| 1 |
Ji_W_2019 |
Salt bridge-forming residues positioned over viral peptides presented by MHC class I impacts T-cell recognition in a binding-dependent manner |
Ji, Wei; Niu, Ling; Peng, Weiyu; Zhang, Yongli; Cheng, Hao; Gao, Feng; Shi, Yi; Qi, Jianxun; Gao, George F.; Liu, William J. |
2019 |
2019-08-31 |
PMC |
N |
PMC7112684 |
31226552.0 |
10.1016/j.molimm.2019.06.005 |
z5vmhopa |
0.727532 |
Ivarsson_2012, UNKNOWN_1986 |
Jia_X_2012 |
| 2 |
Ma_W_2013 |
Rules for the recognition of dilysine retrieval motifs by coatomer |
Ma, Wenfu; Goldberg, Jonathan |
2013 |
2013-03-12 |
PMC |
N |
PMC3616288 |
23481256.0 |
10.1038/emboj.2013.41 |
0lykpinp |
0.664597 |
Ivarsson_2012, Smith_2003, UNKNOWN_1987 |
|
| 3 |
Ryu_M_2011 |
LILRA3 Binds Both Classical and Non-Classical HLA Class I Molecules but with Reduced Affinities Compared to LILRB1/LILRB2: Structural Evidence |
Ryu, Myongchol; Chen, Yong; Qi, Jianxun; Liu, Jun; Fan, Zheng; Nam, Gol; Shi, Yi; Cheng, Hao; Gao, George F. |
2011 |
2011-04-29 |
COMM-USE |
N |
PMC3084784 |
21559424.0 |
10.1371/journal.pone.0019245 |
vl3stglz |
0.664536 |
Ivarsson_2012, Smith_2003, UNKNOWN_1987, Snyder_2005 |
Santiago_2007, Bos_M_1999 |
| 4 |
Das_J_2017 |
Chemical property based sequence characterization of PpcA and its homolog proteins PpcB-E: A mathematical approach |
Das, Jayanta Kumar; Pal Choudhury, Pabitra |
2017 |
2017-03-31 |
COMM-USE |
N |
PMC5376323 |
28362850.0 |
10.1371/journal.pone.0175031 |
2kpxhzbe |
0.635509 |
Callison_1999 |
|
| 5 |
Harmar_1984 |
Three tachykinins in mammalian brain |
Harmar, Anthony J. |
1984 |
1984-03-31 |
PMC |
N |
|
|
10.1016/s0166-2236(84)80154-x |
51owqk1z |
0.623216 |
UNKNOWN_1987, Ivarsson_2012, Callison_1999 |
|
| 6 |
Mills_2007 |
Differential activation of polymorphisms of the formyl peptide receptor by formyl peptides |
Mills, John S. |
2007 |
2007-09-30 |
None |
N |
PMC2094211 |
17644322.0 |
10.1016/j.bbadis.2007.06.001 |
3jqk6ffb |
0.600043 |
UNKNOWN_1987, Smith_2003 |
D’Errico_2009, Wang_2013 |
| 7 |
Zhu_S_2019 |
Divergent Peptide Presentations of HLA-A(*)30 Alleles Revealed by Structures With Pathogen Peptides |
Zhu, Shiyan; Liu, Kefang; Chai, Yan; Wu, Yanan; Lu, Dan; Xiao, Wenling; Cheng, Hao; Zhao, Yingze; Ding, Chunming; Lyu, Jianxin; Lou, Yongliang; Gao, George F.; Liu, William J. |
2019 |
2019-07-23 |
COMM-USE |
N |
PMC6664060 |
31396224.0 |
10.3389/fimmu.2019.01709 |
va15szxu |
0.596031 |
Callison_1999, Ivarsson_2012, Zhou_2007 |
|
| 8 |
Xia_P_2018 |
Binding determinants in the interplay between porcine aminopeptidase N and enterotoxigenic Escherichia coli F4 fimbriae |
