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2ZM7
Asym. Unit
Info
Asym.Unit (76 KB)
Biol.Unit 1 (140 KB)
Biol.Unit 2 (71 KB)
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(1)
Title
:
STRUCTURE OF 6-AMINOHEXANOATE-DIMER HYDROLASE, S112A/G181D MUTANT COMPLEXED WITH 6-AMINOHEXANOATE-DIMER
Authors
:
T. Ohki, N. Shibata, Y. Higuchi, Y. Kawashima, M. Takeo, D. Kato, S. Nego
Date
:
14 Apr 08 (Deposition) - 07 Apr 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A
Biol. Unit 1: A (2x)
Biol. Unit 2: A (1x)
Keywords
:
Alpha-Beta, Hydrolase, Nylon Degradation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Kawashima, T. Ohki, N. Shibata, Y. Higuchi, Y. Wakitani, Y. Matsuura, Y. Nakata, M. Takeo, D. Kato, S. Negoro
Molecular Design Of A Nylon-6 Byproduct-Degrading Enzyme From A Carboxylesterase With A Beta-Lactamase Fold
Febs J. V. 276 2547 2009
[
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Hetero Components
(4, 11)
Info
All Hetero Components
1a: 6-AMINOHEXANOIC ACID (ACAa)
1b: 6-AMINOHEXANOIC ACID (ACAb)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
3a: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESa)
3b: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESb)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
4c: SULFATE ION (SO4c)
4d: SULFATE ION (SO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACA
2
Ligand/Ion
6-AMINOHEXANOIC ACID
2
GOL
3
Ligand/Ion
GLYCEROL
3
MES
2
Ligand/Ion
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
4
SO4
4
Ligand/Ion
SULFATE ION
[
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Sites
(22, 22)
Info
All Sites
01: AC1 (unknown)
02: AC2 (unknown)
03: AC3 (unknown)
04: AC4 (unknown)
05: AC5 (unknown)
06: AC6 (unknown)
07: AC7 (unknown)
08: AC8 (unknown)
09: AC9 (unknown)
10: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AD3 (SOFTWARE)
13: AD4 (SOFTWARE)
14: AD5 (SOFTWARE)
15: AD6 (SOFTWARE)
16: AD7 (SOFTWARE)
17: AD8 (SOFTWARE)
18: AD9 (SOFTWARE)
19: AE1 (SOFTWARE)
20: AE2 (SOFTWARE)
21: BC1 (unknown)
22: BC2 (unknown)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
unknown
ASP A:127 , GLU A:128 , LYS A:246 , ARG A:293
BINDING SITE FOR RESIDUE SO4 A 508
02
AC2
unknown
ARG A:205 , HOH A:904 , HOH A:909
BINDING SITE FOR RESIDUE SO4 A 509
03
AC3
unknown
ARG A:107 , ARG A:251 , ASP A:252 , HOH A:780 , HOH A:812
BINDING SITE FOR RESIDUE SO4 A 510
04
AC4
unknown
ARG A:274 , ARG A:278 , HOH A:798 , HOH A:941
BINDING SITE FOR RESIDUE SO4 A 511
05
AC5
unknown
ALA A:112 , TYR A:170 , TYR A:215 , PHE A:317 , TRP A:331 , ILE A:343 , ILE A:345 , HOH A:811 , HOH A:875 , HOH A:894
BINDING SITE FOR RESIDUE ACA A 501
06
AC6
unknown
MET A:111 , ALA A:112 , TYR A:170 , ASP A:181 , TRP A:186 , HIS A:266 , GLY A:344 , ILE A:345 , HOH A:846
BINDING SITE FOR RESIDUE ACA A 502
07
AC7
unknown
TYR A:13 , PRO A:30 , TRP A:34 , HIS A:38 , ARG A:99 , GLY A:101 , HIS A:309 , GLU A:310 , HOH A:576 , HOH A:727 , HOH A:752 , HOH A:886
BINDING SITE FOR RESIDUE MES A 503
08
AC8
unknown
LEU A:70 , PRO A:71 , ASP A:72 , ARG A:76 , HOH A:761
BINDING SITE FOR RESIDUE MES A 504
09
AC9
unknown
PRO A:29 , ASP A:159 , ARG A:302 , THR A:327 , ARG A:328 , HOH A:616 , HOH A:627 , HOH A:730
BINDING SITE FOR RESIDUE GOL A 505
10
AD1
SOFTWARE
ASP A:127 , GLU A:128 , LYS A:246 , ARG A:293 , VAL A:294
BINDING SITE FOR RESIDUE SO4 A 508
