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2IQ7
Biol. Unit 5
Info
Asym.Unit (400 KB)
Biol.Unit 1 (65 KB)
Biol.Unit 2 (64 KB)
Biol.Unit 3 (65 KB)
Biol.Unit 4 (63 KB)
Biol.Unit 5 (65 KB)
Biol.Unit 6 (62 KB)
Biol.Unit 7 (60 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE POLYGALACTURONASE FROM COLLETOTRICHUM LUPINI AND ITS IMPLICATIONS FOR THE INTERACTION WITH POLYGALACTURONASE-INHIBITING PROTEINS
Authors
:
D. Bonivento, L. Federici, A. D. Matteo
Date
:
13 Oct 06 (Deposition) - 23 Oct 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.94
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
#
,I
#
,L
#
,M
#
,N
#
,O
#
,Q
#
Biol. Unit 1: A,H
#
(1x)
Biol. Unit 2: B,I
#
(1x)
Biol. Unit 3: C,L
#
(1x)
Biol. Unit 4: D,M
#
(1x)
Biol. Unit 5: E,N
#
(1x)
Biol. Unit 6: F,O
#
(1x)
Biol. Unit 7: G,Q
#
(1x)
(
#
: chains that contain no standard or modified protein/DNA/RNA residue)
Keywords
:
Parallel Beta Helix, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. Bonivento, D. Pontiggia, A. D. Matteo, J. Fernandez-Recio, G. Salvi, D. Tsernoglou, F. Cervone, G. D. Lorenzo, L. Federici
Crystal Structure Of The Endopolygalacturonase From The Phytopathogenic Fungus Colletotrichum Lupini And Its Interaction With Polygalacturonase-Inhibiting Proteins
Proteins V. 70 294 2008
[
close entry info
]
Hetero Components
(3, 4)
Info
All Hetero Components
1a: ACETIC ACID (ACYa)
2a: ALPHA-D-MANNOSE (MANa)
2b: ALPHA-D-MANNOSE (MANb)
2c: ALPHA-D-MANNOSE (MANc)
2d: ALPHA-D-MANNOSE (MANd)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
3d: N-ACETYL-D-GLUCOSAMINE (NAGd)
3e: N-ACETYL-D-GLUCOSAMINE (NAGe)
3f: N-ACETYL-D-GLUCOSAMINE (NAGf)
3g: N-ACETYL-D-GLUCOSAMINE (NAGg)
3h: N-ACETYL-D-GLUCOSAMINE (NAGh)
3i: N-ACETYL-D-GLUCOSAMINE (NAGi)
3j: N-ACETYL-D-GLUCOSAMINE (NAGj)
3k: N-ACETYL-D-GLUCOSAMINE (NAGk)
3l: N-ACETYL-D-GLUCOSAMINE (NAGl)
3m: N-ACETYL-D-GLUCOSAMINE (NAGm)
3n: N-ACETYL-D-GLUCOSAMINE (NAGn)
4a: DI(HYDROXYETHYL)ETHER (PEGa)
4b: DI(HYDROXYETHYL)ETHER (PEGb)
4c: DI(HYDROXYETHYL)ETHER (PEGc)
5a: TETRAETHYLENE GLYCOL (PG4a)
5b: TETRAETHYLENE GLYCOL (PG4b)
5c: TETRAETHYLENE GLYCOL (PG4c)
5d: TETRAETHYLENE GLYCOL (PG4d)
5e: TETRAETHYLENE GLYCOL (PG4e)
5f: TETRAETHYLENE GLYCOL (PG4f)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACY
-1
Ligand/Ion
ACETIC ACID
2
MAN
-1
Ligand/Ion
ALPHA-D-MANNOSE
3
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
4
PEG
1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
5
PG4
1
Ligand/Ion
TETRAETHYLENE GLYCOL
[
close Hetero Component info
]
Sites
(12, 12)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: BC4 (SOFTWARE)
08: BC5 (SOFTWARE)
09: CC1 (SOFTWARE)
10: CC7 (SOFTWARE)
11: CC8 (SOFTWARE)
12: CC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
THR A:156 , GLY A:187 , TYR A:189 , ASN A:209 , PG4 E:3001 , NAG H:364 , HOH H:372
BINDING SITE FOR RESIDUE NAG H 363
02
AC2
SOFTWARE
THR A:156 , TYR A:160 , TYR A:189 , HOH A:3115 , ASN E:334 , PG4 E:3001 , HOH E:3298 , NAG H:363 , MAN H:365 , HOH H:373 , HOH H:379 , HOH H:384 , HOH H:386
BINDING SITE FOR RESIDUE NAG H 364
03
AC3
SOFTWARE
