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14 research outputs found
Integrating protein structural dynamics and evolutionary analysis with Bio3D
Author
A Amadei
A Bakan
+50 more
A Sethi
AA Gorfe
AR Atilgan
B Grant
Barry J Grant
BJ Grant
DM Krüger
DMF Van Aalten
DR Roe
E Eyal
E Fuglebakk
E Fuglebakk
EH Lee
G Bhabha
GH Westfield
Guido Scarabelli
H Yébenes
J Romanowska
JR Schnell
K Henzler-Wildman
K Hinsen
K Hinsen
K Hinsen
K Moritsugu
K Suhre
K Teilum
KA Henzler-Wildman
L Skjaerven
L Yang
Lars Skjærven
LSD Caves
M Girvan
M Karplus
M Tirion
MT Zimmermann
OF Lange
R Salomon-Ferrer
RC Gentleman
RD Finn
RD Vale
RG Smock
S Kundu
SF Altschul
SGF Rasmussen
SM Hollup
T Ichiye
TD Romo
X-Q Yao
Xin-Qiu Yao
Y Dehouck
Publication venue
'Springer Science and Business Media LLC'
Publication date
Field of study
No full text
Crossref
Elastic network model of learned maintained contacts to predict protein motion
Author
A Ahmed
A Ahmed
+101 more
A Amadei
A Bakan
A Das
A Górska
A Srivastava
A Stein
AD Ferguson
AG Murzin
AR Atilgan
B Alberts
C Globisch
C Kutzner
C Micheletti
C Micheletti
CN Cavasotto
CN Cavasotto
DA Kondrashov
DA Kondrashov
E Eyal
E Fuglebakk
E Fuglebakk
E Fuglebakk
F Pedregosa
F Tama
F Tama
G Li
G Song
G Wang
GF Schröder
H He
I Bahar
I Bahar
I Buch
I Guyon
I Ohmura
Ines Putz
J Choi
J Eickholt
J Ma
JA Kovacs
JA Marsh
JA McCammon
JD Durrant
JI Jeong
JN Stember
JR López-Blanco
JR López-Blanco
K Henzler-Wildman
K Hinsen
K Hinsen
K Moritsugu
L Orellana
L Yang
L Yang
L Yang
LW Yang
M Brylinski
M Dietzen
M Gur
M Gur
M Jamroz
M Karplus
M Karplus
M Karplus
M Rueda
M Schneider
MH Kim
MH Kim
MM Tirion
N Dony
N Leioatts
N Stanley
NK Fox
O Marques
Oliver Brock
Ozlem Keskin
P Gniewek
P Petrone
PV Burra
R Brüschweiler
RB Best
RE Fan
RJD Miller
RO Dror
S Kirillova
SE Dobbins
T Amemiya
T Fawcett
T Haliloglu
TF Wu
TJ Piggot
TL Lin
TR Lezon
U Hensen
V Carnevale
V Frappier
VL Guilloux
WG Krebs
WW Yue
Y Li
Y Liu
Publication venue
'Public Library of Science (PLoS)'
Publication date
Field of study
No full text
Crossref
Evaluation of Protein Elastic Network Models Based on an Analysis of Collective Motions
Author
Atilgan A.
Bahar I.
+67 more
Bahar I.
Bakan A.
Bartolucci C.
Berman H. M.
Carnevale V.
Cornell W.
Dobbins S. E.
Duan Y.
Echave J.
Edvin Fuglebakk
Eyal E.
Fuglebakk E.
Halle B.
Heinz D. W.
Hess B.
Hess B.
Hinsen K.
Hinsen K.
Hinsen K.
Hinsen K.
Jorgensen W. L.
Kneller G. R.
Kondrashov D. A.
Konrad Hinsen
Krebs W. G.
Kundu S.
Lee S.
Leioatts N.
Leo-Macias A.
Liu L.
MacKerell A. D.
Maguid S.
Merritt E.
Micheletti C.
Mitternacht S.
Miyazawa S.
Moritsugu K.
Moritsugu K.
Moritsugu K.
Méndez R.
Nathalie Reuter
Petrone P.
Phillips J. C.
Reuter N.
Reuveni S.
Reuveni S.
Riccardi D.
Riccardi D.
Romo T. D.
Rueda M.
Ryckaert J.-P.
Skjaerven L.
Skjaerven L.
Skowronek K. R.
Srivastava A.
Stevens R. C.
Suhre K.
Thorpe M. F.
Tirion M. M.
Vaney M. C.
Wako H.
Yang F.
Yang L.
Yang L.-W.
