RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780135|ref|YP_003064548.1| hypothetical protein CLIBASIA_00070 [Candidatus Liberibacter asiaticus str. psy62] (408 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 = 41.5 bits (97), Expect = 4e-04 Identities = 25/150 (16%), Positives = 44/150 (29%), Gaps = 71/150 (47%) Query: 5 KNF--------LLGV---LRLKKCTRGV-----------------FLVITAILLSSFVAI 36 KN L G+ LR K G+ FL + + S + Sbjct: 375 KNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVP 434 Query: 37 VDVVVDQVTVMQKTALLQEVL--DHVIYRTSPKNL----YDLREAGRDNFIRHQIEKALN 90 + L+ + L ++V + + K++ YD Sbjct: 435 A------------SDLINKDLVKNNVSF--NAKDIQIPVYD------------------- 461 Query: 91 TYNSRDLSNIGSIESIVKDAV--ILTKNVN 118 T++ DL + SI + V I+ V Sbjct: 462 TFDGSDLRVLS--GSISERIVDCIIRLPVK 489 Score = 39.9 bits (93), Expect = 0.001 Identities = 75/435 (17%), Positives = 121/435 (27%), Gaps = 212/435 (48%) Query: 8 LLGVLRL-------K--KCTRGVFL------------VITAILLS------SFVAIVDVV 40 L+GV++L K T G ++TA+ ++ SF V Sbjct: 240 LIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSV--- 296 Query: 41 VDQVTVMQKTALLQEVL------DHVIY-RTS--PKNLYDLREAG----------RDNFI 81 + A+ VL + Y TS P L D E + Sbjct: 297 --------RKAI--TVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISN-LT 345 Query: 82 RHQIEKALNTYNSRDL---SNIGSIESIVKDAVILTKNVNSLPLQFTVD-IALSTTVQLR 137 + Q++ +N NS L + + L VN V S L Sbjct: 346 QEQVQDYVNKTNSH-LPAGKQV---------EISL---VNG-AKNLVVSGPPQS----LY 387 Query: 138 G--SLLQMFSQSKGKVDISRRKKVMYKQNIGLMIMPFAWDGYWLASRGKVADSQVHRPKY 195 G L+ G +D SR +PF S+ R Sbjct: 388 GLNLTLRKAKAPSG-LDQSR--------------IPF---------------SE--RK-- 413 Query: 196 LEYSHYYQQYLNRNTLVKNFLSQIPYKNFCMAPYHYKSIFYWAFENFQYHQDNNMLIFYS 255 L++S+ FL + +P+H S + LI Sbjct: 414 LKFSN-------------RFLP-V------ASPFH--S---------HLLVPASDLI--- 439 Query: 256 HRDFYR--ITWD----HFPYSFIKNVFDMTSNQFGDGQVLTN--------------TNHC 295 ++D + ++++ P V+D T DG L Sbjct: 440 NKDLVKNNVSFNAKDIQIP------VYD-TF----DGSDLRVLSGSISERIVDCIIRLPV 488 Query: 296 -------FPHGASHSKYMLMFAIGNQLSRSSVGKETIDRILQDCYYMHKHHRTGRGAITI 348 F A+H +L F G S +G T ++ G G I Sbjct: 489 KWETTTQFK--ATH---ILDFGPG---GASGLGVLT------------HRNKDGTGVRVI 528 Query: 349 F--SVGFSPDQDTRY 361 ++ +PD D + Sbjct: 529 VAGTLDINPDDDYGF 543 Score = 30.3 bits (68), Expect = 0.75 Identities = 67/460 (14%), Positives = 134/460 (29%), Gaps = 159/460 (34%) Query: 7 FLLGVL-RLKKCTRGVFLVITAILL----SSFVAIVDV--VVDQVTVMQKTALLQEVLDH 59 FL V ++ G F + + L + ++ D+ + ++ T L++ Sbjct: 64 FLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKT--KE 121 Query: 60 VIYRTSPKNLYDLREAGRDNFIRHQIEKAL----NTYNSRDLSNI----GSIESIVKDAV 111 +I KN R + + AL N++ L I G+ + ++ Sbjct: 122 LI-----KNYITARIMAKRP-FDKKSNSALFRAVGEGNAQ-LVAIFGGQGNTDDYFEELR 174 Query: 112 ILTKNVNSLPLQFTVDIALSTTVQLRGSLLQMFSQSKGKVDISRRKKVMYKQNIGLMIMP 171 L + + L + ++ L + +K ++ Q GL I+ Sbjct: 175 DLYQTYHVL---------VGDLIKFSAETLSELIR-----TTLDAEK-VFTQ--GLNILE 217 Query: 172 FAWDGYWLASRGKVADSQVHRPKYLEYSHYYQQYLNRNTLVKNFLSQIP----------- 220 WL + + P + YL LS IP Sbjct: 218 ------WLENP----SN---TPD--------KDYL---------LS-IPISCPLIGVIQL 246 Query: 221 --YKNFC----MAPYHYKSIFYWAFENFQYH-QDNNMLI---FYSHRDFYRITWDHFPYS 270 Y P +S A H Q L+ + D +W+ F S Sbjct: 247 AHYVVTAKLLGFTPGELRSYLKGA----TGHSQG---LVTAVAIAETD----SWESFFVS 295 Query: 271 FIKNVFDMTSNQFGDGQVL----TNTNHCFPHGASHSKYMLMFAIGNQ-------LSRSS 319 K + VL +P+ + +L ++ N LS S+ Sbjct: 296 VRKAI-----------TVLFFIGVRCYEAYPNTSLPPS-ILEDSLENNEGVPSPMLSISN 343 Query: 320 VGKETIDRILQDCYYMHKH-HRTGRGAITIFSVGFSPDQDTRYTLRQCASDPSKYYEINS 378 + +E + + + H + I++ + + P Y +N Sbjct: 344 LTQEQVQDYVNKT---NSHLPAGKQVEISLVN---GAKNLV------VSGPPQSLYGLNL 391 Query: 379 -----------DENVMPIAKSLARN-VITNWFSQF-TITV 405 D++ +P ++ R +N +F + Sbjct: 392 TLRKAKAPSGLDQSRIPFSE---RKLKFSN---RFLPVAS 425 >3g7u_A Cytosine-specific methyltransferase; DNA-binding, NAD-binding, structural genomics, protein structure initiative, PSI; 1.75A {Escherichia coli O157} Length = 376 Score = 33.9 bits (76), Expect = 0.060 Identities = 22/211 (10%), Positives = 44/211 (20%), Gaps = 3/211 (1%) Query: 160 MYKQNIGLMIMPFAWDGYWLASRGKVADSQVHRPKYLEYSHYYQQYLNRNTLVKNFLSQI 219 +N+ ++ A D + P ++ S Y + + Sbjct: 115 FLAENVPGIMQEKYSGIRNKAFNLVSGDYDILDPIKVKASDYGAPTIRTRYFFIGVKKSL 174 Query: 220 PYKNFCMAPYHYKSIFYWAFENFQYHQDNNMLIFYSHRDFYRITWDHFPYSFIKNVFDMT 279 + D + S + +R F + ++ Sbjct: 175 KLDISDEVFMPKMIDPVTVKDALYGLPDIIDANWQSDSESWRTIKKDRKGGFYEKLWGQI 234 Query: 280 SNQFGDGQ---VLTNTNHCFPHGASHSKYMLMFAIGNQLSRSSVGKETIDRILQDCYYMH 336 GD + L N G HSK + + + Sbjct: 235 PRNVGDTESIAKLKNNIISGCTGTLHSKIVQERYASLSFGETDKISRSTRLDPNGFCPTL 294 Query: 337 