SAXSdb — 9zdw

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

gp80 portal protein

OrganismNot specified

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 36	gp75 tail tube × 12 （A0A2K8I3N9） gp83 head-to-tail × 12 （A0A2K8I0C0）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	A0A2K8IC08_9CAUD
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain PA； PDBConstruct 1–726； UniProt 1–726 Author chain PB； PDBConstruct 1–726； UniProt 1–726 Author chain PC； PDBConstruct 1–726； UniProt 1–726 Author chain PD； PDBConstruct 1–726； UniProt 1–726 Author chain PE； PDBConstruct 1–726； UniProt 1–726 Author chain PF； PDBConstruct 1–726； UniProt 1–726 Author chain PG； PDBConstruct 1–726； UniProt 1–726 Author chain PH； PDBConstruct 1–726； UniProt 1–726 Author chain PI； PDBConstruct 1–726； UniProt 1–726 Author chain PJ； PDBConstruct 1–726； UniProt 1–726 Author chain PK； PDBConstruct 1–726； UniProt 1–726 Author chain PL； PDBConstruct 1–726； UniProt 1–726

gp75 tail tube

OrganismNot specified

UniProt A0A2K8I3N9

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 36	gp80 portal protein × 12 （A0A2K8IC08） gp83 head-to-tail × 12 （A0A2K8I0C0）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	A0A2K8I3N9_9CAUD
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain TA； PDBConstruct 1–321； UniProt 1–321 Author chain TB； PDBConstruct 1–321； UniProt 1–321 Author chain TC； PDBConstruct 1–321； UniProt 1–321 Author chain TD； PDBConstruct 1–321； UniProt 1–321 Author chain TE； PDBConstruct 1–321； UniProt 1–321 Author chain TF； PDBConstruct 1–321； UniProt 1–321 Author chain TG； PDBConstruct 1–321； UniProt 1–321 Author chain TH； PDBConstruct 1–321； UniProt 1–321 Author chain TI； PDBConstruct 1–321； UniProt 1–321 Author chain TJ； PDBConstruct 1–321； UniProt 1–321 Author chain TK； PDBConstruct 1–321； UniProt 1–321 Author chain TL； PDBConstruct 1–321； UniProt 1–321

gp83 head-to-tail

OrganismNot specified

UniProt A0A2K8I0C0

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 36	gp80 portal protein × 12 （A0A2K8IC08） gp75 tail tube × 12 （A0A2K8I3N9）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	A0A2K8I0C0_9CAUD
Isoform	—
PDB entities	3
Chains and sequence ranges	Author chain AA； PDBConstruct 1–244； UniProt 1–244 Author chain AB； PDBConstruct 1–244； UniProt 1–244 Author chain AC； PDBConstruct 1–244； UniProt 1–244 Author chain AD； PDBConstruct 1–244； UniProt 1–244 Author chain AE； PDBConstruct 1–244； UniProt 1–244 Author chain AF； PDBConstruct 1–244； UniProt 1–244 Author chain AG； PDBConstruct 1–244； UniProt 1–244 Author chain AH； PDBConstruct 1–244； UniProt 1–244 Author chain AI； PDBConstruct 1–244； UniProt 1–244 Author chain AJ； PDBConstruct 1–244； UniProt 1–244 Author chain AK； PDBConstruct 1–244； UniProt 1–244 Author chain AL； PDBConstruct 1–244； UniProt 1–244

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	9zdw
Deposition date deposition_date	2025-11-26
Structure title title	Pseudomonas phage DEV delta-gp53 mutant neck and tail (portal, head-to-tail and tail tube proteins)
Keywords keywords	bacteriophage, virus, VIRAL PROTEIN; VIRAL PROTEIN
Experimental Method method	ELECTRON MICROSCOPY

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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

9zdw__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

9zdw__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

9zdw__assembly_1__model_1 | P(r) · Pending

P(r) will be calculated and displayed separately for the same assembly/model.

Rg（Guinier）	84.61 Å
Rg (electron density)	84.69 Å
Total Rg	84.51 Å
Atom count	98304
Residues	12636
Excluded volume	1741000 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`9zdw__assembly_1__model_1`	36-meric （36）	Success	4.1.3-1-20251215 (887e7ef)	View Download

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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Description description	gp80 portal protein
Molecular weight formula_weight	81739.5 kDa
Source method src_method	nat
Copy count entity_count	12

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	PA,PB,PC,PD,PE,PF,PG,PH,PI,PJ,PK,PL
Atom count atom_count	98304

