10DQ: Cbf1-CCAN-CEN complex
Cbf1-CCAN-CEN complex. Determined by electron microscopy at 3.9 Å resolution. Released 8 Jul 2026.
- Method
- Electron microscopy
- Resolution
- 3.9 Å
- Organism
- Saccharomyces cerevisiae
- Chains
- 17
- Atoms
- 28,461
- Mol. weight
- 873.9 kDa
- Released
- 8 Jul 2026
Explore 10DQ in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
10DQ contains 158 α-helices and 67 β-strands across 15 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.
Chain A: 2 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 231-248 | 18 | |
| α-helix | 256-319 | 64 | |
Chain B: 2 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 219-248 | 30 | |
| α-helix | 256-323 | 68 | |
Chain H: 6 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 5-38 | 34 | |
| α-helix | 47-73 | 27 | |
| α-helix | 81-95 | 15 | |
| α-helix | 97-132 | 36 | |
| α-helix | 136-138 | 3 | |
| α-helix | 149-171 | 23 | |
Chain I: 44 helices, 8 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 3-12 | 10 | |
| α-helix | 26-37 | 12 | |
| β-strand | 40 | 1 | 1 |
| α-helix | 42-54 | 13 | |
| α-helix | 60-69 | 10 | |
| β-strand | 73 | 1 | 1 |
| α-helix | 79-88 | 10 | |
| β-strand | 93 | 1 | 2 |
| β-strand | 96 | 1 | 2 |
| α-helix | 100-103 | 4 | |
| α-helix | 104-116 | 13 | |
| α-helix | 131-139 | 9 | |
| α-helix | 146-156 | 11 | |
| α-helix | 160-162 | 3 | |
| α-helix | 165-176 | 12 | |
| α-helix | 183-198 | 16 | |
| α-helix | 205-210 | 6 | |
| α-helix | 216-222 | 7 | |
| α-helix | 228-240 | 13 | |
| α-helix | 248-263 | 16 | |
| α-helix | 264-266 | 3 | |
| β-strand | 288-289 | 2 | 3 |
| α-helix | 296-301 | 6 | |
| β-strand | 306-307 | 2 | 3 |
| α-helix | 312-316 | 5 | |
| α-helix | 333-339 | 7 | |
| α-helix | 340-347 | 8 | |
| α-helix | 349 | 1 | |
| α-helix | 355-368 | 14 | |
| α-helix | 379-387 | 9 | |
| α-helix | 390-400 | 11 | |
| α-helix | 403-408 | 6 | |
| α-helix | 411-420 | 10 | |
| α-helix | 421-423 | 3 | |
| α-helix | 432-449 | 18 | |
| α-helix | 457-474 | 18 | |
| α-helix | 479-493 | 15 | |
| α-helix | 506-523 | 18 | |
| α-helix | 532-534 | 3 | |
| α-helix | 539-547 | 9 | |
| α-helix | 551-568 | 18 | |
| α-helix | 578-589 | 12 | |
| α-helix | 590-594 | 5 | |
| β-strand | 603 | 1 | 4 |
| β-strand | 606 | 1 | 4 |
| α-helix | 608-615 | 8 | |
| α-helix | 640-654 | 15 | |
| α-helix | 667-676 | 10 | |
| α-helix | 678-683 | 6 | |
| α-helix | 693-704 | 12 | |
| α-helix | 712-720 | 9 | |
| α-helix | 726-728 | 3 | |
Chain K: 11 helices, 2 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 6-39 | 34 | |
| α-helix | 45-49 | 5 | |
| α-helix | 50-57 | 8 | |
| α-helix | 70-129 | 60 | |
| α-helix | 138-155 | 18 | |
| α-helix | 156-160 | 5 | |
| α-helix | 161-164 | 4 | |
| α-helix | 167-169 | 3 | |
| α-helix | 171-187 | 17 | |
| α-helix | 199-201 | 3 | |
| α-helix | 202-210 | 9 | |
| β-strand | 214-218 | 5 | 5 |
| β-strand | 226-230 | 5 | 5 |
Chain L: 10 helices, 14 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 3-10 | 8 | 6 |
| α-helix | 20-27 | 8 | |
| β-strand | 34-39 | 6 | 6 |
| α-helix | 44-46 | 3 | |
| β-strand | 52-59 | 8 | 6 |
| β-strand | 72-77 | 6 | 6 |
| β-strand | 85-89 | 5 | 6 |
| α-helix | 95-107 | 13 | |
| β-strand | 111-113 | 3 | 6 |
| α-helix | 118-127 | 10 | |
| β-strand | 130-133 | 4 | 7 |
| β-strand | 137-140 | 4 | 7 |
| β-strand | 145-149 | 5 | 6 |
| α-helix | 154-156 | 3 | |
