2576 SDPGALVR(5) 1 Phage display (subtractive panning) 7 PMID:10077584 Hairpin DNA Not determined. Not determined. Not determined. pComb3H SX4LX2 phage display library Hairpin target oligonucleotides had the sequence 5'-Biotin-GGACGCN'N'N'CGCGGGTTTTCCCGCGNNNGCGTCC-3', where NNN was the 3-nt finger-2 target sequence and N'N'N' its complement. The selection target site is GTC. A similar nonbiotinylated oligonucleotide, in which the target sequence was TGG (compTGG), was included at 7.2 nM in every round of selection to select against contaminating parental phage. Two pools of nonbiotinylated oligonucleotides also were used as competitors: one containing all 64 possible 3-nt targets sequences (compNNN), the other containing all of the GNN target sequences except for the current selection target (compGNN). These pools typically were used as follows: round 1, no compNNN or compGNN; round 2, 7.2 nM compGNN; round 3, 10.8 nM compGNN; round 4, 1.8 mM compNNN, 25 nM compGNN; round 5, 2.7 mM compNNN, 90 nM compGNN; round 6, 2.7 mM compNNN, 250 nM compGNN; round 7, 3.6 mM compNNN, 250 nM compGNN. The sheared herring sperm DNA was first incubated with the library, before the addition of 72 nM biotinylated hairpin target oligonucleotide. Each selection was performed on streptavidin-coated magnetic beads. 2577 TEKGTLNR(1) 1 Phage display (subtractive panning) 7 PMID:10077584 Hairpin DNA Not determined. Not determined. Not determined. pComb3H X5LX2 phage display library Hairpin target oligonucleotides had the sequence 5'-Biotin-GGACGCN'N'N'CGCGGGTTTTCCCGCGNNNGCGTCC-3', where NNN was the 3-nt finger-2 target sequence and N'N'N' its complement. The selection target site is GTC. A similar nonbiotinylated oligonucleotide, in which the target sequence was TGG (compTGG), was included at 7.2 nM in every round of selection to select against contaminating parental phage. Two pools of nonbiotinylated oligonucleotides also were used as competitors: one containing all 64 possible 3-nt targets sequences (compNNN), the other containing all of the GNN target sequences except for the current selection target (compGNN). These pools typically were used as follows: round 1, no compNNN or compGNN; round 2, 7.2 nM compGNN; round 3, 10.8 nM compGNN; round 4, 1.8 mM compNNN, 25 nM compGNN; round 5, 2.7 mM compNNN, 90 nM compGNN; round 6, 2.7 mM compNNN, 250 nM compGNN; round 7, 3.6 mM compNNN, 250 nM compGNN. The sheared herring sperm DNA was first incubated with the library, before the addition of 72 nM biotinylated hairpin target oligonucleotide. Each selection was performed on streptavidin-coated magnetic beads. 2578 SGCRELSR(5) SDCRDLAR(4) SGCKDLAR(1) SGCRELSR(1) 4 Phage display (subtractive panning) 7 PMID:10077584 Hairpin DNA Not determined. Not determined. Not determined. pComb3H SX4LX2 phage display library Hairpin target oligonucleotides had the sequence 5'-Biotin-GGACGCN'N'N'CGCGGGTTTTCCCGCGNNNGCGTCC-3', where NNN was the 3-nt finger-2 target sequence and N'N'N' its complement. The selection target site is GCC. A similar nonbiotinylated oligonucleotide, in which the target sequence was TGG (compTGG), was included at 