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The human nucleosome structure
Sequence Clustering and Redundancy Reduction Results
3AFA
Cluster # 88 Members. Sequence cutoff: 95% Cluster size: 86 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 1TZY 2 B, F Histone H2B 9031  
2 1KX5 6 D, H histone H2B.2 8355  
3 2ARO 2 B, F Histone H2B 9031  
4 1S32 5 D, H Histone H2B 8355  
5 1KX3 5 D, H histone H2B.2 8355  
6 1HQ3 2 B, F HISTONE H2B 9031  
7 3UTA 4 D, H Histone H2B 1.1 8355  
8 3UTB 4 D, H Histone H2B 1.1 8355  
9 1M19 5 D, H Histone H2B.1 8355  
10 3C1B 4 D, H Histone 2, H2bf 8364  
11 3UT9 4 D, H Histone H2B 1.1 8355  
12 1P3I 5 D, H Histone H2B 8355  
13 3MGR 4 D, H Histone H2B 1.1 8355  
14 1F66 5 D, H HISTONE H2B 8355  
15 3AZG 4 D, H Histone H2B type 1-J 9606  
16 1M18 5 D, H Histone H2B.1 8355  
17 1P3L 5 D, H Histone H2B 8355  
18 1EQZ 3 B, F PROTEIN (HISTONE H2B) SUBUNIT OF SALT-EXTRACTED HISTONE OCTAMER 9031  
19 2CV5 5 D, H Histone H2B K 9606  
20 3MGP 4 D, H Histone H2B 1.1 8355  
21 3MVD 4 D, H Histone H2B 1.1 8355  
22 4J8U 4 D, H Histone H2B 1.1 8355  
23 3REH 4 D, H Histone H2B 1.1 8355  
24 3AZL 4 D, H Histone H2B type 1-J 9606  
25 3AFA 4 D, H Histone H2B type 1-J 9606  
26 3REJ 4 D, H Histone H2B 1.1 8355  
27 3AZF 4 D, H Histone H2B type 1-J 9606  
28 1P3P 5 D, H Histone H2B 8355  
29 3AV1 4 D, H Histone H2B type 1-J 9606  
30 1M1A 5 D, H Histone H2B.1 8355  
31 3MNN 4 D, H Histone H2B 1.1 8355  
32 1P3G 5 D, H Histone H2B 8355  
33 4J8W 4 D, H Histone H2B 1.1 8355  
34 1P34 5 D, H Histone H2B 8355  
35 3MGQ 4 D, H Histone H2B 1.1 8355  
36 3WTP 4 D, H Histone H2B type 1-J 9606  
37 2NZD 6 D, H Histone H2B 8355  
38 3A6N 4 D, H Histone H2B type 1-J 9606  
39 3LJA 4 D, H Histone H2B 1.1 8355  
40 3AZI 4 D, H Histone H2B type 1-J 9606  
41 3TU4 4 D, H Histone H2B 1.1 8355  
42 1P3O 5 D, H Histone H2B 8355  
43 1KX4 5 D, H histone H2B.2 8355  
44 3AZN 4 D, H Histone H2B type 1-J 9606  
45 1P3M 5 D, H Histone H2B 8355  
46 4J8V 4 D, H Histone H2B 1.1 8355  
47 3LZ0 4 D, H Histone H2B 1.1 8355  
48 1P3F 5 D, H Histone H2B 8355  
49 1P3K 5 D, H Histone H2B 8355  
50 1P3A 5 D, H Histone H2B 8355  
51 3LZ1 4 D, H Histone H2B 1.1 8355  
52 2F8N 5 H Histone H2B.1 8355  
53 3AV2 4 D, H Histone H2B type 1-J 9606  
54 3AYW 4 D, H Histone H2B type 1-J 9606  
55 3AZJ 4 D, H Histone H2B type 1-J 9606  
56 3REK 4 D, H Histone H2B 1.1 8355  
57 4KGC 4 D, H Histone H2B 1.1 8355  
58 1ZLA 5 D, H histone H2B 8355  
59 3REL 4 D, H Histone H2B 1.1 8355  
60 3REI 4 D, H Histone H2B 1.1 8355  
61 1P3B 5 D, H Histone H2B 8355  
62 3AZK 4 D, H Histone H2B type 1-J 9606  
63 4J8X 4 D, H Histone H2B 1.1 8355  
64 3LEL 4 D, H, N, R Histone H2B 1.1 8355  
65 3KUY 4 D, H Histone H2B 8355  
66 4R8P 4 D, H Histone H2B 1.1 8355  
67 3AZM 4 D, H Histone H2B type 1-J 9606  
68 3MGS 4 D, H Histone H2B 1.1 8355  
69 3WA9 4 D, H Histone H2B type 1-J 9606  
70 3C1C 4 D, H Histone 2, H2bf 8364  
71 3AZH 4 D, H Histone H2B type 1-J 9606  
72 3WAA 4 D, H Histone H2B type 1-J 9606  
73 3W99 4 D, H Histone H2B type 1-J 9606  
74 3AZE 4 D, H Histone H2B type 1-J 9606  
75 3W96 4 D, H Histone H2B type 1-J 9606  
76 2HIO 2 B PROTEIN (HISTONE H2B) 9031  
77 4LD9 4 D, H Histone H2B 1.1 8355  
78 3O62 4 D, H Histone H2B 1.1 8355  
79 2FJ7 6 D, H Histone H2B 8355  
80 3W98 4 D, H Histone H2B type 1-J 9606  
81 3AN2 4 D, H Histone H2B type 1-J 9606  
82 3B6F 6 D, H Histone H2B 1.1 8355  
83 3B6G 6 D, H Histone H2B 1.1 8355  
84 3KXB 4 D, H Histone H2B 1.1 8355  
85 1ZBB 6 D, H, d, h Histone H2B.1 8355  
86 3C9K 2 B, F Histone H2B 7 9031  
 
Sequence Clusters for the Sequence Entities in PDB 3AFA
Entity #1: Chains: A,E - Histone H3.1 protein, length: 139 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 3 15 1023
95% 33 97 83
90% 33 100 85
70% 33 100 104
50% 34 103 138
40% 34 103 167
30% 34 103 191
Entity #2: Chains: B,F - Histone H4 protein, length: 106 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 30 84 68
95% 34 99 81
90% 35 103 80
70% 35 103 98
50% 35 103 134
40% 35 103 162
30% 35 103 187
Entity #3: Chains: C,G - Histone H2A type 1-B/E protein, length: 133 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 4 23 564
95% 24 86 87
90% 27 92 90
70% 27 95 103
50% 29 101 131
40% 29 101 160
30% 29 101 185
Entity #4: Chains: D,H - Histone H2B type 1-J protein, length: 129 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 3 22 624
95% 25 86 88
90% 25 88 96
70% 27 94 109
50% 27 94 149
40% 27 94 177
30% 27 94 197
Entity #5: Chains: I,J - 146-MER DNA dna, length: 146 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
 

Documentation

Click here for more detailed documentation on the redundancy reduction and sequence clustering procedure used by RCSB.