6SE6

Class2 : CENP-A nucleosome in complex with CENP-C central region


Sequence Similarity Clusters for the Entities in PDB 6SE6

Entity #1 | Chains: A,E
Histone H3-like centromeric protein A protein, length: 140 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 8 11 3509
95 % 8 14 3182
90 % 9 16 2815
70 % 8 11 4460
50 % 221 299 73
40 % 221 299 96
30 % 221 299 95
Entity #2 | Chains: B,F
Histone H4 protein, length: 103 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 200 279 20
95 % 222 304 18
90 % 229 313 20
70 % 230 312 28
50 % 230 312 66
40 % 230 312 90
30 % 230 312 92
Entity #3 | Chains: C,G
Histone H2A type 2-A protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 4 6 9424
95 % 194 278 34
90 % 181 255 49
70 % 194 273 53
50 % 207 286 81
40 % 207 286 103
30 % 207 286 100
Entity #4 | Chains: D,H
Histone H2B type 1-C/E/F/G/I protein, length: 126 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 11 18 1669
95 % 153 189 80
90 % 197 274 43
70 % 205 285 49
50 % 210 292 76
40 % 210 292 99
30 % 210 292 98
Entity #5 | Chains: I
DNA (145-MER) dna, length: 145 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #6 | Chains: J
DNA (145-MER) dna, length: 145 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #7 | Chains: V
Centromere protein C protein, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 3 37661
95 % 1 3 30006
90 % 1 3 28874
70 % 1 3 26087
50 % 1 3 22855
40 % 1 3 21265
30 % 1 3 19051

Instructions

In the table for each entity, view a list of similar sequences by selecting the link associated with the percentage cutoff.



View more detailed documentation on the redundancy reduction and sequence clustering procedure used by RCSB PDB.

