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1KFL
Biol. Unit 2
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
(21, 21)
Info
All Sites
01: AC5 (SOFTWARE)
02: AC6 (SOFTWARE)
03: AC7 (SOFTWARE)
04: AC8 (SOFTWARE)
05: BC2 (SOFTWARE)
06: BC4 (SOFTWARE)
07: BC5 (SOFTWARE)
08: BC6 (SOFTWARE)
09: BC7 (SOFTWARE)
10: CC3 (SOFTWARE)
11: CC4 (SOFTWARE)
12: CC5 (SOFTWARE)
13: CC6 (SOFTWARE)
14: DC2 (SOFTWARE)
15: DC3 (SOFTWARE)
16: DC4 (SOFTWARE)
17: DC5 (SOFTWARE)
18: EC1 (SOFTWARE)
19: EC2 (SOFTWARE)
20: EC3 (SOFTWARE)
21: EC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC5
SOFTWARE
CYS E:61 , HIS E:268 , GLU E:302 , ASP E:326
BINDING SITE FOR RESIDUE MN E 5351
02
AC6
SOFTWARE
CYS F:61 , ARG F:92 , HIS F:268 , GLU F:302 , ASP F:326
BINDING SITE FOR RESIDUE MN F 6351
03
AC7
SOFTWARE
CYS G:61 , HIS G:268 , GLU G:302 , ASP G:326
BINDING SITE FOR RESIDUE MN G 7351
04
AC8
SOFTWARE
CYS H:61 , ARG H:92 , HIS H:268 , GLU H:302 , ASP H:326
BINDING SITE FOR RESIDUE MN H 8351
05
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
06
BC4
SOFTWARE
ARG E:9 , GLY F:225 , GLY F:227
BINDING SITE FOR RESIDUE SO4 E 5355
07
BC5
SOFTWARE
GLY E:225 , GLY E:227 , ARG F:9
BINDING SITE FOR RESIDUE SO4 F 6355
08
BC6
SOFTWARE
ARG G:9 , GLY H:225 , GLY H:227 , ASP H:228
BINDING SITE FOR RESIDUE SO4 H 7355
09
BC7
SOFTWARE
GLY G:225 , GLY G:227 , ARG H:9
BINDING SITE FOR RESIDUE SO4 H 8355
10
CC3
SOFTWARE
THR E:192 , ILE E:193 , LYS E:194
BINDING SITE FOR RESIDUE SO4 E 5356
11
CC4
SOFTWARE
THR F:192 , ILE F:193 , LYS F:194
BINDING SITE FOR RESIDUE SO4 F 6356
12
CC5
SOFTWARE
THR G:192 , ILE G:193 , LYS G:194
BINDING SITE FOR RESIDUE SO4 G 7356
13
CC6
SOFTWARE
THR H:192 , ILE H:193 , LYS H:194
BINDING SITE FOR RESIDUE SO4 H 8356
14
DC2
SOFTWARE
MSE E:147 , PRO E:150 , GLN E:151 , ALA E:154 , LEU E:179 , SER E:180 , PHE E:209 , SER E:211 , LYS E:214 , VAL E:221 , ASP F:6 , ASP F:7
BINDING SITE FOR RESIDUE PHE E 5354
15
DC3
SOFTWARE
ASP E:6 , ASP E:7 , MSE F:147 , GLN F:151 , ALA F:154 , GLY F:178 , LEU F:179 , SER F:180 , PHE F:209 , SER F:211 , LYS F:214 , VAL F:221
BINDING SITE FOR RESIDUE PHE F 6354
16
DC4
SOFTWARE
MSE G:147 , PRO G:150 , GLN G:151 , ALA G:154 , LEU G:179 , SER G:180 , PHE G:209 , SER G:211 , LYS G:214 , VAL G:221 , ASP H:6 , ASP H:7
BINDING SITE FOR RESIDUE PHE G 7354
17
DC5
SOFTWARE
ASP G:6 , ASP G:7 , MSE H:147 , PRO H:150 , GLN H:151 , ALA H:154 , GLY H:178 , LEU H:179 , SER H:180 , PHE H:209 , SER H:211 , LYS H:214 , VAL H:221
BINDING SITE FOR RESIDUE PHE H 8354
18
EC1
SOFTWARE
ARG E:92 , GLU E:143 , LYS E:186 , ARG E:234 , HIS E:268 , MSE E:300
BINDING SITE FOR RESIDUE PEP E 5352
19
EC2
SOFTWARE
ARG F:92 , GLU F:143 , LYS F:186 , ARG F:234 , HIS F:268 , MSE F:300
BINDING SITE FOR RESIDUE PEP F 6352
20
EC3
SOFTWARE
ARG G:92 , GLU G:143 , LYS G:186 , ARG G:234 , HIS G:268 , MSE G:300
BINDING SITE FOR RESIDUE PEP G 7352
21
EC4
SOFTWARE
ARG H:92 , GLU H:143 , LYS H:186 , ARG H:234 , HIS H:268 , MSE H:300
BINDING SITE FOR RESIDUE PEP H 8352
[
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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
;
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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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(
)
(
)
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)
View:
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Clans
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)
(
)
Families
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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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