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SMTL ID : 3qqq.1
Crystal structure of non-symbiotic plant hemoglobin from Trema tomentosa
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 1.84 Å
Oligo State
homo-dimer
Ligands
2 x
HEM
:
PROTOPORPHYRIN IX CONTAINING FE
(Non-covalent)
HEM.1:
19 residues within 4Å:
Chain A:
L.56
,
F.57
,
S.58
,
Y.59
,
H.76
,
T.79
,
V.80
,
M.83
,
L.107
,
I.110
,
H.111
,
N.114
,
V.116
,
H.120
,
F.121
,
T.124
,
Y.152
,
L.155
,
I.159
23
PLIP interactions
:
23 interactions with chain A
,
Hydrophobic interactions:
A:L.56
,
A:L.56
,
A:F.57
,
A:F.57
,
A:F.57
,
A:Y.59
,
A:V.80
,
A:L.107
,
A:I.110
,
A:I.110
,
A:N.114
,
A:V.116
,
A:V.116
,
A:H.120
,
A:F.121
,
A:F.121
,
A:Y.152
,
A:I.159
Hydrogen bonds:
A:N.114
Water bridges:
A:N.114
Salt bridges:
A:K.72
Metal complexes:
A:H.76
,
A:H.111
HEM.3:
20 residues within 4Å:
Chain B:
L.56
,
F.57
,
Y.59
,
H.76
,
T.79
,
V.80
,
M.83
,
R.106
,
L.107
,
I.110
,
H.111
,
N.114
,
V.116
,
H.120
,
F.121
,
T.124
,
Y.152
,
L.155
,
V.156
,
I.159
22
PLIP interactions
:
22 interactions with chain B
,
Hydrophobic interactions:
B:L.56
,
B:L.56
,
B:F.57
,
B:F.57
,
B:F.57
,
B:Y.59
,
B:T.79
,
B:V.80
,
B:L.107
,
B:I.110
,
B:N.114
,
B:V.116
,
B:V.116
,
B:H.120
,
B:F.121
,
B:F.121
,
B:Y.152
,
B:V.156
,
B:I.159
Salt bridges:
B:R.106
Metal complexes:
B:H.76
,
B:H.111
2 x
SO4
:
SULFATE ION
(Non-functional Binders)
SO4.2:
2 residues within 4Å:
Chain A:
W.140
,
K.145
3
PLIP interactions
:
3 interactions with chain A
Hydrogen bonds:
A:W.140
Salt bridges:
A:K.133
,
A:K.145
SO4.4:
3 residues within 4Å:
Chain B:
K.133
,
W.140
,
K.145
3
PLIP interactions
:
3 interactions with chain B
Hydrogen bonds:
B:W.140
Salt bridges:
B:K.133
,
B:K.145
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Kakar, S. et al., Crystal structures of Parasponia and Trema hemoglobins: differential heme coordination is linked to quaternary structure. Biochemistry (2011)
Release Date
2011-04-27
Peptides
Non-symbiotic hemoglobin:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
B
Export Alignment
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PNG Image
Secondary Structure
None
DSSP
PSIPRED
SSpro
Colour Scheme
Fade Mismatches
Enhance Mismatches
Chain
Unique Chain
Rainbow
2° Structure
Bfactor
Bfactor Range
SOA
Entropy
Clustal
Hydrophobic
Size
Charged
Polar
Proline
Ser/Thr
Cysteine
Aliphatic
Aromatic
No Colour
Background
3D Viewer
NGL
PV
2D
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PNG
Non-symbiotic hemoglobin
Cartoon
Cartoon
Tube
Trace
Lines
Ball+Stick
Licorice
Hyperball
Rope
Surface
Spacefill
Outline
Fog
Background
Transparent
Resolution
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