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 1 A, E Histone H2A-IV 9031
2 1KX5 5 C, G histone H2A.1 8355
3 2ARO 1 A, E Histone H2A-IV 9031
4 5B0Z 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
5 5Y0D 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
6 5Y0C 4 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
7 1S32 4 C, G histone H2A 8355
8 5AV8 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
9 1KX3 4 C, G histone H2A.1 8355
10 5AV9 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
11 5AV6 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
12 1HQ3 1 A, E HISTONE H2A-IV 9031
13 3UTA 3 C, G Histone H2A 8355
14 4KHA 2 B Histone H2A UNP residues 15-103 8355
15 5X7X 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
16 5B31 3 C Histone H2A type 1-B/E 9606 3.2.1.21 | Details
17 5B1L 3 C, G Histone H2A type 1 10090
18 3UTB 3 C, G Histone H2A 8355
19 1M19 4 C, G Histone H2A.1 8355
20 5AVB 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
21 5AVC 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
22 5AV5 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
23 3C1B 3 C, G Histone H2A type 1 8355
24 5B1M 3 C, G Histone H2A type 1 10090
25 5OMX 5 C, G Histone H2A 8355
26 5F99 3 C, G Histone H2A type 1 8355
27 5JRG 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
28 3UT9 3 C, G Histone H2A 8355
29 5B32 3 C Histone H2A type 1-B/E 9606 3.2.1.21 | Details
30 4WU8 5 C, G Histone H2A type 1 8355
31 1P3I 4 C, G Histone H2A 8355
32 3MGR 3 C, G Histone H2A UNP RESIDUES 2-120 8355
33 3AZG 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
34 1M18 4 C, G Histone H2A.1 8355
35 5B2J 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
36 1P3L 4 C, G Histone H2A 8355
37 1EQZ 2 A, E PROTEIN (HISTONE H2A) SUBUNIT OF SALT-EXTRACTED HISTONE OCTAMER 9031
38 5B0Y 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
39 2CV5 4 C, G Histone H2A.a 9606 3.2.1.21 | Details
40 5CP6 5 C, G Histone H2A 8355
41 5ZBX 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
42 5XF6 3 C, G Histone H2A 8355
43 3MGP 3 C, G Histone H2A UNP RESIDUES 2-120 8355
44 3MVD 3 C, G Histone H2A 8355
45 4J8U 3 C, G Histone H2A type 1 8355
46 4WU9 3 C, G Histone H2A type 1 8355
47 3REH 3 C, G Histone H2A type 1 8355
48 3AZL 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
49 4XZQ 3 C, G Histone H2A residues 15-121 8355
50 6N1Z 2 B, E Histone H2A HISTONE H2A 8355
51 3AFA 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
52 5E5A 4 C, G Histone H2A 8355
53 3REJ 3 C, G Histone H2A type 1 8355
54 3AZF 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
55 5GTC 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
56 1P3P 4 C, G Histone H2A 8355
57 3AV1 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
58 1M1A 4 C, G Histone H2A.1 8355
59 5CPK 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
60 5AY8 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
61 3MNN 3 C, G Histone H2A 8355
62 1P3G 4 C, G Histone H2A 8355
63 4J8W 3 C, G Histone H2A 8355
64 1P34 4 C, G Histone H2A 8355
65 5XF3 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
66 3X1V 4 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
67 5MLU 3 C, G Histone H2A type 1 8355
68 5ONG 5 C, G Histone H2A 8355
69 5ONW 5 C, G Histone H2A 8355
70 5DNM 3 C, G Histone H2A 8355
71 4Z66 3 C, G Histone H2A 8355
72 3MGQ 3 C, G Histone H2A UNP RESIDUES 2-120 8355
73 3WTP 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
74 2NZD 5 C, G histone H2A 8355
75 3A6N 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
76 5DNN 3 C, G Histone H2A 8355
77 5GT3 3 C, G Histone H2A type 1-D 9606
78 3LJA 3 C, G Histone H2A 8355
79 3AZI 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
80 3TU4 3 C, G Histone H2A 8355
81 1P3O 4 C, G Histone H2A 8355
82 1KX4 4 C, G histone H2A.1 8355
83 3AZN 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
84 1P3M 4 C, G Histone H2A 8355
85 4J8V 3 C, G Histone H2A 8355
86 1AOI 4 C, G HISTONE H2A HISTONE H2A 8355
87 3X1S 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
88 3LZ0 3 C, G Histone H2A residues 2-120 8355
89 1P3F 4 C, G Histone H2A 8355
90 1P3K 4 C, G Histone H2A 8355
91 5B2I 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
92 1P3A 4 C, G Histone H2A 8355
93 3LZ1 3 C, G Histone H2A residues 2-120 8355
94 5GXQ 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
95 4Z5T 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
96 5XM0 3 C, G Histone H2A type 1-B 10090
97 3AV2 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
98 3AYW 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
99 5XF5 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
100 3AZJ 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
