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2kxh

Solution structure of the first two RRM domains of FIR in the complex with FBP Nbox peptide

Method: SOLUTION NMR Dmax: 65.5 Å Quality: REASONABLE
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Poly(U)-binding-splicing factor PUF60

Homo sapiens

UniProt Q9UHX1

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 heterocomplex Heteromer Protein × 2 PDB declaration: dimeric（2） Consistent with protein copy count Chain A； UniProt 119–314 Fragment：UNP residues 119-314 peptide of Far upstream element-binding protein 1 × 1 （Q96AE4） SOLUTION NMR NMR measurement conditions：pH 8；310 K；Ionic strength (raw mmCIF value) 0.06；Pressure ambient NMR measurement conditions：pH 8；318 K；Ionic strength (raw mmCIF value) 0.06；Pressure ambient NMR sample composition：0.6 mM [U-15N] protein_1-1, 10 mM TRIS-HCl pH 8.0-2, 50 mM sodium chloride-3, 2 mM TCEP-4, 1.25 mM protein_2-5, 90% H2O/10% D2O | 90% H2O/10% D2O NMR sample composition：mM [U-13C; U-15N] protein_1-6, 10 mM TRIS-HCl pH 8.0-7, 50 mM sodium chloride-8, 2 mM TCEP-9, mM protein_2-10, 90% H2O/10% D2O | 90% H2O/10% D2O NMR sample composition：0.3 mM [U-13C; U-15N] protein_2-11, 10 mM TRIS-HCl pH 8.0-12, 50 mM sodium chloride-13, 2 mM TCEP-14, mM protein_1-15, 100% D2O | 100% D2O NMR sample composition：mM [U-13C; U-15N] protein_1-16, 10 mM TRIS-HCl pH 8.0-17, 50 mM sodium chloride-18, 2 mM TCEP-19, mM protein_2-20, 100% D2O | 100% D2O Resolution not provided

