RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780858|ref|YP_003065271.1| NADH dehydrogenase I subunit F [Candidatus Liberibacter asiaticus str. psy62] (425 letters) >gnl|CDD|32078 COG1894, NuoF, NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]. Length = 424 Score = 647 bits (1671), Expect = 0.0 Identities = 249/422 (59%), Positives = 303/422 (71%), Gaps = 6/422 (1%) Query: 1 MLTDQDR-IFTNLYGLQGKSLSDSMSRGHWDNVDKIL-EKGRDWIINEVKASGLRGRGGA 58 L +QDR F NL SL + ++RG ++ + K L E G D II EVK SGLRGRGGA Sbjct: 5 FLKNQDRITFRNLGDPDPWSLDEYLARGGYEGLRKALTEMGPDEIIEEVKESGLRGRGGA 64 Query: 59 GFSTGMKWSFMPKVCSDRPHYLVVNADESEPGTCKDRDIMRHEPHTLIEGCVIASFAIGA 118 GF TG+KWSFMPK SD+ YLV NADE EPGT KDR IM +PH LIEG +IA++A+GA Sbjct: 65 GFPTGLKWSFMPKATSDQ-KYLVCNADEGEPGTFKDRLIMEGDPHLLIEGMIIAAYAVGA 123 Query: 119 HCAFIYVRGEFIRERESLQAAVDECYASGLLGSNSK-LGYDVDIIVHHGAGAYICGEETA 177 +IY+RGE+ E LQ A++E YA+GLLG N G+D D+ VHHGAGAYICGEETA Sbjct: 124 TKGYIYIRGEYPEAIERLQKAIEEAYAAGLLGKNILGSGFDFDLYVHHGAGAYICGEETA 183 Query: 178 LLESLEGKKGQPRLKPPFPANVGLYGCPTTVNNVESIAVVPTILRRGASWYSGFGRENNR 237 LLESLEGK+GQPRLKPPFPA GLYG PT +NNVE++A VP I+RRGA W+ G+ N+R Sbjct: 184 LLESLEGKRGQPRLKPPFPATSGLYGKPTVINNVETLANVPAIIRRGADWFRSIGKPNSR 243 Query: 238 GTKLFSISGHVNYPCTVEESMSITFDELIEKHCGGIRGGWDNLLAVIPGGSSVPCLPAGQ 297 GTKLFS+SGHV P E M T ELIE + GG+RGGW L AV PGG S PCLP + Sbjct: 244 GTKLFSLSGHVKNPGLYEVPMGTTLRELIEDYAGGVRGGW-KLKAVQPGGPSGPCLPE-E 301 Query: 298 MRGAIMDYDGLKEMGSGLGTAAVIVMDRSTDIIKAIWRLSVFYKHESCGQCTPCREGTGW 357 + MDYD L + GS LGT +IVMD ST ++KA RLS FYKHESCG+CTPCREGTGW Sbjct: 302 LLDTPMDYDSLAKAGSMLGTGGIIVMDDSTCMVKAARRLSEFYKHESCGKCTPCREGTGW 361 Query: 358 MMRVMERLVKGIAQKREIDLLYEVSKNIEGRTICALGDAAAWPIQGLIKNFRPLIEERID 417 M+R++ERLV+G Q ++DLL ++ I+G+T CALGDAAAWP+Q +++FR E I Sbjct: 362 MVRILERLVRGEGQPEDLDLLEDLCNQIKGKTFCALGDAAAWPVQSALRHFRDEFEAHIK 421 Query: 418 QY 419 Sbjct: 422 VG 423 >gnl|CDD|37869 KOG2658, KOG2658, KOG2658, NADH:ubiquinone oxidoreductase, NDUFV1/51kDa subunit [Energy production and conversion]. Length = 478 Score = 640 bits (1651), Expect = 0.0 Identities = 277/421 (65%), Positives = 328/421 (77%), Gaps = 1/421 (0%) Query: 2 LTDQDRIFTNLYGLQGKSLSDSMSRGHWDNVDKILEKGRDWIINEVKASGLRGRGGAGFS 61 L D+DRIFTNLYG L +++RG W +IL KG DWI+NEVK SGLRGRGGAGF Sbjct: 50 LADEDRIFTNLYGRHDWRLKGALARGDWHKTKEILLKGPDWIVNEVKTSGLRGRGGAGFP 109 Query: 62 TGMKWSFMPKVCSDRPHYLVVNADESEPGTCKDRDIMRHEPHTLIEGCVIASFAIGAHCA 121 +G+KWSFM K RP YLVVNADE EPGTCKDR+I+RH+PH LIEGC+IA A+GA A Sbjct: 110 SGLKWSFMNKPSDGRPKYLVVNADEGEPGTCKDREILRHDPHKLIEGCLIAGRAMGASAA 169 Query: 122 FIYVRGEFIRERESLQAAVDECYASGLLGSNS-KLGYDVDIIVHHGAGAYICGEETALLE 180 +IY+RGEF E +LQ A+ E YA+GLLG N+ GYD D+ VH GAGAYICGEETAL+E Sbjct: 170 YIYIRGEFYNEACNLQKAIIEAYAAGLLGKNACGTGYDFDVFVHRGAGAYICGEETALIE 229 Query: 181 SLEGKKGQPRLKPPFPANVGLYGCPTTVNNVESIAVVPTILRRGASWYSGFGRENNRGTK 240 SLEGK+G+PRLKPPFPA+ GL+GCPTTV NVE++AV PTI RRG W++ FGR NRGTK Sbjct: 230 SLEGKQGKPRLKPPFPADSGLFGCPTTVTNVETVAVSPTICRRGGKWFASFGRPRNRGTK 289 Query: 241 