RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780612|ref|YP_003065025.1| putative transmembrane protein [Candidatus Liberibacter asiaticus str. psy62] (503 letters) >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 = 66.9 bits (163), Expect = 1e-11 Identities = 90/524 (17%), Positives = 145/524 (27%), Gaps = 213/524 (40%) Query: 11 AVDNLPENTPERRSHIYEHARNSVARRLESMKPRLPKEILERQFNKLEQAILQVEKQNQK 70 A D+ P E + V+ +E K ++L + E L+ Sbjct: 49 AADDEPTTPAELVGKFLGY----VSSLVEPSKVGQFDQVLNLCLTEFENCYLE-----GN 99 Query: 71 SLHT----------SKQDKESDIPKSSVTSKENIFLEPRLRSISSILRS--NKHKKLANI 118 +H + K ++ K+ +T++ +S S++ R+ + +L I Sbjct: 100 DIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAI 159 Query: 119 LSVQGKSRTNTNLSPKNFSC--RLREILSFSVNTQHEYDSSVSP-VAAIEHDKSRLRRGK 175 QG NT+ LR++ + Y V + S L R Sbjct: 160 FGGQG----NTD------DYFEELRDL--YQT-----YHVLVGDLIKFSAETLSELIRTT 202 Query: 176 LAGIFSFPTGSIF----WSVHN--------YFFNKTRGLLSFYSALSEHHLFKYFVF-LI 222 L F G W + N Y LLS +S LI Sbjct: 203 LDAEKVFTQG--LNILEW-LENPSNTPDKDY-------LLS--IPIS---------CPLI 241 Query: 223 ILLGMAIGVSYSI-----GKSKGSITHFLRRESLDG--GNVDKKNVFS-GIRPKITRRLL 274 ++ +A Y + G + G + R L G G+ S G+ Sbjct: 242 GVIQLA---HYVVTAKLLGFTPGEL-----RSYLKGATGH-------SQGL--------- 277 Query: 275 EDGSEVDVGPSTIPVAD----FANTSNIA----FKNYIGGDENSTF--------VLGKKE 318 V I D F + A F +IG + +L ++ Sbjct: 278 -------VTAVAIAETDSWESFFVSVRKAITVLF--FIGVRCYEAYPNTSLPPSIL--ED 326 Query: 319 IEEGNPLIGEGRVFINKGRGQSSILSGKILWSLQQEKSQGLKGLVIKGDIPMIDNAFSAS 378 E EG S +LS + L + ++ Sbjct: 327 SLEN----NEGVP--------SPMLS--------------ISNLTQEQVQDYVN------ 354 Query: 379 MTLKCNADISLSITHVMEIMFSFPKESQDAVVDLRRISMRKTDNSPSVLIDSNIFVISK- 437 K N+ H+ P Q IS+ N N V+S Sbjct: 355 ---KTNS-------HL-------PAGKQVE------ISLV---NGA-----KN-LVVSGP 382 Query: 438 -------NSYLISLK-GSEED----PFRNSKILEEYRFIDIPIT 469 N L K S D PF K+ RF +P+ Sbjct: 383 PQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRF--LPVA 424 >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 = 41.1 bits (95), Expect = 5e-04 Identities = 17/46 (36%), Positives = 18/46 (39%), Gaps = 19/46 (41%) Query: 354 EKSQGLKGLVIKGDIPMIDNAFSASMTLKCNADIS---LSITHVME 396 EK Q LK L AS LK AD S L+I ME Sbjct: 18 EK-QALKKL-------------QAS--LKLYADDSAPALAIKATME 47 Score = 28.8 bits (63), Expect = 2.6 Identities = 10/31 (32%), Positives = 14/31 (45%), Gaps = 9/31 (29%) Query: 65 EKQNQKSLHTS-K--QDKESDIP----KSSV 88 EKQ K L S K D + P K+++ Sbjct: 18 EKQALKKLQASLKLYADDSA--PALAIKATM 46 >2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 1688 Score = 37.1 bits (85), Expect = 0.010 Identities = 56/249 (22%), Positives = 96/249 (38%), Gaps = 77/249 (30%) Query: 281 DVGPSTIPVADFANTSNIAFKNYIGGDENSTFVLGK--KEI--EEGNPLIGEGRVFIN-- 334 D+G VA F TS A D+N + + + K + EGNP+IG + F+ Sbjct: 1336 DLG-----VASFHGTSTKA------NDKNESATINEMMKHLGRSEGNPVIGVFQKFLTGH 1384 Query: 335 -KGRGQSSILSGKILWSLQQEKSQGLKGLVIKGD---------IPMIDNAFSASMTLKCN 384 KG + +++G + Q L +I G+ + + S TLK + Sbjct: 1385 PKGAAGAWMMNGAL---------QILNSGIIPGNRNADNVDKILEQFEYVLYPSKTLKTD 1435 Query: 385 ADISLSITHVMEIMFSFPKESQDAVV---D--------------LRRISMRKTDNSPSVL 427 ++SIT F F ++ A+V D + ++S R+ ++ Sbjct: 