2j4u

E.coli OmpC - camel Lactoferrin complex

Method: X-RAY DIFFRACTION Dmax: 133.9 Å Quality: GOOD

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

OUTER MEMBRANE PROTEIN C PRECURSOR

OrganismNot specified

UniProt P06996

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 × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain P; UniProt 22–367 Chain Q; UniProt 22–367 Chain R; UniProt 22–367 Fragment:RESIDUES 22-367 LACTOTRANSFERRIN × 1 (Q9TUM0) X-RAY DIFFRACTION mmCIF provides none of the parsed experimental conditions Resolution 2.99 Å R-free 0.282
2 Protein heterocomplex Heteromer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain U; UniProt 22–367 Chain V; UniProt 22–367 Chain W; UniProt 22–367 Fragment:RESIDUES 22-367 LACTOTRANSFERRIN × 1 (Q9TUM0) X-RAY DIFFRACTION mmCIF provides none of the parsed experimental conditions Resolution 2.99 Å R-free 0.282

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.

6 other PDB entries and 10 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name OMPC_ECOLI
Isoform
PDB entities 1
Chains and sequence ranges Author chain P; PDBConstruct 1–346; UniProt 22–367 Author chain Q; PDBConstruct 1–346; UniProt 22–367 Author chain R; PDBConstruct 1–346; UniProt 22–367 Author chain U; PDBConstruct 1–346; UniProt 22–367 Author chain V; PDBConstruct 1–346; UniProt 22–367 Author chain W; PDBConstruct 1–346; UniProt 22–367

LACTOTRANSFERRIN

OrganismNot specified

UniProt Q9TUM0

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 × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain S; UniProt 20–64 Fragment:N-TERM FRAGMENT, RESIDUES 20-64 OUTER MEMBRANE PROTEIN C PRECURSOR × 3 (P06996) X-RAY DIFFRACTION mmCIF provides none of the parsed experimental conditions Resolution 2.99 Å R-free 0.282
2 Protein heterocomplex Heteromer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain X; UniProt 20–64 Fragment:N-TERM FRAGMENT, RESIDUES 20-64 OUTER MEMBRANE PROTEIN C PRECURSOR × 3 (P06996) X-RAY DIFFRACTION mmCIF provides none of the parsed experimental conditions Resolution 2.99 Å R-free 0.282

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 TRFL_CAMDR
Isoform
PDB entities 2
Chains and sequence ranges Author chain S; PDBConstruct 1–45; UniProt 20–64 Author chain X; PDBConstruct 1–45; UniProt 20–64

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 2j4u

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 2j4u
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2. Structure Basics 2. Structure Basics

Entry ID entry_id2j4u
Deposition date deposition_date2006-09-06
Structure title titleE.coli OmpC - camel Lactoferrin complex
Keywords keywords;MEMBRANE PROTEIN/HYDROLASE, MEMBRANE PROTEIN-HYDROLASE COMPLEX, IRON, OMPC, PORIN, COMPLEX, PROTEASE, HYDROLASE, MEMBRANE PROTEIN, ANTIACTERIAL PEPTIDE, ION TRANSPORT, IRON TRANSPORT, SERINE PROTEASE, TRANSPORT, LACTOFERRIN, GLYCOPROTEIN, METAL-BINDING ;; MEMBRANE PROTEIN/HYDROLASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier42.53
Radius of gyration Rg (electron density) rg_electron42.82
Forward intensity I(0) i0870959000.00
Molecular weight molecular_weight233460.0 kDa
Excluded volume excluded_volume287210 ų
Envelope volume envelope_volume404220 ų
Hydration-shell volume shell_volume77399 ų
Envelope diameter envelope_diameter129.6
Shell Rg shell_rg49.60
Envelope Rg envelope_rg41.26
Shape Rg shape_rg42.82
Total Rg total_rg43.11
Total atoms total_atoms16534
Residues n_residues2112
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 dmax133.9
Rg (real space) rg_real42.32
Rg uncertainty (real space) rg_real_error1.07
I(0) (real space) i0_real8.7100e+08
I(0) uncertainty (real space) i0_real_error1.4700e+07
Rg (reciprocal space) rg_reciprocal42.53
I(0) (reciprocal space) i0_reciprocal871200000.0000
Solution quality estimate total_estimate0.8987
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary57.9
Skewness Skewness skewness0.106
Kurtosis Kurtosis kurtosis-0.562
Angular range angular_range— – 0.1850 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha148200000.0000
Real-space data points n_real_points38
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.922; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.980; Smooth: 0.932

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (2)

7. Fold Classification (SCOP + CATH) 12 domains

SCOP 2.08 (6 domains)

Domain ID domain_idd2j4up_
Class classf — Membrane and cell surface proteins and peptides
Fold Fold foldf.4 — Transmembrane beta-barrels
Superfamily Superfamily superfamilyf.4.3 — Porins
Family Family familyf.4.3.1 — Porin
Domain ID domain_idd2j4uq_
Class classf — Membrane and cell surface proteins and peptides
Fold Fold foldf.4 — Transmembrane beta-barrels
Superfamily Superfamily superfamilyf.4.3 — Porins
Family Family familyf.4.3.1 — Porin
Domain ID domain_idd2j4ur_
Class classf — Membrane and cell surface proteins and peptides
Fold Fold foldf.4 — Transmembrane beta-barrels
Superfamily Superfamily superfamilyf.4.3 — Porins
Family Family familyf.4.3.1 — Porin
Domain ID domain_idd2j4uu_
Class classf — Membrane and cell surface proteins and peptides
Fold Fold foldf.4 — Transmembrane beta-barrels
Superfamily Superfamily superfamilyf.4.3 — Porins
Family Family familyf.4.3.1 — Porin
Domain ID domain_idd2j4uv_
Class classf — Membrane and cell surface proteins and peptides
Fold Fold foldf.4 — Transmembrane beta-barrels
Superfamily Superfamily superfamilyf.4.3 — Porins
Family Family familyf.4.3.1 — Porin
Domain ID domain_idd2j4uw_
Class classf — Membrane and cell surface proteins and peptides
Fold Fold foldf.4 — Transmembrane beta-barrels
Superfamily Superfamily superfamilyf.4.3 — Porins
Family Family familyf.4.3.1 — Porin

CATH v4.4 (6 domains)

Domain ID domain_id2j4uP00
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology160 — Porin
Homologous superfamily homologous superfamily10 — Porin
Domain ID domain_id2j4uQ00
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology160 — Porin
Homologous superfamily homologous superfamily10 — Porin
Domain ID domain_id2j4uR00
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology160 — Porin
Homologous superfamily homologous superfamily10 — Porin
Domain ID domain_id2j4uU00
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology160 — Porin
Homologous superfamily homologous superfamily10 — Porin
Domain ID domain_id2j4uV00
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology160 — Porin
Homologous superfamily homologous superfamily10 — Porin
Domain ID domain_id2j4uW00
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology160 — Porin
Homologous superfamily homologous superfamily10 — Porin

8. Citations (1)

9. Files and Curves (10)