RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254781112|ref|YP_003065525.1| putative amino acid-binding periplasmic ABC transporter protein [Candidatus Liberibacter asiaticus str. psy62] (274 letters) >3hv1_A Polar amino acid ABC uptake transporter substrate binding protein; protein structure initiative II(PSI II), nysgxrc; 1.90A {Streptococcus thermophilus lmg 18311} Length = 268 Score = 146 bits (368), Expect = 6e-36 Identities = 52/233 (22%), Positives = 99/233 (42%), Gaps = 14/233 (6%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFETAVSGLITGLDTNR 102 +++G D + P + + G GFDIDL V + VE+ T L Sbjct: 23 IKIGFDATFVPMGYE--EKDGSYIGFDIDLANAVFKLYGIDVEWQAIDWDMKETELKNGT 80 Query: 103 YDVLVNV-AITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRSFKDLTDKTVAQILGTDLS 161 D++ N ++T ER++ DF+ PY+ + +LV + I S + KT+ G+ Sbjct: 81 IDLIWNGYSVTDERKQSADFTEPYMVNEQVLVTKKS-SGIDSVAGMAGKTLGAQAGSSGY 139 Query: 162 RFAKE---------LKSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNL 212 +V F Q+L L S R D +I D + N+ + + Sbjct: 140 DAFNASPKILKDVVANQKVVQYSTFTQALIDLNSGRIDGLLI-DRVYANYYLEKSGVLDQ 198 Query: 213 FKIADRMKDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYFDKNI 265 + + + + A RK + L + IN+ ++ +G ++KI +++F +++ Sbjct: 199 YNVMPAGYEGESFAVGARKVDKTLIKKINQGFETLYKNGEFQKISNKWFGEDV 251 >1lst_A Lysine, arginine, ornithine-binding protein; amino-acid binding protein; HET: LYS; 1.80A {Salmonella typhimurium} SCOP: c.94.1.1 PDB: 2lao_A 1lag_E* 1lah_E 1laf_E 1hsl_A* 1hpb_P* Length = 239 Score = 143 bits (361), Expect = 4e-35 Identities = 57/232 (24%), Positives = 99/232 (42%), Gaps = 11/232 (4%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFETAVSGLITGLDTNR 102 +R+GTD Y P S +D +GE GFDIDL E+ R+ +K + + LI L + Sbjct: 6 VRIGTDTTYAPFSS--KDAKGEFIGFDIDLGNEMCKRMQVKCTWVASDFDALIPSLKAKK 63 Query: 103 YDVLVNV-AITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRSFKDLTDKTVAQILGTDLS 161 D +++ +IT +RQ++ FS A L+ + + L K V + G+ Sbjct: 64 IDAIISSLSITDKRQQEIAFSDKLYAADSRLIAAKGSPIQPTLESLKGKHVGVLQGSTQE 123 Query: 162 RFAKELKSHLVFSH----NFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLFKIAD 217 +A + N + L + R DA + ++ ++P Sbjct: 124 AYANDNWRTKGVDVVAYANQDLIYSDLTAGRLDAALQDEVAASEGFLKQPAGKEYAFAGP 183 Query: 218 RMKDN----SAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYFDKNI 265 +KD +RK + +L + ++ L + DGTY K+ +YFD N+ Sbjct: 184 SVKDKKYFGDGTGVGLRKDDTELKAAFDKALTELRQDGTYDKMAKKYFDFNV 235 >3i6v_A Periplasmic His/Glu/Gln/Arg/opine family-binding protein; structural genomics, transporter, PSI-2, protein structure initiative; HET: LYS; 2.00A {Silicibacter pomeroyi} Length = 232 Score = 143 bits (361), Expect = 4e-35 Identities = 51/224 (22%), Positives = 97/224 (43%), Gaps = 11/224 (4%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFETAVSGLITGLDTNR 102 +R+GT+G YPP++F + GE+ GF+ +L E+ R L E+ + +I L + Sbjct: 7 VRMGTEGAYPPYNF--INDAGEVDGFERELGDELCKRAGLTCEWVKNDWDSIIPNLVSGN 64 Query: 103 YDVLVN-VAITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRSFKDLTDKTVAQILGTDLS 161 YD ++ ++IT ER + DF+ YI V + DL+ AQ T + Sbjct: 65 YDTIIAGMSITDERDEVIDFTQNYIPPTASSYVATS-----DGADLSGIVAAQT-ATIQA 118 Query: 162 RFAKELKSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLFKIADRMKD 221 + E + LV E+++ + + DA + G L + D + Sbjct: 119 GYIAESGATLVEFATPEETIAAVRNGEADAVFADRDYLVPIVAESG--GELMFVGDDVPL 176 Query: 222 NSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYFDKNI 265 V +R+ + +L + + ++ DGT + ++F ++ Sbjct: 177 GGGVGMGLRESDGELRGKFDAAITSMKEDGTLNTMIKKWFGEDA 220 >3mpk_A Virulence sensor protein BVGS; venus flytrap, sensor domain, signaling protein; 2.04A {Bordetella pertussis} PDB: 3mpl_A Length = 267 Score = 138 bits (349), Expect = 1e-33 Identities = 39/226 (17%), Positives = 88/226 (38%), Gaps = 7/226 (3%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFET-AVSGLITGLDTN 101 ++V ++ P + D + G +++ + R L E V LI L + Sbjct: 34 VKVAVLNLFAPFTLFRTDE--QFGGISAAVLQLLQLRTGLDFEIIGVDTVEELIAKLRSG 91 Query: 102 RYDVLVNVAITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRSFKDLTDKTVAQILGTDLS 161 D+ + + R+ FS PY+ + +++V R D L +TVA + + Sbjct: 92 EADMAGALFVNSARESFLSFSRPYVRNGMVIVTRQDPDAPVDADHLDGRTVALVRNSAAI 151 Query: 162 RFAKEL--KSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLFKIADRM 219 + ++ +V + N +++ ++ + + DA + ++ R G L + Sbjct: 152 PLLQRRYPQAKVVTADNPSEAMLMVANGQADAVVQ-TQISASYYVNRYFAGKLRIASALD 210 Query: 220 KDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYFDKNI 265 + +A +G +L +N+ L +I + I R+ + Sbjct: 211 LPPAEIALATTRGQTELMSILNKALYSIS-NDELASIISRWRGSDG 255 >3h7m_A Sensor protein; histidine kinase sensor domain, kinase, phosphoprotein, transferase; 2.40A {Geobacter sulfurreducens} Length = 234 Score = 135 bits (341), Expect = 8e-33 Identities = 49/221 (22%), Positives = 95/221 (42%), Gaps = 6/221 (2%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFETAVSGLITGLDTNR 102 + VG D YPP+ F D G+ G++++L + +A + + VEF A S + + L + R Sbjct: 13 IVVGGDRDYPPYEF--IDQNGKPAGYNVELTRAIAEVMGMTVEFRLGAWSEMFSALKSGR 70 Query: 103 YDVLVNVAITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRSFKDLTDKTVAQILGTDLSR 162 DVL ++ + +R ++ DF+ P+ + R D +DL + VA + Sbjct: 71 VDVLQGISWSEKRARQIDFTPPHTIVYHAIFARRDSPPAAGLEDLRGRKVALHRDGIMHE 130 Query: 163 FAKE--LKSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLFKIADRMK 220 + E