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 3842
95 % 8 14 3307
90 % 9 16 2922
70 % 8 11 4641
50 % 241 319 63
40 % 241 319 83
30 % 241 319 91
Entity #2 | Chains: B,F
Histone H4 protein, length: 103 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 221 300 9
95 % 243 325 17
90 % 250 334 18
70 % 251 333 25
50 % 251 333 58
40 % 251 333 77
30 % 251 333 81
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 6122
95 % 216 300 18
90 % 199 273 44
70 % 212 291 38
50 % 225 304 69
40 % 225 304 88
30 % 225 304 97
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 1605
95 % 169 205 75
90 % 218 295 25
70 % 226 306 31
50 % 231 313 67
40 % 231 313 86
30 % 231 313 94
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 36825
95 % 1 3 30394
90 % 1 3 29239
70 % 1 3 26344
50 % 1 3 25020
40 % 1 3 22794
30 % 1 3 18885

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 6V2K 2 B, F Histone H4 9606
51 2PYO 4 B, F Histone H4 7227
52 1P3L 3 B, F Histone H4 8355
53 1EQZ 5 D, H PROTEIN (HISTONE H4) SUBUNIT OF SALT-EXTRACTED HISTONE OCTAMER 9031
54 5B0Y 2 B, F Histone H4 9606
55 6JR0 2 B, F Histone H4 9606
56 2CV5 3 B, F Histone H4 9606
57 5CP6 4 B, F Histone H4 8355
58 5ZBX 2 B, F Histone H4 9606
59 5XF6 2 B, F Histone H4 8355
60 3MGP 2 B, F Histone H4 8355
61 3MVD 2 B, F Histone H4 8355
62 4J8U 2 B, F Histone H4 8355
63 4WU9 2 B, F Histone H4 8355
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 5B2I 2 B, F Histone H4 9606
115 1P3A 3 B, F Histone H4 8355
116 3LZ1 2 B, F Histone H4 8355
117 2IO5 3 C Histone H4 8355
118 5GXQ 2 B, F Histone H4 9606
119 2F8N 3 B, F Histone H4 8355
120 4Z5T 2 B, F Histone H4 9606
121 1U35 3 B, F Hist1h4i protein 10090
122 5XM0 2 B, F Histone H4 10090
123 3AV2 2 B, F Histone H4 9606
124 3AYW 2 B, F Histone H4 9606
125 5XF5 2 B, F Histone H4 9606
126 3AZJ 2 B, F Histone H4 9606
127 3REK 2 B, F Histone H4 8355
128 4KGC 2 B, F Histone H4 8355
129 1ZLA 3 B, F Histone H4 8355
130 5GSU 2 B, F Histone H4 9606
131 5XF4 2 B, F Histone H4 9606
132 3REL 2 B, F Histone H4 8355
133 5GSE 2 B, F, L, P Histone H4 9606
134 3REI 2 B, F Histone H4 8355
135 1P3B 3 B, F Histone H4 8355
136 3WKJ 2 B, F Histone H4 9606
137 3AZK 2 B, F Histone H4 9606
138 4J8X 2 B, F Histone H4 8355
139 3LEL 2 B, F, L, P Histone H4 8355
140 3KUY 2 B, F Histone H4 8355
141 4R8P 2 B, F Histone H4 8355
142 3AZM 2 B, F Histone H4 9606
143 3X1U 3 B, F Histone H4 9606
144 3MGS 2 B, F Histone H4 8355
145 3WA9 2 B, F Histone H4 9606
146 3C1C 2 B, F Histone H4 8355
147 3AZH 2 B, F Histone H4 9606
148 5B40 2 B, F Histone H4 9606
149 3WAA 2 B, F Histone H4 9606
150 5CPI 2 B, F Histone H4 9606
151 3AZE 2 B, F Histone H4 9606
152 6LA8 2 B, F, L, P Histone H4 9606
153 3W96 2 B, F Histone H4 9606
154 6OM3 2 B, F, N, R Histone H4 8355
155 5XM1 2 B, F Histone H4 10090
156 6K1J 2 B, F Histone H4 9606
157 5CPJ 2 B, F Histone H4 9606
