SAXSdb — 3grf

▼

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

Ornithine carbamoyltransferase

Giardia intestinalis

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 3	NICKEL (II) ION × 3 water × 3	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	O76458_GIALA
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 2–328； UniProt 1–327

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.

▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id	3grf
Deposition date deposition_date	2009-03-25
Structure title title	X-ray Structure of Ornithine Transcarbamoylase from Giardia lamblia
Keywords keywords	;Ornithine transcarbamoylase, ornithine carbamoyltransferase, arginine degradation pathway, Giardia lamblia, drug target, Transferase ;; TRANSFERASE
Experimental Method method	X-RAY DIFFRACTION

▼

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.

3grf__assembly_1__model_1

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

Download this curve (.dat)

3grf__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

3grf__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	31.94 Å
Rg (electron density)	31.29 Å
Total Rg	31.82 Å
Atom count	7081
Residues	912
Excluded volume	126740 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`3grf__assembly_1__model_1`	trimeric （3）	Success	4.1.3-1-20251215 (887e7ef)	View Download

▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Description description	Ornithine carbamoyltransferase
Molecular weight formula_weight	36545.3 kDa
EC 编号 ec_number	2.1.3.3
Source method src_method	man
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A
Atom count atom_count	2628

GMPFKQTRHLLTISALCPKELAYLIDRALDMKKNPAKYTARAANKTLLAFFAKPSLRTRVSLETAMTRLGGHAIYYELGANSNVGGKETVQDTAEVFSRMVDICTARLATKEMMREMAQHASVPCINALDDFGHPLQMVCDFMTIKEKFTAAGEFSNGFKGIKFAYCGDSMNNVTYDLMRGCALLGMECHVCCPDHKDFKPIKEVIDECEEIIAKHGTGGSIKIFHDCKKGCEGVDVVYTDSWMSYHITKEQKEARLKVLTPFQVDDAVMAVTSKRSIFMNCLPATRGEEQTASVIDGPKSVCYDEAGNRLHSAMAVLDFFLHDCKME

Source Source

Source organism organism	Giardia intestinalis
Common name common_name	Giardia intestinalis
NCBI taxonomy ID ncbi_taxonomy_id	5741
Host organism host_organism	Escherichia coli

Entity 2 Entity 2 non-polymer

Description description	NICKEL (II) ION
Molecular weight formula_weight	58.7 kDa
Source method src_method	syn
Copy count entity_count	1

Entity 3 Entity 3 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	267

▼

6. Fold Classification (SCOP + CATH) 4 domains

SCOP 2.08 (2 domains)

Domain ID domain_id	d3grfa1
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.78 — ATC-like
Superfamily Superfamily superfamily	c.78.1 — Aspartate/ornithine carbamoyltransferase
Family Family family	c.78.1.0 — automated matches

Domain ID domain_id	d3grfa2
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.78 — ATC-like
Superfamily Superfamily superfamily	c.78.1 — Aspartate/ornithine carbamoyltransferase
Family Family family	c.78.1.0 — automated matches

CATH v4.4 (2 domains)

Domain ID domain_id	3grfA01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	1370 — Aspartate/ornithine carbamoyltransferase

Domain ID domain_id	3grfA02
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	1370 — Aspartate/ornithine carbamoyltransferase

▶

Unit-cell length a length_a	95.490 Å
Unit-cell length b length_b	95.490 Å
Unit-cell length c length_c	56.960 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 63
Space-group number int_tables_number	173
Crystal system crystal_system	—

Resolution resolution	2.000 Å
Low-resolution limit resolution_low	20.000 Å
R factor r_factor	—
R_work r_work	0.1970
R_free r_free	0.2550

X-ray Structure of Ornithine Transcarbamoylase from Giardia lamblia

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

Ornithine carbamoyltransferase

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

3grf__assembly_1__model_1

3grf__assembly_1__model_1 | I(q)

3grf__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 (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 water

6. Fold Classification (SCOP + CATH) 4 domains

SCOP 2.08 (2 domains)

CATH v4.4 (2 domains)

7. Citations (1)

X-ray Structure of Ornithine Transcarbamoylase from Giardia lamblia

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

Ornithine carbamoyltransferase

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

3grf__assembly_1__model_1

3grf__assembly_1__model_1 | I(q)

3grf__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 (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 water

6. Fold Classification (SCOP + CATH) 4 domains

SCOP 2.08 (2 domains)

CATH v4.4 (2 domains)

7. Citations (1)