LV + +L+LL + D ++ +P + + R Sbjct: 131 YLAERGYGKDLVLTPTPADALRLLAAGGCDYAVVAMVPGMYIIRE--NRLTNLVPVARSI 188 Query: 221 DNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYF 261 + +R+G+ +L +E L + G Y+ I ++ Sbjct: 189 AAQRYGYAVRQGDAELLARFSEGLAILRKTGQYEAIRAKWL 229 >3kzg_A Arginine 3RD transport system periplasmic binding protein; arginine transport system, protein structure initiative II(PSI II); 2.06A {Legionella pneumophila subsp} Length = 237 Score = 134 bits (338), Expect = 2e-32 Identities = 57/228 (25%), Positives = 99/228 (43%), Gaps = 10/228 (4%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFETAVSGLITGLDTNR 102 L +GT PP + + L GFDIDL++E+ RL+ F L L Sbjct: 5 LTIGTSKFNPPFEVWSGNN-SSLYGFDIDLMQEICRRLHATCTFEAYIFDDLFPALKNRE 63 Query: 103 YD-VLVNVAITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRSFKDLTDKTVAQILGTDLS 161 D V+ ++ IT ER+K + FS+PY+ + D I +F DL K + GT + Sbjct: 64 VDLVIASMIITDERKKHFIFSLPYMESNSQYITTVD-SKISTFDDLHGKKIGVRKGTPYA 122 Query: 162 RF--AKELKSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPH-----DGNLFK 214 R ++ + ++F + L L + + DA+++ ++ P+ Sbjct: 123 RQVLSENRNNQVIFYELIQDMLLGLSNNQVDASLMDYEAAKYWMASEPYAYKLIGKKYKL 182 Query: 215 IADRMKDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYFD 262 I ++ + M L + IN+IL + DGTY +++ YF+ Sbjct: 183 IGKKISIGEGYSIMANPDQFVLIKKINKILLEMEADGTYLRLYSEYFE 230 >3g41_A Amino acid ABC transporter, periplasmic amino acid-binding protein; aminoacid transporter, structural genomics, bacabs EU FP6 programme; HET: ARG; 2.10A {Chlamydophila pneumoniae} Length = 246 Score = 129 bits (324), Expect = 8e-31 Identities = 43/226 (19%), Positives = 87/226 (38%), Gaps = 5/226 (2%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFETAVSGLITGLDTNR 102 VGT+ YPP + D +GE+ GFDIDL K ++ +L ++E E A LI L +R Sbjct: 12 WIVGTNATYPPFEY--VDAQGEVVGFDIDLAKAISEKLGKQLEVREFAFDALILNLKKHR 69 Query: 103 YDVLV-NVAITPERQKKYDFS-IPYIAHRVLLVVRSDQQDIRSFKDLTDKTVAQILGTDL 160 D ++ ++ITP RQK+ + L+VV + +VA GT Sbjct: 70 IDAILAGMSITPSRQKEIALLPYYGDEVQELMVVSKRSLETPVLPLTQYSSVAVQTGTYQ 129 Query: 161 SRFAKEL-KSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLFKIADRM 219 + + + + + + ++ ++ L+ P+ Sbjct: 130 EHYLLSQPGICVRSFDSTLEVIMEVRYGKSPVAVLEPSVGRVVLKDFPNLVATRLELPPE 189 Query: 220 KDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYFDKNI 265 + K + ++I + + + +G + + ++ + Sbjct: 190 CWVLGCGLGVAKDRPEEIQTIQQAITDLKSEGVIQSLTKKWQLSEV 235 >1wdn_A GLNBP, glutamine binding protein; closed form, complex, peptide, complex (binding protein/peptide); 1.94A {Escherichia coli} SCOP: c.94.1.1 PDB: 1ggg_A Length = 226 Score = 125 bits (315), Expect = 8e-30 Identities = 62/223 (27%), Positives = 97/223 (43%), Gaps = 10/223 (4%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFETAVSGLITG-LDTN 101 L V TD + P F GFD+DL +A L L E SG+I N Sbjct: 5 LVVATDTAFVPFEFKQG---DLYVGFDVDLWAAIAKELKLDYELKPMDFSGIIPALQTKN 61 Query: 102 RYDVLVNVAITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRSFKDLTDKTVAQILGT--- 158 L + IT ER+K DFS Y +L++V+++ D++S KDL K VA GT Sbjct: 62 VDLALAGITITDERKKAIDFSDGYYKSGLLVMVKANNNDVKSVKDLDGKVVAVKSGTGSV 121 Query: 159 DLSRFAKELKSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLFKIADR 218 D ++ + K F N + + L + R DA + F++ + FK Sbjct: 122 DYAKANIKTKDLRQFP-NIDNAYMELGTNRADAVLHDTPNILYFIKTAGNGQ--FKAVGD 178 Query: 219 MKDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYF 261 + KG+++L +N L + +GTY +I+ ++F Sbjct: 179 SLEAQQYGIAFPKGSDELRDKVNGALKTLRENGTYNEIYKKWF 221 >1ii5_A Hypothetical protein SLR1257; membrane protein; HET: GLU; 1.60A {Synechocystis SP} SCOP: c.94.1.1 PDB: 1iit_A 1iiw_A Length = 233 Score = 124 bits (312), Expect = 2e-29 Identities = 51/229 (22%), Positives = 99/229 (43%), Gaps = 9/229 (3%) Query: 42 ALRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFE-TAVSGLITGLDT 100 AL+VG G PP F+ + TG +D+ + VA E+ ++S IT + Sbjct: 5 ALKVGVVG-NPPFVFYGEGKNAAFTGISLDVWRAVAESQKWNSEYVRQNSISAGITAVAE 63 Query: 101 NRYDVLV-NVAITPERQK--KYDFSIPYIAHR-VLLVVRSDQQDIRSFKDLTDKTVAQIL 156 D+L+ +++TPER F+ PY + LL+ + RS DL +K VA + Sbjct: 64 GELDILIGPISVTPERAAIEGITFTQPYFSSGIGLLIPGTATPLFRSVGDLKNKEVAVVR 123 Query: 157 GTDLSRFAKELKSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLFKIA 216 T +A ++ + ++N ++ LL K+ +A M + + P ++ Sbjct: 124 DTTAVDWANFYQADVRETNNLTAAITLLQKKQVEAVMFDRPALIYYTRQNP--NLNLEVT 181 Query: 217 DRMKDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYFDKNI 265 + F++++ N+ L ++IN + + + +R+ I Sbjct: 182 EIRVSLEPYGFVLKE-NSPLQKTINVEMLNLLYSRVIAEFTERWLGPGI 229 >3del_B Arginine binding protein; alpha and beta protein (A/B), periplasmic protein, protein binding, transport protein; 1.92A {Chlamydia trachomatis} Length = 242 Score = 124 bits (312), Expect = 2e-29 Identities = 47/225 (20%), Positives = 89/225 (39%), Gaps = 4/225 (1%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFETAVSGLITGLDTNR 102 VGT+ YPP F D RGE+ GFDIDL +E++++L ++ E + LI L +R Sbjct: 13 FIVGTNATYPPFEF--VDKRGEVVGFDIDLAREISNKLGKTLDVREFSFDALILNLKQHR 70 Query: 103 YDVL-VNVAITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRSFKDLTDKTVAQILGTDLS 161 D + ++ITP R K+ Y LV+ ++ ++VA GT Sbjct: 71 IDAVITGMSITPSRLKEILMIPYYGEEIKHLVLVFKGENKHPLPLTQYRSVAVQTGTYQE 130 Query: 162 RFAKEL-KSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLFKIADRMK 220 + + L + H+ + + L ++ ++ ++ L+ P + Sbjct: 