158 6LA9 2 B, F, L, P Histone H4 9606
159 5B24 2 B, F Histone H4 9606
160 5BS7 2 C, D Histone H4 8355
161 5C3I 3 C, G, K, O, S, W Histone H4 9606
162 2HIO 4 D PROTEIN (HISTONE H4) 9031
163 4QLC 4 B, F Histone H4 7227
164 4LD9 2 B, F Histone H4 8355
165 3O62 2 B, F Histone H4 8355
166 6M44 2 B, F, L, P Histone H4 9606
167 6KXV 2 B, F Histone H4 9606
168 4XUJ 2 B, F Histone H4 UNP residues 2-103 8355
169 5KDM 2 B Histone H4 9606
170 3W97 2 B, F Histone H4 9606
171 4YM5 2 B, F Histone H4 9606
172 4YM6 2 B, F Histone H4 9606
173 2FJ7 4 B, F Histone H4 8355
174 3W98 2 B, F Histone H4 9606
175 4ZUX 2 B, F, L, P Histone H4 8355
176 6XWT 2 B, D Histone H4 7227
177 6M3V 2 B, F, L, P Histone H4 9606
178 3AN2 2 B, F Histone H4 9606
179 5BSA 2 C, D Histone H4 8355
180 6VYP 2 B, F, b, f Histone H4 8355
181 3B6F 4 B, F Histone H4 8355
182 5OY7 3 B, F, J, N, R, V, Z, d Histone H4 8355
183 3B6G 4 B, F Histone H4 8355
184 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
185 3KXB 2 B, F Histone H4 8355
186 6XWS 2 B Histone H4 7227
187 5HQ2 2 B Histone H4 8355
188 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
189 5OXV 4 B, F, L, P Histone H4 8355
190 1ZBB 4 B, F, b, f Histone H4 8355
191 7K63 2 B, F Histone H4 9606
192 7K5X 2 B, F Histone H4 9606
193 7K5Y 2 B, F Histone H4 9606
194 7K60 2 B, F Histone H4 9606
195 7K61 2 B, F Histone H4 9606
196 7CRO 2 B, F Histone H4 8355
197 7CRP 2 B, F Histone H4 8355
198 7CRQ 2 B, F Histone H4 8355
199 7CRR 2 B, F Histone H4 8355
200 7A08 7 e, i Histone H4 9606
201 7JO9 2 B, F Histone H4 9606
202 7JOA 2 B, F Histone H4 9606
203 6XJD 2 B, F Histone H4 9606
204 6X59 2 B, F Histone H4 9606
205 6X5A 2 B, F Histone H4 9606
206 6X0N 2 B, F, b, f Histone H4 8355
207 6WZ5 2 B, F Histone H4 8355
208 6WZ9 2 B, F Histone H4 8355
209 7C0M 2 B, F, b, f Histone H4 9606
210 6YOV 2 B Histone H4 9606
211 6YOV 6 F Histone H4 9606
212 6M4H 4 B, F Histone H4 9606
213 6M4D 2 B, F Histone H4 9606
214 6M4G 4 B, F Histone H4 9606
215 6VZ4 2 B, F Histone H4 8355
216 6Y5D 2 B, F, N, R Histone H4 9606
217 6LTJ 2 B, F Histone H4 8355
218 6VEN 2 B, F Histone H4 8355
219 6V92 24 b, f Histone H4 9606
220 6TEM 2 B, F Histone H4 8355
221 6TDA 2 B, F Histone H4 8355
222 6UXW 2 S, W Histone H4 8355
223 6T9L 2 B, F Histone H4 8355
224 6USJ 4 B, F, L, P Histone H4 9606
225 6T90 2 B, F Histone H4 9606
226 6T93 2 B, F Histone H4 9606
227 6T79 2 B, F Histone H4 9606
228 6T7A 2 B, F Histone H4 9606
229 6T7B 2 B, F Histone H4 9606
230 6T7C 2 B, F Histone H4 9606
231 6T7D 2 B, F Histone H4 9606
232 6UPK 2 B, F Histone H4 9606
233 6UPL 2 B, F Histone H4 9606
234 6L49 2 B, F, L, P, T, X Histone H4 9606
235 6L4A 2 B, F, L, P, T, X Histone H4 9606
236 6UGM 2 B, F Histone H4 8355
237 6UH5 2 B, F Histone H4 8355
238 6KW4 2 B, R Histone H4 8355
239 6KW5 13 S, W Histone H4 8355
240 6KW3 1 B, R Histone H4 8355