11
AD2
SOFTWARE
ARG A:205 , HOH A:904 , HOH A:909
BINDING SITE FOR RESIDUE SO4 A 509
12
AD3
SOFTWARE
ARG A:107 , ARG A:251 , ASP A:252 , HOH A:780 , HOH A:812
BINDING SITE FOR RESIDUE SO4 A 510
13
AD4
SOFTWARE
ARG A:274 , ARG A:278 , HOH A:798 , HOH A:941
BINDING SITE FOR RESIDUE SO4 A 511
14
AD5
SOFTWARE
ALA A:112 , TYR A:170 , TYR A:215 , PHE A:317 , TRP A:331 , ILE A:343 , ILE A:345 , ACA A:502 , HOH A:811 , HOH A:875 , HOH A:894
BINDING SITE FOR RESIDUE ACA A 501
15
AD6
SOFTWARE
MET A:111 , ALA A:112 , TYR A:170 , ASP A:181 , TRP A:186 , HIS A:266 , GLY A:344 , ILE A:345 , ACA A:501 , HOH A:846
BINDING SITE FOR RESIDUE ACA A 502
16
AD7
SOFTWARE
TYR A:13 , PRO A:30 , TRP A:34 , HIS A:38 , ARG A:99 , GLY A:101 , HIS A:309 , GLU A:310 , HOH A:576 , HOH A:727 , HOH A:752 , HOH A:886
BINDING SITE FOR RESIDUE MES A 503
17
AD8
SOFTWARE
LEU A:70 , PRO A:71 , ASP A:72 , ARG A:76 , HOH A:761
BINDING SITE FOR RESIDUE MES A 504
18
AD9
SOFTWARE
PRO A:29 , ASP A:159 , ARG A:302 , THR A:327 , ARG A:328 , HOH A:616 , HOH A:627 , HOH A:730
BINDING SITE FOR RESIDUE GOL A 505
19
AE1
SOFTWARE
GLN A:79 , GLY A:211 , GLU A:310 , ALA A:311 , TRP A:374 , HOH A:545 , HOH A:620 , HOH A:885
BINDING SITE FOR RESIDUE GOL A 506
20
AE2
SOFTWARE
ALA A:37 , ASP A:106 , ARG A:107 , ARG A:251 , HOH A:662 , HOH A:735 , HOH A:767
BINDING SITE FOR RESIDUE GOL A 507
21
BC1
unknown
GLN A:79 , GLY A:211 , GLU A:310 , ALA A:311 , TRP A:374 , HOH A:545 , HOH A:620 , HOH A:885
BINDING SITE FOR RESIDUE GOL A 506
22
BC2
unknown
ALA A:37 , ASP A:106 , ARG A:107 , ARG A:251 , HOH A:662 , HOH A:735 , HOH A:767
BINDING SITE FOR RESIDUE GOL A 507
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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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, 1)
Info
All SCOP Domains
1a: SCOP_d2zm7a_ (A:)
View:
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Classes
(
)
(
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Folds
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)
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(
)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
beta-lactamase/transpeptidase-like
(515)
Superfamily
:
beta-lactamase/transpeptidase-like
(515)
Family
:
beta-Lactamase/D-ala carboxypeptidase
(411)
Protein domain
:
6-aminohexanoate-dimer hydrolase NylC
(11)
Flavobacterium sp. [TaxId: 239]
(11)
1a
d2zm7a_
A:
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_Beta_lactamase_2zm7A01 (A:72-378)
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Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Beta-lactamase
(210)
Family
:
Beta-lactamase
(79)
Flavobacterium sp. (strain K172)
(8)
1a
Beta-lactamase-2zm7A01
A:72-378
[
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]
Atom Selection
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All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Asymmetric Unit 1
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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
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set label size to 20 (allowed range: 1-58)
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Asym.Unit (76 KB)
Header - Asym.Unit
Biol.Unit 1 (140 KB)
Header - Biol.Unit 1
Biol.Unit 2 (71 KB)
Header - Biol.Unit 2
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