2v1z

Structure of a TEM-1 beta-lactamase insertant allosterically regulated by kanamycin and anions.

Method: X-RAY DIFFRACTION Dmax: 59.9 Å Quality: REASONABLE

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

BETA-LACTAMASE TEM

ESCHERICHIA COLI

UniProt P62593

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 A; UniProt 25–38 Chain A; UniProt 41–286 Fragment:RESIDUES 25-38,41-286 Mutation:YES ZN ZINC ION × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 6.2;RESERVOIR: BIS-TRIS 0.1M PH6.2, PEG6000 25%(W/V), NACL 0.3M, NAN3 0.02%(W/V). HANGING DROP: 1UL PROTEIN AND 1 UL RESERVOIR Resolution 1.60 Å R-free 0.206

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.

72 other PDB entries and 155 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name BLAT_ECOLI
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–14; UniProt 25–38 Author chain A; PDBConstruct 23–268; UniProt 41–286

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 2v1z

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 2v1z
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2. Structure Basics 2. Structure Basics

Entry ID entry_id2v1z
Deposition date deposition_date2007-05-31
Structure title titleStructure of a TEM-1 beta-lactamase insertant allosterically regulated by kanamycin and anions.
Keywords keywordsHYDROLASE, INSERTION MUTANT, ANTIBIOTIC RESISTANCE, ALLOSTERIC REGULATION; HYDROLASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier19.10
Radius of gyration Rg (electron density) rg_electron17.87
Forward intensity I(0) i016316600.00
Molecular weight molecular_weight29954.0 kDa
Excluded volume excluded_volume37344 ų
Envelope volume envelope_volume41366 ų
Hydration-shell volume shell_volume19116 ų
Envelope diameter envelope_diameter61.6
Shell Rg shell_rg24.48
Envelope Rg envelope_rg18.19
Shape Rg shape_rg17.88
Total Rg total_rg18.75
Total atoms total_atoms2096
Residues n_residues270
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −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 dmax59.9
Rg (real space) rg_real18.98
Rg uncertainty (real space) rg_real_error0.25
I(0) (real space) i0_real1.6320e+07
I(0) uncertainty (real space) i0_real_error1.8840e+05
Rg (reciprocal space) rg_reciprocal19.00
I(0) (reciprocal space) i0_reciprocal16320000.0000
Solution quality estimate total_estimate0.7375
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary24.1
Skewness Skewness skewness0.164
Kurtosis Kurtosis kurtosis-0.415
Angular range angular_range— – 0.4150 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha3003000.0000
Real-space data points n_real_points73
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.902; Stabil: 1.000; Sysdev: 0.295; Positv: 1.000; Valcen: 0.993; Smooth: 0.997

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 3 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd2v1za1
Class classe — Multi-domain proteins (alpha and beta)
Fold Fold folde.3 — beta-lactamase/transpeptidase-like
Superfamily Superfamily superfamilye.3.1 — beta-lactamase/transpeptidase-like
Family Family familye.3.1.1 — beta-Lactamase/D-ala carboxypeptidase
Domain ID domain_idd2v1za2
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags

CATH v4.4 (1 domains)

Domain ID domain_id2v1zA00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology710 — Beta-lactamase
Homologous superfamily homologous superfamily10 — DD-peptidase/beta-lactamase superfamily

8. Citations (1)

9. Files and Curves (10)