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The human nucleosome structure
Sequence Clustering and Redundancy Reduction Results
3AFA
Cluster # 158 Members. Sequence cutoff: 50% Cluster size: 104 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 4UUZ 1 A HISTONE H3 7227  
46 3MGQ 1 A, E Histone H3.2 8355  
47 3WTP 1 A Histone H3-like centromeric protein A 9606  
48 3WTP 5 E Histone H3.3 9606  
49 2NZD 3 A, E Histone H3 8355  
50 3A6N 1 A, E Histone H3.1t 9606  
51 3LJA 1 A, E Histone H3.2 8355  
52 3AZI 1 A, E Histone H3.1 9606  
53 3TU4 1 A, E Histone H3.2 8355  
54 1P3O 2 A, E Histone H3 8355  
55 1KX4 2 A, E histone H3 8355  
56 3AZN 1 A, E Histone H3.1 9606  
57 1P3M 2 A, E Histone H3 8355  
58 4J8V 1 A, E Histone H3.2 8355  
59 3LZ0 1 A, E Histone H3.2 8355  
60 1P3F 2 A, E Histone H3 8355  
61 1P3K 2 A, E Histone H3 8355  
62 1P3A 2 A, E Histone H3 8355  
63 3LZ1 1 A, E Histone H3.2 8355  
64 2IO5 2 B Histone H3.1 8355  
65 2F8N 2 A, E Histone H3.1 8355  
66 1U35 2 A, E Histone H3.1 10090  
67 3AV2 1 A, E Histone H3.3 9606  
68 3AYW 1 A, E Histone H3.1 9606  
69 3AZJ 1 A, E Histone H3.1 9606  
70 3REK 1 A, E Histone H3.2 8355  
71 4KGC 1 A, E Histone H3.2 8355  
72 1ZLA 2 A, E histone H3 8355  
73 3REL 1 A, E Histone H3.2 8355  
74 3REI 1 A, E Histone H3.2 8355  
75 1P3B 2 A, E Histone H3 8355  
76 3WKJ 1 A, E Histone H3.1 9606  
77 4KUD 1 A, E Histone H3 559292  
78 3AZK 1 A, E Histone H3.1 9606  
79 4J8X 1 A, E Histone H3.2 8355  
80 3LEL 1 A, E, K, O Histone H3.2 8355  
81 3KUY 1 A, E Histone H3.2 8355  
82 4R8P 1 A, E Histone H3.2 8355  
83 3AZM 1 A, E Histone H3.1 9606  
84 3MGS 1 A, E Histone H3.2 8355  
85 3WA9 1 A, E Histone H3.1 9606  
86 1ID3 2 A, E HISTONE H3 4932  
87 3C1C 1 A, E Histone H3-like 8355  
88 3AZH 1 A, E Histone H3.1 9606  
89 3WAA 1 A, E Histone H3.1 9606  
90 4JJN 1 A, E Histone H3 559292  
91 3W99 1 A, E Histone H3.1 9606  
92 3AZE 1 A, E Histone H3.1 9606  
93 3W96 1 A, E Histone H3.1 9606  
94 2HIO 3 C PROTEIN (HISTONE H3) 9031  
95 4LD9 1 A, E Histone H3.2 8355  
96 3O62 1 A, E Histone H3.2 8355  
97 3W97 1 A, E Histone H3.1 9606  
98 2FJ7 3 A, E histone H3 8355  
99 3AN2 1 A, E Histone H3-like centromeric protein A 9606  
100 3B6F 3 A, E Histone H3.2 8355  
101 3B6G 3 A, E Histone H3.2 8355  
102 3KXB 1 A, E Histone H3.2 8355  
103 1ZBB 3 A, E, a, e HISTONE H3 8355  
104 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 1041
95% 33 98 97
90% 33 101 103
70% 33 101 123
50% 34 104 158
40% 34 104 180
30% 34 104 198
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 87
95% 34 100 95
90% 35 104 95
70% 35 104 112
50% 35 104 151
40% 35 104 175
30% 35 104 194
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 23 581
95% 24 86 124
90% 27 92 105
70% 27 95 124
50% 29 101 148
40% 29 101 173
30% 29 101 192
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 22 649
95% 25 86 126
90% 25 88 121
70% 27 94 126
50% 27 94 169
40% 27 94 191
30% 27 94 209
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.