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The human nucleosome structure
Sequence Clustering and Redundancy Reduction Results
3AFA
Cluster # 106 Members. Sequence cutoff: 70% Cluster size: 93 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 2NZD 5 C, G histone H2A 8355  
39 3A6N 3 C, G Histone H2A type 1-B/E 9606  
40 3LJA 3 C, G Histone H2A 8355  
41 3AZI 3 C, G Histone H2A type 1-B/E 9606  
42 3TU4 3 C, G Histone H2A 8355  
43 1P3O 4 C, G Histone H2A 8355  
44 1KX4 4 C, G histone H2A.1 8355  
45 3AZN 3 C, G Histone H2A type 1-B/E 9606  
46 1P3M 4 C, G Histone H2A 8355  
47 4J8V 3 C, G Histone H2A 8355  
48 1AOI 4 C, G HISTONE H2A HISTONE H2A 8355  
49 3LZ0 3 C, G Histone H2A residues 2-120 8355  
50 1P3F 4 C, G Histone H2A 8355  
51 1P3K 4 C, G Histone H2A 8355  
52 1P3A 4 C, G Histone H2A 8355  
53 3LZ1 3 C, G Histone H2A residues 2-120 8355  
54 3AV2 3 C, G Histone H2A type 1-B/E 9606  
55 3AYW 3 C, G Histone H2A type 1-B/E 9606  
56 3AZJ 3 C, G Histone H2A type 1-B/E 9606  
57 3REK 3 C, G Histone H2A type1 8355  
58 4KGC 3 C, G Histone H2A 8355  
59 1ZLA 4 C, G Xenopus laevis-like histone H2A 263730  
60 3REL 3 C, G Histone H2A 8355  
61 3REI 3 C, G Histone H2A type1 8355  
62 1P3B 4 C, G Histone H2A 8355  
63 3WKJ 3 C, G Histone H2A type 1-B/E 9606  
64 4KUD 3 C, G Histone H2A.2 559292  
65 3AZK 3 C, G Histone H2A type 1-B/E 9606  
66 4J8X 3 C, G Histone H2A 8355  
67 3LEL 3 C, G, M, Q Histone H2A 8355  
68 3KUY 3 C, G Histone H2A 8355  
69 3AZM 3 C, G Histone H2A type 1-B/E 9606  
70 3MGS 3 C, G Histone H2A UNP RESIDUES 2-120 8355  
71 1ID3 4 C, G HISTONE H2A.1 4932  
72 3C1C 3 C, G Histone H2A type 1 8355  
73 3AZH 3 C, G Histone H2A type 1-B/E 9606  
74 4JJN 3 C, G Histone H2A.2 559292  
75 3W99 3 C, G Histone H2A type 1-B/E 9606  
76 3AZE 3 C, G Histone H2A type 1-B/E 9606  
77 3W96 3 C, G Histone H2A type 1-B/E UNP residues 11-130 9606  
78 2HIO 1 A PROTEIN (HISTONE H2A) 9031  
79 1HIO 1 A HISTONE H2A 9031  
80 4LD9 3 C, G Histone H2A 8355  
81 3O62 3 C, G Histone H2A type 1 8355  
82 4INM 3 C, G, M, Q Histone H2A unp residues 16-117 7227  
83 3W97 3 C, G Histone H2A type 1-B/E 9606  
84 2FJ7 5 C, G histone H2A 8355  
85 3W98 3 C, G Histone H2A type 1-B/E 9606  
86 3AN2 3 C, G Histone H2A type 1-B/E 9606  
87 3B6F 5 C, G Histone H2A 8355  
88 3B6G 5 C, G Histone H2A 8355  
89 3KXB 3 C, G Histone H2A 8355  
90 3KWQ 3 C, G Histone H2A UNP residues 15-121 8355  
91 1ZBB 5 C, G, c, g Histone H2A.1 8355  
92 2XQL 1 A, C, E, G, I HISTONE H2A-IV RESIDUES 16-106 9031  
93 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 15 929
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.