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 2KXH Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
2KXF Solution structure of the first two RRM domains of FBP-interacting repressor (FIR) Deposited 2010-05-04 Different oligomeric state Different experimental conditions Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 119–314（196 aa） Fragment：UNP residues 119-314
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 8；310 K；Ionic strength (raw mmCIF value) 0.06；Pressure ambient
NMR sample composition 0.3-0.4 mM [U-15N] entity-1, 10 mM TRIS-HCl pH 8.0-2, 50 mM sodium chloride-3, 2 mM TCEP-4, 90% H2O/10% D2O | 90% H2O/10% D2O
NMR sample composition 0.3-0.4 mM [U-13C; U-15N] entity-5, 10 mM TRIS-HCl pH 8.0-6, 50 mM sodium chloride-7, 2 mM TCEP-8, 90% H2O/10% D2O | 90% H2O/10% D2O
NMR sample composition 0.3-0.4 mM [U-13C; U-15N; U70%-2H] entity-9, 10 mM TRIS-HCl pH 8.0-10, 50 mM sodium chloride-11, 2 mM TCEP-12, 90% H2O/10% D2O | 90% H2O/10% D2O
Resolution not provided
3DXB Structure of the UHM domain of Puf60 fused to thioredoxin Deposited 2008-07-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 460–499（40 aa） Fragment：Chimera of Thioredoxin 1-109 and Puf60 C-terminal 460-559
Chain F 460–499（40 aa） Fragment：Chimera of Thioredoxin 1-109 and Puf60 C-terminal 460-559
Not recorded CL CHLORIDE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；1.4M ammonium sulfate, 0.05M K-formate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.20 Å R-free 0.271
3DXB Structure of the UHM domain of Puf60 fused to thioredoxin Deposited 2008-07-24 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Insufficient information Homooligomer；Protein × 2 PDB declaration: dimeric
Chain B 460–499（40 aa） Fragment：Chimera of Thioredoxin 1-109 and Puf60 C-terminal 460-559
Chain D 460–499（40 aa） Fragment：Chimera of Thioredoxin 1-109 and Puf60 C-terminal 460-559
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；1.4M ammonium sulfate, 0.05M K-formate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.20 Å R-free 0.271
3DXB Structure of the UHM domain of Puf60 fused to thioredoxin Deposited 2008-07-24 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Insufficient information Homooligomer；Protein × 2 PDB declaration: dimeric
Chain C 460–499（40 aa） Fragment：Chimera of Thioredoxin 1-109 and Puf60 C-terminal 460-559
Chain G 460–499（40 aa） Fragment：Chimera of Thioredoxin 1-109 and Puf60 C-terminal 460-559
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；1.4M ammonium sulfate, 0.05M K-formate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.20 Å R-free 0.271
3DXB Structure of the UHM domain of Puf60 fused to thioredoxin Deposited 2008-07-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 4 Insufficient information Homooligomer；Protein × 2 PDB declaration: dimeric
Chain E 460–499（40 aa） Fragment：Chimera of Thioredoxin 1-109 and Puf60 C-terminal 460-559
Chain H 460–499（40 aa） Fragment：Chimera of Thioredoxin 1-109 and Puf60 C-terminal 460-559
Not recorded CL CHLORIDE ION × 2 EDO 1,2-ETHANEDIOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；1.4M ammonium sulfate, 0.05M K-formate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.20 Å R-free 0.271
3DXB Structure of the UHM domain of Puf60 fused to thioredoxin Deposited 2008-07-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 5 Insufficient information Homooligomer；Protein × 8 PDB declaration: octameric
Chain A 460–499（40 aa） Fragment：Chimera of Thioredoxin 1-109 and Puf60 C-terminal 460-559
Chain B 460–499（40 aa） Fragment：Chimera of Thioredoxin 1-109 and Puf60 C-terminal 460-559
Chain C 460–499（40 aa） Fragment：Chimera of Thioredoxin 1-109 and Puf60 C-terminal 460-559
Chain D 460–499（40 aa） Fragment：Chimera of Thioredoxin 1-109 and Puf60 C-terminal 460-559
Chain E 460–499（40 aa） Fragment：Chimera of Thioredoxin 1-109 and Puf60 C-terminal 460-559
Chain F 460–499（40 aa） Fragment：Chimera of Thioredoxin 1-109 and Puf60 C-terminal 460-559
Chain G 460–499（40 aa） Fragment：Chimera of Thioredoxin 1-109 and Puf60 C-terminal 460-559
Chain H 460–499（40 aa） Fragment：Chimera of Thioredoxin 1-109 and Puf60 C-terminal 460-559
Not recorded CL CHLORIDE ION × 4 EDO 1,2-ETHANEDIOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；1.4M ammonium sulfate, 0.05M K-formate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.20 Å R-free 0.271
3UE2 Crystal structure of a RNA binding domain of poly-U binding splicing factor 60KDa (PUF60) from Homo sapiens at 1.23 A resolution Deposited 2011-10-28 Different construct Different mutation/modification Different oligomeric state 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 443–559（117 aa） Fragment：RNA binding domain
Non-standard monomer：Yes (specific site not provided by mmCIF) SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6；277 K；2.4 M ammonium sulfate, 0.1M MES pH 6.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Resolution 1.23 Å R-free 0.160
3US5 Crystal structure of a RNA-binding domain of a poly-U binding splicing factor 60KDa (PUF60) from Homo sapiens at 1.38 A resolution Deposited 2011-11-23 Different construct Different mutation/modification Different oligomeric state 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 443–559（117 aa） Fragment：RRM 3 domain residues 443-559
Non-standard monomer：Yes (specific site not provided by mmCIF) CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8；277 K；2.40M ammonium sulfate, 0.1M TRIS pH 8.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Resolution 1.38 Å R-free 0.181
3UWT Crystal structure of a RNA binding domain of poly-U binding splicing factor 60KDa (PUF60) from Homo sapiens at 2.50 A resolution Deposited 2011-12-02 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 118–316（199 aa） Fragment：RNA binding domain
Non-standard monomer：Yes (specific site not provided by mmCIF) CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 9.5；293 K；0.2M sodium chloride, 1.26M ammonium sulfate, 0.1M CHES pH 9.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.50 Å R-free 0.240
5KVY CRYSTAL STRUCTURE OF THE TWO TANDEM RRM DOMAINS OF PUF60 BOUND TO A PORTION OF AN ADML PRE-MRNA 3' SPLICE SITE ANALOG Deposited 2016-07-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: trimeric
Chain A 118–316（199 aa） Fragment：tandem RRM domains
Chain B 118–316（199 aa） Fragment：tandem RRM domains
