Protein Science and Engineering Research Overview
PRESENTER
Prof. Purnananda Guptasarma
Dean, Research and Development
Coordinator, Technology Business Incubator
Professor, Department of Biological Sciences,
&
Director CoE (Centre for Protein Science, Design and Engineering)
IISER Mohali
A
c
tiviti
e
s
Studi
e
s of prot
e
in struct
u
r
e
, function, stabilit
y
, fo
l
ding and aggregation;
D
e
signing prot
e
ins/p
e
ptid
e
s with n
e
w/
i
mpro
v
e
d function;
D
e
ve
lop
m
e
nt of databas
e
s and software tools for
p
rotein sequ
e
n
ce
, stru
c
tu
r
e and
function.
Structural Bio
c
h
e
mistr
y
;
Structural Bioph
y
sics;
Protein Engine
e
ring; Bio
m
ole
c
ular
Sp
ec
tros
c
op
y
;
Mol
e
c
ular
S
e
parations; Bio
c
h
e
mi
c
al Engin
ee
ring;
S
tructural
Bioinformatics;
Protein
M
od
e
lling.
P
r
o
m
o
t
ion
of
sustaina
bl
e
d
e
v
e
lo
p
m
e
nt
The
r
e
s
e
arch
work
of
the
participating
faculty
c
o
ve
rs
the
following
areas
which
are
c
rucial
to
d
e
v
e
loping
and
c
onsolidating
the
c
ountr
y
’s
str
e
ngths
in
r
e
s
e
arch
and
e
du
c
ation/training
in
the
areas
of
prot
e
in
s
c
ien
c
e
and
e
ngine
e
ring,
as
illus
t
rated
by
some r
e
pres
e
ntative
a
c
ti
v
ities
outline
b
e
low
–
in
whi
c
h
the
participating
facu
l
ty
e
x
ce
l
at
the national and
internatio
n
al l
eve
ls :
Und
e
rstanding
m
e
c
hani
s
ms
und
e
rlying
ultr
a
-
high
ther
m
al
stabiliti
e
s
of
prot
e
ins from h
y
p
e
rthermophile
o
rganisms
Und
e
rstanding
and
manipulating
m
e
c
hanisms
und
e
rlying
the
aggr
e
g
a
tion
of prot
e
ins,
particularly
into
am
y
loid
fib
e
rs
associated
with
v
arious n
e
urod
e
g
e
n
e
rat
iv
e
disord
e
rs
Und
e
rstanding
the
m
ec
h
anisms
of
a
c
tion
of
b
a
c
t
e
rial
toxins
from
organisms
such as those
c
ausing
c
holera
D
e
ve
loping
t
e
c
hnologi
e
s
for
therap
e
utic
prot
e
ins
and
industrially
i
m
portant
e
nzy
m
e
s,
in
particular,
those
important to
t
he
biofu
e
ls
ini
t
ia
t
ive
of
the go
ve
rnm
e
nt, for substitution of natural fu
e
ls
D
e
ve
loping
t
e
c
hniques
for
the
d
e
sign
and
e
n
gine
e
ring
of
prot
e
ins
to
alt
e
r stru
c
ture, stability, fun
c
t
i
on, folding and
misfoldi
n
g
Und
e
rstanding
prot
e
in
stru
c
tures
and
d
e
ve
loping
no
ve
l
stru
c
tu
r
al
and bioinformatics
-
based
c
o
n
ce
pts
and
tools
for
the
analys
e
s
of
prot
e
ins,
i
n
c
luding m
e
thods
for
the
automated
threadin
g
-
based
p
r
e
diction
of
prot
e
in
stru
c
tures through
c
omparati
v
e
m
o
d
e
ling,
and
analys
e
s
of
the
c
ontact
n
e
tworks
of
amino a
c
ids using graph theory
t
o
e
lucidate,
e
.g., allosteric
c
hang
e
s.
In
v
olv
e
m
e
nt
in
holding
training
workshops
a
n
d
c
onfer
e
n
ce
s
in
frontier
and int
e
rdis
c
iplinary
areas
in
Bioph
y
sics
and
Computational
biology
for
the
host institution’s
students
(
B
S
-M
S
-
Ph.
D
)
and
other
und
e
rgraduate
stud
e
nts,
c
oll
e
ge tea
c
h
e
rs, and r
e
s
e
a
r
c
h
p
e
rsonnel.
