RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|255764465|ref|YP_003064775.2| Na+/H+ antiporter NhaA [Candidatus Liberibacter asiaticus str. psy62] (382 letters) >1zcd_A Na(+)/H(+) antiporter 1; membrane protein; 3.45A {Escherichia coli} PDB: 3fi1_A Length = 388 Score = 289 bits (740), Expect = 9e-79 Identities = 145/385 (37%), Positives = 221/385 (57%), Gaps = 15/385 (3%) Query: 7 FLYRDNFTGILLISTTFITMILANISFSSAYYFDALEYKIA--------NLTLRDWVNDI 58 F D GI+LI + MI+AN +S +Y D LE + N + W+ND Sbjct: 7 FFSSDASGGIILIIAAILAMIMANSGATSGWYHDFLETPVQLRVGSLEINKNMLLWINDA 66 Query: 59 LMILYFFMIGLELKHELIHGELSSWTKRSLPLLGAIGGITFPACIYMIINCHTEIYLKGW 118 LM ++F ++GLE+K EL+ G L+S + + P++ AIGG+ PA +Y+ N I +GW Sbjct: 67 LMAVFFLLVGLEVKRELMQGSLASLRQAAFPVIAAIGGMIVPALLYLAFNYADPITREGW 126 Query: 119 AIPTATDIAFTLGILSWIGPNIPSSLKIFFTALTMIDDFSAIAIMAIFYTQSLNLFALQV 178 AIP ATDIAF LG+L+ +G +P +LKIF AL +IDD AI I+A+FYT L++ +L V Sbjct: 127 AIPAATDIAFALGVLALLGSRVPLALKIFLMALAIIDDLGAIIIIALFYTNDLSMASLGV 186 Query: 179 AITLIFLLFLLNRCGFTNLFIYGFLGFFLWHSIFKSGIHTTVFGVIMALLLPDIKNY-HS 237 A I +L +LN CG +Y +G LW ++ KSG+H T+ GVI+ +P + + S Sbjct: 187 AAVAIAVLAVLNLCGARRTGVYILVGVVLWTAVLKSGVHATLAGVIVGFFIPLKEKHGRS 246 Query: 238 PSNRISFYLLGDGLKSWVMPLVLPAFVFVNTGLTISTIPYTDISDPIVWGVMLGLFLGKQ 297 P+ R L L WV L+LP F F N G+++ + ++ + G++ GL +GK Sbjct: 247 PAKR-----LEHVLHPWVAYLILPLFAFANAGVSLQGVTLDGLTSILPLGIIAGLLIGKP 301 Query: 298 SGIFLFAFSTVKIGWGKLPKDTNWCLLYGGSILCGIGFTMSLFLTLQAFPNAN-NLQEKA 356 GI LF + +++ LP+ T + + ILCGIGFTMS+F+ AF + + L A Sbjct: 302 LGISLFCWLALRLKLAHLPEGTTYQQIMVVGILCGIGFTMSIFIASLAFGSVDPELINWA 361 Query: 357 KIGIILSSVISIIYAYLVFKIPLRK 381 K+GI++ S+ S + Y ++ LR Sbjct: 362 KLGILVGSISSAVIGYSWLRVRLRP 386 >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 = 49.6 bits (118), Expect = 1e-06 Identities = 59/316 (18%), Positives = 98/316 (31%), Gaps = 128/316 (40%) Query: 38 YFDALE--YKIANLTLRDWVNDIL----MIL-----------YFFMIGLELKHELIHGE- 79 YF+ L Y+ T V D++ L F GL + L + Sbjct: 169 YFEELRDLYQ----TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSN 224 Query: 80 ------LSSWTKRSLPLLGAIGGITFPACIYMIINCHTEIYLKGWAIPTATDIAFTLGIL 133 L S S PL IG I Y++ LG Sbjct: 225 TPDKDYLLS-IPISCPL---IGVIQL--AHYVVT-AKL------------------LG-F 258 Query: 134 SWIGPNIPSSLKIFFTALT-----MIDDFSAIAI-MAI----FYTQSLNLFALQVAITLI 183 + P L+ + T ++ +A+AI F+ AIT++ Sbjct: 259 T------PGELRSYLKGATGHSQGLV---TAVAIAETDSWESFFVSVRK------AITVL 303 Query: 184 FLLFLLNRC--GFTNLFIYGFLGFFLWHSIFKS------GIHT---TVFGVIMALLLPDI 232 F F+ RC + N L SI + G+ + ++ + + + Sbjct: 304 F--FIGVRCYEAYPNTS--------LPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYV 353 Query: 233 K--NYHSPSNR---ISFYLLGDGLKSWVM---PLVLPAF------VFVNTGLTISTIPYT 278 N H P+ + IS L +G K+ V+ P L +GL S IP++ Sbjct: 354 NKTNSHLPAGKQVEIS---LVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFS 410 Query: 279 D-----------ISDP 283 + ++ P Sbjct: 411 ERKLKFSNRFLPVASP 426 Score = 40.3 bits (94), Expect = 7e-04 Identities = 60/399 (15%), Positives = 103/399 (25%), Gaps = 155/399 (38%) Query: 19 ISTTFITMILANISFS----SAYYFDALEYKIANLTLRDWVNDILMILYFFMIGL-ELKH 73 ST +T+ ++ +A +F A L++ F L E Sbjct: 4 YSTRPLTLSHGSLEHVLLVPTASFFIAS-------QLQE----------QFNKILPEPTE 46 Query: 74 ELIHG-ELSSWTKRSLPLLGA-IGGI----------TFPACIYMIINCHTEIYLKGWAIP 121 E ++ L+G +G + F + + + YL+G Sbjct: 47 GFAADDEPTT----PAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEG---- 98 Query: 122 TATDI-AFTLGILSWIGPNIPSS---LKIFFTALTMIDD----------FSAIA-----I 162 DI A +L + + +K + TA M F A+ + Sbjct: 99 --NDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL 156 Query: 163 MAIFYTQSLNLFALQVAITLIFLLFLLNRCGFTNLF-IY----GFLGFFLWHSIFKSGIH 217 +AIF Q + F L +Y +G I Sbjct: 157 VAIFGGQGNT-----------------DDY-FEELRDLYQTYHVLVGDL---------IK 189 Query: 218 TTVFGVIMALLLPDIKNYHSPSNRISFYLLGDGLKSWVMPLVLPAFVFVNTGLTISTIPY 277 A L ++ + + + G + W L P S P Sbjct: 190 F------SAETLSEL--IRTTLDAEKVFTQGLNILEW---LENP-----------SNTPD 227 Query: 278 TD------ISDPI--------------VWGV----MLGLFLG----KQSGIFLFAFSTVK 309 D IS P+ + G + G Q G+ Sbjct: 228 KDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQ-GLVTAVAIAET 286 Query: 310 IGWGKLPKDTNWCLLYGGSILCGIGFTMSLFLTLQAFPN 348 W + ++L IG +A+PN Sbjct: 287 DSWESFFVSVRKAI----TVLFFIGVR-----CYEAYPN 316 >1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154 Score = 30.4 bits (67), Expect = 0.80 Identities = 10/27 (37%), Positives = 15/27 (55%), Gaps = 9/27 (33%) Query: 140 IPSSLKIFFTALTMIDDFS--AIAIMA 164 + +SLK++ A D S A+AI A Sbjct: 25 LQASLKLY--A-----DDSAPALAIKA 44 >2r9r_B Paddle chimera voltage gated potassium channel KV1.2-KV2.1; voltage sensor, voltage dependent, ION channel, shaker, membrane protein; HET: NAP PGW; 2.40A {Rattus norvegicus} PDB: 2a79_B* Length = 514 Score = 28.3 bits (62), Expect = 3.1 Identities = 32/255 (12%), Positives = 76/255 (29%), Gaps = 20/255 (7%) Query: 104 YMIINCHTEIYLKGWAIPTATDIAFTLGILSWIGPNIPSSLKIFFTALTMIDDFSAIAIM 163 + + + AI + I + I+S+ +P F + Sbjct: 170 LLFEYPESSGPARIIAIVSVMVILIS--IVSFCLETLPIFRDENEDMHGGGVTFHTYSQS 227 Query: 164 AIFYTQSLN----LFALQVAITLIF-------LLFLLNRCGF----TNLF-IYGFLGFFL 207 I Y QS + F ++ + F ++ GF N+ I + +++ Sbjct: 228 TIGYQQSTSFTDPFFIVETLCIIWFSFEFLVRFFACPSKAGFFTNIMNIIDIVAIIPYYV 287 Query: 208 