OCA Atlas for 6XTX

6XTX

Replication

date

Jan 16, 2020

title

Cryoem Structure Of Human Cmg Bound To Atpgammas And Dna

authors

N.J.Rzechorzek, L.Pellegrini

compound

source

Molecule: Dna Replication Licensing Factor Mcm2
Chain: 2
Synonym: Minichromosome Maintenance Protein 2 Homolog,Nucle Bm28;
Ec: 3.6.4.12
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mcm2, Bm28, Ccnl1, Cdcl1, Kiaa0030
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293f

Molecule: Dna Replication Licensing Factor Mcm3
Chain: 3
Synonym: Dna Polymerase Alpha Holoenzyme-Associated Protein Mcm3,Rlf Subunit Beta,P102;
Ec: 3.6.4.12
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mcm3
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293f

Molecule: Dna Replication Licensing Factor Mcm4
Chain: 4
Synonym: Cdc21 Homolog,P1-Cdc21
Ec: 3.6.4.12
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mcm4, Cdc21
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293f

Molecule: Dna Replication Licensing Factor Mcm5
Chain: 5
Synonym: Cdc46 Homolog,P1-Cdc46
Ec: 3.6.4.12
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mcm5, Cdc46
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293f

Molecule: Dna Replication Licensing Factor Mcm6
Chain: 6
Synonym: P105mcm
Ec: 3.6.4.12
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mcm6
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293f

Molecule: Dna Replication Licensing Factor Mcm7
Chain: 7
Synonym: Cdc47 Homolog,P1.1-Mcm3
Ec: 3.6.4.12
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mcm7, Cdc47, Mcm2
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293f

Molecule: Dna Replication Complex Gins Protein Psf1
Chain: A
Synonym: Gins Complex Subunit 1
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gins1, Kiaa0186, Psf1
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293f

Molecule: Dna Replication Complex Gins Protein Psf2
Chain: B
Synonym: Gins Complex Subunit 2
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gins2, Psf2, Cgi-122, Dc5, Hspc037
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293f

Molecule: Dna Replication Complex Gins Protein Psf3
Chain: C
Synonym: Gins Complex Subunit 3
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gins3, Psf3
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293f

Molecule: Dna Replication Complex Gins Protein Sld5
Chain: D
Synonym: Gins Complex Subunit 4
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gins4, Sld5
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293f

Molecule: Cell Division Control Protein 45 Homolog
Chain: E
Synonym: Porc-Pi-1
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cdc45, Cdc45l, Cdc45l2, Unq374pro710
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293f

Molecule: Dna (5'-D(Ptptptptptptptptptptpt)-3')
Chain: M
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

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 Microscopy

resolution

3.29 Å

ligand

ADP, AGS, MG, ZN

enzyme

Hydrolase E.C.3.6.4.12 BRENDA

Gene
Ontology

Chain	Function	Process	Component
2
3
4
5
6
7
A
B	3'-5' DNA helicase activity
C
D	3'-5' DNA helicase activity
E

Primary reference

CryoEM structures of human CMG-ATPgammaS-DNA and CMG-AND-1 complexes., Rzechorzek NJ, Hardwick SW, Jatikusumo VA, Chirgadze DY, Pellegrini L, Nucleic Acids Res. 2020 May 26. pii: 5846034. doi: 10.1093/nar/gkaa429. PMID:32453425

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (755 Kb) [Save to disk]

Biological Unit Coordinates (6xtx.pdb1.gz) 741 Kb

LPC: Ligand-Protein Contacts for 6XTX

CSU: Contacts of Structural Units for 6XTX

Retrieve 6XTX in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 6XTX from S2C, [Save to disk]

View 6XTX 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 6XTX

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: [6xtx_C] [6xtx_6] [6xtx_7] [6xtx_3] [6xtx_2] [6xtx_B] [6xtx_4] [6xtx_E] [6xtx_M] [6xtx_D] [6xtx_A] [6xtx_5]

SWISS-PROT database:

Domain organization of by SWISSPFAM

Other resources with information on 6XTX

Community annotation for 6XTX at PDBWiki (http://pdbwiki.org)

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