CPSDE
R
e
p
o
rt
2
0
1
6
4
APPL
I
C
A
TION
S
-
O
R
I
ENTED
A
C
T
I
V
I
T
I
E
S
F
R
OM
CPSDE
HIGHL
I
GHTS
•
M
oU with
Bi
o
-
Age
Life
S
c
ienc
e
s, Mo
h
ali
for tr
a
nsfer of knowhow on 4 spe
c
ialty p
r
otein
r
e
ag
e
nts
(
201
5
)
–
P
y
r
o
c
o
c
c
us furiosus DNA
Pol
y
m
e
rase for th
e
rm
a
l c
y
c
ling
–
B
e
ta
-
2
-
mi
c
r
oglobulin
-
based
p
r
otein mol
ec
ular
we
ight mar
k
e
rs
–
C
e
l12A
e
ndoglucanase
f
or c
e
llulase appli
c
ations
–
Int
e
rfe
r
on Ga
m
ma for i
m
muno
-
biological lab app
l
ications
Date
•
M
oU with
Insti
t
ute of
C
h
e
m
ical
T
ec
hn
o
log
y
, Mu
m
bai,
for sharing of
r
ec
ombinant
e
nzy
m
e
c
lones for bi
o-
e
n
e
r
gy
appli
c
ations
(
201
5
)
•
Parti
c
ipation in a
T
ec
h
n
ology Busi
n
e
ss I
n
c
ub
a
t
o
r (
T
BI)
b
e
ing set up at
I
I
SER
M
ohali
(
201
6
);
P
r
of. Guptasar
m
a,
Di
r
ec
tor
C
PS
D
E, is also TBI
c
oo
r
dinator
•
Parti
c
ipation in
DBT
T
a
sk Force
on Bi
o
-
En
e
rgy
Appli
c
ations
(
2014- Guptasarma, Di
r
ec
tor
C
PS
D
E, is m
e
mb
e
r of the
T
ask
F
o
r
c
e
)
•
T
alks on wi
t
h
a Bi
o
-
Phar
m
a
m
a
jor
and with
a
B
i
o
-
Pro
ce
ssing
m
ajor
for
e
stablishm
e
nt of Knowl
e
dge
C
e
nt
r
e
s at
I
I
SER
M
ohali
(
201
6
)
•
Pat
e
nt filed
for a n
e
w surf
a
ce
-
t
r
e
atm
e
nt t
ec
hniq
u
e
for p
r
otein binding for
Atomic
F
o
r
c
e
M
ic
r
osco
p
y
appli
c
ations
•
F
r
om p
r
e
v
ious
w
ork,
b
ut def
e
nd
e
d su
c
ce
ssfully
aft
e
r the CPSDE b
e
gan
– US
P
A
TENT
&
4 EU
P
A
TEN
T
S obtain
e
d by
P
r
of. Guptasarma
’
s g
r
o
up for a p
r
o
ce
ss and p
r
o
du
c
t in the domain of enz
y
me
e
ngin
e
e
ring
M
O
U
s
i
g
n
e
d
f
o
r
t
r
a
n
s
f
e
r
of
k
no
w
how f
o
r
s
p
e
c
i
a
l
i
ty
pr
o
tei
n
l
a
b
o
r
a
to
r
y
r
e
a
ge
n
ts
b
etwee
n
II
SE
R
,
M
o
h
al
i,
a
nd
BAL
S,
M
o
h
a
li
A
memo
r
a
n
d
u
m
o
f
un
d
ers
t
a
nd
i
n
g
w
as
sign
e
d
on
Saturd
ay,
D
ece
m
b
er
2
6,
2
0
1
5, b
e
t
w
e
e
n
I
I
SE
R
M
o
hali
(
I
ISERM),
rep
r
esen
t
e
d
b
y
i
t
s
Ce
n
tre
f
o
r
Pro
tein
S
c
ie
n
c
e,
Design a
n
d
E
ngi
neeri
n
g
(
CPS
D
E
)
,
a
Ce
n
tre
o
f
Ex
c
ell
e
n
ce
un
d
er
th
e
Fro
n
tier
Ar
e
as
in
Sci
e
n
ce
a
n
d T
echno
l
o
gy
(
C
O
E
-FAST)
p
rogram
of
t
h
e
M
i
n
i
s
try
of
H
uman
Reso
u
rce
D
evel
o
p
m
e
n
t (
M
HRD),
Go
vt.
of
I
n
dia,
a
n
d
M/S
B
i
o
-
Age
L
i
f
e
S
c
ie
n
ces
(
B
ALS),
Mohali,
r
e
pres
e
n
t
e
d
by
i
t
s
m
a
n
agem
e
n
t,
f
o
r
t
h
e
tra
n
s
f
er
a
n
d
li
c
e
ns
i
n
g
o
f
k
no
w
h
o
w
f
o
r
produ
c
tion
a
n
d
c
o
mmerciali
z
a
tion
of
c
er
tain
s
pecial
i
ty
p
r
o
te
i
n
la
b
o
r
a
to
ry
r
eage
n
ts
w
i
t
h
resear
c
h a
p
pli
c
a
t
i
ons.
Th
e
MOU
w
as
sig
n
ed
o
n
I
I
SERM’s
b
e
half
by
Prof.
A
n
a
n
d
K.
B
achha
w
a
t
,
D
ean,
R
&
D,
a
n
d on
B
ALS’
b
e
half
by
Mr.
S
h
ashi
Ku
m
ar
Rana,
C
EO,
B
ALS,
in
the
pres
e
n
c
e
of
P
rof.
N. Sa
t
h
yam
u
r
t
h
y,
D
ire
c
tor,
I
I
SE
RM,
Dr.
P.
B
a
p
ai
a
h
,
Registrar,
I
I
SE
RM,
P
rof.
P.S.
A
h
uja
(
pa
s
t Direc
t
o
r-
Ge
n
eral
o
f
th
e
CS
I
R
)
,
A
d
j
u
n
c
t
Prof
esso
r,
I
I
SE
RM,
a
n
d
P
r
of.
P
.
Gup
tasa
r
m
a
, Profess
o
r,
D
e
p
ar
tment
o
f
B
iol
o
gi
c
al
Scie
n
c
es,
I
I
S
ERM,
a
n
d
D
irec
t
o
r,
CPS
D
E
.
Also
p
resent on
t
he
o
cc
asi
o
n
w
ere
M
s.
Pallavi
Kaila,
Mr.
Pr
i
n
ce
Ti
w
ari,
Dr.
Ar
p
a
n
a
K
u
mari,
Mr.
Ni
t
i
n Kisho
r
a
n
d
Mr.
B
his
ham
Th
a
k
u
r,
memb
ers
of
t
h
e
resear
c
h
g
rou
p
of
Pro
f.
Gup
tas
a
rma,
i
n a
d
d
i
tion
to
me
m
b
ers
o
f
th
e
m
a
n
agem
e
n
t
o
f
B
A
LS,
i
n
c
l
u
d
i
n
g
Mr.
S
u
d
e
s
h
Kumar
Ran
a
,
Ma
n
ager,
Pro
du
c
tio
n
,
Mr.
Ran
d
hir
G
u
leria,
M
a
n
ager,
Prod
u
c
t
D
evel
o
p
ment,
a
nd
Dr.
