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4G8T
Asym. Unit
Info
Asym.Unit (614 KB)
Biol.Unit 1 (304 KB)
Biol.Unit 2 (304 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A GLUCARATE DEHYDRATASE RELATED PROTEIN, FROM ACTINOBACILLUS SUCCINOGENES, TARGET EFI-502312, WITH SODIUM AND SULFATE BOUND, ORDERED LOOP
Authors
:
M. W. Vetting, R. Toro, R. Bhosle, N. F. Al Obaidi, L. L. Morisco, S. R. Wa S. Sojitra, E. Washington, A. Scott Glenn, S. Chowdhury, B. Evans, J. B. Hillerich, J. Love, R. D. Seidel, H. J. Imker, J. A. Gerlt, S. C. Almo, Function Initiative (Efi)
Date
:
23 Jul 12 (Deposition) - 15 Aug 12 (Release) - 15 Aug 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Enolase, Putative Glucarate Dehydratase, Enzyme Function Initiative, Efi, Structural Genomics, Lyase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. W. Vetting, R. Toro, R. Bhosle, N. F. Al Obaidi, L. L. Morisco, S. R. Wasserman, S. Sojitra, E. Washington, A. Scott Glenn, S. Chowdhury, B. Evans, J. Hammonds, B. Hillerich, J. Love, R. D. Seidel, H. J. Imker, J. A. Gerlt, S. C. Almo, Enzyme Function Initiative (Efi)
Crystal Structure Of A Glucarate Dehydratase Related Protein, From Actinobacillus Succinogenes, Target Efi-502312, With Sodium And Sulfate Bound, Ordered Loop
To Be Published
[
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Hetero Components
(5, 19)
Info
All Hetero Components
1a: 2,3-DIHYDROXY-1,4-DITHIOBUTANE (DTTa)
1b: 2,3-DIHYDROXY-1,4-DITHIOBUTANE (DTTb)
1c: 2,3-DIHYDROXY-1,4-DITHIOBUTANE (DTTc)
2a: (2R,3S)-1,4-DIMERCAPTOBUTANE-2,3-D... (DTUa)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
3g: GLYCEROL (GOLg)
4a: SODIUM ION (NAa)
4b: SODIUM ION (NAb)
4c: SODIUM ION (NAc)
4d: SODIUM ION (NAd)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
5c: SULFATE ION (SO4c)
5d: SULFATE ION (SO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
DTT
3
Ligand/Ion
2,3-DIHYDROXY-1,4-DITHIOBUTANE
2
DTU
1
Ligand/Ion
(2R,3S)-1,4-DIMERCAPTOBUTANE-2,3-DIOL
3
GOL
7
Ligand/Ion
GLYCEROL
4
NA
4
Ligand/Ion
SODIUM ION
5
SO4
4
Ligand/Ion
SULFATE ION
[
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Sites
(19, 19)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:23 , HIS A:28 , THR A:99 , TYR A:146 , PHE A:148 , LYS A:203 , ASN A:337 , HIS A:364 , ARG A:418 , HOH A:625 , HOH A:681 , HOH A:1103
BINDING SITE FOR RESIDUE SO4 A 501
02
AC2
SOFTWARE
ASP A:231 , ASN A:233 , GLU A:256 , ASP A:257 , ASN A:285
BINDING SITE FOR RESIDUE NA A 502
03
AC3
SOFTWARE
ARG A:275 , GLY A:279 , LEU A:280 , PRO A:281 , ASP A:304 , HOH A:799 , HOH A:950 , HOH A:1102
BINDING SITE FOR RESIDUE GOL A 503
04
AC4
SOFTWARE
THR A:86 , PHE A:87 , ASP A:89 , HIS A:90 , GLY D:430 , HOH D:706 , HOH D:957
BINDING SITE FOR RESIDUE GOL A 504
05
AC5
SOFTWARE
CYS A:168 , LYS A:194 , HOH A:629
BINDING SITE FOR RESIDUE DTU A 505
06
AC6
SOFTWARE
ASN B:23 , HIS B:28 , THR B:99 , TYR B:146 , LYS B:203 , ASN B:337 , HIS B:364 , ARG B:418 , HOH B:636 , HOH B:654 , HOH B:718
BINDING SITE FOR RESIDUE SO4 B 501
07
AC7
SOFTWARE
ASP B:231 , ASN B:233 , GLU B:256 , ASP B:257 , ASN B:285
BINDING SITE FOR RESIDUE NA B 502
08
AC8
SOFTWARE
ASP A:134 , GLN A:323 , MET B:80 , THR B:314 , GLN B:316 , ARG B:320 , HOH B:713 , HOH B:782 , HOH B:846
BINDING SITE FOR RESIDUE GOL B 503
09
