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1BIQ
Asym. Unit
Info
Asym.Unit (128 KB)
Biol.Unit 1 (122 KB)
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(1)
Title
:
RIBONUCLEOSIDE-DIPHOSPHATE REDUCTASE 1 BETA CHAIN MUTANT E238A
Authors
:
D. T. Logan, F. Demare, B. O. Persson, A. Slaby, B. M. Sjoberg, P. Nordlund
Date
:
18 Jun 98 (Deposition) - 13 Jan 99 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.05
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Oxidoreductase, Dna Replication, Iron
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. T. Logan, F. Demare, B. O. Persson, A. Slaby, B. M. Sjoberg, P. Nordlund
Crystal Structures Of Two Self-Hydroxylating Ribonucleotide Reductase Protein R2 Mutants: Structural Basis For The Oxygen-Insertion Step Of Hydroxylation Reactions Catalyzed By Diiron Proteins.
Biochemistry V. 37 10798 1998
(for further references see the
PDB file header
)
[
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Hetero Components
(5, 24)
Info
All Hetero Components
1a: FE (II) ION (FE2a)
1b: FE (II) ION (FE2b)
1c: FE (II) ION (FE2c)
2a: FE (III) ION (FEa)
3a: MERCURY (II) ION (HGa)
3b: MERCURY (II) ION (HGb)
3c: MERCURY (II) ION (HGc)
3d: MERCURY (II) ION (HGd)
3e: MERCURY (II) ION (HGe)
3f: MERCURY (II) ION (HGf)
3g: MERCURY (II) ION (HGg)
3h: MERCURY (II) ION (HGh)
3i: MERCURY (II) ION (HGi)
3j: MERCURY (II) ION (HGj)
3k: MERCURY (II) ION (HGk)
3l: MERCURY (II) ION (HGl)
3m: MERCURY (II) ION (HGm)
3n: MERCURY (II) ION (HGn)
3o: MERCURY (II) ION (HGo)
3p: MERCURY (II) ION (HGp)
4a: META-TYROSINE (MTYa)
5a: HYDROXIDE ION (OHa)
5b: HYDROXIDE ION (OHb)
5c: HYDROXIDE ION (OHc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
2
FE
1
Ligand/Ion
FE (III) ION
1
FE2
3
Ligand/Ion
FE (II) ION
3
HG
16
Ligand/Ion
MERCURY (II) ION
4
MTY
1
Mod. Amino Acid
META-TYROSINE
5
OH
3
Ligand/Ion
HYDROXIDE ION
[
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]
Sites
(25, 25)
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)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: FE1 (UNKNOWN)
25: FE2 (UNKNOWN)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:84 , GLU A:115 , HIS A:118 , MTY A:208 , FE A:377 , OH A:378 , OH A:379
BINDING SITE FOR RESIDUE FE2 A 376
02
AC2
SOFTWARE
GLU A:115 , GLU A:204 , MTY A:208 , HIS A:241 , FE2 A:376 , OH A:378
BINDING SITE FOR RESIDUE FE A 377
03
AC3
SOFTWARE
ASP B:84 , GLU B:115 , HIS B:118 , FE2 B:377 , OH B:378
BINDING SITE FOR RESIDUE FE2 B 376
04
AC4
SOFTWARE
GLU B:115 , GLU B:204 , HIS B:241 , FE2 B:376 , OH B:378
BINDING SITE FOR RESIDUE FE2 B 377
05
AC5
SOFTWARE
GLU A:115 , HIS A:118 , GLU A:204 , MTY A:208 , HIS A:241 , FE2 A:376 , FE A:377 , OH A:379
BINDING SITE FOR RESIDUE OH A 378
06
AC6
SOFTWARE
ASP A:84 , HIS A:118 , MTY A:208 , ILE A:234 , FE2 A:376 , OH A:378
BINDING SITE FOR RESIDUE OH A 379
07
AC7
SOFTWARE
GLU B:115 , HIS B:118 , GLU B:204 , ALA B:238 , HIS B:241 , FE2 B:376 , FE2 B:377
BINDING SITE FOR RESIDUE OH B 378
08
AC8
SOFTWARE
TYR A:156 , TYR A:157 , CYS A:196 , VAL A:200 , HG A:385
BINDING SITE FOR RESIDUE HG A 380
09
AC9
SOFTWARE
TYR B:157 , CYS B:196 , VAL B:200 , HG B:381
BINDING SITE FOR RESIDUE HG B 379
