Sequence Similarity Clusters for the Entities in PDB 3AFA

Entity #1 | Chains: A,E
Histone H3.1 protein, length: 139 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 13 41 300
95 % 52 149 76
90 % 52 152 78
70 % 52 153 96
50 % 53 156 130
40 % 53 156 144
30 % 53 156 160
Entity #2 | Chains: B,F
Histone H4 protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 51 140 75
95 % 56 159 73
90 % 57 164 74
70 % 57 164 87
50 % 57 164 121
40 % 57 164 139
30 % 57 164 155
Entity #3 | Chains: C,G
Histone H2A type 1-B/E protein, length: 133 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 19 53 245
95 % 45 139 86
90 % 47 147 80
70 % 49 153 88
50 % 54 163 117
40 % 54 163 138
30 % 54 163 149
Entity #4 | Chains: D,H
Histone H2B type 1-J protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 16 47 264
95 % 44 134 111
90 % 44 139 108
70 % 47 146 104
50 % 47 146 139
40 % 47 146 155
30 % 47 146 172
Entity #5 | Chains: I,J
146-MER DNA dna, length: 146 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name

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.


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 4WNN 1 A, C, E, G Histone H2A.1 4932
2 1TZY 1 A, E Histone H2A-IV 9031
3 1KX5 5 C, G histone H2A.1 8355
4 2ARO 1 A, E Histone H2A-IV 9031
5 5B0Z 3 C, G Histone H2A type 1-B/E 9606
6 1S32 4 C, G histone H2A 8355
7 5AV8 3 C, G Histone H2A type 1-B/E 9606
8 1KX3 4 C, G histone H2A.1 8355
9 5AV9 3 C, G Histone H2A type 1-B/E 9606
10 5AV6 3 C, G Histone H2A type 1-B/E 9606
11 1HQ3 1 A, E HISTONE H2A-IV 9031
12 3UTA 3 C, G Histone H2A 8355
13 4KHA 2 B Histone H2A UNP residues 15-103 8355
14 5X7X 3 C, G Histone H2A type 1-B/E 9606
15 5B31 3 C Histone H2A type 1-B/E 9606
16 5B1L 3 C, G Histone H2A type 1 10090
17 3UTB 3 C, G Histone H2A 8355
18 1M19 4 C, G Histone H2A.1 8355
19 5AVB 3 C, G Histone H2A type 1-B/E 9606
20 5AVC 3 C, G Histone H2A type 1-B/E 9606
21 5AV5 3 C, G Histone H2A type 1-B/E 9606
22 3C1B 3 C, G Histone H2A type 1 8355
23 5B1M 3 C, G Histone H2A type 1 10090
24 2NQB 4 C, G Histone H2A 7227
25 5F99 3 C, G Histone H2A type 1 8355
26 5JRG 3 C, G Histone H2A type 1-B/E 9606
27 3UT9 3 C, G Histone H2A 8355
28 5B32 3 C Histone H2A type 1-B/E 9606
29 4WU8 5 C, G Histone H2A type 1 8355
30 1P3I 4 C, G Histone H2A 8355
31 3MGR 3 C, G Histone H2A UNP RESIDUES 2-120 8355
32 3AZG 3 C, G Histone H2A type 1-B/E 9606
33 1M18 4 C, G Histone H2A.1 8355
34 5B2J 3 C, G Histone H2A type 1-B/E 9606
35 2PYO 5 C, G Histone H2A 7227
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
39 2CV5 4 C, G Histone H2A.a 9606
40 5CP6 5 C, G Histone H2A 8355
41 5BT1 2 C Histone H2A.1 4932
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
48 4XZQ 3 C, G Histone H2A residues 15-121 8355
49 3AFA 3 C, G Histone H2A type 1-B/E 9606
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
53 1P3P 4 C, G Histone H2A 8355
54 3AV1 3 C, G Histone H2A type 1-B/E 9606
55 1M1A 4 C, G Histone H2A.1 8355
56 5CPK 3 C, G Histone H2A type 1-B/E 9606
57 5AY8 3 C, G Histone H2A type 1-B/E 9606
58 3MNN 3 C, G Histone H2A 8355
59 1P3G 4 C, G Histone H2A 8355
60 4J8W 3 C, G Histone H2A 8355
61 1P34 4 C, G Histone H2A 8355
62 3X1V 4 C, G Histone H2A type 1-B/E 9606
63 5MLU 3 C, G Histone H2A type 1 8355
64 5DNM 3 C, G Histone H2A 8355
65 4Z66 3 C, G Histone H2A 8355
66 3MGQ 3 C, G Histone H2A UNP RESIDUES 2-120 8355
67 3WTP 3 C, G Histone H2A type 1-B/E 9606
68 3X1T 4 C, G Histone H2A 10090
69 2NZD 5 C, G histone H2A 8355
