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3IIQ
Asym. Unit
Info
Asym.Unit (96 KB)
Biol.Unit 1 (43 KB)
Biol.Unit 2 (43 KB)
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(1)
Title
:
CRYSTALLOGRAPHIC ANALYSIS OF BACTERIAL SIGNAL PEPTIDASE IN TERNARY COMPLEX WITH ARYLOMYCIN A2 AND A BETA-SULTAM INHIBITOR
Authors
:
M. Paetzel
Date
:
03 Aug 09 (Deposition) - 01 Sep 09 (Release) - 27 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: B,D (1x)
Biol. Unit 2: A,C (1x)
Keywords
:
Ser/Lys Dyad, Lipopeptide, Serine Protease, Biaryl Bridge, Morpholino Beta-Sultam, Antibiotic, Peptidase, Hydrolase-Antibiotic-Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. Luo, P. Roussel, J. Dreier, M. G. Page, M. Paetzel
Crystallographic Analysis Of Bacterial Signal Peptidase In Ternary Complex With Arylomycin A2 And A Beta-Sultam Inhibitor.
Biochemistry V. 48 8976 2009
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Hetero Components
(8, 18)
Info
All Hetero Components
1a: (2S)-(4-HYDROXYPHENYL)(METHYLAMINO... (5PGa)
1b: (2S)-(4-HYDROXYPHENYL)(METHYLAMINO... (5PGb)
2a: ACETONITRILE (CCNa)
2b: ACETONITRILE (CCNb)
3a: D-ALANINE (DALa)
3b: D-ALANINE (DALb)
4a: N-METHYL-D-SERINE (DSEa)
4b: N-METHYL-D-SERINE (DSEb)
5a: GLYCEROL (GOLa)
5b: GLYCEROL (GOLb)
5c: GLYCEROL (GOLc)
5d: GLYCEROL (GOLd)
6a: 4-[(1,1-DIOXIDO-1,2-THIAZETIDIN-2-... (JZAa)
6b: 4-[(1,1-DIOXIDO-1,2-THIAZETIDIN-2-... (JZAb)
7a: 10-METHYLUNDECANOIC ACID (M12a)
7b: 10-METHYLUNDECANOIC ACID (M12b)
8a: FRAGMENT OF TRITON X-100 (TRTa)
8b: FRAGMENT OF TRITON X-100 (TRTb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
5PG
2
Mod. Amino Acid
(2S)-(4-HYDROXYPHENYL)(METHYLAMINO)ETHANOIC ACID
2
CCN
2
Ligand/Ion
ACETONITRILE
3
DAL
2
Mod. Amino Acid
D-ALANINE
4
DSE
2
Mod. Amino Acid
N-METHYL-D-SERINE
5
GOL
4
Ligand/Ion
GLYCEROL
6
JZA
2
Ligand/Ion
4-[(1,1-DIOXIDO-1,2-THIAZETIDIN-2-YL)CARBONYL]MORPHOLINE
7
M12
2
Ligand/Ion
10-METHYLUNDECANOIC ACID
8
TRT
2
Ligand/Ion
FRAGMENT OF TRITON X-100
[
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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
SER A:88 , SER A:90 , ASN A:277 , SER A:278 , ALA A:279 , GLU A:307 , TYR C:6
BINDING SITE FOR RESIDUE JZA A 324
02
AC2
SOFTWARE
GLU A:104 , THR A:297 , GOL A:326
BINDING SITE FOR RESIDUE TRT A 325
03
AC3
SOFTWARE
TRT A:325
BINDING SITE FOR RESIDUE GOL A 326
04
AC4
SOFTWARE
ARG A:236 , GOL A:328 , GOL A:329
BINDING SITE FOR RESIDUE GOL A 327
05
AC5
SOFTWARE
GLY A:321 , ILE A:322 , HIS A:323 , GOL A:327 , CCN A:330 , ASN B:186
BINDING SITE FOR RESIDUE GOL A 328
06
AC6
SOFTWARE
SER A:317 , ARG A:318 , GOL A:327 , HOH A:2127 , HOH A:2128
BINDING SITE FOR RESIDUE GOL A 329
07
AC7
SOFTWARE
THR A:94 , ILE A:322 , HIS A:323 , GOL A:328 , CCN A:331
BINDING SITE FOR RESIDUE CCN A 330
08
AC8
SOFTWARE
THR A:94 , HIS A:235 , ARG A:236 , HIS A:323 , CCN A:330 , HOH A:2079
BINDING SITE FOR RESIDUE CCN A 331
09
AC9
SOFTWARE
SER B:88 , SER B:90 , LYS B:145 , ASN B:277 , SER B:278 , ALA B:279 , GLU B:307 , TRT B:325 , TYR D:6