MADVDEDYLTLPNEDGDPSKRLQPEWSNAPSLAQLKQDYQEAKQVTDEKITQINRWLDYMHVRGEGKPKTEKGKSAVQPPTIRKQAEWRYSSLSEPFLSSPNIFEVNPVTWEDAESARQNGLVLNQQFNTKLNKQRFIDEYVRAGVDEGTIIVKVGWNYQSRTVKEQVVTYEMMPDSSEELAQIYQTAAQIREESPSEYPEIPEDVRLGLEETEANGIQVRAVPVGSEEEEREETVENHPTVQVCDYNNIVIDPSCGSDFSKAKFLIETFESSYAELKADGRYKNLDKIQVEGQNLLSEPDYTGPSEGVRNFDFQDKSRKRLVVHEYWGYYDIHGDGVLHPIVATWVGAVMIRMEENPFPDKKIPYVVVSYIPRKRDLYGESDGALLIDNQRIIGAVTRGMIDTMARSANGQVGVMKGALDVTNRRRFDRGENYEFNPGADPRAAVHMHTFPEIPQSAQYMINLQQAEAESMTGVKAFNAGISGAALGDTATAVRGALDAASKRELGILRRLSAGIIEIGRKIIAMNAEFLDDVEVVRITNEHFVDIRRDDLAGNFDLKLDISTAEEDNAKVNDLTFMLQTMGPNMDPMMAQQIMGQIMELKKMPDFAKRIREFQPQPDPIAQQKAQLELMLLQAQIEAERARAAHYMSGAGLQDSKVGTEQAKARALASQADMTDLNFLEQESGVQQARKRELQQAQSEAQGKLAMLNSQLKRLDEATSARTSQK

Entity 2 Entity 2 polymer

Description description	gp75 tail tube
Molecular weight formula_weight	35267.2 kDa
Source method src_method	nat
Copy count entity_count	12

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	TA,TB,TC,TD,TE,TF,TG,TH,TI,TJ,TK,TL

MAVEPITIADLTEVKLDGKGALDQLLQVTRLHLAKEHDAGRLKGQEYAAVLTGGITAVLQNAVMFLLQKDEAANKAALVEAQIKLTEKQGELLDKQIAQADKDAELIAAKVKLTLEQAKLPDSQIRSAGFQDLLVQEQTKVQTAQTRRIDQEILSAGFQDLLVKEQTAKTKQDVLTAVQQTKVMEQQVLESTQKVLNMKQELLNLVAQECLLKAQFDLTKDQGLNTQEQTILVRQKVASERAQTIGAGVDADSVIGRQKELYKAQADGFKRDAEQKAAKILIDTWNVRRTTDTGTQANTTNRLDDANVGRVVNMLMTGVGA

Entity 3 Entity 3 polymer

Description description	gp83 head-to-tail
Molecular weight formula_weight	27868.9 kDa
Source method src_method	nat
Copy count entity_count	12

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	AA,AB,AC,AD,AE,AF,AG,AH,AI,AJ,AK,AL

MTIQLKQVIDLLAEGELSNIKYVNIDTGALVLERVPSLIRAINLGVLDLHKRFLLKEGMLKIQLEEGRRLYPLRPAYQVGQKPKPGVPQFITEGNKLGRQSILKIEKIIGDNGVEYYLNDTWQPLNITTPEFDVLEISDEFYCHSSSKTLEVRYRRAPTPMKICVDNLDSWGCIDIDLPYTHLQALLYFVASRCQTPIGFMENTAQEGFNFSQKYEAECANLDAQNLRIDPVGNQDRFTRGGWV

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Unit-cell length a length_a	1.000 Å
Unit-cell length b length_b	1.000 Å
Unit-cell length c length_c	1.000 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	—

Space group space_group	P 1
Space-group number int_tables_number	1
Crystal system crystal_system	—

Resolution resolution	3.600 Å
Low-resolution limit resolution_low	— Å
R factor r_factor	—
R_work r_work	—
R_free r_free	—

Resolution resolution	3.60 Å
Resolution测定Method resolution_method	—
颗粒数 num_particles	64223

Pseudomonas phage DEV delta-gp53 mutant neck and tail (portal, head-to-tail and tail tube proteins)

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

gp80 portal protein

State in the Current Structure

Other States of the Same Protein in the Database

gp75 tail tube

State in the Current Structure

Other States of the Same Protein in the Database

gp83 head-to-tail

State in the Current Structure

Other States of the Same Protein in the Database

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

9zdw__assembly_1__model_1

9zdw__assembly_1__model_1 | I(q)

9zdw__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 polymer

Polymer Polymer

7. Citations (1)

Pseudomonas phage DEV delta-gp53 mutant neck and tail (portal, head-to-tail and tail tube proteins)

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

gp80 portal protein

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

gp75 tail tube

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

gp83 head-to-tail

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

9zdw__assembly_1__model_1

9zdw__assembly_1__model_1 | I(q)

9zdw__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 polymer

Polymer Polymer

7. Citations (1)