Ayesha P
a
nd
i
t, Co
o
r
d
i
n
a
tor,
Trai
n
i
n
g
a
nd
R
&
D.
T
he
pr
e
sent
M
O
U
cov
e
r
s
f
o
u
r
sp
e
c
i
al
ity
pr
o
te
i
n
r
e
a
gents
:
(
a)
a
n
e
n
zyme
used
f
o
r gen
e
tic
e
n
g
i
n
eeri
n
g,
(
b)
a
cyto
k
i
n
e
f
o
r
im
m
u
ne
c
ell
activ
a
ti
o
n
,
(
c
)
an
e
nz
yme
f
o
r poly
sacc
hari
d
e
h
ydrol
y
s
i
s,
a
n
d
(
d)
a
p
r
o
te
i
n
-
b
as
e
d
s
e
t
of
gel
mo
l
ecular
w
eig
h
t
mar
k
ers. In
th
e
f
u
t
u
re,
I
I
SE
RM
a
n
d
CP
S
DE
pl
a
n
to
a
dd
t
o
this
po
r
t
f
olio
o
f
p
r
o
du
c
t
s
t
h
rou
g
h
t
he
tra
n
s
f
er
of
k
n
o
w
ho
w
fo
r
mo
re
p
r
o
tein
r
e
a
g
e
nts
a
n
d
o
t
h
er
p
ro
t
e
i
n
p
r
o
du
c
ts
in
agre
e
ments
w
i
t
h
B
ALS,
a
s
w
ell
as o
t
h
er
i
n
tere
s
t
e
d
p
a
r
ties.
T
he
occas
i
o
n
w
a
s
a
l
a
nd
m
a
r
k
e
v
e
nt,
b
e
ing
t
he
f
ir
s
t
e
n
ga
g
eme
nt
in
t
he
i
m
po
r
ta
n
t
a
r
e
a
of
‘ac
a
d
e
m
i
a
-in
d
ustr
y
’
inter
a
c
t
ions
for
I
ISE
R
M,
a
s
a
n
a
cade
m
ic
in
s
titu
ti
o
n,
a
s
w
e
ll
a
s
for
BAL
S,
a
s
a
n
in
d
us
t
r
y
.
Th
e
o
cc
asion
w
as
also
i
m
p
o
r
t
a
n
t
i
n
t
h
at
th
e
MO
U
fo
s
ters
t
h
e
d
evel
o
p
m
e
n
t
o
f
c
a
pa
b
il
i
ty for
i
n
dige
n
ous
ma
n
uf
a
c
t
u
re
of
s
p
eciali
t
y
p
r
o
te
i
n
reag
e
n
ts.
A
c
h
e
qu
e
f
o
r
R
s
.
1,00,
0
0
0
/
-
w
as
ha
n
d
ed
o
ver
b
y
C
E
O,
B
ALS,
t
o
t
he
Regi
s
tr
a
r,
I
I
SE
RM,
as
a
o
n
e
-time
MOU
f
ee.
T
e
n p
erce
n
t
o
f
t
h
e
t
o
tal
sa
l
e
s
valu
e
of
reag
e
n
ts
c
o
m
merc
iali
z
e
d
u
nd
er
t
h
e
M
OU
w
ill
ac
c
r
u
e
to
I
I
SE
RM,
as
p
er
terms
a
nd
co
nd
i
ti
o
ns.
Mo
U S
I
G
NING
-
PHOTOG
RAP
H
S
In
t
h
e
pi
c
t
u
re
s
ho
w
n
be
l
o
w
on
t
he
top
l
e
f
t
p
a
n
e
l,
seen
si
t
ti
n
g
(
L
t
o
R)
a
r
e
Pro
f.
A
na
n
d
Kumar
B
ac
h
h
a
w
a
t
,
D
ean
, R
&
D
, I
I
SE
RM,
a
nd
Mr.
S
hashi
K
u
mar
Ran
a,
CE
O,
B
ALS.
In
t
h
e
s
a
me
pi
ct
u
re,
s
e
e
n
st
a
nd
i
n
g
(
L
to
R)
are
D
r.
P.
B
a
p
ai
a
h
,
Regi
s
trar,
I
I
SE
RM,
P
r
of.
N.
Sa
t
h
yam
u
r
t
h
y,
Di
r
ector,
I
I
SE
RM,
Pro
f.
P.
S.
A
huja
(
past
D
irec
t
o
r
-
G
e
n
eral,
CS
I
R
)
,
A
d
j
u
n
c
t
Profess
o
r,
I
I
SE
RM,
a
n
d
P
rof.
P
.
Gu
ptasarma, Prof
esso
r,
I
I
SE
RM
a
nd
Di
rec
t
o
r,
CPS
D
E.
By September, 2016 – Rs. 1.579 crores, by the end of
two years.
In the next six months, we intend to spend another 60-
70 lakhs.
During the last 1.5 years of the CoE, we shall spend the
remainder of the funds, utilizing funds both for research
and for process and product patents, as well as for
movement towards commencialization through start-
ups under our TBI.
Therefore, if MHRD wishes, it can either send the
remaining 2.5 crores now, or send 1.5 crores now, and
the remaining 1 crore when we run into a negative
balance by end of 2017.
The pacing of the expenditure during the 24 months since September, 2014 (when the CoE
began) has been as follows
•
Expenditure and fund position (in Rs. Lakh only)
CPSDE
R
e
p
o
rt
2
0
1
6
3
R
esea
r
ch
P
ub
li
ca
t
i
o
n
s
f
r
om
C
O
E
-
F
AST
(
C
PSD
E
)
PUBLICATIONS IN THE LAST SIX MONTHS (APRIL 2016-SEPTEMBER 2016)
Date
SUMMARY : The work presented in
these publications and the ones listed on
the next page sheds light on the disease-
causing mechanisms of a type of pore-
forming toxin of Vibrio cholerae –
which causes diarrheal diseases - as
well as on the disease-causing
mechanisms of certain amyloids -
known to cause human
neurodegenerative disorders. Some of
the work sheds light on the
functioning of enzymes from heat-loving
microorganisms. Some describes novel
techniques in proteomics and microscopy.
