SAXSdb — 21dh

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

;Maltose/maltodextrin-binding periplasmic protein,Monobody P' ;

synthetic construct

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Other combination	Monomer	Protein 1 其他Polymer 1	alpha-D-glucopyranose-(1-4)-beta-D-glucopyranose × 1 1-(4-hydroxyphenyl)-3-phenyl-urea × 1 water × 1	Consistent with protein count
2	Other combination	Monomer	Protein 1 其他Polymer 1	alpha-D-glucopyranose-(1-4)-beta-D-glucopyranose × 1 1-(4-hydroxyphenyl)-3-phenyl-urea × 1 water × 1	Consistent with protein count
3	Other combination	Monomer	Protein 1 其他Polymer 1	alpha-D-glucopyranose-(1-4)-beta-D-glucopyranose × 1 1-(4-hydroxyphenyl)-3-phenyl-urea × 1 water × 1	Consistent with protein count
4	Other combination	Monomer	Protein 1 其他Polymer 1	alpha-D-glucopyranose-(1-4)-beta-D-glucopyranose × 1 1-(4-hydroxyphenyl)-3-phenyl-urea × 1 water × 1	Consistent with protein count
5	Other combination	Monomer	Protein 1 其他Polymer 1	alpha-D-glucopyranose-(1-4)-beta-D-glucopyranose × 1 1-(4-hydroxyphenyl)-3-phenyl-urea × 1 water × 1	Consistent with protein count
6	Other combination	Monomer	Protein 1 其他Polymer 1	alpha-D-glucopyranose-(1-4)-beta-D-glucopyranose × 1 1-(4-hydroxyphenyl)-3-phenyl-urea × 1 water × 1	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	MALE_ECOLI
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 17–378； UniProt 31–392 Author chain B； PDBConstruct 17–378； UniProt 31–392 Author chain C； PDBConstruct 17–378； UniProt 31–392 Author chain D； PDBConstruct 17–378； UniProt 31–392 Author chain E； PDBConstruct 17–378； UniProt 31–392 Author chain F； PDBConstruct 17–378； UniProt 31–392

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	21dh
Deposition date deposition_date	2025-12-09
Last revision last_revision	2026-03-18
Structure title title	Crystal structure of MBP-fused Monobody P' in complex with HPPU
Keywords keywords	engineered binding protein, fibronectin type III domain, ligand-binding complex, beta-sandwich fold, CELL ADHESION; CELL ADHESION
Experimental Method method	X-RAY DIFFRACTION

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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.

21dh__assembly_2__model_1

Assembly 2 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

21dh__assembly_2__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

21dh__assembly_2__model_1 | P(r) · Pending

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

Rg（Guinier）	24.50 Å
Rg (electron density)	23.46 Å
Total Rg	24.45 Å
Atom count	3648
Residues	464
Excluded volume	65042 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`21dh__assembly_1__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`21dh__assembly_2__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
3	1	`21dh__assembly_3__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
4	1	`21dh__assembly_4__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
5	1	`21dh__assembly_5__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
6	1	`21dh__assembly_6__model_1`	monomeric （1）	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 (4)

Entity 1 Entity 1 polymer

Description description	;Maltose/maltodextrin-binding periplasmic protein,Monobody P' ;
Molecular weight formula_weight	53901.5 kDa
Mutation mutation	A324V
Source method src_method	man
Copy count entity_count	6

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D,E,F
Atom count atom_count	22042

MGSMHHHHHHHHKIEEGKLVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNGKLIAYPIAVEALSLIYNKDLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSKVNYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEAVNKDKPLGAVALKSYEEELVKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDEALKDAQTASNAAATGSLEVVEASPTSIQISWDAYADRHMDYQDVRYYRITYGETGGNSPVQEFTVPGSKSTATISGLKPGVDYTITVYAVTWWGSYKWWVPPISINYRTEIDKPSQ

Source Source

Source organism organism	synthetic construct
NCBI taxonomy ID ncbi_taxonomy_id	32630
Host organism host_organism	Escherichia coli BL21(DE3)

Entity 2 Entity 2 branched

Description description	alpha-D-glucopyranose-(1-4)-beta-D-glucopyranose
Molecular weight formula_weight	342.3 kDa
Source method src_method	man
Copy count entity_count	6

Entity 3 Entity 3 non-polymer

Description description	1-(4-hydroxyphenyl)-3-phenyl-urea
Molecular weight formula_weight	228.2 kDa
Source method src_method	syn
Copy count entity_count	6

Entity 4 Entity 4 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	198

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Unit-cell length a length_a	99.159 Å
Unit-cell length b length_b	170.581 Å
Unit-cell length c length_c	422.181 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	48

Space group space_group	C 2 2 21
Space-group number int_tables_number	20
Crystal system crystal_system	—

Resolution resolution	2.570 Å
Low-resolution limit resolution_low	49.330 Å
R factor r_factor	0.2150
R_work r_work	0.2133
R_free r_free	0.2473

Crystal structure of MBP-fused Monobody P' in complex with HPPU

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

;Maltose/maltodextrin-binding periplasmic protein,Monobody P' ;

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

21dh__assembly_2__model_1

21dh__assembly_2__model_1 | I(q)

21dh__assembly_2__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 branched

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 water

7. Citations (2)

Crystal structure of MBP-fused Monobody P' in complex with HPPU

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

;Maltose/maltodextrin-binding periplasmic protein,Monobody P' ;

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

21dh__assembly_2__model_1

21dh__assembly_2__model_1 | I(q)

21dh__assembly_2__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 branched

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 water

7. Citations (2)