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1JPR
Asym. Unit
Info
Asym.Unit (136 KB)
Biol.Unit 1 (129 KB)
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(1)
Title
:
MN SUBSTITUTED RIBONUCLEOTIDE REDUCTASE R2 FROM E. COLI OXIDIZED BY NITRIC OXIDE
Authors
:
M. Hogbom, M. E. Andersson, P. Nordlund
Date
:
03 Aug 01 (Deposition) - 15 Aug 01 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.88
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Radical Protein, Mn Substituted, Oxidized By No, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Hogbom, M. E. Andersson, P. Nordlund
Crystal Structures Of Oxidized Dinuclear Manganese Centres In Mn-Substituted Class I Ribonucleotide Reductase From Escherichia Coli: Carboxylate Shifts With Implications For O2 Activation And Radical Generation.
J. Biol. Inorg. Chem. V. 6 315 2001
(for further references see the
PDB file header
)
[
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Hetero Components
(2, 18)
Info
All Hetero Components
1a: MERCURY (II) ION (HGa)
1b: MERCURY (II) ION (HGb)
1c: MERCURY (II) ION (HGc)
1d: MERCURY (II) ION (HGd)
1e: MERCURY (II) ION (HGe)
1f: MERCURY (II) ION (HGf)
1g: MERCURY (II) ION (HGg)
1h: MERCURY (II) ION (HGh)
1i: MERCURY (II) ION (HGi)
1j: MERCURY (II) ION (HGj)
1k: MERCURY (II) ION (HGk)
1l: MERCURY (II) ION (HGl)
1m: MERCURY (II) ION (HGm)
1n: MERCURY (II) ION (HGn)
2a: MANGANESE (II) ION (MNa)
2b: MANGANESE (II) ION (MNb)
2c: MANGANESE (II) ION (MNc)
2d: MANGANESE (II) ION (MNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
HG
14
Ligand/Ion
MERCURY (II) ION
2
MN
4
Ligand/Ion
MANGANESE (II) ION
[
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Sites
(18, 18)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP B:84 , GLU B:115 , HIS B:118 , GLU B:238 , MN B:402 , HOH B:984 , HOH B:1077
BINDING SITE FOR RESIDUE MN B 401
02
AC2
SOFTWARE
GLU B:115 , GLU B:204 , GLU B:238 , HIS B:241 , MN B:401 , HOH B:984
BINDING SITE FOR RESIDUE MN B 402
03
AC3
SOFTWARE
ASP A:84 , GLU A:115 , HIS A:118 , GLU A:238 , MN A:404 , HOH A:1031
BINDING SITE FOR RESIDUE MN A 403
04
AC4
SOFTWARE
GLU A:115 , GLU A:204 , GLU A:238 , HIS A:241 , MN A:403 , HOH A:964
BINDING SITE FOR RESIDUE MN A 404
05
AC5
SOFTWARE
TYR A:157 , CYS A:196 , VAL A:200 , HOH A:916 , HOH A:950
BINDING SITE FOR RESIDUE HG A 901
06
AC6
SOFTWARE
TYR B:157 , CYS B:196 , VAL B:200 , HG B:904
BINDING SITE FOR RESIDUE HG B 902
07
AC7
SOFTWARE
TYR B:194 , LEU B:195 , CYS B:268 , CYS B:272 , HOH B:920
BINDING SITE FOR RESIDUE HG B 903
08
AC8
SOFTWARE
TYR B:156 , TYR B:157 , CYS B:196 , VAL B:200 , HG B:902 , HOH B:936
BINDING SITE FOR RESIDUE HG B 904
09
AC9
SOFTWARE
ILE B:72 , CYS B:214 , PHE B:218 , MET B:296 , HOH B:1202
BINDING SITE FOR RESIDUE HG B 906
10
BC1
SOFTWARE
TYR A:194 , ALA A:265 , CYS A:272 , HOH A:958
BINDING SITE FOR RESIDUE HG A 907
11
BC2
SOFTWARE
VAL A:210 , CYS A:214 , LEU A:304
BINDING SITE FOR RESIDUE HG A 909
12
BC3
SOFTWARE
MET B:198 , CYS B:272 , LEU B:275 , PHE B:276 , HOH B:1254
BINDING SITE FOR RESIDUE HG B 910
13
BC4
SOFTWARE
VAL B:210 , ALA B:213 , CYS B:214 , LEU B:304 , HG B:912
BINDING SITE FOR RESIDUE HG B 911
14
BC5
SOFTWARE
ASN B:76 , VAL B:210 , CYS B:214 , TRP B:286 , LEU B:304 , HG B:911 , HOH B:1202
BINDING SITE FOR RESIDUE HG B 912
15
BC6
SOFTWARE
CYS A:305 , GLN A:306 , GLU A:309 , HOH A:949 , HOH A:1289
BINDING SITE FOR RESIDUE HG A 915
16
BC7
SOFTWARE
LYS B:284 , CYS B:305 , GLU B:309 , HOH B:953
BINDING SITE FOR RESIDUE HG B 916
17
BC8
SOFTWARE
TYR B:194 , ALA B:265 , HOH B:920 , HOH B:1071
BINDING SITE FOR RESIDUE HG B 917
18
BC9
SOFTWARE
LYS B:191 , ILE B:264 , GLU B:267 , CYS B:268
BINDING SITE FOR RESIDUE HG B 918
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: RIBORED_SMALL (A:114-130,B:114-130)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RIBORED_SMALL
PS00368
Ribonucleotide reductase small subunit signature.
RIR2_ECOLI
115-131
2
A:114-130
B:114-130
[
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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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1jpra_ (A:)
1b: SCOP_d1jprb_ (B:)
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Protein Domains
(
)
(
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Organisms
(
)
(
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Class
:
All alpha proteins
(14657)
Fold
:
Ferritin-like
(533)
Superfamily
:
Ferritin-like
(489)
Family
:
Ribonucleotide reductase-like
(185)
Protein domain
:
Ribonucleotide reductase R2
(45)
Escherichia coli [TaxId: 562]
(24)
1a
d1jpra_
A:
1b
d1jprb_
B:
[
close SCOP info
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1jprB00 (B:1-341)
1b: CATH_1jprA00 (A:1-340)
View:
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Classes
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)
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)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Ribonucleotide Reductase, subunit A
(86)
Homologous Superfamily
:
Ribonucleotide Reductase, subunit A
(86)
Escherichia coli. Organism_taxid: 562.
(9)
1a
1jprB00
B:1-341
1b
1jprA00
A:1-340
[
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Ribonuc_red_sm_1jprB01 (B:181-335)
1b: PFAM_Ribonuc_red_sm_1jprB02 (B:181-335)
1c: PFAM_Ribonuc_red_sm_1jprB03 (B:181-335)
1d: PFAM_Ribonuc_red_sm_1jprB04 (B:181-335)
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(
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(
)
(
)
Clan
:
Ferritin
(185)
Family
:
Ribonuc_red_sm
(41)
Escherichia coli (strain K12)
(22)
1a
Ribonuc_red_sm-1jprB01
B:181-335
1b
Ribonuc_red_sm-1jprB02
B:181-335
1c
Ribonuc_red_sm-1jprB03
B:181-335
1d
Ribonuc_red_sm-1jprB04
B:181-335
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Asymmetric Unit 1
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (136 KB)
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