AC9
SOFTWARE
MET A:80 , THR A:314 , ARG A:320 , GLY B:133 , ASP B:134 , GLN B:323 , HOH B:705 , HOH B:733 , HOH B:930
BINDING SITE FOR RESIDUE GOL B 504
10
BC1
SOFTWARE
ARG B:275 , GLY B:279 , LEU B:280 , PRO B:281 , ASP B:304 , HOH B:700 , HOH B:992 , ARG C:276
BINDING SITE FOR RESIDUE GOL B 505
11
BC2
SOFTWARE
THR B:86 , PHE B:87 , ASP B:89 , HIS B:90 , HOH B:899 , ILE C:428 , PRO C:429 , GLY C:430 , TRP C:431 , HOH C:659 , HOH C:760
BINDING SITE FOR RESIDUE GOL B 506
12
BC3
SOFTWARE
CYS B:168 , HOH B:1024 , LYS C:154
BINDING SITE FOR RESIDUE DTT B 507
13
BC4
SOFTWARE
ASN C:23 , HIS C:28 , THR C:99 , TYR C:146 , LYS C:203 , ASN C:337 , HIS C:364 , ARG C:418 , HOH C:634 , HOH C:684 , HOH C:1012
BINDING SITE FOR RESIDUE SO4 C 501
14
BC5
SOFTWARE
ASP C:231 , GLU C:256 , ASN C:285 , HOH C:728 , HOH C:746 , HOH C:1044
BINDING SITE FOR RESIDUE NA C 502
15
BC6
SOFTWARE
ARG B:276 , GLY B:279 , HOH B:700 , ARG C:275 , GLY C:279 , LEU C:280 , PRO C:281 , ASP C:304 , HOH C:897 , HOH C:1055
BINDING SITE FOR RESIDUE GOL C 503
16
BC7
SOFTWARE
CYS C:168 , GLU C:193 , HOH C:751
BINDING SITE FOR RESIDUE DTT C 504
17
BC8
SOFTWARE
ASN D:23 , HIS D:28 , THR D:99 , PHE D:148 , LYS D:203 , ASN D:337 , HIS D:364 , ARG D:418 , HOH D:626 , HOH D:635 , HOH D:945
BINDING SITE FOR RESIDUE SO4 D 501
18
BC9
SOFTWARE
ASP D:231 , ASN D:233 , GLU D:256 , ASN D:285 , HOH D:715 , HOH D:753 , HOH D:1072
BINDING SITE FOR RESIDUE NA D 502
19
CC1
SOFTWARE
CYS D:168 , GLU D:193 , LYS D:194 , HOH D:689 , HOH D:960
BINDING SITE FOR RESIDUE DTT D 503
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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;
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Exons
(0, 0)
Info
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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
(2, 8)
Info
All SCOP Domains
1a: SCOP_d4g8ta1 (A:2-133)
1b: SCOP_d4g8tb1 (B:2-133)
1c: SCOP_d4g8tc1 (C:2-133)
1d: SCOP_d4g8td1 (D:2-133)
2a: SCOP_d4g8ta2 (A:134-442)
2b: SCOP_d4g8tb2 (B:134-442)
2c: SCOP_d4g8tc2 (C:134-442)
2d: SCOP_d4g8td2 (D:134-442)
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Classes
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(
)
Folds
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(
)
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)
(
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Enolase N-terminal domain-like
(211)
Superfamily
:
Enolase N-terminal domain-like
(211)
Family
:
automated matches
(123)
Protein domain
:
automated matches
(123)
Actinobacillus succinogenes [TaxId: 339671]
(4)
1a
d4g8ta1
A:2-133
1b
d4g8tb1
B:2-133
1c
d4g8tc1
C:2-133
1d
d4g8td1
D:2-133
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Enolase C-terminal domain-like
(212)
Family
:
D-glucarate dehydratase-like
(65)
Protein domain
:
automated matches
(16)
Actinobacillus succinogenes [TaxId: 339671]
(1)
2a
d4g8ta2
A:134-442
2b
d4g8tb2
B:134-442
2c
d4g8tc2
C:134-442
2d
d4g8td2
D:134-442
[
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]
CATH Domains
(0, 0)
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Pfam Domains
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Asymmetric Unit 1
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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