Mutation：R123G, C129S, C255A Mutation：R123G, C129S, C255A CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.7；293 K；0.1 M TRIS-HCl, 25% PEG 4000, 5-10 mM Barium Chloride Dihydrate, pH 8.7, mixed with 10 mg/ml protein-nucleic acid mixture in 50 mM TRIS-HCl, pH 8.0, 150 mM NaCl, 20 micromolar EDTA.
Resolution 1.95 Å R-free 0.232
5KW1 Crystal Structure of the Two Tandem RRM Domains of PUF60 Bound to a Modified AdML Pre-mRNA 3' Splice Site Analogue Deposited 2016-07-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: trimeric
Chain A 118–316（199 aa） Fragment：unp residues 118-316
Chain B 118–316（199 aa） Fragment：unp residues 118-316
Mutation：R123G, C129S, C255A Mutation：R123G, C129S, C255A CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.7；293 K；0.1 M Tris-HCl, 25% PEG 4000, 5-10 mM barium chloride dihydrate, pH 8.7, mixed with 10 mg/ml protein-nucleic acid mixture in 50 mM Tris-HCl, pH 8.0, 150 mM NaCl, 20 micromolar EDTA
Resolution 2.10 Å R-free 0.237
5KW6 Two Tandem RRM Domains of PUF60 Bound to an AdML Pre-mRNA 3' Splice Site Analogue with a Modified Binding-Site Nucleic Acid Base Deposited 2016-07-15 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: trimeric
Chain A 118–316（199 aa） Fragment：unp residues 118-316
Chain B 118–316（199 aa） Fragment：unp residues 118-316
Mutation：R123G, C129S, C255A Mutation：R123G, C129S, C255A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.7；293 K；0.1 M Tris-HCl, 25% PEG 4000, 5-10 mM barium chloride dihydrate, pH 8.7, mixed with 10 mg/ml protein-nucleic acid mixture in 50 mM Tris-HCl, pH 8.0, 150 mM NaCl, 20 micromolar EDTA
Resolution 1.91 Å R-free 0.226
5KWQ Two Tandem RRM Domains of FBP-Interacting Repressor (FIR), also Known as PUF60 Deposited 2016-07-18 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 118–316（199 aa）
Mutation：R106G, C112S, C238A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；1M Lithium sulfate, 0.1M HEPES (pH 7.5), 5% glycerol, mixed with an equal volume of 10 mg/ml protein
Resolution 2.80 Å R-free 0.256
5KWQ Two Tandem RRM Domains of FBP-Interacting Repressor (FIR), also Known as PUF60 Deposited 2016-07-18 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 118–316（199 aa）
Mutation：R106G, C112S, C238A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；1M Lithium sulfate, 0.1M HEPES (pH 7.5), 5% glycerol, mixed with an equal volume of 10 mg/ml protein
Resolution 2.80 Å R-free 0.256
5KWQ Two Tandem RRM Domains of FBP-Interacting Repressor (FIR), also Known as PUF60 Deposited 2016-07-18 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 118–316（199 aa）
Chain B 118–316（199 aa）
Mutation：R106G, C112S, C238A Mutation：R106G, C112S, C238A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；1M Lithium sulfate, 0.1M HEPES (pH 7.5), 5% glycerol, mixed with an equal volume of 10 mg/ml protein
Resolution 2.80 Å R-free 0.256
6LUR Human PUF60 UHM domain (thioredoxin fusion) in complex with a small molecule binder Deposited 2020-01-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Homooligomer；Protein × 8 PDB declaration: octameric
Chain A 460–559（100 aa）
Chain B 460–559（100 aa）
Chain C 460–559（100 aa）
Chain D 460–559（100 aa）
Chain E 460–559（100 aa）
Chain F 460–559（100 aa）
Chain G 460–559（100 aa）
Chain H 460–559（100 aa）
Not recorded EVU 4-[2-[4-(aminomethyl)phenyl]phenyl]piperazin-2-one × 8 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；1.3-1.6M AmSO4, 0.2M potassium formate
Resolution 2.00 Å R-free 0.253
6SLO Crystal structure of PUF60 UHM domain in complex with 7,8 dimethoxyperphenazine Deposited 2019-08-20 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain A 417–516（100 aa）
Not recorded MG MAGNESIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7；293 K；1.4M ammonium sulfate, 0.05M K-formate,
Resolution 1.94 Å R-free 0.207
6SLO Crystal structure of PUF60 UHM domain in complex with 7,8 dimethoxyperphenazine Deposited 2019-08-20 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain B 417–516（100 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7；293 K；1.4M ammonium sulfate, 0.05M K-formate,
Resolution 1.94 Å R-free 0.207
6SLO Crystal structure of PUF60 UHM domain in complex with 7,8 dimethoxyperphenazine Deposited 2019-08-20 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain C 417–516（100 aa）
Not recorded LJT 2-[4-[3-(8-chloranyl-2,3-dimethoxy-phenothiazin-10-yl)propyl]piperazin-1-yl]ethanol × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7；293 K；1.4M ammonium sulfate, 0.05M K-formate,
Resolution 1.94 Å R-free 0.207
6SLO Crystal structure of PUF60 UHM domain in complex with 7,8 dimethoxyperphenazine Deposited 2019-08-20 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 4 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain D 417–516（100 aa）
Not recorded LJT 2-[4-[3-(8-chloranyl-2,3-dimethoxy-phenothiazin-10-yl)propyl]piperazin-1-yl]ethanol × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7；293 K；1.4M ammonium sulfate, 0.05M K-formate,
Resolution 1.94 Å R-free 0.207
7Q8A Crystal structure of tandem domain RRM1-2 of FUBP-interacting repressor (FIR) bound to FUSE ssDNA fragment Deposited 2021-11-10 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 114–310（197 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；293 K；25% w/v PEG3350, 0.2M Sodium acetate trihydrate, 0.1M Bis-Tris , pH5.5
Resolution 2.05 Å R-free 0.247
7Q8A Crystal structure of tandem domain RRM1-2 of FUBP-interacting repressor (FIR) bound to FUSE ssDNA fragment Deposited 2021-11-10 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Monomer；Protein × 1 PDB declaration: dimeric
Chain B 114–310（197 aa）
Not recorded EDO 1,2-ETHANEDIOL × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；293 K；25% w/v PEG3350, 0.2M Sodium acetate trihydrate, 0.1M Bis-Tris , pH5.5
Resolution 2.05 Å R-free 0.247
7Z3X Crystal structure of FIR RRM1-2 Y115F mutant bound to FUSE ssDNA Deposited 2022-03-02 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 114–308（195 aa）
Not recorded EDO 1,2-ETHANEDIOL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 5.5；293 K；25% PEG3350 0.1M Bis-Tris, pH5.5
Resolution 1.65 Å R-free 0.214
7Z3X Crystal structure of FIR RRM1-2 Y115F mutant bound to FUSE ssDNA Deposited 2022-03-02 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Monomer；Protein × 1 PDB declaration: dimeric
Chain B 114–308（195 aa）
Not recorded EDO 1,2-ETHANEDIOL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 5.5；293 K；25% PEG3350 0.1M Bis-Tris, pH5.5
Resolution 1.65 Å R-free 0.214

