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1D8T
Asym. Unit
Info
Asym.Unit (147 KB)
Biol.Unit 1 (74 KB)
Biol.Unit 2 (70 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF ELONGATION FACTOR, TU (EF-TU-MGGDP) COMPLEXED WITH GE2270A, A THIAZOLYL PEPTIDE ANTIBIOTIC
Authors
:
S. E. Heffron, F. Jurnak
Date
:
25 Oct 99 (Deposition) - 25 Oct 00 (Release) - 18 Apr 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.35
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,D (1x)
Keywords
:
Hydrolase-Antibiotic Complex, Thiopeptide, Antibiotic, Antibacterial, Thiazole, Oxazole, Hydrolase, Gtpase, Translation Elongation Factor, Protein Synthesis, Nucleotide-Binding, Phosphorylation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. E. Heffron, F. Jurnak
Structure Of An Ef-Tu Complex With A Thiazolyl Peptide Antibiotic Determined At 2. 35 A Resolution: Atomic Basis Fo Ge2270A Inhibition Of Ef-Tu.
Biochemistry V. 39 37 2000
[
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Hetero Components
(10, 54)
Info
All Hetero Components
01a: ACETATE ION (ACTa)
01aa: ACETATE ION (ACTaa)
01ab: ACETATE ION (ACTab)
01ac: ACETATE ION (ACTac)
01ad: ACETATE ION (ACTad)
01b: ACETATE ION (ACTb)
01c: ACETATE ION (ACTc)
01d: ACETATE ION (ACTd)
01e: ACETATE ION (ACTe)
01f: ACETATE ION (ACTf)
01g: ACETATE ION (ACTg)
01h: ACETATE ION (ACTh)
01i: ACETATE ION (ACTi)
01j: ACETATE ION (ACTj)
01k: ACETATE ION (ACTk)
01l: ACETATE ION (ACTl)
01m: ACETATE ION (ACTm)
01n: ACETATE ION (ACTn)
01o: ACETATE ION (ACTo)
01p: ACETATE ION (ACTp)
01q: ACETATE ION (ACTq)
01r: ACETATE ION (ACTr)
01s: ACETATE ION (ACTs)
01t: ACETATE ION (ACTt)
01u: ACETATE ION (ACTu)
01v: ACETATE ION (ACTv)
01w: ACETATE ION (ACTw)
01x: ACETATE ION (ACTx)
01y: ACETATE ION (ACTy)
01z: ACETATE ION (ACTz)
02a: (2Z)-2-AMINO-3-SULFANYLBUT-2-ENOIC... (BB6a)
02b: (2Z)-2-AMINO-3-SULFANYLBUT-2-ENOIC... (BB6b)
03a: (2Z)-2-AMINO-4-METHOXY-3-SULFANYLB... (BB7a)
03b: (2Z)-2-AMINO-4-METHOXY-3-SULFANYLB... (BB7b)
04a: (2S,3S)-BETA-HYDROXY-PHENYLALANINE (BB8a)
04b: (2S,3S)-BETA-HYDROXY-PHENYLALANINE (BB8b)
05a: (2Z)-2-AMINO-3-SULFANYLPROP-2-ENOI... (BB9a)
05b: (2Z)-2-AMINO-3-SULFANYLPROP-2-ENOI... (BB9b)
05c: (2Z)-2-AMINO-3-SULFANYLPROP-2-ENOI... (BB9c)
05d: (2Z)-2-AMINO-3-SULFANYLPROP-2-ENOI... (BB9d)
05e: (2Z)-2-AMINO-3-SULFANYLPROP-2-ENOI... (BB9e)
05f: (2Z)-2-AMINO-3-SULFANYLPROP-2-ENOI... (BB9f)
05g: (2Z)-2-AMINO-3-SULFANYLPROP-2-ENOI... (BB9g)
05h: (2Z)-2-AMINO-3-SULFANYLPROP-2-ENOI... (BB9h)
06a: GUANOSINE-5'-DIPHOSPHATE (GDPa)
06b: GUANOSINE-5'-DIPHOSPHATE (GDPb)
07a: N-METHYL ASPARAGINE (MENa)
07b: N-METHYL ASPARAGINE (MENb)
08a: MAGNESIUM ION (MGa)
08b: MAGNESIUM ION (MGb)
