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2RI8
Asym. Unit
Info
Asym.Unit (180 KB)
Biol.Unit 1 (91 KB)
Biol.Unit 2 (86 KB)
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(1)
Title
:
PENICILLIUM CITRINUM ALPHA-1,2-MANNOSIDASE COMPLEX WITH GLYCEROL
Authors
:
Y. D. Lobsanov, T. Yoshida, T. Desmet, W. Nerinckx, P. Yip, M. Claeyssen A. Herscovics, P. L Howell
Date
:
10 Oct 07 (Deposition) - 25 Mar 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.16
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Alternative Conformations, Modulation Of Activity, Glycoprotein, Glycosidase, Hydrolase, Secreted
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. D. Lobsanov, T. Yoshida, T. Desmet, W. Nerinckx, P. Yip, M. Claeyssens, A. Herscovics, P. L. Howell
Modulation Of Activity By Arg407: Structure Of A Fungal Alpha-1, 2-Mannosidase In Complex With A Substrate Analogue.
Acta Crystallogr. , Sect. D V. 64 227 2008
[
close entry info
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Hetero Components
(4, 27)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
2g: GLYCEROL (GOLg)
3a: ALPHA-D-MANNOSE (MANa)
3b: ALPHA-D-MANNOSE (MANb)
3c: ALPHA-D-MANNOSE (MANc)
3d: ALPHA-D-MANNOSE (MANd)
3e: ALPHA-D-MANNOSE (MANe)
3f: ALPHA-D-MANNOSE (MANf)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
4b: N-ACETYL-D-GLUCOSAMINE (NAGb)
4c: N-ACETYL-D-GLUCOSAMINE (NAGc)
4d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4e: N-ACETYL-D-GLUCOSAMINE (NAGe)
4f: N-ACETYL-D-GLUCOSAMINE (NAGf)
4g: N-ACETYL-D-GLUCOSAMINE (NAGg)
4h: N-ACETYL-D-GLUCOSAMINE (NAGh)
4i: N-ACETYL-D-GLUCOSAMINE (NAGi)
4j: N-ACETYL-D-GLUCOSAMINE (NAGj)
4k: N-ACETYL-D-GLUCOSAMINE (NAGk)
4l: N-ACETYL-D-GLUCOSAMINE (NAGl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
2
Ligand/Ion
CALCIUM ION
2
GOL
7
Ligand/Ion
GLYCEROL
3
MAN
6
Ligand/Ion
ALPHA-D-MANNOSE
4
NAG
12
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(24, 24)
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)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HOH A:229 , HOH A:462 , HOH A:485 , HOH A:636 , SER A:1115 , THR A:1117 , ASN A:1182 , THR A:1184 , SER A:1185
BINDING SITE FOR RESIDUE NAG A 1600
02
AC2
SOFTWARE
HOH A:152 , HOH A:475 , HOH A:609 , ASP A:1359 , GLU A:1362 , ASN A:1366 , TRP A:1429
BINDING SITE FOR RESIDUE NAG A 1700
03
AC3
SOFTWARE
HOH A:99 , HOH A:475 , ARG A:1309 , ASP A:1311 , LEU A:1312 , ASP A:1359
BINDING SITE FOR RESIDUE NAG A 1701
04
AC4
SOFTWARE
HOH A:214 , HOH A:221 , HOH A:445 , PRO A:1173 , ASN A:1251
BINDING SITE FOR RESIDUE MAN A 1702
05
AC5
SOFTWARE
HOH A:549 , ASN A:1251
BINDING SITE FOR RESIDUE MAN A 1703
06
AC6
SOFTWARE
HOH A:266 , HOH A:297 , HOH A:371 , HOH A:430 , HOH A:663 , LEU A:1355 , TYR A:1426
BINDING SITE FOR RESIDUE MAN A 1704
07
AC7
SOFTWARE
HOH A:145 , HOH A:433 , TRP A:1431 , ASN A:1438 , ARG A:1442
BINDING SITE FOR RESIDUE NAG A 1800
08
AC8
SOFTWARE
HOH A:422 , GLU A:1046
BINDING SITE FOR RESIDUE NAG A 1801
09
AC9
SOFTWARE
HOH B:247 , HOH B:707 , SER B:2115 , ASP B:2116 , THR B:2117 , ASN B:2182 , THR B:2184 , SER B:2185