| β-strand | 160-164 | 5 | 6 |
| α-helix | 167-177 | 11 | |
| α-helix | 183 | 1 | |
| α-helix | 184-188 | 5 | |
| α-helix | 189-196 | 8 | |
| β-strand | 198 | 1 | 8 |
| β-strand | 205-210 | 6 | 6 |
| β-strand | 214-216 | 3 | 6 |
| β-strand | 220-223 | 4 | 6 |
| α-helix | 230-239 | 10 | |
Chain N: 18 helices, 15 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 17-24 | 8 | |
| α-helix | 29-42 | 14 | |
| α-helix | 51-63 | 13 | |
| α-helix | 68-74 | 7 | |
| α-helix | 75-79 | 5 | |
| α-helix | 86-99 | 14 | |
| α-helix | 101-103 | 3 | |
| β-strand | 106-113 | 8 | 9 |
| α-helix | 117 | 1 | |
| β-strand | 118 | 1 | 9 |
| α-helix | 119 | 1 | |
| α-helix | 125-137 | 13 | |
| β-strand | 141-148 | 8 | 9 |
| β-strand | 154-162 | 9 | 9 |
| β-strand | 196 | 1 | 9 |
| β-strand | 200-205 | 6 | 9 |
| β-strand | 210-214 | 5 | 9 |
| α-helix | 219-233 | 15 | |
| β-strand | 238-242 | 5 | 9 |
| β-strand | 248 | 1 | 9 |
| α-helix | 251-258 | 8 | |
| α-helix | 268-270 | 3 | |
| α-helix | 271-275 | 5 | |
| α-helix | 290-293 | 4 | |
| β-strand | 295-298 | 4 | 10 |
| α-helix | 319-334 | 16 | |
| β-strand | 384-392 | 9 | 6 |
| β-strand | 397-405 | 9 | 6 |
| α-helix | 409-418 | 10 | |
| β-strand | 422 | 1 | 8 |
| α-helix | 429-432 | 4 | |
| β-strand | 440-443 | 4 | 6 |
| β-strand | 446-449 | 4 | 6 |
Chain O: 11 helices, 14 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 126-129 | 4 | |
| α-helix | 135-138 | 4 | |
| α-helix | 140-147 | 8 | |
| α-helix | 155-171 | 17 | |
| β-strand | 175-180 | 6 | 11 |
| α-helix | 183-185 | 3 | |
| β-strand | 186-188 | 3 | 12 |
| β-strand | 195-197 | 3 | 12 |
| β-strand | 201-206 | 6 | 11 |
| β-strand | 209-210 | 2 | 13 |
| β-strand | 215-216 | 2 | 13 |
| α-helix | 217-219 | 3 | |
| β-strand | 220-226 | 7 | 11 |
| β-strand | 233-238 | 6 | 11 |
| α-helix | 246-252 | 7 | |
| α-helix | 253-255 | 3 | |
| β-strand | 258 | 1 | 11 |
| α-helix | 261-290 | 30 | |
| β-strand | 298-299 | 2 | 14 |
| β-strand | 305-309 | 5 | 14 |
| β-strand | 314-320 | 7 | 14 |
| β-strand | 323-329 | 7 | 14 |
| α-helix | 339-347 | 9 | |
| β-strand | 350 | 1 | 14 |
| α-helix | 352-363 | 12 | |
7 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| Centromere-binding protein 1 | A, B | protein | 351 | Saccharomyces cerevisiae | P17106 (AlphaFold model) |
| DNA (508-mer) | D | DNA | 508 | Saccharomyces cerevisiae | |
| Inner kinetochore subunit MCM16 | H | protein | 181 | Saccharomyces cerevisiae | Q12262 (AlphaFold model) |
| Inner kinetochore subunit CTF3 | I | protein | 733 | Saccharomyces cerevisiae | Q12748 (AlphaFold model) |
| Inner kinetochore subunit MCM22 | K | protein | 239 | Saccharomyces cerevisiae | P47167 (AlphaFold model) |
| Inner kinetochore subunit IML3 | L | protein | 245 | Saccharomyces cerevisiae | P38265 |
| Inner kinetochore subunit CHL4 | N | protein | 458 | Saccharomyces cerevisiae | P38907 |
| Inner kinetochore subunit MCM21 | O | protein | 368 | Saccharomyces cerevisiae | Q06675 |
| Inner kinetochore subunit CTF19 | P | protein | 369 | Saccharomyces cerevisiae | Q02732 |
| Inner kinetochore subunit OKP1 | Q | protein | 406 | Saccharomyces cerevisiae | P53298 |
| Inner kinetochore subunit CNN1 | T | protein | 361 | Saccharomyces cerevisiae | P43618 |
| K7_Ame1p | U | protein | 324 | Saccharomyces cerevisiae | G2W9L4 |
4 more molecules are not listed.
