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Getting 'Biological Unit' information from database.
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Getting 'Exon' information from database.
1DL2
Asym. Unit
Info
Asym.Unit (101 KB)
Biol.Unit 1 (96 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF CLASS I ALPHA-1,2-MANNOSIDASE FROM SACCHAROMYCES CEREVISIAE AT 1.54 ANGSTROM RESOLUTION
Authors
:
F. Vallee, F. Lipari, P. Yip, A. Herscovics, P. L. Howell
Date
:
08 Dec 99 (Deposition) - 18 Feb 00 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.54
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Alpha-Alpha Helix Barrel, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. Vallee, F. Lipari, P. Yip, B. Sleno, A. Herscovics, P. L. Howell
Crystal Structure Of A Class I Alpha1, 2-Mannosidase Involve In N-Glycan Processing And Endoplasmic Reticulum Quality Control.
Embo J. V. 19 581 2000
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Hetero Components
(6, 13)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
2a: CALCIUM ION (CAa)
3a: GLYCEROL (GOLa)
4a: ALPHA-D-MANNOSE (MANa)
4b: ALPHA-D-MANNOSE (MANb)
4c: ALPHA-D-MANNOSE (MANc)
4d: ALPHA-D-MANNOSE (MANd)
5a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5c: N-ACETYL-D-GLUCOSAMINE (NAGc)
5d: N-ACETYL-D-GLUCOSAMINE (NAGd)
6a: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
2
Ligand/Ion
BETA-D-MANNOSE
2
CA
1
Ligand/Ion
CALCIUM ION
3
GOL
1
Ligand/Ion
GLYCEROL
4
MAN
4
Ligand/Ion
ALPHA-D-MANNOSE
5
NAG
4
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
6
NDG
1
Ligand/Ion
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
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Sites
(13, 13)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LEU A:93 , ASN A:96 , LEU A:151 , NDG A:601 , HOH A:969 , HOH A:1133
BINDING SITE FOR RESIDUE NAG A 600
02
AC2
SOFTWARE
ARG A:273 , GLU A:515 , NAG A:600 , BMA A:602 , MAN A:603 , MAN A:606
BINDING SITE FOR RESIDUE NDG A 601
03
AC3
SOFTWARE
ARG A:273 , NDG A:601 , MAN A:603 , MAN A:604 , HOH A:1082 , HOH A:1181 , HOH A:1186
BINDING SITE FOR RESIDUE BMA A 602
04
AC4
SOFTWARE
ARG A:273 , ARG A:433 , NDG A:601 , BMA A:602 , MAN A:605 , MAN A:606 , HOH A:1089
BINDING SITE FOR RESIDUE MAN A 603
05
AC5
SOFTWARE
ASN A:129 , SER A:185 , ASN A:196 , BMA A:602 , HOH A:1081
BINDING SITE FOR RESIDUE MAN A 604
06
AC6
SOFTWARE
PHE A:131 , GLU A:207 , SER A:272 , ARG A:273 , ASP A:275 , MAN A:603 , HOH A:1083 , HOH A:1095 , HOH A:1189
BINDING SITE FOR RESIDUE MAN A 605
07
AC7
SOFTWARE
ARG A:269 , SER A:272 , ASP A:336 , LEU A:338 , GLU A:399 , NDG A:601 , MAN A:603 , HOH A:985 , HOH A:1147 , HOH A:1148 , HOH A:1150
BINDING SITE FOR RESIDUE MAN A 606
08
AC8
SOFTWARE
ASP A:168 , ASN A:224 , THR A:226 , NAG A:801 , HOH A:934 , HOH A:1192 , HOH A:1193 , HOH A:1195 , HOH A:1256
BINDING SITE FOR RESIDUE NAG A 800
09
AC9
SOFTWARE
ALA A:171 , LEU A:172 , LEU A:230 , NAG A:800 , BMA A:802 , HOH A:934 , HOH A:1194 , HOH A:1254
BINDING SITE FOR RESIDUE NAG A 801
10
BC1
SOFTWARE
NAG A:801 , HOH A:1254
BINDING SITE FOR RESIDUE BMA A 802
11
BC2
SOFTWARE
ASN A:155 , HOH A:1260
BINDING SITE FOR RESIDUE NAG A 700
12
BC3
SOFTWARE
THR A:525 , HOH A:951 , HOH A:954 , HOH A:1019 , HOH A:1088
BINDING SITE FOR RESIDUE CA A 901
13
BC4
SOFTWARE
LEU A:338 , ARG A:433 , PRO A:434 , GLU A:435 , PHE A:499 , GLU A:503 , GLU A:526 , HOH A:954 , HOH A:1095 , HOH A:1190
BINDING SITE FOR RESIDUE GOL A 900
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SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_MNS1_YEAST_001 (D40Y, chain A, )
2: VAR_MNS1_YEAST_002 (D376L, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_MNS1_YEAST_001
*
D
40
Y
MNS1_YEAST
---
---
A
D
40
Y
2
UniProt
VAR_MNS1_YEAST_002
*
D
376
L
MNS1_YEAST
---
---
A
D
376
L
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Label:
End label:
Sorry, no Info available
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Exons
(1, 1)
Info
All Exons
Exon 1.1 (A:34-549 (gaps))
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All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/-
View:
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
YJR131W
1
YJR131W.1
X:667634-669283
1650
MNS1_YEAST
1-549
549
1
A:34-549 (gaps)
516
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SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1dl2a_ (A:)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
alpha/alpha toroid
(324)
Superfamily
:
Seven-hairpin glycosidases
(13)
Family
:
Class I alpha-1;2-mannosidase, catalytic domain
(13)
Protein domain
:
Class I alpha-1;2-mannosidase, catalytic domain
(13)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(2)
1a
d1dl2a_
A:
[
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1dl2A00 (A:34-549)
View:
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)
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)
(
)
Homologous Superfamilies
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)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Alpha/alpha barrel
(251)
Topology
:
Glycosyltransferase
(233)
Homologous Superfamily
:
[code=1.50.10.50, no name defined]
(13)
Baker's yeast (Saccharomyces cerevisiae)
(1)
1a
1dl2A00
A:34-549
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
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Atom Selection
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Protein
Nucleic
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Sidechain
Hetero
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Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Asymmetric Unit 1
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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select non-helix/non-sheet protein parts
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set label size to 20 (allowed range: 1-58)
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show SS bonds with a radius of 100 units (=0.4Å)
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