ASN E:334 , TRP E:335 , SER E:356 , GLY E:357 , PG4 E:3001 , NAG H:364 , MAN H:366 , MAN H:367 , HOH H:371 , HOH H:375 , HOH H:381 , HOH H:382
BINDING SITE FOR RESIDUE MAN H 365
04
AC4
SOFTWARE
LYS E:336 , GLY E:357 , SER E:358 , MAN H:365 , MAN H:368 , HOH H:370 , HOH H:385
BINDING SITE FOR RESIDUE MAN H 366
05
AC5
SOFTWARE
ASN A:92 , SER E:356 , GLY E:357 , HOH E:3367 , MAN H:365 , HOH H:377
BINDING SITE FOR RESIDUE MAN H 367
06
AC6
SOFTWARE
TRP E:337 , SER E:338 , SER E:358 , MAN H:366 , HOH H:380 , HOH H:387
BINDING SITE FOR RESIDUE MAN H 368
07
BC4
SOFTWARE
THR E:156 , GLY E:187 , TYR E:189 , ASN E:209 , HOH E:3123 , NAG N:364 , HOH N:365 , HOH N:366 , HOH N:370 , HOH N:372
BINDING SITE FOR RESIDUE NAG N 363
08
BC5
SOFTWARE
LYS A:336 , HOH E:3060 , NAG N:363 , HOH N:367 , HOH N:368 , HOH N:370 , HOH N:371
BINDING SITE FOR RESIDUE NAG N 364
09
CC1
SOFTWARE
SER E:266 , GLY E:267 , THR E:305 , GLY E:306 , THR E:308 , ASN E:334 , HOH E:3229 , HOH E:3236 , HOH E:3250 , HOH E:3296 , HOH E:3298 , NAG H:363 , NAG H:364 , MAN H:365
BINDING SITE FOR RESIDUE PG4 E 3001
10
CC7
SOFTWARE
GLY E:263 , ASN E:300 , GLY E:301 , HOH E:3374 , TYR F:127 , HIS F:129 , ASN F:152 , PEG F:3009 , HOH F:3253
BINDING SITE FOR RESIDUE PEG E 3007
11
CC8
SOFTWARE
ASN B:300 , GLY B:301 , HOH B:3195 , HOH B:3315 , SER E:113 , HIS E:175
BINDING SITE FOR RESIDUE PEG B 3008
12
CC9
SOFTWARE
PEG E:3007 , LYS F:124 , TYR F:127 , GLN F:147 , SER F:150 , ASP F:181
BINDING SITE FOR RESIDUE PEG F 3009
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(, 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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Label:
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, 7)
Info
All SCOP Domains
1a: SCOP_d2iq7a_ (A:)
1b: SCOP_d2iq7b_ (B:)
1c: SCOP_d2iq7c_ (C:)
1d: SCOP_d2iq7d_ (D:)
1e: SCOP_d2iq7e_ (E:)
1f: SCOP_d2iq7f_ (F:)
1g: SCOP_d2iq7g_ (G:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Single-stranded right-handed beta-helix
(140)
Superfamily
:
Pectin lyase-like
(89)
Family
:
Galacturonase
(11)
Protein domain
:
automated matches
(1)
Colletotrichum lupini [TaxId: 145971]
(1)
1a
d2iq7a_
A:
1b
d2iq7b_
B:
1c
d2iq7c_
C:
1d
d2iq7d_
D:
1e
d2iq7e_
E:
1f
d2iq7f_
F:
1g
d2iq7g_
G:
[
close SCOP info
]
CATH Domains
(1, 7)
Info
all CATH domains
1a: CATH_2iq7A00 (A:24-362)
1b: CATH_2iq7B00 (B:24-362)
1c: CATH_2iq7C00 (C:24-362)
1d: CATH_2iq7D00 (D:24-362)
1e: CATH_2iq7E00 (E:24-362)
1f: CATH_2iq7G00 (G:24-362)
1g: CATH_2iq7F00 (F:25-362)
View:
Select:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
3 Solenoid
(196)
Topology
:
Pectate Lyase C-like
(105)
Homologous Superfamily
:
Single-stranded right-handed beta-helix, Pectin lyase-like
(73)
Colletotrichum lupini. Organism_taxid: 145971
(1)
1a
2iq7A00
A:24-362
1b
2iq7B00
B:24-362
1c
2iq7C00
C:24-362
1d
2iq7D00
D:24-362
1e
2iq7E00
E:24-362
1f
2iq7G00
G:24-362
1g
2iq7F00
F:25-362
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Solvent
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Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain E
Chain H
Chain I
Chain L
Chain M
Chain N
Chain O
Chain Q
Asymmetric Unit 1
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