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2GVI
Biol. Unit 1
Info
Asym.Unit (46 KB)
Biol.Unit 1 (74 KB)
Biol.Unit 2 (145 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A PUTATIVE FORMYLMETHANOFURAN DEHYDROGENASE SUBUNIT E (TA1109) FROM THERMOPLASMA ACIDOPHILUM AT 1.87 A RESOLUTION
Authors
:
Joint Center For Structural Genomics (Jcsg)
Date
:
02 May 06 (Deposition) - 13 Jun 06 (Release) - 24 Oct 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.87
Chains
:
Asym. Unit : A
Biol. Unit 1: A (2x)
Biol. Unit 2: A (4x)
Keywords
:
Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. L. Axelrod, D. Das, P. Abdubek, T. Astakhova, C. Bakolitsa, D. Carlton, C. Chen, H. J. Chiu, T. Clayton, M. C. Deller, L. Duan, K. Ellrott, C. L. Farr, J. Feuerhelm, J. C. Grant, A. Grzechnik, G. W. Han, L. Jaroszewski, K. K. Jin, H. E. Klock, M. W. Knuth, P. Kozbial S. S. Krishna, A. Kumar, W. W. Lam, D. Marciano, D. Mcmullan, M. D. Miller, A. T. Morse, E. Nigoghossian, A. Nopakun, L. Okach, C. Puckett, R. Reyes, N. Sefcovic, H. J. Tien, C. B. Trame, H. Van Den Bedem, D. Weekes, T. Wooten, Q. Xu, K. O. Hodgson, J. Wooley M. A. Elsliger, A. M. Deacon, A. Godzik, S. A. Lesley, I. A. Wilson
Structures Of Three Members Of Pfam Pf02663 (Fmde) Implicated In Microbial Methanogenesis Reveal A Conserved Alpha+Beta Core Domain And An Auxiliary C-Terminal Treble-Clef Zinc Finger.
Acta Crystallogr. , Sect. F V. 66 1335 2010
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Hetero Components
(4, 42)
Info
All Hetero Components
1a: ACETIC ACID (ACYa)
1b: ACETIC ACID (ACYb)
1c: ACETIC ACID (ACYc)
1d: ACETIC ACID (ACYd)
1e: ACETIC ACID (ACYe)
1f: ACETIC ACID (ACYf)
1g: ACETIC ACID (ACYg)
1h: ACETIC ACID (ACYh)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
3a: SELENOMETHIONINE (MSEa)
3b: SELENOMETHIONINE (MSEb)
3c: SELENOMETHIONINE (MSEc)
3d: SELENOMETHIONINE (MSEd)
3e: SELENOMETHIONINE (MSEe)
3f: SELENOMETHIONINE (MSEf)
4a: UNKNOWN LIGAND (UNLa)
5a: ZINC ION (ZNa)
5b: ZINC ION (ZNb)
5c: ZINC ION (ZNc)
5d: ZINC ION (ZNd)
5e: ZINC ION (ZNe)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACY
16
Ligand/Ion
ACETIC ACID
2
EDO
12
Ligand/Ion
1,2-ETHANEDIOL
3
MSE
12
Mod. Amino Acid
SELENOMETHIONINE
4
UNL
2
Ligand/Ion
UNKNOWN LIGAND
5
ZN
-1
Ligand/Ion
ZINC ION
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Sites
(20, 20)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:16 , HIS A:18 , CYS A:20 , CYS A:61 , UNL A:400
BINDING SITE FOR RESIDUE ZN A 300
02
AC2
SOFTWARE
CYS A:174 , CYS A:177 , CYS A:195 , ASP A:198
BINDING SITE FOR RESIDUE ZN A 301
03
AC3
SOFTWARE
HIS A:102 , GLU A:153 , ACY A:410 , HOH A:472
BINDING SITE FOR RESIDUE ZN A 302
04
AC4
SOFTWARE
GLU A:130 , GLU A:149 , ACY A:411 , HOH A:521
BINDING SITE FOR RESIDUE ZN A 303
05
AC5
SOFTWARE
ASP A:117 , GLU A:156 , EDO A:406 , HOH A:513
BINDING SITE FOR RESIDUE ZN A 304
06
AC6
SOFTWARE
TYR A:22 , HIS A:45 , ASN A:59 , CYS A:61 , ARG A:122 , PRO A:128 , ZN A:300
BINDING SITE FOR RESIDUE UNL A 400
07
AC7
SOFTWARE
ASP A:117 , ARG A:120 , TYR A:121 , TYR A:154 , GLU A:156 , HOH A:463
BINDING SITE FOR RESIDUE EDO A 401
08
AC8
SOFTWARE
HOH A:456
BINDING SITE FOR RESIDUE EDO A 402
09
AC9
SOFTWARE
