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1KFL
Biol. Unit 1
Info
Asym.Unit (455 KB)
Biol.Unit 1 (225 KB)
Biol.Unit 2 (226 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PHENYLALANINE-REGULATED 3-DEOXY-D-ARABINO-HEPTULOSONATE-7-PHOSPHATE SYNTHASE (DAHP SYNTHASE) FROM E.COLI COMPLEXED WITH MN2+, PEP, AND PHE
Authors
:
I. A. Shumilin, C. Zhao, R. Bauerle, R. H. Kretsinger
Date
:
21 Nov 01 (Deposition) - 23 Aug 02 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Keywords
:
Beta/Alpha Barrel, Allosteric Inhibition, Feedback Regulation, Aromatic Biosynthetic Pathway, Lyase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
I. A. Shumilin, C. Zhao, R. Bauerle, R. H. Kretsinger
Allosteric Inhibition Of 3-Deoxy-D-Arabino-Heptulosonate-7-Phosphate Synthase Alters The Coordination Of Both Substrates.
J. Mol. Biol. V. 320 1147 2002
(for further references see the
PDB file header
)
[
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Hetero Components
(4, 48)
Info
All Hetero Components
1a: MANGANESE (II) ION (MNa)
1b: MANGANESE (II) ION (MNb)
1c: MANGANESE (II) ION (MNc)
1d: MANGANESE (II) ION (MNd)
1e: MANGANESE (II) ION (MNe)
1f: MANGANESE (II) ION (MNf)
1g: MANGANESE (II) ION (MNg)
1h: MANGANESE (II) ION (MNh)
2a: SELENOMETHIONINE (MSEa)
2aa: SELENOMETHIONINE (MSEaa)
2ab: SELENOMETHIONINE (MSEab)
2ac: SELENOMETHIONINE (MSEac)
2ad: SELENOMETHIONINE (MSEad)
2ae: SELENOMETHIONINE (MSEae)
2af: SELENOMETHIONINE (MSEaf)
2ag: SELENOMETHIONINE (MSEag)
2ah: SELENOMETHIONINE (MSEah)
2ai: SELENOMETHIONINE (MSEai)
2aj: SELENOMETHIONINE (MSEaj)
2ak: SELENOMETHIONINE (MSEak)
2al: SELENOMETHIONINE (MSEal)
2am: SELENOMETHIONINE (MSEam)
2an: SELENOMETHIONINE (MSEan)
2ao: SELENOMETHIONINE (MSEao)
2ap: SELENOMETHIONINE (MSEap)
2aq: SELENOMETHIONINE (MSEaq)
2ar: SELENOMETHIONINE (MSEar)
2as: SELENOMETHIONINE (MSEas)
2at: SELENOMETHIONINE (MSEat)
2au: SELENOMETHIONINE (MSEau)
2av: SELENOMETHIONINE (MSEav)
2aw: SELENOMETHIONINE (MSEaw)
2ax: SELENOMETHIONINE (MSEax)
2ay: SELENOMETHIONINE (MSEay)
2az: SELENOMETHIONINE (MSEaz)
2b: SELENOMETHIONINE (MSEb)
2ba: SELENOMETHIONINE (MSEba)
2bb: SELENOMETHIONINE (MSEbb)
2bc: SELENOMETHIONINE (MSEbc)
2bd: SELENOMETHIONINE (MSEbd)
2be: SELENOMETHIONINE (MSEbe)
2bf: SELENOMETHIONINE (MSEbf)
2bg: SELENOMETHIONINE (MSEbg)
2bh: SELENOMETHIONINE (MSEbh)
2bi: SELENOMETHIONINE (MSEbi)
2bj: SELENOMETHIONINE (MSEbj)
2bk: SELENOMETHIONINE (MSEbk)
2bl: SELENOMETHIONINE (MSEbl)
2c: SELENOMETHIONINE (MSEc)
2d: SELENOMETHIONINE (MSEd)
2e: SELENOMETHIONINE (MSEe)
2f: SELENOMETHIONINE (MSEf)
2g: SELENOMETHIONINE (MSEg)
2h: SELENOMETHIONINE (MSEh)
2i: SELENOMETHIONINE (MSEi)
2j: SELENOMETHIONINE (MSEj)
2k: SELENOMETHIONINE (MSEk)
2l: SELENOMETHIONINE (MSEl)
2m: SELENOMETHIONINE (MSEm)
2n: SELENOMETHIONINE (MSEn)
2o: SELENOMETHIONINE (MSEo)
2p: SELENOMETHIONINE (MSEp)
2q: SELENOMETHIONINE (MSEq)
2r: SELENOMETHIONINE (MSEr)
2s: SELENOMETHIONINE (MSEs)
2t: SELENOMETHIONINE (MSEt)
2u: SELENOMETHIONINE (MSEu)
2v: SELENOMETHIONINE (MSEv)
2w: SELENOMETHIONINE (MSEw)
2x: SELENOMETHIONINE (MSEx)
2y: SELENOMETHIONINE (MSEy)
2z: SELENOMETHIONINE (MSEz)
3a: PHOSPHOENOLPYRUVATE (PEPa)
