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 6954
95 % 12 177 73 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 0.5
PDBFlex
90 % 12 186 74
70 % 13 194 85
50 % 14 205 107
40 % 14 205 127
30 % 14 205 139
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 22 952
95 % 12 171 77 Flexibility: No
Max RMSD: 9.7, Avg RMSD: 0.5
PDBFlex
90 % 12 171 82
70 % 12 185 92
50 % 12 185 126
40 % 12 185 145
30 % 12 185 160
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 70 202
95 % 17 181 72 Flexibility: Low
Max RMSD: 11.4, Avg RMSD: 1.1
PDBFlex
90 % 17 188 76
70 % 17 189 88
50 % 17 193 118
40 % 17 193 142
30 % 17 193 153
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 % 17 192 53
95 % 17 195 66 Flexibility: Low
Max RMSD: 13.3, Avg RMSD: 1.2
PDBFlex
90 % 17 203 69
70 % 17 203 83
50 % 17 203 111
40 % 17 203 132
30 % 17 203 144

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 5XF6 3 C, G Histone H2A 8355
44 3MGP 3 C, G Histone H2A UNP RESIDUES 2-120 8355
45 3MVD 3 C, G Histone H2A 8355
46 4J8U 3 C, G Histone H2A type 1 8355
47 4WU9 3 C, G Histone H2A type 1 8355
48 3REH 3 C, G Histone H2A type 1 8355
49 3AZL 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
50 4XZQ 3 C, G Histone H2A residues 15-121 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 3X1T 4 C, G Histone H2A 10090
75 2NZD 5 C, G histone H2A 8355
76 3A6N 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
77 5DNN 3 C, G Histone H2A 8355
78 5GT3 3 C, G Histone H2A type 1-D 9606
79 5GT0 3 C, G Histone H2A type 1-A 9606
80 3LJA 3 C, G Histone H2A 8355
81 3AZI 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
82 3TU4 3 C, G Histone H2A 8355
83 1P3O 4 C, G Histone H2A 8355
84 1KX4 4 C, G histone H2A.1 8355
85 3AZN 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
86 1P3M 4 C, G Histone H2A 8355
87 4J8V 3 C, G Histone H2A 8355
88 1AOI 4 C, G HISTONE H2A HISTONE H2A 8355
89 3X1S 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
90 3LZ0 3 C, G Histone H2A residues 2-120 8355
91 1P3F 4 C, G Histone H2A 8355
92 1P3K 4 C, G Histone H2A 8355
93 5B2I 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
94 1P3A 4 C, G Histone H2A 8355
95 3LZ1 3 C, G Histone H2A residues 2-120 8355
96 5GXQ 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
97 4Z5T 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
98 5XM0 3 C, G Histone H2A type 1-B 10090
99 3AV2 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
100 3AYW 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
101 5XF5 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
102 3AZJ 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
103 3REK 3 C, G Histone H2A type1 8355
104 4KGC 3 C, G Histone H2A 8355
105 1ZLA 4 C, G Xenopus laevis-like histone H2A 263730
106 5GSU 3 C, G Histone H2A type 1-A 9606
107 5XF4 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
108 3REL 3 C, G Histone H2A 8355
109 5GSE 3 C, G, M Histone H2A type 1-B/E 9606 3.2.1.21 | Details
110 3REI 3 C, G Histone H2A type1 8355
111 1P3B 4 C, G Histone H2A 8355
112 3WKJ 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
113 3AZK 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
114 4J8X 3 C, G Histone H2A 8355
115 3LEL 3 C, G, M, Q Histone H2A 8355
116 4YS3 3 C, G Histone H2A residues 15-121 8355
117 3KUY 3 C, G Histone H2A 8355
118 4R8P 3 C, G Histone H2A 8355
119 3AZM 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
120 3X1U 4 C, G Histone H2A 10090
121 3MGS 3 C, G Histone H2A UNP RESIDUES 2-120 8355
122 3C1C 3 C, G Histone H2A type 1 8355
123 3AZH 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
124 5B40 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
125 5CPI 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
126 3W99 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
127 3AZE 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
128 3W96 3 C, G Histone H2A type 1-B/E UNP residues 11-130 9606 3.2.1.21 | Details
129 5XM1 3 C, G Histone H2A type 1-B 10090
130 5CPJ 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
131 5B24 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
132 2HIO 1 A PROTEIN (HISTONE H2A) 9031
133 1HIO 1 A HISTONE H2A 9031
134 4QLC 5 C, G Histone H2A 7227
135 4LD9 3 C, G Histone H2A 8355
136 3O62 3 C, G Histone H2A type 1 8355
137 4XUJ 3 C, G Histone H2A UNP residues 2-126 8355
138 4X23 5 C, G, M, Q Histone H2A UNP RESIDUES 16-117 7227
139 3W97 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
140 4YM5 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
141 4YM6 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
142 2FJ7 5 C, G histone H2A 8355
143 3W98 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
144 4ZUX 3 C, G, M, Q Histone H2A type 1 8355
145 3AN2 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
146 5WCU 3 C, G, M, Q Histone H2A UNP residues 15-118 7227
147 3B6F 5 C, G Histone H2A 8355
148 5OY7 4 C, G, K, O, S, W, a, e Histone H2A 8355
149 3B6G 5 C, G Histone H2A 8355
150 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
151 3KXB 3 C, G Histone H2A 8355
152 3KWQ 3 C, G Histone H2A UNP residues 15-121 8355
153 5G2E 2 C, G, K, O, S, W HISTONE H2A TYPE 1 8355
154 5HQ2 3 G Histone H2A 8355
155 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
156 5OXV 3 C, G, M, Q Histone H2A 8355
157 1ZBB 5 C, G, c, g Histone H2A.1 8355
158 6I84 2 Q, V Histone H2A type 1 8355
159 6HTS 7 K, O Histone H2A type 1-B/E 9606 3.2.1.21 | Details
160 6A5O 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
161 6A5P 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
162 6A5R 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
163 6A5T 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
164 6A5U 18 c, g Histone H2A, Histone H2A type 1-B/E 9606 3.2.1.21 | Details
165 6A5V 18 c, g Histone H2A, Histone H2A type 1-B/E 9606 3.2.1.21 | Details
166 6A5L 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
167 6G0L 3 C Histone H2A type 1 8355
168 6G0L 5 G Histone H2A type 1 8355
169 6FTX 3 C, G Histone H2A type 1 8355
170 6FQ5 3 C, G Histone H2A 8355
171 6FQ6 3 C, G Histone H2A 8355
172 6FQ8 3 C, G Histone H2A 8355
173 6FML 11 O, S Histone H2A type 1 9606
174 6C0W 3 C, G Histone H2A 9606
175 6BUZ 3 C, G Histone H2A 9606 3.2.1.21 | Details
176 6ESF 3 C, G Histone H2A 8355
177 6ESG 3 C, G Histone H2A 8355
178 6ESH 3 C, G Histone H2A 8355
179 6ESI 3 C, G Histone H2A 8355
180 5O9G 3 C, G Histone H2A 8355
181 5X0X 3 C, G Histone H2A 8355
182 5X0Y 3 C, G Histone H2A 8355
183 5KGF 3 C, G Histone H2A type 1 Isopeptide amide crosslink between K15 of H2A and G76 of ubiquitin 9606
184 2RVQ 1 C Histone H2A type 1-B/E 9606 3.2.1.21 | Details
185 2XQL 1 A, C, E, G, I HISTONE H2A-IV RESIDUES 16-106 9031
186 3C9K 1 A, E Histone H2A-IV 9031