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The human nucleosome structure
Sequence Clustering and Redundancy Reduction Results
3AFA
Cluster # 139 Members. Sequence cutoff: 50% Cluster size: 100 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 1TZY 3 C, G HISTONE H3 9031  
2 4H9N 1 A Histone H3.3 9606  
3 4H9Q 1 A Histone H3.3 9606  
4 1KX5 3 A, E histone H3 8355  
5 4H9O 1 A Histone H3.3 9606  
6 2ARO 3 C, G HISTONE H3 9031  
7 4H9R 1 A Histone H3.3 9606  
8 1S32 2 A, E histone H3 8355  
9 4H9P 1 A Histone H3.3 9606  
10 1KX3 2 A, E histone H3 8355  
11 1HQ3 3 C, G HISTONE H3 9031  
12 3UTA 1 A, E Histone H3.2 8355  
13 3UTB 1 A, E Histone H3.2 8355  
14 1M19 2 A, E Histone H3.2 8355  
15 3C1B 1 A, E Histone H3-like 8355  
16 2NQB 2 A, E Histone H3 7227  
17 3UT9 1 A, E Histone H3.2 8355  
18 1P3I 2 A, E Histone H3 8355  
19 3MGR 1 A, E Histone H3.2 8355  
20 1F66 2 A, E HISTONE H3 8355  
21 3AZG 1 A, E Histone H3.1 9606  
22 4H9S 1 A, B Histone H3.3 9606  
23 1M18 2 A, E Histone H3.2 8355  
24 2PYO 3 A, E Histone H3 7227  
25 1P3L 2 A, E Histone H3 8355  
26 1EQZ 4 C, G PROTEIN (HISTONE H3) SUBUNIT OF SALT-EXTRACTED HISTONE OCTAMER 9031  
27 2CV5 2 A, E Histone H3.1 9606  
28 3MGP 1 A, E Histone H3.2 8355  
29 3MVD 1 A, E Histone H3.2 8355  
30 4J8U 1 A, E Histone H3.2 8355  
31 3REH 1 A, E Histone H3.2 8355  
32 3AZL 1 A, E Histone H3.1 9606  
33 3NQU 1 A Histone H3-like centromeric protein A 9606  
34 3AFA 1 A, E Histone H3.1 9606  
35 3REJ 1 A, E Histone H3.2 8355  
36 3AZF 1 A, E Histone H3.1 9606  
37 1P3P 2 A, E Histone H3 8355  
38 3AV1 1 A, E Histone H3.2 9606  
39 1M1A 2 A, E Histone H3.2 8355  
40 3MNN 1 A, E Histone H3.2 8355  
41 1P3G 2 A, E Histone H3 8355  
42 4J8W 1 A, E Histone H3.2 8355  
43 1P34 2 A, E Histone H3 8355  
44 4HGA 2 B Histone H3.3 9606  
45 3MGQ 1 A, E Histone H3.2 8355  
46 2NZD 3 A, E Histone H3 8355  
47 3A6N 1 A, E Histone H3.1t 9606  
48 3LJA 1 A, E Histone H3.2 8355  
49 3AZI 1 A, E Histone H3.1 9606  
50 3TU4 1 A, E Histone H3.2 8355  
51 1P3O 2 A, E Histone H3 8355  
52 1KX4 2 A, E histone H3 8355  
53 3AZN 1 A, E Histone H3.1 9606  
54 1P3M 2 A, E Histone H3 8355  
55 4J8V 1 A, E Histone H3.2 8355  
56 3LZ0 1 A, E Histone H3.2 8355  
57 1P3F 2 A, E Histone H3 8355  
58 1P3K 2 A, E Histone H3 8355  
59 1P3A 2 A, E Histone H3 8355  
60 3LZ1 1 A, E Histone H3.2 8355  
61 2IO5 2 B Histone H3.1 8355  
62 2F8N 2 A, E Histone H3.1 8355  
63 1U35 2 A, E Histone H3.1 10090  
64 3AV2 1 A, E Histone H3.3 9606  
65 3AYW 1 A, E Histone H3.1 9606  
66 3AZJ 1 A, E Histone H3.1 9606  
67 3REK 1 A, E Histone H3.2 8355  
68 4KGC 1 A, E Histone H3.2 8355  
69 1ZLA 2 A, E histone H3 8355  
70 3REL 1 A, E Histone H3.2 8355  
71 3REI 1 A, E Histone H3.2 8355  
72 1P3B 2 A, E Histone H3 8355  
73 3WKJ 1 A, E Histone H3.1 9606  
74 4KUD 1 A, E Histone H3 559292  
75 3AZK 1 A, E Histone H3.1 9606  
76 4J8X 1 A, E Histone H3.2 8355  
77 3LEL 1 A, E, K, O Histone H3.2 8355  
78 3KUY 1 A, E Histone H3.2 8355  
79 3AZM 1 A, E Histone H3.1 9606  
80 3MGS 1 A, E Histone H3.2 8355  
81 3WA9 1 A, E Histone H3.1 9606  
82 1ID3 2 A, E HISTONE H3 4932  
83 3C1C 1 A, E Histone H3-like 8355  
84 3AZH 1 A, E Histone H3.1 9606  
85 3WAA 1 A, E Histone H3.1 9606  
86 4JJN 1 A, E Histone H3 559292  
87 3W99 1 A, E Histone H3.1 9606  
88 3AZE 1 A, E Histone H3.1 9606  
89 3W96 1 A, E Histone H3.1 9606  
90 2HIO 3 C PROTEIN (HISTONE H3) 9031  
91 4LD9 1 A, E Histone H3.2 8355  
92 3O62 1 A, E Histone H3.2 8355  
93 3W97 1 A, E Histone H3.1 9606  
94 2FJ7 3 A, E histone H3 8355  
95 3AN2 1 A, E Histone H3-like centromeric protein A 9606  
96 3B6F 3 A, E Histone H3.2 8355  
97 3B6G 3 A, E Histone H3.2 8355  
98 3KXB 1 A, E Histone H3.2 8355  
99 1ZBB 3 A, E, a, e HISTONE H3 8355  
100 3C9K 3 C, G Histone H3.2 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.