LFSISGHVNYPCTVEESMSITFDELIEKHCGGIRGGWDNLLAVIPGGSSVPCLPAGQMRG 300 LF ISGHVN PCTVEE MSI +LIE+H GG+RGGWDNLLA+IPGGSS P +P Sbjct: 290 LFCISGHVNNPCTVEEEMSIPLKDLIERHAGGVRGGWDNLLAIIPGGSSTPLIPKNVCEQ 349 Query: 301 AIMDYDGLKEMGSGLGTAAVIVMDRSTDIIKAIWRLSVFYKHESCGQCTPCREGTGWMMR 360 +MD+D LK SGLGT AVIVM++STDI+KAI RL FYKHESCGQCTPCREG W+ Sbjct: 350 VLMDFDSLKAAQSGLGTGAVIVMNKSTDIVKAIARLIKFYKHESCGQCTPCREGVEWLNE 409 Query: 361 VMERLVKGIAQKREIDLLYEVSKNIEGRTICALGDAAAWPIQGLIKNFRPLIEERIDQYH 420 +M R V G A EID+L+E+SK IEG TICALGD+AAWP+QGLI++FRP IEER+ + Sbjct: 410 IMARFVDGQAHPSEIDMLFEISKQIEGHTICALGDSAAWPVQGLIRHFRPEIEERMKKRA 469 Query: 421 R 421 + Sbjct: 470 K 470 >gnl|CDD|144926 pfam01512, Complex1_51K, Respiratory-chain NADH dehydrogenase 51 Kd subunit. Length = 150 Score = 187 bits (478), Expect = 4e-48 Identities = 69/172 (40%), Positives = 92/172 (53%), Gaps = 23/172 (13%) Query: 47 VKASGLRGRGGAGFSTGMKWSFMPKVCSDRPHYLVVNADESEPGTCKDRDIMRHEPHTLI 106 +K +G+ GRGGAGF T +K S + YL+VN E EPG KDR +MR PH +I Sbjct: 1 IKEAGIVGRGGAGFPTHVKLSPPAD---KKIKYLIVNGAECEPGLTKDRRLMRERPHEII 57 Query: 107 EGCVIASFAIGAHCAFIYVRGEFIRERESLQAAVDECYASGLLGSNSKLGYDVDIIVHHG 166 EG +IA++A+GA I + +L+ A+ E A+G DI V Sbjct: 58 EGILIAAYALGAKKGVIGIEDNKPEAIAALEKAIAEAPAAG------------DIEVVLL 105 Query: 167 AGAYICGEETALLESLEGKKGQPRLKPPFPANVGLYGCPTTVNNVESIAVVP 218 G Y CGEE AL+ SL G + PR PA+VG+ VNNVE++A VP Sbjct: 106 PGKYPCGEEKALIYSLTG-REVPRGGL--PADVGV-----VVNNVETLAAVP 149 >gnl|CDD|34275 COG4656, RnfC, Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]. Length = 529 Score = 55.7 bits (134), Expect = 3e-08 Identities = 43/180 (23%), Positives = 72/180 (40%), Gaps = 31/180 (17%) Query: 40 RDWIINEVKASGLRGRGGAGFSTGMKWSFMPKVCSDRPHYLVVNADESEPGTCKDRDIMR 99 + ++ ++K +G+ G GGAGF T +K K + L++NA E EP D +MR Sbjct: 122 PEELLEKIKQAGIVGLGGAGFPTAVKLQAGCK----KIETLIINAAECEPYITADDRLMR 177 Query: 100 HEPHTLIEGCVIASFAIGAHCAFIYVRGEFIRERESLQAAVDECYASGLLGSNSKLGYDV 159 +++G I + I + +L+AA+ Sbjct: 178 EHAEEIVKGIQILRKILKPKEVVIAIEDNKPEAIAALRAALFGDR--------------- 222 Query: 160 DIIVHHGAGAYICGEETALLESLEGKKGQPRLKPP--FPANVGLYGCPTTVNNVESIAVV 217 DI +H Y G E L++ L G++ P P++VG+ V NV + V Sbjct: 223 DIKIHVLPTKYPSGGEKQLIKILTGRE-----VPKGGLPSDVGV-----LVQNVGTAYAV 272 >gnl|CDD|144436 pfam00840, Glyco_hydro_7, Glycosyl hydrolase family 7. Length = 432 Score = 28.2 bits (63), Expect = 4.2 Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 6/46 (13%) Query: 284 IPGGSSVP---CLPAGQMRGAI---MDYDGLKEMGSGLGTAAVIVM 323 IPG +S+ C G + GL +MG L V+VM Sbjct: 320 IPGVNSITDDFCAAQKAAFGDTNSFAEKGGLAQMGEALSRGMVLVM 365 >gnl|CDD|34940 COG5377, COG5377, Phage-related protein, predicted endonuclease [DNA replication, recombination, and repair]. Length = 319 Score = 28.1 bits (62), Expect = 5.4 Identities = 15/55 (27%), Positives = 24/55 (43%) Query: 363 ERLVKGIAQKREIDLLYEVSKNIEGRTICALGDAAAWPIQGLIKNFRPLIEERID 417 E L + KR+I L + +K IE R L +A ++P+ R+D Sbjct: 232 EALAVLHSIKRDISELEDFAKEIENRLKNELKEAEYGFTADYDAVWKPVDSNRVD 286 >gnl|CDD|147768 