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1S4P
Biol. Unit 1
Info
Asym.Unit (144 KB)
Biol.Unit 1 (137 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF YEAST ALPHA1,2-MANNOSYLTRANSFERASE KRE2P/MNT1P: TERNARY COMPLEX WITH GDP/MN AND METHYL-ALPHA-MANNOSIDE ACCEPTOR
Authors
:
Y. D. Lobsanov, P. A. Romero, B. Sleno, B. Yu, P. Yip, A. Herscovics, P. L.
Date
:
16 Jan 04 (Deposition) - 04 May 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.01
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Alpha/Beta Fold, Nucleotide-Binding Domain, Rossmann Fold, Ternary Complex With Gdp-Mn2+ And Methyl-Alpha-Mannoside Acceptor, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. D. Lobsanov, P. A. Romero, B. Sleno, B. Yu, P. Yip, A. Herscovics, P. L. Howell
Structure Of Kre2P/Mnt1P: A Yeast {Alpha}1, 2-Mannosyltransferase Involved In Mannoprotein Biosynthesis
J. Biol. Chem. V. 279 17921 2004
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Hetero Components
(6, 16)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
3a: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEa)
3b: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEb)
4a: GUANOSINE-5'-DIPHOSPHATE (GDPa)
4b: GUANOSINE-5'-DIPHOSPHATE (GDPb)
5a: ALPHA-D-MANNOSE (MANa)
5b: ALPHA-D-MANNOSE (MANb)
5c: ALPHA-D-MANNOSE (MANc)
5d: ALPHA-D-MANNOSE (MANd)
5e: ALPHA-D-MANNOSE (MANe)
6a: O1-METHYL-MANNOSE (MMAa)
6b: O1-METHYL-MANNOSE (MMAb)
7a: MANGANESE (II) ION (MNa)
7b: MANGANESE (II) ION (MNb)
8a: N-ACETYL-D-GLUCOSAMINE (NAGa)
8b: N-ACETYL-D-GLUCOSAMINE (NAGb)
8c: N-ACETYL-D-GLUCOSAMINE (NAGc)
8d: N-ACETYL-D-GLUCOSAMINE (NAGd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
1
Ligand/Ion
BETA-D-MANNOSE
2
CL
-1
Ligand/Ion
CHLORIDE ION
3
EPE
2
Ligand/Ion
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
4
GDP
2
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE
5
MAN
5
Ligand/Ion
ALPHA-D-MANNOSE
6
MMA
2
Ligand/Ion
O1-METHYL-MANNOSE
7
MN
-1
Ligand/Ion
MANGANESE (II) ION
8
NAG
4
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
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Sites
(22, 22)
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)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:197 , LYS A:200 , GLU A:203 , NAG A:701 , HOH A:1295
BINDING SITE FOR RESIDUE NAG A 700
02
AC2
SOFTWARE
GLU A:203 , NAG A:700 , BMA A:702 , HOH A:956 , HOH A:1006
BINDING SITE FOR RESIDUE NAG A 701
03
AC3
SOFTWARE
NAG A:701 , MAN A:703 , MAN A:706 , HOH A:1314 , HOH A:1315
BINDING SITE FOR RESIDUE BMA A 702
04
AC4
SOFTWARE
BMA A:702 , MAN A:704 , MAN A:705 , HOH A:1006 , HOH A:1089 , HOH A:1116
BINDING SITE FOR RESIDUE MAN A 703
05
AC5
SOFTWARE
MAN A:703
BINDING SITE FOR RESIDUE MAN A 704
06
AC6
SOFTWARE
GLU A:203 , MAN A:703 , HOH A:1026 , HOH A:1089 , HOH A:1186 , HOH A:1213
BINDING SITE FOR RESIDUE MAN A 705
07
AC7
SOFTWARE
BMA A:702 , MAN A:707 , HOH A:1150 , HOH A:1168 , HOH A:1288
BINDING SITE FOR RESIDUE MAN A 706
08
AC8
SOFTWARE
MAN A:706 , HOH A:1104
BINDING SITE FOR RESIDUE MAN A 707
09
AC9
SOFTWARE
ASN B:197 , THR B:199 , LYS B:200 , GLU B:203 , NAG B:701 , HOH B:1302
BINDING SITE FOR RESIDUE NAG B 700
10
BC1
SOFTWARE
THR B:199 , GLU B:203 , NAG B:700 , HOH B:1192
BINDING SITE FOR RESIDUE NAG B 701
11
BC2
SOFTWARE
ILE A:213 , TYR A:220 , GLU A:279 , HIS A:323 , TRP A:325 , ARG A:358 , GDP A:904 , HOH A:953 , HOH A:1153 , HOH A:1210
BINDING SITE FOR RESIDUE MMA A 901
12
BC3
SOFTWARE
ILE B:213 , TYR B:214 , TYR B:220 , GLU B:279 , TYR B:280 , HIS B:323 , TRP B:325 , ARG B:358 , GDP B:905 , HOH B:1099