ASN A:63 , TYR A:74 , GLY A:75
BINDING SITE FOR RESIDUE EDO A 403
10
BC1
SOFTWARE
LYS A:35 , ILE A:36 , ARG A:120 , LYS A:123 , GLN A:124
BINDING SITE FOR RESIDUE EDO A 404
11
BC2
SOFTWARE
ILE A:36 , ALA A:37 , ARG A:120 , GLU A:156 , EDO A:406 , HOH A:515
BINDING SITE FOR RESIDUE EDO A 405
12
BC3
SOFTWARE
ASP A:117 , GLU A:156 , ZN A:304 , EDO A:405 , HOH A:516
BINDING SITE FOR RESIDUE EDO A 406
13
BC4
SOFTWARE
ARG A:104 , ASN A:105 , SER A:106 , GLU A:153 , ACY A:410 , HOH A:475
BINDING SITE FOR RESIDUE ACY A 407
14
BC5
SOFTWARE
ASP A:175 , LYS A:192
BINDING SITE FOR RESIDUE ACY A 408
15
BC6
SOFTWARE
ARG A:100 , ARG A:155
BINDING SITE FOR RESIDUE ACY A 409
16
BC7
SOFTWARE
HIS A:102 , ASN A:105 , GLU A:153 , GLU A:179 , ZN A:302 , ACY A:407 , HOH A:472
BINDING SITE FOR RESIDUE ACY A 410
17
BC8
SOFTWARE
ARG A:104 , GLU A:130 , GLU A:149 , ZN A:303 , HOH A:521
BINDING SITE FOR RESIDUE ACY A 411
18
BC9
SOFTWARE
LYS A:86 , CYS A:177 , GLU A:179 , ASP A:198
BINDING SITE FOR RESIDUE ACY A 412
19
CC1
SOFTWARE
ARG A:28 , ASP A:148 , HOH A:423
BINDING SITE FOR RESIDUE ACY A 413
20
CC2
SOFTWARE
ASN A:5 , GLU A:10 , HOH A:538
BINDING SITE FOR RESIDUE ACY A 414
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(, 0)
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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
(2, 2)
Info
All SCOP Domains
1a: SCOP_d2gvia1 (A:1-168)
2a: SCOP_d2gvia2 (A:169-201)
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(
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(
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
FwdE/GAPDH domain-like
(188)
Superfamily
:
FwdE-like
(2)
Family
:
FwdE-like
(2)
Protein domain
:
Uncharacterized protein Ta1109
(1)
Thermoplasma acidophilum [TaxId: 2303]
(1)
1a
d2gvia1
A:1-168
Class
:
Small proteins
(3458)
Fold
:
Glucocorticoid receptor-like (DNA-binding domain)
(292)
Superfamily
:
Glucocorticoid receptor-like (DNA-binding domain)
(292)
Family
:
FwdE C-terminal domain-like
(1)
Protein domain
:
Uncharacterized protein Ta1109
(1)
Thermoplasma acidophilum [TaxId: 2303]
(1)
2a
d2gvia2
A:169-201
[
close SCOP info
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CATH Domains
(3, 3)
Info
all CATH domains
1a: CATH_2gviA02 (A:22-103,A:147-161)
2a: CATH_2gviA03 (A:168-201)
3a: CATH_2gviA01 (A:2-21,A:104-146)
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(
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Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
60s Ribosomal Protein L30; Chain: A;
(235)
Homologous Superfamily
:
[code=3.30.1330.20, no name defined]
(18)
Thermoplasma acidophilum. Organism_taxid: 2303.
(1)
1a
2gviA02
A:22-103,A:147-161
Topology
:
Wheat Germ Agglutinin (Isolectin 2); domain 1
(140)
Homologous Superfamily
:
[code=3.30.60.20, no name defined]
(15)
Thermoplasma acidophilum. Organism_taxid: 2303.
(1)
2a
2gviA03
A:168-201
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
pa2218 like fold
(1)
Homologous Superfamily
:
pa2218 like domain
(1)
Thermoplasma acidophilum. Organism_taxid: 2303.
(1)
3a
2gviA01
A:2-21,A:104-146
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Pfam Domains
(0, 0)
Info
all PFAM domains
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