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2NST
Biol. Unit 2
Info
Asym.Unit (131 KB)
Biol.Unit 1 (62 KB)
Biol.Unit 2 (63 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PECTIN METHYLESTERASE D178A MUTANT IN COMPLEX WITH HEXASACCHARIDE II
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
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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
(0, 0)
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)
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Sites
(6, 6)
Info
All Sites
1: AC7 (SOFTWARE)
2: AC8 (SOFTWARE)
3: AC9 (SOFTWARE)
4: BC1 (SOFTWARE)
5: BC2 (SOFTWARE)
6: BC3 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC7
SOFTWARE
ASN B:226 , HOH B:460 , HOH B:678 , M8C D:2 , HOH D:103 , HOH D:457 , HOH D:557 , HOH D:786
BINDING SITE FOR RESIDUE ADA D 1
2
AC8
SOFTWARE
ARG B:219 , VAL B:227 , SER B:228 , TYR B:230 , ADA D:1 , M8C D:3 , HOH D:457 , HOH D:522 , HOH D:786
BINDING SITE FOR RESIDUE M8C D 2
3
AC9
SOFTWARE
GLN B:177 , ARG B:267 , SER B:307 , HOH B:391 , HOH B:478 , M8C D:2 , M8C D:4 , HOH D:323 , HOH D:537
BINDING SITE FOR RESIDUE M8C D 3
4
BC1
SOFTWARE
GLN B:153 , GLN B:177 , ASP B:199 , PHE B:202 , MET B:306 , HOH B:434 , M8C D:3 , ADA D:5 , HOH D:221 , HOH D:697
BINDING SITE FOR RESIDUE M8C D 4
5
BC2
SOFTWARE
THR B:109 , GLN B:153 , TRP B:269 , PRO B:271 , THR B:272 , HOH B:407 , M8C D:4 , ADA D:6 , HOH D:459 , HOH D:811
BINDING SITE FOR RESIDUE ADA D 5
6
BC3
SOFTWARE
THR B:109 , ALA B:110 , PRO B:271 , THR B:272 , HOH B:480 , HOH B:553 , ADA D:5 , HOH D:542 , HOH D:675 , HOH D:711 , HOH D:816
BINDING SITE FOR RESIDUE ADA D 6
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: PECTINESTERASE_2 (B:194-203)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PECTINESTERASE_2
PS00503
Pectinesterase signature 2.
PMEA_DICD3
194-203
1
-
B:194-203
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Exons
(0, 0)
Info
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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_d2nsta_ (A:)
1b: SCOP_d2nstb_ (B:)
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)
Protein Domains
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)
(
)
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
d2nsta_
A:
1b
d2nstb_
B:
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2nstA00 (A:25-366)
1b: CATH_2nstB00 (B:25-366)
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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
2nstA00
A:25-366
1b
2nstB00
B:25-366
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Pectinesterase_2nstB01 (B:29-360)
1b: PFAM_Pectinesterase_2nstB02 (B:29-360)
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Clans
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Clan
:
Pec_lyase
(42)
Family
:
Pectinesterase
(8)
Dickeya dadantii (strain 3937) (Erwinia chrysanthemi (strain 3937))
(7)
1a
Pectinesterase-2nstB01
B:29-360
1b
Pectinesterase-2nstB02
B:29-360
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Asymmetric Unit 1
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Asym.Unit (131 KB)
Header - Asym.Unit
Biol.Unit 1 (62 KB)
Header - Biol.Unit 1
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Header - Biol.Unit 2
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