← Back to search
5lba

Crystal structure of human RECQL5 helicase in complex with DSPL fragment(1-cyclohexyl-3-(oxolan-2-ylmethyl)urea, SGC - Diamond XChem I04-1 fragment screening.

Method: X-RAY DIFFRACTION Dmax: 153.4 Å Quality: EXCELLENT
▼

1. Protein Identity and Related Structures Protein Identity & Related Structures

ATP-dependent DNA helicase Q5

Homo sapiens

UniProt O94762

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain B； UniProt 11–453 Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 DMS DIMETHYL SULFOXIDE × 1 6SV 1-cyclohexyl-3-[[(2~{R})-oxolan-2-yl]methyl]urea × 1 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, SITTING DROP；293 K；0.1M tris pH 9.0 -- 29% PEG3350 -- 0.1M sodium chloride Resolution 2.50 Å R-free 0.303
2 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain A； UniProt 11–453 Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 DMS DIMETHYL SULFOXIDE × 1 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, SITTING DROP；293 K；0.1M tris pH 9.0 -- 29% PEG3350 -- 0.1M sodium chloride Resolution 2.50 Å R-free 0.303
3 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain C； UniProt 11–453 Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, SITTING DROP；293 K；0.1M tris pH 9.0 -- 29% PEG3350 -- 0.1M sodium chloride Resolution 2.50 Å R-free 0.303
4 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain D； UniProt 11–453 Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 DMS DIMETHYL SULFOXIDE × 1 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, SITTING DROP；293 K；0.1M tris pH 9.0 -- 29% PEG3350 -- 0.1M sodium chloride Resolution 2.50 Å R-free 0.303