13 other PDB entries and 24 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name PUF60_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 4–199； UniProt 119–314

peptide of Far upstream element-binding protein 1

Homo sapiens

UniProt Q96AE4

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 heterocomplex Heteromer Protein × 2 PDB declaration: dimeric（2） Consistent with protein copy count Chain B； UniProt 27–52 Fragment：UNP residues 27-52 Poly(U)-binding-splicing factor PUF60 × 1 （Q9UHX1） SOLUTION NMR NMR measurement conditions：pH 8；310 K；Ionic strength (raw mmCIF value) 0.06；Pressure ambient NMR measurement conditions：pH 8；318 K；Ionic strength (raw mmCIF value) 0.06；Pressure ambient NMR sample composition：0.6 mM [U-15N] protein_1-1, 10 mM TRIS-HCl pH 8.0-2, 50 mM sodium chloride-3, 2 mM TCEP-4, 1.25 mM protein_2-5, 90% H2O/10% D2O | 90% H2O/10% D2O NMR sample composition：mM [U-13C; U-15N] protein_1-6, 10 mM TRIS-HCl pH 8.0-7, 50 mM sodium chloride-8, 2 mM TCEP-9, mM protein_2-10, 90% H2O/10% D2O | 90% H2O/10% D2O NMR sample composition：0.3 mM [U-13C; U-15N] protein_2-11, 10 mM TRIS-HCl pH 8.0-12, 50 mM sodium chloride-13, 2 mM TCEP-14, mM protein_1-15, 100% D2O | 100% D2O NMR sample composition：mM [U-13C; U-15N] protein_1-16, 10 mM TRIS-HCl pH 8.0-17, 50 mM sodium chloride-18, 2 mM TCEP-19, mM protein_2-20, 100% D2O | 100% D2O Resolution not provided

