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1GM7
Asym. Unit
Info
Asym.Unit (156 KB)
Biol.Unit 1 (149 KB)
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(1)
Title
:
CRYSTAL STRUCTURES OF PENICILLIN ACYLASE ENZYME-SUBSTRATE COMPLEXES: STRUCTURAL INSIGHTS INTO THE CATALYTIC MECHANISM
Authors
:
C. E. Mcvey, M. A. Walsh, G. G. Dodson, K. S. Wilson, J. A. Brannigan
Date
:
11 Sep 01 (Deposition) - 28 Nov 01 (Release) - 07 Dec 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.45
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Antibiotic Resistance, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. E. Mcvey, M. A. Walsh, G. G. Dodson, K. S. Wilson, J. A. Brannigan
Crystal Structures Of Penicillin Acylase Enzyme- Substrate Complexes: Structural Insights Into The Catalytic Mechanism
J. Mol. Biol. V. 313 139 2001
(for further references see the
PDB file header
)
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Hetero Components
(4, 23)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
2j: 1,2-ETHANEDIOL (EDOj)
2k: 1,2-ETHANEDIOL (EDOk)
2l: 1,2-ETHANEDIOL (EDOl)
2m: 1,2-ETHANEDIOL (EDOm)
2n: 1,2-ETHANEDIOL (EDOn)
2o: 1,2-ETHANEDIOL (EDOo)
2p: 1,2-ETHANEDIOL (EDOp)
2q: 1,2-ETHANEDIOL (EDOq)
2r: 1,2-ETHANEDIOL (EDOr)
2s: 1,2-ETHANEDIOL (EDOs)
2t: 1,2-ETHANEDIOL (EDOt)
3a: PENICILLIN G (PNNa)
4a: METHIONINE SULFOXIDE (SMEa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
1
Ligand/Ion
CALCIUM ION
2
EDO
20
Ligand/Ion
1,2-ETHANEDIOL
3
PNN
1
Ligand/Ion
PENICILLIN G
4
SME
1
Mod. Amino Acid
METHIONINE SULFOXIDE
[
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]
Sites
(22, 22)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
MET A:142 , PHE A:146 , SER A:149 , SER B:1 , GLN B:23 , PHE B:24 , ALA B:69 , PHE B:71 , EDO B:1562 , EDO B:1575 , HOH B:2450 , HOH B:2672 , HOH B:2673 , HOH B:2674 , HOH B:2675 , HOH B:2677
BINDING SITE FOR RESIDUE PNN B1577
02
AC2
SOFTWARE
GLU A:152 , ASP B:73 , VAL B:75 , ASP B:76 , PRO B:205 , ASP B:252
BINDING SITE FOR RESIDUE CA B1576
03
AC3
SOFTWARE
VAL A:182 , LYS A:200 , PHE A:201 , GLN A:203 , HOH A:2088 , HOH A:2251
BINDING SITE FOR RESIDUE EDO A1210
04
AC4
SOFTWARE
THR A:150 , SER A:151 , GLU A:152 , ILE A:153 , HOH A:2252 , HOH B:2184
BINDING SITE FOR RESIDUE EDO A1211
05
AC5
SOFTWARE
PRO A:187 , THR A:188 , ALA B:238 , VAL B:264 , ASP B:268 , HOH B:2649
BINDING SITE FOR RESIDUE EDO B1558
06
AC6
SOFTWARE
ALA B:241 , PHE B:256 , LEU B:257 , ASN B:388 , LYS B:394 , HOH B:2318 , HOH B:2454
BINDING SITE FOR RESIDUE EDO B1559
07
AC7
SOFTWARE
PHE A:146 , SER A:147 , ASP A:148 , SER A:149 , HOH A:2167 , ALA B:69 , GLY B:70 , PHE B:71 , THR B:176 , HOH B:2650 , HOH B:2651
BINDING SITE FOR RESIDUE EDO B1560
08
AC8
SOFTWARE
ALA B:79 , PRO B:208 , PRO B:210
BINDING SITE FOR RESIDUE EDO B1561
09
AC9
SOFTWARE
ALA B:255 , PNN B:1577 , HOH B:2653 , HOH B:2654
BINDING SITE FOR RESIDUE EDO B1562
10
BC1
SOFTWARE
TYR A:197 , PHE A:201 , ASP B:73 , ARG B:199 , LEU B:221 , HOH B:2261 , HOH B:2312
BINDING SITE FOR RESIDUE EDO B1563
11
BC2
SOFTWARE
ASP B:327 , ILE B:329 , EDO B:1566 , HOH B:2656
BINDING SITE FOR RESIDUE EDO B1564
12
BC3
SOFTWARE
GLN A:37 , ASP A:38 , SER B:508 , ASP B:518 , HOH B:2657
BINDING SITE FOR RESIDUE EDO B1565
13
BC4
SOFTWARE
GLN B:288 , ARG B:291 , ILE B:329 , EDO B:1564 , HOH B:2658
BINDING SITE FOR RESIDUE EDO B1566
14
BC5
SOFTWARE
LYS A:179 , HOH A:2203 , ASP B:73 , PRO B:205 , ARG B:206 , ALA B:250 , SER B:251 , ASP B:252
