-
1
-
-
76449098262
-
PHENIX: a comprehensive Python-based system for macromolecular structure solution
-
Adams, P. D., Afonine, P. V., Bunkoczi, G., Chen, V. B., Davis, I. W., Echols, N., Headd, J. J., Hung, L. W., Kapral, G. J., Grosse-Kunstleve, R. W., et al. (2010). PHENIX: a comprehensive Python-based system for macromolecular structure solution. Acta Crystallogr D Biol Crystallogr 66, 213-221.
-
(2010)
Acta Crystallogr D Biol Crystallogr
, vol.66
, pp. 213-221
-
-
Adams, P.D.1
Afonine, P.V.2
Bunkoczi, G.3
Chen, V.B.4
Davis, I.W.5
Echols, N.6
Headd, J.J.7
Hung, L.W.8
Kapral, G.J.9
Grosse-Kunstleve, R.W.10
-
2
-
-
32144432437
-
The SWISS-MODEL workspace: a web-based environment for protein structure homology modelling
-
Arnold, K., Bordoli, L., Kopp, J., and Schwede, T. (2006). The SWISS-MODEL workspace: a web-based environment for protein structure homology modelling. Bioinformatics 22, 195-201.
-
(2006)
Bioinformatics
, vol.22
, pp. 195-201
-
-
Arnold, K.1
Bordoli, L.2
Kopp, J.3
Schwede, T.4
-
3
-
-
34249707811
-
TLR-dependent and TLR-independent pathways of type I interferon induction in systemic autoimmunity
-
Baccala, R., Hoebe, K., Kono, D. H., Beutler, B., and Theofilopoulos, A. N. (2007). TLR-dependent and TLR-independent pathways of type I interferon induction in systemic autoimmunity. Nat Med 13, 543-551.
-
(2007)
Nat Med
, vol.13
, pp. 543-551
-
-
Baccala, R.1
Hoebe, K.2
Kono, D.H.3
Beutler, B.4
Theofilopoulos, A.N.5
-
4
-
-
0035824875
-
Structure and properties of a dimeric N-terminal fragment of human ubiquitin
-
Bolton, D., Evans, P. A., Stott, K., and Broadhurst, R. W. (2001). Structure and properties of a dimeric N-terminal fragment of human ubiquitin. J Mol Biol 314, 773-787.
-
(2001)
J Mol Biol
, vol.314
, pp. 773-787
-
-
Bolton, D.1
Evans, P.A.2
Stott, K.3
Broadhurst, R.W.4
-
5
-
-
0035896011
-
The UBX domain: a widespread ubiquitin-like module
-
Buchberger, A., Howard, M. J., Proctor, M., and Bycroft, M. (2001). The UBX domain: a widespread ubiquitin-like module. J Mol Biol 307, 17-24.
-
(2001)
J Mol Biol
, vol.307
, pp. 17-24
-
-
Buchberger, A.1
Howard, M.J.2
Proctor, M.3
Bycroft, M.4
-
6
-
-
34548154812
-
Small but versatile: the extraordinary functional and structural diversity of the beta-grasp fold
-
Burroughs, A. M., Balaji, S., Iyer, L. M., and Aravind, L. (2007). Small but versatile: the extraordinary functional and structural diversity of the beta-grasp fold. Biol Direct 2, 18.
-
(2007)
Biol Direct
, vol.2
, pp. 18
-
-
Burroughs, A.M.1
Balaji, S.2
Iyer, L.M.3
Aravind, L.4
-
7
-
-
41549165085
-
Are the IKKs and IKK-related kinases TBK1 and IKK-epsilon similarly activated?
-
Chau, T. L., Gioia, R., Gatot, J. S., Patrascu, F., Carpentier, I., Chapelle, J. P., O'Neill, L., Beyaert, R., Piette, J., and Chariot, A. (2008). Are the IKKs and IKK-related kinases TBK1 and IKK-epsilon similarly activated? Trends Biochem Sci 33, 171-180.
