-
1
-
-
0344392715
-
2H exchange and protein docking
-
2H exchange and protein docking. Proc. Natl. Acad. Sci. 100: 13264-13269.
-
(2003)
Proc. Natl. Acad. Sci
, vol.100
, pp. 13264-13269
-
-
Anand, G.S.1
Law, D.2
Mandell, J.G.3
Snead, A.N.4
Tsigelny, I.5
Taylor, S.S.6
Eyck, L.F.T.7
Komives, E.A.8
-
2
-
-
0027250665
-
Primary structure effects on peptide group hydrogen exchange
-
Bai, Y., Milne, J.S., Mayne, L., and Englander, S.W. 1993. Primary structure effects on peptide group hydrogen exchange. Proteins 17: 75-86.
-
(1993)
Proteins
, vol.17
, pp. 75-86
-
-
Bai, Y.1
Milne, J.S.2
Mayne, L.3
Englander, S.W.4
-
4
-
-
0029926396
-
The crystal structure of the complex of blood coagulation factor VIIa with soluble tissue factor
-
Banner, D.W., D'Arcy, A., Chène, C., Winkler, F.K., Guha, A., Konigsberg, W.H., Nemerson, Y., and Kirchhofer, D. 1996. The crystal structure of the complex of blood coagulation factor VIIa with soluble tissue factor. Nature 380: 41-46.
-
(1996)
Nature
, vol.380
, pp. 41-46
-
-
Banner, D.W.1
D'Arcy, A.2
Chène, C.3
Winkler, F.K.4
Guha, A.5
Konigsberg, W.H.6
Nemerson, Y.7
Kirchhofer, D.8
-
5
-
-
0026337077
-
The coagulation cascade: Initiation, maintenance, and regulation
-
Davie, E.W., Fujikawa, K., and Kisiel, W. 1991. The coagulation cascade: Initiation, maintenance, and regulation. Biochemistry 30: 10363-10370.
-
(1991)
Biochemistry
, vol.30
, pp. 10363-10370
-
-
Davie, E.W.1
Fujikawa, K.2
Kisiel, W.3
-
6
-
-
0029992658
-
Identification of surface residues mediating tissue factor binding and catalytic function of the serine protease factor VIIa
-
Dickinson, C.D., Kelly, C.R., and Ruf, W. 1996. Identification of surface residues mediating tissue factor binding and catalytic function of the serine protease factor VIIa. Proc. Natl. Acad. Sci. 93: 14379-14384.
-
(1996)
Proc. Natl. Acad. Sci
, vol.93
, pp. 14379-14384
-
-
Dickinson, C.D.1
Kelly, C.R.2
Ruf, W.3
-
7
-
-
0030835759
-
Active site modification of factor VIIa affects interactions of the protease domain with tissue factor
-
Dickinson, C.D. and Ruf, W. 1997. Active site modification of factor VIIa affects interactions of the protease domain with tissue factor. J. Biol. Chem. 272: 19875-19879.
-
(1997)
J. Biol. Chem
, vol.272
, pp. 19875-19879
-
-
Dickinson, C.D.1
Ruf, W.2
-
8
-
-
0034941729
-
The factor VII zymogen structure reveals reregistration of β strands during activation
-
Eigenbrot, C., Kirchhofer, D., Dennis, M.S., Santell, L., Lazarus, R.A., Stamos, J., and Ultsch, M.H. 2001. The factor VII zymogen structure reveals reregistration of β strands during activation. Structure 9: 627-636.
-
(2001)
Structure
, vol.9
, pp. 627-636
-
-
Eigenbrot, C.1
Kirchhofer, D.2
Dennis, M.S.3
Santell, L.4
Lazarus, R.A.5
Stamos, J.6
Ultsch, M.H.7
-
9
-
-
0029911695
-
Mechanisms and uses of hydrogen exchange
-
Englander, S.W., Sosnick, T.R., Englander, J.J., and Mayne, L. 1996. Mechanisms and uses of hydrogen exchange. Curr. Opin. Struct. Biol. 6: 18-23.
-
(1996)
Curr. Opin. Struct. Biol
, vol.6
, pp. 18-23
-
-
Englander, S.W.1
Sosnick, T.R.2
Englander, J.J.3
Mayne, L.4
-
10
-
-
33645961739
-
A smooth particle mesh method
-
Essman, U., Perera, L., Berkowitz, T., Darden, T., Lee, H., and Pedersen, L.G. 1995. A smooth particle mesh method. J. Chem. Phys. 103: 8577-8593.