BINDING SITE FOR RESIDUE NAG B 2600
10
BC1
SOFTWARE
HOH B:113 , ASP B:2359 , GLU B:2362 , ALA B:2363 , ASN B:2366 , TRP B:2429
BINDING SITE FOR RESIDUE NAG B 2700
11
BC2
SOFTWARE
HOH B:395 , ARG B:2309 , ASP B:2311 , LEU B:2312 , ILE B:2425 , TRP B:2429
BINDING SITE FOR RESIDUE NAG B 2701
12
BC3
SOFTWARE
HOH B:397 , HOH B:562 , HOH B:643
BINDING SITE FOR RESIDUE MAN B 2702
13
BC4
SOFTWARE
HOH B:271
BINDING SITE FOR RESIDUE MAN B 2703
14
BC5
SOFTWARE
HOH B:439
BINDING SITE FOR RESIDUE MAN B 2704
15
BC6
SOFTWARE
HOH B:380 , HOH B:616 , TRP B:2431 , ASN B:2438 , ARG B:2442
BINDING SITE FOR RESIDUE NAG B 2800
16
BC7
SOFTWARE
HOH A:158 , HOH A:159 , HOH A:161 , HOH A:162 , THR A:1501
BINDING SITE FOR RESIDUE CA A 1550
17
BC8
SOFTWARE
HOH B:165 , HOH B:166 , HOH B:167 , HOH B:209 , THR B:2501
BINDING SITE FOR RESIDUE CA B 1551
18
BC9
SOFTWARE
HOH A:420 , HOH A:584 , PHE A:1121 , ALA A:1197 , GLY A:1265 , ASP A:1267
BINDING SITE FOR RESIDUE GOL A 1900
19
CC1
SOFTWARE
HOH A:33 , HOH A:383 , ARG A:1126 , PHE A:1468 , GLU A:1472 , THR A:1501 , GLU A:1502
BINDING SITE FOR RESIDUE GOL A 1901
20
CC2
SOFTWARE
HOH A:383 , HOH A:494 , ARG A:1076 , GLU A:1122 , ARG A:1126 , ARG A:1407 , GLU A:1466
BINDING SITE FOR RESIDUE GOL A 1903
21
CC3
SOFTWARE
HOH A:677 , ASP A:1349
BINDING SITE FOR RESIDUE GOL A 1904
22
CC4
SOFTWARE
HOH B:205 , HOH B:655 , PHE B:2121 , ALA B:2197 , GLY B:2264 , GLY B:2265 , ASP B:2267
BINDING SITE FOR RESIDUE GOL B 2900
23
CC5
SOFTWARE
HOH B:166 , HOH B:205 , HOH B:478 , ARG B:2126 , PHE B:2468 , GLU B:2472 , THR B:2501 , GLU B:2502
BINDING SITE FOR RESIDUE GOL B 2901
24
CC6
SOFTWARE
HOH B:478 , ARG B:2076 , GLU B:2122 , ARG B:2126 , ARG B:2407 , GLU B:2466 , PHE B:2468
BINDING SITE FOR RESIDUE GOL B 2903
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
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End label:
Sorry, no Info available
[
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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.
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2ri8a_ (A:)
1b: SCOP_d2ri8b_ (B:)
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Classes
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(
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Folds
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(
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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)
Fungus (Penicillium citrinum) [TaxId: 5077]
(5)
1a
d2ri8a_
A:
1b
d2ri8b_
B:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2ri8A00 (A:1036-1510)
1b: CATH_2ri8B00 (B:2036-2510)
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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)
Penicillium citrinum. Organism_taxid: 5077.
(5)
1a
2ri8A00
A:1036-1510
1b
2ri8B00
B:2036-2510
[
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]
Pfam Domains
(0, 0)
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all PFAM domains
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