pfam05794, Tcp11, T-complex protein 11. This family consists of several eukaryotic T-complex protein 11 (Tcp11) related sequences. Tcp11 is only expressed in fertile adult mammalian testes and is thought to be important in sperm function and fertility. The family also contains the yeast Sok1 protein which is known to suppress cyclic AMP-dependent protein kinase mutants. Length = 423 Score = 28.0 bits (63), Expect = 5.6 Identities = 22/106 (20%), Positives = 44/106 (41%), Gaps = 32/106 (30%) Query: 326 STDIIK-AIWRLSVFYKHESCGQCTPCREGTGWMMRVMERLVKGIAQKREI----DLL-Y 379 + DI+K A + +++ K C P R+ + ++ E++V + R I +L+ Sbjct: 96 ALDIVKLAKFIINLLKKL-----CAPARDE--EVKKLKEKIVDIVEGLRGIFEVLELMKL 148 Query: 380 EVSKNIEGRTICALGDAAAWPIQGLIKNFRPLIEERIDQYHRCNFQ 425 +++ I++ RPL+ E +Y R FQ Sbjct: 149 DMAN-------------------HQIRSLRPLLIENSVEYERKKFQ 175 >gnl|CDD|153086 cd01677, PFL2_DhaB_BssA, Pyruvate formate lyase 2 and related enzymes. This family includes pyruvate formate lyase 2 (PFL2), B12-independent glycerol dehydratase (DhaB) and the alpha subunit of benzylsuccinate synthase (BssA), all of which have a highly conserved ten-stranded alpha/beta barrel domain, which is similar to those of PFL1 (pyruvate formate lyase 1) and RNR (ribonucleotide reductase). Pyruvate formate lyase catalyzes a key step in anaerobic glycolysis, the conversion of pyruvate and CoenzymeA to formate and acetylCoA. DhaB catalyzes the first step in the conversion of glycerol to 1,3-propanediol while BssA catalyzes the first step in the anaerobic mineralization of both toluene and m-xylene. Length = 781 Score = 27.6 bits (62), Expect = 6.5 Identities = 12/51 (23%), Positives = 18/51 (35%), Gaps = 6/51 (11%) Query: 1 MLTDQDRIFTNLYGLQGKSLSDSMSR--GHWD-NVDKILEKGRDWIINEVK 48 ++ I + GH + K+LEKG D +I E K Sbjct: 129 YFPEETLIAMAA---GVFTEFMYFFSGPGHVAVDYPKVLEKGLDGLIEEAK 176 >gnl|CDD|34048 COG4326, Spo0M, Sporulation control protein [General function prediction only]. Length = 270 Score = 27.6 bits (61), Expect = 6.9 Identities = 14/60 (23%), Positives = 26/60 (43%), Gaps = 1/60 (1%) Query: 60 FSTGMKWSFMPKVCSDRPHYLVVNADESEPGTCKDRDIMRHEPHTLIEGCVIASFAIGAH 119 F + W+ P D ++ D + D+DI+ PH +++G + A A+G Sbjct: 112 FELSLPWN-TPVTIGDAKVWVETGLDIALAIDPTDKDILTVRPHPMMDGVLSAIEALGFR 170 Database: CddA Posted date: Feb 4, 2011 9:38 PM Number of letters in database: 6,263,737 Number of sequences in database: 21,609 Lambda K H 0.321 0.139 0.437 Gapped Lambda K H 0.267 0.0745 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 5,308,852 Number of extensions: 282896 Number of successful extensions: 644 Number of sequences better than 10.0: 1 Number of HSP's gapped: 634 Number of HSP's successfully gapped: 14 Length of query: 425 Length of database: 6,263,737 Length adjustment: 96 Effective length of query: 329 Effective length of database: 4,189,273 Effective search space: 1378270817 Effective search space used: 1378270817 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: 59 (26.5 bits)