SAXSdb — 1z1z

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

Minor tail protein U

Enterobacteria phage lambda

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 1–131	Not recorded	No other associated polymer	SOLUTION NMR NMR measurement conditions：pH 7.8；293 K；Ionic strength (raw mmCIF value) 50 mM KCl；Pressure 1 NMR sample composition：0.9 mM gpU, U-15N,13C, 10 mM Tris-d11, pH 7.8, 50 mM potassium chloride, 0.02% sodium azide, 10% D2O, 90% H2O \| 10% D2O, 90% H2O	Resolution not provided

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.

Other PDB	Difference from Current Entry 1Z1Z	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
3FZ2 Crystal structure of the tail terminator protein from phage lambda (gpU-D74A) Deposited 2009-01-23	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric	Chain A 1–131（131 aa） Chain B 1–131（131 aa） Chain E 1–131（131 aa） Chain F 1–131（131 aa） Chain I 1–131（131 aa） Chain K 1–131（131 aa）	Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF)	SO4 SULFATE ION × 7	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；298 K；0.2M Di-ammonium tartrate, 2.2M Ammonium sulfate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K	Resolution 2.70 Å R-free 0.283
3FZ2 Crystal structure of the tail terminator protein from phage lambda (gpU-D74A) Deposited 2009-01-23	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 2 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric	Chain C 1–131（131 aa） Chain D 1–131（131 aa） Chain G 1–131（131 aa） Chain H 1–131（131 aa） Chain J 1–131（131 aa） Chain L 1–131（131 aa）	Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF)	SO4 SULFATE ION × 6	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；298 K；0.2M Di-ammonium tartrate, 2.2M Ammonium sulfate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K	Resolution 2.70 Å R-free 0.283
3FZ2 Crystal structure of the tail terminator protein from phage lambda (gpU-D74A) Deposited 2009-01-23	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 3 Protein homooligomer Homooligomer；Protein × 12 PDB declaration: dodecameric	Chain A 1–131（131 aa） Chain B 1–131（131 aa） Chain C 1–131（131 aa） Chain D 1–131（131 aa） Chain E 1–131（131 aa） Chain F 1–131（131 aa） Chain G 1–131（131 aa） Chain H 1–131（131 aa） Chain I 1–131（131 aa） Chain J 1–131（131 aa） Chain K 1–131（131 aa） Chain L 1–131（131 aa）	Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF) Mutation：D74A Non-standard monomer：Yes (specific site not provided by mmCIF)	SO4 SULFATE ION × 13	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；298 K；0.2M Di-ammonium tartrate, 2.2M Ammonium sulfate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K	Resolution 2.70 Å R-free 0.283
3FZB Crystal structure of the tail terminator protein from phage lambda (gpU-WT) Deposited 2009-01-24	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 5 PDB declaration: pentameric	Chain A 1–131（131 aa） Chain B 1–131（131 aa） Chain F 1–131（131 aa） Chain H 1–131（131 aa） Chain I 1–131（131 aa）	Not recorded	SO4 SULFATE ION × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；298 K；0.2M Tri-sodium citrate, 2.2M Ammonium sulfate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K	Resolution 2.80 Å R-free 0.309
3FZB Crystal structure of the tail terminator protein from phage lambda (gpU-WT) Deposited 2009-01-24	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 2 Protein homooligomer Homooligomer；Protein × 5 PDB declaration: pentameric	Chain C 1–131（131 aa） Chain D 1–131（131 aa） Chain E 1–131（131 aa） Chain G 1–131（131 aa） Chain J 1–131（131 aa）	Not recorded	SO4 SULFATE ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；298 K；0.2M Tri-sodium citrate, 2.2M Ammonium sulfate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K	Resolution 2.80 Å R-free 0.309
8IYD Tail cap of phage lambda tail Deposited 2023-04-04	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 30 PDB declaration: 30-meric	Chain G 1–131（131 aa） Chain K 1–131（131 aa） Chain Q 1–131（131 aa） Chain U 1–131（131 aa） Chain W 1–131（131 aa） Chain u 1–131（131 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen NITROGEN	Resolution 3.10 Å
8K37 Structure of the bacteriophage lambda neck Deposited 2023-07-14	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 18 PDB declaration: octadecameric	Chain A 1–131（131 aa） Chain B 1–131（131 aa） Chain C 1–131（131 aa） Chain D 1–131（131 aa） Chain E 1–131（131 aa） Chain F 1–131（131 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.50 Å
8XOW Mature virion portal of bacteriophage lambda Deposited 2024-01-02	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 36 PDB declaration: 36-meric	Chain U 1–131（131 aa） Chain U1 1–131（131 aa） Chain U2 1–131（131 aa） Chain U3 1–131（131 aa） Chain U4 1–131（131 aa） Chain U5 1–131（131 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7 cryo-EM vitrification conditions Cryogen NITROGEN	Resolution 3.32 Å
8XPM Mature virion portal of phage lambda with DNA Deposited 2024-01-04	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein–DNA Heteromer；Protein × 66 PDB declaration: 68-meric	Chain U 1–131（131 aa） Chain U1 1–131（131 aa） Chain U2 1–131（131 aa） Chain U3 1–131（131 aa） Chain U4 1–131（131 aa） Chain U5 1–131（131 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7 cryo-EM vitrification conditions Cryogen NITROGEN	Resolution 3.90 Å
8XQB Mature virion portal vertex of bacteriophage lambda Deposited 2024-01-05	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 71 PDB declaration: 71-meric	Chain U 1–131（131 aa） Chain U1 1–131（131 aa） Chain U2 1–131（131 aa） Chain U3 1–131（131 aa） Chain U4 1–131（131 aa） Chain U5 1–131（131 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7 cryo-EM vitrification conditions Cryogen NITROGEN	Resolution 4.07 Å