Sequence of entity 1 (A, B), FASTA
>10DQ_1 Centromere-binding protein 1 (chains A, B)
MNSLANNNKLSTEDEEIHSARKRGYNEEQNYSEARKKQRDQGLLSQESNDGNIDSALLSE
GATLKGTQSQYESGLTSNKDEKGSDDEDASVAEAAVAATVNYTDLIQGQEDSSDAHTSNQ
TNANGEHKDSLNGERAITPSNEGVKPNTSLEGMTSSPMESTQQSKNDMLIPLAEHDRGPE
HQQDDEDNDDADIDLKKDISMQPGRRGRKPTTLATTDEWKKQRKDSHKEVERRRRENINT
AINVLSDLLPVRESSKAAILACAAEYIQKLKETDEANIEKWTLQKLLSEQNASQLASANE
KLQEELGNAYKEIEYMKRVLRKEGIEYEDMHTHKKQENERKSTRSDNPHEA
Sequence of entity 2 (D), FASTA
>10DQ_2 DNA (508-MER) (chains D)
ATTGTTTGTGCACTTGCCTGCAGGCCTTTTGAAAAGCAAGCATAAAAGATCTAAACATAA
AATCTGTAAAATAACAAGATGTAAAGATAATGCTAAATCATTTGGCTTTTTGATTGATTG
TACAGGAAAATATACATCGCAGGGGGTTGACTTTTACCATTTCACCGCAATGGAATCAAA
CTTGTTGAAGAGAATGTTCACAGGCGCATACGCTACAATGACCCGATTCTTGCTAGCCTT
TTCTCGGTCTTGCAAACAACCGCCGGCCTTCCACCAGTAAACGTTTCATATATCCATTCA
ATGAAATATATATTTCTTACTATTTCTTTTTTAACTTTCGGAAATCAAATACACTAATAT
TTTAAATTTTATTTTTTAAAAATAAACTACTTTTTATTTTTTACTTTTTTTAAAAATATA
ATAAAATCAAATATCATCATGTGACTTATTTGTACTATTTTTTCAATGAATAGCTTTCTG
TGGATTTTCCATATTGTTTGGCGCTGAT
Sequence of entity 3 (H), FASTA
>10DQ_3 Inner kinetochore subunit MCM16 (chains H)
MTNSSEKQWERIQQLEKEHVEVYRELLITLDRLYLIRKHNHAVILSHTQQRLLEIRHQLQ
INLEKTALLIRLLEKPDNTNVLFTKLQNLLEESNSLDYELLQSLGAQSSLHKQLIESRAE
RDELMSKLIELSSKFPKPTIPPDDSDTAGKQVEVEKENETIQELMIALQIHSGYTNISYT
I
Sequence of entity 4 (I), FASTA
>10DQ_4 Inner kinetochore subunit CTF3 (chains I)
MSLILDDIILSLTNANERTPPQALKTTLSLLYEKSKQYGLSSPQLQALVRLLCETSIIDT
VTKVYIVENCFLPDGYLTKELLLEIINHLGTPTVFSRYRIQTPPVLQSALCKWLVHVYFL
FPVHSEREHNISSSIWLHLWQFSFLQKWITPLVIWQATTPVDVKPWKLSIIKRCAMHPGY
RDAPGSATLILQRFQCLVGASSQITESIITINCNRKTLKSHRNLKLDAHFLSILKRILSR
AHPANFPADTVQNTIDMYLSEIHQLGADSIYPLRLQSLPEYVPSDSTVSLWDVTSLEQLA
QNWPQLHIPNDVDYMMKPSLNSNVLLPRKVMSRDSLKHLYSSIILIKNSRDESSSPYEWC
IWQLKRCFAHQIETPQEVIPIIISVSSMDNKLSSRIIQTFCNLKYLKLDELTLKKVCGGI
LPLWKPELISGTREFFVKFMASIFMWSTRDGHDNNCTFSETCFYVLQMITNWVLDDKLIA
LGLTLLHDMQSLLTLDKIFNNATSNRFSTMAFISSLDILTQLSKQTKSDYAIQYLIVGPD
IMNKVFSSDDPLLLSAACRYLVATKNKLMQYPSTNKFVRMQNQYIMDLTNYLYRNKVLSS
KSLFGVSPDFFKQILENLYIPTADFKNAKFFTITGIPALSYICIIILRRLETAENTKIKF
TSGIINEETFNNFFRVHHDEIGQHGWIKGVNNIHDLRVKILMHLSNTANPYRDIAAFLFT
