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1U3E
Asym. Unit
Info
Asym.Unit (66 KB)
Biol.Unit 1 (61 KB)
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(1)
Title
:
DNA BINDING AND CLEAVAGE BY THE HNH HOMING ENDONUCLEASE I-HMUI
Authors
:
B. W. Shen, M. Landthaler, D. A. Shub, B. L. Stoddard
Date
:
21 Jul 04 (Deposition) - 31 Aug 04 (Release) - 16 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.92
Chains
:
Asym. Unit : A,B,C,M
Biol. Unit 1: A,B,C,M (1x)
Keywords
:
Hnh Catalytic Motif, Helix-Turn-Helix Dna Binding Domain, Protein-Dna Complex, Dna Binding Protein-Dna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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Reference
:
B. W. Shen, M. Landthaler, D. A. Shub, B. L. Stoddard
Dna Binding And Cleavage By The Hnh Homing Endonuclease I-Hmui.
J. Mol. Biol. V. 342 43 2004
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Hetero Components
(4, 13)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
2a: MANGANESE (II) ION (MNa)
3a: STRONTIUM ION (SRa)
3b: STRONTIUM ION (SRb)
3c: STRONTIUM ION (SRc)
3d: STRONTIUM ION (SRd)
4a: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
7
Ligand/Ion
1,2-ETHANEDIOL
2
MN
1
Ligand/Ion
MANGANESE (II) ION
3
SR
4
Ligand/Ion
STRONTIUM ION
4
TRS
1
Ligand/Ion
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
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Sites
(12, 12)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
DC B:22 , DG C:23 , ASP M:74 , ASN M:96 , HOH M:420 , HOH M:421
BINDING SITE FOR RESIDUE MN M 413
02
AC2
SOFTWARE
EDO B:403
BINDING SITE FOR RESIDUE SR A 414
03
AC3
SOFTWARE
HOH B:405
BINDING SITE FOR RESIDUE SR A 415
04
AC4
SOFTWARE
LYS M:118 , GLN M:120 , SR M:418
BINDING SITE FOR RESIDUE SR M 417
05
AC5
SOFTWARE
HOH B:404 , LYS M:118 , SR M:417
BINDING SITE FOR RESIDUE SR M 418
06
AC6
SOFTWARE
DG C:27 , DG C:28 , GLY M:50 , THR M:52
BINDING SITE FOR RESIDUE EDO C 397
07
AC7
SOFTWARE
DT B:8 , ARG M:160 , ILE M:161 , HIS M:162
BINDING SITE FOR RESIDUE EDO M 398
08
AC8
SOFTWARE
PRO M:128 , HOH M:427
BINDING SITE FOR RESIDUE EDO M 399
09
AC9
SOFTWARE
LYS M:7 , HIS M:62 , CYS M:64 , GLU M:65 , GLU M:134
BINDING SITE FOR RESIDUE EDO M 400
10
BC1
SOFTWARE
DA A:20 , DG A:21 , HOH A:416 , DG B:16
BINDING SITE FOR RESIDUE EDO A 401
11
BC2
SOFTWARE
DC A:27 , DC A:28 , SR A:414 , DA B:12 , DA B:13
BINDING SITE FOR RESIDUE EDO B 403
12
BC3
SOFTWARE
TRP M:3 , GLN M:14 , ASP M:129 , HOH M:430 , HOH M:432
BINDING SITE FOR RESIDUE TRS M 404
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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)
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.
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d1u3em2 (M:106-174)
2a: SCOP_d1u3em1 (M:1-105)
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Families
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
DNA-binding domain of intron-encoded endonucleases
(3)
Superfamily
:
DNA-binding domain of intron-encoded endonucleases
(3)
Family
:
DNA-binding domain of intron-encoded endonucleases
(3)
Protein domain
:
Intron-encoded homing endonuclease I-HmuI
(1)
Bacteriophage SPO1 [TaxId: 10685]
(1)
1a
d1u3em2
M:106-174
Fold
:
His-Me finger endonucleases
(64)
Superfamily
:
His-Me finger endonucleases
(64)
Family
:
Intron-encoded homing endonucleases
(9)
Protein domain
:
Intron-encoded homing endonuclease I-HmuI
(1)
Bacteriophage SPO1 [TaxId: 10685]
(1)
2a
d1u3em1
M:1-105
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1u3eM02 (M:107-174)
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)
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(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Arc Repressor Mutant, subunit A
(1030)
Homologous Superfamily
:
'winged helix' repressor DNA binding domain
(507)
[unclassified]
(77)
1a
1u3eM02
M:107-174
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Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_HNH_3_1u3eM01 (M:53-98)
2a: PFAM_NUMOD4_1u3eM02 (M:1-47)
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Clans
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Clan
:
His-Me_finger
(38)
Family
:
HNH_3
(1)
Bacillus phage SP01 (Bacteriophage SP01)
(1)
1a
HNH_3-1u3eM01
M:53-98
Clan
:
no clan defined [family: NUMOD4]
(1)
Family
:
NUMOD4
(1)
Bacillus phage SP01 (Bacteriophage SP01)
(1)
2a
NUMOD4-1u3eM02
M:1-47
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Chain M
Asymmetric Unit 1
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