101 3REK 3 C, G Histone H2A type1 8355
102 4KGC 3 C, G Histone H2A 8355
103 1ZLA 4 C, G Xenopus laevis-like histone H2A 263730
104 5XF4 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
105 3REL 3 C, G Histone H2A 8355
106 5GSE 3 C, G, M Histone H2A type 1-B/E 9606 3.2.1.21 | Details
107 3REI 3 C, G Histone H2A type1 8355
108 1P3B 4 C, G Histone H2A 8355
109 3WKJ 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
110 3AZK 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
111 4J8X 3 C, G Histone H2A 8355
112 3LEL 3 C, G, M, Q Histone H2A 8355
113 4YS3 3 C, G Histone H2A residues 15-121 8355
114 3KUY 3 C, G Histone H2A 8355
115 4R8P 3 C, G Histone H2A 8355
116 3AZM 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
117 3MGS 3 C, G Histone H2A UNP RESIDUES 2-120 8355
118 3C1C 3 C, G Histone H2A type 1 8355
119 3AZH 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
120 5B40 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
121 5CPI 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
122 3W99 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
123 3AZE 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
124 3W96 3 C, G Histone H2A type 1-B/E UNP residues 11-130 9606 3.2.1.21 | Details
125 5XM1 3 C, G Histone H2A type 1-B 10090
126 5CPJ 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
127 5B24 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
128 2HIO 1 A PROTEIN (HISTONE H2A) 9031
129 1HIO 1 A HISTONE H2A 9031
130 4LD9 3 C, G Histone H2A 8355
131 3O62 3 C, G Histone H2A type 1 8355
132 4XUJ 3 C, G Histone H2A UNP residues 2-126 8355
133 3W97 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
134 4YM5 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
135 4YM6 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
136 2FJ7 5 C, G histone H2A 8355
137 3W98 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
138 4ZUX 3 C, G, M, Q Histone H2A type 1 8355
139 3AN2 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
140 3B6F 5 C, G Histone H2A 8355
141 5OY7 4 C, G, K, O, S, W, a, e Histone H2A 8355
142 3B6G 5 C, G Histone H2A 8355
143 5NL0 3 C, G, M Histone H2A type 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
144 3KXB 3 C, G Histone H2A 8355
145 3KWQ 3 C, G Histone H2A UNP residues 15-121 8355
146 5G2E 2 C, G, K, O, S, W HISTONE H2A TYPE 1 8355
147 5HQ2 3 G Histone H2A 8355
148 6HKT 3 0, 2, C, G, M, Q, W, c, g, m, q, w Histone H2A type 1-B/E THE 3 N-TERMINAL RESIDUES (GSH) COME FROM THE EXPRESSION TAG 9606 3.2.1.21 | Details
149 5OXV 3 C, G, M, Q Histone H2A 8355
150 1ZBB 5 C, G, c, g Histone H2A.1 8355
151 6J99 3 C, G Histone H2A 8355
152 6NQA 4 C, G Histone H2A type 1 8355
153 6NOG 3 C, G Histone H2A type 1 8355
154 6NN6 3 C, G Histone H2A type 1 8355
155 6J4W 21 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
156 6J4X 21 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
157 6J4Y 21 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
158 6J4Z 20 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
159 6J50 20 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
160 6J51 21 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
161 6NJ9 2 C, G Histone H2A type 1 8355
162 6I84 2 Q, V Histone H2A type 1 8355
163 6IR9 21 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
164 6HTS 7 K, O Histone H2A type 1-B/E 9606 3.2.1.21 | Details
165 6A5O 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
166 6A5P 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
167 6A5R 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
168 6A5T 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
169 6A5U 18 c, g Histone H2A, Histone H2A type 1-B/E 9606 3.2.1.21 | Details
170 6A5V 18 c, g Histone H2A, Histone H2A type 1-B/E 9606 3.2.1.21 | Details
171 6A5L 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
172 6G0L 3 C Histone H2A type 1 8355
173 6G0L 5 G Histone H2A type 1 8355
174 6FTX 3 C, G Histone H2A type 1 8355
175 6FQ5 3 C, G Histone H2A 8355
176 6FQ6 3 C, G Histone H2A 8355
177 6FQ8 3 C, G Histone H2A 8355
178 6FML 11 O, S Histone H2A type 1 9606
179 6C0W 3 C, G Histone H2A 9606
180 6BUZ 3 C, G Histone H2A 9606 3.2.1.21 | Details
181 6ESF 3 C, G Histone H2A 8355
182 6ESG 3 C, G Histone H2A 8355
183 6ESH 3 C, G Histone H2A 8355
184 6ESI 3 C, G Histone H2A 8355
185 5O9G 3 C, G Histone H2A 8355
186 5X0X 3 C, G Histone H2A 8355
187 5X0Y 3 C, G Histone H2A 8355
188 5KGF 3 C, G Histone H2A type 1 Isopeptide amide crosslink between K15 of H2A and G76 of ubiquitin 9606
189 2RVQ 1 C Histone H2A type 1-B/E 9606 3.2.1.21 | Details
190 2XQL 1 A, C, E, G, I HISTONE H2A-IV RESIDUES 16-106 9031
191 3C9K 1 A, E Histone H2A-IV 9031