241 6SEG 2 B, F Histone H4 9606
242 6SE0 2 B, F Histone H4 9606
243 6SE6 2 B, F Histone H4 9606
244 6SEE 2 B, F Histone H4 9606
245 6SEF 2 B, F Histone H4 9606
246 6PX1 2 B, F Histone H4 8355
247 6PX3 2 B, F Histone H4 8355
248 6PWV 5 H, L Histone H4 8355
249 6PWW 5 H, L Histone H4 8355
250 6PWX 3 H, L Histone H4 8355
251 6PWE 2 B, F Histone H4 7227
252 6PWF 2 B, F Histone H4 7227
253 6KIU 2 B, F Histone H4 8355
254 6KIV 2 B, F Histone H4 8355
255 6KIW 2 B, F Histone H4 8355
256 6KIX 2 B, F Histone H4 8355
257 6KIZ 2 B, F Histone H4 8355
258 6S01 2 B, F Histone H4 8355
259 6RYU 2 B, F Histone H4 8355
260 6PA7 2 B, F Histone H4 8355
261 6RYR 2 B, F Histone H4 8355
262 6K1P 2 B, F Histone H4 8355
263 6RNY 2 B, F Histone H4 9606
264 6JYL 2 B, F Histone H4 8355
265 6R8Y 2 B Histone H4 9606
266 6R8Y 5 F Histone H4 9606
267 6R8Z 2 B, F Histone H4 9606
268 6R90 2 B, F Histone H4 9606
269 6R91 2 B, F Histone H4 9606
270 6R92 5 B, F Histone H4 9606
271 6R93 4 B, F Histone H4 9606
272 6R94 4 B, F Histone H4 9606
273 6R1U 2 B, F Histone H4 8355
274 6R25 5 B, F H4 8355
275 6O96 2 B, F Histone H4 8355
276 6R0C 2 B, F Histone H4 9606
277 6O22 5 F Histone H4 8355
278 6O1D 2 B, F Histone H4 9606
279 6NZO 2 B, F Histone H4 8355
280 6J99 2 B, F Histone H4 8355
281 6NQA 3 B, F Histone H4 8355
282 6NOG 2 B, F Histone H4 8355
283 6NN6 2 B, F Histone H4 8355
284 6J4W 20 b, f Histone H4 9606
285 6J4X 20 b, f Histone H4 9606
286 6J4Y 20 b, f Histone H4 9606
287 6J4Z 19 b, f Histone H4 9606
288 6J50 19 b, f Histone H4 9606
289 6J51 20 b, f Histone H4 9606
290 6NJ9 1 B, F Histone H4 8355
291 6NE3 2 B, F Histone H4 8355
292 6I84 5 O, U Histone H4 8355
293 6IRO 3 B, F Histone H4 8355
294 6IR9 20 b, f Histone H4 9606
295 6INQ 17 b, f Histone H4 9606
296 6MUO 2 B, F Histone H4 9606
297 6MUP 2 B, F Histone H4 9606
298 6HTS 6 J, N Histone H4 9606
299 6E0C 2 B, F Histone H4 9606
300 6E0P 2 B, F Histone H4 9606
301 6DZT 2 B, F Histone H4 7227
302 6A5O 17 b, f Histone H4 9606
303 6A5P 17 b, f Histone H4 9606
304 6A5R 17 b, f Histone H4 9606
305 6A5T 17 b, f Histone H4 9606
306 6A5U 17 b, f Histone H4 9606
307 6A5L 17 b, f Histone H4 9606
308 6G0L 2 B, F Histone H4 Histone H4 sequence from X. Laevis. The N-terminal region from 1-19 is not resolved. 8355
309 6FTX 2 B, F Histone H4 8355
310 6FML 10 N, R Histone H4 9606
311 5Z3L 2 B, F Histone H4 8355
312 5Z3O 2 B, F Histone H4 8355
313 5Z3U 3 B, F Histone H4 8355
314 5Z3V 3 B, F Histone H4 8355
315 6C0W 2 B, F Histone H4 9606
316 6BUZ 2 B, F Histone H4 9606
317 6ESF 2 B, F Histone H4 8355
318 6ESG 2 B, F Histone H4 8355
319 6ESH 2 B, F Histone H4 8355
320 6ESI 2 B, F Histone H4 8355
321 5O9G 2 B, F Histone H4 8355
322 5X0X 2 B, F Histone H4 8355
323 5X0Y 2 B, F Histone H4 8355
324 5KGF 2 B, F Histone H4 cysteine alkylation at position 20 8355
325 3C9K 4 D, H Histone H4 9031