BINDING SITE FOR RESIDUE MMA B 902
13
BC4
SOFTWARE
GLU A:247 , HIS A:388 , GDP A:904 , HOH A:939 , HOH A:1156
BINDING SITE FOR RESIDUE MN A 909
14
BC5
SOFTWARE
TYR A:419 , HOH A:999 , TYR B:214 , HOH B:963
BINDING SITE FOR RESIDUE CL A 910
15
BC6
SOFTWARE
TYR A:192 , HOH A:1274
BINDING SITE FOR RESIDUE CL A 911
16
BC7
SOFTWARE
GLU B:247 , HIS B:388 , GDP B:905 , HOH B:1140 , HOH B:1141
BINDING SITE FOR RESIDUE MN B 906
17
BC8
SOFTWARE
TYR A:214 , TYR B:419 , HOH B:1137
BINDING SITE FOR RESIDUE CL B 907
18
BC9
SOFTWARE
SER B:191 , TYR B:192 , HOH B:1288
BINDING SITE FOR RESIDUE CL B 908
19
CC1
SOFTWARE
LEU A:128 , VAL A:129 , ARG A:130 , GLU A:133 , ASN A:160 , ASP A:161 , TRP A:190 , TYR A:214 , SER A:219 , TYR A:220 , MET A:223 , GLU A:247 , PRO A:248 , HIS A:388 , MMA A:901 , MN A:909 , HOH A:939 , HOH A:969 , HOH A:971 , HOH A:994 , HOH A:1028 , HOH A:1032 , HOH A:1184 , HOH A:1235 , HOH A:1333 , HOH B:971
BINDING SITE FOR RESIDUE GDP A 904
20
CC2
SOFTWARE
LEU B:128 , VAL B:129 , ARG B:130 , GLU B:133 , ASN B:160 , ASP B:161 , TRP B:190 , TYR B:214 , TYR B:220 , MET B:223 , GLU B:247 , PRO B:248 , HIS B:388 , MMA B:902 , MN B:906 , HOH B:975 , HOH B:978 , HOH B:983 , HOH B:999 , HOH B:1010 , HOH B:1066 , HOH B:1136 , HOH B:1140 , HOH B:1151 , HOH B:1217
BINDING SITE FOR RESIDUE GDP B 905
21
CC3
SOFTWARE
GLY A:411 , GLN A:417 , ASN A:436 , LYS A:439 , PHE A:440 , GLU A:442 , HOH A:1127 , TYR B:214 , SER B:217 , HOH B:999 , HOH B:1059
BINDING SITE FOR RESIDUE EPE A 903
22
CC4
SOFTWARE
ARG A:130 , TYR A:214 , SER A:217 , HOH A:1333 , GLY B:411 , GLN B:417 , LYS B:439 , PHE B:440 , HOH B:971 , HOH B:1137 , HOH B:1244
BINDING SITE FOR RESIDUE EPE B 913
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(, 0)
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1s4pa_ (A:)
1b: SCOP_d1s4pb_ (B:)
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Superfamilies
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(
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Nucleotide-diphospho-sugar transferases
(408)
Superfamily
:
Nucleotide-diphospho-sugar transferases
(408)
Family
:
Glycolipid 2-alpha-mannosyltransferase
(3)
Protein domain
:
Glycolipid 2-alpha-mannosyltransferase
(3)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(3)
1a
d1s4pa_
A:
1b
d1s4pb_
B:
[
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1s4pA00 (A:104-442)
1b: CATH_1s4pB00 (B:103-442)
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(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A
(231)
Homologous Superfamily
:
Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A
(231)
Baker's yeast (Saccharomyces cerevisiae)
(3)
1a
1s4pA00
A:104-442
1b
1s4pB00
B:103-442
[
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]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Glyco_transf_15_1s4pB01 (B:103-391)
1b: PFAM_Glyco_transf_15_1s4pB02 (B:103-391)
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Clans
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(
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(
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Organisms
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(
)
Clan
:
no clan defined [family: Glyco_transf_15]
(3)
Family
:
Glyco_transf_15
(3)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(3)
1a
Glyco_transf_15-1s4pB01
B:103-391
1b
Glyco_transf_15-1s4pB02
B:103-391
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Asymmetric Unit 1
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