-
(2008)
Trends Biochem Sci
, vol.33
, pp. 171-180
-
-
Chau, T.L.1
Gioia, R.2
Gatot, J.S.3
Patrascu, F.4
Carpentier, I.5
Chapelle, J.P.6
O'Neill, L.7
Beyaert, R.8
Piette, J.9
Chariot, A.10
-
8
-
-
66149086936
-
NOD-like receptors: role in innate immunity and inflammatory disease
-
Chen, G., Shaw, M. H., Kim, Y. G., and Nuñez, G. (2009). NOD-like receptors: role in innate immunity and inflammatory disease. Annu Rev Pathol 4, 365-398.
-
(2009)
Annu Rev Pathol
, vol.4
, pp. 365-398
-
-
Chen, G.1
Shaw, M.H.2
Kim, Y.G.3
Nuñez, G.4
-
9
-
-
79952753922
-
TANK-binding kinase 1 attenuates PTAP-dependent retroviral budding through targeting endosomal sorting complex required for transport-I
-
Da, Q., Yang, X., Xu, Y., Gao, G., Cheng, G., and Tang, H. (2011). TANK-binding kinase 1 attenuates PTAP-dependent retroviral budding through targeting endosomal sorting complex required for transport-I. J Immunol 186, 3023-3030.
-
(2011)
J Immunol
, vol.186
, pp. 3023-3030
-
-
Da, Q.1
Yang, X.2
Xu, Y.3
Gao, G.4
Cheng, G.5
Tang, H.6
-
10
-
-
13244281317
-
Coot: model-building tools for molecular graphics
-
Emsley, P., and Cowtan, K. (2004). Coot: model-building tools for molecular graphics. Acta Crystallogr D Biol Crystallogr 60, 2126-2132.
-
(2004)
Acta Crystallogr D Biol Crystallogr
, vol.60
, pp. 2126-2132
-
-
Emsley, P.1
Cowtan, K.2
-
11
-
-
0038393016
-
IKKepsilon and TBK1 are essential components of the IRF3 signaling pathway
-
Fitzgerald, K. A., McWhirter, S. M., Faia, K. L., Rowe, D. C., Latz, E., Golenbock, D. T., Coyle, A. J., Liao, S. M., and Maniatis, T. (2003). IKKepsilon and TBK1 are essential components of the IRF3 signaling pathway. Nat Immunol 4, 491-496.
-
(2003)
Nat Immunol
, vol.4
, pp. 491-496
-
-
Fitzgerald, K.A.1
McWhirter, S.M.2
Faia, K.L.3
Rowe, D.C.4
Latz, E.5
Golenbock, D.T.6
Coyle, A.J.7
Liao, S.M.8
Maniatis, T.9
-
12
-
-
65249166493
-
Functional roles of ubiquitin-like domain (ULD) and ubiquitin-binding domain (UBD) containing proteins
-
Grabbe, C., and Dikic, I. (2009). Functional roles of ubiquitin-like domain (ULD) and ubiquitin-binding domain (UBD) containing proteins. Chem Rev 109, 1481-1494.
-
(2009)
Chem Rev
, vol.109
, pp. 1481-1494
-
-
Grabbe, C.1
Dikic, I.2
-
13
-
-
0031473847
-
SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling
-
Guex, N., and Peitsch, M. C. (1997). SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling. Electrophoresis 18, 2714-2723.
-
(1997)
Electrophoresis
, vol.18
, pp. 2714-2723
-
-
Guex, N.1
Peitsch, M.C.2
-
14
-
-
77953761678
-
The yeast E4 ubiquitin ligase Ufd2 interacts with the ubiquitin-like domains of Rad23 and Dsk2 via a novel and distinct ubiquitin-like binding domain
-
Hänzelmann, P., Stingele, J., Hofmann, K., Schindelin, H., and Raasi, S. (2010). The yeast E4 ubiquitin ligase Ufd2 interacts with the ubiquitin-like domains of Rad23 and Dsk2 via a novel and distinct ubiquitin-like binding domain. J Biol Chem 285, 20390-20398.