Ongoing work explores bioinformatics-
based approaches to the study of protein
architectures (internal contact schemes)
and multiplicity of functions (promiscuity),
forces that are involved in the
functioning of proteins that are
involved in human hearing (cadherins)
and disease models in yeast.
PUBLICATIONS IN THE PREVIOUS EIGHTEEN MONTHS (SEPTEMBER 2016- MARCH 2016)
CPSDE
R
e
p
o
rt
2
0
1
6
7
MANP
O
WE
R
-
DE
V
E
L
OPMENT
A
C
T
I
V
I
TI
E
S
OF
THE
CPS
D
E
Resea
r
chers
a
r
e
cu
r
r
e
n
tly
unde
r
g
o
ing
tr
a
ining
in
the
seven
(
7
)
r
es
e
a
r
ch
labora
t
ories
of
CPSD
E
fa
c
ulty:
•
7
postdoc
t
oral
fel
l
ows,
•
Over
30
d
o
ctoral
s
tud
e
nts,
•
Over
10
Masters’
l
evel
students,
•
5
Integrat
e
d
-
Ph.D
lev
e
l students,
•
Over
20
J
R
F/SRF
level
p
r
oject
a
s
sistants
•
1
postdoc
t
oral
lev
e
l
r
e
s
ea
r
ch
ass
i
stant
The
r
esea
r
c
h
cons
u
m
a
bles
expens
e
s for t
h
e
a
bove
r
esea
r
c
h
man
p
o
w
er
develop
m
ent
activities
a
r
e
part
i
ally
being
bor
n
e
f
r
om
CO
E
-
F
AST
fu
n
ds.
Of
the
abo
ve,
only
t
he
r
esea
r
ch
st
i
pends
of
the
JRF/SRF
p
r
oject
a
s
sis
t
ants
and
r
esea
r
ch
assistant
a
r
e
bei
n
g
bo
r
ne
f
r
om
C
PSDE
f
u
nds.
The
r
ema
i
ning
m
a
np
o
wer
derives
its st
i
pends
f
r
om
DS
T
-
INSPIRE,
C
SIR,
UGC,
DB
T
,
ICMR
or
I
I
SER
do
cto
r
al fell
o
w
s
hips,
or
IIS
E
R
Postdoc
t
oral
fel
l
ow
s
hips.
Date
CPSDE
R
e
p
o
rt
2
0
1
6
8
S
Y
M
PO
S
I
A/
W
ORKSHOPS
O
R
G
A
NIZ
E
D
B
Y
C
PSDE
CPSDE
R
e
p
o
rt
2
0
1
6
10
R
E
C
OG
N
I
T
I
ONS/
H
ONO
R
S
-
CPSDE
F
A
CU
L
T
Y
-
VIS
I
T
S
/
T
AL
K
S/POSTE
R
S
IN
V
O
L
VING
C
PSDE
CPS
D
E fa
c
ulty
m
e
mb
e
rs
ha
v
e
d
e
li
v
e
r
e
d
o
ve
r 60 in
v
it
e
d res
e
arch se
m
i
n
ars
outside
t
h
e
host i
n
sti
t
uti
o
n
,
since
S
e
pte
m
b
e
r
, 2014
CPS
D
E fa
c
ulty
m
e
mb
e
rs
ha
v
e
made
o
ve
r 20 re
s
e
a
r
c
h pres
e
ntatio
n
s o
u
tsi
d
e
Indi
a
,
since
S
e
pte
m
b
e
r
, 2014
W
ork f
r
o
m the
CPS
D
E
h
as b
ee
n highlight
e
d in
o
ve
r 15 S
y
m
posia
/
Conf
e
r
e
n
ce
s within
I
ndia, or abroad,
th
r
ough
r
e
s
e
a
r
c
h tal
k
s, pl
e
nary
tal
k
s,
p
o
s
ter p
r
e
s
e
ntations et
c
.
Several
CPSD
E
-
sponso
r
e
d
s
p
ec
ial tal
k
s w
e
r
e
held.
F
U
TU
R
E
V
I
S
I
O
N
A
N
D
P
L
A
N
S
FOR
T
H
E C
O
E
-
FA
S
T
CP
S
D
E
The
p
resentation
d
e
monst
r
a
tes
th
a
t the
C
P
S
DE
ha
s
f
u
lf
i
l
l
ed a
large p
a
rt of
i
ts ori
g
i
n
a
l ma
nda
te,
ha
vi
n
g
be
gu
n
t
h
e fil
in
g
of
p
a
tent
s
,
t
r
an
sf
e
r
of kn
o
w
-h
ows
to i
n
du
s
t
ry,
ha
vi
n
g
pub
l
i
shed
si
g
n
if
i
c
a
n
t
nu
mbers
of
r
e
search
p
ub
l
i
c
a
tio
n
s
(with
mo
r
e in the
pi
p
e
l
i
n
e),
h
a
vi
n
g
tr
a
i
n
ed rese
a
rch
pe
r
son
n
el at
sev
er
a
l d
i
fferent
l
evels
of ex
p
e
r
i
en
c
e a
n
d
prof
i
c
i
en
c
y (pro
je
ct assi
s
ta
n
ts, P
h
.D
sc
h
o
la
rs,
i
nt
egra
t
ed
M
S
-
P
h
.D
sc
h
o
la
rs,
p
o
st
d
o
ct
oral fel
l
o
w
s) a
n
d
h
a
vi
n
g
c
o
ndu
cted
sev
e
r
a
l
na
tio
n
a
l levels
m
eetin
g
s
a
n
d
o
n
e
inte
n
se
5
-da
y w
o
r
k
sho
p
.
