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1WKM
Biol. Unit 1
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Asym.Unit (106 KB)
Biol.Unit 1 (52 KB)
Biol.Unit 2 (53 KB)
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(1)
Title
:
THE PRODUCT BOUND FORM OF THE MN(II)LOADED METHIONINE AMINOPEPTIDASE FROM HYPERTHERMOPHILE PYROCOCCUS FURIOSUS
Authors
:
A. J. Copik, B. P. Nocek, S. B. Jang, S. I. Swierczek, S. Ruebush, L. Meng, V. M. D'Souza, J. W. Peters, B. Bennett, R. C. Holz
Date
:
01 Jun 04 (Deposition) - 22 Feb 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Aminopeptidase, Hyperthermophile, Methionine Complex, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. J. Copik, B. P. Nocek, S. I. Swierczek, S. Ruebush, S. B. Jang, L. Meng, V. M. D'Souza, J. W. Peters, B. Bennett, R. C. Holz
Epr And X-Ray Crystallographic Characterization Of The Product-Bound Form Of The Mnii-Loaded Methionyl Aminopeptidase From Pyrococcus Furiosus
Biochemistry V. 44 121 2005
(for further references see the
PDB file header
)
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: METHIONINE (METa)
1b: METHIONINE (METb)
2a: MANGANESE (II) ION (MNa)
2b: MANGANESE (II) ION (MNb)
2c: MANGANESE (II) ION (MNc)
2d: MANGANESE (II) ION (MNd)
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Label:
No.
Name
Count
Type
Full Name
1
MET
1
Mod. Amino Acid
METHIONINE
2
MN
-1
Ligand/Ion
MANGANESE (II) ION
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC5 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:93 , HIS A:153 , GLU A:187 , GLU A:280 , MN A:297 , MET A:1298
BINDING SITE FOR RESIDUE MN A 296
2
AC2
SOFTWARE
ASP A:82 , ASP A:93 , GLU A:280 , MN A:296 , MET A:1298
BINDING SITE FOR RESIDUE MN A 297
3
AC5
SOFTWARE
PHE A:50 , ASN A:53 , HIS A:62 , ASP A:82 , ASP A:93 , HIS A:153 , HIS A:161 , GLU A:187 , ILE A:205 , GLU A:280 , MN A:296 , MN A:297
BINDING SITE FOR RESIDUE MET A 1298
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: MAP_2 (A:77-93)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
MAP_2
PS01202
Methionine aminopeptidase subfamily 2 signature.
MAP2_PYRFU
77-93
1
A:77-93
-
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1wkma2 (A:195-271)
1b: SCOP_d1wkmb2 (B:195-271)
2a: SCOP_d1wkma1 (A:1-194,A:272-295)
2b: SCOP_d1wkmb1 (B:1-194,B:272-295)
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)
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(
)
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(
)
Class
:
All alpha proteins
(14657)
Fold
:
DNA/RNA-binding 3-helical bundle
(1299)
Superfamily
:
Winged helix DNA-binding domain
(576)
Family
:
Methionine aminopeptidase, insert domain
(23)
Protein domain
:
Methionine aminopeptidase, insert domain
(23)
Pyrococcus furiosus [TaxId: 2261]
(5)
1a
d1wkma2
A:195-271
1b
d1wkmb2
B:195-271
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Creatinase/aminopeptidase
(103)
Superfamily
:
Creatinase/aminopeptidase
(103)
Family
:
Creatinase/aminopeptidase
(99)
Protein domain
:
Methionine aminopeptidase
(66)
Pyrococcus furiosus [TaxId: 2261]
(5)
2a
d1wkma1
A:1-194,A:272-295
2b
d1wkmb1
B:1-194,B:272-295
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_1wkmA01 (A:1-194,A:272-295)
1b: CATH_1wkmB01 (B:1-194,B:272-295)
2a: CATH_1wkmA02 (A:195-271)
2b: CATH_1wkmB02 (B:195-271)
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Organisms
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)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Creatine Amidinohydrolase
(114)
Homologous Superfamily
:
Creatinase/methionine aminopeptidase superfamily
(114)
Pyrococcus furiosus. Organism_taxid: 2261.
(1)
1a
1wkmA01
A:1-194,A:272-295
1b
1wkmB01
B:1-194,B:272-295
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Arc Repressor Mutant, subunit A
(1030)
Homologous Superfamily
:
'winged helix' repressor DNA binding domain
(507)
Pyrococcus furiosus. Organism_taxid: 2261.
(2)
2a
1wkmA02
A:195-271
2b
1wkmB02
B:195-271
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Pfam Domains
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Asymmetric Unit 1
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Asym.Unit (106 KB)
Header - Asym.Unit
Biol.Unit 1 (52 KB)
Header - Biol.Unit 1
Biol.Unit 2 (53 KB)
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