YLKSLSKYSVQNS
Sequence of entity 5 (K), FASTA
>10DQ_5 Inner kinetochore subunit MCM22 (chains K)
MDVEKDVLDVYIKNLENQIGNKRYFLKQAQGAIDEITKRSLDTEGKPVNSEVFTELLRKP
MFFSERADPIGFSLTSNFLSLRAQSSSEWLSLMNDQSVDQKAMLLLQNNINSDLKELLRK
LQHQMTIMDSKKQDHAHIRTRKARNKELWDSLADFLKGYLVPNLDDNDESIDSLTNEVML
LMKRLIEHDLNLTLNDFSSKTIPIYRLLLRANIITVIEGSTNPGTKYIKLIDFNETSLT
Sequence of entity 6 (L), FASTA
>10DQ_6 Inner kinetochore subunit IML3 (chains L)
MPYTWKFLGISKQLSLENGIAKLNQLLNLEVDLDIQTIRVPSDPDGGTAADEYIRYEMRL
DISNLDEGTYSKFIFLGNSKMEVPMFLCYCGTDNRNEVVLQWLKAEYGVIMWPIKFEQKT
MIKLADASIVHVTKENIEQITWFSSKLYFEPETQDKNLRQFSIEIPRESCEGLALGYGNT
MHPYNDAIVPYIYNETGMAVERLPLTSVILAGHTKIMRESIVTSTRSLRNRVLAVVLQSI
QFTSE
Sequence of entity 7 (N), FASTA
>10DQ_7 Inner kinetochore subunit CHL4 (chains N)
MSNELRLEDNYVPTSDTLVVFKQLMKLPVTVLYDLTLSWFAKFGGSFDGDIYLLTETLDL
LIEKGVRRNVIVNRILYVYWPDGLNVFQLAEIDCHLMISKPEKFKWLPSKALRGDGKPYV
VKLQPAKFIENLQTDLAKIYHCHVYMFKHPSLPVLITRIQLFDSNNLFLSTPNIGSINKE
SLYNKLDKFQGKPLISRRPYYVAFPLNSPIIFHSVDKDIYARLVLQSISRTISERETIIF
KPVQKIPVKSIHNIMTLLGPSRFAESMGPWECYASANFERSPLHDYKKHQGLTGKKVMVR
EFDDSFLNDDENFYGKEEPEIRRLRLEKNMIKFKGSANGVMDQKYNDLKEFNEHVHNIRN
GKKNEDSGEPVYISRYSSLVPIEKVGFTLKNEINSRIITIKLKFNGNDIFGGLHELCDKN
LINIDKVPGWLAGENGSFSGTIMNGDFQREQVAKGGLL
Sequence of entity 8 (O), FASTA
>10DQ_8 Inner kinetochore subunit MCM21 (chains O)
MSRIDDLQQDIESLLSEINSLEESREKLKAKIKDKRKNEESANPIVQEFEDLFDQFPQLN
NFLFNEHPELEETDDKDISRAQADIPATPIPYEPKKRAKLENEEILPEQEWVLKTQPMVQ
HQMFDPGVADLLDTDILTSPSKRKRKLKIDDISTSDRSELEDYIVLENVYRMFGITFFPL
VDPIDLKIKDASGEIFVDREMLGIRLEVFSERTSQFEKPHYVLLKKRIKSNSWFLFKHTI
PSFIDVQGIFDDTNGGLVISHDDAYLFAKRVFLQLVEVQKRRQIFKDLEAKKIIHDLDLD
LESSMVSFFVKDIKVELFVKQNEIVSCSILDDIHDFSQNNKSKWEIALLGSLDDLELKLN
HSFATIFK
Sequence of entity 9 (P), FASTA
>10DQ_9 Inner kinetochore subunit CTF19 (chains P)
MDFTSDTTNSHDTSNSHLSLEDAVGTHHAGEADVNIDGDEKQQLSLLDDDQVRALKLQEE
KDALLTRRNTLLQEIQTYQNILMKENNSKTKNGDILQNDITQDFLNLISISSSNPNSAIS
DRKRVERINGLTNLQKELVTKYDTLPLLNMNLRLSYLRDHTYPHLQVSVQSRDRVHNDGI
EVLVVNYKFCRNTMNPFEIQFKMFYKFEDSTLLKWEILRISTNVRLKAKQLLATRNFQKC
LLSLYEFDKIKSKKTGIFQNLINLLKRKTRCYLMNNSDSLIVERVIREGRLTTIKLQINF
IITMPGERGKPRNCFLPMSKISIALWKGGERFNQIDLDEICYGLIKEYGVKTGLKEICNV