09a: 3-HYDROXY-2-IMINOPROPANOIC ACID (MH6a)
09b: 3-HYDROXY-2-IMINOPROPANOIC ACID (MH6b)
10a: AMINO GROUP (NH2a)
10b: AMINO GROUP (NH2b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
30
Ligand/Ion
ACETATE ION
2
BB6
2
Mod. Amino Acid
(2Z)-2-AMINO-3-SULFANYLBUT-2-ENOIC ACID
3
BB7
2
Mod. Amino Acid
(2Z)-2-AMINO-4-METHOXY-3-SULFANYLBUT-2-ENOIC ACID
4
BB8
2
Mod. Amino Acid
(2S,3S)-BETA-HYDROXY-PHENYLALANINE
5
BB9
8
Mod. Amino Acid
(2Z)-2-AMINO-3-SULFANYLPROP-2-ENOIC ACID
6
GDP
2
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE
7
MEN
2
Mod. Amino Acid
N-METHYL ASPARAGINE
8
MG
2
Ligand/Ion
MAGNESIUM ION
9
MH6
2
Mod. Amino Acid
3-HYDROXY-2-IMINOPROPANOIC ACID
10
NH2
2
Mod. Amino Acid
AMINO GROUP
[
close Hetero Component info
]
Sites
(38, 38)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
THR A:25 , GDP A:999 , HOH A:2018 , HOH A:2063 , HOH A:2064 , HOH A:2218
BINDING SITE FOR RESIDUE MG A 998
02
AC2
SOFTWARE
ASP A:21 , HIS A:22 , GLY A:23 , LYS A:24 , THR A:25 , THR A:26 , PHE A:46 , ASN A:135 , LYS A:136 , ASP A:138 , MET A:139 , SER A:173 , ALA A:174 , LEU A:175 , MG A:998 , HOH A:2017 , HOH A:2063 , HOH A:2064 , HOH A:2217 , HOH A:2218 , HOH A:2219
BINDING SITE FOR RESIDUE GDP A 999
03
AC3
SOFTWARE
THR A:167 , PRO A:168 , ILE A:169 , HOH A:2115 , ACT A:3019
BINDING SITE FOR RESIDUE ACT A 3002
04
AC4
SOFTWARE
ARG A:123 , ASP A:370 , ALA A:389
BINDING SITE FOR RESIDUE ACT A 3003
05
AC5
SOFTWARE
ARG A:154 , ASP A:165 , SER A:221 , ACT A:3028
BINDING SITE FOR RESIDUE ACT A 3004
06
AC6
SOFTWARE
GLU A:152 , GLU A:155 , GLN A:159 , HOH A:2221
BINDING SITE FOR RESIDUE ACT A 3005
07
AC7
SOFTWARE
THR A:302 , LEU A:362 , ILE A:363 , HOH A:2172
BINDING SITE FOR RESIDUE ACT A 3006
08
AC8
SOFTWARE
VAL A:127 , ARG A:373
BINDING SITE FOR RESIDUE ACT A 3007
09
AC9
SOFTWARE
PRO A:113 , HOH A:2221 , HOH A:2222 , ACT B:3009
BINDING SITE FOR RESIDUE ACT A 3010
10
BC1
SOFTWARE
ARG A:171 , TRP A:184 , HOH A:2223 , ACT A:3023
BINDING SITE FOR RESIDUE ACT A 3013
11
BC2
SOFTWARE
ILE A:247 , GLU A:287
BINDING SITE FOR RESIDUE ACT A 3016
12
BC3
SOFTWARE
VAL A:391 , LEU A:392
BINDING SITE FOR RESIDUE ACT A 3017
13
BC4
SOFTWARE
ILE A:169 , VAL A:170 , ARG A:171 , LYS A:187 , GLU A:190 , ACT A:3002
BINDING SITE FOR RESIDUE ACT A 3019
14
BC5
SOFTWARE
GLU A:6 , GLY A:94 , ALA A:95
BINDING SITE FOR RESIDUE ACT A 3020
15
BC6
SOFTWARE
ASP A:50 , PRO A:82 , HOH A:2017
BINDING SITE FOR RESIDUE ACT A 3021
16
BC7
SOFTWARE
SER A:65 , HIS A:66
BINDING SITE FOR RESIDUE ACT A 3022
17
BC8
SOFTWARE
VAL A:140 , ASP A:141 , ASP A:142 , GLU A:143 , LEU A:146 , ACT A:3013 , BB9 C:2
BINDING SITE FOR RESIDUE ACT A 3023
18
BC9
SOFTWARE
TYR A:129 , TYR A:198 , HOH A:2226 , HOH A:2227