Xia, Pengpeng; Quan, Guomei; Yang, Yi; Zhao, Jing; Wang, Yiting; Zhou, Mingxu; Hardwidge, Philip R.; Zhu, Jianzhong; Liu, Siguo; Zhu, Guoqiang |
2018 |
2018-02-26 |
COMM-USE |
N |
PMC5828407 |
29482635.0 |
10.1186/s13567-018-0519-9 |
fx5vhz55 |
0.502474 |
Callison_1999, UNKNOWN_1987, Chang_2000 |
|
| 9 |
Røder_2008 |
Structure of a SARS coronavirus-derived peptide bound to the human major histocompatibility complex class I molecule HLA-B*1501 |
Røder, Gustav; Kristensen, Ole; Kastrup, Jette S.; Buus, Søren; Gajhede, Michael |
2008 |
2008-05-17 |
PMC |
N |
PMC2496847 |
18540051.0 |
10.1107/s1744309108012396 |
v0vznri2 |
0.497342 |
Ivarsson_2012, UNKNOWN_1987, UNKNOWN_1986 |
|
| 10 |
Bahramali_2016 |
Chameleon sequences in neurodegenerative diseases |
Bahramali, Golnaz; Goliaei, Bahram; Minuchehr, Zarrin; Salari, Ali |
2016 |
2016-03-25 |
None |
N |
PMC7124260 |
26920059.0 |
10.1016/j.bbrc.2016.01.187 |
yjn0egy6 |
0.495299 |
Callison_1999, UNKNOWN_1987 |
Wang_2013, Kumar_2013 |
| 11 |
UNKNOWN_1989 |
Translational diffusion of class II major histocompatibility complex molecules is constrained by their cytoplasmic domains |
None |
1989 |
1989-12-01 |
NONCOMM |
N |
PMC2115898 |
2557353.0 |
|
ie5ox69g |
0.477199 |
UNKNOWN_1986, UNKNOWN_1993, UNKNOWN_1987, Chang_2000 |
UNKNOWN_1995 |
| 12 |
Toor_2018 |
A Recurrent Mutation in Anaplastic Lymphoma Kinase with Distinct Neoepitope Conformations |
Toor, Jugmohit S.; Rao, Arjun A.; McShan, Andrew C.; Yarmarkovich, Mark; Nerli, Santrupti; Yamaguchi, Karissa; Madejska, Ada A.; Nguyen, Son; Tripathi, Sarvind; Maris, John M.; Salama, Sofie R.; Haussler, David; Sgourakis, Nikolaos G. |
2018 |
2018-01-30 |
None |
N |
PMC5797543 |
29441070.0 |
10.3389/fimmu.2018.00099 |
a4i8tlag |
0.470420 |
Ivarsson_2012, Wucherpfennig_1995 |
|
| 13 |
Rao_Z_2007 |
History of protein crystallography in China |
Rao, Zihe |
2007 |
2007-02-27 |
PMC |
N |
PMC2435569 |
17327211.0 |
10.1098/rstb.2007.2032 |
k46ukxcr |
0.463815 |
|
|
| 14 |
Li_X_2011 |
Two Distinct Conformations of a Rinderpest Virus Epitope Presented by Bovine Major Histocompatibility Complex Class I N*01801: a Host Strategy To Present Featured Peptides |
Li, Xin; Liu, Jun; Qi, Jianxun; Gao, Feng; Li, Qirun; Li, Xiaoying; Zhang, Nianzhi; Xia, Chun; Gao, George F. |
2011 |
2011-03-30 |
None |
N |
PMC3126294 |
21450819.0 |
10.1128/jvi.00030-11 |
p3ytja2h |
0.462142 |
Wucherpfennig_1995, Ivarsson_2012 |
|
| 15 |
Blicher_2005 |
High‐resolution structure of HLA‐A*1101 in complex with SARS nucleocapsid peptide |
Blicher, Thomas; Kastrup, Jette Sandholm; Buus, Søren; Gajhede, Michael |