131 AYLQSLSEVHIRSFDSTLEVLMEVMHGKSPVAVLEPSIAQVVLKDFPALSTATIDLPEDQ 190 Query: 221 DNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYFDKNI 265 + L I + I +G ++ ++ N+ Sbjct: 191 WVLGYGIGVASDRPALALKIEAAVQEIRKEGVLAELEQKWGLNNL 235 >1pb7_A N-methyl-D-aspartate receptor subunit 1; ligand binding receptor, NR1, ligand binding protein; 1.35A {Rattus norvegicus} SCOP: c.94.1.1 PDB: 1pbq_A* 1y1m_A 1y1z_A 1y20_A 2a5t_A* 1pb8_A 1pb9_A Length = 292 Score = 115 bits (287), Expect = 2e-26 Identities = 34/253 (13%), Positives = 79/253 (31%), Gaps = 38/253 (15%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFETAV----------- 91 + G + P H GF IDL+ ++A +N E A Sbjct: 43 ICTGPNDTSPGSPRH--TVPQCCYGFCIDLLIKLARTMNFTYEVHLVADGKFGTQERVNN 100 Query: 92 ------SGLITGLDTNRYDVLVN-VAITPERQKKYDFSIPYIAHRVLLVVRSDQQ-DIRS 143 +G++ L + + D++V + I ER + +FS P+ + ++V+ + + Sbjct: 101 SNKKEWNGMMGELLSGQADMIVAPLTINNERAQYIEFSKPFKYQGLTILVKKGTRITGIN 160 Query: 144 FKDLTDKTVAQILGTDLSRFAKELKSH------------LVFSHNFEQSLQLLLSKRTDA 191 L + + I T + +++Q + + A Sbjct: 161 DPRLRNPSDKFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDNKLHA 220 Query: 192 TMIPDIPFFNFLERRPHDGNLFKIADRMKDNSAVAFMMRKGNNKLTRSINEILCAIHLDG 251 + ++ + S MRK + ++++ + H +G Sbjct: 221 FIWDSAVLEFEASQKCD----LVTTGELFFRSGFGIGMRKD-SPWKQNVSLSILKSHENG 275 Query: 252 TYKKIFDRYFDKN 264 + + + Sbjct: 276 FMEDLDKTWVRYQ 288 >3k4u_A Binding component of ABC transporter; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; HET: LYS; 2.62A {Wolinella succinogenes} Length = 245 Score = 109 bits (272), Expect = 8e-25 Identities = 55/223 (24%), Positives = 100/223 (44%), Gaps = 6/223 (2%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFETAVSGLITGLDTNR 102 LRVG + Y P +D +G + GFD+DL +E+A + +K++ T+ GLI GL T + Sbjct: 7 LRVGLEPGYLPFEM--KDKKGNVIGFDVDLAREMAKAMGVKLKLVPTSWDGLIPGLVTEK 64 Query: 103 YDVLV-NVAITPERQKKYDFSIPYIAHRVLLVVRSDQQD-IRSFKDLTDKTVAQILG--T 158 +D+++ + I+ ER + +F PYI L+V+ + ++S+KDL + + Sbjct: 65 FDIIISGMTISQERNLRVNFVEPYIVVGQSLLVKKGLEKGVKSYKDLDKPELTLVTKFGV 124 Query: 159 DLSRFAKELKSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLFKIADR 218 AK L + ++ + A M FN D Sbjct: 125 SAEYAAKRLFKNAKLKTYDTEAEAVQEVLNGKADMFIFDLPFNVAFMAQKGQGYLVHLDT 184 Query: 219 MKDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYF 261 + + ++KG+ +N L I DG+Y ++++R+F Sbjct: 185 SLTYEPLGWAIKKGDPDFLNWLNHFLAQIKHDGSYDELYERWF 227 >2pvu_A ARTJ; basic amino acid binding protein, ABC transport system, thermophilic bacterium, transport protein; HET: LYS; 1.79A {Geobacillus stearothermophilus} PDB: 2q2a_A* 2q2c_A* Length = 272 Score = 104 bits (260), Expect = 2e-23 Identities = 54/223 (24%), Positives = 96/223 (43%), Gaps = 9/223 (4%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFETAVSGLITGLDTNR 102 + VGTD + P + + G++ GFD+DL+ V L E L L + Sbjct: 44 VVVGTDAAFAPFEYMQK---GKIVGFDVDLLDAVMKAAGLDYELKNIGWDPLFASLQSKE 100 Query: 103 YDVLVN-VAITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRSFKDLTDKTVAQILGTDLS 161 D+ ++ + IT ER++ YDFS PY +++V+ DL KT+ T Sbjct: 101 VDMGISGITITDERKQSYDFSDPYFEATQVILVKQGSPVKN-ALDLKGKTIGVQNATTGQ 159 Query: 162 RFAKELKSHLVFSHNFEQSLQLL---LSKRTDATMIPDIPFFNFLERRPHDGNLFKIADR 218 A++L FE ++ + L+ DA + + +++ P+ L I D Sbjct: 160 EAAEKLFGKGPHIKKFETTVVAIMELLNGGVDAVITDNAVANEYVKNNPNK-KLQVIEDP 218 Query: 219 MKDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYF 261 S M+ N++L ++E L + G Y +I+ ++F Sbjct: 219 KNFASEYYGMIFPKNSELKAKVDEALKNVINSGKYTEIYKKWF 261 >1mqi_A Glutamate receptor 2; GLUR2, ligand binding core, S1S2, partial agonist, WILLARDIINES, fluoro-WILLARDIINE, membrane protein; HET: FWD; 1.35A {Rattus norvegicus} SCOP: c.94.1.1 PDB: 1ftj_A* 1ftl_A* 1fto_A 1fw0_A* 1m5b_A* 1ftm_A* 1m5c_A* 1mm6_A* 1mm7_A* 1mqg_A* 1m5e_A* 1mqj_A* 1ms7_A* 1mxu_A* 1mxv_A 1mxw_A 1mxx_A 1mxy_A 1mxz_A 1my0_A ... Length = 263 Score = 102 bits (254), Expect = 1e-22 Identities = 37/258 (14%), Positives = 87/258 (33%), Gaps = 41/258 (15%) Query: 43 LRVGTDGIYPPHSFHAQ-----DGRGELTGFDIDLIKEVAHRLNLKVEFFE--------- 88 + V T + P+ + +G G+ +DL E+A K + Sbjct: 6 VVVTTI-LESPYVMMKKNHEMLEGNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYGAR 64 Query: 89 ----TAVSGLITGLDTNRYDVLVN-VAITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRS 143 +G++ L + D+ + + IT R++ DFS P+++ + ++ I S Sbjct: 65 DADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGI-SIMIKKGTPIES 123 Query: 144 FKDLTDKTVAQILGTDLSRFAKELKSH-----------------LVFSHNFEQSLQLLLS 186 +DL+ +T D + + VF + + + Sbjct: 124 AEDLSKQTEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRK 183 Query: 187 KRTDATMIPDIPFFNFLERRPHDGNLFKIADRMKDNSAVAFMMRKGNNKLTRSINEILCA 246 + + + ++E+R D+ KG + L ++N + Sbjct: 184 SKGKYAYLLESTMNEYIEQRKPCD--TMKVGGNLDSKGYGIATPKG-SSLGNAVNLAVLK 240 Query: 247 IHLDGTYKKIFDRYFDKN 264 ++ G K+ ++++ Sbjct: 241 LNEQGLLDKLKNKWWYDK 258 >2pyy_A Ionotropic glutamate receptor bacterial homologue; GLUR0 ligand binding domain, transport protein; HET: GLU; 2.10A {Nostoc punctiforme pcc 73102} Length = 228 Score = 102 bits (253), Expect = 1e-22 Identities = 59/231 (25%), Positives = 110/231 (47%), Gaps = 13/231 (5%) Query: 40 QSALRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFE-TAVSGLITG- 97 Q L V T + PP + GEL+GF IDL + +A ++ ++ + E ++V LI+ Sbjct: 2 QQPLLVATR-VIPPFVLSNK---GELSGFSIDLWRSIATQIGIESKLIEYSSVPELISAI 57 Query: 98 