WHSIFKSGIHTTVFGVIMALLLPDIKNYHSPSNRISFYLLGDGLKSWVMPLVLPAFVFVN 267 + +S F + ++ ++S + G + + + + Sbjct: 288 TIFLTESNKSVLQFQNVRRVVQIFRIMRILRIFKLSRHSKGLQILGQTLKASMRELGLLI 347 Query: 268 TGLTISTIPYTDISDPIVWGVMLGLFLGKQSGIFLFAFSTVKIGWGKLPKDTNWCLLYGG 327 L I I ++ F + S +G+G + T + G Sbjct: 348 FFLFIGVILFSSAVYFAEADERDSQFPSIPDAFWWAVVSMTTVGYGDMVPTTIGGKIVGS 407 Query: 328 -SILCGIGFTMSLFL 341 + G+ ++L + Sbjct: 408 LCAIAGVLT-IALPV 421 >1y7l_A O-acetylserine sulfhydrylase, O-acetylserine (thiol)-lyase; X-RAY crystallography, sulfhydrylase; HET: LLP; 1.55A {Haemophilus influenzae} SCOP: c.79.1.1 PDB: 1fcj_A* 1oas_A* 1d6s_A* Length = 316 Score = 27.6 bits (60), Expect = 5.6 Identities = 13/83 (15%), Positives = 26/83 (31%), Gaps = 3/83 (3%) Query: 51 LRDWVNDILMILYFFMIGLELKHELIHGELSSWTKRSLPLLGAIGGITFPACIYMIINCH 110 ++ + + + + + + GE + IG P + + I Sbjct: 189 IKLDFGKQITSVAVEPVESPVISQTLAGEEVKPGPHKIQ---GIGAGFIPKNLDLSIIDR 245 Query: 111 TEIYLKGWAIPTATDIAFTLGIL 133 E A+ TA + GIL Sbjct: 246 VETVDSDTALATARRLMAEEGIL 268 >2j8s_A ACRB, acriflavine resistance protein B; membrane protein/complex, designed ankyrin repeat protein, multidrug resistance protein; HET: LMT LMU; 2.54A {Escherichia coli} PDB: 2dhh_A 1iwg_A 2dr6_A* 2drd_A* 2hqf_A 2hqg_A 2hqd_A 2hqc_A 2i6w_A 1oy6_A* 1oy9_A* 1oyd_A* 1oy8_A* 1oye_A 2rdd_A* 2w1b_A* 3d9b_A 1t9x_A* 1t9t_A* 1t9v_A* ... Length = 1055 Score = 26.7 bits (58), Expect = 8.9 Identities = 13/160 (8%), Positives = 42/160 (26%), Gaps = 1/160 (0%) Query: 70 ELKHELIHGELSSWTKRSLPLLGAIGGITFPACIYMIINCHTEIYLKGWAIPTATDIAFT 129 ++ + + + I +Y+ + + A+P F Sbjct: 322 KIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQNFRATLIPTIAVPVVLLGTFA 381 Query: 130 LGILSWIGPNIPSSLKIFFTALTMIDDFSAIAIMAIFYTQSLNLFALQVAITLIFLLFLL 189 + N ++ A+ ++ D + + + + + + A Sbjct: 382 VLAAFGFSINTL-TMFGMVLAIGLLVDDAIVVVENVERVMAEEGLPPKEATRKSMGQIQG 440 Query: 190 NRCGFTNLFIYGFLGFFLWHSIFKSGIHTTVFGVIMALLL 229 G + F+ + + ++ A+ L Sbjct: 441 ALVGIAMVLSAVFVPMAFFGGSTGAIYRQFSITIVSAMAL 480 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 0.331 0.146 0.459 Gapped Lambda K H 0.267 0.0568 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 3,305,613 Number of extensions: 149332 Number of successful extensions: 380 Number of sequences better than 10.0: 1 Number of HSP's gapped: 369 Number of HSP's successfully gapped: 35 Length of query: 382 Length of database: 5,693,230 Length adjustment: 94 Effective length of query: 288 Effective length of database: 3,414,294 Effective search space: 983316672 Effective search space used: 983316672 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.9 bits) S2: 57 (26.1 bits)