70 3A6N 3 C, G Histone H2A type 1-B/E 9606
71 5DNN 3 C, G Histone H2A 8355
72 5GT3 3 C, G Histone H2A type 1-D 9606
73 5GT0 3 C, G Histone H2A type 1-A 9606
74 3LJA 3 C, G Histone H2A 8355
75 3AZI 3 C, G Histone H2A type 1-B/E 9606
76 3TU4 3 C, G Histone H2A 8355
77 1P3O 4 C, G Histone H2A 8355
78 1KX4 4 C, G histone H2A.1 8355
79 3AZN 3 C, G Histone H2A type 1-B/E 9606
80 1P3M 4 C, G Histone H2A 8355
81 4J8V 3 C, G Histone H2A 8355
82 1AOI 4 C, G HISTONE H2A HISTONE H2A 8355
83 3X1S 3 C, G Histone H2A type 1-B/E 9606
84 3LZ0 3 C, G Histone H2A residues 2-120 8355
85 1P3F 4 C, G Histone H2A 8355
86 1P3K 4 C, G Histone H2A 8355
87 5B2I 3 C, G Histone H2A type 1-B/E 9606
88 1P3A 4 C, G Histone H2A 8355
89 3LZ1 3 C, G Histone H2A residues 2-120 8355
90 5GXQ 3 C, G Histone H2A type 1-B/E 9606
91 2F8N 7 K Histone H2A type 1 10090
92 4Z5T 3 C, G Histone H2A type 1-B/E 9606
93 3AV2 3 C, G Histone H2A type 1-B/E 9606
94 3AYW 3 C, G Histone H2A type 1-B/E 9606
95 3AZJ 3 C, G Histone H2A type 1-B/E 9606
96 3REK 3 C, G Histone H2A type1 8355
97 4KGC 3 C, G Histone H2A 8355
98 1ZLA 4 C, G Xenopus laevis-like histone H2A 263730
99 5GSU 3 C, G Histone H2A type 1-A 9606
100 3REL 3 C, G Histone H2A 8355
101 5GSE 3 C, G, M Histone H2A type 1-B/E 9606
102 3REI 3 C, G Histone H2A type1 8355
103 1P3B 4 C, G Histone H2A 8355
104 3WKJ 3 C, G Histone H2A type 1-B/E 9606
105 4KUD 3 C, G Histone H2A.2 4932
106 3AZK 3 C, G Histone H2A type 1-B/E 9606
107 4J8X 3 C, G Histone H2A 8355
108 3LEL 3 C, G, M, Q Histone H2A 8355
109 4YS3 3 C, G Histone H2A residues 15-121 8355
110 3KUY 3 C, G Histone H2A 8355
111 4R8P 3 C, G Histone H2A 8355
112 3AZM 3 C, G Histone H2A type 1-B/E 9606
113 3X1U 4 C, G Histone H2A 10090
114 3MGS 3 C, G Histone H2A UNP RESIDUES 2-120 8355
115 1ID3 4 C, G HISTONE H2A.1 4932
116 3C1C 3 C, G Histone H2A type 1 8355
117 3AZH 3 C, G Histone H2A type 1-B/E 9606
118 5B40 3 C, G Histone H2A type 1-B/E 9606
119 5CPI 3 C, G Histone H2A type 1-B/E 9606
120 4JJN 3 C, G Histone H2A.2 4932
121 3W99 3 C, G Histone H2A type 1-B/E 9606
122 3AZE 3 C, G Histone H2A type 1-B/E 9606
123 3W96 3 C, G Histone H2A type 1-B/E UNP residues 11-130 9606
124 5CPJ 3 C, G Histone H2A type 1-B/E 9606
125 5B24 3 C, G Histone H2A type 1-B/E 9606
126 2HIO 1 A PROTEIN (HISTONE H2A) 9031
127 1HIO 1 A HISTONE H2A 9031
128 4QLC 5 C, G Histone H2A 7227
129 4LD9 3 C, G Histone H2A 8355
130 3O62 3 C, G Histone H2A type 1 8355
131 4XUJ 3 C, G Histone H2A UNP residues 2-126 8355
132 4X23 5 C, G, M, Q Histone H2A UNP RESIDUES 16-117 7227
133 3W97 3 C, G Histone H2A type 1-B/E 9606
134 4YM5 3 C, G Histone H2A type 1-B/E 9606
135 4YM6 3 C, G Histone H2A type 1-B/E 9606
136 2FJ7 5 C, G histone H2A 8355
137 3W98 3 C, G Histone H2A type 1-B/E 9606
138 4ZUX 3 C, G, M, Q Histone H2A type 1 8355
139 3AN2 3 C, G Histone H2A type 1-B/E 9606
140 3B6F 5 C, G Histone H2A 8355
141 3B6G 5 C, G Histone H2A 8355
142 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
143 3KXB 3 C, G Histone H2A 8355
144 3KWQ 3 C, G Histone H2A UNP residues 15-121 8355
145 5G2E 2 C, G, K, O, S, W HISTONE H2A TYPE 1 8355
146 5HQ2 3 G Histone H2A 8355
147 1ZBB 5 C, G, c, g Histone H2A.1 8355
148 5X0X 3 C, G Histone H2A 8355
149 5X0Y 3 C, G Histone H2A 8355
150 5KGF 3 C, G Histone H2A type 1 Isopeptide amide crosslink between K15 of H2A and G76 of ubiquitin 9606
151 2RVQ 1 C Histone H2A type 1-B/E 9606
152 2XQL 1 A, C, E, G, I HISTONE H2A-IV RESIDUES 16-106 9031
153 3C9K 1 A, E Histone H2A-IV 9031