1uuz

IVY:A NEW FAMILY OF PROTEIN

Method: X-RAY DIFFRACTION Dmax: 95.4 Å Quality: GOOD

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

INHIBITOR OF VERTEBRATE LYSOZYME

PSEUDOMONAS AERUGINOSA

UniProt Q9HXB1

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 25–153 Not recorded LYSOZYME C × 1 (P00698) X-RAY DIFFRACTION X-ray crystallization conditions:pH 6.5;20% POLYETHYLENEGLYCOL 4000, IMIDAZOLE/MALATE 0.2M PH 6.0, 5% GLYCEROL Resolution 1.80 Å R-free 0.250
2 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain B; UniProt 25–153 Not recorded LYSOZYME C × 1 (P00698) X-RAY DIFFRACTION X-ray crystallization conditions:pH 6.5;20% POLYETHYLENEGLYCOL 4000, IMIDAZOLE/MALATE 0.2M PH 6.0, 5% GLYCEROL Resolution 1.80 Å R-free 0.250

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.

1 other PDB entries and 1 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name IVY_PSEAE
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–129; UniProt 25–153 Author chain B; PDBConstruct 1–129; UniProt 25–153

LYSOZYME C

OrganismNot specified

UniProt P00698

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 D; UniProt 19–147 Not recorded INHIBITOR OF VERTEBRATE LYSOZYME × 1 (Q9HXB1) X-RAY DIFFRACTION X-ray crystallization conditions:pH 6.5;20% POLYETHYLENEGLYCOL 4000, IMIDAZOLE/MALATE 0.2M PH 6.0, 5% GLYCEROL Resolution 1.80 Å R-free 0.250
2 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain C; UniProt 19–147 Not recorded INHIBITOR OF VERTEBRATE LYSOZYME × 1 (Q9HXB1) X-RAY DIFFRACTION X-ray crystallization conditions:pH 6.5;20% POLYETHYLENEGLYCOL 4000, IMIDAZOLE/MALATE 0.2M PH 6.0, 5% GLYCEROL Resolution 1.80 Å R-free 0.250

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.

1320 other PDB entries and 1449 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name LYC_CHICK
Isoform
PDB entities 2
Chains and sequence ranges Author chain C; PDBConstruct 1–129; UniProt 19–147 Author chain D; PDBConstruct 1–129; UniProt 19–147

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 1uuz

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 1uuz
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2. Structure Basics 2. Structure Basics

Entry ID entry_id1uuz
Deposition date deposition_date2004-01-12
Structure title titleIVY:A NEW FAMILY OF PROTEIN
Keywords keywords;HYDROLASE/INHIBITOR, LYSOZYME-INHIBITOR COMPLEX, IVY, TYPE-C LYSOZYME INHIBITOR, LYSOZYME, HYDROLASE, GLYCOSIDASE, HYDROLASE-INHIBITOR complex ;; HYDROLASE/INHIBITOR
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier30.30
Radius of gyration Rg (electron density) rg_electron29.82
Forward intensity I(0) i058903700.00
Molecular weight molecular_weight57316.0 kDa
Excluded volume excluded_volume70453 ų
Envelope volume envelope_volume91207 ų
Hydration-shell volume shell_volume26289 ų
Envelope diameter envelope_diameter96.5
Shell Rg shell_rg35.89
Envelope Rg envelope_rg29.47
Shape Rg shape_rg29.84
Total Rg total_rg30.32
Total atoms total_atoms4023
Residues n_residues517
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 dmax95.4
Rg (real space) rg_real30.42
Rg uncertainty (real space) rg_real_error0.74
I(0) (real space) i0_real5.8900e+07
I(0) uncertainty (real space) i0_real_error8.7790e+05
Rg (reciprocal space) rg_reciprocal30.37
I(0) (reciprocal space) i0_reciprocal58900000.0000
Solution quality estimate total_estimate0.8671
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary23.9
Skewness Skewness skewness0.304
Kurtosis Kurtosis kurtosis-0.790
Angular range angular_range— – 0.2600 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha22830000.0000
Real-space data points n_real_points53
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.877; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.811; Smooth: 0.827

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 10 domains

SCOP 2.08 (6 domains)

Domain ID domain_idd1uuza1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.233 — Inhibitor of vertebrate lysozyme, Ivy
Superfamily Superfamily superfamilyd.233.1 — Inhibitor of vertebrate lysozyme, Ivy
Family Family familyd.233.1.1 — Inhibitor of vertebrate lysozyme, Ivy
Domain ID domain_idd1uuza2
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags
Domain ID domain_idd1uuzb1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.233 — Inhibitor of vertebrate lysozyme, Ivy
Superfamily Superfamily superfamilyd.233.1 — Inhibitor of vertebrate lysozyme, Ivy
Family Family familyd.233.1.1 — Inhibitor of vertebrate lysozyme, Ivy
Domain ID domain_idd1uuzb2
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags
Domain ID domain_idd1uuzc_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.2 — Lysozyme-like
Superfamily Superfamily superfamilyd.2.1 — Lysozyme-like
Family Family familyd.2.1.2 — C-type lysozyme
Domain ID domain_idd1uuzd_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.2 — Lysozyme-like
Superfamily Superfamily superfamilyd.2.1 — Lysozyme-like
Family Family familyd.2.1.2 — C-type lysozyme

CATH v4.4 (4 domains)

Domain ID domain_id1uuzA00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1420 — Inhibitor of vertebrate lysozyme, Ivy
Homologous superfamily homologous superfamily10 — Inhibitor of vertebrate lysozyme
Domain ID domain_id1uuzB00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1420 — Inhibitor of vertebrate lysozyme, Ivy
Homologous superfamily homologous superfamily10 — Inhibitor of vertebrate lysozyme
Domain ID domain_id1uuzC00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology530 — Lysozyme
Homologous superfamily homologous superfamily10
Domain ID domain_id1uuzD00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology530 — Lysozyme
Homologous superfamily homologous superfamily10

8. Citations (1)

9. Files and Curves (10)