BINDING SITE FOR RESIDUE JZA B 324
10
BC1
SOFTWARE
PHE A:196 , PHE B:196 , ASP B:276 , ASN B:277 , SER B:278 , ALA B:279 , TYR B:283 , JZA B:324
BINDING SITE FOR RESIDUE TRT B 325
11
BC2
SOFTWARE
GLU A:82 , PRO A:83 , PHE A:84 , GLN A:85 , PRO A:87 , SER A:88 , SER A:90 , ASP A:142 , TYR A:143 , ILE A:144 , LYS A:145 , JZA A:324 , HOH A:2002 , HOH A:2024 , HOH A:2025 , HOH C:2002
BINDING SITE FOR CHAIN C OF ARYLOMYCIN A2
12
BC3
SOFTWARE
GLU B:82 , PRO B:83 , PHE B:84 , GLN B:85 , PRO B:87 , ASP B:142 , TYR B:143 , ILE B:144 , LYS B:145 , JZA B:324 , HOH B:2020 , HOH B:2022 , HOH D:2001 , HOH D:2003 , HOH D:2004
BINDING SITE FOR CHAIN D OF ARYLOMYCIN A2
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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
(3, 6)
Info
All PROSITE Patterns/Profiles
1: SPASE_I_1 (A:88-95,B:88-95)
2: SPASE_I_2 (A:145-157,B:145-157)
3: SPASE_I_3 (A:268-281,B:268-281)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SPASE_I_1
PS00501
Signal peptidases I serine active site.
LEP_ECOLI
89-96
2
A:88-95
B:88-95
2
SPASE_I_2
PS00760
Signal peptidases I lysine active site.
LEP_ECOLI
146-158
2
A:145-157
B:145-157
3
SPASE_I_3
PS00761
Signal peptidases I signature 3.
LEP_ECOLI
269-282
2
A:268-281
B:268-281
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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_d3iiqa_ (A:)
1b: SCOP_d3iiqb_ (B:)
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Protein Domains
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Organisms
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(
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Class
:
All beta proteins
(24004)
Fold
:
LexA/Signal peptidase
(17)
Superfamily
:
LexA/Signal peptidase
(17)
Family
:
Type 1 signal peptidase
(5)
Protein domain
:
Type 1 signal peptidase
(5)
Escherichia coli [TaxId: 562]
(5)
1a
d3iiqa_
A:
1b
d3iiqb_
B:
[
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_3iiqB02 (B:154-188,B:224-262)
1b: CATH_3iiqA02 (A:154-188,A:224-262)
2a: CATH_3iiqA01 (A:79-153,A:263-319)
2b: CATH_3iiqB01 (B:80-153,B:263-323)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Complex
(381)
Topology
:
Signal Peptidase I; Chain: A, domain 2
(4)
Homologous Superfamily
:
[code=2.170.230.10, no name defined]
(4)
Escherichia coli. Organism_taxid: 83333. Strain: k-12.
(1)
1a
3iiqB02
B:154-188,B:224-262
1b
3iiqA02
A:154-188,A:224-262
Architecture
:
Ribbon
(789)
Topology
:
Umud Fragment, subunit A
(13)
Homologous Superfamily
:
Umud Fragment, subunit A
(13)
Escherichia coli. Organism_taxid: 83333. Strain: k-12.
(1)
2a
3iiqA01
A:79-153,A:263-319
2b
3iiqB01
B:80-153,B:263-323
[
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Pfam Domains
(0, 0)
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all PFAM domains
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Chain D
Asymmetric Unit 1
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