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 5LBA Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
4BK0 Crystal structure of the KIX domain of human RECQL5 (domain-swapped dimer) Deposited 2013-04-21 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 515–620（106 aa） Fragment：KIX DOMAIN, RESIDUES 515-620
Chain B 515–620（106 aa） Fragment：KIX DOMAIN, RESIDUES 515-620
Not recorded PEG DI(HYDROXYETHYL)ETHER × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.2；0.2 M NACL, 0.1 M SODIUM/POTASSIUM PHOSPHATE PH 6.2, 50% PEG 200
Resolution 1.90 Å R-free 0.234
5LB3 Crystal structure of human RECQL5 helicase in complex with ADP/Mg. Deposited 2016-06-15 Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 11–453（443 aa）
Not recorded ZN ZINC ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；293 K；23% PEG6K, 0.15M lithium chloride, 2.5% ethylene glycol
Resolution 1.80 Å R-free 0.234
5LB3 Crystal structure of human RECQL5 helicase in complex with ADP/Mg. Deposited 2016-06-15 Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain E 11–453（443 aa）
Not recorded ZN ZINC ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；293 K；23% PEG6K, 0.15M lithium chloride, 2.5% ethylene glycol
Resolution 1.80 Å R-free 0.234
5LB5 Crystal structure of human RECQL5 helicase in complex with ADP/Mg (tricilinc form). Deposited 2016-06-15 Different construct Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 10–453（444 aa）
Not recorded ZN ZINC ION × 1 DMS DIMETHYL SULFOXIDE × 1 MG MAGNESIUM ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.1M tris pH 7.5, 23% PEG3350, 0.1M sodium chloride
Resolution 2.00 Å R-free 0.282
5LB5 Crystal structure of human RECQL5 helicase in complex with ADP/Mg (tricilinc form). Deposited 2016-06-15 Different construct Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 10–453（444 aa）
Not recorded ZN ZINC ION × 1 DMS DIMETHYL SULFOXIDE × 1 MG MAGNESIUM ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.1M tris pH 7.5, 23% PEG3350, 0.1M sodium chloride
Resolution 2.00 Å R-free 0.282
5LB5 Crystal structure of human RECQL5 helicase in complex with ADP/Mg (tricilinc form). Deposited 2016-06-15 Different construct Different experimental conditions Different structure-quality metrics Assembly 3 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain C 10–453（444 aa）
Not recorded ZN ZINC ION × 1 MG MAGNESIUM ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.1M tris pH 7.5, 23% PEG3350, 0.1M sodium chloride
Resolution 2.00 Å R-free 0.282
5LB5 Crystal structure of human RECQL5 helicase in complex with ADP/Mg (tricilinc form). Deposited 2016-06-15 Different construct Different experimental conditions Different structure-quality metrics Assembly 4 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain D 10–453（444 aa）
Not recorded ZN ZINC ION × 1 DMS DIMETHYL SULFOXIDE × 1 MG MAGNESIUM ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.1M tris pH 7.5, 23% PEG3350, 0.1M sodium chloride
Resolution 2.00 Å R-free 0.282
5LB8 Crystal structure of human RECQL5 helicase APO form. Deposited 2016-06-15 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 11–526（516 aa）
Not recorded ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7；293 K；17.5% Peg 3350, 0.2M Potassium Thiocyanate, 0.1M Hepes pH 7.0, 10% ethelene glycol
Resolution 3.40 Å R-free 0.322
5LB8 Crystal structure of human RECQL5 helicase APO form. Deposited 2016-06-15 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain D 11–526（516 aa）
Not recorded ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7；293 K；17.5% Peg 3350, 0.2M Potassium Thiocyanate, 0.1M Hepes pH 7.0, 10% ethelene glycol
Resolution 3.40 Å R-free 0.322
7ZML Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G1-001 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 11–453（443 aa）
Not recorded ZN ZINC ION × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 5.9；293 K；0.1M bis-tris pH 5.9 -- 0.1M lithium sulfate -- 30% PEG3350
Resolution 2.79 Å R-free 0.261
7ZML Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G1-001 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 11–453（443 aa）
Not recorded ZN ZINC ION × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 5.9；293 K；0.1M bis-tris pH 5.9 -- 0.1M lithium sulfate -- 30% PEG3350
Resolution 2.79 Å R-free 0.261
7ZML Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G1-001 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain C 11–453（443 aa）
Not recorded ZN ZINC ION × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 5.9；293 K；0.1M bis-tris pH 5.9 -- 0.1M lithium sulfate -- 30% PEG3350
Resolution 2.79 Å R-free 0.261
7ZML Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G1-001 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 4 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain D 11–453（443 aa）
Not recorded ZN ZINC ION × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 5.9；293 K；0.1M bis-tris pH 5.9 -- 0.1M lithium sulfate -- 30% PEG3350
Resolution 2.79 Å R-free 0.261
7ZMM Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G2-001 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 11–453（443 aa）
Not recorded ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.5；293 K；0.2M sodium chloride -- 25% PEG3350 -- 0.1M bis-tris pH 6.5
Resolution 2.50 Å R-free 0.281
7ZMM Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G2-001 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 11–453（443 aa）
Not recorded ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.5；293 K；0.2M sodium chloride -- 25% PEG3350 -- 0.1M bis-tris pH 6.5
Resolution 2.50 Å R-free 0.281
7ZMM Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G2-001 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain C 11–453（443 aa）
Not recorded ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.5；293 K；0.2M sodium chloride -- 25% PEG3350 -- 0.1M bis-tris pH 6.5
Resolution 2.50 Å R-free 0.281
7ZMM Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G2-001 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 4 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain D 11–453（443 aa）
Not recorded ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.5；293 K；0.2M sodium chloride -- 25% PEG3350 -- 0.1M bis-tris pH 6.5
Resolution 2.50 Å R-free 0.281
7ZMN Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G3-048 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 11–453（443 aa）
Not recorded ZN ZINC ION × 1 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；2M ammonium sulfate -- 0.1M HEPES pH 7.5
Resolution 3.20 Å R-free 0.275
7ZMN Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G3-048 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 11–453（443 aa）
Not recorded ZN ZINC ION × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；2M ammonium sulfate -- 0.1M HEPES pH 7.5
Resolution 3.20 Å R-free 0.275
7ZMO Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G3-052 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 11–453（443 aa）
Not recorded ZN ZINC ION × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；1M ammonium sulfate -- 0.5% PEG8000 -- 0.1M HEPES pH 7.0
Resolution 3.75 Å R-free 0.306
7ZMO Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G3-052 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 11–453（443 aa）
Not recorded ZN ZINC ION × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；1M ammonium sulfate -- 0.5% PEG8000 -- 0.1M HEPES pH 7.0
Resolution 3.75 Å R-free 0.306
7ZMP Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G3-055 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 11–453（443 aa）
Not recorded ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；2.4M sodium malonate
Resolution 3.63 Å R-free 0.359
7ZMP Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G3-055 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 11–453（443 aa）