10
BC1
SOFTWARE
TYR B:194 , LEU B:195 , CYS B:268 , CYS B:272
BINDING SITE FOR RESIDUE HG B 380
11
BC2
SOFTWARE
TYR B:156 , TYR B:157 , CYS B:196 , VAL B:200 , HG B:379
BINDING SITE FOR RESIDUE HG B 381
12
BC3
SOFTWARE
TYR A:194 , LEU A:195 , CYS A:268 , CYS A:272
BINDING SITE FOR RESIDUE HG A 381
13
BC4
SOFTWARE
ILE B:72 , CYS B:214 , PHE B:218 , MET B:296
BINDING SITE FOR RESIDUE HG B 382
14
BC5
SOFTWARE
TYR A:194 , ALA A:265 , CYS A:272
BINDING SITE FOR RESIDUE HG A 382
15
BC6
SOFTWARE
VAL A:210 , ALA A:213 , CYS A:214 , LEU A:304 , HG A:386
BINDING SITE FOR RESIDUE HG A 383
16
BC7
SOFTWARE
LYS A:284 , CYS A:305 , GLN A:306 , GLU A:309
BINDING SITE FOR RESIDUE HG A 384
17
BC8
SOFTWARE
TYR B:194
BINDING SITE FOR RESIDUE HG B 383
18
BC9
SOFTWARE
CYS B:305 , GLU B:309
BINDING SITE FOR RESIDUE HG B 384
19
CC1
SOFTWARE
MET B:198 , CYS B:272
BINDING SITE FOR RESIDUE HG B 385
20
CC2
SOFTWARE
VAL B:210 , ALA B:213 , CYS B:214 , LEU B:304 , HG B:387
BINDING SITE FOR RESIDUE HG B 386
21
CC3
SOFTWARE
ASN B:76 , VAL B:210 , CYS B:214 , HG B:386
BINDING SITE FOR RESIDUE HG B 387
22
CC4
SOFTWARE
TYR A:157 , CYS A:196 , LEU A:197 , VAL A:200 , HG A:380
BINDING SITE FOR RESIDUE HG A 385
23
CC5
SOFTWARE
ASN A:76 , VAL A:210 , CYS A:214 , LEU A:290 , HG A:383
BINDING SITE FOR RESIDUE HG A 386
24
FE1
UNKNOWN
ASP A:84 , GLU A:115 , HIS A:118 , GLU A:204 , HIS A:241 , FE2 B:376 , FE2 B:377
DIIRON CLUSTER IN CHAIN A.
25
FE2
UNKNOWN
ASP B:84 , GLU B:115 , HIS B:118 , GLU B:204 , HIS B:241 , FE2 A:376 , FE A:377
DIIRON CLUSTER IN CHAIN B.
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
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:
Select:
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
View:
Label:
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_d1biqa_ (A:)
1b: SCOP_d1biqb_ (B:)
View:
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Classes
(
)
(
)
Folds
(
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(
)
Superfamilies
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)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
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
d1biqa_
A:
1b
d1biqb_
B:
[
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]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1biqB00 (B:1-341)
1b: CATH_1biqA00 (A:1-340)
View:
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Classes
(
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(
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(
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Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
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. Strain: mc1009.
(1)
1a
1biqB00
B:1-341
1b
1biqA00
A:1-340
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Sorry, no Info available
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Atom Selection
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Protein
Nucleic
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All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
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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