Yang L.-W.
Zen A.
Zheng W.
Publication venue
'American Chemical Society (ACS)'
Publication date
Field of study
No full text
Crossref
Similarity in Shape Dictates Signature Intrinsic Dynamics Despite No Functional Conservation in TIM Barrel Enzymes
Author
A Leo-Macias
A Leo-Macias
+67 more
A Ochoa-Leyva
A Ramanathan
A Skliros
A Zen
AEO Todd
AGL Murzin
AL Cuff
AM Waterhouse
AR Katebi
AS Konagurthu
B Hocker
C Berbalk
C Micheletti
CA Orengo
D Kolan
DN Woolfson
E Dellus-Gur
E Fuglebakk
E Fuglebakk
E Marcos
F Piazza
F Raimondi
G Bouvignies
G Hu
H Li
H Shen
IW Lasters
J Soding
JA Velazquez-Muriel
JM Thornton
K Hinsen
K Hinsen
K Hinsen
KP Hinsen
MM Gromiha
MS Vijayabaskar
N Nagano
N Nagano
N Preiswerk
Nathalie Reuter
NH Reuter
OJ Kurkcuoglu
PS Derremaux
R Potestio
RB Fenwick
RC Edgar
RK Wieranga
RK Wierenga
Robert L Jernigan
S Lukman
S Maguid
S Maguid
S Rozovsky
Sandhya P. Tiwari
SM Hollup
SM Hollup
SP Tiwari
T Ichiye
T Perica
V Carnevale
VR Carnevale
W Liu
W Zheng
X Yang
Y Sergeev
YT Chien
Z Kurkcuoglu
Publication venue
'Public Library of Science (PLoS)'
Publication date
Field of study
No full text
Crossref
Generalization of the elastic network model for the study of large conformational changes in biomolecules
Author
Adolfo B. Poma
Atilgan
+77 more
Bagci
Bahar
Bahar
Becker
Benjwal
Berendsen
Best
Carrion-Vazquez
Cieplak
Cieplak
Clementi
Cui
Das
Feng
Fletcher
Flory
Fowler
Frantz
Fuglebakk
Garcia
Glass
Gronenborn
Gō
Gō
Haliloglu
Hess
Hillson
Hinsen
Hinsen
Hoang
Jackson
Kabsch
Karanicolas
Kellermayer
Kershaw
Kim
Kim
Kouza
Kubelka
Kumar
Landau
Mai Suan Li
Marszalek
Marszalek
Munoz
Nguyen
Otzen
Panagiotis E. Theodorakis
Periole
Pinamonti
Poma
Poma
Pronk
Rief
Schwaiger
Schwaiger
Setny
Sikora
Sotomayor
Sulkowska
Sułkowska
Sułkowska
Tama
Tekpinar
Tirion
Tsai
Valbuena
Valbuena
van der Spoel
van Nuland
Van Wynsberghe
Wlodawer
Wlodawer
Wojciechowski
Zagrovic
Zhao
Zimmermann
Publication venue
'Royal Society of Chemistry (RSC)'
Publication date
01/01/2018
Field of study
No full text
Crossref
Dynamical comparison between Drosha and Dicer reveals functional motion similarities and dissimilarities
Author
A Andreeva
A Bakan
+56 more
A Kitao
AM Denli
AR Atilgan
AW Nicholson
C Conrad
C. Micheletti
D. Tobi
D. Tobi
D. Tobi
D. Tobi
D. Tobi
DE Shaw
Dror Tobi
E Eyal
E Eyal
E Fuglebakk
FM Pearl
H Li
H Zhang
HM Berman
I Bahar
I Bahar
IJ MacRae
IJ Macrae
IJ Macrae
J Gan
J Han
J Han
J Starega-Roslan
JD Thompson
JL Klepeis
L Holm
LW Yang
M Gur
M Munz
N Guex
P Brodersen
P Doruker
PD Zamore
R Aharoni
RI Gregory
Rotem Aharoni
S Li
S Maguid
S Maguid
SB Needleman
SC Kwon
SK Burley
SP Tiwari
TA Nguyen
TF Smith
U Hensen
V Filippov
Y Lee
Y Lee
Yaakov Koby Levy
Publication venue
'Public Library of Science (PLoS)'
Publication date
Field of study
No full text
Crossref
Energy transport pathway in proteins: Insights from non-equilibrium molecular dynamics with elastic network model
Author
A Ghosh
A Houdusse
+52 more
A Houdusse
AM Gulick
AR Atilgan
CL McClendon
DA Doyle
E Fuglebakk
E Kim
EJ Fuentes
EW Dijkstra
FC Peterson
G Li
G Polles
H Li.