In
t
h
e i
m
medi
a
te f
u
ture,
t
h
e C
P
S
D
E
h
o
p
es
to h
a
ve
:
•
H
i
g
h
er
im
pa
ct
re
s
earch
p
u
b
l
i
c
a
tio
n
s
(c
u
rre
n
t
pub
l
i
c
a
tio
n
s
a
re in
jo
u
r
na
ls of
i
mp
a
c
t f
a
ct
o
r
v
a
ry
in
g from
2.
0
0
-0
.
0
0
;
w
e ho
p
e to
h
a
ve at le
a
s
t
1
-
2 p
ap
e
rs
p
er
ye
a
r
in jo
u
r
na
ls of hi
g
h
er
im
pa
c
t
)
•
H
i
g
h
er
n
u
mb
e
rs
of
r
e
sear
c
h
p
ub
l
i
c
a
tio
n
s
(8-10
per
y
ea
r
)
•
Great
e
r
en
gag
e
ment
with
i
ndu
stry in
t
h
e pr
o
tein tec
h
n
o
l
o
g
ies sect
o
r
(
more
tech
t
r
an
sf
e
rs),
a
n
d may
b
e t
h
e
spi
n
n
i
n
g-
off
of a
c
o
mp
an
y thro
u
g
h
t
h
e
TBI.
•
Great
e
r
en
gag
e
ment
with
app
l
i
c
a
tio
n
s
-
oriented
r
ese
a
rch
•
More
t
r
an
sfe
r
s
of
kn
o
w
-h
o
ws
o
r
tec
h
n
o
l
o
g
ies
to in
d
u
s
t
r
y
•
F
i
l
in
g
of l
a
r
g
er
n
u
mbe
r
s
of
pa
tents
f
rom
R
&
D
co
n
du
cted
in the
C
P
S
DE (1
-
2 p
a
ten
t
s
p
er
year)
•
Great
e
r
ma
np
ower
devel
o
p
ment in
the a
r
ea of
pr
o
tein
scie
n
ce,
d
esign
a
n
d
en
g
i
n
e
e
r
i
n
g
, t
h
ro
u
g
h R&D
a
c
tivities
a
n
d
w
o
rks
h
o
p
s
•
I
n
tense
en
g
ag
e
m
ent in
t
h
e
Tec
hn
o
l
o
g
y Busi
n
ess
In
c
u
b
a
tor
rece
n
tly
g
r
an
ted by
t
h
e
D
ST
to IIS
E
R Mo
h
a
li
Studies in protein structure, function, stability, folding, and aggregation. Designing proteins with new functions, developing databases and software tools. Focus on sustainable development through research activities in structural biochemistry, biophysics, protein engineering, and more. Participation in workshops and conferences to promote interdisciplinary learning in biophysics and computational biology.
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PRESENTER Prof. Purnananda Guptasarma Dean, Research and Development Coordinator, Technology Business Incubator Professor, Department of Biological Sciences, & Director CoE (Centre for Protein Science, Design and Engineering) IISER Mohali
Activities Studies of protein structure, function, stability, folding and aggregation; Designing proteins/peptides with new/improved function; Development of databases and software tools for protein sequence, structure and function. Structural Biochemistry; Structural Biophysics; Protein Engineering; Biomolecular Spectroscopy; Molecular Separations; Biochemical Engineering; Structural Bioinformatics; Protein Modelling.
Promotion of sustainable development The research work of the participating faculty covers the following areas which are crucial consolidating the country s strengths in research and education/training in the areas of protein science and engineering, as illustrated by some representative activities outline below in which the participating faculty excel at the national and international levels : to developing and Understanding mechanisms underlying ultra-high thermal stabilities of proteins from hyperthermophile organisms Understanding and manipulating mechanisms underlying the aggregation of proteins, amyloid fibers associated with various neurodegenerative disorders Understanding the mechanisms of action of bacterial toxins from organisms such as those causing cholera Developing technologies for therapeutic proteins and industrially important enzymes, important to the biofuels initiative of the government, for substitution of natural fuels Developing techniques for the design and engineering of proteins to alter structure, stability, function, folding and misfolding Understanding protein structures and developing tools for the analyses of proteins, including methods for the automated threading-based prediction of protein structures through comparative modeling, and analyses of the contact networks of amino acids using graph theory to elucidate, e.g., allosteric changes. Involvement in holding training workshops and conferences in frontier and interdisciplinary areas in Biophysics and Computational biology for the host institution s students (BS-MS-Ph.D) and other undergraduate students, college teachers, and research personnel. particularly into in particular, those novel structural and bioinformatics-based concepts and
APPLICATIONS-ORIENTED ACTIVITIES FROM CPSDE CPSDE Report 2016 4 HIGHLIGHTS MoU with Bio-Age Life Sciences, Mohali for transfer of knowhow on 4 specialty protein reagents (2015) Pyrococcus furiosus DNA Polymerase for thermal cycling Beta-2-microglobulin-based protein molecular weight markers Cel12A endoglucanase for cellulase applications Interferon Gamma for immuno-biological lab applications MoU with Institute of Chemical Technology, Mumbai, for sharing of recombinant enzyme clones for bio-energy applications (2015) Participation in a Technology Business Incubator (TBI) being set up at IISER Mohali (2016); Prof. Guptasarma, Director CPSDE, is also TBI coordinator Participation in DBT Task Force on Bio-EnergyApplications (2014- Guptasarma, Director CPSDE, is member of the Task Force) Talks on with a Bio-Pharma major and with a Bio-Processing major for establishment of Knowledge Centres at IISER Mohali (2016) Patent filed for a new surface-treatment technique for protein binding for Atomic Force Microscopy applications From previous work, but defended successfully after the CPSDE began US P ATENT & 4 EU P ATENTS obtained by Prof. Guptasarma s group for a process and product in the domain of enzyme engineering
