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SMTL ID : 6pl0.1
Crystal structure of the dark-adapted full-length bacteriophytochrome XccBphP from Xanthomonas campestris in the Pr state bound to BV chromophore
Coordinates
PDB Format
Method
X-RAY DIFFRACTION 2.96 Å
Oligo State
homo-dimer
Ligands
2 x
BLA
:
BILIVERDINE IX ALPHA
(Covalent)
(Non-covalent)
BLA.1:
24 residues within 4Å:
Chain A:
C.19
,
E.22
,
I.24
,
M.172
,
Y.201
,
S.204
,
D.205
,
I.206
,
P.207
,
A.210
,
Y.214
,
R.220
,
R.252
,
V.254
,
S.255
,
H.258
,
Y.261
,
M.265
,
T.270
,
V.272
,
S.286
,
H.288
,
S.476
,
P.477
17
PLIP interactions
:
17 interactions with chain A
Hydrophobic interactions:
A:I.24
,
A:Y.201
,
A:Y.201
,
A:I.206
,
A:I.206
,
A:A.210
,
A:Y.214
,
A:V.272
Hydrogen bonds:
A:D.205
,
A:Y.214
,
A:S.255
,
A:S.286
Water bridges:
A:D.205
Salt bridges:
A:R.220
,
A:R.252
,
A:H.258
pi-Cation interactions:
A:H.258
BLA.2:
26 residues within 4Å:
Chain B:
C.19
,
E.22
,
I.24
,
M.172
,
Y.174
,
Y.201
,
S.204
,
D.205
,
I.206
,
P.207
,
A.210
,
Y.214
,
R.220
,
R.252
,
V.254
,
S.255
,
V.257
,
H.258
,
Y.261
,
M.265
,
T.270
,
V.272
,
S.286
,
H.288
,
S.476
,
P.477
16
PLIP interactions
:
16 interactions with chain B
Hydrophobic interactions:
B:Y.174
,
B:Y.201
,
B:I.206
,
B:P.207
,
B:A.210
,
B:Y.214
,
B:V.257
Hydrogen bonds:
B:D.205
,
B:Y.214
,
B:S.255
,
B:S.286
Water bridges:
B:D.205
,
B:H.258
Salt bridges:
B:R.220
,
B:R.252
pi-Stacking:
B:H.258
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Otero, L.H. et al., Structural basis for the Pr-Pfr long-range signaling mechanism of a full-length bacterial phytochrome at the atomic level. Sci Adv (2021)
Release Date
2020-12-30
Peptides
Bacteriophytochrome:
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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Bacteriophytochrome
Related Entries With Identical Sequence
5akp.1
Cartoon
Cartoon
Tube
Trace
Lines
Ball+Stick
Licorice
Hyperball
Rope
Surface
Spacefill
Outline
Fog
Background
Transparent
Resolution
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