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1KFL
Asym. Unit
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
)
[
close entry info
]
Hetero Components
(5, 104)
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
8
Ligand/Ion
MANGANESE (II) ION
2
MSE
64
Mod. Amino Acid
SELENOMETHIONINE
3
PEP
8
Ligand/Ion
PHOSPHOENOLPYRUVATE
4
PHE
8
Mod. Amino Acid
PHENYLALANINE
5
SO4
16
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(40, 40)
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)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (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
AC5
SOFTWARE
CYS E:61 , HIS E:268 , GLU E:302 , ASP E:326
BINDING SITE FOR RESIDUE MN E 5351
06
AC6
SOFTWARE
CYS F:61 , ARG F:92 , HIS F:268 , GLU F:302 , ASP F:326
BINDING SITE FOR RESIDUE MN F 6351
07
AC7
SOFTWARE
CYS G:61 , HIS G:268 , GLU G:302 , ASP G:326
BINDING SITE FOR RESIDUE MN G 7351
08
AC8
SOFTWARE
CYS H:61 , ARG H:92 , HIS H:268 , GLU H:302 , ASP H:326
BINDING SITE FOR RESIDUE MN H 8351
09
AC9
SOFTWARE
ARG A:9 , GLY B:225 , GLY B:227
BINDING SITE FOR RESIDUE SO4 A 1355
10
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
11
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
12
BC3
SOFTWARE
GLY C:225 , GLY C:227 , ARG D:9
BINDING SITE FOR RESIDUE SO4 D 4355
13
BC4
SOFTWARE
ARG E:9 , GLY F:225 , GLY F:227
BINDING SITE FOR RESIDUE SO4 E 5355
14
BC5
SOFTWARE
GLY E:225 , GLY E:227 , ARG F:9
BINDING SITE FOR RESIDUE SO4 F 6355
15
BC6
SOFTWARE
ARG G:9 , GLY H:225 , GLY H:227 , ASP H:228
BINDING SITE FOR RESIDUE SO4 H 7355
16
BC7
SOFTWARE
GLY G:225 , GLY G:227 , ARG H:9
BINDING SITE FOR RESIDUE SO4 H 8355
17
BC8
SOFTWARE
THR A:192 , ILE A:193 , LYS A:194
BINDING SITE FOR RESIDUE SO4 A 1356
18
BC9
SOFTWARE
THR B:192 , ILE B:193 , LYS B:194
BINDING SITE FOR RESIDUE SO4 B 2356
19
CC1
SOFTWARE
THR C:192 , ILE C:193 , LYS C:194
BINDING SITE FOR RESIDUE SO4 C 3356
20
CC2
SOFTWARE
THR D:192 , ILE D:193 , LYS D:194
BINDING SITE FOR RESIDUE SO4 D 4356
21
CC3
SOFTWARE
THR E:192 , ILE E:193 , LYS E:194
BINDING SITE FOR RESIDUE SO4 E 5356
22
CC4
SOFTWARE
THR F:192 , ILE F:193 , LYS F:194
BINDING SITE FOR RESIDUE SO4 F 6356
23
CC5
SOFTWARE
THR G:192 , ILE G:193 , LYS G:194
BINDING SITE FOR RESIDUE SO4 G 7356
24
CC6
SOFTWARE
THR H:192 , ILE H:193 , LYS H:194
BINDING SITE FOR RESIDUE SO4 H 8356
25
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
26
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
27
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
28
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
29
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
30
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
31
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
32
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
33
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
34
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
35
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
36
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
37
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
38
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
39
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
40
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 not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
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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.
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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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:
[
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]
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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(
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Organisms
(
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(
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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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Asym.Unit (455 KB)
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