-
(1995)
J. Chem. Phys
, vol.103
, pp. 8577-8593
-
-
Essman, U.1
Perera, L.2
Berkowitz, T.3
Darden, T.4
Lee, H.5
Pedersen, L.G.6
-
11
-
-
0017348682
-
Crystal-structure of bovine trypsinogen at 1.8 Å resolution: Crystallographic refinement, refined crystal-structure and comparison with bovine trypsin
-
Fehlhammer, H., Bode, W., and Huber, R. 1977. Crystal-structure of bovine trypsinogen at 1.8 Å resolution: Crystallographic refinement, refined crystal-structure and comparison with bovine trypsin. J. Mol. Biol. 111: 415-438.
-
(1977)
J. Mol. Biol
, vol.111
, pp. 415-438
-
-
Fehlhammer, H.1
Bode, W.2
Huber, R.3
-
12
-
-
36449007836
-
Constant pressure molecular dynamics simulation: The Langevin piston method
-
Feller, S.E., Zhang, Y., Pastor, R.W., and Brooks, B.R. 1995. Constant pressure molecular dynamics simulation: The Langevin piston method. J. Chem. Phys. 103: 4613-4621.
-
(1995)
J. Chem. Phys
, vol.103
, pp. 4613-4621
-
-
Feller, S.E.1
Zhang, Y.2
Pastor, R.W.3
Brooks, B.R.4
-
13
-
-
0030017619
-
2+ and tissue factor studied using circular dichroism spectroscopy
-
2+ and tissue factor studied using circular dichroism spectroscopy. Protein Sci. 5: 1531-1540.
-
(1996)
Protein Sci
, vol.5
, pp. 1531-1540
-
-
Freskgård, P.O.1
Olsen, O.H.2
Persson, E.3
-
14
-
-
0141754098
-
Gating of MscL studied by steered molecular dynamics
-
Gullingsrud, J. and Schulten, K. 2003. Gating of MscL studied by steered molecular dynamics. Biophys. J. 85: 2087-2099.
-
(2003)
Biophys. J
, vol.85
, pp. 2087-2099
-
-
Gullingsrud, J.1
Schulten, K.2
-
15
-
-
0028225878
-
Identification of regions of bovine factor VII essential for binding to tissue factor
-
Higashi, S., Nishimura, H., Aita, K., and Iwanaga, S. 1994. Identification of regions of bovine factor VII essential for binding to tissue factor. J. Biol. Chem. 269: 18891-18898.
-
(1994)
J. Biol. Chem
, vol.269
, pp. 18891-18898
-
-
Higashi, S.1
Nishimura, H.2
Aita, K.3
Iwanaga, S.4
-
16
-
-
0042279172
-
Protein analysis by hydrogen exchange mass spectrometry
-
Hoofnagle, A.N., Resing, K.A., and Ahn, N.G. 2003. Protein analysis by hydrogen exchange mass spectrometry. Annu. Rev. Biophys. Biomol. Struct. 32: 1-25.
-
(2003)
Annu. Rev. Biophys. Biomol. Struct
, vol.32
, pp. 1-25
-
-
Hoofnagle, A.N.1
Resing, K.A.2
Ahn, N.G.3
-
17
-
-
33947092515
-
Structural basis of activation and action of trypsin
-
Huber, R. and Bode, W. 1978. Structural basis of activation and action of trypsin. Acc. Chem. Res. 11: 114-122.
-
(1978)
Acc. Chem. Res
, vol.11
, pp. 114-122
-
-
Huber, R.1
Bode, W.2
-
18
-
-
0013994339
-
Hydrogen exchange in proteins
-
Hvidt, Å. and Nielsen, S.O. 1966. Hydrogen exchange in proteins. Adv. Protein Chem. 21: 287-386.
-
(1966)
Adv. Protein Chem
, vol.21
, pp. 287-386
-
-
Hvidt, A.1
Nielsen, S.O.2
-
19
-
-
0035312645
-
Steered molecular dynamics and mechanical functions of proteins
-
Isralewitz, B., Gao, M., and Schulten, K. 2001. Steered molecular dynamics and mechanical functions of proteins. Curr. Opin. Struct. Biol. 11: 224-230.
-
(2001)
Curr. Opin. Struct. Biol
, vol.11
, pp. 224-230
-
-
Isralewitz, B.1
Gao, M.2
Schulten, K.3
-
20
-
-
0035183282
-
The mechanism of glycerol conduction in aquaglyceroporins
-
Jensen, M.O., Tajkhorshid, E., and Schulten, K. 2001. The mechanism of glycerol conduction in aquaglyceroporins. Structure 9: 1083-1093.
