← Back to search
6zfh

Structure of human galactokinase in complex with galactose and 2'-(benzo[d]oxazol-2-ylamino)-7',8'-dihydro-1'H-spiro[cyclopentane-1,4'-quinazolin]-5'(6'H)-one

Method: X-RAY DIFFRACTION
▼

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

Galactokinase

Homo sapiens

UniProt P51570

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein monomer Monomer Protein 1 beta-D-galactopyranose × 1 2-(1,3-benzoxazol-2-ylamino)spiro[1,6,7,8-tetrahydroquinazoline-4,1'-cyclopentane]-5-one × 1 water × 1 Consistent with protein count
2 Protein monomer Monomer Protein 1 beta-D-galactopyranose × 1 2-(1,3-benzoxazol-2-ylamino)spiro[1,6,7,8-tetrahydroquinazoline-4,1'-cyclopentane]-5-one × 1 water × 1 Consistent with protein count
3 Protein monomer Monomer Protein 1 beta-D-galactopyranose × 1 2-(1,3-benzoxazol-2-ylamino)spiro[1,6,7,8-tetrahydroquinazoline-4,1'-cyclopentane]-5-one × 1 water × 1 Consistent with protein count
4 Protein monomer Monomer Protein 1 beta-D-galactopyranose × 1 2-(1,3-benzoxazol-2-ylamino)spiro[1,6,7,8-tetrahydroquinazoline-4,1'-cyclopentane]-5-one × 1 water × 1 Consistent with protein count
5 Protein monomer Monomer Protein 1 beta-D-galactopyranose × 1 2-(1,3-benzoxazol-2-ylamino)spiro[1,6,7,8-tetrahydroquinazoline-4,1'-cyclopentane]-5-one × 1 water × 1 Consistent with protein count
6 Protein monomer Monomer Protein 1 beta-D-galactopyranose × 1 2-(1,3-benzoxazol-2-ylamino)spiro[1,6,7,8-tetrahydroquinazoline-4,1'-cyclopentane]-5-one × 1 water × 1 Consistent with protein count
7 Protein monomer Monomer Protein 1 beta-D-galactopyranose × 1 2-(1,3-benzoxazol-2-ylamino)spiro[1,6,7,8-tetrahydroquinazoline-4,1'-cyclopentane]-5-one × 1 water × 1 Consistent with protein count
8 Protein monomer Monomer Protein 1 beta-D-galactopyranose × 1 water × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
6q3w 6q3w 6q3w 6q3w 6q3x 6q3x 6q8z 6q8z 6q8z 6q8z 6q90 6q90

58 assemblies; showing the first 12

Homodimer
1wuu 1wuu 6gr2 6gr2 6gr2 6gr2 7rcl 7rcl 7rcm 7s49 7s4c

11 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex

None

View Construct and Data Evidence
UniProt name GALK1_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 9–399； UniProt 2–392 Author chain B； PDBConstruct 9–399； UniProt 2–392 Author chain C； PDBConstruct 9–399； UniProt 2–392 Author chain D； PDBConstruct 9–399； UniProt 2–392 Author chain E； PDBConstruct 9–399； UniProt 2–392 Author chain F； PDBConstruct 9–399； UniProt 2–392 Author chain G； PDBConstruct 9–399； UniProt 2–392 Author chain H； PDBConstruct 9–399； UniProt 2–392

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.

▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id6zfh
Deposition date deposition_date2020-06-17
Structure title titleStructure of human galactokinase in complex with galactose and 2'-(benzo[d]oxazol-2-ylamino)-7',8'-dihydro-1'H-spiro[cyclopentane-1,4'-quinazolin]-5'(6'H)-one
Keywords keywordsGHMP Kinase, Galactose metabolism, Inhibitor, Structural Genomics, Structural Genomics Consortium, SGC, TRANSFERASE; TRANSFERASE
Experimental Method methodX-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.