1436 GVRAVSITS-----FGFGQKGGQAIVVHPDYLYGAITEDRYNEYVAKVSAREK-SAYKFF 1489 Query: 428 IDSNIFVISKNSYLISLKGSEEDPFRNSKILEEYRFIDIPITYRSGQKILFTIDKGKKGA 487 + I+ N +S E P+ + LEE ++D P+ S K K G+ Sbjct: 1490 HNGMIY----NKLFVS---KEHAPYTDE--LEEDVYLD-PLARVSKDK--------KSGS 1531 Query: 488 DIFKSAIMQ 496 F S +Q Sbjct: 1532 LTFNSKNIQ 1540 >3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, transcription factor, DNA-binding, DNA-directed RNA polymerase; 4.30A {Saccharomyces cerevisiae} Length = 197 Score = 32.2 bits (73), Expect = 0.28 Identities = 18/90 (20%), Positives = 24/90 (26%), Gaps = 28/90 (31%) Query: 246 LRRESLDGGNVDKKNVFSGIRPKITRRLLEDGSEVDVGPSTIPVADFANTSNIAFKNYIG 305 + RES +DK+ G I E V F+ Sbjct: 2 MTRES-----IDKRAGRRGPNLNIVLTCPECKV-----YPPKIVERFSE----------- 40 Query: 306 GD---ENSTFVLGKKEIEEGNPLIGEGRVF 332 GD VL K ++ E R F Sbjct: 41 GDVVCALCGLVLSDKLVDTR-S---EWRTF 66 >3bic_A Methylmalonyl-COA mutase, mitochondrial precursor; organic aciduria, methylmalonyl COA mutase deficiency, metabolic disease, structural genomics; 2.60A {Homo sapiens} Length = 762 Score = 31.6 bits (71), Expect = 0.43 Identities = 12/70 (17%), Positives = 25/70 (35%), Gaps = 7/70 (10%) Query: 134 KNFSCRLREILSFSVNTQHEYDSSVSPV----AAIEHDKSRLRRGKLAGIF---SFPTGS 186 + + + + S S++ H ++ + + R G AG+ P S Sbjct: 237 EYTAKHMPKFNSISISGYHMQEAGADAILELAYTLADGLEYSRTGLQAGLTIDEFAPRLS 296 Query: 187 IFWSVHNYFF 196 FW + F+ Sbjct: 297 FFWGIGMNFY 306 >3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation termination, ATP-binding, cytoplasm, hydrolase, membrane; 2.80A {Schizosaccharomyces pombe} Length = 508 Score = 27.4 bits (60), Expect = 7.9 Identities = 54/243 (22%), Positives = 92/243 (37%), Gaps = 63/243 (25%) Query: 37 RLESMKPRLPKEILERQFNKLEQAILQV--EKQNQKSLHTSKQDKESDIPKSSVTSKENI 94 R+++ P+ P+ I +L + I+ V E + T+ K+S +PK + + + Sbjct: 182 RVDASVPK-PQAICLAPSRELARQIMDVVTEMGKYTEVKTAFGIKDS-VPKGAKIDAQIV 239 Query: 95 FLEPRLRSISSILRSNKHKKLA-------------NILSVQG---KSRTNTNLSPKNFSC 138 P +++ K ++L N+L QG +S +L P+N Sbjct: 240 IGTP-----GTVMDLMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRN--- 291 Query: 139 RLREILSFSVNTQH---EYDSSVSPVAAIEHDKSRLRRGKLAGIFSFPTGSIFWSVHNYF 195 +I+ FS +Y +P A ++ RL+ +L+ Sbjct: 292 --TQIVLFSATFSERVEKYAERFAPNA----NEIRLKTEELS------------------ 327 Query: 196 FNKTRGLLSFY-SALSEHHLFKYFVFLIILLGM-AIGVSYSIGKSKGSITHFLRRESLDG 253 G+ Y SE H KY V L+ L G+ IG S K K + RR + DG Sbjct: 328 ---VEGIKQLYMDCQSEEH--KYNV-LVELYGLLTIGQSIIFCKKKDTAEEIARRMTADG 381 Query: 254 GNV 256 V Sbjct: 382 HTV 384 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 0.317 0.134 0.374 Gapped Lambda K H 0.267 0.0593 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 4,079,072 Number of extensions: 187469 Number of successful extensions: 498 Number of sequences better than 10.0: 1 Number of HSP's gapped: 490 Number of HSP's successfully gapped: 15 Length of query: 503 Length of database: 5,693,230 Length adjustment: 96 Effective length of query: 407 Effective length of database: 3,365,806 Effective search space: 1369883042 Effective search space used: 1369883042 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 59 (26.8 bits)