-
(2010)
J Biol Chem
, vol.285
, pp. 20390-20398
-
-
Hänzelmann, P.1
Stingele, J.2
Hofmann, K.3
Schindelin, H.4
Raasi, S.5
-
15
-
-
34548129605
-
Convergence of the NF-kappaB and IRF pathways in the regulation of the innate antiviral response
-
Hiscott, J. (2007). Convergence of the NF-kappaB and IRF pathways in the regulation of the innate antiviral response. Cytokine Growth Factor Rev 18, 483-490.
-
(2007)
Cytokine Growth Factor Rev
, vol.18
, pp. 483-490
-
-
Hiscott, J.1
-
16
-
-
63649113699
-
Origin and function of ubiquitin-like proteins
-
Hochstrasser, M. (2009). Origin and function of ubiquitin-like proteins. Nature 458, 422-429.
-
(2009)
Nature
, vol.458
, pp. 422-429
-
-
Hochstrasser, M.1
-
17
-
-
77954288774
-
Dali server: conservation mapping in 3D
-
Holm, L., and Rosenström, P. (2010). Dali server: conservation mapping in 3D. Nucleic Acids Res 38, W545-549.
-
(2010)
Nucleic Acids Res
, vol.38
-
-
Holm, L.1
Rosenström, P.2
-
18
-
-
33750555919
-
Ubiquitin-binding domains
-
Hurley, J. H., Lee, S., and Prag, G. (2006). Ubiquitin-binding domains. Biochem J 399, 361-372.
-
(2006)
Biochem J
, vol.399
, pp. 361-372
-
-
Hurley, J.H.1
Lee, S.2
Prag, G.3
-
19
-
-
34547188530
-
Involvement of the ubiquitin-like domain of TBK1/IKK-i kinases in regulation of IFN-inducible genes
-
Ikeda, F., Hecker, C. M., Rozenknop, A., Nordmeier, R. D., Rogov, V., Hofmann, K., Akira, S., Dötsch, V., and Dikic, I. (2007). Involvement of the ubiquitin-like domain of TBK1/IKK-i kinases in regulation of IFN-inducible genes. EMBO J 26, 3451-3462.
-
(2007)
EMBO J
, vol.26
, pp. 3451-3462
-
-
Ikeda, F.1
Hecker, C.M.2
Rozenknop, A.3
Nordmeier, R.D.4
Rogov, V.5
Hofmann, K.6
Akira, S.7
Dötsch, V.8
Dikic, I.9
-
20
-
-
68049084674
-
Breaking the chains: structure and function of the deubiquitinases
-
Komander, D., Clague, M. J., and Urbé, S. (2009). Breaking the chains: structure and function of the deubiquitinases. Nat Rev Mol Cell Biol 10, 550-563.
-
(2009)
Nat Rev Mol Cell Biol
, vol.10
, pp. 550-563
-
-
Komander, D.1
Clague, M.J.2
Urbé, S.3
-
21
-
-
33644792262
-
Structural basis for ubiquitin recognition and autoubiquitination by Rabex-5
-
Lee, S., Tsai, Y. C., Mattera, R., Smith, W. J., Kostelansky, M. S., Weissman, A. M., Bonifacino, J. S., and Hurley, J. H. (2006). Structural basis for ubiquitin recognition and autoubiquitination by Rabex-5. Nat Struct Mol Biol 13, 264-271.
-
(2006)
Nat Struct Mol Biol
, vol.13
, pp. 264-271
-
-
Lee, S.1
Tsai, Y.C.2
Mattera, R.3
Smith, W.J.4
Kostelansky, M.S.5
Weissman, A.M.6
Bonifacino, J.S.7
Hurley, J.H.8
-
22
-
-
8744267531
-
Solution structure of a ubiquitin-like domain from tubulin-binding cofactor B
-
Lytle, B. L., Peterson, F. C., Qiu, S. H., Luo, M., Zhao, Q., Markley, J. L., and Volkman, B. F. (2004). Solution structure of a ubiquitin-like domain from tubulin-binding cofactor B. J Biol Chem 279, 46787-46793.