2005 |
2005-07-26 |
PMC |
N |
PMC7161638 |
16041067.0 |
10.1107/s0907444905013090 |
gts5bexh |
0.456887 |
UNKNOWN_1987, Callison_1999, Ivarsson_2012 |
|
| 16 |
Das_J_2016 |
Mathematical Characterization of Protein Sequences Using Patterns as Chemical Group Combinations of Amino Acids |
Das, Jayanta Kumar; Das, Provas; Ray, Korak Kumar; Choudhury, Pabitra Pal; Jana, Siddhartha Sankar |
2016 |
2016-12-08 |
COMM-USE |
N |
PMC5145171 |
27930687.0 |
10.1371/journal.pone.0167651 |
ifebw24e |
0.452564 |
Ivarsson_2012 |
Das_J_2017 |
| 17 |
Kotsiou_2011 |
Properties and Applications of Single-Chain Major Histocompatibility Complex Class I Molecules |
Kotsiou, Eleni; Brzostek, Joanna; Gould, Keith G. |
2011 |
2011-08-01 |
PMC |
N |
PMC3125553 |
21126187.0 |
10.1089/ars.2010.3694 |
9bpd8e2h |
0.436931 |
UNKNOWN_1986, Ivarsson_2012, Ji_W_2019 |
|
| 18 |
Der_Vartanian_1994 |
Permissible peptide insertions surrounding the signal peptide-mature protein junction of the ClpG prepilin: CS31A fimbriae of Escherichia coli as carriers of foreign sequences |
Der Vartanian, Maurice; Méchin, Marie-Claire; Jaffeux, Bernard; Bertin, Yolande; Félix, Isabelle; Gaillard-Martinie, Brigitte |
1994 |
1994-10-11 |
PMC |
N |
PMC7131889 |
7523252.0 |
10.1016/0378-1119(94)90229-1 |
i3mebqtq |
0.430624 |
UNKNOWN_1987 |
|
| 19 |
Pan_X_2020 |
Illumination of PRRSV Cytotoxic T Lymphocyte Epitopes by the Three-Dimensional Structure and Peptidome of Swine Lymphocyte Antigen Class I (SLA-I) |
Pan, Xiaocheng; Zhang, Nianzhi; Wei, Xiaohui; Jiang, Yinan; Chen, Rong; Li, Qirun; Liang, Ruiying; Zhang, Lijie; Ma, Lizhen; Xia, Chun |
2020 |
2020-01-08 |
COMM-USE |
N |
PMC6960135 |
31969884.0 |
10.3389/fimmu.2019.02995 |
9815ikzg |
0.423006 |
Callison_1999 |
|
| 20 |
Banerjee_2013 |
Use of a Small Peptide Fragment as an Inhibitor of Insulin Fibrillation Process: A Study by High and Low Resolution Spectroscopy |
Banerjee, Victor; Kar, Rajiv K.; Datta, Aritreyee; Parthasarathi, Krupakar; Chatterjee, Subhrangsu; Das, Kali P.; Bhunia, Anirban |
2013 |
2013-08-29 |
COMM-USE |
N |
PMC3756998 |
24009675.0 |
10.1371/journal.pone.0072318 |
auicxks8 |
0.418564 |
UNKNOWN_1987, Chan_2016, Ivarsson_2012, Smith_2003 |
Moulaei_2010 |
| 21 |
Wang_2010 |
Potential Aggregation-Prone Regions in Complementarity-Determining Regions of Antibodies and Their Contribution Towards Antigen Recognition: A Computational Analysis |
Wang, Xiaoling; Singh, Satish K.; Kumar, Sandeep |
2010 |
2010-04-27 |
PMC |
N |
PMC7088613 |
20422267.0 |
10.1007/s11095-010-0143-5 |
buoay0gf |
0.418552 |
Ivarsson_2012, Callison_1999, UNKNOWN_1987 |
