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 3614
95 % 8 14 3260
90 % 9 16 2889
70 % 8 11 4450
50 % 234 312 67
40 % 234 312 87
30 % 234 312 94
Entity #2 | Chains: B,F
Histone H4 protein, length: 103 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 214 293 9
95 % 236 318 17
90 % 243 327 19
70 % 244 326 25
50 % 244 326 58
40 % 244 326 79
30 % 244 326 85
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 % 5 7 6039
95 % 209 293 19
90 % 192 266 45
70 % 205 284 40
50 % 218 297 73
40 % 218 297 95
30 % 218 297 98
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 % 12 19 1587
95 % 163 199 76
90 % 211 288 27
70 % 219 299 32
50 % 224 306 68
40 % 224 306 90
30 % 224 306 96
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 36402
95 % 1 3 32849
90 % 1 3 31500
70 % 1 3 28196
50 % 1 3 24679
40 % 1 3 22546
30 % 1 3 18681

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 3W99 2 B, F Histone H4 UNP residues 17-103 9606
156 3AZE 2 B, F Histone H4 9606
157 6LA8 2 B, F, L, P Histone H4 9606
158 3W96 2 B, F Histone H4 9606
159 6OM3 2 B, F, N, R Histone H4 8355
160 5XM1 2 B, F Histone H4 10090
161 6K1J 2 B, F Histone H4 9606
162 5CPJ 2 B, F Histone H4 9606
163 6LA9 2 B, F, L, P Histone H4 9606
164 5B24 2 B, F Histone H4 9606
165 5BS7 2 C, D Histone H4 8355
166 5C3I 3 C, G, K, O, S, W Histone H4 9606
167 2HIO 4 D PROTEIN (HISTONE H4) 9031
168 4QLC 4 B, F Histone H4 7227
169 4LD9 2 B, F Histone H4 8355
170 5ZBB 4 D Histone H4 4932
171 3O62 2 B, F Histone H4 8355
172 6M44 2 B, F, L, P Histone H4 9606
173 6KXV 2 B, F Histone H4 9606
174 4XUJ 2 B, F Histone H4 UNP residues 2-103 8355
175 5KDM 2 B Histone H4 9606
176 3W97 2 B, F Histone H4 9606
177 4YM5 2 B, F Histone H4 9606
178 5ZBA 4 D Histone H4 4932
179 4YM6 2 B, F Histone H4 9606
180 2FJ7 4 B, F Histone H4 8355
181 3W98 2 B, F Histone H4 9606
182 4ZUX 2 B, F, L, P Histone H4 8355
183 6XWT 2 B, D Histone H4 7227
184 6M3V 2 B, F, L, P Histone H4 9606
185 3AN2 2 B, F Histone H4 9606
186 5BSA 2 C, D Histone H4 8355
187 6VYP 2 B, F, b, f Histone H4 8355
188 3B6F 4 B, F Histone H4 8355
189 5OY7 3 B, F, J, N, R, V, Z, d Histone H4 8355
190 3B6G 4 B, F Histone H4 8355
191 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
192 3KXB 2 B, F Histone H4 8355
193 6XWS 2 B Histone H4 7227
194 5HQ2 2 B Histone H4 8355
195 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
196 5OXV 4 B, F, L, P Histone H4 8355
197 1ZBB 4 B, F, b, f Histone H4 8355
198 7CRO 2 B, F Histone H4 8355
199 7CRP 2 B, F Histone H4 8355
200 7CRQ 2 B, F Histone H4 8355
201 7CRR 2 B, F Histone H4 8355
202 7A08 7 e, i Histone H4 9606
203 7JO9 2 B, F Histone H4 9606
204 7JOA 2 B, F Histone H4 9606
205 6XJD 2 B, F Histone H4 9606
206 6X59 2 B, F Histone H4 9606
207 6X5A 2 B, F Histone H4 9606
208 6X0N 2 B, F, b, f Histone H4 8355
209 6WZ5 2 B, F Histone H4 8355
210 6WZ9 2 B, F Histone H4 8355
211 7C0M 2 B, F, b, f Histone H4 9606
212 6YOV 2 B Histone H4 9606
213 6YOV 6 F Histone H4 9606
214 6M4H 4 B, F Histone H4 9606
215 6M4D 2 B, F Histone H4 9606
216 6M4G 4 B, F Histone H4 9606
217 6Y5D 2 B, F, N, R Histone H4 9606
218 6LTJ 2 B, F Histone H4 8355
219 6VEN 2 B, F Histone H4 8355
220 6V92 24 b, f Histone H4 9606
221 6TEM 2 B, F Histone H4 8355
222 6TDA 2 B, F Histone H4 8355
223 6UXW 2 S, W Histone H4 8355
224 6T9L 2 B, F Histone H4 8355
225 6USJ 4 B, F, L, P Histone H4 9606
