NCBI
National Center for
Biotechnology Information
Search
3A5V:
Crystal structure of alpha-galactosidase I from Mortierella vinacea
Citation is unavailable
PDB ID:
3A5V
Download
MMDB ID:
76200
PDB Deposition Date:
2009/8/12
Updated in MMDB:
2024/12
Experimental Method:
x-ray diffraction
Resolution:
2 Å
Source Organism:
Umbelopsis vinacea
Similar Structures:
VAST+
Download sequence data
Biological Unit
Asymmetric Unit
Biological Unit for 3A5V: tetrameric; determined by author and by software (PISA)
Molecular Graphic
?
3D view
full-featured 3D viewer
Download Cn3D
Interactions
?
A
A: Alpha-galactosidase
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
2
BMA: beta-D-mannopyranose
3
MAN: alpha-D-mannopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
4
1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
4
1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
4
1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
4
1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
5
TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
A_1
A_1: Alpha-galactosidase
A_2
A_2: Alpha-galactosidase
A_3
A_3: Alpha-galactosidase
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
2
BMA: beta-D-mannopyranose
2
BMA: beta-D-mannopyranose
2
BMA: beta-D-mannopyranose
3
MAN: alpha-D-mannopyranose
3
MAN: alpha-D-mannopyranose
3
MAN: alpha-D-mannopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
1
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
4
1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
4
1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
4
1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
4
1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
4
1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
4
1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
4
1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
4
1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
4
1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
4
1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
4
1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
4
1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
5
TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
5
TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
5
TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
MAN
MAN: alpha-D-mannopyranose
MAN
MAN: alpha-D-mannopyranose
MAN
MAN: alpha-D-mannopyranose
NAG
NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
BMA
BMA: beta-D-mannopyranose
Drag symbols to move
Double click symbols to explore molecules
Show chemicals
Protein
Nucleotide
Chemical
Download Stucture Data
?
Download
Format:
ASN.1 (Cn3D)
PDB
XML
JSON
PNG (image)
Data Set:
alpha-Carbons
Single 3D structure
* Mouse right-click to bring up context menu
Molecular Components in 3A5V
Label
Count
Molecule
Proteins (4 molecules)
A
A_1
A_2
A_3
4
Alpha-galactosidase
4 Proteins
SS Diagram
3D Domains
1
75
150
225
300
375
397
397 residues, click to see VAST similar structures.
helix 25-38
helix 77-86
helix 111-121
helix 140-156
helix 217-224
helix 251-264
helix 278-286
helix 288-295
strand 10-16
strand 46-51
strand 88-97
strand 124-131
strand 161-167
strand 182-186
strand 187-190
strand 211-214
strand 235-239
strand 267-271
strand 302-309
strand 310-319
strand 321-330
strand 332-341
strand 355-364
strand 365-371
strand 375-380
strand 381-392
Domain 1 (1-245): click to see VAST similar structures
1
Domain 2 (246-397): click to see VAST similar structures
2
click domain graphic to toggle highlight of corresponding residues in 3D viewer
Chemicals and Non-standard biopolymers (53 molecules)
1
21
2-acetamido-2-deoxy-beta-D-glucopyranose
2
5
beta-D-mannopyranose
3
7
alpha-D-mannopyranose
4
16
2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
5
4
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH.
"
MMDB and VAST+: tracking structural similarities between macromolecular complexes.
Nucleic Acids Res. 2014 Jan; 42(Database issue)
:D297-303
You are here:
NCBI
>
Computational Biology Branch
>
Structure Group
> MMDB
Write to the Help Desk
HHS Vulnerability Disclosure