You can also use the structure comparison tool to compare any 2 given structures


ACTION - (A) Select for download / view details OR (B) Select two chains for comparison
Rank PDB ID Entity ID Chains Description Details Taxonomy EC Number
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 5B0Z 2 B, F Histone H4 9606
8 5Y0D 2 B, F Histone H4 9606
9 5Y0C 3 B, F Histone H4 9606
10 4H9R 2 B Histone H4 9606
11 1S32 3 B, F Histone H4 8355
12 4H9P 2 B Histone H4 9606
13 5AV8 2 B, F Histone H4 9606
14 1KX3 3 B, F histone H4 8355
15 5AV9 2 B, F Histone H4 9606
16 5AV6 2 B, F Histone H4 9606
17 6JOU 2 B, F Histone H4 9606
18 1HQ3 4 D, H HISTONE H4-VI 9031
19 5BNX 2 B Histone H4 9606
20 3UTA 2 B, F Histone H4 8355
21 6KVD 3 B, F Histone H4 9606
22 5X7X 2 B, F Histone H4 9606
23 5B31 2 B, F Histone H4 9606
24 5B1L 2 B, F Histone H4 10090
25 6K1K 2 B, F Histone H4 9606
26 3UTB 2 B, F Histone H4 8355
27 1M19 3 B, F Histone H4 8355
28 5AVB 2 B, F Histone H4 9606
29 5AVC 2 B, F Histone H4 9606
30 5AV5 2 B, F Histone H4 9606
31 3C1B 2 B, F Histone H4 8355
32 5B1M 2 B, F Histone H4 10090
33 2NQB 3 B, F Histone H4 7227
34 5JA4 2 B Histone H4 9606
35 5OMX 4 B, F Histone H4 8355
36 6JR1 2 B, F Histone H4 9606
37 5F99 2 B, F Histone H4 8355
38 5Z30 2 B, F Histone H4 9606
39 5JRG 2 B, F Histone H4 9606
40 3UT9 2 B, F Histone H4 8355
41 5B32 2 B, F Histone H4 9606
42 3R45 2 B Histone H4 9606
43 4WU8 4 B, F Histone H4 8355
44 1P3I 3 B, F Histone H4 8355
45 3MGR 2 B, F Histone H4 8355
46 1F66 3 B, F HISTONE H4 10090
47 3AZG 2 B, F Histone H4 9606
48 1M18 3 B, F Histone H4 8355
49 5B2J 2 B, F Histone H4 9606
50 2PYO 4 B, F Histone H4 7227
51 1P3L 3 B, F Histone H4 8355
52 1EQZ 5 D, H PROTEIN (HISTONE H4) SUBUNIT OF SALT-EXTRACTED HISTONE OCTAMER 9031
53 5B0Y 2 B, F Histone H4 9606
54 6JR0 2 B, F Histone H4 9606
55 2CV5 3 B, F Histone H4 9606
56 5CP6 4 B, F Histone H4 8355
57 5ZBX 2 B, F Histone H4 9606
58 5XF6 2 B, F Histone H4 8355
59 3MGP 2 B, F Histone H4 8355
60 3MVD 2 B, F Histone H4 8355
61 4J8U 2 B, F Histone H4 8355
62 4WU9 2 B, F Histone H4 8355
63 2YFW 2 B, D, F, H HISTONE H4 28985
64 3REH 2 B, F Histone H4 8355
65 3AZL 2 B, F Histone H4 9606
66 5Z23 2 B, F Histone H4 9606
67 3NQU 2 B Histone H4 9606
68 5BNV 2 B, E Histone H4 9606
69 3AFA 2 B, F Histone H4 9606
70 5E5A 3 B, F Histone H4 8355
71 3REJ 2 B, F Histone H4 8355
72 3AZF 2 B, F Histone H4 9606
73 5GTC 2 B, F Histone H4 9606
74 1P3P 3 B, F Histone H4 8355
75 3AV1 2 B, F Histone H4 9606
76 1M1A 3 B, F Histone H4 8355
77 5CPK 2 B, F Histone H4 9606
78 5AY8 2 B, F Histone H4 9606
79 3MNN 2 B, F Histone H4 8355
80 5BO0 2 B Histone H4 9606
81 1P3G 3 B, F Histone H4 8355
82 4J8W 2 B, F Histone H4 8355
83 1P34 3 B, F Histone H4 8355
84 5XF3 2 B, F Histone H4 9606
85 3X1V 3 B, F Histone H4 9606
86 5ONG 4 B, F Histone H4 8355
87 5ONW 4 B, F Histone H4 8355
88 5DNM 2 B, F Histone H4 8355
89 4HGA 3 C Histone H4 9606
90 4UUZ 2 B HISTONE H4 7227
91 6K1I 2 B, F Histone H4 9606
92 3MGQ 2 B, F Histone H4 8355
93 3WTP 2 B, F Histone H4 9606
94 3X1T 3 B, F Histone H4 9606
95 2NZD 4 B, F Histone H4 8355
96 3A6N 2 B, F Histone H4 9606
97 5DNN 2 B, F Histone H4 8355
98 5GT3 2 B, F Histone H4 9606
99 5GT0 2 B, F Histone H4 9606
100 3LJA 2 B, F Histone H4 8355
101 3AZI 2 B, F Histone H4 9606
102 3TU4 2 B, F Histone H4 8355
103 1P3O 3 B, F Histone H4 8355
104 4Z2M 3 H, J Histone H4 9606
105 1KX4 3 B, F histone H4 8355
106 3AZN 2 B, F Histone H4 9606
107 1P3M 3 B, F Histone H4 8355
108 4J8V 2 B, F Histone H4 8355
109 5B33 2 B, F Histone H4 9606
110 3X1S 2 B, F Histone H4 9606