226 6T90 2 B, F Histone H4 9606
227 6T93 2 B, F Histone H4 9606
228 6T79 2 B, F Histone H4 9606
229 6T7A 2 B, F Histone H4 9606
230 6T7B 2 B, F Histone H4 9606
231 6T7C 2 B, F Histone H4 9606
232 6T7D 2 B, F Histone H4 9606
233 6UPK 2 B, F Histone H4 9606
234 6UPL 2 B, F Histone H4 9606
235 6L49 2 B, F, L, P, T, X Histone H4 9606
236 6L4A 2 B, F, L, P, T, X Histone H4 9606
237 6UGM 2 B, F Histone H4 8355
238 6UH5 2 B, F Histone H4 8355
239 6KW4 2 B, R Histone H4 8355
240 6KW5 13 S, W Histone H4 8355
241 6KW3 1 B, R Histone H4 8355
242 6SEG 2 B, F Histone H4 9606
243 6SE0 2 B, F Histone H4 9606
244 6SE6 2 B, F Histone H4 9606
245 6SEE 2 B, F Histone H4 9606
246 6SEF 2 B, F Histone H4 9606
247 6PX1 2 B, F Histone H4 8355
248 6PX3 2 B, F Histone H4 8355
249 6PWV 5 H, L Histone H4 8355
250 6PWW 5 H, L Histone H4 8355
251 6PWX 3 H, L Histone H4 8355
252 6PWE 2 B, F Histone H4 7227
253 6PWF 2 B, F Histone H4 7227
254 6KIU 2 B, F Histone H4 8355
255 6KIV 2 B, F Histone H4 8355
256 6KIW 2 B, F Histone H4 8355
257 6KIX 2 B, F Histone H4 8355
258 6KIZ 2 B, F Histone H4 8355
259 6S01 2 B, F Histone H4 8355
260 6RYU 2 B, F Histone H4 8355
261 6PA7 2 B, F Histone H4 8355
262 6RYR 2 B, F Histone H4 8355
263 6K1P 2 B, F Histone H4 8355
264 6RNY 2 B, F Histone H4 9606
265 6JYL 2 B, F Histone H4 8355
266 6R8Y 2 B Histone H4 9606
267 6R8Y 5 F Histone H4 9606
268 6R8Z 2 B, F Histone H4 9606
269 6R90 2 B, F Histone H4 9606
270 6R91 2 B, F Histone H4 9606
271 6R92 5 B, F Histone H4 9606
272 6R93 4 B, F Histone H4 9606
273 6R94 4 B, F Histone H4 9606
274 6R1U 2 B, F Histone H4 8355
275 6R25 5 B, F H4 8355
276 6O96 2 B, F Histone H4 8355
277 6R0C 2 B, F Histone H4 9606
278 6O22 5 F Histone H4 8355
279 6O1D 2 B, F Histone H4 9606
280 6NZO 2 B, F Histone H4 8355
281 6J99 2 B, F Histone H4 8355
282 6NQA 3 B, F Histone H4 8355
283 6NOG 2 B, F Histone H4 8355
284 6NN6 2 B, F Histone H4 8355
285 6J4W 20 b, f Histone H4 9606
286 6J4X 20 b, f Histone H4 9606
287 6J4Y 20 b, f Histone H4 9606
288 6J4Z 19 b, f Histone H4 9606
289 6J50 19 b, f Histone H4 9606
290 6J51 20 b, f Histone H4 9606
291 6NJ9 1 B, F Histone H4 8355
292 6NE3 2 B, F Histone H4 8355
293 6I84 5 O, U Histone H4 8355
294 6IRO 3 B, F Histone H4 8355
295 6IR9 20 b, f Histone H4 9606
296 6INQ 17 b, f Histone H4 9606
297 6HTS 6 J, N Histone H4 9606
298 6E0C 2 B, F Histone H4 9606
299 6E0P 2 B, F Histone H4 9606
300 6DZT 2 B, F Histone H4 7227
301 6A5O 17 b, f Histone H4 9606
302 6A5P 17 b, f Histone H4 9606
303 6A5R 17 b, f Histone H4 9606
304 6A5T 17 b, f Histone H4 9606
305 6A5U 17 b, f Histone H4 9606
306 6A5L 17 b, f Histone H4 9606
307 6GEN 3 C, D Histone H4 4932
308 6GEJ 3 C, D Histone H4 4932
309 6G0L 2 B, F Histone H4 Histone H4 sequence from X. Laevis. The N-terminal region from 1-19 is not resolved. 8355
310 6FTX 2 B, F Histone H4 8355
311 6FML 10 N, R Histone H4 9606
312 5Z3L 2 B, F Histone H4 8355
313 5Z3O 2 B, F Histone H4 8355
314 5Z3U 3 B, F Histone H4 8355
315 5Z3V 3 B, F Histone H4 8355
316 6C0W 2 B, F Histone H4 9606
317 6BUZ 2 B, F Histone H4 9606
318 6ESF 2 B, F Histone H4 8355
319 6ESG 2 B, F Histone H4 8355
320 6ESH 2 B, F Histone H4 8355
321 6ESI 2 B, F Histone H4 8355
322 5O9G 2 B, F Histone H4 8355
323 5X0X 2 B, F Histone H4 8355
324 5X0Y 2 B, F Histone H4 8355
325 5KGF 2 B, F Histone H4 cysteine alkylation at position 20 8355
326 3C9K 4 D, H Histone H4 9031