-
1
-
-
65249164850
-
A database of domain definitions for proteins with complex interdomain geometry
-
Majumdar I, Kinch LN, Grishin NV. A database of domain definitions for proteins with complex interdomain geometry. PLoS One 2009; 4: e5084.
-
(2009)
PLoS One
, vol.4
-
-
Majumdar, I.1
Kinch, L.N.2
Grishin, N.V.3
-
2
-
-
0036108484
-
3D domain swapping: as domains continue to swap
-
Liu Y, Eisenberg D. 3D domain swapping: as domains continue to swap. Protein Sci 2002; 11: 1285-1299.
-
(2002)
Protein Sci
, vol.11
, pp. 1285-1299
-
-
Liu, Y.1
Eisenberg, D.2
-
3
-
-
70349777587
-
Structure and signaling mechanism of Per-ARNT-Sim domains
-
Moglich A, Ayers RA, Moffat K. Structure and signaling mechanism of Per-ARNT-Sim domains. Structure 2009; 17: 1282-1294.
-
(2009)
Structure
, vol.17
, pp. 1282-1294
-
-
Moglich, A.1
Ayers, R.A.2
Moffat, K.3
-
4
-
-
0042622381
-
LGA: a method for finding 3D similarities in protein structures
-
Zemla A. LGA: a method for finding 3D similarities in protein structures. Nucleic Acids Res 2003; 31: 3370-3374.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3370-3374
-
-
Zemla, A.1
-
5
-
-
33644553089
-
On the origin and highly likely completeness of single-domain protein structures
-
Zhang Y, Hubner IA, Arakaki AK, Shakhnovich E, Skolnick J. On the origin and highly likely completeness of single-domain protein structures. Proc Natl Acad Sci USA 2006; 103: 2605-2610.
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 2605-2610
-
-
Zhang, Y.1
Hubner, I.A.2
Arakaki, A.K.3
Shakhnovich, E.4
Skolnick, J.5
-
6
-
-
84908085765
-
Analysis of CASP8 targets, predictions and assessment methods
-
Shi S, Pei J, Sadreyev RI, Kinch LN, Majumdar I, Tong J, Cheng H, Kim BH, Grishin NV. Analysis of CASP8 targets, predictions and assessment methods. Database (Oxford) 2009; bap003.
-
(2009)
Database (Oxford)
-
-
Shi, S.1
Pei, J.2
Sadreyev, R.I.3
Kinch, L.N.4
Majumdar, I.5
Tong, J.6
Cheng, H.7
Kim, B.H.8
Grishin, N.V.9
-
7
-
-
0028961335
-
SCOP: a structural classification of proteins database for the investigation of sequences and structures
-
Murzin AG, Brenner SE, Hubbard T, Chothia C. SCOP: a structural classification of proteins database for the investigation of sequences and structures. J Mol Biol 1995; 247: 536-540.
-
(1995)
J Mol Biol
, vol.247
, pp. 536-540
-
-
Murzin, A.G.1
Brenner, S.E.2
Hubbard, T.3
Chothia, C.4
-
8
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
-
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997; 25: 3389-3402.
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
9
-
-
23144452044
-
The HHpred interactive server for protein homology detection and structure prediction
-
Soding J, Biegert A, Lupas AN. The HHpred interactive server for protein homology detection and structure prediction. Nucleic Acids Res 2005; 33: W244-248.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Soding, J.1
Biegert, A.2
Lupas, A.N.3
-
10
-
-
67649850988
-
PROCAIN: protein profile comparison with assisting information
-
Wang Y, Sadreyev RI, Grishin NV. PROCAIN: protein profile comparison with assisting information. Nucleic Acids Res 2009; 37: 3522-3530.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. 3522-3530
-
-
Wang, Y.1
Sadreyev, R.I.2
Grishin, N.V.3
-
14
-
-
67849118788
-
HorA web server to infer homology between proteins using sequence and structural similarity
-
Kim BH, Cheng H, Grishin NV. HorA web server to infer homology between proteins using sequence and structural similarity. Nucleic Acids Res 2009; 37: W532-W538.