Moulaei_2010 |
| 22 |
Soykut_2008 |
Selection of staphylococcal enterotoxin B (SEB)-binding peptide using phage display technology |
Soykut, Esra Acar; Dudak, Fahriye Ceyda; Boyacı, İsmail Hakkı |
2008 |
2008-05-23 |
PMC |
N |
PMC7117543 |
18359289.0 |
10.1016/j.bbrc.2008.03.065 |
n4ooziv4 |
0.402584 |
Callison_1999 |
|
| 23 |
Cavanagh_1986 |
Coronavirus IBV: Partial amino terminal sequencing of spike polypeptide S2 identifies the sequence Arg-Arg-Phe-Arg-Arg at the cleavage site of the spike precursor propolypeptide of IBV strains Beaudette and M41 |
Cavanagh, David; Davis, Philip J.; Pappin, Darryl J.C.; Binns, Matthew M.; Boursnell, Michael E.G.; Brown, T.David K. |
1986 |
1986-02-28 |
PMC |
N |
PMC7133853 |
3010595.0 |
10.1016/0168-1702(86)90037-7 |
epdoa559 |
0.368178 |
Callison_1999, UNKNOWN_1987 |
Luytjes_1987 |
| 24 |
Jia_X_2012 |
Structural Basis of Evasion of Cellular Adaptive Immunity by HIV-1 Nef |
Jia, Xiaofei; Singh, Rajendra; Homann, Stefanie; Yang, Haitao; Guatelli, John; Xiong, Yong |
2012 |
2012-06-17 |
PMC |
N |
PMC3407041 |
22705789.0 |
10.1038/nsmb.2328 |
h6m1mhkd |
0.363504 |
Ivarsson_2012, Gomis-Rüth_2003, UNKNOWN_1986 |
|
| 25 |
Maddamsetti_2018 |
Viral gain-of-function experiments uncover residues under diversifying selection in nature |
Rohan Maddamsetti; Daniel T. Johnson; Stephanie J. Spielman; Katherine L. Petrie; Debora S. Marks; Justin R. Meyer |
2018 |
2018-01-03 |
BioRxiv |
N |
|
|
10.1101/242495 |
gqhlw20n |
0.363328 |
|
|
| 26 |
Hatakeyama_2008 |
Dissection and identification of regions required to form pseudoparticles by the interaction between the nucleocapsid (N) and membrane (M) proteins of SARS coronavirus |
Hatakeyama, Seisuke; Matsuoka, Yusuke; Ueshiba, Hidehiro; Komatsu, Nobukazu; Itoh, Kyogo; Shichijo, Shigeki; Kanai, Takao; Fukushi, Masaya; Ishida, Isao; Kirikae, Teruo; Sasazuki, Takehiko; Miyoshi-Akiyama, Tohru |
2008 |
2008-10-10 |
PMC |
N |
PMC7103410 |
18703211.0 |
10.1016/j.virol.2008.07.012 |
qbz4furm |
0.356777 |
UNKNOWN_1987, Yang_2012 |
Timani_2005, Voß_D_2009 |
| 27 |
Poccia_1992 |
Packaging and unpackaging the sea urchin sperm genome |
Poccia, Dominic L.; Green, G.R. |
1992 |
1992-06-30 |
PMC |
N |
|
1502725.0 |
10.1016/0968-0004(92)90382-j |
dfcovxpp |
0.350020 |
Ivarsson_2012, UNKNOWN_1992, Smith_2003, Sundaramoorthy_2018 |
|
| 28 |
Skubitz_2008 |
Synthetic peptides from the N‐domains of CEACAMs activate neutrophils |
Skubitz, K.M.; Campbell, K.D.; Skubitz, A. P. N. |
2008 |
2008-12-08 |
PMC |
N |
PMC7162001 |
12005421.0 |
10.1034/j.1399-3011.2001.00931.x |
lt9yzs99 |
0.338366 |