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 2KXH Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
1J4W COMPLEX OF THE KH3 and KH4 DOMAINS OF FBP WITH A SINGLE_STRANDED 29mer DNA OLIGONUCLEOTIDE FROM THE FUSE ELEMENT OF THE C-MYC ONCOGENE Deposited 2001-11-30 Different construct Different mutation/modification Different oligomeric state Different experimental conditions Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 278–447（170 aa） Fragment：RESIDUES 278-447, NUMBERERED 5-174. KH3 AND KH4 DOMAINS.
Mutation：C59A No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 6.8；308 K；Ionic strength (raw mmCIF value) 50 mM SODIUM PHOSPHATE
Resolution not provided
4LIJ Crystal structure of a far upstream element (FUSE) binding protein 1 (FUBP1) from Homo sapiens at 1.95 A resolution Deposited 2013-07-02 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 3 PDB declaration: trimeric
Chain A 86–174（89 aa） Fragment：UNP residues 86-174
Chain B 86–174（89 aa） Fragment：UNP residues 86-174
Chain C 86–174（89 aa） Fragment：UNP residues 86-174
Non-standard monomer：Yes (specific site not provided by mmCIF) Non-standard monomer：Yes (specific site not provided by mmCIF) Non-standard monomer：Yes (specific site not provided by mmCIF) PO4 PHOSPHATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8.5；277 K；20.00% Glycerol, 1.60M ammonium dihydrogen phosphate, 0.1M TRIS pH 8.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Resolution 1.80 Å R-free 0.199
4LIJ Crystal structure of a far upstream element (FUSE) binding protein 1 (FUBP1) from Homo sapiens at 1.95 A resolution Deposited 2013-07-02 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric
Chain A 86–174（89 aa） Fragment：UNP residues 86-174
Chain B 86–174（89 aa） Fragment：UNP residues 86-174
Chain C 86–174（89 aa） Fragment：UNP residues 86-174
Non-standard monomer：Yes (specific site not provided by mmCIF) Non-standard monomer：Yes (specific site not provided by mmCIF) Non-standard monomer：Yes (specific site not provided by mmCIF) PO4 PHOSPHATE ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8.5；277 K；20.00% Glycerol, 1.60M ammonium dihydrogen phosphate, 0.1M TRIS pH 8.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Resolution 1.80 Å R-free 0.199
6Y24 Crystal structure of fourth KH domain of FUBP1 Deposited 2020-02-14 Different construct Different oligomeric state 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 365–455（91 aa）
Not recorded EDO 1,2-ETHANEDIOL × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；3.1 M sodium formate
Resolution 1.86 Å R-free 0.243
6Y2C Crystal structure of the third KH domain of FUBP1 Deposited 2020-02-15 Different construct Different oligomeric state 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 260–350（91 aa）
Not recorded EDO 1,2-ETHANEDIOL × 2 ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；10% PEG 6000, 10% ethylene glycol, 0.015M Zinkchlorid, 0.1 M MES, pH 6.0
Resolution 2.00 Å R-free 0.240
6Y2C Crystal structure of the third KH domain of FUBP1 Deposited 2020-02-15 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 260–350（91 aa）
Not recorded EDO 1,2-ETHANEDIOL × 6 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；10% PEG 6000, 10% ethylene glycol, 0.015M Zinkchlorid, 0.1 M MES, pH 6.0
Resolution 2.00 Å R-free 0.240
6Y2D Crystal structure of the second KH domain of FUBP1 Deposited 2020-02-15 Different construct Different oligomeric state 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 185–259（75 aa）
Not recorded SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；2M ammonium sulfate, 5% 2-propanol, 2.5% Glycerol
Resolution 1.90 Å R-free 0.239
6Y2D Crystal structure of the second KH domain of FUBP1 Deposited 2020-02-15 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 185–259（75 aa）
Not recorded SO4 SULFATE ION × 1 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；2M ammonium sulfate, 5% 2-propanol, 2.5% Glycerol
Resolution 1.90 Å R-free 0.239
6Y2D Crystal structure of the second KH domain of FUBP1 Deposited 2020-02-15 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain C 185–259（75 aa）
Not recorded SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；2M ammonium sulfate, 5% 2-propanol, 2.5% Glycerol
Resolution 1.90 Å R-free 0.239
6Y2D Crystal structure of the second KH domain of FUBP1 Deposited 2020-02-15 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 4 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain D 185–259（75 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；2M ammonium sulfate, 5% 2-propanol, 2.5% Glycerol
Resolution 1.90 Å R-free 0.239
8P25 Solution structure of a chimeric U2AF2 RRM2 / FUBP1 N-Box Deposited 2023-05-14 Different construct Different oligomeric state Different experimental conditions Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain A 21–56（36 aa）
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 6.5；298 K；Ionic strength (raw mmCIF value) 50mM NaCl；Pressure 1
NMR sample composition 0.6 mM [U-100% 13C; U-100% 15N] Chimeric construct of U2AF2 linker-RRM2 and FUBP1 N-box, 90% H2O/10% D2O | 90% H2O/10% D2O
NMR sample composition 0.6 mM [U-100% 13C; U-100% 15N] Chimeric construct of U2AF2 linker-RRM2 and FUBP1 N-box, 100% D2O | 100% D2O
Resolution not provided