H Na
HC Kornau
J Guo
J Zhang
JG Su
JG Su
JG Su
JG Su
JG Su
JG Su
JK Weber
JR López-Blanco
K Sharp
LW Yang
M Ham Van
M Karplus
M Kneussel
M Kobus
M Preller
N Ota
PD Coureux
PH Nguyen
PH Nguyen
PH Nguyen
PM Gasper
RG Smock
S Buchenberg
S Tang
SF Wulf
SW Lockless
T Haliloglu
T Ishikura
TF Reubold
U Bastolla
VA Feher
W Zheng
X Liu
X Ma
Y Kong
Publication venue
'Springer Science and Business Media LLC'
Publication date
Field of study
No full text
Crossref
PLA2-like proteins myotoxic mechanism: a dynamic model description
Author
A Janota
A Thomas
+48 more
AH Oliveira de
AHC Oliveira de
AJ Magro
AM Soares
B Francis
B Lomonte
B Lomonte
B Lomonte
BJ Bahnson
BR Brooks
C Díaz
C Girdlestone
C Montecucco
CAH Fernandes
CAH Fernandes
CAH Fernandes
CE Núñez
DA Warrell
DP Marchi-Salvador
E Chovancova
E Fuglebakk
GHM Salvador
GHM Salvador
J-H Han
JI Santos dos
JI Santos Dos
L Chioato
L Watanabe
M Ghorbani
MH Toyama
MT Murakami
MT Murakami
MT Silva Giotto da
N Floquet
N Floquet
N Floquet
P Delatorre
RB Best
RJ Borges
RS Rodrigues
S Jo
TR Costa
TS Kang
V Alexandrov
VM Rodrigues
W Humphrey
W Kabsch
WH Lee
Publication venue
'Springer Science and Business Media LLC'
Publication date
Field of study
No full text
Crossref
Characteristics Analyses and Comparisons of the Protein Structure Networks Constructed by Different Methods
Author
A Krishnan
A Sol del
+45 more
A Zomorodian
AL Barabasi
AR Atilgan
AR Atilgan
C Bode
CC Bigelow
CJ Ryan
CM Buslje
Da-Xiang Cui
E Fuglebakk
G Bagler
G Hu
H Zhou
HM Berman
Hua-Lin Fu
J Kuriyan
J Kyte
K Kuroda
K Vlahovicek
KV Brinda
L Fu
L Paola Di
L Swint-Kruse
LH Greene
M Aftabuddin
M Lu
M Tiberti
MS Vijayabaskar
N Kannan
NR Taylor
NT Doncheva
NV Dokholyan
P Csermely
P Csermely
S Cheng
S Kawashima
S Kundu
S Tasdighian
S Vishveshwara
SH Strogatz
Shangli Cheng
SP Leelananda
U Kuzmanov
W Nemoto
W Sun
Publication venue
'Springer Science and Business Media LLC'
Publication date
Field of study
No full text
Crossref
Probing the intermolecular interactions of PPARγ-LBD with polyunsaturated fatty acids and their anti-inflammatory metabolites to infer most potential binding moieties
Author
A Bolden
A Farce
+64 more
A Gonzalez-Periz
A Sahebkar
Angayarkanni Narayanasamy
B Grygiel-Gorniak
B Shashni
C Zhang
CN Serhan
D Ortuno Sahagun
DS Kleinerman
E Barth
E Fuglebakk
G Mariscalco
G Medina-Gomez
GJ Martyna
GT Robbins
H Gurula
HE Xu
I Jialal
I Lu
J Berger
J Lo Verme
JB Bruning
JN Feige
JPH Wilding
KH DuBay
KL Damm
L Guasch
L Guasch
L Wang
M Banach
MI Lobanov
MJ Harvey
NS Wayman
P Delerive
P Markt
P Sertznig
R Palacios-Pelaez
RL Stephen
S Genheden
S Neschen
S Sheu
S Sundriyal
S Yu
SA Fyffe
SA Kliewer
Shalini Muralikumar
T Erazo
T Itoh
T Tsukahara
TM Willson
U Bhagat
U Vetrivel
U Vetrivel
Umashankar Vetrivel
Undurti N. Das
V Umashankar
V Umashankar
V Zoete
VGS Umashankar
VN Maiorov
VV Bulatov
Y Segawa
Y Wang
Y Wang
Publication venue
'Springer Science and Business Media LLC'
Publication date
Field of study
No full text
Crossref
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