SAXSdb — 1mc8

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

Flap Endonuclease-1

Pyrococcus horikoshii

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 2	No other associated polymer	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	FEN_PYRHO
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–343； UniProt 1–343 Author chain B； PDBConstruct 1–343； UniProt 1–343

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	1mc8
Deposition date deposition_date	2002-08-06
Structure title title	Crystal Structure of Flap Endonuclease-1 R42E mutant from Pyrococcus horikoshii
Keywords keywords	flexible loop, HYDROLASE; HYDROLASE
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.

1mc8__assembly_1__model_1

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

Download this curve (.dat)

1mc8__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

1mc8__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	28.47 Å
Rg (electron density)	27.44 Å
Total Rg	28.34 Å
Atom count	5274
Residues	662
Excluded volume	94947 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`1mc8__assembly_1__model_1`	dimeric （2）	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 (1)

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6. Fold Classification (SCOP + CATH) 8 domains

SCOP 2.08 (4 domains)

Domain ID domain_id	d1mc8a1
Class class	a — All alpha proteins
Fold Fold fold	a.60 — SAM domain-like
Superfamily Superfamily superfamily	a.60.7 — 5' to 3' exonuclease, C-terminal subdomain
Family Family family	a.60.7.1 — 5' to 3' exonuclease, C-terminal subdomain

Domain ID domain_id	d1mc8a2
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.120 — PIN domain-like
Superfamily Superfamily superfamily	c.120.1 — PIN domain-like
Family Family family	c.120.1.2 — 5' to 3' exonuclease catalytic domain

Domain ID domain_id	d1mc8b1
Class class	a — All alpha proteins
Fold Fold fold	a.60 — SAM domain-like
Superfamily Superfamily superfamily	a.60.7 — 5' to 3' exonuclease, C-terminal subdomain
Family Family family	a.60.7.1 — 5' to 3' exonuclease, C-terminal subdomain

Domain ID domain_id	d1mc8b2
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.120 — PIN domain-like
Superfamily Superfamily superfamily	c.120.1 — PIN domain-like
Family Family family	c.120.1.2 — 5' to 3' exonuclease catalytic domain

CATH v4.4 (4 domains)

Domain ID domain_id	1mc8A01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	1010 — 5'-nuclease

Domain ID domain_id	1mc8A02
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	150 — DNA polymerase; domain 1
Homologous superfamily homologous superfamily	20 — 5' to 3' exonuclease, C-terminal subdomain

Domain ID domain_id	1mc8B01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	1010 — 5'-nuclease

Domain ID domain_id	1mc8B02
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	150 — DNA polymerase; domain 1
Homologous superfamily homologous superfamily	20 — 5' to 3' exonuclease, C-terminal subdomain

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Unit-cell length a length_a	62.670 Å
Unit-cell length b length_b	62.670 Å
Unit-cell length c length_c	180.690 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	120.00 °
Molecules per unit cell Z z_pdb	6

Space group space_group	P 31
Space-group number int_tables_number	144
Crystal system crystal_system	—

Resolution resolution	3.100 Å
Low-resolution limit resolution_low	8.000 Å
R factor r_factor	0.1970
R_work r_work	0.1900
R_free r_free	0.2790

Description description	Flap Endonuclease-1
Molecular weight formula_weight	38980.1 kDa
Mutation mutation	R42E
Source method src_method	man
Copy count entity_count	2

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B
Atom count atom_count	5274

Crystal Structure of Flap Endonuclease-1 R42E mutant from Pyrococcus horikoshii

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

Flap Endonuclease-1

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

1mc8__assembly_1__model_1

1mc8__assembly_1__model_1 | I(q)

1mc8__assembly_1__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 (1)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

6. Fold Classification (SCOP + CATH) 8 domains

SCOP 2.08 (4 domains)

CATH v4.4 (4 domains)

7. Citations (1)

Source organism organism	Pyrococcus horikoshii
NCBI taxonomy ID ncbi_taxonomy_id	53953
Host organism host_organism	Escherichia coli

Crystal Structure of Flap Endonuclease-1 R42E mutant from Pyrococcus horikoshii

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

Flap Endonuclease-1

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

1mc8__assembly_1__model_1

1mc8__assembly_1__model_1 | I(q)

1mc8__assembly_1__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 (1)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

6. Fold Classification (SCOP + CATH) 8 domains

SCOP 2.08 (4 domains)

CATH v4.4 (4 domains)

7. Citations (1)