PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
1FP4
Asym. Unit
Info
Asym.Unit (334 KB)
Biol.Unit 1 (327 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF THE ALPHA-H195Q MUTANT OF NITROGENASE
Authors
:
M. Sorlie, J. Christiansen, B. J. Lemon, J. W. Peters, D. R. Dean, B. J. Hales
Date
:
30 Aug 00 (Deposition) - 20 Nov 02 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Iron-Sulfur-Molybdenum Protein, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Sorlie, J. Christiansen, B. J. Lemon, J. W. Peters, D. R. Dean, B. J. Hales
Mechanistic Features And Structure Of The Nitrogenase Alpha-Gln195 Mofe Protein
Biochemistry V. 40 1540 2001
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(4, 8)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
2a: FE-MO-S CLUSTER (CFMa)
2b: FE-MO-S CLUSTER (CFMb)
3a: FE-S CLUSTER (CLPa)
3b: FE-S CLUSTER (CLPb)
4a: 3-HYDROXY-3-CARBOXY-ADIPIC ACID (HCAa)
4b: 3-HYDROXY-3-CARBOXY-ADIPIC ACID (HCAb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
2
Ligand/Ion
CALCIUM ION
2
CFM
2
Ligand/Ion
FE-MO-S CLUSTER
3
CLP
2
Ligand/Ion
FE-S CLUSTER
4
HCA
2
Ligand/Ion
3-HYDROXY-3-CARBOXY-ADIPIC ACID
[
close Hetero Component info
]
Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LYS A:433 , ARG B:108 , GLU B:109 , ASP D:353 , ASP D:357
BINDING SITE FOR RESIDUE CA D 524
2
AC2
SOFTWARE
ASP B:353 , ASP B:357 , LYS C:433 , ARG D:108 , GLU D:109
BINDING SITE FOR RESIDUE CA B 524
3
AC3
SOFTWARE
ALA A:65 , ARG A:96 , GLN A:191 , GLY A:424 , ILE A:425 , HIS A:442 , CFM A:496 , HOH A:507
BINDING SITE FOR RESIDUE HCA A 494
4
AC4
SOFTWARE
ALA C:65 , ARG C:96 , GLN C:191 , GLY C:424 , ILE C:425 , HIS C:442 , CFM C:497 , HOH C:506 , HOH C:545 , HOH C:555
BINDING SITE FOR RESIDUE HCA C 495
5
AC5
SOFTWARE
VAL A:70 , ARG A:96 , GLN A:195 , TYR A:229 , ILE A:231 , CYS A:275 , SER A:278 , ILE A:355 , GLY A:356 , GLY A:357 , LEU A:358 , ARG A:359 , PHE A:381 , HIS A:442 , HCA A:494 , HOH A:551
BINDING SITE FOR RESIDUE CFM A 496
6
AC6
SOFTWARE
VAL C:70 , ARG C:96 , GLN C:195 , TYR C:229 , ILE C:231 , CYS C:275 , SER C:278 , ILE C:355 , GLY C:356 , GLY C:357 , LEU C:358 , ARG C:359 , PHE C:381 , HIS C:442 , HCA C:495 , HOH C:545
BINDING SITE FOR RESIDUE CFM C 497
7
AC7
SOFTWARE
CYS A:62 , TYR A:64 , PRO A:85 , GLY A:87 , CYS A:88 , TYR A:91 , CYS A:154 , GLY A:185 , CYS B:70 , PRO B:72 , SER B:92 , CYS B:95 , TYR B:98 , CYS B:153 , SER B:188
BINDING SITE FOR RESIDUE CLP A 498
8
AC8
SOFTWARE
CYS C:62 , TYR C:64 , PRO C:85 , GLY C:87 , CYS C:88 , TYR C:91 , CYS C:154 , GLY C:185 , CYS D:70 , PRO D:72 , SER D:92 , CYS D:95 , TYR D:98 , CYS D:153 , SER D:188
BINDING SITE FOR RESIDUE CLP C 499
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 8)
Info
All PROSITE Patterns/Profiles
1: NITROGENASE_1_1 (A:81-88,C:81-88,B:88-95,D:88-95)
2: NITROGENASE_1_2 (B:151-165,D:151-165,A:152-166,C:15...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
NITROGENASE_1_1
PS00699
Nitrogenases component 1 alpha and beta subunits signature 1.
NIFD_AZOVI
81-88
2
A:81-88
C:81-88
NIFK_AZOVI
88-95
2
B:88-95
D:88-95
2
NITROGENASE_1_2
PS00090
Nitrogenases component 1 alpha and beta subunits signature 2.
NIFK_AZOVI
151-165
2
B:151-165
D:151-165
NIFD_AZOVI
152-166
2
A:152-166
C:152-166
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
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
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1fp4a_ (A:)
1b: SCOP_d1fp4c_ (C:)
2a: SCOP_d1fp4b_ (B:)
2b: SCOP_d1fp4d_ (D:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Chelatase-like
(149)
Superfamily
:
Helical backbone metal receptor
(102)
Family
:
Nitrogenase iron-molybdenum protein
(41)
Protein domain
:
Nitrogenase iron-molybdenum protein, alpha chain
(15)
Azotobacter vinelandii [TaxId: 354]
(10)
1a
d1fp4a_
A:
1b
d1fp4c_
C:
Protein domain
:
Nitrogenase iron-molybdenum protein, beta chain
(20)
Azotobacter vinelandii [TaxId: 354]
(15)
2a
d1fp4b_
B:
2b
d1fp4d_
D:
[
close SCOP info
]
CATH Domains
(2, 14)
Info
all CATH domains
1a: CATH_1fp4A02 (A:63-205)
1b: CATH_1fp4B01 (B:70-215)
1c: CATH_1fp4D01 (D:70-215)
1d: CATH_1fp4A03 (A:206-320)
1e: CATH_1fp4C03 (C:206-320)
1f: CATH_1fp4B03 (B:365-470)
1g: CATH_1fp4D03 (D:365-470)
1h: CATH_1fp4B02 (B:216-320)
1i: CATH_1fp4D02 (D:216-320)
1j: CATH_1fp4A01 (A:5-62,A:345-479)
1k: CATH_1fp4C01 (C:5-62,C:345-479)
1l: CATH_1fp4C02 (C:63-205)
2a: CATH_1fp4B04 (B:321-364,B:485-523)
2b: CATH_1fp4D04 (D:321-364,D:485-523)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
Nitrogenase molybdenum iron protein domain
(45)
Azotobacter vinelandii. Organism_taxid: 354.
(3)
1a
1fp4A02
A:63-205
1b
1fp4B01
B:70-215
1c
1fp4D01
D:70-215
1d
1fp4A03
A:206-320
1e
1fp4C03
C:206-320
1f
1fp4B03
B:365-470
1g
1fp4D03
D:365-470
1h
1fp4B02
B:216-320
1i
1fp4D02
D:216-320
1j
1fp4A01
A:5-62,A:345-479
1k
1fp4C01
C:5-62,C:345-479
1l
1fp4C02
C:63-205
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Nitrogenase Molybdenum-iron Protein, subunit B; domain 4
(19)
Homologous Superfamily
:
Nitrogenase Molybdenum-iron Protein, subunit B, domain 4
(19)
Azotobacter vinelandii. Organism_taxid: 354.
(3)
2a
1fp4B04
B:321-364,B:485-523
2b
1fp4D04
D:321-364,D:485-523
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Chain C
Chain D
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (334 KB)
Header - Asym.Unit
Biol.Unit 1 (327 KB)
Header - Biol.Unit 1
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
1FP4
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help