LDTNRYDVLVNVAITPERQKKYDFSIPYIAHRVLLVV---RSDQQDIRSFKDLTDKTVAQ 154 D + ++IT ER++ +DFS+P A + ++V S DIRS DL K VA Sbjct: 58 KDNKVNLGIAAISITAEREQNFDFSLPIFASGLQIMVRNLESGTGDIRSIDDLPGKVVAT 117 Query: 155 ILGTDLSRFAKELKSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLFK 214 G+ + + +E ++ E++ + L +K+ DA + + Sbjct: 118 TAGSTAATYLREHHISVLEVPKIEEAYKALQTKKADAVVFDAPVLLFYAANEGKGKVEIV 177 Query: 215 IADRMKDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYFD-KN 264 + +++ + N+ + IN+ L + +GTY+ ++D++FD KN Sbjct: 178 GSILREESYGII---LPNNSPYRKPINQALLNLKENGTYQSLYDKWFDPKN 225 >1yae_A Glutamate receptor, ionotropic kainate 2; kainate receptor, membrane protein; HET: NAG FUC DOQ; 3.11A {Rattus norvegicus} SCOP: c.94.1.1 Length = 312 Score = 99.3 bits (246), Expect = 8e-22 Identities = 40/280 (14%), Positives = 87/280 (31%), Gaps = 63/280 (22%) Query: 43 LRVGTDGIYPPHSFHAQD-----GRGELTGFDIDLIKEVAHRLNLKVEFFE--------- 88 L V T + P+ + G G+ IDL++E++ L E Sbjct: 15 LIVTTI-LEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQ 73 Query: 89 ----TAVSGLITGLDTNRYDVLVN-VAITPERQKKYDFSIPYIAHRVLLVVRSD------ 137 +G++ L ++ D+ V +AIT R+K DFS P++ + ++ R Sbjct: 74 DDVNGQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISILYRKPNGTNPG 133 Query: 138 ------------------QQDIRSFKDLTDKTVAQILGTDLSRFAKELKSHLVFSHN--- 176 + I S DL +T + + K + +++ Sbjct: 134 VFSFLNGGSLVPRGSERMESPIDSADDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMW 193 Query: 177 ------------FEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLFKIADRMKDNSA 224 + +D + + F+ +R + + D+ Sbjct: 194 AFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCN---LTQIGGLIDSKG 250 Query: 225 VAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYFDKN 264 G + I + + +G + ++++ N Sbjct: 251 YGVGTPMG-SPYRDKITIAILQLQEEGKLHMMKEKWWRGN 289 >2iee_A ORF2, probable ABC transporter extracellular-binding protein YCKB; SR574, NESG, X-RAY, structural genomics, PSI-2; 2.20A {Bacillus subtilis} Length = 271 Score = 98.6 bits (244), Expect = 1e-21 Identities = 60/230 (26%), Positives = 103/230 (44%), Gaps = 6/230 (2%) Query: 43 LRVGTDGIYPPHSFHAQDG-RGELTGFDIDLIKEVAHRLNLKVEFFETAVSGLITGLDTN 101 + V T G P S+H D +LTG+++++++E A RL LKVEF E + G++T +++ Sbjct: 23 IVVATSGTLYPTSYHDTDSGSDKLTGYEVEVVREAAKRLGLKVEFKEMGIDGMLTAVNSG 82 Query: 102 RYDVLVN-VAITPERQKKYDFSIPYIAHRVLLVVR---SDQQDIRSFKDLTDKTVAQILG 157 + D N + +T +R++K+ FS PY +VR A Sbjct: 83 QVDAAANDIDVTKDREEKFAFSTPYKYSYGTAIVRKDDLSGIKTLKDLKGKKAAGAATTV 142 Query: 158 TDLSRFAKELKSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLFKIAD 217 K + + EQ L+ + + RTD + L P D N+ D Sbjct: 143 YMEVARKYGAKEVIYDNATNEQYLKDVANGRTDVILNDYYLQTLALAAFP-DLNITIHPD 201 Query: 218 RMKDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYFDKNIIS 267 + A +M+K N L + +NE L + DG+ K+ ++F+K +S Sbjct: 202 IKYMPNKQALVMKKSNAALQKKMNEALKEMSKDGSLTKLSKQFFNKADVS 251 >2vha_A Periplasmic binding transport protein; periplasmic binding protein, ligand binding, ultrahigh resolution; HET: GLU; 1.0A {Shigella flexneri} PDB: 2ia4_A* Length = 287 Score = 95.9 bits (237), Expect = 8e-21 Identities = 41/236 (17%), Positives = 78/236 (33%), Gaps = 16/236 (6%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRL-------NLKVEFFETAVSGLI 95 + VG P S++ D + ++ G+ D + + +L+V+ I Sbjct: 19 IVVGHRESSVPFSYY--DNQQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPITSQNRI 76 Query: 96 TGLDTNRYDV-LVNVAITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRSFKDLTDKTVAQ 154 L +D + ERQK+ FS L+ + V Sbjct: 77 PLLQNGTFDFECGSTTNNVERQKQAAFSDTIFVVGTRLLTKKGGDIKDFADLKGKAVVVT 136 Query: 155 ILGTDLSRFAKELKSHLVFSHNF-----EQSLQLLLSKRTDATMIPDIPFFNFLERRPHD 209 T K + + S + L S R A M+ D + Sbjct: 137 SGTTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLESGRAVAFMMDDALLAGERAKAKKP 196 Query: 210 GNLFKIADRMKDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYFDKNI 265 N + I + + A M+RK + + + +++ + + G +K FD++F I Sbjct: 197 DN-WDIVGKPQSQEAYGCMLRKDDPQFKKLMDDTIAQVQTSGEAEKWFDKWFKNPI 251 >2o1m_A Probable amino-acid ABC transporter extracellular-binding protein YTMK; NESG X-RAY O34852 YTMK_bacsu, structural genomics, PSI-2; 2.00A {Bacillus subtilis} Length = 258 Score = 96.0 bits (237), Expect = 8e-21 Identities = 56/233 (24%), Positives = 97/233 (41%), Gaps = 15/233 (6%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRL-NLKVEFFETAVSGLITGLDTN 101 + VGT +P F D +G+LTG+D++LIKE+ RL + K F S L+ L + Sbjct: 18 ITVGTGTQFPNICFI--DEKGDLTGYDVELIKELDKRLPHYKFTFKTMEFSNLLVSLGQH 75 Query: 102 RYDVLVNVA-ITPERQKKYD-FSIPYIAHRVLLVVRSDQQDIRSFKDLTDKTVAQILGTD 159 + D++ + + ER+KK+ + Y + + V + IR +DL K V ++ Sbjct: 76 KVDIVAHQMEKSKEREKKFLFNKVAYNHFPLKITVLQNNDTIRGIEDLKGKRVITSATSN 135 Query: 160 LSRFAKELKSHLVFSH-------NFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNL 212 + K+ ++ L S R DAT+ + Sbjct: 136 GALVLKKWNEDNGRPFEIAYEGQGANETANQLKSGRADATISTPFAVDFQNKTSTIK--- 192 Query: 213 FKIADRMKDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYFDKNI 265 K + N+ V FM K L+ I++ L I DGT K++ ++ + Sbjct: 193 EKTVGNVLSNAKVYFMFNKNEQTLSDDIDKALQEIIDDGTLKRLSLKWLGDDY 245 >2rc8_A Glutamate [NMDA] receptor subunit 3A; membrane protein, alternative splicing, calcium, cell junction, coiled coil, glycoprotein, ION transport; 1.45A {Rattus norvegicus} PDB: 2rc7_A 2rc9_A 2rca_A 2rcb_A Length = 294 Score = 91.7 bits (226), Expect = 2e-19 