5amc

Crystal structure of the Angiotensin-1 converting enzyme N-domain in complex with amyloid-beta fluorogenic fragment 4-10

Method: X-RAY DIFFRACTION Dmax: 108.9 Å Quality: GOOD

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

ANGIOTENSIN-CONVERTING ENZYME

HOMO SAPIENS

UniProt P12821

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Other combination Monomer Protein × 1 其他Polymer 3 PDB declaration: monomeric(1) Consistent with protein copy count Chain A; UniProt 30–658 Fragment:N DOMAIN, UNP RESIDUES 30-658 Mutation:YES alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 ;beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 GLY GLYCINE × 1 NIY META-NITRO-TYROSINE × 1 ZN ZINC ION × 1 CL CHLORIDE ION × 1 PEG DI(HYDROXYETHYL)ETHER × 3 X-RAY DIFFRACTION X-ray crystallization conditions:pH 8.5;0.06 M DIVALENT CATIONS, 0.1 M TRIS/BICINE PH 8.5, 30 % PEG550MME/PEG20000 Resolution 1.65 Å R-free 0.242
2 Other combination Monomer Protein × 1 其他Polymer 3 PDB declaration: monomeric(1) Consistent with protein copy count Chain B; UniProt 30–658 Fragment:N DOMAIN, UNP RESIDUES 30-658 Mutation:YES alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 GLY GLYCINE × 1 NIY META-NITRO-TYROSINE × 1 ZN ZINC ION × 1 CL CHLORIDE ION × 1 PEG DI(HYDROXYETHYL)ETHER × 3 PG4 TETRAETHYLENE GLYCOL × 1 P6G HEXAETHYLENE GLYCOL × 1 X-RAY DIFFRACTION X-ray crystallization conditions:pH 8.5;0.06 M DIVALENT CATIONS, 0.1 M TRIS/BICINE PH 8.5, 30 % PEG550MME/PEG20000 Resolution 1.65 Å R-free 0.242

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.

89 other PDB entries and 149 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ACE_HUMAN
Isoform
PDB entities 1, 2
Chains and sequence ranges Author chain A; PDBConstruct 1–629; UniProt 30–658 Author chain B; PDBConstruct 1–629; UniProt 30–658

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 5amc

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 5amc
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2. Structure Basics 2. Structure Basics

Entry ID entry_id5amc
Deposition date deposition_date2015-03-10
Structure title titleCrystal structure of the Angiotensin-1 converting enzyme N-domain in complex with amyloid-beta fluorogenic fragment 4-10
Keywords keywordsHYDROLASE, ANGIOTENSIN-CONVERTING ENZYME, METALLOPROTEASE, AMYLOID-BETA; HYDROLASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier35.12
Radius of gyration Rg (electron density) rg_electron34.25
Forward intensity I(0) i0315460000.00
Molecular weight molecular_weight144430.0 kDa
Excluded volume excluded_volume180580 ų
Envelope volume envelope_volume220390 ų
Hydration-shell volume shell_volume51723 ų
Envelope diameter envelope_diameter107.3
Shell Rg shell_rg42.40
Envelope Rg envelope_rg34.15
Shape Rg shape_rg34.19
Total Rg total_rg35.01
Total atoms total_atoms10205
Residues n_residues1214
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 dmax108.9
Rg (real space) rg_real35.03
Rg uncertainty (real space) rg_real_error0.62
I(0) (real space) i0_real3.1550e+08
I(0) uncertainty (real space) i0_real_error5.2310e+06
Rg (reciprocal space) rg_reciprocal35.09
I(0) (reciprocal space) i0_reciprocal315500000.0000
Solution quality estimate total_estimate0.8354
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary38.7
Skewness Skewness skewness0.214
Kurtosis Kurtosis kurtosis-0.641
Angular range angular_range— – 0.2250 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha120500000.0000
Real-space data points n_real_points46
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.952; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.000

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (14)

7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd5amca_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.92 — Zincin-like
Superfamily Superfamily superfamilyd.92.1 — Metalloproteases ('zincins'), catalytic domain
Family Family familyd.92.1.0 — automated matches
Domain ID domain_idd5amcb_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.92 — Zincin-like
Superfamily Superfamily superfamilyd.92.1 — Metalloproteases ('zincins'), catalytic domain
Family Family familyd.92.1.0 — automated matches

8. Citations (1)

9. Files and Curves (10)