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The human nucleosome structure
Sequence Clustering and Redundancy Reduction Results
3AFA
Cluster # 198 Members. Sequence cutoff: 30% Cluster size: 104 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 4CAY 1 A HISTONE H2A.Z GLOBULAR DOMAIN, RESIDUES 19-128 9606  
2 1TZY 1 A, E Histone H2A-IV 9031  
3 1KX5 5 C, G histone H2A.1 8355  
4 2ARO 1 A, E Histone H2A-IV 9031  
5 1S32 4 C, G histone H2A 8355  
6 1KX3 4 C, G histone H2A.1 8355  
7 1HQ3 1 A, E HISTONE H2A-IV 9031  
8 3UTA 3 C, G Histone H2A 8355  
9 4KHA 2 B Histone H2A UNP residues 15-103 8355  
10 3UTB 3 C, G Histone H2A 8355  
11 1M19 4 C, G Histone H2A.1 8355  
12 3C1B 3 C, G Histone H2A type 1 8355  
13 2NQB 4 C, G Histone H2A 7227  
14 3UT9 3 C, G Histone H2A 8355  
15 4WU8 5 C, G Histone H2A type 1 8355  
16 1P3I 4 C, G Histone H2A 8355  
17 3MGR 3 C, G Histone H2A UNP RESIDUES 2-120 8355  
18 1F66 4 C, G HISTONE H2A.Z 9606  
19 3AZG 3 C, G Histone H2A type 1-B/E 9606  
20 1M18 4 C, G Histone H2A.1 8355  
21 2PYO 5 C, G Histone H2A 7227  
22 1P3L 4 C, G Histone H2A 8355  
23 1EQZ 2 A, E PROTEIN (HISTONE H2A) SUBUNIT OF SALT-EXTRACTED HISTONE OCTAMER 9031  
24 2CV5 4 C, G Histone H2A.a 9606  
25 3MGP 3 C, G Histone H2A UNP RESIDUES 2-120 8355  
26 3MVD 3 C, G Histone H2A 8355  
27 4J8U 3 C, G Histone H2A type 1 8355  
28 4WU9 3 C, G Histone H2A type 1 8355  
29 3REH 3 C, G Histone H2A type 1 8355  
30 3AZL 3 C, G Histone H2A type 1-B/E 9606  
31 3AFA 3 C, G Histone H2A type 1-B/E 9606  
32 3REJ 3 C, G Histone H2A type 1 8355  
33 3AZF 3 C, G Histone H2A type 1-B/E 9606  
34 1P3P 4 C, G Histone H2A 8355  
35 3AV1 3 C, G Histone H2A type 1-B/E 9606  
36 1M1A 4 C, G Histone H2A.1 8355  
37 3MNN 3 C, G Histone H2A 8355  
38 1P3G 4 C, G Histone H2A 8355  
39 4J8W 3 C, G Histone H2A 8355  
40 1P34 4 C, G Histone H2A 8355  
41 3MGQ 3 C, G Histone H2A UNP RESIDUES 2-120 8355  
42 3WTP 3 C, G Histone H2A type 1-B/E 9606  
43 2NZD 5 C, G histone H2A 8355  
44 3A6N 3 C, G Histone H2A type 1-B/E 9606  
45 3LJA 3 C, G Histone H2A 8355  
46 3AZI 3 C, G Histone H2A type 1-B/E 9606  
47 3TU4 3 C, G Histone H2A 8355  
48 1P3O 4 C, G Histone H2A 8355  
49 1KX4 4 C, G histone H2A.1 8355  
50 3AZN 3 C, G Histone H2A type 1-B/E 9606  
51 1P3M 4 C, G Histone H2A 8355  
52 4J8V 3 C, G Histone H2A 8355  
53 1AOI 4 C, G HISTONE H2A HISTONE H2A 8355  
54 3LZ0 3 C, G Histone H2A residues 2-120 8355  
55 1P3F 4 C, G Histone H2A 8355  
56 1P3K 4 C, G Histone H2A 8355  
57 1P3A 4 C, G Histone H2A 8355  
58 3LZ1 3 C, G Histone H2A residues 2-120 8355  