CLFPDMYAR
Sequence of entity 10 (Q), FASTA
>10DQ_10 Inner kinetochore subunit OKP1 (chains Q)
MAADRDNFLQNIENDSINNGQAMDLSPNRSSSESDSSILMNVNDIKTLRLDVAPEAKSTQ
SKKSLFYENSDDAEEGEIEERTNKEEGQYHHKGSKQLRFEVGKESTGKLQSHLSDGSATS
GEGNVRPWEFRKVIQAEYRERLPRNYELKHWKKPSKIMIGSILRLLETNTVSALDSVFEK
YEKEMNQMTHGDNNEVKRIYSKKERLLEIILTKIKKKLRQAKFPSRISERDLDIEYIYSK
RQFIQNRYSQELQNNERLEAILSREQNLLEETRKLCMNLKTNNKKRLTEKLIQKDLHPVL
NKAMEYTYGLESTNGFMHPDGPVTFRNDSHELNLMLNDPIKSTADVRLDKEEVLSLLPSL
KEYTKKSKELKETMGQMISDSHEEEIKEVFVPHHESHQDKTEEDIH
Sequence of entity 11 (T), FASTA
>10DQ_11 Inner kinetochore subunit CNN1 (chains T)
MSTPRKAAGNNENTEVSEIRTPFRERALEEQRLKDEVLIRNTPGYRKLLSASTKSHDILN
KDPNEVRSFLQDLSQVLARKSQGNDTTTNKTQARNLIDELAYEESQPEENELLRSRSEKL
TDNNIGNETQPDYTSLSQTVFAKLQERDKGLKSRKIDPIIIQDVPTTGHEDELTVHSPDK
ANSISMEVLRTSPSIGMDQVDEPPVRDPVPISITQQEEPLSEDLPSDDKEETEEAENEDY
SFENTSDENLDDIGNDPIRLNVPAVRRSSIKPLQIMDLKHLTRQFLNENRIILPKQTWST
IQEESLNIMDFLKQKIGTLQKQELVDSFIDMGIINNVDDMFELAHELLPLELQSRIESYL
F
Sequence of entity 12 (U), FASTA
>10DQ_12 K7_Ame1p (chains U)
MDRDTKLAFRLRGSHSRRTDDIDDDVIVFKTPNAVYREENSPIQSPVQPILSSPKLANSF
EFPITTNNVNAQDRHEHGYQPLDAEDYPMIDSENKSPISESPQNVRNDEDLTTRYNFDDI
PIRQLSSSITSVTTIDVLSSLFINLFENDLIPQALKDFNKSDDDQFRKLLYKLDLRLFQT
ISDQMTRDLKDILDINVSNNELCYQLKQVLARKEDLNQQIISVRNEIQELKAGKDWHDLQ
NEQAKLNDKVKLNKRLNDLTSTLLGKYEEDRKIMSQDSEDDSIRDDSNILDIAHFVDLMD
PYNGLLKKINKINENLSNELQPSL
Primary citation
Native yeast kinetochore structures identify an essential inner kinetochore interaction. Mengqiu, J., Sue, B. To be published.
Other PDB entries of the same protein (UniProt P17106 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 7SSA 3.2 Å, Cryo-EM structure of pioneer factor Cbf1 bound to the nucleosome
- 8OVW 3.4 Å, Cryo-EM structure of CBF1-CCAN bound topologically to centromeric DNA
- 8OW0 3.4 Å, Cryo-EM structure of CBF1-CCAN bound topologically to a centromeric CENP-A nucleosome
- 8OW1 3.7 Å, Cryo-EM structure of the yeast Inner kinetochore bound to a CENP-A nucleosome.
Browse structure collections
About this viewer
MolViewer shows 10DQ directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.