7.2 nM in every round of selection to select against contaminating parental phage. Two pools of nonbiotinylated oligonucleotides also were used as competitors: one containing all 64 possible 3-nt targets sequences (compNNN), the other containing all of the GNN target sequences except for the current selection target (compGNN). These pools typically were used as follows: round 1, no compNNN or compGNN; round 2, 7.2 nM compGNN; round 3, 10.8 nM compGNN; round 4, 1.8 mM compNNN, 25 nM compGNN; round 5, 2.7 mM compNNN, 90 nM compGNN; round 6, 2.7 mM compNNN, 250 nM compGNN; round 7, 3.6 mM compNNN, 250 nM compGNN. The sheared herring sperm DNA was first incubated with the library, before the addition of 72 nM biotinylated hairpin target oligonucleotide. Each selection was performed on streptavidin-coated magnetic beads. 2579 EERYMNVMPFGGGGS(5) EEQYVNMPWFGGGGS(4) EDERYMNLPWGGGGS(3) QLYENWPVLTGGGGS(2) QERYENVPGIGGGGS(1) RERYENVWYVGGGGS(1) RSGYENWPVIGGGDS(1) GDEHYRNSLGGGGS(1) SSERYENVIFGGGGS(1) QREKYENWPFGGGGS(1) Y-x-N 10 Phage display (subtractive panning) 4 PMID:10400318 The SH2 domain of growth factor receptor-bound protein 2 Not determined. Not determined. Not determined. X10 phagemid-based fd phage display library Both MBP and GST fusions were used as affinity selection reagents in the experiments. To enhance the possibility of isolating SH2 domain-specific phage, the fusion partner-specific phage were "subtracyed" by co-incubating the phage with soluble GST or MBP during the affinity selection. 2580 ECYINVPFTCMAGASAG(7) TECYKNVPEICAGASAG(1) Y-x-N 2 Phage display (subtractive panning) 4 PMID:10400318 The SH2 domain of growth factor receptor-bound protein 2 Not determined. Not determined. Not determined. X12 phagemid-based fd phage display library Both MBP and GST fusions were used as affinity selection reagents in the experiments. To enhance the possibility of isolating SH2 domain-specific phage, the fusion partner-specific phage were "subtracyed" by co-incubating the phage with soluble GST or MBP during the affinity selection. 2581 GGCDEVYVNWSCGG(8) GGCPERYENVMCGG(4) GGCLSYMNSPMCEG(2) GGCYENLWPYSCGG(2) GGYDELYENWPCGG(2) GGCDGYYENWDCGG(1) GGCMEEYVNWSCGG(1) GGCQEEYVNWSCGG(1) GGCVHYENYMWCGG(1) GGCHYVNWPPECGG(1) GGCYVNVYDPLCGG(1) GGCVLYENGTFCGG(1) GGCYWQNVPESCGG(1) Y-x-N 13 Phage display (subtractive panning) 4 PMID:10400318 The SH2 domain of growth factor receptor-bound protein 2 Not determined. Not determined. Not determined. CX8C phagemid-based fd phage display library Both MBP and GST fusions were used as affinity selection reagents in the experiments. To enhance the possibility of isolating SH2 domain-specific phage, the fusion partner-specific phage were "subtracyed" by co-incubating the phage with soluble GST or MBP during the affinity selection. 2582 RSCGLDYEGYWLKLK(13) GGGQWLGTWEWYGPK(10) YEKISVEGIKDVRVR(9) NVSIEGVLKYYRGLR(6) SRWLEEEVSRLLLLR(6) GEALDRFEREMKLMR(1) 6 Phage display (common panning) 7 PMID:10449733 DNA duplex containing an inverted repeat of the Zif12-binding site Not determined. Not determined. Not determined. pZif12 X15 phage display library 2583 FSRPKRPPHW(3) FKPRRPPPPG(3) FPRRPPRPRL(1) P-[RK]-R-P(2)-x-P 3 Phage display (common panning) 3 PMID:10542231 SH3 domain of endophilin-A1 Not determined. Not determined. Not determined. X9 PC89-based phage display library GST-SH3 fusion protein was the real target. 