UNKNOWN_1987, UNKNOWN_1993, Lawson_2012, Ivarsson_2012, Yang_2012 |
|
| 29 |
Baruah_2020 |
Immunoinformatics‐aided identification of T cell and B cell epitopes in the surface glycoprotein of 2019‐nCoV |
Baruah, Vargab; Bose, Sujoy |
2020 |
2020-03-03 |
PMC |
Y |
PMC7166505 |
32022276.0 |
10.1002/jmv.25698 |
5dle3e3c |
0.335861 |
|
|
| 30 |
Acker_2011 |
Mechanism for Noncompetitive Inhibition by Novel GluN2C/D N-Methyl-d-aspartate Receptor Subunit-Selective Modulators |
Acker, Timothy M.; Yuan, Hongjie; Hansen, Kasper B.; Vance, Katie M.; Ogden, Kevin K.; Jensen, Henrik S.; Burger, Pieter B.; Mullasseril, Praseeda; Snyder, James P.; Liotta, Dennis C.; Traynelis, Stephen F. |
2011 |
2011-08-01 |
PMC |
N |
PMC3198917 |
21807990.0 |
10.1124/mol.111.073239 |
7tkbh9k3 |
0.335712 |
Ivarsson_2012, Smith_2003, UNKNOWN_1987, Chang_2000 |
|
| 31 |
Antunes_2018 |
General Prediction of Peptide-MHC Binding Modes Using Incremental Docking: A Proof of Concept |
Antunes, Dinler A.; Devaurs, Didier; Moll, Mark; Lizée, Gregory; Kavraki, Lydia E. |
2018 |
2018-03-12 |
COMM-USE |
N |
PMC5847594 |
29531253.0 |
10.1038/s41598-018-22173-4 |
f6vsr6ia |
0.335304 |
Liu_Z_2008, Ivarsson_2012 |
Park_2013 |
| 32 |
Woldring_2015 |
High-Throughput Ligand Discovery Reveals a Sitewise Gradient of Diversity in Broadly Evolved Hydrophilic Fibronectin Domains |
Woldring, Daniel R.; Holec, Patrick V.; Zhou, Hong; Hackel, Benjamin J. |
2015 |
2015-09-18 |
None |
N |
PMC4575168 |
26383268.0 |
10.1371/journal.pone.0138956 |
6rt3ty64 |
0.318209 |
Ivarsson_2012, Kinjo_2012 |
Moulaei_2010 |
| 33 |
Sivanesam_2019 |
Pre-structured hydrophobic peptide β-strands: A universal amyloid trap? |
Sivanesam, Kalkena; Andersen, Niels |
2019 |
2019-03-30 |
PMC |
N |
PMC7094768 |
30707943.0 |
10.1016/j.abb.2019.01.032 |
c6hqrnj2 |
0.314549 |
Ivarsson_2012, Kirillova_2009 |
Abad_2009, Robinson_2013, Ghosh_2015 |
| 34 |
Wucherpfennig_1995 |
Molecular mimicry in T cell-mediated autoimmunity: Viral peptides activate human T cell clones specific for myelin basic protein |
Wucherpfennig, Kai W; Strominger, Jack L |
1995 |
1995-03-10 |
PMC |
N |
|
7534214.0 |
10.1016/0092-8674(95)90348-8 |
xzusv5zj |
0.304408 |
|
|
| 35 |
Méndez_2015 |
Infectious Bursal Disease Virus VP5 Polypeptide: A Phosphoinositide-Binding Protein Required for Efficient Cell-to-Cell Virus Dissemination |
Méndez, Fernando; de Garay, Tomás; Rodríguez, Dolores; Rodríguez, José F. |
2015 |
2015-04-17 |
COMM-USE |
N |
PMC4401730 |
25886023.0 |
10.1371/journal.pone.0123470 |
k8jzzqj0 |
0.301757 |
UNKNOWN_1987, Chang_2000, Gomis-Rüth_2003 |
|