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 2NQB 4 C, G Histone H2A 7227
26 5OMX 5 C, G Histone H2A 8355
27 5F99 3 C, G Histone H2A type 1 8355
28 5JRG 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
29 3UT9 3 C, G Histone H2A 8355
30 5B32 3 C Histone H2A type 1-B/E 9606 3.2.1.21 | Details
31 4WU8 5 C, G Histone H2A type 1 8355
32 1P3I 4 C, G Histone H2A 8355
33 3MGR 3 C, G Histone H2A UNP RESIDUES 2-120 8355
34 3AZG 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
35 1M18 4 C, G Histone H2A.1 8355
36 5B2J 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
37 2PYO 5 C, G Histone H2A 7227
38 1P3L 4 C, G Histone H2A 8355
39 1EQZ 2 A, E PROTEIN (HISTONE H2A) SUBUNIT OF SALT-EXTRACTED HISTONE OCTAMER 9031
40 5B0Y 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
41 2CV5 4 C, G Histone H2A.a 9606 3.2.1.21 | Details
42 5CP6 5 C, G Histone H2A 8355
43 5ZBX 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
44 5XF6 3 C, G Histone H2A 8355
45 3MGP 3 C, G Histone H2A UNP RESIDUES 2-120 8355
46 3MVD 3 C, G Histone H2A 8355
47 4J8U 3 C, G Histone H2A type 1 8355
48 4WU9 3 C, G Histone H2A type 1 8355
49 3REH 3 C, G Histone H2A type 1 8355
50 3AZL 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
51 4XZQ 3 C, G Histone H2A residues 15-121 8355
52 6N1Z 2 B, E Histone H2A HISTONE H2A 8355
53 3AFA 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
54 5E5A 4 C, G Histone H2A 8355
55 3REJ 3 C, G Histone H2A type 1 8355
56 3AZF 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
57 5GTC 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
58 1P3P 4 C, G Histone H2A 8355
59 3AV1 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
60 1M1A 4 C, G Histone H2A.1 8355
61 5CPK 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
62 5AY8 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
63 3MNN 3 C, G Histone H2A 8355
64 1P3G 4 C, G Histone H2A 8355
65 4J8W 3 C, G Histone H2A 8355
66 1P34 4 C, G Histone H2A 8355
67 5XF3 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
68 3X1V 4 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
69 5MLU 3 C, G Histone H2A type 1 8355
70 5ONG 5 C, G Histone H2A 8355
71 5ONW 5 C, G Histone H2A 8355
72 5DNM 3 C, G Histone H2A 8355
73 4Z66 3 C, G Histone H2A 8355
74 3MGQ 3 C, G Histone H2A UNP RESIDUES 2-120 8355
75 3WTP 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
76 3X1T 4 C, G Histone H2A 10090
77 2NZD 5 C, G histone H2A 8355
78 3A6N 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
79 5DNN 3 C, G Histone H2A 8355
80 5GT3 3 C, G Histone H2A type 1-D 9606
81 5GT0 3 C, G Histone H2A type 1-A 9606
82 3LJA 3 C, G Histone H2A 8355
83 3AZI 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
84 3TU4 3 C, G Histone H2A 8355
85 1P3O 4 C, G Histone H2A 8355
86 1KX4 4 C, G histone H2A.1 8355
87 3AZN 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
88 1P3M 4 C, G Histone H2A 8355
89 4J8V 3 C, G Histone H2A 8355
90 1AOI 4 C, G HISTONE H2A HISTONE H2A 8355
91 3X1S 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
92 3LZ0 3 C, G Histone H2A residues 2-120 8355
93 1P3F 4 C, G Histone H2A 8355
94 1P3K 4 C, G Histone H2A 8355
95 5B2I 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
96 1P3A 4 C, G Histone H2A 8355
97 3LZ1 3 C, G Histone H2A residues 2-120 8355
98 5GXQ 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
99 4Z5T 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
100 5XM0 3 C, G Histone H2A type 1-B 10090
101 3AV2 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
102 3AYW 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
103 5XF5 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
104 3AZJ 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
105 3REK 3 C, G Histone H2A type1 8355
106 4KGC 3 C, G Histone H2A 8355
107 1ZLA 4 C, G Xenopus laevis-like histone H2A 263730
108 5GSU 3 C, G Histone H2A type 1-A 9606
109 5XF4 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
110 3REL 3 C, G Histone H2A 8355
111 5GSE 3 C, G, M Histone H2A type 1-B/E 9606 3.2.1.21 | Details
112 3REI 3 C, G Histone H2A type1 8355
113 1P3B 4 C, G Histone H2A 8355
114 3WKJ 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
115 3AZK 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