Identities = 35/251 (13%), Positives = 85/251 (33%), Gaps = 29/251 (11%) Query: 37 TEDQSALRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFETAV----- 91 T D S L ++ + + G+ IDL++++A +N + + Sbjct: 40 TNDSSMLDRLFSSLHSSNDTVPIKFKKCCYGYCIDLLEQLAEDMNFDFDLYIVGDGKYGA 99 Query: 92 ------SGLITGLDTNRYDVLVN-VAITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRSF 144 +GL+ L + ++ V +I R + DF+ P+ + + ++VR+ ++ Sbjct: 100 WKNGHWTGLVGDLLSGTANMAVTSFSINTARSQVIDFTSPFFSTSLGILVRTRGTELSGI 159 Query: 145 KDLTDK--TVAQILGTDLSRFAKELK-------SHLVFSHNFEQSLQ-----LLLSKRTD 190 D + GT A++ + +N + ++ D Sbjct: 160 HDPKLHHPSQGFRFGTVRESSAEDYVRQSFPEMHEYMRRYNVPATPDGVQYLKNDPEKLD 219 Query: 191 ATMIPDIPFFNFLERRPHDGNLFKIADRMKDNSAVAFMMRKGNNKLTRSINEILCAIHLD 250 A ++ + + + N+ LT +I+E++ Sbjct: 220 AFIMDKALLDYEVSIDADCK--LLTVGKPFAIEGYGIGLPP-NSPLTSNISELISQYKSH 276 Query: 251 GTYKKIFDRYF 261 G + D+++ Sbjct: 277 GFMDVLHDKWY 287 >1xt8_A Putative amino-acid transporter periplasmic solute-binding protein; ABC transport, cysteine uptake, spine, structural genomics; 2.00A {Campylobacter jejuni} SCOP: c.94.1.1 Length = 292 Score = 90.1 bits (222), Expect = 5e-19 Identities = 46/226 (20%), Positives = 89/226 (39%), Gaps = 10/226 (4%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLN---LKVEFFETAVSGLITGLD 99 +R+G G PP + D +G G+DI L K +A L KV+F + + L Sbjct: 46 VRIGVFGDKPPFGYV--DEKGNNQGYDIALAKRIAKELFGDENKVQFVLVEAANRVEFLK 103 Query: 100 TNRYDVLVN-VAITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRSFKDLTDKTVAQILGT 158 +N+ D+++ TP+R ++ DF PY+ + + V D I S +DL DKT+ GT Sbjct: 104 SNKVDIILANFTQTPQRAEQVDFCSPYMKVALGVAVPKDSN-ITSVEDLKDKTLLLNKGT 162 Query: 159 DLSRFAKELKSHLVFSHNFEQSLQLLLSKRTDATM-IPDIPFFNFLERRPHDGNLFKIAD 217 + + ++ + + D + Sbjct: 163 TADAYFTQNYPNIKTLKYDQNTETFAALMDKRGDALSHDNTLLFAW--VKDHPDFKMGIK 220 Query: 218 RMKDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYFDK 263 + + +A ++KG+ +L I+ ++ + + + K +D Sbjct: 221 ELGNKDVIAPAVKKGDKELKEFIDNLIIKLGQEQFFHKAYDETLKA 266 >2v3u_A Glutamate receptor delta-2 subunit; postsynaptic membrane, ionotropic glutamate receptors, transmembrane, membrane protein; 1.74A {Rattus norvegicus} PDB: 2v3t_A Length = 265 Score = 88.6 bits (218), Expect = 1e-18 Identities = 37/260 (14%), Positives = 93/260 (35%), Gaps = 42/260 (16%) Query: 43 LRVGTDGIYPPHSFHAQD---GRGELTGFDIDLIKEVAHRLNLKVEFFETA--------- 90 LRV T + P +++ + GF ID++ +++ L E + Sbjct: 5 LRVVTV-LEEPFVMVSENVLGKPKKYQGFSIDVLDALSNYLGFNYEIYVAPDHKYGSPQE 63 Query: 91 ---VSGLITGLDTNRYDVLVN-VAITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRSFKD 146 +GL+ L R D+ ++ + ITP+R+ DF+ Y+ + + V+ I+S +D Sbjct: 64 DGTWNGLVGELVFKRADIGISALTITPDRENVVDFTTRYMDYS-VGVLLRRGTSIQSLQD 122 Query: 147 LTDKTVAQILGTDLSRFAKELK----SHLVFSHNFEQSLQLLLSKRTDATM--------- 193 L+ +T S + ++ + + Q +++ Sbjct: 123 LSKQTDIPYGTVLDSAVYQHVRMKGLNPFERDSMYSQMWRMINRSNGSENNVLESQAGIQ 182 Query: 194 ---------IPDIPFFNFLERRPHDGNLFKIADRMKDNSAVAFMMRKGNNKLTRSINEIL 244 + D ++ D + + + + + + ++ G + ++ + Sbjct: 183 KVKYGNYAFVWDAAVLEYVAINDPDCSFYTVGNTV-ADRGYGIALQHG-SPYRDVFSQRI 240 Query: 245 CAIHLDGTYKKIFDRYFDKN 264 + G + +++ KN Sbjct: 241 LELQQSGDMDILKHKWWPKN 260 >3g3k_A Glutamate receptor, ionotropic kainate 2; membrane protein, cell junction, cell membrane, glycoprotein, ION transport, ionic channel, membrane; HET: GLU IPA; 1.24A {Rattus norvegicus} PDB: 3g3j_A* 3g3i_A* 2i0b_A* 3g3h_A* 3g3g_A* 3g3f_A* 1s7y_A* 1s9t_A* 1sd3_A* 1tt1_A* 1s50_A* 2i0c_A* 3c31_A* 1txf_A* 3c32_A* 3c33_A* 3c34_A* 3c35_A* 3c36_A* 2wky_A* ... Length = 259 Score = 84.0 bits (206), Expect = 3e-17 Identities = 38/257 (14%), Positives = 85/257 (33%), Gaps = 40/257 (15%) Query: 43 LRVGTDGIYPPHSFHAQD-----GRGELTGFDIDLIKEVAHRLNLKVEFFE--------- 88 L V T + P+ + G G+ IDL++E++ L E Sbjct: 6 LIVTTI-LEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTHLGFTYEIRLVEDGKYGAQ 64 Query: 89 ----TAVSGLITGLDTNRYDVLVN-VAITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRS 143 +G++ L ++ D+ V +AIT R++ DFS P++ + ++ I S Sbjct: 65 DDVNGQWNGMVRELIDHKADLAVAPLAITYVREEVIDFSKPFMTLG-ISILYRKGTPIDS 123 Query: 144 FKDLTDKTVAQILGTDLSRFAKELKSHLVFSHNFEQSLQ---------------LLLSKR 188 DL +T + + K + +++ + + Sbjct: 124 ADDLAKQTKIEYGAVEDGATMTFFKRSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLT 183 Query: 189 TDATMIPDIPFFNFLERRPHDGNLFKIADRMKDNSAVAFMMRKGNNKLTRSINEILCAIH 248 +D + + F+ +R + + D+ G + I + + Sbjct: 184 SDYAFLMESTTIEFVTQRNCN---LTQIGGLIDSKGYGVGTPMG-SPYRDKITLAILKLQ 239 Query: 249 LDGTYKKIFDRYFDKNI 265 G + ++++ N Sbjct: 240 EQGKLHMMKEKWWRGNG 256 >2a5s_A N-methyl-D-aspartate receptor nmdar2A subunit, NMDA receptor nmdar2A; protein-ligand complex, metal transport,membrane protein; HET: GLU; 1.70A {Rattus norvegicus} SCOP: c.94.1.1 PDB: 2a5t_B* Length = 284 Score = 82.0 bits (201), Expect = 1e-16 Identities = 39/235 (16%), Positives = 79/235 (33%), Gaps = 29/235 (12%) Query: 54 HSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEF-----------FETAVSGLITGLDTNR 102 + + + GF ID++K+++ + + +G+I + R Sbjct: 46 STNEGMNVKKCCKGFCIDILKKLSRTVKFTYDLYLVTNGKHGKKVNNVWNGMIGEVVYQR 105 Query: 103 YDVLVN-VAITPERQKKYDFSIPYIAHRVLLVVRSDQQ----DIRSFKDLTDKTVAQILG 157 + V + I ER + DFS+P++ + ++V Q + F+ D + G Sbjct: 106 AVMAVGSLTINEERSEVVDFSVPFVETGISVMVSRGTQVTGLSDKKFQRPHDYSPPFRFG 165 Query: 158 TDLSRFAKE----------LKSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRP 207 T + + E +L L + + D I D N+ R Sbjct: 166 TVPNGSTERNIRNNYPYMHQYMTRFNQRGVEDALVSLKTGKLD-AFIYDAAVLNYKAGRD 224 Query: 208 HDGNLFKIADRMK-DNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYF 261 L I + ++KG+ R I+ L DG +++ + Sbjct: 225 EGCKLVTIGSGYIFATTGYGIALQKGS-PWKRQIDLALLQFVGDGEMEELETLWL 278 >3kbr_A Cyclohexadienyl dehydratase; pseudomonas aeruginosa PA01,structural genomics, PSI-2, protein structure initiative; HET: EPE; 1.66A {Pseudomonas aeruginosa} Length = 239 Score = 81.0 bits (198), Expect = 2e-16 Identities = 43/225 (19%), Positives = 84/225 (37%), Gaps = 9/225 (4%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFETAVSGLITGLDTNR 102 LRV T G Y P S+ G GFD+D+ + +A L K+ T+ L+ +R Sbjct: 17 LRVATTGDYKPFSYR--TEEGGYAGFDVDMAQRLAESLGAKLVVVPTSWPNLMRDFADDR 74 Query: 103 YDVLVN-VAITPERQKKYDFSIPYIAHRVLLVVR----SDQQDIRSFKDLTDKTVAQILG 157 +D+ ++ ++I ERQ++ FSIPY+ + + Q + + G Sbjct: 75 FDIAMSGISINLERQRQAYFSIPYLRDGKTPITLCSEEARFQTLEQIDQPGVTAIVNPGG 134 Query: 158 TDLSRFAKELKSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLFKIAD 217 T+ LK + H ++ + M+ D R L + Sbjct: 135 TNEKFARANLKKARILVHPDNVTIFQQIVDGKADLMMTDAIEARLQSRL--HPELCAVHP 192 Query: 218 RMKDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYFD 262 + + A + + R +++ L G ++ + + + Sbjct: 193 QQPFDFAEKAYLLPRDEAFKRYVDQWLHIAEQSGLLRQRMEHWLE 237 >2q88_A EHUB, putative ABC transporter amino acid-binding protein; substrate-binding protein, compatible solues, osmoprotection; HET: 4CS; 1.90A {Sinorhizobium meliloti} PDB: 2q89_A* Length = 257 Score = 80.2 bits (196), Expect = 4e-16 Identities = 31/237 (13%), Positives = 68/237 (28%), Gaps = 13/237 (5%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFETAVSGLITGLDTNR 102 R+ PP + G+++G D+ +E+ RL + + G + Sbjct: 15 ARIAIAN-EPPFTA--VGADGKVSGAAPDVAREIFKRLGVADVVASISEYGAMIPGLQAG 71 Query: 103 YDVLVNVAITPERQKKYDFSIPYIAHRVLLVVR---------SDQQDIRSFKDLTDKTVA 153 + + + ++ + +DI D Sbjct: 72 RHDAITAGLFMKPERCAAVAYSQPILCDAEAFALKKGNPLGLKSYKDIADNPDAKIGAPG 131 Query: 154 QILGTDLSRFAKELKSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLF 213 L+ A + ++ + + L++L R D +P + + + + Sbjct: 132 GGTEEKLALEAGVPRDRVIVVPDGQSGLKMLQDGRIDVYSLPVLSINDLVSKANDPNVEV 191 Query: 214 KIADRMKDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRY-FDKNIISSV 269 RKG+ L + + L + G + KI + Y F S Sbjct: 192 LAPVEGAPVYCDGAAFRKGDEALRDAFDVELAKLKESGEFAKIIEPYGFSAKAAMST 248 >2v25_A Major cell-binding factor; antigen, adhesin, aspartate, glutamate, transport, ABC transport, virulence factor, receptor; 1.49A {Campylobacter jejuni} Length = 259 Score = 61.0 bits (146), Expect = 3e-10 Identities = 36/227 (15%), Positives = 82/227 (36%), Gaps = 18/227 (7%) Query: 43 LRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHR---LNLKVEFFETAVSGLITGLD 99 L VG P ++ Q GE+ GF++D+ K +A + K++ LD Sbjct: 40 LIVGVKNDVPHYALLDQAT-GEIKGFEVDVAKLLAKSILGDDKKIKLVAVNAKTRGPLLD 98 Query: 100 TNRYDVLVNV-AITPERQKKYDFSIPYIAHRVLLVVRSDQ-----QDIRSFKDLTDKTVA 153 D ++ ITPER++ Y+FS PY + L+V ++ D++ + Sbjct: 99 NGSVDAVIATFTITPERKRIYNFSEPYYQDAIGLLVLKEKKYKSLADMKGANIGVAQAAT 158 Query: 154 QILGTDLSRFAKELKSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLF 213 + + ++ L +KR DA + +++ + Sbjct: 159 TKKAIGEAAKKIGIDVKFSEFPDYPSIKAALDAKRVDAFSVDKSILLGYVDDKS------ 212 Query: 214 KIADRMKDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRY 260 +I + + + +K + + +++ + + ++ Sbjct: 213 EILPDSFEPQSYGIVTKKDDPAFAKYVDDFVKEH--KNEIDALAKKW 257 >2pff_B Fatty acid synthase subunit beta; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 2006 Score = 44.9 bits (106), Expect = 2e-05 Identities = 76/425 (17%), Positives = 118/425 (27%), Gaps = 210/425 (49%) Query: 24 ILFSYY---FVIY-PFRTEDQSAL-RVGTDGIYPPHSFHAQ-----DGRG-------EL- 65 ++ +Y + PF + SAL R +G +AQ G+G EL Sbjct: 122 LIKNYITARIMAKRPFDKKSNSALFRAVGEG-------NAQLVAIFGGQGNTDDYFEELR 174 Query: 66 ------TGFDIDLIKEVAHRLN-LKVEFFETAVSGLIT-GLDTNRYDVLVNVAITPERQK 117 DLIK A L+ L + T GL+ + L N + TP++ Sbjct: 175 DLYQTYHVLVGDLIKFSAETLSELIRT--TLDAEKVFTQGLNILEW--LENPSNTPDK-- 228 Query: 118 KYDF------SIPYI-----AH-----RVL--------------------LVV-----RS 136 D+ S P I AH ++L LV + Sbjct: 229 --DYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAET 286 Query: 137 DQQDIRSFKDLTDKTVAQIL-----------------------------GT--------D 159 D + SF K + +L G + Sbjct: 287 DSWE--SFFVSVRKAI-TVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISN 343 Query: 160 LSRFAKELKSHL--VFSH----------------NF-----EQSLQ---LLLSKRTDATM 193 L++ ++++ ++ SH N QSL L L K A Sbjct: 344 LTQ--EQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAK-APS 400 Query: 194 IPD---IPFFNFLERRPHDGNLF-----------------KIADRMKDNSAVAFM----- 228 D IP F ER+ N F I + N+ V+F Sbjct: 401 GLDQSRIP---FSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNN-VSFNAKDIQ 456 Query: 229 -----------MRK-GNNKLTRSINEILC-------AIHLDGTYKKIFDRYFDKNIISSV 269 +R + R ++ I+ T+ I D F Sbjct: 457 IPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATH--ILD--FG------- 505 Query: 270 PGCSS 274 PG +S Sbjct: 506 PGGAS 510 Score = 36.8 bits (85), Expect = 0.006 Identities = 42/230 (18%), Positives = 73/230 (31%), Gaps = 71/230 (30%) Query: 22 FFILFSYYFVIYPFRTEDQSALRVGTDGIYPPHSFHAQDGRG----EL----TGFDIDLI 73 + + +F+ + + L T+G A D EL G+ L+ Sbjct: 20 LLVPTASFFIASQLQEQFNKILPEPTEGF-------AADDEPTTPAELVGKFLGYVSSLV 