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The human nucleosome structure
Sequence Clustering and Redundancy Reduction Results
3AFA
Cluster # 124 Members. Sequence cutoff: 70% Cluster size: 95 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 1TZY 1 A, E Histone H2A-IV 9031  
2 1KX5 5 C, G histone H2A.1 8355  
3 2ARO 1 A, E Histone H2A-IV 9031  
4 1S32 4 C, G histone H2A 8355  
5 1KX3 4 C, G histone H2A.1 8355  
6 1HQ3 1 A, E HISTONE H2A-IV 9031  
7 3UTA 3 C, G Histone H2A 8355  
8 4KHA 2 B Histone H2A UNP residues 15-103 8355  
9 3UTB 3 C, G Histone H2A 8355  
10 1M19 4 C, G Histone H2A.1 8355  
11 3C1B 3 C, G Histone H2A type 1 8355  
12 2NQB 4 C, G Histone H2A 7227  
13 3UT9 3 C, G Histone H2A 8355  
14 1P3I 4 C, G Histone H2A 8355  
15 3MGR 3 C, G Histone H2A UNP RESIDUES 2-120 8355  
16 3AZG 3 C, G Histone H2A type 1-B/E 9606  
17 1M18 4 C, G Histone H2A.1 8355  
18 2PYO 5 C, G Histone H2A 7227  
19 1P3L 4 C, G Histone H2A 8355  
20 1EQZ 2 A, E PROTEIN (HISTONE H2A) SUBUNIT OF SALT-EXTRACTED HISTONE OCTAMER 9031  
21 2CV5 4 C, G Histone H2A.a 9606  
22 3MGP 3 C, G Histone H2A UNP RESIDUES 2-120 8355  
23 3MVD 3 C, G Histone H2A 8355  
24 4J8U 3 C, G Histone H2A type 1 8355  
25 3REH 3 C, G Histone H2A type 1 8355  
26 3AZL 3 C, G Histone H2A type 1-B/E 9606  
27 3AFA 3 C, G Histone H2A type 1-B/E 9606  
28 3REJ 3 C, G Histone H2A type 1 8355  
29 3AZF 3 C, G Histone H2A type 1-B/E 9606  
30 1P3P 4 C, G Histone H2A 8355  
31 3AV1 3 C, G Histone H2A type 1-B/E 9606  
32 1M1A 4 C, G Histone H2A.1 8355  
33 3MNN 3 C, G Histone H2A 8355  
34 1P3G 4 C, G Histone H2A 8355  
35 4J8W 3 C, G Histone H2A 8355  
36 1P34 4 C, G Histone H2A 8355  
37 3MGQ 3 C, G Histone H2A UNP RESIDUES 2-120 8355  
38 3WTP 3 C, G Histone H2A type 1-B/E 9606  
39 2NZD 5 C, G histone H2A 8355  
40 3A6N 3 C, G Histone H2A type 1-B/E 9606  
41 3LJA 3 C, G Histone H2A 8355  
42 3AZI 3 C, G Histone H2A type 1-B/E 9606  
43 3TU4 3 C, G Histone H2A 8355  
44 1P3O 4 C, G Histone H2A 8355  
45 1KX4 4 C, G histone H2A.1 8355  
46 3AZN 3 C, G Histone H2A type 1-B/E 9606  
47 1P3M 4 C, G Histone H2A 8355  
48 4J8V 3 C, G Histone H2A 8355  
49 1AOI 4 C, G HISTONE H2A HISTONE H2A 8355  
50 3LZ0 3 C, G Histone H2A residues 2-120 8355  
51 1P3F 4 C, G Histone H2A 8355  
52 1P3K 4 C, G Histone H2A 8355  
53 1P3A 4 C, G Histone H2A 8355  
54 3LZ1 3 C, G Histone H2A residues 2-120 8355  
55 3AV2 3 C, G Histone H2A type 1-B/E 9606  
56 3AYW 3 C, G Histone H2A type 1-B/E 9606  
57 3AZJ 3 C, G Histone H2A type 1-B/E 9606  
58 3REK 3 C, G Histone H2A type1 8355  
59 4KGC 3 C, G Histone H2A 8355  
60 1ZLA 4 C, G Xenopus laevis-like histone H2A 263730  
61 3REL 3 C, G Histone H2A 8355  
62 3REI 3 C, G Histone H2A type1 8355  
63 1P3B 4 C, G Histone H2A 8355  
64 3WKJ 3 C, G Histone H2A type 1-B/E 9606  
65 4KUD 3 C, G Histone H2A.2 559292  
66 3AZK 3 C, G Histone H2A type 1-B/E 9606  
67 4J8X 3 C, G Histone H2A 8355  
68 3LEL 3 C, G, M, Q Histone H2A 8355  
69 3KUY 3 C, G Histone H2A 8355  
70 4R8P 3 C, G Histone H2A 8355  
71 3AZM 3 C, G Histone H2A type 1-B/E 9606  
72 3MGS 3 C, G Histone H2A UNP RESIDUES 2-120 8355  
73 1ID3 4 C, G HISTONE H2A.1 4932  
74 3C1C 3 C, G Histone H2A type 1 8355  
75 3AZH 3 C, G Histone H2A type 1-B/E 9606  
76 4JJN 3 C, G Histone H2A.2 559292  
77 3W99 3 C, G Histone H2A type 1-B/E 9606  
78 3AZE 3 C, G Histone H2A type 1-B/E 9606  
79 3W96 3 C, G Histone H2A type 1-B/E UNP residues 11-130 9606  
80 2HIO 1 A PROTEIN (HISTONE H2A) 9031  
81 1HIO 1 A HISTONE H2A 9031  
82 4LD9 3 C, G Histone H2A 8355  
83 3O62 3 C, G Histone H2A type 1 8355  
84 4X23 5 C, G, M, Q Histone H2A UNP RESIDUES 16-117 7227  
85 3W97 3 C, G Histone H2A type 1-B/E 9606  
86 2FJ7 5 C, G histone H2A 8355  
87 3W98 3 C, G Histone H2A type 1-B/E 9606  
88 3AN2 3 C, G Histone H2A type 1-B/E 9606  
89 3B6F 5 C, G Histone H2A 8355  
90 3B6G 5 C, G Histone H2A 8355  
91 3KXB 3 C, G Histone H2A 8355  
92 3KWQ 3 C, G Histone H2A UNP residues 15-121 8355  
93 1ZBB 5 C, G, c, g Histone H2A.1 8355  
94 2XQL 1 A, C, E, G, I HISTONE H2A-IV RESIDUES 16-106 9031  
95 3C9K 1 A, E Histone H2A-IV 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 1053
95% 33 98 98
90% 33 101 103
70% 33 101 123
50% 34 104 159
40% 34 104 181
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 92
95% 34 100 96
90% 35 104 95
70% 35 104 114
50% 35 104 153
40% 35 104 176
30% 35 104 195
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 23 594
95% 24 86 129
90% 27 92 106
70% 27 95 124
50% 29 101 150
40% 29 101 174
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 22 658
95% 25 86 131
90% 25 88 137
70% 27 94 128
50% 27 94 172
40% 27 94 193
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.