-
(2001)
Structure
, vol.9
, pp. 1083-1093
-
-
Jensen, M.O.1
Tajkhorshid, E.2
Schulten, K.3
-
21
-
-
0037076420
-
Energetics of glycerol conduction through aquaglyceroporin GlpF
-
Jensen, M.O., Park, S., Tajkhorshid, E., and Schulten, K. 2002. Energetics of glycerol conduction through aquaglyceroporin GlpF. Proc. Natl. Acad. Sci. 99: 6731-6736.
-
(2002)
Proc. Natl. Acad. Sci
, vol.99
, pp. 6731-6736
-
-
Jensen, M.O.1
Park, S.2
Tajkhorshid, E.3
Schulten, K.4
-
23
-
-
0020997912
-
Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features
-
Kabsch, W. and Sander, C. 1983. Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features. Biopolymers 22: 2577-2637.
-
(1983)
Biopolymers
, vol.22
, pp. 2577-2637
-
-
Kabsch, W.1
Sander, C.2
-
24
-
-
18744371588
-
Chemical theory and computation special feature: Molecular dynamics and protein function
-
Karplus, M. and Kuriyan, J. 2005. Chemical theory and computation special feature: Molecular dynamics and protein function. Proc. Natl. Acad. Sci. 102: 6679-6685.
-
(2005)
Proc. Natl. Acad. Sci
, vol.102
, pp. 6679-6685
-
-
Karplus, M.1
Kuriyan, J.2
-
25
-
-
0032721393
-
Crystal structure of active site-inhibited human coagulation factor VIIa (des-Gla)
-
Kemball-Cook, G., Johnson, D.J.D., Tuddenham, E.G.D., and Harlos, K. 1999. Crystal structure of active site-inhibited human coagulation factor VIIa (des-Gla). J. Struct. Biol. 127: 213-223.
-
(1999)
J. Struct. Biol
, vol.127
, pp. 213-223
-
-
Kemball-Cook, G.1
Johnson, D.J.D.2
Tuddenham, E.G.D.3
Harlos, K.4
-
26
-
-
0032428378
-
Identification of protein-protein interfaces by decreased amide proton solvent accessibility
-
Mandell, J.G., Falick, A.M., and Komives, E.A. 1998. Identification of protein-protein interfaces by decreased amide proton solvent accessibility. Proc. Natl. Acad. Sci. 95: 14705-14710.
-
(1998)
Proc. Natl. Acad. Sci
, vol.95
, pp. 14705-14710
-
-
Mandell, J.G.1
Falick, A.M.2
Komives, E.A.3
-
27
-
-
36449003554
-
Constant pressure molecular dynamics algorithms
-
Martyna, G.J., Tobias, D.J., and Klein, M.L. 1994. Constant pressure molecular dynamics algorithms. J. Chem. Phys. 101: 4177-4189.
-
(1994)
J. Chem. Phys
, vol.101
, pp. 4177-4189
-
-
Martyna, G.J.1
Tobias, D.J.2
Klein, M.L.3
-
28
-
-
33947727238
-
-
McKerell Jr., A.D., Bashford, D., Bellott, M., Dunbrack Jr., R.L., Evanseck, J., Field, M.J., Fisher, S., Gao, J., Guo, H., Ha, S., et al. 1998. All-hydrogen empirical potential for molecular modelling and dynamics studies of proteins using the CHARMM22 force field. J. Phys. Chem. 102: 3586-3616.
-
McKerell Jr., A.D., Bashford, D., Bellott, M., Dunbrack Jr., R.L., Evanseck, J., Field, M.J., Fisher, S., Gao, J., Guo, H., Ha, S., et al. 1998. All-hydrogen empirical potential for molecular modelling and dynamics studies of proteins using the CHARMM22 force field. J. Phys. Chem. 102: 3586-3616.
-
-
-
-
29
-
-
8344226974
-
Prevention of β strand movement into a zymogen-like position does not confer higher activity to coagulation factor VIIa
-
Olsen, O.H., Nielsen, P.F., and Persson, E. 2004. Prevention of β strand movement into a zymogen-like position does not confer higher activity to coagulation factor VIIa. Biochemistry 43: 14096-14103.
-
(2004)
Biochemistry
, vol.43
, pp. 14096-14103
-
-
Olsen, O.H.1
Nielsen, P.F.2
Persson, E.3
-
30
-
-
25144522771
-
A reconsideration of the evidence for structural reorganization in FVII zymogen
-
Perera, L. and Pedersen, L.G. 2005. A reconsideration of the evidence for structural reorganization in FVII zymogen. J. Thromb. Haemost. 3: 1543-1545.