116 4J8X 3 C, G Histone H2A 8355
117 3LEL 3 C, G, M, Q Histone H2A 8355
118 4YS3 3 C, G Histone H2A residues 15-121 8355
119 3KUY 3 C, G Histone H2A 8355
120 4R8P 3 C, G Histone H2A 8355
121 3AZM 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
122 3X1U 4 C, G Histone H2A 10090
123 3MGS 3 C, G Histone H2A UNP RESIDUES 2-120 8355
124 3C1C 3 C, G Histone H2A type 1 8355
125 3AZH 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
126 5B40 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
127 5CPI 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
128 3W99 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
129 3AZE 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
130 3W96 3 C, G Histone H2A type 1-B/E UNP residues 11-130 9606 3.2.1.21 | Details
131 5XM1 3 C, G Histone H2A type 1-B 10090
132 5CPJ 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
133 5B24 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
134 2HIO 1 A PROTEIN (HISTONE H2A) 9031
135 1HIO 1 A HISTONE H2A 9031
136 4QLC 5 C, G Histone H2A 7227
137 4LD9 3 C, G Histone H2A 8355
138 3O62 3 C, G Histone H2A type 1 8355
139 4XUJ 3 C, G Histone H2A UNP residues 2-126 8355
140 4X23 5 C, G, M, Q Histone H2A UNP RESIDUES 16-117 7227
141 3W97 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
142 4YM5 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
143 4YM6 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
144 2FJ7 5 C, G histone H2A 8355
145 3W98 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
146 4ZUX 3 C, G, M, Q Histone H2A type 1 8355
147 3AN2 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
148 5WCU 3 C, G, M, Q Histone H2A UNP residues 15-118 7227
149 3B6F 5 C, G Histone H2A 8355
150 5OY7 4 C, G, K, O, S, W, a, e Histone H2A 8355
151 3B6G 5 C, G Histone H2A 8355
152 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
153 3KXB 3 C, G Histone H2A 8355
154 3KWQ 3 C, G Histone H2A UNP residues 15-121 8355
155 5G2E 2 C, G, K, O, S, W HISTONE H2A TYPE 1 8355
156 5HQ2 3 G Histone H2A 8355
157 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
158 5OXV 3 C, G, M, Q Histone H2A 8355
159 1ZBB 5 C, G, c, g Histone H2A.1 8355
160 6J99 3 C, G Histone H2A 8355
161 6NQA 4 C, G Histone H2A type 1 8355
162 6NOG 3 C, G Histone H2A type 1 8355
163 6NN6 3 C, G Histone H2A type 1 8355
164 6J4W 21 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
165 6J4X 21 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
166 6J4Y 21 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
167 6J4Z 20 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
168 6J50 20 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
169 6J51 21 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
170 6NJ9 2 C, G Histone H2A type 1 8355
171 6I84 2 Q, V Histone H2A type 1 8355
172 6IR9 21 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
173 6HTS 7 K, O Histone H2A type 1-B/E 9606 3.2.1.21 | Details
174 6A5O 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
175 6A5P 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
176 6A5R 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
177 6A5T 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
178 6A5U 18 c, g Histone H2A, Histone H2A type 1-B/E 9606 3.2.1.21 | Details
179 6A5V 18 c, g Histone H2A, Histone H2A type 1-B/E 9606 3.2.1.21 | Details
180 6A5L 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
181 6G0L 3 C Histone H2A type 1 8355
182 6G0L 5 G Histone H2A type 1 8355
183 6FTX 3 C, G Histone H2A type 1 8355
184 6FQ5 3 C, G Histone H2A 8355
185 6FQ6 3 C, G Histone H2A 8355
186 6FQ8 3 C, G Histone H2A 8355
187 6FML 11 O, S Histone H2A type 1 9606
188 6C0W 3 C, G Histone H2A 9606
189 6BUZ 3 C, G Histone H2A 9606 3.2.1.21 | Details
190 6ESF 3 C, G Histone H2A 8355
191 6ESG 3 C, G Histone H2A 8355
192 6ESH 3 C, G Histone H2A 8355
193 6ESI 3 C, G Histone H2A 8355
194 5O9G 3 C, G Histone H2A 8355
195 5X0X 3 C, G Histone H2A 8355
196 5X0Y 3 C, G Histone H2A 8355
197 5KGF 3 C, G Histone H2A type 1 Isopeptide amide crosslink between K15 of H2A and G76 of ubiquitin 9606
198 2RVQ 1 C Histone H2A type 1-B/E 9606 3.2.1.21 | Details
199 2XQL 1 A, C, E, G, I HISTONE H2A-IV RESIDUES 16-106 9031
200 3C9K 1 A, E Histone H2A-IV 9031