MOU signedfor transfer of knowhow for speciality proteinlaboratoryreagentsbetween MoU SIGNING - PHOTOGRAPHS IISER, Mohali, and BALS,Mohali In the picture shown below on the top left panel, seen sitting (L to R) are Prof. Anand Kumar Bachhawat,Dean, R&D, IISERM, and Mr.Shashi Kumar Rana, CEO, BALS. A memorandum of understanding was signed on Saturday, December 26, 2015, between IISER Mohali (IISERM), represented by its Centre for Protein Science, Design and Engineering (CPSDE), a Centre of Excellence under the Frontier Areas in Science and Technology (COE-FAST) program of the Ministry of Human Resource Development (MHRD), Govt. of India, Bio-Age Life Sciences (BALS), Mohali, represented by its licensing of knowhow for production and commercialization of certain speciality protein laboratory reagents with researchapplications. In the same picture, seen standing (L to R) are Dr. P. Bapaiah, Registrar, IISERM, Prof. N. Sathyamurthy, Director, IISERM, Prof. P. S. Ahuja (past Director-General, CSIR), Adjunct Professor, IISERM, and Prof. P. Guptasarma, Professor, IISERM and Director, CPSDE. and M/S management, for the transfer and The MOU was signed on IISERM s behalf by Prof. Anand K. Bachhawat, Dean, R&D, and on BALS behalf by Mr. Shashi Kumar Rana, CEO, BALS, in the presence of Prof. N. Sathyamurthy, Director, IISERM, Dr. P. Bapaiah, Registrar, IISERM, Prof. P.S. Ahuja (past Director-General of the CSIR), Adjunct Professor, IISERM, and Prof. P. Guptasarma, Professor, Department of Biological Sciences, IISERM, and Director, CPSDE. Also present on the occasion were Ms. Pallavi Kaila, Mr. Prince Tiwari, Dr. Arpana Kumari, Mr. Nitin Kishor and Mr. Bhisham Thakur, members of the research group of Prof. Guptasarma, in addition to members of the management of BALS, including Mr. Sudesh Kumar Rana, Manager, Production, Mr. Randhir Guleria, Manager, Product Development, and Dr. AyeshaPandit,Coordinator,Trainingand R&D. The present MOU covers four speciality protein reagents : (a) an enzyme used for genetic engineering, (b) a cytokine for immune cell activation, (c) an enzyme for polysaccharide hydrolysis, and (d) a protein-based set of gel molecular weight markers. In the future, IISERM and CPSDE plan to add to this portfolio of products through the transfer protein reagents and other protein products interested parties. The occasion was a landmark event, being the first engagement in the important area of academia-industry interactions for IISERM, as an academic institution, as well as for BALS, as an industry. The occasion was also important in that the MOU fosters the development of capability for indigenous manufacture of speciality protein reagents. A cheque for Rs. 1,00,000/- was handed over by CEO, BALS, to the Registrar, IISERM, as a one-time MOU fee. Ten percent of the total sales value of reagents commercialized under the MOU will accrue to IISERM,as per termsand conditions. of knowhow for more in agreements with BALS, as well as other
S N o Deliverable planned Actual achievement 1. To publish insights and findings in journals of medium to high impact in the area of biochemistry and biophysics (Impact Factor 2-9) During this six-month period, nine (9) papers of impact varying from 2.21-8.54 have been published by the CPSDE (as per table below). Also, during the previous eighteen months since the centre began, the CPSDE published fifteen (15) others papers of such quality (please see additional table). A total of seven (7) research groups are participating in the CoE. Much progress was made in operationalizing the Knowhow Transfer. Prototype DNA polymerase products were prepared and circulated to the market as samples. Progress has also been made on transfer of knowhow for interferon-gamma (non-therapeutic uses) and protein markers. 2. To operationalize a Transfer of Knowhow to Bio-Age Life Sciences, initiated in December, 2015, for technologies related to the production of DNA polymerase, cellulose, interferon-gamma and molecular weight markers To hold a national level workshop on protein design and engineering 3. A very successful national level workshop was held in May, 2016, with ~50 participants and a galaxy of renowned speakers, as well as hands-on training in software for protein design. Also to plan for three more meetings, with international participation, in February, March, and December, 2017 Plans are also mature for a meeting on Cell surface macromolecules in February, 2017, being convened by Dr. Kausik Chattopadhyay ; the Annual Symposium of the Indian Biophysical Society, in March, 2017, being convened by Prof. P. Guptasarma, the PI, who is also the Secretary of the Indian Biophysical Society; an international meeting on Intrinsically Disordered Proteins being held by Dr. Samrat Mukhopadhyay, in December, 2017. The CPSDE is conducting all three meetings. The PI of CPSDE, who is also Dean, R&D, IISER Mohali, carried the proposal to the DST for setting up of a TBI at IISER Mohali through to fruition. The TBI is presently being set up, and the equipment and facilities being set up are for protein-based technologies. As detailed below, the CPSDE has a very large number of Ph.D students whose research, travel to conduct experiments, and to attend research conferences and meetings, are partially supported by the CPSDE. This allows them to perform with high levels of motivation. 4 To set up a technology business incubator (TBI) with help from both DST and MHRD, for protein-based and nano- based industry To train high-quality manpower in protein science, design and engineering 5
