3G9C
Crystal structure of the product Bacillus anthracis glmS ribozyme
- PDB DOI: https://doi.org/10.2210/pdb3G9C/pdb
- NAKB: 3G9C
- Classification: RNA binding protein/RNA
- Organism(s): Homo sapiens, synthetic construct
- Expression System: Escherichia coli
- Mutation(s): Yes 
- Deposited: 2009-02-13 Released: 2009-11-03 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.90 Å
- R-Value Free: 0.307 
- R-Value Work: 0.246 
- R-Value Observed: 0.249 
This is version 1.7 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
U1 small nuclear ribonucleoprotein A | A, D [auth B], G [auth C], J [auth D] | 98 | Homo sapiens | Mutation(s): 2  Gene Names: SNRPA | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P09012 (Homo sapiens) Explore P09012  Go to UniProtKB:  P09012 | |||||
PHAROS:  P09012 GTEx:  ENSG00000077312  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P09012 | ||||
Sequence AnnotationsExpand | |||||
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Find similar nucleic acids by: Sequence | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | Organism | Image | |
RNA (5'-R(*GP*CP*GP*CP*CP*AP*GP*AP*AP*CP*U)-3') | B [auth E], E [auth F], H [auth G], K [auth H] | 11 | synthetic construct | ||
Sequence AnnotationsExpand | |||||
|
Find similar nucleic acids by:
(by identity cutoff) | 3D Structure
Entity ID: 3 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | Organism | Image | |
GLMS RIBOZYME | C [auth P], F [auth Q], I [auth R], L [auth S] | 141 | synthetic construct | ||
Sequence AnnotationsExpand | |||||
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Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
GLP Query on GLP | M [auth E] | 2-amino-2-deoxy-6-O-phosphono-alpha-D-glucopyranose C6 H14 N O8 P XHMJOUIAFHJHBW-UKFBFLRUSA-N | |||
MG Query on MG | N [auth P], O [auth Q], P [auth R] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.90 Å
- R-Value Free: 0.307 
- R-Value Work: 0.246 
- R-Value Observed: 0.249 
- Space Group: P 1 21 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 49.586 | α = 90 |
b = 229.827 | β = 90.16 |
c = 101.75 | γ = 90 |
Software Name | Purpose |
---|---|
DENZO | data reduction |
SCALEPACK | data scaling |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
HKL-2000 | data collection |
HKL-2000 | data reduction |
MOLREP | phasing |
Entry History 
Deposition Data
- Released Date: 2009-11-03  Deposition Author(s): Strobel, S.A., Cochrane, J.C., Lipchock, S.V., Smith, K.D.
Revision History (Full details and data files)
- Version 1.0: 2009-11-03
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2017-11-01
Changes: Refinement description - Version 1.3: 2018-04-04
Changes: Data collection, Database references - Version 1.4: 2018-04-11
Changes: Data collection, Source and taxonomy - Version 1.5: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary - Version 1.6: 2021-10-20
Changes: Database references, Structure summary - Version 1.7: 2024-02-21
Changes: Data collection