Small Angle Scattering Biological Data Bank SASBDB


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9 hits found for Cordoba

SASDH44 – 3' Complex of XPA-DBD and RPA70AB

DNA repair protein complementing XP-A cellsReplication protein A 70 kDa DNA-binding subunit3-prime Nucleotide Excision Repair Junction Model Substrate experimental SAS data

Sample:	DNA repair protein complementing XP-A cells monomer, 17 kDa Homo sapiens protein Replication protein A 70 kDa DNA-binding subunit monomer, 27 kDa Homo sapiens protein 3-prime Nucleotide Excision Repair Junction Model Substrate monomer, 11 kDa DNA
Buffer:	20 mM Tris, 150 mM NaCl, 2% glycerol, 1 mM DTT, pH: 7.5
Experiment:	SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 17 Nov 2

A key interaction with RPA orients XPA in NER complexes. Nucleic Acids Res (2020)
...Cordoba JJ, Le Meur KV, Le Meur RA, Kim HS, Yeo JE, Rosenberg D, Hammel M, Schärer OD, Chazin WJ

R_g^Guinier	3.1	nm
D_max	9.7	nm
Volume^Porod	103	nm³

SASDH54 – 5' Complex of XPA-DBD with RPA70AB

DNA repair protein complementing XP-A cellsReplication protein A 70 kDa DNA-binding subunit5-prime Nucleotide Excision Repair Junction Model Substrate experimental SAS data

Sample:	DNA repair protein complementing XP-A cells monomer, 17 kDa Homo sapiens protein Replication protein A 70 kDa DNA-binding subunit monomer, 27 kDa Homo sapiens protein 5-prime Nucleotide Excision Repair Junction Model Substrate monomer, 11 kDa DNA
Buffer:	20 mM Tris, 150 mM NaCl, 2% glycerol, 1 mM DTT, pH: 7.5
Experiment:	SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2019 Jun 4

A key interaction with RPA orients XPA in NER complexes. Nucleic Acids Res (2020)
...Cordoba JJ, Le Meur KV, Le Meur RA, Kim HS, Yeo JE, Rosenberg D, Hammel M, Schärer OD, Chazin WJ

R_g^Guinier	2.9	nm
D_max	97.0	nm
Volume^Porod	87	nm³

SASDPV6 – Calmodulin

Sample:	Calmodulin-1 monomer, 17 kDa Homo sapiens protein
Buffer:	50 mM HEPES, 100 mM NaCl, 2 mM CaCl2, 1 mM TCEP, pH: 7.4
Experiment:	SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2021 Sep 23

Binding by calmodulin is coupled to transient unfolding of the third FF domain of Prp40A. Protein Sci 32(4):e4606 (2023)
...Cordoba JJ, Ferrer BJ, Balakrishnan S, Wurm JE, Pastrana-Ríos B, Chazin WJ

R_g^Guinier	2.2	nm
D_max	7.0	nm
Volume^Porod	38	nm³

SASDPW6 – FF3 domain of pre-mRNA-processing factor 40 homolog A (Prp40A)

Pre-mRNA-processing factor 40 homolog A experimental SAS data

Sample:	Pre-mRNA-processing factor 40 homolog A monomer, 9 kDa Homo sapiens protein
Buffer:	50 mM HEPES, 100 mM NaCl, 2 mM CaCl2, 1 mM TCEP, pH: 7.4
Experiment:	SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2021 Sep 23

R_g^Guinier	1.6	nm
D_max	7.2	nm
Volume^Porod	13	nm³

SASDPX6 – Calmodulin bound to the FF3 domain of pre-mRNA-processing factor 40 homolog A (Prp40A)

Calmodulin-1Pre-mRNA-processing factor 40 homolog A experimental SAS data

Sample:	Calmodulin-1 monomer, 17 kDa Homo sapiens protein Pre-mRNA-processing factor 40 homolog A monomer, 9 kDa Homo sapiens protein
Buffer:	50 mM HEPES, 100 mM NaCl, 2 mM CaCl2, 1 mM TCEP, pH: 7.4
Experiment:	SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2021 Sep 23