-
(2004)
J Biol Chem
, vol.279
, pp. 46787-46793
-
-
Lytle, B.L.1
Peterson, F.C.2
Qiu, S.H.3
Luo, M.4
Zhao, Q.5
Markley, J.L.6
Volkman, B.F.7
-
23
-
-
8544230698
-
A novel ubiquitin-like domain in IkappaB kinase beta is required for functional activity of the kinase
-
May, M. J., Larsen, S. E., Shim, J. H., Madge, L. A., and Ghosh, S. (2004). A novel ubiquitin-like domain in IkappaB kinase beta is required for functional activity of the kinase. J Biol Chem 279, 45528-45539.
-
(2004)
J Biol Chem
, vol.279
, pp. 45528-45539
-
-
May, M.J.1
Larsen, S.E.2
Shim, J.H.3
Madge, L.A.4
Ghosh, S.5
-
24
-
-
0031059866
-
Processing of X-ray Diffraction Data Collected in Oscillation Mode
-
Minor, Z. O. W. (1997). Processing of X-ray Diffraction Data Collected in Oscillation Mode. Methods Enzymol 276, 20.
-
(1997)
Methods Enzymol
, vol.276
, pp. 20
-
-
Minor, Z.O.W.1
-
25
-
-
79958262459
-
Role of the ubiquitin-like protein Hub1 in splice-site usage and alternative splicing
-
Mishra, S. K., Ammon, T., Popowicz, G. M., Krajewski, M., Nagel, R. J., Ares, M. Jr, Holak, T. A., and Jentsch, S. (2011). Role of the ubiquitin-like protein Hub1 in splice-site usage and alternative splicing. Nature 474, 173-178.
-
(2011)
Nature
, vol.474
, pp. 173-178
-
-
Mishra, S.K.1
Ammon, T.2
Popowicz, G.M.3
Krajewski, M.4
Nagel, R.J.5
Ares Jr., M.6
Holak, T.A.7
Jentsch, S.8
-
26
-
-
0141625301
-
Structural determinants for the binding of ubiquitin-like domains to the proteasome
-
Mueller, T. D., and Feigon, J. (2003). Structural determinants for the binding of ubiquitin-like domains to the proteasome. EMBO J 22, 4634-4645.
-
(2003)
EMBO J
, vol.22
, pp. 4634-4645
-
-
Mueller, T.D.1
Feigon, J.2
-
27
-
-
84863011993
-
Insights into high affinity small ubiquitin-like modifier (SUMO) recognition by SUMO-interacting motifs (SIMs) revealed by a combination of NMR and peptide array analysis
-
Namanja, A. T., Li, Y. J., Su, Y., Wong, S., Lu, J., Colson, L. T., Wu, C., Li, S. S., and Chen, Y. (2012). Insights into high affinity small ubiquitin-like modifier (SUMO) recognition by SUMO-interacting motifs (SIMs) revealed by a combination of NMR and peptide array analysis. J Biol Chem 287, 3231-3240.
-
(2012)
J Biol Chem
, vol.287
, pp. 3231-3240
-
-
Namanja, A.T.1
Li, Y.J.2
Su, Y.3
Wong, S.4
Lu, J.5
Colson, L.T.6
Wu, C.7
Li, S.S.8
Chen, Y.9
-
28
-
-
0029107760
-
The 2.2 A crystal structure of the Ras-binding domain of the serine/threonine kinase c-Raf1 in complex with Rap1A and a GTP analogue
-
Nassar, N., Horn, G., Herrmann, C., Scherer, A., McCormick, F., and Wittinghofer, A. (1995). The 2. 2 A crystal structure of the Ras-binding domain of the serine/threonine kinase c-Raf1 in complex with Rap1A and a GTP analogue. Nature 375, 554-560.
-
(1995)
Nature
, vol.375
, pp. 554-560
-
-
Nassar, N.1
Horn, G.2
Herrmann, C.3
Scherer, A.4
McCormick, F.5
Wittinghofer, A.6
-
29
-
-
0033485542
-
NF-kappaB activation by a signaling complex containing TRAF2, TANK and TBK1, a novel IKK-related kinase
-
Pomerantz, J. L., and Baltimore, D. (1999). NF-kappaB activation by a signaling complex containing TRAF2, TANK and TBK1, a novel IKK-related kinase. EMBO J 18, 6694-6704.