2584 FPKRPPLPRS(8) FSRPKRPPHW(2) FPRRPPPPRM(1) P-[RK]-R-P(2)-x-P-R 3 Phage display (common panning) 3 PMID:10542231 SH3 domain of endophilin-A2 Not determined. Not determined. Not determined. X9 PC89-based phage display library GST-SH3 fusion protein was the real target. 2585 FSRPKRPPHW(3) FPRRPPRPRL(3) FPPRPPGPYA(1) FQKPSRPKPW(1) FPPRPPAPYW(1) FQKPQRPPRW(1) FPPRPKPPRM(1) FPKRPPLPRS(1) FRPPRPPLP(1) P-x-R-P(2)-x-P-R 9 Phage display (common panning) 3 PMID:10542231 SH3 domain of endophilin-A3 Not determined. Not determined. Not determined. X9 PC89-based phage display library GST-SH3 fusion protein was the real target. 2586 FVRPARRVLW(1) FHRPVRRAAP(1) FVRPTRAADA(1) FXRPRRGHAL(1) FHRPTRSKLA(1) FKRPPRDGTL(1) FQRPLRRPRM(1) FFPKRPPRIL(1) FRRPRRSLPE(1) FTRPYRPTHP(1) FGRPPRNARV(1) FHRPWRRWRE(1) x(2)-R-P-x-R 12 Phage display (common panning) 3 PMID:10542231 SH3 domain of amphiphysin Not determined. Not determined. Not determined. X9 PC89-based phage display library GST-SH3 fusion protein was the real target. 2587 SSVICSEGPGGWSCVRWE GVWRCILGPDGWLCLAVQ GYEWRCWPTRGQWLCILTGL GAKLVCATDWVVILCHKVVT WDTLLCKHYDVRWICSLITR ATESQCYWSESGVLCWVTGP SSMYWCATLETMWWCWRVVE SKGWLCIWRVPGYVCIKFWT MEELHCARDGSQLWCWWGVL EWYQLCATGPRGSRCWWVQL HREFLCWSLGEEGARCFVIW EVMRTCYRAWEWGWICLLQA IEWECIALRDHVWRCWVPLP 13 Phage display (common panning) 6 PMID:12618188 Elongation factor Tu, EF-Tu Not determined. Not determined. Not determined. XnCXnCXn and Xn M13 phage display library pool In the fourth round, the amplified phages were either injected to the biosensor (BIAcore 2000). In the biosensor, the phages flowed first through a sensor chip to which MAb 5A2 was coupled and then through a control sensor chip to which MAb 5B7 was coupled (about 5 ng of each antibody). 2588 CWDDGWLC(4) YLCHARAIDTTCIWPEPCFD(3) WGCVLHMVDDGRLGAVICGS(3) RMCLQCRIGSGCRAVLCAY(2) PMCSNRMADDIWSVPWYCVR(1) RLCSVSYPEPSLLWTSSCFD(1) RLCAGGASLIEPVYALRCAE(1) VACSYPEPYLSVAAGCNQ(1) EQCWKLFPANCVGCATRCNA(1) DLCHLRKTEGIWAMHCV(1) 10 Phage display (competitive panning) 4 PMID:10502511 Anti-Puumala virus envelope glycoprotein G1 monoclonal antibody 5A2 Not determined. Not determined. Not determined. X2CX14CX2 phage display library 2589 RMCLQCRIGSGCRAVLCAY(1) 1 Phage display (common panning) 4 PMID:10502511 Anti-Puumala virus envelope glycoprotein G1 monoclonal antibody 5A2 Not determined. Not determined. Not determined. X2CX14CX2 phage display library 2590 RMCLQCRIGSGCRAVLCAY(5) EQCWKLFPANCVGCATRCNA(1) 2 Phage display (common panning) 4 PMID:10502511 Anti-Puumala virus envelope glycoprotein G1 monoclonal antibody 5A2 Not determined. Not determined. Not determined. X2CX14CX2 phage display library 2591 SLCAGQVVFERTAARCSQ(2) RGCIKKSDRPEKRLASGCGV(1) INCRIGTRLLRDAPAQVCWA(1) ASCPVQQYPSGPCEASVCDT(1) GPCVEERHWLGRRDSILCNR(1) LMCGWTMDPVWGAWTLTCTA(1) LRCLGGHNESASRRAIECTP(1) ERCKMMVPGMTGSAALVCPM(1) GHCALWTSPHFRIEARLCGL(1) 9 Phage display (competitive panning) 