-
(2005)
J. Thromb. Haemost
, vol.3
, pp. 1543-1545
-
-
Perera, L.1
Pedersen, L.G.2
-
31
-
-
0030858391
-
Characterization of the interaction between the light chain of factor VIIa and tissue factor
-
Persson, E. 1997. Characterization of the interaction between the light chain of factor VIIa and tissue factor. FEBS Lett. 413: 359-363.
-
(1997)
FEBS Lett
, vol.413
, pp. 359-363
-
-
Persson, E.1
-
32
-
-
0035800804
-
Substitution of valine for leucine 305 in factor VIIa increases the intrinsic enzymatic activity
-
Persson, E., Bak, H., and Olsen, O.H. 2001a. Substitution of valine for leucine 305 in factor VIIa increases the intrinsic enzymatic activity. J. Biol. Chem. 276: 29195-29199.
-
(2001)
J. Biol. Chem
, vol.276
, pp. 29195-29199
-
-
Persson, E.1
Bak, H.2
Olsen, O.H.3
-
33
-
-
0035923721
-
Rational design of coagulation factor VIIa variants with substantially increased intrinsic activity
-
Persson, E., Kjalke, M., and Olsen, O.H. 2001b. Rational design of coagulation factor VIIa variants with substantially increased intrinsic activity. Proc. Natl. Acad. Sci. 98: 13583-13588.
-
(2001)
Proc. Natl. Acad. Sci
, vol.98
, pp. 13583-13588
-
-
Persson, E.1
Kjalke, M.2
Olsen, O.H.3
-
34
-
-
0035916953
-
Substitution of aspartic acid for methionine-306 in factor VIIa abolishes the allosteric linkage between the active site and the binding interface with tissue factor
-
Persson, E., Nielsen, L.S., and Olsen, O.H. 2001c. Substitution of aspartic acid for methionine-306 in factor VIIa abolishes the allosteric linkage between the active site and the binding interface with tissue factor. Biochemistry 40: 3251-3256.
-
(2001)
Biochemistry
, vol.40
, pp. 3251-3256
-
-
Persson, E.1
Nielsen, L.S.2
Olsen, O.H.3
-
35
-
-
2342503204
-
Augmented intrinsic activity of Factor VIIa by replacement of residues 305, 314, 337 and 374: Evidence of two unique mutational mechanisms of activity enhancement
-
Persson, E., Bak, H., Østergaard, A., and Olsen, O.H. 2004. Augmented intrinsic activity of Factor VIIa by replacement of residues 305, 314, 337 and 374: Evidence of two unique mutational mechanisms of activity enhancement. Biochem. J. 379: 497-503.
-
(2004)
Biochem. J
, vol.379
, pp. 497-503
-
-
Persson, E.1
Bak, H.2
Østergaard, A.3
Olsen, O.H.4
-
36
-
-
0034727531
-
Role of residue Phe225 in the cofactor-mediated, allosteric regulation of the serine protease coagulation factor VIIa
-
Petrovan, R.J. and Ruf, W. 2000. Role of residue Phe225 in the cofactor-mediated, allosteric regulation of the serine protease coagulation factor VIIa. Biochemistry 39: 14457-14463.
-
(2000)
Biochemistry
, vol.39
, pp. 14457-14463
-
-
Petrovan, R.J.1
Ruf, W.2
-
37
-
-
0037199426
-
Role of zymogenicity-determining residues of coagulation factor VII/VIIa in cofactor interaction and macromolecular substrate recognition
-
Petrovan, R.J. and Ruf, W. 2002. Role of zymogenicity-determining residues of coagulation factor VII/VIIa in cofactor interaction and macromolecular substrate recognition. Biochemistry 41: 9302-9309.
-
(2002)
Biochemistry
, vol.41
, pp. 9302-9309
-
-
Petrovan, R.J.1
Ruf, W.2
-
38
-
-
0033529789
-
Structure of human factor VIIa and its implications for the triggering of blood coagulation
-
Pike, A.C.W., Brzozowski, A.M., Roberts, S.M., Olsen, O.H., and Persson, E. 1999. Structure of human factor VIIa and its implications for the triggering of blood coagulation. Proc. Natl. Acad. Sci. 96: 8925-8930.