Not recorded ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；2.4M sodium malonate
Resolution 3.63 Å R-free 0.359
7ZMQ Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G2*-006 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 11–453（443 aa）
Not recorded ZN ZINC ION × 1 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8.5；293 K；0.2M lithium sulfate -- 25% PEG3350 -- 0.1M tris pH 8.5
Resolution 2.70 Å R-free 0.258
7ZMQ Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G2*-006 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 11–453（443 aa）
Not recorded ZN ZINC ION × 1 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8.5；293 K；0.2M lithium sulfate -- 25% PEG3350 -- 0.1M tris pH 8.5
Resolution 2.70 Å R-free 0.258
7ZMR Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G2*-011 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 11–453（443 aa）
Not recorded ZN ZINC ION × 1 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.2M lithium sulfate -- 25% PEG3350 -- 0.1M HEPES pH 7.5
Resolution 3.30 Å R-free 0.292
7ZMR Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G2*-011 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 11–453（443 aa）
Not recorded ZN ZINC ION × 1 SO4 SULFATE ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.2M lithium sulfate -- 25% PEG3350 -- 0.1M HEPES pH 7.5
Resolution 3.30 Å R-free 0.292
7ZMS Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G4-043 Deposited 2022-04-19 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 12–453（442 aa）
Not recorded ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.2M sodium chloride -- 25% PEG3350 -- 0.1M HEPES pH 7.5
Resolution 2.70 Å R-free 0.276
7ZMT Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G5-006 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 11–453（443 aa）
Not recorded ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；0.2M sodium formate -- 20% PEG3350
Resolution 2.30 Å R-free 0.291
7ZMT Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G5-006 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 11–453（443 aa）
Not recorded ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；0.2M sodium formate -- 20% PEG3350
Resolution 2.30 Å R-free 0.291
7ZMV Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G5-006 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 11–453（443 aa）
Not recorded ZN ZINC ION × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.2M ammonium sulfate -- 25% PEG3350 -- 0.1M HEPES pH 7.5
Resolution 2.00 Å R-free 0.275
7ZMV Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G5-006 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 11–453（443 aa）
Not recorded ZN ZINC ION × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.2M ammonium sulfate -- 25% PEG3350 -- 0.1M HEPES pH 7.5
Resolution 2.00 Å R-free 0.275
7ZMV Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G5-006 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain C 11–453（443 aa）
Not recorded ZN ZINC ION × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.2M ammonium sulfate -- 25% PEG3350 -- 0.1M HEPES pH 7.5
Resolution 2.00 Å R-free 0.275
7ZMV Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G5-006 Deposited 2022-04-19 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 4 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain D 11–453（443 aa）
Not recorded ZN ZINC ION × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.2M ammonium sulfate -- 25% PEG3350 -- 0.1M HEPES pH 7.5
Resolution 2.00 Å R-free 0.275
8QQ2 RNAPII elongation complex bound to RECQ5 Deposited 2023-10-03 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 13 PDB declaration: hexadecameric
Chain R 1–650（650 aa）
Not recorded ZN ZINC ION × 8 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE-PROPANE
Resolution 4.20 Å
8QW8 In condensate RNAPII elongation complex bound to RECQ5 Deposited 2023-10-19 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 13 PDB declaration: hexadecameric
Chain R 1–650（650 aa）
Not recorded ZN ZINC ION × 7 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE-PROPANE
Resolution 7.70 Å
8QW9 RNAPII elongation complex bound to RECQ5_R502E Deposited 2023-10-19 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 13 PDB declaration: hexadecameric
Chain R 1–650（650 aa）
Not recorded ZN ZINC ION × 7 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE-PROPANE
Resolution 4.30 Å
8RL5 DNA helicase RECQL5 in complex with homo Di-Gluebody G5-006 Deposited 2024-01-02 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 12–453（442 aa）
Chain B 12–453（442 aa）
Not recorded ZN ZINC ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.79 Å
8RL6 DNA helicase RECQL5 in complex with homo Di-Gluebody G5-006 - RECQL5 local refinement Deposited 2024-01-02 Different construct Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 12–453（442 aa）
Not recorded ZN ZINC ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.18 Å
8RL9 RECQL5:sfGFP hetero dimer assembled by Di-Gluebody Deposited 2024-01-02 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 12–453（442 aa）
Not recorded ZN ZINC ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.22 Å
8RLA RECQL5:sfGFP hetero dimer assembled by Di-Gluebody - RECQL5 local refinement Deposited 2024-01-02 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 12–453（442 aa）
Not recorded ZN ZINC ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.03 Å
9EI1 Cryo-EM structure of Human RNA polymerase II Elongation Complex bound to the RECQL5 helicase in the absence of nucleotide Deposited 2024-11-25 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 13 PDB declaration: hexadecameric
Chain U 1–991（991 aa）
Mutation：D157A ZN ZINC ION × 8 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
9EI2 Cryo-EM structure of Human RNA polymerase II Elongation Complex bound to an apo RECQL5 helicase (RECQL5 IRI Module focused-classified) Deposited 2024-11-25 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain U 1–991（991 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.80 Å
9EI3 Cryo-EM structure of Human RNA polymerase II Elongation Complex bound to the RECQL5 helicase in the presence of AMPPNP Deposited 2024-11-25 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 13 PDB declaration: hexadecameric
Chain U 1–991（991 aa）
Not recorded ZN ZINC ION × 8 MG MAGNESIUM ION × 1 ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
9EI4 Cryo-EM structure of Human RNA polymerase II Elongation Complex bound to the RECQL5 helicase in the presence of ADP Deposited 2024-11-25 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 13 PDB declaration: hexadecameric
Chain U 1–991（991 aa）
Not recorded ZN ZINC ION × 8 MG MAGNESIUM ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.70 Å
9HVO Structure of the transcribing Pol II-RECQL5 complex Deposited 2024-12-31 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 13 PDB declaration: 16-meric
Chain O 1–991（991 aa）
Not recorded ZN ZINC ION × 8 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5；20 mM HEPES pH 7.5, 100 mM NaCl, 3 mM MgCl2, 1 mM DTT
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.80 Å
9HVQ Structure of the transcribing Pol II-DSIF-PAF-SPT6-RECQL5 complex Deposited 2024-12-31 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 21 PDB declaration: 24-meric
Chain O 1–991（991 aa）
Not recorded ZN ZINC ION × 8 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5；20 mM HEPES pH 7.5, 50 mM KCl, 4 mM MgCl2, 1 mM DTT
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.00 Å
9HWG Structure of the transcribing Pol II-TCR-RECQL5 complex Deposited 2025-01-03 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: 21-meric
Chain O 1–991（991 aa）
Not recorded ZN ZINC ION × 10 MG MAGNESIUM ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5；20 mM HEPES pH 7.5, 50 mM KCl, 4 mM MgCl2, 1 mM DTT
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å

