RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780858|ref|YP_003065271.1| NADH dehydrogenase I subunit F [Candidatus Liberibacter asiaticus str. psy62] (425 letters) >3i9v_1 NADH-quinone oxidoreductase subunit 1; electron transport, respiratory chain, 4Fe- 4S, cell membrane, flavoprotein, FMN, iron; HET: FMN; 3.10A {Thermus thermophilus HB8} PDB: 2fug_1* 3iam_1* 3ias_1* Length = 438 Score = 382 bits (983), Expect = e-107 Identities = 189/422 (44%), Positives = 264/422 (62%), Gaps = 9/422 (2%) Query: 5 QDRIFTNLYGLQGKSLSDSMSRGHWDNVDKIL-EKGRDWIINEVKASGLRGRGGAGFSTG 63 + ++ ++ +L + G ++ ++L EK D +I EVK SGLRGRGGAGF TG Sbjct: 14 ERTLYAHVGKEGSWTLDYYLRHGGYETAKRVLKEKTPDEVIEEVKRSGLRGRGGAGFPTG 73 Query: 64 MKWSFMPKVCSDRPHYLVVNADESEPGTCKDRDIMRHEPHTLIEGCVIASFAIGAHCAFI 123 +KWSFMPK + HYL+ NADESEPG+ KDR I+ PH LIEG ++A +AI A +I Sbjct: 74 LKWSFMPK-DDGKQHYLICNADESEPGSFKDRYILEDVPHLLIEGMILAGYAIRATVGYI 132 Query: 124 YVRGEFIRERESLQAAVDECYASGLLG-SNSKLGYDVDIIVHHGAGAYICGEETALLESL 182 YVRGE+ R + L+ A+ E A G LG + + D+ VH GAGAYICGEETAL+ SL Sbjct: 133 YVRGEYRRAADRLEQAIKEARARGYLGKNLFGTDFSFDLHVHRGAGAYICGEETALMNSL 192 Query: 183 EGKKGQPRLKPPFPANVGLYGCPTTVNNVESIAVVPTILRRGASWYSGFGRENNRGTKLF 242 EG + PRLKPPFPA GL+G PTT+NNVE++A V I+ RGA W++ G E ++G KL+ Sbjct: 193 EGLRANPRLKPPFPAQSGLWGKPTTINNVETLASVVPIMERGADWFAQMGTEQSKGMKLY 252 Query: 243 SISGHVNYPCTVEESMSITFDELIEKHCGGIRGGWDNLLAVIPGGSSVPCLP-AGQMRGA 301 ISG V P E M TF ELI + GG + + A+IPGGSS P LP ++ Sbjct: 253 QISGPVKRPGVYELPMGTTFRELIYEWAGGP---LEPIQAIIPGGSSTPPLPFTEEVLDT 309 Query: 302 IMDYDGLKEMGSGLGTAAVIVMDRSTDIIKAIWRLSVFYKHESCGQCTPCREGT-GWMMR 360 M Y+ L+ GS LGT VI++ ++ A+W L+ FY HESCG+CTPCREG G+M+ Sbjct: 310 PMSYEHLQAKGSMLGTGGVILIPERVSMVDAMWNLTRFYAHESCGKCTPCREGVAGFMVN 369 Query: 361 VMERLVKGIAQKREIDLLYEVSKNIEGRTICALGDAAAWPIQGLIKNFRPLIEERIDQYH 420 + ++ G ++++++ L + IEGR+ C L DAA WP++G +++F+ + Sbjct: 370 LFAKIGTGQGEEKDVENLEALLPLIEGRSFCPLADAAVWPVKGSLRHFKDQYLALARE-K 428 Query: 421 RC 422 R Sbjct: 429 RP 430 >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 = 61.5 bits (149), Expect = 4e-10 Identities = 76/435 (17%), Positives = 121/435 (27%), Gaps = 199/435 (45%) Query: 101 EPHTLIEGCVIASFAIGAHCAFIYVRGEFIRERESLQAAVDECYASGLLGSNSKLGYDVD 160 EP T E ++ F +G + + + + + + L + E + + L N D Sbjct: 53 EPTTPAE--LVGKF-LG-YVSSLVEPSKVGQFDQVLNLCLTE-FENCYLEGN-------D 100 Query: 161 IIVHHGAGAYICGEETALLESLEGKK-------------GQPRLKPPFPANVGLYGCPTT 207 I H A + +T L++ K +P K A L+ Sbjct: 101 I--HALAAKLLQENDTTLVK----TKELIKNYITARIMAKRPFDKKSNSA---LF----- 146 Query: 208 