6 other PDB entries and 11 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name FUBP1_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 6–31； UniProt 27–52

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 2kxh

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 2kxh
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2. Structure Basics 2. Structure Basics

Entry ID entry_id2kxh
Deposition date deposition_date2010-05-05
Structure title titleSolution structure of the first two RRM domains of FIR in the complex with FBP Nbox peptide
Keywords keywordsRRM, FIR, FBP, protein-protein complex, PROTEIN BINDING; PROTEIN BINDING
Experimental Method methodSOLUTION NMR
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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier19.33 Å
Radius of gyration Rg (electron density) rg_electron18.86 Å
Forward intensity I(0) i03548720000.00
Molecular weight molecular_weight501130.0 kDa
Excluded volume excluded_volume625220 ų
Envelope volume envelope_volume78819 ų
Hydration-shell volume shell_volume28078 ų
Envelope diameter envelope_diameter72.4 Å
Shell Rg shell_rg30.72 Å
Envelope Rg envelope_rg23.24 Å
Shape Rg shape_rg18.81 Å
Total Rg total_rg19.20 Å
Total atoms total_atoms70200
Residues n_residues4600
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
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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax65.5 Å
Rg (real space) rg_real19.27 Å
Rg uncertainty (real space) rg_real_error0.39 Å
I(0) (real space) i0_real3.5490e+09
I(0) uncertainty (real space) i0_real_error4.8250e+07
Rg (reciprocal space) rg_reciprocal19.28 Å
I(0) (reciprocal space) i0_reciprocal3549000000.0000
Solution quality estimate total_estimate0.7314
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary21.2 Å
Skewness Skewness skewness0.229
Kurtosis Kurtosis kurtosis-0.434
Angular range angular_range— – 0.4100 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha2139000.0000
Real-space data points n_real_points72
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.822; Stabil: 1.000; Sysdev: 0.356; Positv: 1.000; Valcen: 0.977; Smooth: 0.992
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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (2)

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7. Fold Classification (SCOP + CATH) 5 domains

SCOP 2.08 (3 domains)

Domain ID domain_idd2kxha1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.7 — RNA-binding domain, RBD, aka RNA recognition motif (RRM)
Family Family familyd.58.7.0 — automated matches
Domain ID domain_idd2kxha2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.7 — RNA-binding domain, RBD, aka RNA recognition motif (RRM)
Family Family familyd.58.7.0 — automated matches
Domain ID domain_idd2kxha3
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags

CATH v4.4 (2 domains)

Domain ID domain_id2kxhA01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily330 — RRM (RNA recognition motif) domain
Domain ID domain_id2kxhA02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily330 — RRM (RNA recognition motif) domain
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8. Citations (1)

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9. Files and Curves (10)