R_g^Guinier	2.4	nm
D_max	8.7	nm
Volume^Porod	29	nm³

SASDS87 – polymerase alpha-primase polΔcat-prim in the absence of substrate

DNA polymerase alpha subunit BDNA polymerase alpha catalytic subunitDNA primase large subunitDNA primase small subunit experimental SAS data

Sample:	DNA polymerase alpha subunit B monomer, 49 kDa Homo sapiens protein DNA polymerase alpha catalytic subunit monomer, 23 kDa Homo sapiens protein DNA primase large subunit monomer, 59 kDa Homo sapiens protein DNA primase small subunit monomer, 50 kDa Homo sapiens protein
Buffer:	20 mM HEPES, 150 mM NaCl, 5 mM MgCl2, 1 mM TCEP, pH: 7.5
Experiment:	SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2018 Dec 13

Flexibility and distributive synthesis regulate RNA priming and handoff in human DNA polymerase α-primase Journal of Molecular Biology :168330 (2023)
Cordoba J, Mullins E, Salay L, Eichman B, Chazin W

R_g^Guinier	4.6	nm
D_max	15.1	nm
Volume^Porod	300	nm³

SASDS97 – polymerase alpha-primase polΔcat-prim bound to DNA in the presence of RNA initiation factors

DNA polymerase alpha subunit BDNA polymerase alpha catalytic subunitDNA primase large subunitDNA primase small subunit22mer DNA template experimental SAS data

Sample:	DNA polymerase alpha subunit B monomer, 49 kDa Homo sapiens protein DNA polymerase alpha catalytic subunit monomer, 23 kDa Homo sapiens protein DNA primase large subunit monomer, 59 kDa Homo sapiens protein DNA primase small subunit monomer, 50 kDa Homo sapiens protein 22mer DNA template monomer, 7 kDa DNA
Buffer:	20 mM HEPES, 150 mM NaCl, 5 mM MnCl2, 1 mM TCEP, 1 mM 5'-guanylylmethylenediphosphonate (GMPCPP), pH: 7.5
Experiment:	SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2020 Dec 4

R_g^Guinier	4.6	nm
D_max	14.2	nm
Volume^Porod	310	nm³

SASDSA7 – polymerase alpha-primase polΔcat-prim bound to DNA in the presence of an RNA-primed template

DNA polymerase alpha subunit BDNA polymerase alpha catalytic subunitDNA primase large subunitDNA primase small subunit29 mer DNA template8mer RNA primer experimental SAS data

Sample:	DNA polymerase alpha subunit B monomer, 49 kDa Homo sapiens protein DNA polymerase alpha catalytic subunit monomer, 23 kDa Homo sapiens protein DNA primase large subunit monomer, 59 kDa Homo sapiens protein DNA primase small subunit monomer, 50 kDa Homo sapiens protein 29 mer DNA template monomer, 9 kDa DNA 8mer RNA primer monomer, 3 kDa RNA
Buffer:	20 mM HEPES, 150 mM NaCl, 5 mM MgCl2, 1 mM TCEP, pH: 7.5
Experiment:	SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2023 Mar 28

R_g^Guinier	4.9	nm
D_max	15.3	nm
Volume^Porod	344	nm³

SASDSB7 – polymerase alpha-primase polΔcat-primΔ2C in the absence of substrate

DNA polymerase alpha subunit BDNA polymerase alpha catalytic subunitDNA primase small subunitDNA primase large subunit experimental SAS data

DNA polymerase alpha subunit B DNA polymerase alpha catalytic subunit DNA primase small subunit DNA primase large subunit Kratky plot

Sample:	DNA polymerase alpha subunit B monomer, 49 kDa Homo sapiens protein DNA polymerase alpha catalytic subunit monomer, 23 kDa Homo sapiens protein DNA primase small subunit monomer, 50 kDa Homo sapiens protein DNA primase large subunit monomer, 31 kDa Homo sapiens protein
Buffer:	20 mM HEPES, 150 mM NaCl, 5 mM MgCl2, 1 mM TCEP, pH: 7.5
Experiment:	SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2019 Apr 15

R_g^Guinier	4.5	nm
D_max	14.5	nm
Volume^Porod	221	nm³

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