The pacing of the expenditure during the 24 months since September, 2014 (when the CoE began) has been as follows Expenditure and fund position (in Rs. Lakh only) Opening balance on 1st April 2016 Amount received during April-Sept 2016 Amount Spent Balance available 29,32,038 NIL 37,22,927 -7,90,889 I. Details of Expenditure made during this period: (in Rs lakhs) Item Expenditure Equipment purchase (including spares) 11,13,693 Research expenses (consumables) 11,66,171 By September, 2016 Rs. 1.579 crores, by the end of two years. Research related travel 42,759 Training (Manpower: RAs, JRFs, Project Assts, Office Assts) Any other (specify) Contigency 12,18,271 182033 In the next six months, we intend to spend another 60- 70 lakhs. Total (This total should match with Col 3 of Table IV) 3722927 Half yearly Plan for the next half year (October-March 2016) During the last 1.5 years of the CoE, we shall spend the remainder of the funds, utilizing funds both for research and for process and product patents, as well as for movement towards commencialization through start- ups under our TBI. Deliverable Likely cost (in Rs lakh) Research leading to publications or filing of patent (consumables and contingencies) 30,00,000 Travel (relating to dissemination of research) 2,00,000 Holding of two conferences (with CPSDE participation) 10,00,000 Therefore, if MHRD wishes, it can either send the remaining 2.5 crores now, or send 1.5 crores now, and the remaining 1 crore when we run into a negative balance by end of 2017. Small equipment and spare parts for existing instruments 10,00,000 Training (including manpower) 14,00,000
CPSDEReport 2016 3 Research Publications from COE-FAST (CPSDE) SUMMARY : The work presented in these publications and the ones listed on the next page sheds light on the disease- causing mechanisms of a type of pore- forming toxin of Vibrio cholerae which causes diarrheal diseases - as well as on the disease-causing mechanisms of certain amyloids - known to cause human neurodegenerative disorders. Some of the work sheds light on the functioning of enzymes from heat-loving microorganisms. Some describes novel techniques in proteomics and microscopy. Ongoing work explores bioinformatics- based approaches to the study of protein architectures (internal contact schemes) and multiplicity of functions (promiscuity), forces that are involved in the functioning of proteins that are involved in human hearing (cadherins) and disease models in yeast. PUBLICATIONS IN THE LAST SIX MONTHS (APRIL 2016-SEPTEMBER 2016) AUTHORS JOURNAL DETAILS YEAR Journal Impact Factor 1 N. Jain, D. Narang, K. Bhasne, V. Dalal, S. Arya, M. Bhattacharya, & S. Mukhopadhyay Biophys. J. 111, 768-774 2016 3.632 2 V.. Dalal, S. Arya, & S. Mukhopadhyay ChemPhysChem 17, 2804- 2807 2016 3.138 3 D. Narang, A. Singh, H.M. Swasthi & S. Mukhopadhyay J. Phys. Chem. B. 120, 7815-7823 2016 3.187 4 Kumar S, Mukherjee TK, Guptasarma P. Biochem Biophys Res Commun. 477, 575-80 2016 2.371 5 Khan JM, Sharma P, Arora K, Kishor N, Kaila P, Guptasarma P. Biochemistry 55, 3920-36 3.015 6 Rai, A. & Chattopadhyay, K. Biochem Biophys Res Commun. 2016 Jun 3;474(3):421-7 2016 2.371 7 Sharma P, Kaila P & Guptasarma P. FEBS Journal (in press) 2016 4.237 8 D. Narang, A. Singh & S. Mukhopadhyay. Eur. Biophys. J. (in press) 2016 2.219 9 S. Arya, A. K. Singh, T. Khan, M. Bhattacharya, A. Datta, & S. Mukhopadhyay. J. Phys. Chem. Lett. 2016 (in press) 2016 8.539
PUBLICATIONS IN THE PREVIOUS EIGHTEEN MONTHS (SEPTEMBER 2016- MARCH 2016) Author Name of the Journal Date of publication IMPACT FACTOR 1 Srivastava, A. and Sinha, S. PLoS ONE 9. e102856 2014 3.234 2 Priya, V.K., Sarkar, S., and Sinha, S. Systems and Synthetic Biology 8, 59-72 2014 3 Jain, N., and Mukhopadhyay, S. Progress in Optical Science and Photonics: Applied Spectroscopy. Pages 41-58 (Springer) 2014 Book chapter 4 Rai, A.K. and Chattopadhyay, K. Molecular Microbiology 97, 1051-1062 2015 5.026 5 6 Khilwani, B. and Chattopadhyay, K. Rai, A.K., Kundu, N. and Chattopadhyay, K. Toxins 7, 3344-58 Archives of Biochemistry and Biophysics 583, 9-17 2015 2015 2.938 3.017 7 Lata, K. and Chattopadhyay, K. Biochemistry 54, 3649 3659 2015 3.015 8 Khilwani, B., Mukhopadhaya, A., and Chattopadhyay, K. Biochemical Journal 466, 147-161 2015 4.396 9 Rai, A.K. and Chattopadhyay, K. Advances in Experimental Medicine and Biology 842, 109-125 2015 1.953 10 Arya, S., Kumari, A., Dalal, V., Bhattacharya, M. and Mukhopadhyay, S. Physical Chemistry and Chemical Physics 17, 22862-22871 2015 4.449 11 Arora, K., Mangale, S.S. and Guptasarma, P. Analytical Biochemistry 484,180-182 2015 2.219 12 Kishor, N. and Guptasarma, P. (2015) Analytical Biochemistry 488, 6-8 2015 2.219 13 Sharma, P. and Guptasarma, P. Biochemical and Biophysical Research Communications 460, 753-758 2015 2.371 14 Samuel, J.S., Kumar, D., Chodisetti, S.B., Agrewala, J.N., Singh, B., Guptasarma, P. and Sarkar, S. Dalal, V., Arya, S., Bhattacharya, M. and Mukhopadhyay, S. Proteins: Structure Function and Bioinformatics 83, 1813-1822 2015 2.499 15 Biochemistry 54, 7505-8722 2015 3.015
CPSDEReport 2016 7 MANPOWER-DEVELOPMENT ACTIVITIES OF THE CPSDE Researchers are currently undergoing training in the seven (7) research laboratories of CPSDE faculty: 7 postdoctoral fellows, Over 30 doctoral students, Over 10 Masters level students, 5 Integrated-Ph.D level students, Over 20 JRF/SRF level project assistants 1 postdoctoral level research assistant The research consumables expenses for the above research manpower development activities are partially being borne from COE-F ASTfunds. Of the above, only the research stipends of the JRF/SRF project assistants and research assistant are being borne from CPSDE funds. The remaining manpower derives its stipends from DST-INSPIRE, CSIR, UGC, DBT, ICMR or IISER doctoral fellowships, or IISER Postdoctoral fellowships.