-
(1999)
EMBO J
, vol.18
, pp. 6694-6704
-
-
Pomerantz, J.L.1
Baltimore, D.2
-
30
-
-
34548751368
-
meta-PPISP: a meta web server for protein-protein interaction site prediction
-
Qin, S., and Zhou, H. X. (2007). meta-PPISP: a meta web server for protein-protein interaction site prediction. Bioinformatics 23, 3386-3387.
-
(2007)
Bioinformatics
, vol.23
, pp. 3386-3387
-
-
Qin, S.1
Zhou, H.X.2
-
31
-
-
62549155321
-
Specific recognition of linear ubiquitin chains by NEMO is important for NF-kappaB activation
-
Rahighi, S., Ikeda, F., Kawasaki, M., Akutsu, M., Suzuki, N., Kato, R., Kensche, T., Uejima, T., Bloor, S., Komander, D., et al. (2009). Specific recognition of linear ubiquitin chains by NEMO is important for NF-kappaB activation. Cell 136, 1098-1109.
-
(2009)
Cell
, vol.136
, pp. 1098-1109
-
-
Rahighi, S.1
Ikeda, F.2
Kawasaki, M.3
Akutsu, M.4
Suzuki, N.5
Kato, R.6
Kensche, T.7
Uejima, T.8
Bloor, S.9
Komander, D.10
-
32
-
-
0042622380
-
SWISS-MODEL: An automated protein homology-modeling server
-
Schwede, T., Kopp, J., Guex, N., and Peitsch, M. C. (2003). SWISS-MODEL: An automated protein homology-modeling server. Nucleic Acids Res 31, 3381-3385.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3381-3385
-
-
Schwede, T.1
Kopp, J.2
Guex, N.3
Peitsch, M.C.4
-
33
-
-
37549039510
-
A short history of SHELX
-
Sheldrick, G. M. (2008). A short history of SHELX. Acta Crystallogr A 64, 112-122.
-
(2008)
Acta Crystallogr A
, vol.64
, pp. 112-122
-
-
Sheldrick, G.M.1
-
34
-
-
79951517699
-
Emerging roles for the non-canonical IKKs in cancer
-
Shen, R. R., and Hahn, W. C. (2011). Emerging roles for the non-canonical IKKs in cancer. Oncogene 30, 631-641.
-
(2011)
Oncogene
, vol.30
, pp. 631-641
-
-
Shen, R.R.1
Hahn, W.C.2
-
35
-
-
42649114059
-
The IRF family transcription factors in immunity and oncogenesis
-
Tamura, T., Yanai, H., Savitsky, D., and Taniguchi, T. (2008). The IRF family transcription factors in immunity and oncogenesis. Annu Rev Immunol 26, 535-584.
-
(2008)
Annu Rev Immunol
, vol.26
, pp. 535-584
-
-
Tamura, T.1
Yanai, H.2
Savitsky, D.3
Taniguchi, T.4
-
36
-
-
59449109932
-
Control of TANK-binding kinase 1-mediated signaling by the gamma(1)34.5 protein of herpes simplex virus 1
-
Verpooten, D., Ma, Y., Hou, S., Yan, Z., and He, B. (2009). Control of TANK-binding kinase 1-mediated signaling by the gamma(1)34. 5 protein of herpes simplex virus 1. J Biol Chem 284, 1097-1105.
-
(2009)
J Biol Chem
, vol.284
, pp. 1097-1105
-
-
Verpooten, D.1
Ma, Y.2
Hou, S.3
Yan, Z.4
He, B.5
-
37
-
-
0347416977
-
The structure of the APPBP1-UBA3-NEDD8-ATP complex reveals the basis for selective ubiquitin-like protein activation by an E1
-
Walden, H., Podgorski, M. S., Huang, D. T., Miller, D. W., Howard, R. J., Minor, D. L. Jr, Holton, J. M., and Schulman, B. A. (2003). The structure of the APPBP1-UBA3-NEDD8-ATP complex reveals the basis for selective ubiquitin-like protein activation by an E1. Mol Cell 12, 1427-1437.