KHHRTGRGAITIFSVGFSPDQDTRYTLRQCA 367 + P T R+ A Sbjct: 295 RAGTARDKGSFQAVRPIHPYHPRVITPREAA 325 >1n3y_A Integrin alpha-X; alpha/beta rossmann fold, cell adhesion; 1.65A {Homo sapiens} SCOP: c.62.1.1 Length = 198 Score = 30.2 bits (67), Expect = 0.99 Identities = 20/166 (12%), Positives = 45/166 (27%), Gaps = 19/166 (11%) Query: 240 ENFQYHQDNNMLIFYSHRDFYRITWDHFPYSF-----IKNVFDMTSNQFGDGQVLTNTNH 294 FQ L+ +S++ T++ F S + +V + + + + Sbjct: 39 SQFQRPSTQFSLMQFSNKFQTHFTFEEFRRSSNPLSLLASVHQLQGFTYTATAIQNVVHR 98 Query: 295 CFPHGASHSKYMLMFAIGNQLSRSSVGKETIDRILQDCYYMHKHHRTGRGAITIFSVGFS 354 F + I + ++ I +++G Sbjct: 99 LFHASYGARRDAAKILIVITDGKKEGDSLDYKDVIPMADAAG---------IIRYAIGVG 149 Query: 355 PDQDTRY---TLRQCASDPS--KYYEINSDENVMPIAKSLARNVIT 395 R L AS PS +++ + + I L + Sbjct: 150 LAFQNRNSWKELNDIASKPSQEHIFKVEDFDALKDIQNQLKEKIFA 195 >1ijb_A VON willebrand factor; dinucleotide-binding fold, blood clotting; 1.80A {Homo sapiens} SCOP: c.62.1.1 PDB: 1ijk_A 1auq_A 1u0n_A 3hxo_A 1uex_C 3hxq_A 1sq0_A 1m10_A 1fns_A 1oak_A 1u0o_C Length = 202 Score = 29.1 bits (64), Expect = 1.8 Identities = 14/187 (7%), Positives = 43/187 (22%), Gaps = 32/187 (17%) Query: 209 NTLVKNFLSQIPYKNFCMAPYHYKSIFYWAFENFQYHQDNNMLIFYSHRDFYRITWDHFP 268 +++ + + YH S Y ++ + + + ++ Sbjct: 39 VDMMERLRVSQKWVRVAVVEYHDGSHAYIGLKDRKRPSELRRIASQVKYAGSQVASTSEV 98 Query: 269 YSFIKNVFDMTSNQFGDGQVLTNTNHCFPHGASHSKYMLMFAIGNQLSRSSVGKETIDRI 328 + + +L+ A R Sbjct: 99 LKYTLFQI----------------FSKIDRPEASRIALLLMASQ----EPQRMSRNFVRY 138 Query: 329 LQDCYYMHKHHRTGRGAITIFSVGFSPDQDTRYTLRQCASDPS--KYYEINSDENVMPIA 386 +Q + + VG P + + +R K + ++S + + Sbjct: 139 VQGLKKKK---------VIVIPVGIGPHANLK-QIRLIEKQAPENKAFVLSSVDELEQQR 188 Query: 387 KSLARNV 393 + + Sbjct: 189 DEIVSYL 195 >3l7i_A Teichoic acid biosynthesis protein F; GT-B fold, monotopic membrane protein, structural protein; 2.70A {Staphylococcus epidermidis} PDB: 3l7j_A 3l7k_A* 3l7l_A* 3l7m_A* Length = 729 Score = 28.9 bits (64), Expect = 2.4 Identities = 19/95 (20%), Positives = 36/95 (37%), Gaps = 6/95 (6%) Query: 191 HRPKYLEYSHYYQQYLNRNTLVKNFLSQIPYKNFCMAPYHYKSIFYWAFENFQYHQD--- 247 RP++++ +Y N + +FL + N ++ EN + D Sbjct: 124 QRPQFVDLDRVRVEYFNAKENINSFLRKQSACNIIFRTAIVRAHHIRFNENLNTYVDWSF 183 Query: 248 NNMLIFYSHRDFYRITWDHFPYSFIKNVFDMTSNQ 282 + Y ++ F RI +FP+ F V+D Sbjct: 184 