 |
PDBsum entry 1vj2
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
Metal binding protein
|
PDB id
|
|
|
|
1vj2
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
 |
Contents |
 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
* Residue conservation analysis
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
 |
|
|
|
|
|
|
| |
|
DOI no:
|
Proteins
56:611-614
(2004)
|
|
PubMed id:
|
|
|
|
|
|
| |
|
Crystal structure of a novel manganese-containing cupin (TM1459) from Thermotoga maritima at 1.65 A resolution.
|
|
L.Jaroszewski,
R.Schwarzenbacher,
F.von Delft,
D.McMullan,
L.S.Brinen,
J.M.Canaves,
X.Dai,
A.M.Deacon,
M.DiDonato,
M.A.Elsliger,
S.Eshagi,
R.Floyd,
A.Godzik,
C.Grittini,
S.K.Grzechnik,
E.Hampton,
I.Levin,
C.Karlak,
H.E.Klock,
E.Koesema,
J.S.Kovarik,
A.Kreusch,
P.Kuhn,
S.A.Lesley,
T.M.McPhillips,
M.D.Miller,
A.Morse,
K.Moy,
J.Ouyang,
R.Page,
K.Quijano,
R.Reyes,
F.Rezezadeh,
A.Robb,
E.Sims,
G.Spraggon,
R.C.Stevens,
H.van den Bedem,
J.Velasquez,
J.Vincent,
X.Wang,
B.West,
G.Wolf,
Q.Xu,
K.O.Hodgson,
J.Wooley,
I.A.Wilson.
|
|
|
|
|
| |
ABSTRACT
|
|
|
|
| |
|
|
|
|
| |
Selected figure(s)
|
|
|
|
| |
|
|
|
|
|
|
Figure 1.
Figure 1. Crystal structure of TM1459 shown as (a) ribbon
diagram of Thermotoga maritima TM1459 color coded from
N-terminus (blue) to C-terminus (red) showing the domain
organization and the location of the manganese ion (purple
sphere). The 3[10]-helices (H1, H2),  -strands
( [1]-
[11]
and -sheets
A and B are indicated; and (b) ribbon diagram of TM1459 dimer.
-strands
1
and 9
of the crossover domain-swap interaction are indicated and are
labeled 1
 and
9
in
the opposing subunit.
|
|
Figure 2.
Figure 2. (a) Diagram showing the secondary structure elements
in TM1459 superimposed on its primary sequence. -Hairpins
are depicted as red loops. Residues coordinating the metal ion
are marked with blue dots. (b) The active site of TM1459 showing
the proposed manganese ion (Mn), its coordinating residues
(His52, His54, His58, His92, and two waters) and Cys106,
adjacent to the unidentified density modeled as UNL, is depicted
in ball and stick. The atoms are indicated as follows: carbon
(grey), oxygen (red), nitrogen (blue), sulfur (orange) and
manganese (purple). Metal-ligand bonds are represented as dashed
yellow lines.
|
|
|
|
|
|
| |
The above figures are
reprinted
by permission from John Wiley & Sons, Inc.:
Proteins
(2004,
56,
611-614)
copyright 2004.
|
|
|
|
|
|
|
|
|
|
|
|
|
|
 |
 |
 |
|
Literature references that cite this PDB file's key reference
|
|
|
| |
PubMed id
|
|
Reference
|
|
|
|
|
|
G.Agarwal,
M.Rajavel,
B.Gopal,
and
N.Srinivasan
(2009).
Structure-based phylogeny as a diagnostic for functional characterization of proteins with a cupin fold.
|
| |
PLoS One,
4,
e5736.
|
|
|
|
|
|
|
C.R.Simmons,
Q.Liu,
Q.Huang,
Q.Hao,
T.P.Begley,
P.A.Karplus,
and
M.H.Stipanuk
(2006).
Crystal structure of mammalian cysteine dioxygenase. A novel mononuclear iron center for cysteine thiol oxidation.
|
| |
J Biol Chem,
281,
18723-18733.
|
|
|
PDB codes:
|
|
|
|
|
|
|
|
K.H.Chin,
C.C.Chou,
A.H.Wang,
and
S.H.Chou
(2006).
Crystal structure of XC5357 from Xanthomonas campestris: a putative tetracenomycin polyketide synthesis protein adopting a novel cupin subfamily structure.
|
| |
Proteins,
65,
1046-1050.
|
|
|
PDB code:
|
|
|
|
|
|
|
|
Q.Xu,
R.Schwarzenbacher,
S.S.Krishna,
D.McMullan,
S.Agarwalla,
K.Quijano,
P.Abdubek,
E.Ambing,
H.Axelrod,
T.Biorac,
J.M.Canaves,
H.J.Chiu,
M.A.Elsliger,
C.Grittini,
S.K.Grzechnik,
M.DiDonato,
J.Hale,
E.Hampton,
G.W.Han,
J.Haugen,
M.Hornsby,
L.Jaroszewski,
H.E.Klock,
M.W.Knuth,
E.Koesema,
A.Kreusch,
P.Kuhn,
M.D.Miller,
K.Moy,
E.Nigoghossian,
J.Paulsen,
R.Reyes,
C.Rife,
G.Spraggon,
R.C.Stevens,
H.van den Bedem,
J.Velasquez,
A.White,
G.Wolf,
K.O.Hodgson,
J.Wooley,
A.M.Deacon,
A.Godzik,
S.A.Lesley,
and
I.A.Wilson
(2006).
Crystal structure of acireductone dioxygenase (ARD) from Mus musculus at 2.06 angstrom resolution.
|
| |
Proteins,
64,
808-813.
|
|
|
PDB code:
|
|
|
|
|
|
|
|
S.B.Conners,
E.F.Mongodin,
M.R.Johnson,
C.I.Montero,
K.E.Nelson,
and
R.M.Kelly
(2006).
Microbial biochemistry, physiology, and biotechnology of hyperthermophilic Thermotoga species.
|
| |
FEMS Microbiol Rev,
30,
872-905.
|
|
|
|
|
|
|
K.McLuskey,
S.Cameron,
F.Hammerschmidt,
and
W.N.Hunter
(2005).
Structure and reactivity of hydroxypropylphosphonic acid epoxidase in fosfomycin biosynthesis by a cation- and flavin-dependent mechanism.
|
| |
Proc Natl Acad Sci U S A,
102,
14221-14226.
|
|
|
PDB codes:
|
|
|
|
|
|
|
|
R.Page,
A.M.Deacon,
S.A.Lesley,
and
R.C.Stevens
(2005).
Shotgun crystallization strategy for structural genomics II: crystallization conditions that produce high resolution structures for T. maritima proteins.
|
| |
J Struct Funct Genomics,
6,
209-217.
|
|
|
|
|
|
The most recent references are shown first.
Citation data come partly from CiteXplore and partly
from an automated harvesting procedure. Note that this is likely to be
only a partial list as not all journals are covered by
either method. However, we are continually building up the citation data
so more and more references will be included with time.
Where a reference describes a PDB structure, the PDB
codes are
shown on the right.
|
|
Links
