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3PDI
Biol. Unit 2
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Asym.Unit (539 KB)
Biol.Unit 1 (268 KB)
Biol.Unit 2 (269 KB)
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(1)
Title
:
PRECURSOR BOUND NIFEN
Authors
:
J. T. Kaiser, Y. Hu, J. A. Wiig, D. C. Rees, M. W. Ribbe
Date
:
22 Oct 10 (Deposition) - 19 Jan 11 (Release) - 19 Jan 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Keywords
:
Nitrogenase Cofactor Maturation, Nifb, Nifdk, Nifh, Protein Binding
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
J. T. Kaiser, Y. Hu, J. A. Wiig, D. C. Rees, M. W. Ribbe
Structure Of Precursor-Bound Nifen: A Nitrogenase Femo Cofactor Maturase/Insertase.
Science V. 331 91 2011
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Hetero Components
(2, 4)
Info
All Hetero Components
1a: L-CLUSTER (FE8S9) (CZLa)
1b: L-CLUSTER (FE8S9) (CZLb)
1c: L-CLUSTER (FE8S9) (CZLc)
1d: L-CLUSTER (FE8S9) (CZLd)
2a: IRON/SULFUR CLUSTER (SF4a)
2b: IRON/SULFUR CLUSTER (SF4b)
2c: IRON/SULFUR CLUSTER (SF4c)
2d: IRON/SULFUR CLUSTER (SF4d)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CZL
2
Ligand/Ion
L-CLUSTER (FE8S9)
2
SF4
2
Ligand/Ion
IRON/SULFUR CLUSTER
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Sites
(4, 4)
Info
All Sites
1: AC5 (SOFTWARE)
2: AC6 (SOFTWARE)
3: AC7 (SOFTWARE)
4: AC8 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC5
SOFTWARE
CYS E:37 , CYS E:62 , THR E:123 , CYS E:124 , GLY E:155 , SER F:41 , CYS F:44 , PHE F:47
BINDING SITE FOR RESIDUE SF4 E 501
2
AC6
SOFTWARE
GLY E:24 , THR E:359 , GLU E:360 , GLU E:361
BINDING SITE FOR RESIDUE CZL E 502
3
AC7
SOFTWARE
CYS G:37 , PHE G:39 , CYS G:62 , THR G:123 , CYS G:124 , GLY G:155 , GLY H:43 , CYS H:44
BINDING SITE FOR RESIDUE SF4 G 501
4
AC8
SOFTWARE
CYS G:25 , ASN G:161 , ARG G:165 , ALA G:253 , THR G:359 , GLU G:360 , GLU G:361
BINDING SITE FOR RESIDUE CZL G 502
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d3pdia_ (A:)
1b: SCOP_d3pdic_ (C:)
1c: SCOP_d3pdie_ (E:)
1d: SCOP_d3pdig_ (G:)
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Chelatase-like
(149)
Superfamily
:
Helical backbone metal receptor
(102)
Family
:
automated matches
(30)
Protein domain
:
automated matches
(30)
Azotobacter vinelandii [TaxId: 322710]
(1)
1a
d3pdia_
A:
1b
d3pdic_
C:
1c
d3pdie_
E:
1d
d3pdig_
G:
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_Oxidored_nitro_3pdiG01 (G:37-443)
1b: PFAM_Oxidored_nitro_3pdiG02 (G:37-443)
1c: PFAM_Oxidored_nitro_3pdiG03 (G:37-443)
1d: PFAM_Oxidored_nitro_3pdiG04 (G:37-443)
1e: PFAM_Oxidored_nitro_3pdiH01 (H:19-432)
1f: PFAM_Oxidored_nitro_3pdiH02 (H:19-432)
1g: PFAM_Oxidored_nitro_3pdiH03 (H:19-432)
1h: PFAM_Oxidored_nitro_3pdiH04 (H:19-432)
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Clan
:
no clan defined [family: Oxidored_nitro]
(12)
Family
:
Oxidored_nitro
(12)
Azotobacter vinelandii (strain DJ / ATCC BAA-1303)
(1)
1a
Oxidored_nitro-3pdiG01
G:37-443
1b
Oxidored_nitro-3pdiG02
G:37-443
1c
Oxidored_nitro-3pdiG03
G:37-443
1d
Oxidored_nitro-3pdiG04
G:37-443
1e
Oxidored_nitro-3pdiH01
H:19-432
1f
Oxidored_nitro-3pdiH02
H:19-432
1g
Oxidored_nitro-3pdiH03
H:19-432
1h
Oxidored_nitro-3pdiH04
H:19-432
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (539 KB)
Header - Asym.Unit
Biol.Unit 1 (268 KB)
Header - Biol.Unit 1
Biol.Unit 2 (269 KB)
Header - Biol.Unit 2
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