-
(1999)
Proc. Natl. Acad. Sci
, vol.96
, pp. 8925-8930
-
-
Pike, A.C.W.1
Brzozowski, A.M.2
Roberts, S.M.3
Olsen, O.H.4
Persson, E.5
-
39
-
-
33747333617
-
Allosteric activation of coagulation factor VIIa visualized by hydrogen exchange
-
Rand, K.D., Jørgensen, T.J.D., Olsen, O.H., Persson, E., Jensen, O.N., Stennicke, H.R., and Andersen, M.D. 2006. Allosteric activation of coagulation factor VIIa visualized by hydrogen exchange. J. Biol. Chem. 281: 23018-23024.
-
(2006)
J. Biol. Chem
, vol.281
, pp. 23018-23024
-
-
Rand, K.D.1
Jørgensen, T.J.D.2
Olsen, O.H.3
Persson, E.4
Jensen, O.N.5
Stennicke, H.R.6
Andersen, M.D.7
-
40
-
-
0031649079
-
Allosteric regulation of the cofactor-dependent serine protease coagulation factor VIIa
-
Ruf, W. and Dickinson, C.D. 1998. Allosteric regulation of the cofactor-dependent serine protease coagulation factor VIIa. Trends Cardiovasc. Med. 8: 350-356.
-
(1998)
Trends Cardiovasc. Med
, vol.8
, pp. 350-356
-
-
Ruf, W.1
Dickinson, C.D.2
-
41
-
-
0036382842
-
Crystal structures of uninhibited factor VIIa link its cofactor and substrate-assisted activation to specific interactions
-
Sichler, K., Banner, D.W., D'Arcy, A., Hopfner, K.-P., Huber, R., Bode, W., Kresse, G.-B., Kopetzki, E., and Brandstetter, H. 2002. Crystal structures of uninhibited factor VIIa link its cofactor and substrate-assisted activation to specific interactions. J. Mol. Biol. 322: 591-603.
-
(2002)
J. Mol. Biol
, vol.322
, pp. 591-603
-
-
Sichler, K.1
Banner, D.W.2
D'Arcy, A.3
Hopfner, K.-P.4
Huber, R.5
Bode, W.6
Kresse, G.-B.7
Kopetzki, E.8
Brandstetter, H.9
-
42
-
-
2242436245
-
The 99 and 170 loop-modified factor VIIa mutants show enhanced catalytic activity without tissue factor
-
Soejima, K., Yuguchi, M., Mizuguchi, J., Tomokiyo, K., Nakashima, T., Nakagaki, T., and Iwanaga, S. 2002. The 99 and 170 loop-modified factor VIIa mutants show enhanced catalytic activity without tissue factor. J. Biol. Chem. 277: 49027-49035.
-
(2002)
J. Biol. Chem
, vol.277
, pp. 49027-49035
-
-
Soejima, K.1
Yuguchi, M.2
Mizuguchi, J.3
Tomokiyo, K.4
Nakashima, T.5
Nakagaki, T.6
Iwanaga, S.7
-
43
-
-
0030991982
-
Incorporation of an active site inhibitor in factor VIIa alters the affinity for tissue factor
-
Sørensen, B.B., Persson, E., Freskgård, P.O., Kjalke, M., Ezban, M., Williams, T., and Rao, L.V.M. 1997. Incorporation of an active site inhibitor in factor VIIa alters the affinity for tissue factor. J. Biol. Chem. 272: 11863-11868.
-
(1997)
J. Biol. Chem
, vol.272
, pp. 11863-11868
-
-
Sørensen, B.B.1
Persson, E.2
Freskgård, P.O.3
Kjalke, M.4
Ezban, M.5
Williams, T.6
Rao, L.V.M.7
-
44
-
-
33644761306
-
Hydrogen exchange mass spectrometry for the analysis of protein dynamics
-
Wales, T.E. and Engen, J.R. 2006. Hydrogen exchange mass spectrometry for the analysis of protein dynamics. Mass Spectrom. Rev. 25: 158-170.
-
(2006)
Mass Spectrom. Rev
, vol.25
, pp. 158-170
-
-
Wales, T.E.1
Engen, J.R.2
-
45
-
-
0033524955
-
Structure of extracellular tissue factor complexed with factor VIIa inhibited with a BPTI mutant
-
Zhang, E., St Charles, R., and Tulinsky, A. 1999. Structure of extracellular tissue factor complexed with factor VIIa inhibited with a BPTI mutant. J. Mol. Biol. 285: 2089-2104.
-
(1999)
J. Mol. Biol
, vol.285
, pp. 2089-2104
-
-
Zhang, E.1
St Charles, R.2
Tulinsky, A.3
|