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The human nucleosome structure
Sequence Clustering and Redundancy Reduction Results
3AFA
Cluster # 187 Members. Sequence cutoff: 30% Cluster size: 111 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 1TZY 4 D, H HISTONE H4-VI 9031  
2 4H9N 2 B Histone H4 9606  
3 4H9Q 2 B Histone H4 9606  
4 1KX5 4 B, F histone H4 8355  
5 4H9O 2 B Histone H4 9606  
6 2ARO 4 D, H HISTONE H4-VI 9031  
7 4H9R 2 B Histone H4 9606  
8 1S32 3 B, F Histone H4 8355  
9 4H9P 2 B Histone H4 9606  
10 1KX3 3 B, F histone H4 8355  
11 1HQ3 4 D, H HISTONE H4-VI 9031  
12 5BNX 2 B Histone H4 9606  
13 3UTA 2 B, F Histone H4 8355  
14 3UTB 2 B, F Histone H4 8355  
15 1M19 3 B, F Histone H4 8355  
16 3C1B 2 B, F Histone H4 8355  
17 2NQB 3 B, F Histone H4 7227  
18 3UT9 2 B, F Histone H4 8355  
19 3R45 2 B Histone H4 9606  
20 1P3I 3 B, F Histone H4 8355  
21 3MGR 2 B, F Histone H4 8355  
22 1F66 3 B, F HISTONE H4 10090  
23 3AZG 2 B, F Histone H4 9606  
24 1M18 3 B, F Histone H4 8355  
25 2PYO 4 B, F Histone H4 7227  
26 1P3L 3 B, F Histone H4 8355  
27 1EQZ 5 D, H PROTEIN (HISTONE H4) SUBUNIT OF SALT-EXTRACTED HISTONE OCTAMER 9031  
28 2CV5 3 B, F Histone H4 9606  
29 3MGP 2 B, F Histone H4 8355  
30 3MVD 2 B, F Histone H4 8355  
31 4J8U 2 B, F Histone H4 8355  
32 2YFW 2 B, D, F, H HISTONE H4 284590  
33 3REH 2 B, F Histone H4 8355  
34 3AZL 2 B, F Histone H4 9606  
35 3NQU 2 B Histone H4 9606  
36 5BNV 2 B, E Histone H4 9606  
37 3AFA 2 B, F Histone H4 9606  
38 3REJ 2 B, F Histone H4 8355  
39 3AZF 2 B, F Histone H4 9606  
40 1P3P 3 B, F Histone H4 8355  
41 3AV1 2 B, F Histone H4 9606  
42 1M1A 3 B, F Histone H4 8355  
43 3MNN 2 B, F Histone H4 8355  
44 5BO0 2 B Histone H4 9606  
45 1P3G 3 B, F Histone H4 8355  
46 4J8W 2 B, F Histone H4 8355  
47 1P34 3 B, F Histone H4 8355  
48 4HGA 3 C Histone H4 9606  
49 4UUZ 2 B HISTONE H4 7227  
50 3MGQ 2 B, F Histone H4 8355  
51 3WTP 2 B, F Histone H4 9606  
52 2NZD 4 B, F Histone H4 8355  
53 3A6N 2 B, F Histone H4 9606  
54 3LJA 2 B, F Histone H4 8355  
55 3AZI 2 B, F Histone H4 9606  
56 3TU4 2 B, F Histone H4 8355  
57 1P3O 3 B, F Histone H4 8355  
58 1KX4 3 B, F histone H4 8355  
59 3AZN 2 B, F Histone H4 9606  
60 1P3M 3 B, F Histone H4 8355  
61 4J8V 2 B, F Histone H4 8355  
62 3LZ0 2 B, F Histone H4 8355  
63 1P3F 3 B, F Histone H4 8355  
64 1P3K 3 B, F Histone H4 8355  
65 1P3A 3 B, F Histone H4 8355  
66 3LZ1 2 B, F Histone H4 8355  
67 2IO5 3 C Histone H4 8355  
68 2F8N 3 B, F Histone H4 8355  
69 1U35 3 B, F Hist1h4i protein 10090  
70 3AV2 2 B, F Histone H4 9606  
71 3AYW 2 B, F Histone H4 9606  
72 3AZJ 2 B, F Histone H4 9606  
73 3REK 2 B, F Histone H4 8355  
74 4KGC 2 B, F Histone H4 8355  
75 1ZLA 3 B, F Histone H4 8355  
76 3REL 2 B, F Histone H4 8355  
77 3REI 2 B, F Histone H4 8355  
78 1P3B 3 B, F Histone H4 8355  
79 3WKJ 2 B, F Histone H4 9606  
80 4KUD 2 B, F Histone H4 559292  
81 3AZK 2 B, F Histone H4 9606  
82 4J8X 2 B, F Histone H4 8355  
83 3LEL 2 B, F, L, P Histone H4 8355  
84 3KUY 2 B, F Histone H4 8355  
85 4R8P 2 B, F Histone H4 8355  
86 3AZM 2 B, F Histone H4 9606  
87 3MGS 2 B, F Histone H4 8355  
88 3WA9 2 B, F Histone H4 9606  
89 1ID3 3 B, F HISTONE H4 4932  
90 3C1C 2 B, F Histone H4 8355  
91 3AZH 2 B, F Histone H4 9606  
92 3WAA 2 B, F Histone H4 9606  
93 4JJN 2 B, F Histone H4 559292  
94 3AZE 2 B, F Histone H4 9606  
95 3W96 2 B, F Histone H4 9606  
96 5BS7 2 C, D Histone H4 8355  
97 5C3I 3 C, G, K, O, S, W Histone H4 9606  
98 2HIO 4 D PROTEIN (HISTONE H4) 9031  
99 4QLC 4 B, F Histone H4 7227  
100 4LD9 2 B, F Histone H4 8355  
101 3O62 2 B, F Histone H4 8355  
102 3W97 2 B, F Histone H4 9606  
103 2FJ7 4 B, F Histone H4 8355  
104 3W98 2 B, F Histone H4 9606  
105 3AN2 2 B, F Histone H4 9606  
106 5BSA 2 C, D Histone H4 8355  
107 3B6F 4 B, F Histone H4 8355  
108 3B6G 4 B, F Histone H4 8355  
109 3KXB 2 B, F Histone H4 8355  
110 1ZBB 4 B, F, b, f Histone H4 8355  
111 3C9K 4 D, H Histone H4 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 16 861
95% 33 100 123
90% 33 103 127
70% 33 103 144
50% 34 106 166
40% 34 106 183
30% 34 106 198
Entity #2: Chains: B,F - Histone H4 protein, length: 106 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 32 90 96
95% 36 107 118
90% 37 111 114
70% 37 111 129
50% 37 111 155
40% 37 111 172
30% 37 111 187
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 23 614
95% 24 86 136
90% 27 93 132
70% 27 96 149
50% 29 102 167
40% 29 102 184
30% 29 102 199
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 22 681
95% 25 86 137
90% 25 88 146
70% 27 95 152
50% 27 95 184
40% 27 95 201
30% 27 95 217
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.