111 3LZ0 2 B, F Histone H4 8355
112 1P3F 3 B, F Histone H4 8355
113 1P3K 3 B, F Histone H4 8355
114 4XYI 2 B Histone H4 4897
115 5B2I 2 B, F Histone H4 9606
116 1P3A 3 B, F Histone H4 8355
117 3LZ1 2 B, F Histone H4 8355
118 2IO5 3 C Histone H4 8355
119 5GXQ 2 B, F Histone H4 9606
120 2F8N 3 B, F Histone H4 8355
121 4Z5T 2 B, F Histone H4 9606
122 1U35 3 B, F Hist1h4i protein 10090
123 5XM0 2 B, F Histone H4 10090
124 3AV2 2 B, F Histone H4 9606
125 3AYW 2 B, F Histone H4 9606
126 5XF5 2 B, F Histone H4 9606
127 3AZJ 2 B, F Histone H4 9606
128 3REK 2 B, F Histone H4 8355
129 4KGC 2 B, F Histone H4 8355
130 1ZLA 3 B, F Histone H4 8355
131 5GSU 2 B, F Histone H4 9606
132 5XF4 2 B, F Histone H4 9606
133 3REL 2 B, F Histone H4 8355
134 5GSE 2 B, F, L, P Histone H4 9606
135 3REI 2 B, F Histone H4 8355
136 1P3B 3 B, F Histone H4 8355
137 3WKJ 2 B, F Histone H4 9606
138 4KUD 2 B, F Histone H4 4932
139 3AZK 2 B, F Histone H4 9606
140 4J8X 2 B, F Histone H4 8355
141 3LEL 2 B, F, L, P Histone H4 8355
142 3KUY 2 B, F Histone H4 8355
143 4R8P 2 B, F Histone H4 8355
144 3AZM 2 B, F Histone H4 9606
145 3X1U 3 B, F Histone H4 9606
146 3MGS 2 B, F Histone H4 8355
147 3WA9 2 B, F Histone H4 9606
148 1ID3 3 B, F HISTONE H4 4932
149 3C1C 2 B, F Histone H4 8355
150 3AZH 2 B, F Histone H4 9606
151 5B40 2 B, F Histone H4 9606
152 3WAA 2 B, F Histone H4 9606
153 5CPI 2 B, F Histone H4 9606
154 4JJN 2 B, F Histone H4 4932
155 3AZE 2 B, F Histone H4 9606
156 3W96 2 B, F Histone H4 9606
157 6OM3 2 B, F, N, R Histone H4 8355
158 5XM1 2 B, F Histone H4 10090
159 6K1J 2 B, F Histone H4 9606
160 5CPJ 2 B, F Histone H4 9606
161 5B24 2 B, F Histone H4 9606
162 5BS7 2 C, D Histone H4 8355
163 5C3I 3 C, G, K, O, S, W Histone H4 9606
164 2HIO 4 D PROTEIN (HISTONE H4) 9031
165 4QLC 4 B, F Histone H4 7227
166 4LD9 2 B, F Histone H4 8355
167 5ZBB 4 D Histone H4 4932
168 3O62 2 B, F Histone H4 8355
169 6KXV 2 B, F Histone H4 9606
170 4XUJ 2 B, F Histone H4 UNP residues 2-103 8355
171 5KDM 2 B Histone H4 9606
172 3W97 2 B, F Histone H4 9606
173 4YM5 2 B, F Histone H4 9606
174 5ZBA 4 D Histone H4 4932
175 4YM6 2 B, F Histone H4 9606
176 2FJ7 4 B, F Histone H4 8355
177 3W98 2 B, F Histone H4 9606
178 4ZUX 2 B, F, L, P Histone H4 8355
179 6XWT 2 B, D Histone H4 7227
180 3AN2 2 B, F Histone H4 9606
181 5BSA 2 C, D Histone H4 8355
182 6VYP 2 B, F, b, f Histone H4 8355
183 3B6F 4 B, F Histone H4 8355
184 5OY7 3 B, F, J, N, R, V, Z, d Histone H4 8355
185 3B6G 4 B, F Histone H4 8355
186 5NL0 2 B, F, L Histone H4 The core histones in the uploaded coordinates are those from X. laevis while those in the crystal are human. The reason for the discrepancy is that the structure was solved using pdb 3UT9 as a molecular replacement template (because it had the same 601L DNA sequence and therefore was the closest high-res structure available). 8355
187 3KXB 2 B, F Histone H4 8355
188 6XWS 2 B Histone H4 7227
189 5HQ2 2 B Histone H4 8355
190 6HKT 2 B, F, L, P, V, Z, b, f, l, p, v, z Histone H4 THE 3 N-TERMINAL RESIDUES (GSH) COME FROM THE EXPRESSION TAG 9606
191 5OXV 4 B, F, L, P Histone H4 8355
192 1ZBB 4 B, F, b, f Histone H4 8355
193 7JO9 2 B, F Histone H4 9606
194 7JOA 2 B, F Histone H4 9606
195 6XJD 2 B, F Histone H4 9606
196 6X59 2 B, F Histone H4 9606
197 6X5A 2 B, F Histone H4 9606
198 6X0N 2 B, F, b, f Histone H4 8355
199 6WZ5 2 B, F Histone H4 8355
200 6WZ9 2 B, F Histone H4 8355
201 7C0M 2 B, F, b, f Histone H4 9606
202 6YOV 2 B Histone H4 9606
203 6YOV 6 F Histone H4 9606
204 6LTJ 2 B, F Histone H4 8355
205 6VEN 2 B, F Histone H4 8355
206 6V92 24 b, f Histone H4 9606