CPSDE Report 2016 8 SYMPOSIA/WORKSHOPS ORGANIZED BY CPSDE MEETINGS SPONSORED (WHOLLYOR PARTIALLY) BYTHE CPSDE DECEMBER 2015 60 Indian and Foreign Participants Complex Systems Winter School 2015 (CSWS2015) at IISER Mohali held from December 7-21, 2015. MARCH 2016 - 40 Indian Participants Five day training W orkshop on Advanced Techniques in Protein Design and Engineering held from March 15 to 19, 2016. FEBRUARY2017 80 Indian and Foreign Participants 11th International Symposium on Cell Surface Macromolecules, February, 2017 being organized by CPSDE member , Dr . Kausik Chattopadhyay, and other members of the CPSDE and IISER faculty. MARCH 2017 - Over 400 participants Indian Biophysical Society Annual Symposium, March 2017 - being organized by CPSDE member , Prof. P . Guptasarma and other members of the CPSDE MEETINGS ORGANIZED BYPROF . SOMDATTASINHA- HIGHLIGHTING CPSDE Three-Day Lecture Programme on Mathematical Modeling and Data Analysis in Biology , October 27-29, 2014, Indian Institute of Technology (IIT) Mandi, Himachal Pradesh (NNMCB Mohali Node activity - co-organized with Dr . Sarita Azad). Conference on Nonlinear Systems & Dynamics (CNSD2015), March 13-15, 2015, IISER Mohali (co-organized with Sudeshna Sinha) Institute of Advanced Studies Discussion Meeting on Modelling host-pathogen interactions a multi-scale view , November 30 December 3, 2014, Orange County Resorts, Coorg, Karnataka
CPSDEReport 2016 10 RECOGNITIONS/HONORS - CPSDE FACULTY - CPSDE Member , Kausik Chattopadhyay W as awarded with 'Prof. B.K. Bachhawat International Travel Grant for Young Scientists for the Year 2015'. PhD fellow from his lab, Anand Rai was awarded with ASBMB-2015 Travel Award for attending the ASBMB annual meeting held in Boston, US, during March 28-April 1, 2015. CPSDE Member , Purnananda Guptasarma: Appointed Editorial Board Member: PRION Appointed Member , Task force on Energy Biosciences (DBT) Elected Secretary, Indian Biophysical Society (April 2015-April 2017) Member , Scientific Advisory Committee, DBT-ICTCenter for Energy Biosciences, ICT, Mumbai Member , Expert Committees for Energy Biosciences Overseas Fellowship & Overseas collaborations Prerna Sharma from his laboratory received the Best Poster Award at BIOPROCESSING 2014. PhD fellow from his laboratory, Kanika Arora, was awarded with ASBMB-2015 Travel Award for attending the ASBMB annual meeting held in Boston, US, during March 28- April 1, 2015. CPSDE Member , Shravan Kumar Mishra: Head, Max Planck DST partner group at IISER Mohali (2012-2017). CPSDE Member , Samrat Mukhopadhyay: Received Royal Society s Commonwealth Science Follow-on Grant An international travel award from the Immunology Foundation. Dominic Narang from his laboratory received the international travel award from the Biophysical Society to attend the Biophysical Society meeting at Baltimore, USA. CPSDE Member , Somdatta Sinha: JC Bose Fellow National W omen Bioscientist Award (Senior), 2015, Department of Biotechnology. CPSDE Member , Sabyasachi Rakshit Awarded the DBT-W ellcome Trust Intermediate Fellowship Grant, 2015 Date
VISITS/TALKS/POSTERS INVOLVING CPSDE CPSDE faculty members have delivered over 60 invited research seminars outside the host institution, since September, 2014 CPSDE faculty members have made over 20 research presentations outside India, since September, 2014 Work from the CPSDE has been highlighted in over 15 Symposia/Conferences within India, or abroad, through research talks, plenary talks, poster presentations etc. Several CPSDE-sponsored special talks were held.
FUTURE VISION AND PLANS FOR THE COE-FAST CPSDE The presentation demonstrates that the CPSDE has fulfilled a large part of its original mandate, having begun the filing of patents, transfer of know-hows to industry, having published significant numbers of research publications (with more in the pipeline), having trained research personnel at several different levels of experience and proficiency (project assistants, Ph.D scholars, integrated MS-Ph.D scholars, postdoctoral fellows) and having conducted several national levels meetings and one intense 5-day workshop. In the immediate future, the CPSDE hopes to have : Higher impact research publications (current publications are in journals of impact factor varying from 2.00-0.00; we hope to have at least 1-2 papers per year in journals of higher impact) Higher numbers of research publications (8-10 per year) Greater engagement with industry in the protein technologies sector (more tech transfers), and maybe the spinning-off of a company through the TBI. Greater engagement with applications-oriented research More transfers of know-hows or technologies to industry Filing of larger numbers of patents from R&D conducted in the CPSDE (1-2 patents per year) Greater manpower development in the area of protein science, design and engineering, through R&D activities and workshops Intense engagement in the Technology Business Incubator recently granted by the DST to IISER Mohali
