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The human nucleosome structure
Sequence Clustering and Redundancy Reduction Results
3AFA
Cluster # 109 Members. Sequence cutoff: 70% Cluster size: 92 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 2NQB 5 D, H Histone H2B 7227  
12 3UT9 4 D, H Histone H2B 1.1 8355  
13 1P3I 5 D, H Histone H2B 8355  
14 3MGR 4 D, H Histone H2B 1.1 8355  
15 1F66 5 D, H HISTONE H2B 8355  
16 3AZG 4 D, H Histone H2B type 1-J 9606  
17 1M18 5 D, H Histone H2B.1 8355  
18 2PYO 6 D, H Histone H2B 7227  
19 1P3L 5 D, H Histone H2B 8355  
20 1EQZ 3 B, F PROTEIN (HISTONE H2B) SUBUNIT OF SALT-EXTRACTED HISTONE OCTAMER 9031  
21 2CV5 5 D, H Histone H2B K 9606  
22 3MGP 4 D, H Histone H2B 1.1 8355  
23 3MVD 4 D, H Histone H2B 1.1 8355  
24 4J8U 4 D, H Histone H2B 1.1 8355  
25 3REH 4 D, H Histone H2B 1.1 8355  
26 3AZL 4 D, H Histone H2B type 1-J 9606  
27 3AFA 4 D, H Histone H2B type 1-J 9606  
28 3REJ 4 D, H Histone H2B 1.1 8355  
29 3AZF 4 D, H Histone H2B type 1-J 9606  
30 1P3P 5 D, H Histone H2B 8355  
31 3AV1 4 D, H Histone H2B type 1-J 9606  
32 1M1A 5 D, H Histone H2B.1 8355  
33 3MNN 4 D, H Histone H2B 1.1 8355  
34 1P3G 5 D, H Histone H2B 8355  
35 4J8W 4 D, H Histone H2B 1.1 8355  
36 1P34 5 D, H Histone H2B 8355  
37 3MGQ 4 D, H Histone H2B 1.1 8355  
38 2NZD 6 D, H Histone H2B 8355  
39 3A6N 4 D, H Histone H2B type 1-J 9606  
40 3LJA 4 D, H Histone H2B 1.1 8355  
41 3AZI 4 D, H Histone H2B type 1-J 9606  
42 3TU4 4 D, H Histone H2B 1.1 8355  
43 1P3O 5 D, H Histone H2B 8355  
44 1KX4 5 D, H histone H2B.2 8355  
45 3AZN 4 D, H Histone H2B type 1-J 9606  
46 1P3M 5 D, H Histone H2B 8355  
47 4J8V 4 D, H Histone H2B 1.1 8355  
48 3LZ0 4 D, H Histone H2B 1.1 8355  
49 1P3F 5 D, H Histone H2B 8355  
50 1P3K 5 D, H Histone H2B 8355  
51 1P3A 5 D, H Histone H2B 8355  
52 3LZ1 4 D, H Histone H2B 1.1 8355  
53 2F8N 4 D Histone 3, H2ba 10090  
54 2F8N 5 H Histone H2B.1 8355  
55 1U35 5 D, H histone 3, H2ba 10090  
56 3AV2 4 D, H Histone H2B type 1-J 9606  
57 3AYW 4 D, H Histone H2B type 1-J 9606  
58 3AZJ 4 D, H Histone H2B type 1-J 9606  
59 3REK 4 D, H Histone H2B 1.1 8355  
60 4KGC 4 D, H Histone H2B 1.1 8355  
61 1ZLA 5 D, H histone H2B 8355  
62 3REL 4 D, H Histone H2B 1.1 8355  
63 3REI 4 D, H Histone H2B 1.1 8355  
64 1P3B 5 D, H Histone H2B 8355  
65 3WKJ 4 D, H Histone H2B type 1-A 9606  
66 4KUD 4 D, H Histone H2B.1 559292  
67 3AZK 4 D, H Histone H2B type 1-J 9606  
68 4J8X 4 D, H Histone H2B 1.1 8355  
69 3LEL 4 D, H, N, R Histone H2B 1.1 8355  
70 3KUY 4 D, H Histone H2B 8355  
71 3AZM 4 D, H Histone H2B type 1-J 9606  
72 3MGS 4 D, H Histone H2B 1.1 8355  
73 3WA9 4 D, H Histone H2B type 1-J 9606  
74 1ID3 5 D, H HISTONE H2B.2 4932  
75 3C1C 4 D, H Histone 2, H2bf 8364  
76 3AZH 4 D, H Histone H2B type 1-J 9606  
77 3WAA 4 D, H Histone H2B type 1-J 9606  
78 4JJN 4 D, H Histone H2B.2 559292  
79 3W99 4 D, H Histone H2B type 1-J 9606  
80 3AZE 4 D, H Histone H2B type 1-J 9606  
81 3W96 4 D, H Histone H2B type 1-J 9606  
82 2HIO 2 B PROTEIN (HISTONE H2B) 9031  
83 4LD9 4 D, H Histone H2B 1.1 8355  
84 3O62 4 D, H Histone H2B 1.1 8355  
85 2FJ7 6 D, H Histone H2B 8355  
86 3W98 4 D, H Histone H2B type 1-J 9606  
87 3AN2 4 D, H Histone H2B type 1-J 9606  
88 3B6F 6 D, H Histone H2B 1.1 8355  
89 3B6G 6 D, H Histone H2B 1.1 8355  
90 3KXB 4 D, H Histone H2B 1.1 8355  
91 1ZBB 6 D, H, d, h Histone H2B.1 8355  
92 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 15 929
95% 33 95 82
90% 33 98 85
70% 33 98 105
50% 34 100 139
40% 34 100 168
30% 34 100 191
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 82 57
95% 34 97 79
90% 35 101 80
70% 35 101 100
50% 35 101 134
40% 35 101 163
30% 35 101 187
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 22 546
95% 24 84 86
90% 27 90 91
70% 27 93 106
50% 29 99 131
40% 29 99 159
30% 29 99 183
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 21 583
95% 25 84 88
90% 25 86 96
70% 27 92 109
50% 27 92 146
40% 27 92 174
30% 27 92 196
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.