3b: PHOSPHOENOLPYRUVATE (PEPb)
3c: PHOSPHOENOLPYRUVATE (PEPc)
3d: PHOSPHOENOLPYRUVATE (PEPd)
3e: PHOSPHOENOLPYRUVATE (PEPe)
3f: PHOSPHOENOLPYRUVATE (PEPf)
3g: PHOSPHOENOLPYRUVATE (PEPg)
3h: PHOSPHOENOLPYRUVATE (PEPh)
4a: PHENYLALANINE (PHEa)
4b: PHENYLALANINE (PHEb)
4c: PHENYLALANINE (PHEc)
4d: PHENYLALANINE (PHEd)
4e: PHENYLALANINE (PHEe)
4f: PHENYLALANINE (PHEf)
4g: PHENYLALANINE (PHEg)
4h: PHENYLALANINE (PHEh)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
5c: SULFATE ION (SO4c)
5d: SULFATE ION (SO4d)
5e: SULFATE ION (SO4e)
5f: SULFATE ION (SO4f)
5g: SULFATE ION (SO4g)
5h: SULFATE ION (SO4h)
5i: SULFATE ION (SO4i)
5j: SULFATE ION (SO4j)
5k: SULFATE ION (SO4k)
5l: SULFATE ION (SO4l)
5m: SULFATE ION (SO4m)
5n: SULFATE ION (SO4n)
5o: SULFATE ION (SO4o)
5p: SULFATE ION (SO4p)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MN
-1
Ligand/Ion
MANGANESE (II) ION
2
MSE
32
Mod. Amino Acid
SELENOMETHIONINE
3
PEP
4
Ligand/Ion
PHOSPHOENOLPYRUVATE
4
PHE
4
Mod. Amino Acid
PHENYLALANINE
5
SO4
8
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(20, 20)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC9 (SOFTWARE)
06: BC1 (SOFTWARE)
07: BC2 (SOFTWARE)
08: BC3 (SOFTWARE)
09: BC8 (SOFTWARE)
10: BC9 (SOFTWARE)
11: CC1 (SOFTWARE)
12: CC2 (SOFTWARE)
13: CC7 (SOFTWARE)
14: CC8 (SOFTWARE)
15: CC9 (SOFTWARE)
16: DC1 (SOFTWARE)
17: DC6 (SOFTWARE)
18: DC7 (SOFTWARE)
19: DC8 (SOFTWARE)
20: DC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
CYS A:61 , HIS A:268 , GLU A:302 , ASP A:326
BINDING SITE FOR RESIDUE MN A 1351
02
AC2
SOFTWARE
CYS B:61 , ARG B:92 , HIS B:268 , GLU B:302 , ASP B:326
BINDING SITE FOR RESIDUE MN B 2351
03
AC3
SOFTWARE
CYS C:61 , HIS C:268 , GLU C:302 , ASP C:326
BINDING SITE FOR RESIDUE MN C 3351
04
AC4
SOFTWARE
CYS D:61 , HIS D:268 , GLU D:302 , ASP D:326
BINDING SITE FOR RESIDUE MN D 4351
05
AC9
SOFTWARE
ARG A:9 , GLY B:225 , GLY B:227
BINDING SITE FOR RESIDUE SO4 A 1355
06
BC1
SOFTWARE
GLY A:225 , GLY A:227 , ASP A:228 , ARG B:9 , LYS B:45 , LYS B:48 , ASN B:50
BINDING SITE FOR RESIDUE SO4 B 2355
07
BC2
SOFTWARE
ARG C:9 , GLY D:225 , GLY D:227 , LYS G:45 , LYS G:48 , ASN G:50
BINDING SITE FOR RESIDUE SO4 C 3355
08
BC3
SOFTWARE
GLY C:225 , GLY C:227 , ARG D:9
BINDING SITE FOR RESIDUE SO4 D 4355
09
BC8
SOFTWARE
THR A:192 , ILE A:193 , LYS A:194
BINDING SITE FOR RESIDUE SO4 A 1356
10
BC9
SOFTWARE
THR B:192 , ILE B:193 , LYS B:194
BINDING SITE FOR RESIDUE SO4 B 2356
11
CC1
SOFTWARE
THR C:192 , ILE C:193 , LYS C:194
BINDING SITE FOR RESIDUE SO4 C 3356
12
CC2
SOFTWARE
THR D:192 , ILE D:193 , LYS D:194
BINDING SITE FOR RESIDUE SO4 D 4356
13
CC7
SOFTWARE
MSE A:147 , GLN A:151 , ALA A:154 , LEU A:179 , SER A:180 , PHE A:209 , SER A:211 , LYS A:214 , VAL A:221 , ASP B:6 , ASP B:7
BINDING SITE FOR RESIDUE PHE A 1354
14
CC8
SOFTWARE
ASP A:6 , ASP A:7 , MSE B:147 , GLN B:151 , ALA B:154 , GLY B:178 , LEU B:179 , SER B:180 , PHE B:209 , SER B:211 , LYS B:214 , VAL B:221
BINDING SITE FOR RESIDUE PHE B 2354
15
CC9
SOFTWARE
MSE C:147 , PRO C:150 , GLN C:151 , ALA C:154 , LEU C:179 , SER C:180 , PHE C:209 , SER C:211 , LYS C:214 , VAL C:221 , ASP D:6 , ASP D:7
BINDING SITE FOR RESIDUE PHE C 3354
16
DC1
