1buv

CRYSTAL STRUCTURE OF THE MT1-MMP-TIMP-2 COMPLEX

Method: X-RAY DIFFRACTION Dmax: 75.6 Å Quality: GOOD

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

PROTEIN (MEMBRANE-TYPE MATRIX METALLOPROTEINASE (CDMT1-MMP))

OrganismNot specified

UniProt P50281

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 M; UniProt 114–287 Not recorded PROTEIN (METALLOPROTEINASE INHIBITOR (TIMP-2)) × 1 (P16368) CA CALCIUM ION × 2 ZN ZINC ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions:pH 5.6;pH 5.6 Resolution 2.75 Å R-free 0.248

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.

11 other PDB entries and 14 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name MMP14_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain M; PDBConstruct 1–174; UniProt 114–287

PROTEIN (METALLOPROTEINASE INHIBITOR (TIMP-2))

OrganismNot specified

UniProt P16368

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 T; UniProt 27–210 Not recorded PROTEIN (MEMBRANE-TYPE MATRIX METALLOPROTEINASE (CDMT1-MMP)) × 1 (P50281) CA CALCIUM ION × 2 ZN ZINC ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions:pH 5.6;pH 5.6 Resolution 2.75 Å R-free 0.248

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.

2 other PDB entries and 2 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name TIMP2_BOVIN
Isoform
PDB entities 2
Chains and sequence ranges Author chain T; PDBConstruct 1–184; UniProt 27–210

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 1buv

P(r) Distance Distribution P(r) Distribution

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

Entry ID entry_id1buv
Deposition date deposition_date1998-09-07
Structure title titleCRYSTAL STRUCTURE OF THE MT1-MMP-TIMP-2 COMPLEX
Keywords keywords;MATRIX METALLOPROTEINASE, TISSUE INHIBITOR OF METALLOPROTEINASES, PROTEINASE COMPLEX, PRO-GELATINASE A ACTIVATOR, HYDROLASE-HYDROLASE INHIBITOR COMPLEX ;; HYDROLASE/HYDROLASE INHIBITOR
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier22.23
Radius of gyration Rg (electron density) rg_electron21.29
Forward intensity I(0) i029008000.00
Molecular weight molecular_weight40477.0 kDa
Excluded volume excluded_volume50179 ų
Envelope volume envelope_volume59731 ų
Hydration-shell volume shell_volume23302 ų
Envelope diameter envelope_diameter78.0
Shell Rg shell_rg28.11
Envelope Rg envelope_rg21.52
Shape Rg shape_rg21.28
Total Rg total_rg22.14
Total atoms total_atoms2839
Residues n_residues358
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 dmax75.6
Rg (real space) rg_real22.17
Rg uncertainty (real space) rg_real_error0.56
I(0) (real space) i0_real2.9010e+07
I(0) uncertainty (real space) i0_real_error4.0150e+05
Rg (reciprocal space) rg_reciprocal22.19
I(0) (reciprocal space) i0_reciprocal29010000.0000
Solution quality estimate total_estimate0.8791
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary26.3
Skewness Skewness skewness0.270
Kurtosis Kurtosis kurtosis-0.361
Angular range angular_range— – 0.3550 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha5525000.0000
Real-space data points n_real_points67
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.813; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.998; Smooth: 0.987

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (4)

7. Fold Classification (SCOP + CATH) 5 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd1buvm_
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.92.1.11 — Matrix metalloproteases, catalytic domain
Domain ID domain_idd1buvt_
Class classb — All beta proteins
Fold Fold foldb.40 — OB-fold
Superfamily Superfamily superfamilyb.40.3 — TIMP-like
Family Family familyb.40.3.1 — Tissue inhibitor of metalloproteinases, TIMP

CATH v4.4 (3 domains)

Domain ID domain_id1buvM00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology390 — Collagenase (Catalytic Domain)
Homologous superfamily homologous superfamily10 — Collagenase (Catalytic Domain)
Domain ID domain_id1buvT01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology370 — Tissue inhibitor of metalloproteinase-1. Chain B, domain 1
Homologous superfamily homologous superfamily10 — Tissue inhibitor of metalloproteinase-1. Chain B, domain 1
Domain ID domain_id1buvT02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P)
Homologous superfamily homologous superfamily120

8. Citations (1)

9. Files and Curves (10)