2 PMID:10502511 Anti-Puumala virus envelope glycoprotein G2 monoclonal antibody 4G2 Not determined. Not determined. Not determined. X2CX14CX2 phage display library In the first round, the library was allowed to react with 60 ng of MAb 4G2 coated on a microtiter well. The microtiter well was extensively washed with virus antigen. The phages were finally eluted competitively with the virus antigen. In the second round, the panning reaction was done in 1% BSA PBST in the presence of 3 mg/ml the bank vole anti-PUU N MAb 5E1. 2592 FPCDRLSGYWERGIPSPCVR(9) LYCLVYVPEVQTMYCDG(1) CYCTRLHEDGSYAPTFYCLL(1) LYCISSGGKMKDASTVYCRN(1) 4 Phage display (competitive panning) 3 PMID:10502511 Anti-Puumala virus envelope glycoprotein G2 monoclonal antibody 1C9 Not determined. Not determined. Not determined. X2CX14CX2 phage display library Negative serum in the liquid phase was used to compete the binding of phages to 1C9 in the two first panning rounds. 2593 SRAGLLSDLLEGKSR SSRSLLRDLLMVDSR SSNKLLYNLLKMESR SSKSLLLNLLSTPSR SRLEMLLRSETDFSR SRLEELLKWGSVTSR SRLEQLLKEEFSYSR SRLEQLLRSEPDFSR SRLEDLLRAPFTTSR SRLESLLRFGQLDSR SSRLLSLLVGDFNSR SRLEELLLGTNRDSR SRLEELLLMDFWRSR SRLKELLLLPTDLSR SRLECLLEGRLNCSR SSKLYCLLDESYCSR SRLSCLLMGFEDCSR SSNHQSSRLIELLSR SSRLWQLLASTDTSR SSKLWQLLSSPIDSR SRLVALLKSPWSVSR SSNSMLWKLLAAPSR SSKTLWRLLEGERSR SRAGPVLWGLLSESR SRSPILTHLLSLGSR SSTGILWKLLTAESR SSHGILWRLLSEGSR SSKLIRLLTSDEELSR SSRLMELLQEGQGWSR HSFPRESLLVRLLQGG L-x(2)-L(2) 30 Phage display (common panning) PMID:10097152 Estrogen receptor alpha, ERα Not determined. Not determined. Not determined. Not determined. Immulon 4 96-well plates were coated with streptavidin in 0.1 M sodium bicarbonate. The plates were then incubated for 1 h with 2 pmol biotinylated vitellogenin ERE per well, followed by incubation for 1 h with 3 pmol (monomer) ERα per well. Affinity selections were conducted with the ER in TBST (10 mM Tris.HCl, pH 8.0/150 mM NaCl/0.05% Tween 20) or in TBST containing 1 μM 17-β estradiol. 2594 SSNHQSSRLIELLSR L-x(2)-L(2) 1 Phage display (common panning) 3 PMID:10426998 Estrogen receptor alpha, ERα Not determined. Not determined. Not determined. Not determined. In the first round, immulon 4 96-well plates (Dynex Technologies, Chantilly, VA) were coated with streptavidin in NaHCO3 buffer (pH 8.5). Wells were blocked with bovine serum albumin (BSA) and then washed with TBST [10 mM tris-HCl (pH 8.0), 150 mM NaCl, and 0.05% Tween 20], and 2 pmol of biotinylated vitellogenin ERE was then added per well. Plates were washed with TBST, 3 pmol of baculovirus-purifed ERα was then added, and plates were incubated at room temperature for 1 hour. Estradiol was then added (1 mM) along with phage library (containing about 1.5e9 phage) in TBST and incubated at room temperature for 1 hour. Affinity selection was repeated three times. 