BINDING SITE FOR RESIDUE ACT A 3025
19
CC1
SOFTWARE
HIS A:84 , ASN A:355
BINDING SITE FOR RESIDUE ACT A 3026
20
CC2
SOFTWARE
ILE A:220 , SER A:221 , ACT A:3004
BINDING SITE FOR RESIDUE ACT A 3028
21
CC3
SOFTWARE
TYR A:39 , LEU A:189 , ALA A:192 , ASP A:196
BINDING SITE FOR RESIDUE ACT A 3030
22
CC4
SOFTWARE
THR B:25 , ASP B:50 , GDP B:999 , HOH B:2006 , HOH B:2013 , HOH B:2140 , HOH B:2141
BINDING SITE FOR RESIDUE MG B 998
23
CC5
SOFTWARE
ASP B:21 , HIS B:22 , GLY B:23 , LYS B:24 , THR B:25 , THR B:26 , PHE B:46 , ASN B:135 , LYS B:136 , ASP B:138 , MET B:139 , SER B:173 , ALA B:174 , LEU B:175 , MG B:998 , HOH B:2004 , HOH B:2139 , HOH B:2140 , HOH B:2141
BINDING SITE FOR RESIDUE GDP B 999
24
CC6
SOFTWARE
ARG B:154 , ILE B:169 , ACT B:3008
BINDING SITE FOR RESIDUE ACT B 3001
25
CC7
SOFTWARE
VAL B:170 , ARG B:171 , LYS B:187 , GLU B:190 , ACT B:3001
BINDING SITE FOR RESIDUE ACT B 3008
26
CC8
SOFTWARE
PRO A:111 , ACT A:3010 , ARG B:318 , HIS B:319 , THR B:320 , GLU B:378
BINDING SITE FOR RESIDUE ACT B 3009
27
CC9
SOFTWARE
PHE A:323 , GLU A:348 , VAL B:140 , ASP B:141 , ASP B:142
BINDING SITE FOR RESIDUE ACT B 3011
28
DC1
SOFTWARE
GLU B:215 , ARG B:288 , TYR B:331 , ARG B:333 , HOH B:2087
BINDING SITE FOR RESIDUE ACT B 3012
29
DC2
SOFTWARE
HIS B:84 , GLY B:353 , ASN B:355
BINDING SITE FOR RESIDUE ACT B 3014
30
DC3
SOFTWARE
GLY B:41 , ALA B:42 , GLU B:68 , ASP B:70 , HOH B:2008
BINDING SITE FOR RESIDUE ACT B 3015
31
DC4
SOFTWARE
ASP B:166
BINDING SITE FOR RESIDUE ACT B 3018
32
DC5
SOFTWARE
GLU B:201 , HOH B:2144
BINDING SITE FOR RESIDUE ACT B 3024
33
DC6
SOFTWARE
ASP B:336
BINDING SITE FOR RESIDUE ACT B 3027
34
DC7
SOFTWARE
TYR B:39 , LEU B:189 , ASP B:196 , HOH B:2145 , HOH B:2146
BINDING SITE FOR RESIDUE ACT B 3029
35
DC8
SOFTWARE
GLY A:222 , PRO C:14
BINDING SITE FOR RESIDUE NH2 C 15
36
DC9
SOFTWARE
GLY B:222 , SER D:13 , PRO D:14
BINDING SITE FOR RESIDUE NH2 D 15
37
EC1
SOFTWARE
THR A:73 , GLU A:143 , ALA A:182 , GLU A:215 , ASP A:216 , GLY A:222 , ARG A:223 , VAL A:226 , THR A:228 , GLY A:229 , ARG A:230 , THR A:256 , GLY A:257 , VAL A:258 , GLU A:259 , PHE A:261 , ARG A:262 , ASN A:273 , VAL A:274 , GLY A:275 , LEU A:277 , HOH A:2024 , HOH A:2161 , ACT A:3023 , NH2 C:15 , HOH C:2002 , HOH C:2003
BINDING SITE FOR CHAIN C OF THIOCILIN GE2270
38
EC2
SOFTWARE
PRO B:72 , THR B:73 , GLU B:143 , GLU B:215 , ASP B:216 , PHE B:218 , ARG B:223 , VAL B:226 , THR B:228 , ARG B:230 , THR B:256 , GLY B:257 , VAL B:258 , GLU B:259 , PHE B:261 , ARG B:262 , LEU B:264 , ASN B:273 , VAL B:274 , GLY B:275 , LEU B:277 , HOH B:2097 , HOH B:2099 , NH2 D:15 , HOH D:2001
BINDING SITE FOR CHAIN D OF THIOCILIN GE2270
[
