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 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 5XF6 3 C, G Histone H2A 8355
42 3MGP 3 C, G Histone H2A UNP RESIDUES 2-120 8355
43 3MVD 3 C, G Histone H2A 8355
44 4J8U 3 C, G Histone H2A type 1 8355
45 4WU9 3 C, G Histone H2A type 1 8355
46 3REH 3 C, G Histone H2A type 1 8355
47 3AZL 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
48 4XZQ 3 C, G Histone H2A residues 15-121 8355
49 3AFA 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
50 5E5A 4 C, G Histone H2A 8355
51 3REJ 3 C, G Histone H2A type 1 8355
52 3AZF 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
53 5GTC 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
54 1P3P 4 C, G Histone H2A 8355
55 3AV1 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
56 1M1A 4 C, G Histone H2A.1 8355
57 5CPK 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
58 5AY8 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
59 3MNN 3 C, G Histone H2A 8355
60 1P3G 4 C, G Histone H2A 8355
61 4J8W 3 C, G Histone H2A 8355
62 1P34 4 C, G Histone H2A 8355
63 5XF3 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
64 3X1V 4 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
65 5MLU 3 C, G Histone H2A type 1 8355
66 5ONG 5 C, G Histone H2A 8355
67 5ONW 5 C, G Histone H2A 8355
68 5DNM 3 C, G Histone H2A 8355
69 4Z66 3 C, G Histone H2A 8355
70 3MGQ 3 C, G Histone H2A UNP RESIDUES 2-120 8355
71 3WTP 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
72 2NZD 5 C, G histone H2A 8355
73 3A6N 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
74 5DNN 3 C, G Histone H2A 8355
75 5GT3 3 C, G Histone H2A type 1-D 9606
76 3LJA 3 C, G Histone H2A 8355
77 3AZI 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
78 3TU4 3 C, G Histone H2A 8355
79 1P3O 4 C, G Histone H2A 8355
80 1KX4 4 C, G histone H2A.1 8355
81 3AZN 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
82 1P3M 4 C, G Histone H2A 8355
83 4J8V 3 C, G Histone H2A 8355
84 1AOI 4 C, G HISTONE H2A HISTONE H2A 8355
85 3X1S 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
86 3LZ0 3 C, G Histone H2A residues 2-120 8355
87 1P3F 4 C, G Histone H2A 8355
88 1P3K 4 C, G Histone H2A 8355
89 5B2I 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
90 1P3A 4 C, G Histone H2A 8355
91 3LZ1 3 C, G Histone H2A residues 2-120 8355
92 5GXQ 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
93 4Z5T 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
94 5XM0 3 C, G Histone H2A type 1-B 10090
95 3AV2 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
96 3AYW 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
97 5XF5 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
98 3AZJ 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
99 3REK 3 C, G Histone H2A type1 8355
100 4KGC 3 C, G Histone H2A 8355
101 1ZLA 4 C, G Xenopus laevis-like histone H2A 263730
102 5XF4 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
103 3REL 3 C, G Histone H2A 8355
104 5GSE 3 C, G, M Histone H2A type 1-B/E 9606 3.2.1.21 | Details
105 3REI 3 C, G Histone H2A type1 8355
106 1P3B 4 C, G Histone H2A 8355
107 3WKJ 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
108 3AZK 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
109 4J8X 3 C, G Histone H2A 8355
110 3LEL 3 C, G, M, Q Histone H2A 8355
111 4YS3 3 C, G Histone H2A residues 15-121 8355
112 3KUY 3 C, G Histone H2A 8355
113 4R8P 3 C, G Histone H2A 8355
114 3AZM 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
115 3MGS 3 C, G Histone H2A UNP RESIDUES 2-120 8355
116 3C1C 3 C, G Histone H2A type 1 8355
117 3AZH 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
118 5B40 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
119 5CPI 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
120 3W99 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
121 3AZE 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
122 3W96 3 C, G Histone H2A type 1-B/E UNP residues 11-130 9606 3.2.1.21 | Details
123 5XM1 3 C, G Histone H2A type 1-B 10090
124 5CPJ 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
125 5B24 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
126 2HIO 1 A PROTEIN (HISTONE H2A) 9031
127 1HIO 1 A HISTONE H2A 9031
128 4LD9 3 C, G Histone H2A 8355
129 3O62 3 C, G Histone H2A type 1 8355
130 4XUJ 3 C, G Histone H2A UNP residues 2-126 8355
131 3W97 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
132 4YM5 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
133 4YM6 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
134 2FJ7 5 C, G histone H2A 8355
135 3W98 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
136 4ZUX 3 C, G, M, Q Histone H2A type 1 8355
137 3AN2 3 C, G Histone H2A type 1-B/E 9606 3.2.1.21 | Details
138 3B6F 5 C, G Histone H2A 8355
139 5OY7 4 C, G, K, O, S, W, a, e Histone H2A 8355
140 3B6G 5 C, G Histone H2A 8355
141 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
142 3KXB 3 C, G Histone H2A 8355
143 3KWQ 3 C, G Histone H2A UNP residues 15-121 8355
144 5G2E 2 C, G, K, O, S, W HISTONE H2A TYPE 1 8355
145 5HQ2 3 G Histone H2A 8355
146 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
147 5OXV 3 C, G, M, Q Histone H2A 8355
148 1ZBB 5 C, G, c, g Histone H2A.1 8355
149 6I84 2 Q, V Histone H2A type 1 8355
150 6HTS 7 K, O Histone H2A type 1-B/E 9606 3.2.1.21 | Details
151 6A5O 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
152 6A5P 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
153 6A5R 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
154 6A5T 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
155 6A5U 18 c, g Histone H2A, Histone H2A type 1-B/E 9606 3.2.1.21 | Details
156 6A5V 18 c, g Histone H2A, Histone H2A type 1-B/E 9606 3.2.1.21 | Details
157 6A5L 18 c, g Histone H2A type 1-B/E 9606 3.2.1.21 | Details
158 6G0L 3 C Histone H2A type 1 8355
159 6G0L 5 G Histone H2A type 1 8355
160 6FTX 3 C, G Histone H2A type 1 8355
161 6FQ5 3 C, G Histone H2A 8355
162 6FQ6 3 C, G Histone H2A 8355
163 6FQ8 3 C, G Histone H2A 8355
164 6FML 11 O, S Histone H2A type 1 9606
165 6C0W 3 C, G Histone H2A 9606
166 6BUZ 3 C, G Histone H2A 9606 3.2.1.21 | Details
167 6ESF 3 C, G Histone H2A 8355
168 6ESG 3 C, G Histone H2A 8355
169 6ESH 3 C, G Histone H2A 8355
170 6ESI 3 C, G Histone H2A 8355
171 5O9G 3 C, G Histone H2A 8355
172 5X0X 3 C, G Histone H2A 8355
173 5X0Y 3 C, G Histone H2A 8355
174 5KGF 3 C, G Histone H2A type 1 Isopeptide amide crosslink between K15 of H2A and G76 of ubiquitin 9606
175 2RVQ 1 C Histone H2A type 1-B/E 9606 3.2.1.21 | Details
176 2XQL 1 A, C, E, G, I HISTONE H2A-IV RESIDUES 16-106 9031
177 3C9K 1 A, E Histone H2A-IV 9031