BINDING SITE FOR RESIDUE EDO B1567
15
BC6
SOFTWARE
LYS B:10 , GLU B:272 , HOH B:2659
BINDING SITE FOR RESIDUE EDO B1568
16
BC7
SOFTWARE
THR A:125 , GLN B:273 , LYS B:274 , HOH B:2661 , HOH B:2662 , HOH B:2663
BINDING SITE FOR RESIDUE EDO B1569
17
BC8
SOFTWARE
GLY B:375 , SER B:386 , LEU B:387 , ASN B:388 , SER B:390 , HOH B:2664 , HOH B:2665
BINDING SITE FOR RESIDUE EDO B1570
18
BC9
SOFTWARE
SER B:290 , ARG B:291 , ASN B:330 , TRP B:339 , LEU B:387 , ASN B:478 , HOH B:2356 , HOH B:2666
BINDING SITE FOR RESIDUE EDO B1571
19
CC1
SOFTWARE
ARG B:291 , GLU B:475 , GLU B:529 , ASN B:530 , HOH B:2604 , HOH B:2667
BINDING SITE FOR RESIDUE EDO B1572
20
CC2
SOFTWARE
TYR A:197 , HOH A:2229 , GLU B:224 , MET B:225 , ASN B:226 , PRO B:227 , LYS B:228 , GLN B:245 , HOH B:2668
BINDING SITE FOR RESIDUE EDO B1573
21
CC3
SOFTWARE
LEU B:270 , GLN B:273 , LYS B:274 , GLN B:281 , HOH B:2669 , HOH B:2670
BINDING SITE FOR RESIDUE EDO B1574
22
CC4
SOFTWARE
PHE B:71 , ARG B:263 , SER B:386 , ASN B:388 , PNN B:1577 , HOH B:2665 , HOH B:2671 , HOH B:2672
BINDING SITE FOR RESIDUE EDO B1575
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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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Exons
(0, 0)
Info
All Exons
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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_d1gm7_1 (A:,B:)
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Classes
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)
(
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Families
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ntn hydrolase-like
(356)
Superfamily
:
N-terminal nucleophile aminohydrolases (Ntn hydrolases)
(352)
Family
:
Penicillin acylase, catalytic domain
(37)
Protein domain
:
Penicillin acylase
(25)
Escherichia coli [TaxId: 562]
(24)
1a
d1gm7.1
A:,B:
[
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CATH Domains
(5, 5)
Info
all CATH domains
1a: CATH_1gm7B01 (B:1-72,B:146-290,B:452-536)
2a: CATH_1gm7A02 (A:150-179)
3a: CATH_1gm7B03 (B:291-451)
4a: CATH_1gm7A01 (A:3-149)
5a: CATH_1gm7B02 (B:73-145)
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
4-Layer Sandwich
(459)
Topology
:
Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
(128)
Homologous Superfamily
:
Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
(124)
Escherichia coli. Organism_taxid: 562.
(21)
1a
1gm7B01
B:1-72,B:146-290,B:452-536
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Helix Hairpins
(718)
Homologous Superfamily
:
[code=1.10.287.150, no name defined]
(24)
Escherichia coli. Organism_taxid: 562.
(18)
2a
1gm7A02
A:150-179
Topology
:
Penicillin amidase (Acylase) alpha subunit, N-terminal domain
(46)
Homologous Superfamily
:
[code=1.10.1400.10, no name defined]
(46)
Escherichia coli. Organism_taxid: 562.
(18)
3a
1gm7B03
B:291-451
Topology
:
Penicillin Amidohydrolase; domain 1
(47)
Homologous Superfamily
:
Penicillin Amidohydrolase, domain 1
(47)
Escherichia coli. Organism_taxid: 562.
(18)
4a
1gm7A01
A:3-149
Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
Penicillin G acylase, beta-roll domain
(38)
Homologous Superfamily
:
[code=2.30.120.10, no name defined]
(38)
Escherichia coli. Organism_taxid: 562.
(18)
5a
1gm7B02
B:73-145
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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