2595 SSLTSRDFGSWYASR 1 Phage display (common panning) 3 PMID:10426998 Estrogen receptor alpha, ERα Not determined. Not determined. Not determined. Not determined. In the first round, immulon 4 96-well plates (Dynex Technologies, Chantilly, VA) were coated with streptavidin in NaHCO3 buffer (pH 8.5). Wells were blocked with bovine serum albumin (BSA) and then washed with TBST [10 mM tris-HCl (pH 8.0), 150 mM NaCl, and 0.05% Tween 20], and 2 pmol of biotinylated vitellogenin ERE was then added per well. Plates were washed with TBST, 3 pmol of baculovirus-purifed ERα was then added, and plates were incubated at room temperature for 1 hour. Estradiol or tamoxifen was then added (1 mM) along with phage library (containing about 1.5e9 phage) in TBST and incubated at room temperature for 1 hour. Affinity selection was repeated three times. 2596 SSWDMHQFFWEGVSR 1 Phage display (common panning) 3 PMID:10426998 Estrogen receptor alpha, ERα Not determined. Not determined. Not determined. Not determined. In the first round, immulon 4 96-well plates (Dynex Technologies, Chantilly, VA) were coated with streptavidin in NaHCO3 buffer (pH 8.5). Wells were blocked with bovine serum albumin (BSA) and then washed with TBST [10 mM tris-HCl (pH 8.0), 150 mM NaCl, and 0.05% Tween 20], and 2 pmol of biotinylated vitellogenin ERE was then added per well. Plates were washed with TBST, 3 pmol of baculovirus-purifed ERα was then added, and plates were incubated at room temperature for 1 hour. Tamoxifen was then added (1 mM) along with phage library (containing about 1.5e9 phage) in TBST and incubated at room temperature for 1 hour. Affinity selection was repeated three times. 2597 SSISTYHMGEWFYAMLSSR SSDLYSQMREFFQINLSR SSPGSREWFKDMLSR SSTTMFDFFYERLSR SSWNSREFFLSQLSR SSVASREWWVRELSR [SM]-x-[DE]-[WF]-[WF]-x(3)-L 6 Phage display (common panning) 3 PMID:10426998 Estrogen receptor beta, ERβ Not determined. Not determined. Not determined. Not determined. In the first round, immulon 4 96-well plates (Dynex Technologies, Chantilly, VA) were coated with streptavidin in NaHCO3 buffer (pH 8.5). Wells were blocked with bovine serum albumin (BSA) and then washed with TBST [10 mM tris-HCl (pH 8.0), 150 mM NaCl, and 0.05% Tween 20], and 2 pmol of biotinylated vitellogenin ERE was then added per well. Plates were washed with TBST, 3 pmol of baculovirus-purifed ERα was then added, and plates were incubated at room temperature for 1 hour. Tamoxifen was then added (1 mM) along with phage library (containing about 1.5e9 phage) in TBST and incubated at room temperature for 1 hour. Affinity selection was repeated three times. 2598 QPLIAKWLPYLLEETVLVG NALIVPHLYELLKREWQSV 2 Phage display (common panning) 3 PMID:11306468 Estrogen receptor, ER Not determined. Not determined. Not determined. (X)7LXXLL(X)7 library 2599 SWLIDAHLAPLLFNNTLGS HFLINQHLYKLLQDTDIVV PWLDPEKLARLLEVPVQDF 3 Phage display (common panning) 3 PMID:11306468 Estrogen receptor beta, ER-beta Not determined. Not determined. Not determined. (X)7LXXLL(X)7 library 2600 CSLLNATKC CKLNANNFC CYGYLPSRC CNTSIQRNC CLPGPSHFC 5 Phage display (subtractive panning) 3/5 PMID:15200474 Tomato-stained cotton swatches Not determined. Not determined. Not determined. Ph.D.-C7C phage display library (CX7C) The real target is carotenoid. After deselection on cotton/selection on stained cotton swatches for two times, amplified phages were submitted to another selection or three rounds of selection on stained cotton swatches.