VNNVESIAVVPTILRRGASWYSGFG------------RENNRGTKLFSISGHVNYPCTVE 255 V A + FG R+ L+ Y V Sbjct: 147 -RAVGE---------GNAQLVAIFGGQGNTDDYFEELRD------LYQT-----YHVLVG 185 Query: 256 E---SMSITFDELI------EKHCGGIRG----GW----------DNLLAVIPGGSSVP- 291 + + T ELI EK +G W D LL++ P S P Sbjct: 186 DLIKFSAETLSELIRTTLDAEKVFT--QGLNILEWLENPSNTPDKDYLLSI-P--ISCPL 240 Query: 292 -CL----------------PAGQMRGAIMDYDGLKEMGS-----GLGTAAVIVMDRSTDI 329 + P G++R LK G+ GL TA I S Sbjct: 241 IGVIQLAHYVVTAKLLGFTP-GELR------SYLK--GATGHSQGLVTAVAIAETDS--- 288 Query: 330 IKAIWRLSVFYKHES------------CGQCTPCR--------------EGT-GWMMRV- 361 W S F+ C + P EG M+ + Sbjct: 289 ----WE-S-FFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS 342 Query: 362 ---MERLVKGIAQ--------KR-EIDLLYEVSKNIEGRT--ICALGDAAAWPIQGL--- 404 E++ + + K+ EI L + G + + G + + GL Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQVEISL-------VNGAKNLVVS-GPPQS--LYGLNLT 392 Query: 405 ---IKNFRPLIEERI 416 K L + RI Sbjct: 393 LRKAKAPSGLDQSRI 407 Score = 49.6 bits (118), Expect = 1e-06 Identities = 71/488 (14%), Positives = 117/488 (23%), Gaps = 262/488 (53%) Query: 3 TDQDRIFTNLYGLQG------------------------KSLSD---SMSRGHWDNVDKI 35 ++ ++G QG K ++ + R + +K+ Sbjct: 151 EGNAQLVA-IFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTT-LDAEKV 208 Query: 36 LEKGRDWIINEVKASGLRGRGGAGFSTGMKWSFMPKVCSDR----------P-------- 77 +G + I ++W P D+ P Sbjct: 209 FTQGLN--I-------------------LEWLENPSNTPDKDYLLSIPISCPLIGVIQLA 247 Query: 78 HYLVVNADESEPGTCKDRDIMRHEP------------HT--LIEGCVIAS---------- 113 HY+V T K ++ P H+ L+ IA Sbjct: 248 HYVV---------TAK---LLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVS 295 Query: 114 --------FAIGAHCAFIYVR--------------GEF-------IR--ERESLQAAVDE 142 F IG C Y E I +E +Q V++ Sbjct: 296 VRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNK 355 Query: 143 CYASGLLGSNSKLGYD--VDIIVHHGAGAYICGEETALLESLEG------------KKGQ 188 NS L V+I + +GA + + +SL G Q Sbjct: 356 T--------NSHLPAGKQVEISLVNGAKNLVV---SGPPQSLYGLNLTLRKAKAPSGLDQ 404 Query: 189 PRL-----KPPFPANVGLYGCPTTVNNVESIAV----------VPTILRR----GASW-- 227 R+ K F N +A I + S+ Sbjct: 405 SRIPFSERKLKF------------SNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNA 452 Query: 228 -------YSGFGRENNR--GTKLFS------ISGHVNYPCTVEESMS--ITFDELIEKHC 270 Y F + R + I V + T + + + F Sbjct: 453 KDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFG------- 505 Query: 271 GGIRGGWDNLLAVIPGGSSVPCLPAGQMRGAIMDYDGL-------KEMGSGLGTAAVIV- 322 PGG+S GL K+ G+G+ VIV Sbjct: 506 --------------PGGAS-----------------GLGVLTHRNKD-GTGV---RVIVA 