VLEYMKYVNK-FVRI--FNFPFYFRGEVYDPFETL 215 >1q55_A EP-cadherin, C-cadherin; trans interaction, desmosome, junction, adhesion, structural protein; HET: NAG NDG; 30.00A {Mus musculus} SCOP: i.20.1.1 PDB: 1q5a_A* 1q5b_A* 1q5c_A* Length = 880 Score = 27.8 bits (61), Expect = 4.3 Identities = 17/164 (10%), Positives = 47/164 (28%), Gaps = 7/164 (4%) Query: 247 DNNMLIFYSHRDFYRITWDHFPYSFIKNVFDMTSNQFGDGQVLTNTNHCFPHGASHSKYM 306 + + N +T+ + D ++ + + Sbjct: 406 GTPAWQAVYKIRVNEGGFFNITTDPESNQGILTTAKGLDFELRKQYVLQITVENAEPFSV 465 Query: 307 LMFAIGNQLSRSSVGKETIDRILQDCYYMHKHHRTGRGAITIFSVGFSPDQDT----RYT 362 + ++ + + + RG I V PD+ Y Sbjct: 466 PLPTSTATVTVTVEDVNEAPFFVPAVSRVDVSEDLSRGEKIISLVAQDPDKQQIQKLSYF 525 Query: 363 LRQCASDPSKYYEINSDENVMPIAKSLARNVITNWFSQFTITVV 406 + +DP+++ +N D ++ +L R + +T+ ++ Sbjct: 526 I---GNDPARWLTVNKDNGIVTGNGNLDRESEYVKNNTYTVIML 566 >3dkw_A DNR protein; CRP-FNR, HTH, beta barrel, dimerization helix, homodimer, transcription regulator; 3.60A {Pseudomonas aeruginosa} Length = 227 Score = 26.9 bits (58), Expect = 8.1 Identities = 17/181 (9%), Positives = 40/181 (22%), Gaps = 11/181 (6%) Query: 176 GYWLASRGKVADS--QVHRPKYLEYSHYYQQYLNRNTLVKNFLSQIPYKNFCMAPYHYKS 233 G ++ +G+ A + + Y + + + F P + + Sbjct: 40 GAYVFRQGEPAHAFYYLISGCVKIYRLTPEGQEKILEVTNERNTFAEAMMFMDTPNYVAT 99 Query: 234 IFYWAFENFQYHQDNNMLIFYSHRDFYRITWDHFPY----SFIKNVFDMTSNQFGDGQVL 289 + L + I + ++ V Sbjct: 100 AQAVVPSQLFRFSNKAYLRQLQDNTPLALALLAKLSTRLHQRIDEIETLSLKNATHRVVR 159 Query: 290 TNTNHCFPHGASHSKYMLMFAIGNQLSRSSVGKETIDRILQDCYYMHKHH--RTGRGAIT 347 + + + A S+ ET RI+ + I+ Sbjct: 160 YLLTLAAHAPGENCRVEIPVAKQLVAGHLSIQPETFSRIMHR---LGDEGIIHLDGREIS 216 Query: 348 I 348 I Sbjct: 217 I 217 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 0.324 0.136 0.411 Gapped Lambda K H 0.267 0.0544 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 3,491,328 Number of extensions: 159318 Number of successful extensions: 536 Number of sequences better than 10.0: 1 Number of HSP's gapped: 534 Number of HSP's successfully gapped: 25 Length of query: 408 Length of database: 5,693,230 Length adjustment: 95 Effective length of query: 313 Effective length of database: 3,390,050 Effective search space: 1061085650 Effective search space used: 1061085650 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 58 (26.5 bits)