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Kim, B.H.1
Cheng, H.2
Grishin, N.V.3
-
15
-
-
67849092445
-
ProSMoS server: a pattern-based search using interaction matrix representation of protein structures
-
Shi S, Chitturi B, Grishin NV. ProSMoS server: a pattern-based search using interaction matrix representation of protein structures. Nucleic Acids Res 2009; 37: W526-W531.
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Shi, S.1
Chitturi, B.2
Grishin, N.V.3
-
16
-
-
34447332520
-
Searching for three-dimensional secondary structural patterns in proteins with ProSMoS
-
Shi S, Zhong Y, Majumdar I, Sri Krishna S, Grishin NV. Searching for three-dimensional secondary structural patterns in proteins with ProSMoS. Bioinformatics 2007; 23: 1331-1338.
-
(2007)
Bioinformatics
, vol.23
, pp. 1331-1338
-
-
Shi, S.1
Zhong, Y.2
Majumdar, I.3
Sri Krishna, S.4
Grishin, N.V.5
-
17
-
-
80052229798
-
The structural basis for recognition of base J containing DNA by a novel DNA binding domain in JBP1
-
Heidebrecht T, Christodoulou E, Chalmers MJ, Jan S, Ter Riet B, Grover RK, Joosten RP, Littler D, van Luenen H, Griffin PR, Wentworth P, Jr., Borst P, Perrakis A. The structural basis for recognition of base J containing DNA by a novel DNA binding domain in JBP1. Nucleic Acids Res 2011; 39: 5715-5728.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. 5715-5728
-
-
Heidebrecht, T.1
Christodoulou, E.2
Chalmers, M.J.3
Jan, S.4
Ter Riet, B.5
Grover, R.K.6
Joosten, R.P.7
Littler, D.8
van Luenen, H.9
Griffin, P.R.10
Wentworth Jr, P.11
Borst, P.12
Perrakis, A.13
-
18
-
-
60149111590
-
Fas apoptosis inhibitory molecule contains a novel beta-sandwich in contact with a partially ordered domain
-
Hemond M, Rothstein TL, Wagner G. Fas apoptosis inhibitory molecule contains a novel beta-sandwich in contact with a partially ordered domain. J Mol Biol 2009; 386: 1024-1037.
-
(2009)
J Mol Biol
, vol.386
, pp. 1024-1037
-
-
Hemond, M.1
Rothstein, T.L.2
Wagner, G.3
-
19
-
-
66349134987
-
Structural basis for DNase activity of a conserved protein implicated in CRISPR-mediated genome defense
-
Wiedenheft B, Zhou K, Jinek M, Coyle SM, Ma W, Doudna JA. Structural basis for DNase activity of a conserved protein implicated in CRISPR-mediated genome defense. Structure 2009; 17: 904-912.
-
(2009)
Structure
, vol.17
, pp. 904-912
-
-
Wiedenheft, B.1
Zhou, K.2
Jinek, M.3
Coyle, S.M.4
Ma, W.5
Doudna, J.A.6
-
20
-
-
0035783063
-
Fold change in evolution of protein structures
-
Grishin NV. Fold change in evolution of protein structures. J Struct Biol 2001; 134: 167-185.
-
(2001)
J Struct Biol
, vol.134
, pp. 167-185
-
-
Grishin, N.V.1
-
21
-
-
78651083184
-
A dual function of the CRISPR-Cas system in bacterial antivirus immunity and DNA repair
-
Babu M, Beloglazova N, Flick R, Graham C, Skarina T, Nocek B, Gagarinova A, Pogoutse O, Brown G, Binkowski A, Phanse S, Joachimiak A, Koonin EV, Savchenko A, Emili A, Greenblatt J, Edwards AM, Yakunin AF. A dual function of the CRISPR-Cas system in bacterial antivirus immunity and DNA repair. Mol Microbiol 79: 484-502.
-
Mol Microbiol
, vol.79
, pp. 484-502
-
-
Babu, M.1
Beloglazova, N.2
Flick, R.3
Graham, C.4
Skarina, T.5
Nocek, B.6
Gagarinova, A.7
Pogoutse, O.8
Brown, G.9
Binkowski, A.10
Phanse, S.11
Joachimiak, A.12
Koonin, E.V.13
Savchenko, A.14
Emili, A.15
Greenblatt, J.16
Edwards, A.M.17
Yakunin, A.F.18
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