72 Query: 74 --KEVAHR---LNLKVEFFETAVSGLITGLDTNRYDV------LVNVAITPERQKKYDFS 122 +V LNL + FE L+ N D+ L+ T + K Sbjct: 73 EPSKVGQFDQVLNLCLTEFENCY------LEGN--DIHALAAKLLQENDTTLVKTKELIK 124 Query: 123 IPYIAHRVL-----------LVVRSDQQDIRS-------------FKDLTD--KTVAQIL 156 A + L + + + F++L D +T ++ Sbjct: 125 NYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLV 184 Query: 157 GTDLSRFAKELKSHLV-----FSHNFEQSLQLL--LSKRTDATMIPDIPF 199 G DL +F+ E S L+ F Q L +L L + + PD + Sbjct: 185 G-DLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLE---NPSNTPDKDY 230 Score = 26.8 bits (59), Expect = 5.0 Identities = 35/165 (21%), Positives = 47/165 (28%), Gaps = 72/165 (43%) Query: 1 MRRLLRDLRK-----------IFFSK------YLF---FAPF----------FI---LFS 27 + L LRK I FS+ F +PF I L Sbjct: 386 LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVK 445 Query: 28 YYFVI------YP-FRTEDQSALRVGTDGIYP---------P---------HSFHAQD-G 61 P + T D S LRV + I P + H D G Sbjct: 446 NNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFG 505 Query: 62 RGELTGFDIDLIKEVAHRLNLKVEFFE-TAVSGLITG-LDTNRYD 104 G +G + + HR + T V ++ G LD N D Sbjct: 506 PGGASG-----LGVLTHRN------KDGTGVRVIVAGTLDINPDD 539 >3ksx_A Nitrate transport protein; SSUA, alkanesulfonate-binding protein, periplasmic-binding P transport protein; HET: MPO; 1.70A {Xanthomonas axonopodis PV} PDB: 3e4r_A* 3ksj_A* Length = 324 Score = 38.9 bits (90), Expect = 0.001 Identities = 29/196 (14%), Positives = 60/196 (30%), Gaps = 36/196 (18%) Query: 39 DQSALRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFETAVSG--LIT 96 + + LR+G Q L+++ K+ + E +G L+ Sbjct: 27 EPAQLRIGYQKAVSSLVLAKQHR----------LLEQ--RFPRTKITWVEFP-AGPQLLE 73 Query: 97 GLDTNRYDVLVNVAITP---ERQKKYDFSIPYIAHR----VLLVVRSDQQDIRSFKDLTD 149 L+ D+ P + D ++V S +R+ DL Sbjct: 74 ALNVGSIDL-GGAGDIPPLFAQAAGADLLYVGWVPPTPKAETILVPSKS-ALRTVADLKG 131 Query: 150 KTVAQILGTDLSRFAKEL--------KSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFN 201 K +A G+ + + + + + + DA I D P+++ Sbjct: 132 KRIAFQKGSSAHNLLLRVLAKSGLSMRDITPLYLSPANARAAFAAGQVDAWAIWD-PWYS 190 Query: 202 FLERRPHDGNLFKIAD 217 L G+ +A+ Sbjct: 191 ALTLD---GSARLLAN 203 >3kg2_A Glutamate receptor 2; ION channel, membrane protein, alternative splicing, cell membrane, glycoprotein, ION transport, membrane; HET: ZK1 NAG BMA; 3.60A {Rattus norvegicus} Length = 823 Score = 34.2 bits (77), Expect = 0.030 Identities = 18/98 (18%), Positives = 40/98 (40%), Gaps = 14/98 (14%) Query: 61 GRGELTGFDIDLIKEVAHRLNLKVEFFETA-------------VSGLITGLDTNRYDVLV 107 G G+ +DL E+A K + +G++ L + D+ + Sbjct: 408 GNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIAI 467 Query: 108 N-VAITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRSF 144 + IT R++ DFS P+++ + ++++ Q+ Sbjct: 468 APLTITLVREEVIDFSKPFMSLGISIMIKKPQKSKPGV 505 Score = 32.6 bits (73), Expect = 0.10 Identities = 19/150 (12%), Positives = 45/150 (30%), Gaps = 20/150 (13%) Query: 131 LLVVRSDQQDIRSFKDLTDKTVAQILGTDLSRFAKELKSHL-----------------VF 173 L V I S +DL+ +T D + + VF Sbjct: 614 FLTVERMVSPIESAEDLSKQTEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMRSAEPSVF 673 Query: 174 SHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLFKIADRMKDNSAVAFMMRKGN 233 + + + + + + ++E+R + K+ + KG+ Sbjct: 674 VRTTAEGVARVRKSKGKYAYLLESTMNEYIEQR-KPCDTMKVGGNLDSKG-YGIATPKGS 731 Query: 234 NKLTRSINEILCAIHLDGTYKKIFDRYFDK 263 L +N + + G K+ ++++ Sbjct: 732 -SLGTPVNLAVLKLSEQGLLDKLKNKWWYD 760 >2g29_A Nitrate transport protein NRTA; solute-binding protein, alpha-beta protein; 1.50A {Synechocystis SP} Length = 417 Score = 31.0 bits (69), Expect = 0.29 Identities = 17/136 (12%), Positives = 34/136 (25%), Gaps = 14/136 (10%) Query: 106 LVNVAITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRSFKDLTDKTVAQILGTD-----L 160 + +A + Y +V +F +TD VA + Sbjct: 115 MYILARLNVNGQGIQLGNNYKDLKVGTDAAPL---KEAFAKVTDPKVAMTFPGGTHDMWI 171 Query: 161 SRFAKE-----LKSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLFKI 215 + K Q + + ++ + + P+ + Sbjct: 172 RYWLAAGGMEPGKDFSTIVVPPAQMVANVKVNAMESFCVGE-PWPLQTVNQGVGYQALTT 230 Query: 216 ADRMKDNSAVAFMMRK 231 KD+ AF MR Sbjct: 231 GQLWKDHPEKAFGMRA 246 >1zel_A Hypothetical protein RV2827C; winged-helix, helix-turn- helix, auto-rickshaw, structural genomics, PSI; 1.93A {Mycobacterium tuberculosis H37RV} SCOP: a.4.5.83 d.377.1.1 Length = 298 Score = 28.2 bits (62), Expect = 2.0 Identities = 14/49 (28%), Positives = 23/49 (46%) Query: 120 DFSIPYIAHRVLLVVRSDQQDIRSFKDLTDKTVAQILGTDLSRFAKELK 168 D IP A RV+ + D+ + + +DLT + G D +EL+ Sbjct: 11 DRRIPTWASRVVSGLARDRPVVVTKEDLTQRLTEAGCGRDPDSAIRELR 59 >1jvn_A Glutamine, bifunctional histidine biosynthesis protein hishf; substrate channeling, amidotransferase, TIM-barrel AS A substrate tunnel; HET: 143; 2.10A {Saccharomyces cerevisiae} SCOP: c.1.2.1 c.23.16.1 PDB: 1ox4_B* 1ox5_A* 1ox6_A 1ox4_A Length = 555 Score = 28.0 bits (62), Expect = 2.4 Identities = 7/22 (31%), Positives = 14/22 (63%) Query: 63 GELTGFDIDLIKEVAHRLNLKV 84 G +G+D++LI+ V + + V Sbjct: 478 GSNSGYDLELIEHVKDAVKIPV 499 >2x26_A Periplasmic aliphatic sulphonates-binding protein; transport protein; 1.75A {Escherichia coli} Length = 308 Score = 27.8 bits (61), Expect = 2.5 Identities = 20/146 (13%), Positives = 46/146 (31%), Gaps = 17/146 (11%) Query: 77 AHRLNLKVEFFETAVSG--LITGLDTNRYDVLVNVAITPERQKKYDFSIPYIA-----HR 