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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
(1, 2)
Info
All PROSITE Patterns/Profiles
1: G_TR_1 (A:50-65,B:50-65,A:50-65,B:50-65)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
G_TR_1
PS00301
Translational (tr)-type guanine nucleotide-binding (G) domain signature.
EFTU1_ECOLI
51-66
2
A:50-65
B:50-65
EFTU2_ECOLI
51-66
2
A:50-65
B:50-65
[
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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
(3, 6)
Info
All SCOP Domains
1a: SCOP_d1d8ta2 (A:297-393)
1b: SCOP_d1d8tb2 (B:297-393)
2a: SCOP_d1d8ta1 (A:205-296)
2b: SCOP_d1d8tb1 (B:205-296)
3a: SCOP_d1d8ta3 (A:3-204)
3b: SCOP_d1d8tb3 (B:9-204)
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Protein Domains
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(
)
Organisms
(
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(
)
Class
:
All beta proteins
(24004)
Fold
:
Elongation factor/aminomethyltransferase common domain
(82)
Superfamily
:
EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain
(67)
Family
:
EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain
(48)
Protein domain
:
Elongation factor Tu (EF-Tu)
(17)
Escherichia coli [TaxId: 562]
(7)
1a
d1d8ta2
A:297-393
1b
d1d8tb2
B:297-393
Fold
:
Reductase/isomerase/elongation factor common domain
(381)
Superfamily
:
Translation proteins
(218)
Family
:
Elongation factors
(77)
Protein domain
:
Elongation factor Tu (EF-Tu), domain 2
(17)
Escherichia coli [TaxId: 562]
(7)
2a
d1d8ta1
A:205-296
2b
d1d8tb1
B:205-296
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
G proteins
(693)
Protein domain
:
Elongation factor Tu (EF-Tu), N-terminal (G) domain
(19)
Escherichia coli [TaxId: 562]
(9)
3a
d1d8ta3
A:3-204
3b
d1d8tb3
B:9-204
[
close SCOP info
]
CATH Domains
(2, 6)
Info
all CATH domains
1a: CATH_1d8tA01 (A:9-202)
1b: CATH_1d8tB01 (B:9-202)
2a: CATH_1d8tB03 (B:299-392)
2b: CATH_1d8tA03 (A:300-392)
2c: CATH_1d8tA02 (A:205-299)
2d: CATH_1d8tB02 (B:205-298)
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Organisms
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)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Escherichia coli. Organism_taxid: 562
(6)
1a
1d8tA01
A:9-202
1b
1d8tB01
B:9-202
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Elongation Factor Tu (Ef-tu); domain 3
(323)
Homologous Superfamily
:
Translation factors
(223)
Escherichia coli. Organism_taxid: 562
(2)
2a
1d8tB03
B:299-392
2b
1d8tA03
A:300-392
2c
1d8tA02
A:205-299
2d
1d8tB02
B:205-298
[
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Pfam Domains
(0, 0)
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all PFAM domains
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