207 6TEM 2 B, F Histone H4 8355
208 6TDA 2 B, F Histone H4 8355
209 6UXW 2 S, W Histone H4 8355
210 6T9L 2 B, F Histone H4 8355
211 6T90 2 B, F Histone H4 9606
212 6T93 2 B, F Histone H4 9606
213 6T79 2 B, F Histone H4 9606
214 6T7A 2 B, F Histone H4 9606
215 6T7B 2 B, F Histone H4 9606
216 6T7C 2 B, F Histone H4 9606
217 6T7D 2 B, F Histone H4 9606
218 6UPK 2 B, F Histone H4 9606
219 6UPL 2 B, F Histone H4 9606
220 6L49 2 B, F, L, P, T, X Histone H4 9606
221 6L4A 2 B, F, L, P, T, X Histone H4 9606
222 6UGM 2 B, F Histone H4 8355
223 6UH5 2 B, F Histone H4 8355
224 6KW4 2 B, R Histone H4 8355
225 6KW5 13 S, W Histone H4 8355
226 6KW3 1 B, R Histone H4 8355
227 6SEG 2 B, F Histone H4 9606
228 6SE0 2 B, F Histone H4 9606
229 6SE6 2 B, F Histone H4 9606
230 6SEE 2 B, F Histone H4 9606
231 6SEF 2 B, F Histone H4 9606
232 6PX1 2 B, F Histone H4 8355
233 6PX3 2 B, F Histone H4 8355
234 6PWV 5 H, L Histone H4 8355
235 6PWW 5 H, L Histone H4 8355
236 6PWX 3 H, L Histone H4 8355
237 6PWE 2 B, F Histone H4 7227
238 6PWF 2 B, F Histone H4 7227
239 6KIU 2 B, F Histone H4 8355
240 6KIV 2 B, F Histone H4 8355
241 6KIW 2 B, F Histone H4 8355
242 6KIX 2 B, F Histone H4 8355
243 6KIZ 2 B, F Histone H4 8355
244 6S01 2 B, F Histone H4 8355
245 6RYU 2 B, F Histone H4 8355
246 6PA7 2 B, F Histone H4 8355
247 6RYR 2 B, F Histone H4 8355
248 6K1P 2 B, F Histone H4 8355
249 6RNY 2 B, F Histone H4 9606
250 6JYL 2 B, F Histone H4 8355
251 6R8Y 2 B Histone H4 9606
252 6R8Y 5 F Histone H4 9606
253 6R8Z 2 B, F Histone H4 9606
254 6R90 2 B, F Histone H4 9606
255 6R91 2 B, F Histone H4 9606
256 6R92 5 B, F Histone H4 9606
257 6R93 4 B, F Histone H4 9606
258 6R94 4 B, F Histone H4 9606
259 6R1U 2 B, F Histone H4 8355
260 6R25 5 B, F H4 8355
261 6O96 2 B, F Histone H4 8355
262 6R0C 2 B, F Histone H4 9606
263 6O22 5 F Histone H4 8355
264 6O1D 2 B, F Histone H4 9606
265 6NZO 2 B, F Histone H4 8355
266 6J99 2 B, F Histone H4 8355
267 6NQA 3 B, F Histone H4 8355
268 6NOG 2 B, F Histone H4 8355
269 6NN6 2 B, F Histone H4 8355
270 6J4W 20 b, f Histone H4 9606
271 6J4X 20 b, f Histone H4 9606
272 6J4Y 20 b, f Histone H4 9606
273 6J4Z 19 b, f Histone H4 9606
274 6J50 19 b, f Histone H4 9606
275 6J51 20 b, f Histone H4 9606
276 6NJ9 1 B, F Histone H4 8355
277 6NE3 2 B, F Histone H4 8355
278 6I84 5 O, U Histone H4 8355
279 6IRO 3 B, F Histone H4 8355
280 6IR9 20 b, f Histone H4 9606
281 6INQ 17 b, f Histone H4 9606
282 6MUO 2 B, F Histone H4 9606
283 6MUP 2 B, F Histone H4 9606
284 6HTS 6 J, N Histone H4 9606
285 6E0C 2 B, F Histone H4 9606
286 6E0P 2 B, F Histone H4 9606
287 6DZT 2 B, F Histone H4 7227
288 6A5O 17 b, f Histone H4 9606
289 6A5P 17 b, f Histone H4 9606
290 6A5R 17 b, f Histone H4 9606
291 6A5T 17 b, f Histone H4 9606
292 6A5U 17 b, f Histone H4 9606
293 6A5L 17 b, f Histone H4 9606
294 6GEN 3 C, D Histone H4 4932
295 6GEJ 3 C, D Histone H4 4932
296 6G0L 2 B, F Histone H4 Histone H4 sequence from X. Laevis. The N-terminal region from 1-19 is not resolved. 8355
297 6FTX 2 B, F Histone H4 8355
298 6FML 10 N, R Histone H4 9606
299 5Z3L 2 B, F Histone H4 8355
300 5Z3O 2 B, F Histone H4 8355
301 5Z3U 3 B, F Histone H4 8355
302 5Z3V 3 B, F Histone H4 8355
303 6C0W 2 B, F Histone H4 9606
304 6BUZ 2 B, F Histone H4 9606
305 6ESF 2 B, F Histone H4 8355
306 6ESG 2 B, F Histone H4 8355
307 6ESH 2 B, F Histone H4 8355
308 6ESI 2 B, F Histone H4 8355
309 5O9G 2 B, F Histone H4 8355
310 5X0X 2 B, F Histone H4 8355
311 5X0Y 2 B, F Histone H4 8355
312 5KGF 2 B, F Histone H4 cysteine alkylation at position 20 8355
313 3C9K 4 D, H Histone H4 9031