-
(2003)
Mol Cell
, vol.12
, pp. 1427-1437
-
-
Walden, H.1
Podgorski, M.S.2
Huang, D.T.3
Miller, D.W.4
Howard, R.J.5
Minor Jr., D.L.6
Holton, J.M.7
Schulman, B.A.8
-
38
-
-
23144449208
-
Ubiquitin and ubiquitin-like proteins as multifunctional signals
-
Welchman, R. L., Gordon, C., and Mayer, R. J. (2005). Ubiquitin and ubiquitin-like proteins as multifunctional signals. Nat Rev Mol Cell Biol 6, 599-609.
-
(2005)
Nat Rev Mol Cell Biol
, vol.6
, pp. 599-609
-
-
Welchman, R.L.1
Gordon, C.2
Mayer, R.J.3
-
39
-
-
79960804104
-
Phosphorylation of the autophagy receptor optineurin restricts Salmonella growth
-
Wild, P., Farhan, H., McEwan, D. G., Wagner, S., Rogov, V. V., Brady, N. R., Richter, B., Korac, J., Waidmann, O., Choudhary, C., et al. (2011). Phosphorylation of the autophagy receptor optineurin restricts Salmonella growth. Science 333, 228-233.
-
(2011)
Science
, vol.333
, pp. 228-233
-
-
Wild, P.1
Farhan, H.2
McEwan, D.G.3
Wagner, S.4
Rogov, V.V.5
Brady, N.R.6
Richter, B.7
Korac, J.8
Waidmann, O.9
Choudhary, C.10
-
40
-
-
79955481873
-
Crystal structure of inhibitor of κB kinase β
-
Xu, G., Lo, Y. C., Li, Q., Napolitano, G., Wu, X., Jiang, X., Dreano, M., Karin, M., and Wu, H. (2011). Crystal structure of inhibitor of κB kinase β. Nature 472, 325-330.
-
(2011)
Nature
, vol.472
, pp. 325-330
-
-
Xu, G.1
Lo, Y.C.2
Li, Q.3
Napolitano, G.4
Wu, X.5
Jiang, X.6
Dreano, M.7
Karin, M.8
Wu, H.9
-
41
-
-
78049394714
-
Cutting edge: association with I kappa B kinase beta regulates the subcellular localization of Homer3
-
Yatherajam, G., Banerjee, P. P., McCorkell, K. A., Solt, L. A., Hanson, E. P., Madge, L. A., Kang, S., Worley, P. F., Orange, J. S., and May, M. J. (2010). Cutting edge: association with I kappa B kinase beta regulates the subcellular localization of Homer3. J Immunol 185, 2665-2669.
-
(2010)
J Immunol
, vol.185
, pp. 2665-2669
-
-
Yatherajam, G.1
Banerjee, P.P.2
McCorkell, K.A.3
Solt, L.A.4
Hanson, E.P.5
Madge, L.A.6
Kang, S.7
Worley, P.F.8
Orange, J.S.9
May, M.J.10
-
42
-
-
79959947610
-
PredUs: a web server for predicting protein interfaces using structural neighbors
-
Zhang, Q. C., Deng, L., Fisher, M., Guan, J., Honig, B., and Petrey, D. (2011). PredUs: a web server for predicting protein interfaces using structural neighbors. Nucleic Acids Res 39, W283-287.
-
(2011)
Nucleic Acids Res
, vol.39
-
-
Zhang, Q.C.1
Deng, L.2
Fisher, M.3
Guan, J.4
Honig, B.5
Petrey, D.6
-
43
-
-
53349168904
-
The adaptor protein MITA links virus-sensing receptors to IRF3 transcription factor activation
-
Zhong, B., Yang, Y., Li, S., Wang, Y. Y., Li, Y., Diao, F., Lei, C., He, X., Zhang, L., Tien, P., et al. (2008). The adaptor protein MITA links virus-sensing receptors to IRF3 transcription factor activation. Immunity 29, 538-550.
-
(2008)
Immunity
, vol.29
, pp. 538-550
-
-
Zhong, B.1
Yang, Y.2
Li, S.3
Wang, Y.Y.4
Li, Y.5
Diao, F.6
Lei, C.7
He, X.8
Zhang, L.9
Tien, P.10
|