[English] 日本語
Yorodumi- PDB-2vrd: THE STRUCTURE OF THE ZINC FINGER FROM THE HUMAN SPLICEOSOMAL PROT... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2vrd | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | THE STRUCTURE OF THE ZINC FINGER FROM THE HUMAN SPLICEOSOMAL PROTEIN U1C | |||||||||
Components | U1 SMALL NUCLEAR RIBONUCLEOPROTEIN C | |||||||||
Keywords | NUCLEAR PROTEIN / RNA-BINDING PROTEIN / STRUCTURAL GENOMICS / RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE / SPLICEOSOMAL PROTEIN / PHOSPHOPROTEIN / RIBONUCLEOPROTEIN / ZINC-FINGER / ZINC FINGER / METAL-BINDING / ZINC / RSGI / NUCLEUS / U1 SNRNP / RNA-BINDING | |||||||||
Function / homology | Function and homology information commitment complex / U1 snRNP / U2-type prespliceosome / pre-mRNA 5'-splice site binding / mRNA 5'-splice site recognition / Cajal body / spliceosomal snRNP assembly / mRNA Splicing - Major Pathway / spliceosomal complex / mRNA splicing, via spliceosome ...commitment complex / U1 snRNP / U2-type prespliceosome / pre-mRNA 5'-splice site binding / mRNA 5'-splice site recognition / Cajal body / spliceosomal snRNP assembly / mRNA Splicing - Major Pathway / spliceosomal complex / mRNA splicing, via spliceosome / single-stranded RNA binding / mRNA binding / protein homodimerization activity / RNA binding / zinc ion binding / nucleoplasm / nucleus Similarity search - Function | |||||||||
Biological species | HOMO SAPIENS (human) | |||||||||
Method | SOLUTION NMR / simulated annealing | |||||||||
Authors | Muto, Y. / Pomeranz-Krummel, D. / Oubridge, C. / Hernandez, H. / Robinson, C. / Neuhaus, D. / Nagai, K. | |||||||||
Citation | Journal: J.Mol.Biol. / Year: 2004 Title: The Structure and Biochemical Properties of the Human Spliceosomal Protein U1C Authors: Muto, Y. / Pomeranz-Krummel, D. / Oubridge, C. / Hernandez, H. / Robinson, C. / Neuhaus, D. / Nagai, K. | |||||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 2vrd.cif.gz | 898.6 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb2vrd.ent.gz | 782.5 KB | Display | PDB format |
PDBx/mmJSON format | 2vrd.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/vr/2vrd ftp://data.pdbj.org/pub/pdb/validation_reports/vr/2vrd | HTTPS FTP |
---|
-Related structure data
Similar structure data |
---|
-Links
-Assembly
Deposited unit |
| |||||||||
---|---|---|---|---|---|---|---|---|---|---|
1 |
| |||||||||
NMR ensembles |
|
-Components
#1: Protein | Mass: 7279.186 Da / Num. of mol.: 1 / Fragment: ZINC FINGER DOMAIN, RESIDUES 1-61 Source method: isolated from a genetically manipulated source Source: (gene. exp.) HOMO SAPIENS (human) / Plasmid: PET3B / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): B834(DE3) / References: UniProt: P09234 |
---|---|
#2: Chemical | ChemComp-ZN / |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
NMR experiment |
| ||||||||||||
NMR details | Text: THE STRUCTURE WAS DETERMINED USING HOMONUCLEAR NMR SPECTROSCOPY ON UNLABELLED U1C ZINC FINGER DOMAIN |
-Sample preparation
Details | Contents: 90%WATER/10%D2O AND 100% D2O |
---|---|
Sample conditions | pH: 6.5 / Pressure: 1.0 atm / Temperature: 298.0 K |
-NMR measurement
NMR spectrometer | Type: Bruker Avance / Manufacturer: Bruker / Model: Avance / Field strength: 800 MHz |
---|
-Processing
NMR software |
| |||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method: simulated annealing / Software ordinal: 1 | |||||||||||||||
NMR ensemble | Conformer selection criteria: LOW RESTRAINT VIOLATIONS / Conformers calculated total number: 50 / Conformers submitted total number: 47 |