SAXSdb — 2e1c

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

Putative HTH-type transcriptional regulator PH1519

Pyrococcus horikoshii

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein–DNA	Homooligomer	Protein 2 DNA 2	;DNA (5'-D(DAPDGPDTPDGPDAPDAPDAPDAPDTPDTPDTPDTPDTPDCPDAPDCPDA)-3') ; × 1 ;DNA (5'-D(DTPDGPDTPDGPDAPDAPDAPDAPDAPDTPDTPDTPDTPDCPDAPDCPDT)-3') ; × 1 water × 4	Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	REG6_PYRHO
Isoform	—
PDB entities	3
Chains and sequence ranges	Author chain A； PDBConstruct 21–171； UniProt 1–151

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	2e1c
Deposition date deposition_date	2006-10-24
Structure title title	Structure of Putative HTH-type transcriptional regulator PH1519/DNA Complex
Keywords keywords	DNA-binding, transcriptional regulatory protein, archaeal, TRANSCRIPTION-DNA COMPLEX; TRANSCRIPTION/DNA
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.

2e1c__assembly_1__model_2

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

Download this curve (.dat)

2e1c__assembly_1__model_2 | I(q)

100 plotted points; both axes use logarithmic scales.

2e1c__assembly_1__model_2 | P(r) · Pending

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

Rg（Guinier）	25.70 Å
Rg (electron density)	24.11 Å
Total Rg	24.98 Å
Atom count	3001
Residues	328
Excluded volume	52214 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`2e1c__assembly_1__model_1`	tetrameric （4）	Success	4.1.3-1-20251215 (887e7ef)	View Download
1	2	`2e1c__assembly_1__model_2`	tetrameric （4）	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	;DNA (5'-D(DAPDGPDTPDGPDAPDAPDAPDAPDTPDTPDTPDTPDTPDCPDAPDCP*DA)-3') ;
Molecular weight formula_weight	5209.4 kDa
Source method src_method	syn
Copy count entity_count	1

Polymer Polymer

Polymer type type	polydeoxyribonucleotide
Chain IDs strand_id	B
Atom count atom_count	3958

AGTGAAAATTTTTCACA

Entity 2 Entity 2 polymer

Description description	;DNA (5'-D(DTPDGPDTPDGPDAPDAPDAPDAPDAPDTPDTPDTPDTPDCPDAPDCP*DT)-3') ;
Molecular weight formula_weight	5200.4 kDa
Source method src_method	syn
Copy count entity_count	1

Polymer Polymer

Polymer type type	polydeoxyribonucleotide
Chain IDs strand_id	D

TGTGAAAAATTTTCACT

Entity 3 Entity 3 polymer

Description description	Putative HTH-type transcriptional regulator PH1519
Molecular weight formula_weight	19151.2 kDa
Source method src_method	man
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A

MGSSHHHHHHSSGLVPRGSHMRVPLDEIDKKIIKILQNDGKAPLREISKITGLAESTIHERIRKLRESGVIKKFTAIIDPEALGYSMLAFILVKVKAGKYSEVASNLAKYPEIVEVYETTGDYDMVVKIRTKNSEELNNFLDLIGSIPGVEGTHTMIVLKTHKETTELPIK

Source Source

Source organism organism	Pyrococcus horikoshii
NCBI taxonomy ID ncbi_taxonomy_id	70601
Host organism host_organism	Escherichia coli BL21(DE3)

Entity 4 Entity 4 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	133

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6. Fold Classification (SCOP + CATH) 4 domains

SCOP 2.08 (2 domains)

Domain ID domain_id	d2e1ca1
Class class	a — All alpha proteins
Fold Fold fold	a.4 — DNA/RNA-binding 3-helical bundle
Superfamily Superfamily superfamily	a.4.5 — 'Winged helix' DNA-binding domain
Family Family family	a.4.5.32 — Lrp/AsnC-like transcriptional regulator N-terminal domain

Domain ID domain_id	d2e1ca2
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.58 — Ferredoxin-like
Superfamily Superfamily superfamily	d.58.4 — Dimeric alpha+beta barrel
Family Family family	d.58.4.2 — Lrp/AsnC-like transcriptional regulator C-terminal domain

CATH v4.4 (2 domains)

Domain ID domain_id	2e1cA01
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily	10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain

Domain ID domain_id	2e1cA02
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily	920 — Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain

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Unit-cell length a length_a	68.410 Å
Unit-cell length b length_b	92.350 Å
Unit-cell length c length_c	109.190 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	8

Space group space_group	I 21 21 21
Space-group number int_tables_number	24
Crystal system crystal_system	—

Resolution resolution	2.100 Å
Low-resolution limit resolution_low	55.000 Å
R factor r_factor	—
R_work r_work	0.2060
R_free r_free	0.2300

Structure of Putative HTH-type transcriptional regulator PH1519/DNA Complex

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

Putative HTH-type transcriptional regulator PH1519

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

2e1c__assembly_1__model_2

2e1c__assembly_1__model_2 | I(q)

2e1c__assembly_1__model_2 | 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

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 polymer

Polymer Polymer

Source Source

Entity 4 Entity 4 water

6. Fold Classification (SCOP + CATH) 4 domains

SCOP 2.08 (2 domains)

CATH v4.4 (2 domains)

7. Citations (1)

Structure of Putative HTH-type transcriptional regulator PH1519/DNA Complex

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

Putative HTH-type transcriptional regulator PH1519

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

2e1c__assembly_1__model_2

2e1c__assembly_1__model_2 | I(q)

2e1c__assembly_1__model_2 | 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

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 polymer

Polymer Polymer

Source Source

Entity 4 Entity 4 water

6. Fold Classification (SCOP + CATH) 4 domains

SCOP 2.08 (2 domains)

CATH v4.4 (2 domains)

7. Citations (1)