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

View Construct and Data Evidence

UniProt name	VMTU_LAMBD
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–131； UniProt 1–131

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.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	1z1z
Deposition date deposition_date	2005-03-07
Structure title title	NMR structure of the gpu tail protein from lambda bacteriophage
Keywords keywords	mixed alpha-beta, tail protein, bacteriophage, VIRAL PROTEIN; VIRAL PROTEIN
Experimental Method method	SOLUTION NMR

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

Radius of gyration Rg (Guinier) rg_guinier	15.87 Å
Radius of gyration Rg (electron density) rg_electron	14.64 Å
Forward intensity I(0) i0	4132300.00
Molecular weight molecular_weight	14350.0 kDa
Excluded volume excluded_volume	17837 Å³
Envelope volume envelope_volume	20784 Å³
Hydration-shell volume shell_volume	12313 Å³
Envelope diameter envelope_diameter	51.8 Å
Shell Rg shell_rg	20.13 Å
Envelope Rg envelope_rg	14.92 Å
Shape Rg shape_rg	14.65 Å
Total Rg total_rg	15.71 Å
Total atoms total_atoms	1956
Residues n_residues	129
Spherical-harmonic order n_harmonics	20
q range q_range	— – 0.5000 Å⁻¹
Data points n_points	101
Shell type shell_type	directional
Solvent electron density solvent_density	0.3340 e/Å³
Shell contrast contrast_shell	0.0300 e/Å³
CRYSOL version crysol_version	4.1.3

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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax	52.7 Å
Rg (real space) rg_real	15.80 Å
Rg uncertainty (real space) rg_real_error	0.24 Å
I(0) (real space) i0_real	4.1320e+06
I(0) uncertainty (real space) i0_real_error	4.4740e+04
Rg (reciprocal space) rg_reciprocal	15.81 Å
I(0) (reciprocal space) i0_reciprocal	4132000.0000
Solution quality estimate total_estimate	0.8827
Solution quality rating solution_quality	GOOD a GOOD solution
P(r) peaks n_peaks	1
Primary peak position r_peak_primary	51.4 Å
Skewness Skewness skewness	0.231
Kurtosis Kurtosis kurtosis	-0.304
Angular range angular_range	— – 0.5000 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	789800.0000
Real-space data points n_real_points	80
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.826; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.996; Smooth: 0.997

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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (1)

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7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

Domain ID domain_id	d1z1za1
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.323 — Phage tail protein-like
Superfamily Superfamily superfamily	d.323.1 — Phage tail protein-like
Family Family family	d.323.1.1 — Lambda phage gpU-like

CATH v4.4 (1 domains)

Domain ID domain_id	1z1zA00
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily	1700 — Phage minor tail protein U

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8. Citations (2)

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Description description	Minor tail protein U
Molecular weight formula_weight	14659.1 kDa
Source method src_method	man
Copy count entity_count	1

Polymer type type	polypeptide(L)
Chain IDs strand_id	A
Atom count atom_count	1956

来源生物 organism	Enterobacteria phage lambda
NCBI Class编号 ncbi_taxonomy_id	10710
宿主生物 host_organism	Escherichia coli BL21(DE3)

fit	/app/data/saxs_computation/z1/1z1z/1z1z.fit
pddf	/app/data/pr_computation/z1/1z1z/1z1z.pr.out
profile	/app/data/saxs_computation/z1/1z1z/1z1z.dat

NMR structure of the gpu tail protein from lambda bacteriophage

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

Minor tail protein U

State in the Current Structure

Other States of the Same Protein in the Database

SAXS scattering curve SAXS Profile

P(r) Distance Distribution P(r) Distribution

2. Structure Basics 2. Structure Basics

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

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (1)

Entity 1 Entity 1 polymer

Polymer Polymer

来源 Source

7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

CATH v4.4 (1 domains)

8. Citations (2)

9. Files and Curves (10)

Files (7)

Curves (3)