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2NSP
Asym. Unit
Info
Asym.Unit (129 KB)
Biol.Unit 1 (61 KB)
Biol.Unit 2 (62 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PECTIN METHYLESTERASE D178A MUTANT IN COMPLEX WITH HEXASACCHARIDE I
Authors
:
M. Fries, K. Brocklehurst, V. E. Shevchik, R. W. Pickersgill
Date
:
06 Nov 06 (Deposition) - 18 Sep 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B,C
#
,D
#
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
(
#
: chains that contain no standard or modified protein/DNA/RNA residue)
Keywords
:
Michaelis Complex, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Fries, J. Ihrig, K. Brocklehurst, V. E. Shevchik, R. W. Pickersgill
Molecular Basis Of The Activity Of The Phytopathogen Pectin Methylesterase.
Embo J. V. 26 3879 2007
[
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Hetero Components
(2, 12)
Info
All Hetero Components
1a: ALPHA-D-GALACTOPYRANURONIC ACID (ADAa)
1b: ALPHA-D-GALACTOPYRANURONIC ACID (ADAb)
1c: ALPHA-D-GALACTOPYRANURONIC ACID (ADAc)
1d: ALPHA-D-GALACTOPYRANURONIC ACID (ADAd)
1e: ALPHA-D-GALACTOPYRANURONIC ACID (ADAe)
1f: ALPHA-D-GALACTOPYRANURONIC ACID (ADAf)
2a: METHYL ALPHA-D-GALACTOPYRANURONATE (M8Ca)
2b: METHYL ALPHA-D-GALACTOPYRANURONATE (M8Cb)
2c: METHYL ALPHA-D-GALACTOPYRANURONATE (M8Cc)
2d: METHYL ALPHA-D-GALACTOPYRANURONATE (M8Cd)
2e: METHYL ALPHA-D-GALACTOPYRANURONATE (M8Ce)
2f: METHYL ALPHA-D-GALACTOPYRANURONATE (M8Cf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ADA
6
Ligand/Ion
ALPHA-D-GALACTOPYRANURONIC ACID
2
M8C
6
Ligand/Ion
METHYL ALPHA-D-GALACTOPYRANURONATE
[
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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: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLN A:153 , GLN A:177 , ASP A:199 , PHE A:202 , ARG A:267 , MET A:306 , HOH A:415 , ADA C:2 , HOH C:404 , HOH C:413 , HOH C:416
BINDING SITE FOR RESIDUE M8C C 1
02
AC2
SOFTWARE
THR A:109 , GLN A:153 , TRP A:269 , PRO A:271 , THR A:272 , HOH A:396 , M8C C:1 , ADA C:3
BINDING SITE FOR RESIDUE ADA C 2
03
AC3
SOFTWARE
THR A:109 , ALA A:110 , PRO A:271 , THR A:272 , ADA C:2 , ADA C:4 , HOH C:93 , HOH C:228 , HOH C:679
BINDING SITE FOR RESIDUE ADA C 3
04
AC4
SOFTWARE
THR A:272 , ARG A:279 , ADA C:3 , M8C C:5 , HOH C:93 , HOH C:151 , HOH C:200 , HOH C:451 , HOH C:679 , HOH C:727
BINDING SITE FOR RESIDUE ADA C 4
05
AC5
SOFTWARE
ADA C:4 , M8C C:6 , HOH C:673 , HOH C:727
BINDING SITE FOR RESIDUE M8C C 5
06
AC6
SOFTWARE
M8C C:5
BINDING SITE FOR RESIDUE M8C C 6
07
AC7
SOFTWARE
GLN B:153 , GLN B:177 , ASP B:199 , PHE B:202 , ARG B:267 , MET B:306 , HOH B:412 , ADA D:2 , HOH D:212
BINDING SITE FOR RESIDUE M8C D 1
08
AC8
SOFTWARE
THR B:109 , GLN B:153 , TRP B:269 , PRO B:271 , THR B:272 , HOH B:407 , M8C D:1 , ADA D:3 , HOH D:703
BINDING SITE FOR RESIDUE ADA D 2
09
AC9
SOFTWARE
THR B:109 , ALA B:110 , PRO B:271 , THR B:272 , HOH B:491 , ADA D:2 , ADA D:4 , HOH D:478 , HOH D:600 , HOH D:742
BINDING SITE FOR RESIDUE ADA D 3
10
BC1
SOFTWARE
ALA B:110 , ARG B:279 , HOH B:671 , ADA D:3 , M8C D:5 , HOH D:166 , HOH D:325 , HOH D:600 , HOH D:658 , HOH D:726
BINDING SITE FOR RESIDUE ADA D 4
11
BC2
SOFTWARE
ADA D:4 , M8C D:6 , HOH D:658
BINDING SITE FOR RESIDUE M8C D 5
12
BC3
SOFTWARE
M8C D:5
BINDING SITE FOR RESIDUE M8C D 6
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: PECTINESTERASE_2 (A:194-203,B:194-203)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PECTINESTERASE_2
PS00503
Pectinesterase signature 2.
PMEA_DICD3
194-203
2
A:194-203
B:194-203
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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_d2nspa_ (A:)
1b: SCOP_d2nspb_ (B:)
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Classes
(
)
(
)
Folds
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)
(
)
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(
)
(
)
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(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Single-stranded right-handed beta-helix
(140)
Superfamily
:
Pectin lyase-like
(89)
Family
:
Pectin methylesterase
(10)
Protein domain
:
automated matches
(8)
Erwinia chrysanthemi [TaxId: 198628]
(7)
1a
d2nspa_
A:
1b
d2nspb_
B:
[
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2nspA00 (A:25-366)
1b: CATH_2nspB00 (B:25-366)
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Homologous Superfamilies
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)
(
)
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)
3937 (Erwinia chrysanthemi str)
(7)
1a
2nspA00
A:25-366
1b
2nspB00
B:25-366
[
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Pectinesterase_2nspB01 (B:29-360)
1b: PFAM_Pectinesterase_2nspB02 (B:29-360)
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Clans
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)
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(
)
Organisms
(
)
(
)
Clan
:
Pec_lyase
(42)
Family
:
Pectinesterase
(8)
Dickeya dadantii (strain 3937) (Erwinia chrysanthemi (strain 3937))
(7)
1a
Pectinesterase-2nspB01
B:29-360
1b
Pectinesterase-2nspB02
B:29-360
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select chains 'A' and 'C'
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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
set fontsize 20
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Asym.Unit (129 KB)
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