28 other PDB entries and 48 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name RECQ5_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 3–445； UniProt 11–453 Author chain B； PDBConstruct 3–445； UniProt 11–453 Author chain C； PDBConstruct 3–445； UniProt 11–453 Author chain D； PDBConstruct 3–445； UniProt 11–453

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 5lba

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 5lba
Download Download
▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id5lba
Deposition date deposition_date2016-06-15
Structure title titleCrystal structure of human RECQL5 helicase in complex with DSPL fragment(1-cyclohexyl-3-(oxolan-2-ylmethyl)urea, SGC - Diamond XChem I04-1 fragment screening.
Keywords keywords;Helicase, RecQ, Transcription, Fragment screening, Structural Genomics, Structural Genomics Consortium, SGC, hydrolase, DIAMOND I04-1 XCHEM" ;; HYDROLASE
Experimental Method methodX-RAY DIFFRACTION
▼

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier47.55 Å
Radius of gyration Rg (electron density) rg_electron47.18 Å
Forward intensity I(0) i0566963000.00
Molecular weight molecular_weight193810.0 kDa
Excluded volume excluded_volume241870 ų
Envelope volume envelope_volume371260 ų
Hydration-shell volume shell_volume67296 ų
Envelope diameter envelope_diameter157.3 Å
Shell Rg shell_rg49.89 Å
Envelope Rg envelope_rg45.59 Å
Shape Rg shape_rg47.18 Å
Total Rg total_rg47.30 Å
Total atoms total_atoms13573
Residues n_residues1733
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 Å−1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3
▼

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax153.4 Å
Rg (real space) rg_real47.37 Å
Rg uncertainty (real space) rg_real_error1.35 Å
I(0) (real space) i0_real5.6700e+08
I(0) uncertainty (real space) i0_real_error9.8440e+06
Rg (reciprocal space) rg_reciprocal47.55 Å
I(0) (reciprocal space) i0_reciprocal567100000.0000
Solution quality estimate total_estimate0.9037
Solution quality rating solution_quality EXCELLENT a EXCELLENT solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary60.4 Å
Skewness Skewness skewness0.102
Kurtosis Kurtosis kurtosis-0.647
Angular range angular_range— – 0.1650 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha26310000.0000
Real-space data points n_real_points34
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.939; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.998; Smooth: 0.929
▶

5. Crystallography and Experiment 5. Crystallography & Experiment

▶

6. Entities and Polymers Entities & Polymers (7)

▼

7. Fold Classification (SCOP + CATH) 8 domains

CATH v4.4 (8 domains)

Domain ID domain_id5lbaA01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id5lbaA02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id5lbaB01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id5lbaB02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id5lbaC01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id5lbaC02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id5lbaD01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id5lbaD02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
▶

8. Citations (1)

▶

9. Files and Curves (10)