129 K+ + E +G ++ L+ D+ I P + + Y+ + Sbjct: 27 KRYPESKISWVEFP-AGPQMLEALNVGSIDLGSTGDIPPIFAQAAGADLVYVGVEPPKPK 85 Query: 130 VLLVVRSDQQDIRSFKDLTDKTVAQILGTD--------LSRFAKELKSHLVFSHNFEQSL 181 +++ ++ I++ DL VA G+ L + + + Sbjct: 86 AEVILVAENSPIKTVADLKGHKVAFQKGSSSHNLLLRALRQAGLKFTDIQPTYLTPADAR 145 Query: 182 QLLLSKRTDATMIPDIPFFNFLERRP 207 DA I D P+++ + Sbjct: 146 AAFQQGNVDAWAIWD-PYYSAALLQG 170 >1fob_A Beta-1,4-galactanase; B/A barrel, glycosyl hydrolase, family 53, CLAN GH-A; 1.80A {Aspergillus aculeatus} SCOP: c.1.8.3 PDB: 1fhl_A Length = 334 Score = 27.8 bits (61), Expect = 3.1 Identities = 6/65 (9%), Positives = 17/65 (26%) Query: 55 SFHAQDGRGELTGFDIDLIKEVAHRLNLKVEFFETAVSGLITGLDTNRYDVLVNVAITPE 114 S++ + + + V ET L ++ + Sbjct: 213 SYYPFYSASATLASLKTSLANLQSTYDKPVVVVETNWPVSCPNPAYAFPSDLSSIPFSVA 272 Query: 115 RQKKY 119 Q+++ Sbjct: 273 GQQEF 277 >3d31_C Sulfate/molybdate ABC transporter, permease protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: f.58.1.1 Length = 295 Score = 27.7 bits (61), Expect = 3.2 Identities = 9/35 (25%), Positives = 13/35 (37%), Gaps = 2/35 (5%) Query: 1 MRRLLRDLRKIFFSKYLFFAPFFILFSYYFVIYPF 35 M+ R RK F F F +L + F+ Sbjct: 24 MKAKNRKTRK--FEPLTFVFSFLLLVLFLFIFLTL 56 >2wjn_H Reaction center protein H chain; bacteriochlorophyll, lipidic-sponge phase, photosynthesis, electron transport, cell membrane; HET: HEM FME BCB BPB MPG MQ7 NS5; 1.86A {Rhodopseudomonas viridis} PDB: 1prc_H* 1r2c_H* 1vrn_H* 1dxr_H* 2jbl_H* 2prc_H* 2i5n_H* 2wjm_H* 3d38_H* 3prc_H* 5prc_H* 6prc_H* 7prc_H* 3g7f_H* Length = 258 Score = 27.4 bits (61), Expect = 3.3 Identities = 9/58 (15%), Positives = 13/58 (22%), Gaps = 10/58 (17%) Query: 16 YLFFAPFFILFSYYFVI------YPFRTEDQSALRVGTDGIYP----PHSFHAQDGRG 63 Y + + + Y YP DG P +F G Sbjct: 18 YAQWLVIWTVVLLYLRREDRREGYPLVEPLGLVKLAPEDGQVYELPYPKTFVLPHGGT 75 >3foa_A Tail sheath protein GP18; alpha-beta, viral structural protein, bacteriophage T4, viral protein; 3.50A {Enterobacteria phage T4} PDB: 3foh_A 3foi_A Length = 510 Score = 27.2 bits (59), Expect = 3.9 Identities = 8/17 (47%), Positives = 11/17 (64%) Query: 249 LDGTYKKIFDRYFDKNI 265 +DG YK +D+Y D N Sbjct: 450 IDGNYKYQYDKYNDVNR 466 >1vzv_A Assemblin, varicella-zoster virus protease; hydrolase, serine protease, viral protease, coat protein; 3.00A {Human herpesvirus 3} SCOP: b.57.1.1 Length = 221 Score = 27.0 bits (60), Expect = 4.6 Identities = 11/56 (19%), Positives = 27/56 (48%), Gaps = 4/56 (7%) Query: 141 IRSFKDLTDKTVAQILGTDLSRFAKELKSHLVFSHNFEQSLQLLLSKRTDATMIPD 196 I F+ L+ ++ A++L S + V+ + ++ ++LLS + ++ D Sbjct: 153 IEPFRVLSMESKARLL----SLVKDYAGLNKVWKVSEDKLAKVLLSTAVNNMLLRD 204 >1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A* Length = 630 Score = 26.4 bits (58), Expect = 7.5 Identities = 10/47 (21%), Positives = 19/47 (40%) Query: 32 IYPFRTEDQSALRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAH 78 + R E++ A + GT P+ + L G D+ ++ V Sbjct: 343 FFEHRKEERCARQWGTTCKNHPYIKMVMEQGDWLIGGDLQVLDRVYW 389 >3hn0_A Nitrate transport protein; YP_001302749.1, structural genomics, joint center for structural genomics, JCSG; 1.75A {Parabacteroides distasonis} Length = 283 Score = 26.3 bits (57), Expect = 7.6 Identities = 17/164 (10%), Positives = 43/164 (26%), Gaps = 15/164 (9%) Query: 74 KEVAHRLNLKVEFFETAVSGLITGLDTNRYDVLVNVAITPERQKKYDFSIPYIAHRVLLV 133 + ++V+ ++ L D+ V I I Sbjct: 27 PPIIDNKKVQVKVVDSP-DLAQALLIKQETDIAVLPMINAANLYNKGIKIKLAG-----C 80 Query: 134 VRSDQQDIRSFKDLTDKTVA--------QILGTDLSRFAKELKSHLVFSHNFEQSLQLLL 185 + L + + IL + + + Q +L Sbjct: 81 PIWGTLYLVEKTPLKEPALYVFGNGTTPDILTRYYLGRQRLDYPLNYAFNTAGEITQGIL 140 Query: 186 SKRTDATMIPDIPFFNFLERRPHDGNLFKIADRMKDNSAVAFMM 229 + + + ++ + PF + R+ + + + DN + F Sbjct: 141 AGKVNRAVLGE-PFLSIALRKDSSLRITADLNHLTDNDTLGFAQ 183 >2ws9_1 P1; 3.00A {Equine rhinitis a virus} PDB: 2wff_1 Length = 246 Score = 26.2 bits (57), Expect = 8.8 Identities = 7/18 (38%), Positives = 11/18 (61%), Gaps = 1/18 (5%) Query: 115 RQKKYDFSIPYIA-HRVL 131 R + FS+PY + RV+ Sbjct: 150 RSQACGFSVPYTSMWRVV 167 >1rwh_A Chondroitin AC lyase; chondroitinase, chondroitin lyase; HET: ASG GCT GAD; 1.25A {Arthrobacter aurescens} SCOP: a.102.3.2 b.24.1.1 b.30.5.2 PDB: 1rwc_A* 1rwf_A* 1rwg_A* 1rwa_A* 1rw9_A Length = 757 Score = 26.1 bits (57), Expect = 9.0 Identities = 13/75 (17%), Positives = 28/75 (37%), Gaps = 2/75 (2%) Query: 144 FKDLTDKTVAQILGTDLSRFAKELKSHLV--FSHNFEQSLQLLLSKRTDATMIPDIPFFN 201 F L ++ V QI G ++ + + + ++ SL L + ++ D+ Sbjct: 9 FAALRNRWVDQITGRNVIQAGDPDFAKAITALNNKAADSLAKLDAAAGRTSVFTDLSLAK 68 Query: 202 FLERRPHDGNLFKIA 216 E L ++A Sbjct: 69 DAEMVTTYTRLSQLA 83 Database: pdb70 Posted date: Jan 26, 2011 11:21 AM Number of letters in database: 5,693,230 Number of sequences in database: 24,244 Lambda K H 0.327 0.142 0.417 Gapped Lambda K H 0.267 0.0529 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 2,403,513 Number of extensions: 110170 Number of successful extensions: 503 Number of sequences better than 10.0: 1 Number of HSP's gapped: 443 Number of HSP's successfully gapped: 52 Length of query: 274 Length of database: 5,693,230 Length adjustment: 91 Effective length of query: 183 Effective length of database: 3,487,026 Effective search space: 638125758 Effective search space used: 638125758 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 56 (25.8 bits)