6zfh__assembly_1__model_1

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

Download this curve (.dat)

6zfh__assembly_1__model_1 | I(q)

10-2 10-1 105 106 107 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

6zfh__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）21.80 Å
Rg (electron density)20.90 Å
Total Rg21.67 Å
Atom count2891
Residues386
Excluded volume51217 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 6zfh__assembly_1__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 6zfh__assembly_2__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 6zfh__assembly_3__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 6zfh__assembly_4__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
5 1 6zfh__assembly_5__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
6 1 6zfh__assembly_6__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
7 1 6zfh__assembly_7__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
8 1 6zfh__assembly_8__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (4)

▼

6. Fold Classification (SCOP + CATH) 17 domains

SCOP 2.08 (17 domains)

Domain ID domain_idd6zfha1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.14 — Ribosomal protein S5 domain 2-like
Superfamily Superfamily superfamilyd.14.1 — Ribosomal protein S5 domain 2-like
Family Family familyd.14.1.5 — GHMP Kinase, N-terminal domain
Domain ID domain_idd6zfha2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.26 — GHMP Kinase, C-terminal domain
Family Family familyd.58.26.7 — Galactokinase
Domain ID domain_idd6zfhb1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.14 — Ribosomal protein S5 domain 2-like
Superfamily Superfamily superfamilyd.14.1 — Ribosomal protein S5 domain 2-like
Family Family familyd.14.1.5 — GHMP Kinase, N-terminal domain
Domain ID domain_idd6zfhb2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.26 — GHMP Kinase, C-terminal domain
Family Family familyd.58.26.7 — Galactokinase
Domain ID domain_idd6zfhc1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.14 — Ribosomal protein S5 domain 2-like
Superfamily Superfamily superfamilyd.14.1 — Ribosomal protein S5 domain 2-like
Family Family familyd.14.1.5 — GHMP Kinase, N-terminal domain
Domain ID domain_idd6zfhc2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.26 — GHMP Kinase, C-terminal domain
Family Family familyd.58.26.7 — Galactokinase
Domain ID domain_idd6zfhc3
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags
Domain ID domain_idd6zfhd1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.14 — Ribosomal protein S5 domain 2-like
Superfamily Superfamily superfamilyd.14.1 — Ribosomal protein S5 domain 2-like
Family Family familyd.14.1.5 — GHMP Kinase, N-terminal domain
Domain ID domain_idd6zfhd2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.26 — GHMP Kinase, C-terminal domain
Family Family familyd.58.26.7 — Galactokinase
Domain ID domain_idd6zfhe1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.14 — Ribosomal protein S5 domain 2-like
Superfamily Superfamily superfamilyd.14.1 — Ribosomal protein S5 domain 2-like
Family Family familyd.14.1.5 — GHMP Kinase, N-terminal domain
Domain ID domain_idd6zfhe2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.26 — GHMP Kinase, C-terminal domain
Family Family familyd.58.26.7 — Galactokinase
Domain ID domain_idd6zfhf1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.14 — Ribosomal protein S5 domain 2-like
Superfamily Superfamily superfamilyd.14.1 — Ribosomal protein S5 domain 2-like
Family Family familyd.14.1.5 — GHMP Kinase, N-terminal domain
Domain ID domain_idd6zfhf2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.26 — GHMP Kinase, C-terminal domain
Family Family familyd.58.26.7 — Galactokinase
Domain ID domain_idd6zfhg1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.14 — Ribosomal protein S5 domain 2-like
Superfamily Superfamily superfamilyd.14.1 — Ribosomal protein S5 domain 2-like
Family Family familyd.14.1.5 — GHMP Kinase, N-terminal domain
Domain ID domain_idd6zfhg2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.26 — GHMP Kinase, C-terminal domain
Family Family familyd.58.26.7 — Galactokinase
Domain ID domain_idd6zfhh1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.14 — Ribosomal protein S5 domain 2-like
Superfamily Superfamily superfamilyd.14.1 — Ribosomal protein S5 domain 2-like
Family Family familyd.14.1.5 — GHMP Kinase, N-terminal domain
Domain ID domain_idd6zfhh2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.26 — GHMP Kinase, C-terminal domain
Family Family familyd.58.26.7 — Galactokinase
▶

7. Citations (1)