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1Q3U
Asym. Unit
Info
Asym.Unit (276 KB)
Biol.Unit 1 (270 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A WILD-TYPE CRE RECOMBINASE-LOXP SYNAPSE: PRE-CLEAVAGE COMPLEX
Authors
:
E. Ennifar, J. E. W. Meyer, F. Buchholz, A. F. Stewart, D. Suck
Date
:
01 Aug 03 (Deposition) - 16 Sep 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.90
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D,E,F,G,H (1x)
Keywords
:
Cre; Recombinase; Dna-Protein Complex; Crystal, Replication/Dna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. Ennifar, J. E. W. Meyer, F. Buchholz, A. F. Stewart, D. Suck
Crystal Structure Of A Wild-Type Cre Recombinase-Loxp Synapse Reveals A Novel Spacer Conformation Suggesting An Alternative Mechanism For Dna Cleavage Activation
Nucleic Acids Res. V. 31 5449 2003
(for further references see the
PDB file header
)
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Hetero Components
(3, 14)
Info
All Hetero Components
1a: IODIDE ION (IODa)
1b: IODIDE ION (IODb)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
2e: MAGNESIUM ION (MGe)
2f: MAGNESIUM ION (MGf)
2g: MAGNESIUM ION (MGg)
2h: MAGNESIUM ION (MGh)
2i: MAGNESIUM ION (MGi)
2j: MAGNESIUM ION (MGj)
3a: 2'-DEOXYURIDINE 5'-MONOPHOSPHATE (UMPa)
3b: 2'-DEOXYURIDINE 5'-MONOPHOSPHATE (UMPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
IOD
2
Ligand/Ion
IODIDE ION
2
MG
10
Ligand/Ion
MAGNESIUM ION
3
UMP
2
Mod. Nucleotide
2'-DEOXYURIDINE 5'-MONOPHOSPHATE
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:40 , LYS A:43 , DT D:111
BINDING SITE FOR RESIDUE MG D 301
2
AC2
SOFTWARE
HIS A:269
BINDING SITE FOR RESIDUE MG A 344
3
AC3
SOFTWARE
DC D:106
BINDING SITE FOR RESIDUE MG A 346
4
AC4
SOFTWARE
ASP A:157
BINDING SITE FOR RESIDUE MG A 347
5
AC5
SOFTWARE
DG G:117
BINDING SITE FOR RESIDUE MG G 306
6
AC6
SOFTWARE
DC H:120
BINDING SITE FOR RESIDUE MG H 307
7
AC7
SOFTWARE
DG C:117
BINDING SITE FOR RESIDUE MG C 308
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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Exons
(0, 0)
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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_d1q3ua1 (A:10-129)
1b: SCOP_d1q3ub1 (B:20-129)
1c: SCOP_d1q3ue1 (E:21-129)
1d: SCOP_d1q3uf1 (F:20-129)
2a: SCOP_d1q3ua2 (A:130-341)
2b: SCOP_d1q3ub2 (B:130-341)
2c: SCOP_d1q3ue2 (E:130-341)
2d: SCOP_d1q3uf2 (F:130-341)
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Families
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
SAM domain-like
(639)
Superfamily
:
lambda integrase-like, N-terminal domain
(25)
Family
:
lambda integrase-like, N-terminal domain
(24)
Protein domain
:
Cre recombinase
(20)
Bacteriophage P1 [TaxId: 10678]
(20)
1a
d1q3ua1
A:10-129
1b
d1q3ub1
B:20-129
1c
d1q3ue1
E:21-129
1d
d1q3uf1
F:20-129
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
DNA breaking-rejoining enzymes
(47)
Superfamily
:
DNA breaking-rejoining enzymes
(47)
Family
:
Lambda integrase-like, catalytic core
(31)
Protein domain
:
Cre recombinase
(20)
Bacteriophage P1 [TaxId: 10678]
(20)
2a
d1q3ua2
A:130-341
2b
d1q3ub2
B:130-341
2c
d1q3ue2
E:130-341
2d
d1q3uf2
F:130-341
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1q3uE02 (E:21-130)
1b: CATH_1q3uA02 (A:20-130)
1c: CATH_1q3uB02 (B:20-130)
1d: CATH_1q3uF02 (F:20-130)
2a: CATH_1q3uA01 (A:132-331)
2b: CATH_1q3uE01 (E:132-331)
2c: CATH_1q3uB01 (B:132-330)
2d: CATH_1q3uF01 (F:132-330)
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)
(
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Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
DNA polymerase; domain 1
(617)
Homologous Superfamily
:
[code=1.10.150.130, no name defined]
(26)
[unclassified]
(23)
1a
1q3uE02
E:21-130
1b
1q3uA02
A:20-130
1c
1q3uB02
B:20-130
1d
1q3uF02
F:20-130
Topology
:
hpI Integrase; Chain A
(31)
Homologous Superfamily
:
Intergrase catalytic core
(31)
[unclassified]
(26)
2a
1q3uA01
A:132-331
2b
1q3uE01
E:132-331
2c
1q3uB01
B:132-330
2d
1q3uF01
F:132-330
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Phage_integrase_1q3uF01 (F:138-331)
1b: PFAM_Phage_integrase_1q3uF02 (F:138-331)
1c: PFAM_Phage_integrase_1q3uF03 (F:138-331)
1d: PFAM_Phage_integrase_1q3uF04 (F:138-331)
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Clan
:
DNA-mend
(28)
Family
:
Phage_integrase
(15)
Enterobacteria phage P1 (Bacteriophage P1)
(11)
1a
Phage_integrase-1q3uF01
F:138-331
1b
Phage_integrase-1q3uF02
F:138-331
1c
Phage_integrase-1q3uF03
F:138-331
1d
Phage_integrase-1q3uF04
F:138-331
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Chain H
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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Asym.Unit (276 KB)
Header - Asym.Unit
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Header - Biol.Unit 1
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