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1NNJ
Asym. Unit
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Asym.Unit (66 KB)
Biol.Unit 1 (62 KB)
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(1)
Title
:
CRYSTAL STRUCTURE COMPLEX BETWEEN THE LACTOCOCCUS LACTIS FPG AND AN ABASIC SITE CONTAINING DNA
Authors
:
L. Serre, K. Pereira De Jesus, S. Boiteux, C. Zelwer, B. Castaing
Date
:
14 Jan 03 (Deposition) - 11 Feb 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,D,E
Biol. Unit 1: A,D,E (1x)
Keywords
:
Dna Repair, Fpg, Mutm, Abasic Site, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Pereira De Jesus, L. Serre, C. Zelwer, B. Castaing
Structural Insights Into Abasic Site For Fpg Specific Binding And Catalysis: Comparative High-Resolution Crystallographic Studies Of Fpg Bound To Various Models Of Abasic Site Analogues-Containing Dna.
Nucleic Acids Res. V. 33 5936 2005
(for further references see the
PDB file header
)
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Hetero Components
(3, 4)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
2a: PHOSPHORIC ACID MONO-(3-HYDROXY-PR... (PDIa)
3a: ZINC ION (ZNa)
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No.
Name
Count
Type
Full Name
1
GOL
2
Ligand/Ion
GLYCEROL
2
PDI
1
Mod. Nucleotide
PHOSPHORIC ACID MONO-(3-HYDROXY-PROPYL) ESTER
3
ZN
1
Ligand/Ion
ZINC ION
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
CYS A:245 , CYS A:248 , CYS A:265 , CYS A:268
BINDING SITE FOR RESIDUE ZN A 300
2
AC2
SOFTWARE
TYR A:58 , HIS A:72 , ARG A:74 , THR A:113 , GLU A:115 , TYR A:125 , LYS A:129 , HOH A:341 , HOH A:434 , DT D:9 , DT D:10
BINDING SITE FOR RESIDUE GOL A 301
3
AC3
SOFTWARE
GLY A:259 , DT D:6 , DT D:8 , DT D:9 , HOH D:312 , HOH D:319 , HOH D:329 , DA E:21
BINDING SITE FOR RESIDUE GOL D 302
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SAPs(SNPs)/Variants
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: FPG_CAT (A:2-112)
2: ZF_FPG_2 (A:236-270)
3: ZF_FPG_1 (A:245-269)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
FPG_CAT
PS51068
Formamidopyrimidine-DNA glycosylase catalytic domain profile.
FPG_LACLC
2-113
1
A:2-112
2
ZF_FPG_2
PS51066
Zinc finger FPG-type profile.
FPG_LACLC
238-272
1
A:236-270
3
ZF_FPG_1
PS01242
Zinc finger FPG-type signature.
FPG_LACLC
247-271
1
A:245-269
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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.
SCOP Domains
(3, 3)
Info
All SCOP Domains
1a: SCOP_d1nnja1 (A:132-219)
2a: SCOP_d1nnja2 (A:1-131)
3a: SCOP_d1nnja3 (A:224-271)
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Class
:
All alpha proteins
(14657)
Fold
:
S13-like H2TH domain
(119)
Superfamily
:
S13-like H2TH domain
(119)
Family
:
Middle domain of MutM-like DNA repair proteins
(41)
Protein domain
:
DNA repair protein MutM (Fpg)
(32)
Lactococcus lactis [TaxId: 1358]
(7)
1a
d1nnja1
A:132-219
Class
:
All beta proteins
(24004)
Fold
:
N-terminal domain of MutM-like DNA repair proteins
(42)
Superfamily
:
N-terminal domain of MutM-like DNA repair proteins
(42)
Family
:
N-terminal domain of MutM-like DNA repair proteins
(42)
Protein domain
:
DNA repair protein MutM (Fpg)
(32)
Lactococcus lactis [TaxId: 1358]
(7)
2a
d1nnja2
A:1-131
Class
:
Small proteins
(3458)
Fold
:
Glucocorticoid receptor-like (DNA-binding domain)
(292)
Superfamily
:
Glucocorticoid receptor-like (DNA-binding domain)
(292)
Family
:
C-terminal, Zn-finger domain of MutM-like DNA repair proteins
(41)
Protein domain
:
DNA repair protein MutM (Fpg)
(32)
Lactococcus lactis [TaxId: 1358]
(7)
3a
d1nnja3
A:224-271
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
(3, 3)
Info
all PFAM domains
1a: PFAM_H2TH_1nnjA01 (A:131-219)
2a: PFAM_zf_FPG_IleRS_1nnjA02 (A:242-271)
3a: PFAM_Fapy_DNA_glyco_1nnjA03 (A:2-115)
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Clan
:
H2TH
(43)
Family
:
H2TH
(20)
Lactococcus lactis subsp. cremoris (Streptococcus cremoris)
(7)
1a
H2TH-1nnjA01
A:131-219
Clan
:
Zn_Beta_Ribbon
(109)
Family
:
zf-FPG_IleRS
(20)
Lactococcus lactis subsp. cremoris (Streptococcus cremoris)
(7)
2a
zf-FPG_IleRS-1nnjA02
A:242-271
Clan
:
no clan defined [family: Fapy_DNA_glyco]
(20)
Family
:
Fapy_DNA_glyco
(20)
Lactococcus lactis subsp. cremoris (Streptococcus cremoris)
(7)
3a
Fapy_DNA_glyco-1nnjA03
A:2-115
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