SOFTWARE
ASP C:6 , ASP C:7 , MSE D:147 , PRO D:150 , GLN D:151 , ALA D:154 , LEU D:179 , SER D:180 , PHE D:209 , SER D:211 , LYS D:214 , VAL D:221
BINDING SITE FOR RESIDUE PHE D 4354
17
DC6
SOFTWARE
ARG A:92 , TYR A:94 , GLU A:143 , LYS A:186 , ARG A:234 , HIS A:268 , MSE A:300
BINDING SITE FOR RESIDUE PEP A 1352
18
DC7
SOFTWARE
ARG B:92 , GLU B:143 , LYS B:186 , ARG B:234 , HIS B:268 , MSE B:300
BINDING SITE FOR RESIDUE PEP B 2352
19
DC8
SOFTWARE
ARG C:92 , GLU C:143 , LYS C:186 , ARG C:234 , HIS C:268 , MSE C:300
BINDING SITE FOR RESIDUE PEP C 3352
20
DC9
SOFTWARE
ARG D:92 , GLU D:143 , LYS D:186 , ARG D:234 , HIS D:268 , MSE D:300
BINDING SITE FOR RESIDUE PEP D 4352
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Label:
End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
View:
Label:
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, 8)
Info
All SCOP Domains
1a: SCOP_d1kfla_ (A:)
1b: SCOP_d1kflb_ (B:)
1c: SCOP_d1kflc_ (C:)
1d: SCOP_d1kfld_ (D:)
1e: SCOP_d1kfle_ (E:)
1f: SCOP_d1kflf_ (F:)
1g: SCOP_d1kflg_ (G:)
1h: SCOP_d1kflh_ (H:)
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Classes
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)
(
)
Folds
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(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Aldolase
(457)
Family
:
Class I DAHP synthetase
(87)
Protein domain
:
3-deoxy-D-arabino-heptulosonate-7-phosphate synthase (DAHP synthase, AroG)
(16)
Escherichia coli, phenylalanine-regulated isozyme [TaxId: 562]
(4)
1a
d1kfla_
A:
1b
d1kflb_
B:
1c
d1kflc_
C:
1d
d1kfld_
D:
1e
d1kfle_
E:
1f
d1kflf_
F:
1g
d1kflg_
G:
1h
d1kflh_
H:
[
close SCOP info
]
CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_1kflA00 (A:2-350)
1b: CATH_1kflB00 (B:2-350)
1c: CATH_1kflC00 (C:2-350)
1d: CATH_1kflD00 (D:2-350)
1e: CATH_1kflE00 (E:2-350)
1f: CATH_1kflF00 (F:2-350)
1g: CATH_1kflG00 (G:2-350)
1h: CATH_1kflH00 (H:2-350)
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(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Aldolase class I
(887)
Escherichia coli. Organism_taxid: 562.
(43)
1a
1kflA00
A:2-350
1b
1kflB00
B:2-350
1c
1kflC00
C:2-350
1d
1kflD00
D:2-350
1e
1kflE00
E:2-350
1f
1kflF00
F:2-350
1g
1kflG00
G:2-350
1h
1kflH00
H:2-350
[
close CATH info
]
Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_DAHP_synth_1_1kflH01 (H:25-339)
1b: PFAM_DAHP_synth_1_1kflH02 (H:25-339)
1c: PFAM_DAHP_synth_1_1kflH03 (H:25-339)
1d: PFAM_DAHP_synth_1_1kflH04 (H:25-339)
1e: PFAM_DAHP_synth_1_1kflH05 (H:25-339)
1f: PFAM_DAHP_synth_1_1kflH06 (H:25-339)
1g: PFAM_DAHP_synth_1_1kflH07 (H:25-339)
1h: PFAM_DAHP_synth_1_1kflH08 (H:25-339)
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Clans
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)
(
)
Organisms
(
)
(
)
Clan
:
TIM_barrel
(694)
Family
:
DAHP_synth_1
(46)
Escherichia coli O157:H7
(1)
1a
DAHP_synth_1-1kflH01
H:25-339
1b
DAHP_synth_1-1kflH02
H:25-339
1c
DAHP_synth_1-1kflH03
H:25-339
1d
DAHP_synth_1-1kflH04
H:25-339
1e
DAHP_synth_1-1kflH05
H:25-339
1f
DAHP_synth_1-1kflH06
H:25-339
1g
DAHP_synth_1-1kflH07
H:25-339
1h
DAHP_synth_1-1kflH08
H:25-339
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