q, U, Y, c Histone H3 8355
164 3B6G 3 A, E Histone H3.2 8355
165 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
166 3KXB 1 A, E Histone H3.2 8355
167 5HQ2 1 A Histone H3.2 8355
168 5OXV 5 A, E, K, O Histone H3.2 8355
169 1ZBB 3 A, E, a, e HISTONE H3 8355
170 6FML 9 M, Q Histone H3.2 9606
171 6C0W 1 A, E Histone H3-like centromeric protein A 9606
172 6ETX 5 I, M Histone H3.1 9606
173 6ESF 1 A, E Histone H3.2 8355
174 6ESG 1 A, E Histone H3.2 8355
175 6ESH 1 A, E Histone H3.2 8355
176 6ESI 1 A, E Histone H3.2 8355
177 5O9G 1 A, E Histone H3.2 8355
178 5X0X 1 A, E Histone H3.2 8355
179 5X0Y 1 A, E Histone H3.2 8355
180 5KGF 1 A, E Histone H3.2 8355
181 3C9K 3 C, G Histone H3.2 9031