530 Query: 323 --MDRSTD 328 +D + D Sbjct: 531 GTLDINPD 538 Score = 29.1 bits (65), Expect = 1.7 Identities = 40/190 (21%), Positives = 78/190 (41%), Gaps = 28/190 (14%) Query: 240 KLF-SISGH-VNYPCTVEESM--SITFDE----LIEKHCGGIRGGWDNLLA--VIPGGSS 289 K+F I+ H +Y E+ + + F + L+EK +++L + +IP ++ Sbjct: 1705 KIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEK------AAFEDLKSKGLIPADAT 1758 Query: 290 VPCLPAGQMRGAIMDYDGLKEMGSGLGTAAVI--VMDRSTDIIKAIWRLSVFYKHESCGQ 347 AG G +Y L + + +++ V R + A+ R + + Sbjct: 1759 F----AGHSLG---EYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIA 1811 Query: 348 CTPCREGTGWMMRVMERLVKGIAQKREIDLLYEVSKNIEGRTICALGDAAAWPIQGLIKN 407 P R + ++ +V+ + KR L+ V+ N+E + A GD A + N Sbjct: 1812 INPGRVAASFSQEALQYVVERVG-KRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLN 1870 Query: 408 FRPLIEERID 417 F L ++ID Sbjct: 1871 FIKL--QKID 1878 >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 = 29.4 bits (65), Expect = 1.7 Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 4/39 (10%) Query: 30 DNVDKILEKGRDWII---NEVKASGLRGRGGAGFSTGMK 65 DNVDKILE+ ++++ +K G+R F G K Sbjct: 1413 DNVDKILEQ-FEYVLYPSKTLKTDGVRAVSITSFGFGQK 1450 >1zx5_A Mannosephosphate isomerase, putative; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: LFR; 2.30A {Archaeoglobus fulgidus} SCOP: b.82.1.3 Length = 300 Score = 28.5 bits (63), Expect = 3.1 Identities = 11/46 (23%), Positives = 18/46 (39%), Gaps = 1/46 (2%) Query: 231 FGRENNRGTKLFSISGHVNYPCTVEES-MSITFDELIEKHCGGIRG 275 G + + + S H + P TV ++ EL KH + G Sbjct: 29 KGFRQSGIGESWEFSAHTSRPSTVLVKGQQLSMIELFSKHRDELLG 74 >1zb7_A Neurotoxin; hexxh metalloprotease; HET: FLC; 2.35A {Clostridium botulinum} Length = 455 Score = 27.1 bits (60), Expect = 7.0 Identities = 7/45 (15%), Positives = 12/45 (26%), Gaps = 6/45 (13%) Query: 317 TAAVIVMDRSTDIIKAIWRLSVFYKHESCGQCTPCREGTGWMMRV 361 +I+ + + H P EG G M + Sbjct: 155 MTNLIIFGPGPVLSDNFTDSMIMNGHS------PISEGFGARMMI 193 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 0.321 0.139 0.437 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: 3,913,135 Number of extensions: 187992 Number of successful extensions: 465 Number of sequences better than 10.0: 1 Number of HSP's gapped: 457 Number of HSP's successfully gapped: 9 Length of query: 425 Length of database: 5,693,230 Length adjustment: 95 Effective length of query: 330 Effective length of database: 3,390,050 Effective search space: 1118716500 Effective search space used: 1118716500 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 58 (26.4 bits)