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SMTL ID : 3f9t.1
Crystal structure of L-tyrosine decarboxylase MfnA (EC 4.1.1.25) (NP_247014.1) from METHANOCOCCUS JANNASCHII at 2.11 A resolution
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 2.11 Å
Oligo State
homo-dimer
Ligands
2 x
PLP
:
PYRIDOXAL-5'-PHOSPHATE
(Non-covalent)
PLP.1:
14 residues within 4Å:
Chain A:
M.38
,
G.94
,
G.95
,
T.96
,
N.99
,
H.133
,
G.180
,
T.182
,
D.207
,
A.209
,
D.243
,
H.245
,
K.246
Chain B:
T.286
15
PLIP interactions
:
11 interactions with chain A
,
4 interactions with chain B
Hydrogen bonds:
A:G.95
,
A:T.96
,
A:T.96
,
A:N.99
,
A:D.243
,
B:T.286
,
B:T.286
Water bridges:
A:T.96
,
A:E.97
,
A:H.133
,
B:G.285
,
B:G.285
Salt bridges:
A:H.245
,
A:K.246
pi-Stacking:
A:H.133
PLP.4:
14 residues within 4Å:
Chain A:
T.286
Chain B:
M.38
,
G.94
,
G.95
,
T.96
,
N.99
,
H.133
,
G.180
,
T.182
,
D.207
,
A.209
,
D.243
,
H.245
,
K.246
14
PLIP interactions
:
3 interactions with chain A
,
11 interactions with chain B
Hydrogen bonds:
A:T.286
,
A:T.286
,
B:G.95
,
B:T.96
,
B:N.99
,
B:D.243
,
B:K.246
Water bridges:
A:G.285
,
B:T.96
,
B:E.97
,
B:H.133
Salt bridges:
B:H.245
,
B:K.246
pi-Stacking:
B:H.133
3 x
MPD
:
(4S)-2-METHYL-2,4-PENTANEDIOL
(Non-functional Binders)
MPD.2:
5 residues within 4Å:
Chain A:
P.129
,
I.130
,
A.132
,
N.366
Chain B:
Y.274
No protein-ligand interaction detected (PLIP)
MPD.3:
2 residues within 4Å:
Chain A:
R.47
,
D.51
3
PLIP interactions
:
2 interactions with chain A
,
1 interactions with chain B
Water bridges:
A:D.51
,
A:D.51
,
B:D.51
MPD.5:
8 residues within 4Å:
Chain A:
P.273
Chain B:
P.129
,
I.130
,
A.132
,
H.133
,
F.134
,
E.137
,
N.366
5
PLIP interactions
:
4 interactions with chain B
,
1 interactions with chain A
Hydrophobic interactions:
B:F.134
,
B:E.137
,
A:P.273
Water bridges:
B:E.137
,
B:Y.149
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Joint Center for Structural Genomics (JCSG), Crystal structure of L-tyrosine decarboxylase MfnA (EC 4.1.1.25) (NP_247014.1) from METHANOCOCCUS JANNASCHII at 2.11 A resolution. To be published
Release Date
2008-11-25
Peptides
L-tyrosine decarboxylase MfnA:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
B
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Secondary Structure
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2° Structure
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L-tyrosine decarboxylase MfnA
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