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SMTL ID : 3vlz.1
Assimilatory nitrite reductase (Nii3) - N226K mutant - SO3 full complex from tobacco leaf
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 2.07 Å
Oligo State
monomer
Ligands
1 x
SRM
:
SIROHEME
(Non-covalent)
SRM.1:
30 residues within 4Å:
Chain A:
F.125
,
R.127
,
M.136
,
R.138
,
T.170
,
T.171
,
R.172
,
N.174
,
Q.176
,
R.178
,
R.252
,
K.253
,
K.255
,
I.270
,
F.293
,
F.294
,
S.295
,
R.338
,
Q.431
,
A.468
,
C.469
,
T.470
,
C.475
,
N.512
,
T.513
,
C.514
,
Q.516
Ligands:
SF4.2
,
CL.4
,
SO3.6
47
PLIP interactions
:
47 interactions with chain A
,
Hydrophobic interactions:
A:F.125
,
A:T.170
,
A:R.172
,
A:F.294
,
A:N.512
,
A:Q.516
Hydrogen bonds:
A:T.170
,
A:T.170
,
A:T.171
,
A:T.171
,
A:N.174
,
A:Q.176
,
A:F.294
,
A:Q.431
,
A:T.470
,
A:T.470
,
A:Q.516
Water bridges:
A:K.120
,
A:K.120
,
A:R.127
,
A:R.172
,
A:R.172
,
A:N.209
,
A:R.252
,
A:R.252
,
A:G.292
,
A:R.334
,
A:R.334
,
A:K.483
Salt bridges:
A:K.120
,
A:R.127
,
A:R.127
,
A:R.138
,
A:R.172
,
A:R.178
,
A:R.252
,
A:R.252
,
A:K.253
,
A:K.253
,
A:K.255
,
A:K.255
,
A:R.338
,
A:R.338
,
A:K.483
pi-Cation interactions:
A:K.253
,
A:K.255
Metal complexes:
A:C.514
1 x
SF4
:
IRON/SULFUR CLUSTER
(Non-covalent)
SF4.2:
12 residues within 4Å:
Chain A:
C.469
,
T.470
,
C.475
,
Q.477
,
A.478
,
T.508
,
G.509
,
C.510
,
N.512
,
T.513
,
C.514
Ligands:
SRM.1
4
PLIP interactions
:
4 interactions with chain A
,
Metal complexes:
A:C.469
,
A:C.475
,
A:C.510
,
A:C.514
1 x
K
:
POTASSIUM ION
(Non-covalent)
K.3:
7 residues within 4Å:
Chain A:
H.399
,
I.400
,
G.403
,
E.430
,
Q.431
,
N.432
,
L.466
5
PLIP interactions
:
3 interactions with chain A
,
2 Ligand-Water interactions
Metal complexes:
A:I.400
,
A:E.430
,
A:Q.431
,
H
2
O.1
,
H
2
O.1
2 x
CL
:
CHLORIDE ION
(Non-functional Binders)
CL.4:
5 residues within 4Å:
Chain A:
K.120
,
F.125
,
M.204
,
R.208
Ligands:
SRM.1
Ligand excluded by PLIP
CL.5:
3 residues within 4Å:
Chain A:
R.128
,
K.129
,
G.476
Ligand excluded by PLIP
1 x
SO3
:
SULFITE ION
(Non-covalent)
SO3.6:
5 residues within 4Å:
Chain A:
R.138
,
R.208
,
K.253
,
K.255
Ligands:
SRM.1
6
PLIP interactions
:
6 interactions with chain A
Hydrogen bonds:
A:R.138
,
A:R.138
,
A:R.208
,
A:R.208
,
A:K.253
,
A:K.255
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Nakano, S. et al., X-ray crystal structure of a mutant assimilatory nitrite reductase that shows sulfite reductase-like activity. Chem.Biodivers. (2012)
Release Date
2012-09-26
Peptides
Nitrite reductase:
A
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
Export Alignment
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Secondary Structure
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DSSP
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Fade Mismatches
Enhance Mismatches
Chain
Unique Chain
Rainbow
2° Structure
Bfactor
Bfactor Range
SOA
Entropy
Clustal
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Size
Charged
Polar
Proline
Ser/Thr
Cysteine
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Nitrite reductase
Related Entries With Identical Sequence
3vlx.1
|
3vly.1
|
3vm0.1
|
3vm1.1
Cartoon
Cartoon
Tube
Trace
Lines
Ball+Stick
Licorice
Hyperball
Rope
Surface
Spacefill
Outline
Fog
Background
Transparent
Resolution
Low
Medium
High
Extreme