59 2F8N 6 G Core histone macro-H2A.1 residues 0-119 9606  
60 1U35 4 C, G H2A histone family 9606  
61 3AV2 3 C, G Histone H2A type 1-B/E 9606  
62 3AYW 3 C, G Histone H2A type 1-B/E 9606  
63 3AZJ 3 C, G Histone H2A type 1-B/E 9606  
64 3REK 3 C, G Histone H2A type1 8355  
65 4KGC 3 C, G Histone H2A 8355  
66 1ZLA 4 C, G Xenopus laevis-like histone H2A 263730  
67 3REL 3 C, G Histone H2A 8355  
68 3REI 3 C, G Histone H2A type1 8355  
69 1P3B 4 C, G Histone H2A 8355  
70 3WKJ 3 C, G Histone H2A type 1-B/E 9606  
71 4KUD 3 C, G Histone H2A.2 559292  
72 3AZK 3 C, G Histone H2A type 1-B/E 9606  
73 4J8X 3 C, G Histone H2A 8355  
74 3LEL 3 C, G, M, Q Histone H2A 8355  
75 3KUY 3 C, G Histone H2A 8355  
76 4R8P 3 C, G Histone H2A 8355  
77 3AZM 3 C, G Histone H2A type 1-B/E 9606  
78 3MGS 3 C, G Histone H2A UNP RESIDUES 2-120 8355  
79 3WA9 3 C, G Histone H2A.Z 9606  
80 1ID3 4 C, G HISTONE H2A.1 4932  
81 3C1C 3 C, G Histone H2A type 1 8355  
82 3AZH 3 C, G Histone H2A type 1-B/E 9606  
83 3WAA 3 C, G Histone H2A.V 9606  
84 4JJN 3 C, G Histone H2A.2 559292  
85 3W99 3 C, G Histone H2A type 1-B/E 9606  
86 3AZE 3 C, G Histone H2A type 1-B/E 9606  
87 3W96 3 C, G Histone H2A type 1-B/E UNP residues 11-130 9606  
88 2HIO 1 A PROTEIN (HISTONE H2A) 9031  
89 1HIO 1 A HISTONE H2A 9031  
90 4QLC 5 C, G Histone H2A 7227  
91 4LD9 3 C, G Histone H2A 8355  
92 3O62 3 C, G Histone H2A type 1 8355  
93 4X23 5 C, G, M, Q Histone H2A UNP RESIDUES 16-117 7227  
94 3W97 3 C, G Histone H2A type 1-B/E 9606  
95 2FJ7 5 C, G histone H2A 8355  
96 3W98 3 C, G Histone H2A type 1-B/E 9606  
97 3AN2 3 C, G Histone H2A type 1-B/E 9606  
98 3B6F 5 C, G Histone H2A 8355  
99 3B6G 5 C, G Histone H2A 8355  
100 3KXB 3 C, G Histone H2A 8355  
101 3KWQ 3 C, G Histone H2A UNP residues 15-121 8355  
102 1ZBB 5 C, G, c, g Histone H2A.1 8355  
103 2XQL 1 A, C, E, G, I HISTONE H2A-IV RESIDUES 16-106 9031  
104 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 16 866
95% 35 102 121
90% 35 105 126
70% 35 105 141
50% 36 108 163
40% 36 108 183
30% 36 108 197
Entity #2: Chains: B,F - Histone H4 protein, length: 106 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 34 92 95
95% 38 109 113
90% 39 113 97
70% 39 113 117
50% 39 113 152
40% 39 113 169
30% 39 113 186
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 23 623
95% 26 88 136
90% 29 95 132
70% 29 98 146
50% 31 104 164
40% 31 104 184
30% 31 104 198
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 22 687
95% 27 88 137
90% 27 90 146
70% 29 97 153
50% 29 97 182
40% 29 97 197
30% 29 97 215
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.