5KHU Cell Cycle date Jun 15, 2016
title Model Of Human Anaphase-Promoting Complexcyclosome (Apc15 D Mutant), In Complex With The Mitotic Checkpoint Complex (Ap Mcc) Based On Cryo Em Data At 4.8 Angstrom Resolution
authors M.Yamaguchi, R.Vanderlinden, P.Dube, H.Stark, B.Schulman
compound source
Molecule: Anaphase-Promoting Complex Subunit 1
Chain: A
Synonym: Apc1,Cyclosome Subunit 1,Mitotic Checkpoint Regula Testis-Specific Gene 24 Protein;
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Anapc1, Tsg24
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111

Molecule: Anaphase-Promoting Complex Subunit 11
Chain: B
Synonym: Apc11,Cyclosome Subunit 11,Hepatocellular Carcinom Associated Ring Finger Protein;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Anapc11, Hspc214
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111

Molecule: Cell Division Cycle Protein 23 Homolog
Chain: C, P
Synonym: Anaphase-Promoting Complex Subunit 8,Apc8,Cyclosom 8;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cdc23, Anapc8
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111

Molecule: Anaphase-Promoting Complex Subunit 16
Chain: E
Synonym: Apc16,Cyclosome Subunit 16
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Anapc16, C10orf104, Cenp-27
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111

Molecule: Cell Division Cycle Protein 27 Homolog
Chain: F, H
Synonym: Anaphase-Promoting Complex Subunit 3,Apc3,Cdc27 Ho Cdc27hs,H-Nuc;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cdc27, Anapc3, D0s1430e, D17s978e
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111

Molecule: Anaphase-Promoting Complex Subunit Cdc26
Chain: G, W
Synonym: Anaphase-Promoting Complex Subunit 12,Apc12,Cell D Cycle Protein 26 Homolog;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cdc26, Anapc12, C9orf17
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111

Molecule: Anaphase-Promoting Complex Subunit 4
Chain: I
Synonym: Apc4,Cyclosome Subunit 4
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Anapc4, Apc4
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111

Molecule: Cell Division Cycle Protein 16 Homolog
Chain: J, K
Synonym: Anaphase-Promoting Complex Subunit 6,Apc6,Cdc16 Ho Cdc16hs,Cyclosome Subunit 6;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cdc16, Anapc6
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111

Molecule: Anaphase-Promoting Complex Subunit 10
Chain: L
Synonym: Apc10,Cyclosome Subunit 10
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Anapc10, Apc10
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111

Molecule: Anaphase-Promoting Complex Subunit 13
Chain: M
Synonym: Apc13,Cyclosome Subunit 13
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Anapc13
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111

Molecule: Anaphase-Promoting Complex Subunit 2
Chain: N
Synonym: Apc2,Cyclosome Subunit 2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Anapc2, Apc2, Kiaa1406
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111

Molecule: Anaphase-Promoting Complex Subunit 5
Chain: O
Synonym: Apc5,Cyclosome Subunit 5
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Anapc5, Apc5
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111

Molecule: Mitotic Checkpoint Serinethreonine-Protein Kinas Beta;
Chain: Q
Synonym: Mad3bub1-Related Protein Kinase,Hbubr1,Mitotic Ch Kinase Mad3l,Protein Ssk1;
Ec: 2.7.11.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Bub1b, Bubr1, Mad3l, Ssk1
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111

Molecule: Cell Division Cycle Protein 20 Homolog
Chain: R, S
Synonym: P55cdc
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cdc20
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111

Molecule: Mitotic Spindle Assembly Checkpoint Protein Mad2a
Chain: T
Synonym: Hsmad2,Mitotic Arrest Deficient 2-Like Protein 1,M Protein 1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mad2l1, Mad2
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111

Molecule: Unknown
Chain: U
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111

Molecule: Anaphase-Promoting Complex Subunit 7
Chain: X, Y
Synonym: Apc7,Cyclosome Subunit 7
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Anapc7, Apc7
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 4.80 Å
ligand
enzyme Transferase E.C.2.7.11.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


B


C, P


E


F, H


I


K, J


L


M


N


O


Q
  • protein kinase activity
  • protein serine/threonine kin...


    • S, R


    T


    W, G


    Y, X


    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (212 Kb) [Save to disk]
  • Biological Unit Coordinates (5khu.pdb1.gz) 193 Kb
  • CSU: Contacts of Structural Units for 5KHU
  • Retrieve 5KHU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5KHU from S2C, [Save to disk]
    • View 5KHU in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 5KHU
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5khu_H] [5khu_O] [5khu_C] [5khu_Q] [5khu_E] [5khu_X] [5khu_K] [5khu] [5khu_N] [5khu_M] [5khu_I] [5khu_S] [5khu_P] [5khu_J] [5khu_T] [5khu_Y] [5khu_R] [5khu_L] [5khu_B] [5khu_U] [5khu_W] [5khu_G] [5khu_A] [5khu_F]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5KHU: [APC10] [APC2] [CULLIN] [Mad3_BUB1_I] [RING] [STYKc] [TPR] [WD40 ] by SMART
    • Other resources with information on 5KHU
  • Community annotation for 5KHU at PDBWiki (http://pdbwiki.org)

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