RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780241|ref|YP_003064654.1| preprotein translocase subunit SecY [Candidatus Liberibacter asiaticus str. psy62] (444 letters) >gnl|CDD|181698 PRK09204, secY, preprotein translocase subunit SecY; Reviewed. Length = 426 Score = 574 bits (1481), Expect = e-164 Identities = 232/426 (54%), Positives = 306/426 (71%), Gaps = 7/426 (1%) Query: 11 NLNFASFSRAKDLKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNM 70 + + K+L+ RI+FT+ ALIV+R G+YIP+P ID + ++ F +S GI GLFN+ Sbjct: 2 LKTLKNAFKIKELRKRILFTLGALIVFRIGSYIPVPGIDPAALAQLFDQQSGGILGLFNL 61 Query: 71 FSGGAVERMAVFSLGIMPYISASIIVQLIAATVPSLENLKKEGEQGRKVINQYTRYATVL 130 FSGGA+ R ++F+LGIMPYI+ASII+QL+ +P LE LKKEGE GR+ INQYTRY TV+ Sbjct: 62 FSGGALSRFSIFALGIMPYITASIIMQLLTVVIPKLEELKKEGEAGRRKINQYTRYLTVV 121 Query: 131 LGILQAYGIAVGLKNGQG----IVSDSDYFFVFSTIITLLGGTMFLVWLGEQITMRGIGN 186 L +Q+ GIA GL + G + +FF + +ITL GTMFL+WLGEQIT RGIGN Sbjct: 122 LAFVQSIGIAAGLNSMSGGGGLVPIPPGFFFYLTIVITLTAGTMFLMWLGEQITERGIGN 181 Query: 187 GVSLIIFSGIVAGLPSSLVSVLELGRVGSISTPLMLLIFSSTVAVIALVIFFERAQRRLL 246 G+SLIIF+GIVAGLPS++ EL R GS+S + LL+ +AVIA V+F E+AQRR+ Sbjct: 182 GISLIIFAGIVAGLPSAIGQTFELARTGSLSILVFLLLIVLFLAVIAFVVFVEQAQRRIP 241 Query: 247 IQYPKRQVGNRMFQDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSSSPTWIVG 306 +QY KRQVG +M+ SYLPLK+N AGV+P IFASS+LL PATI F S +W+ Sbjct: 242 VQYAKRQVGRKMYGGQSSYLPLKVNMAGVIPVIFASSILLFPATIAQFF---GSGSWLQW 298 Query: 307 LVDSLGHGRSFYMVLYSVFIVFFAFFYTAIVFNPKEAADNLKKHGGFIPGIRPGDRTALH 366 + + L G Y++LY++ I+FF FFYTAI FNP+E A+NLKK GGFIPGIRPG++TA + Sbjct: 299 IANYLSPGSPLYILLYALLIIFFTFFYTAIQFNPEEIAENLKKSGGFIPGIRPGEQTAEY 358 Query: 367 IDYVLTRVTVVGAGYLVCVCIFPEALIAVTGVPVSLSGTSLLIIVSVVLDTIVQIQGYLI 426 +D VLTR+T+VGA YL + + PE L GVP GTSLLI+V V LDT+ QI+ L+ Sbjct: 359 LDKVLTRLTLVGAIYLAFIALLPEILQNALGVPFYFGGTSLLIVVGVALDTMKQIESQLM 418 Query: 427 AQQYEG 432 ++QYEG Sbjct: 419 SRQYEG 424 >gnl|CDD|162138 TIGR00967, 3a0501s007, preprotein translocase, SecY subunit. Length = 410 Score = 366 bits (941), Expect = e-102 Identities = 188/418 (44%), Positives = 269/418 (64%), Gaps = 19/418 (4%) Query: 24 KSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQS--KSAGIFGLFNMFSGGAVERMAV 81 + +++FT+ L+++R GT+IP+P ID + AFQ + GIF L N+FSGGA+ + ++ Sbjct: 1 REKLLFTLGLLVLFRIGTFIPVPGID----ASAFQQDIQQNGIFNLLNLFSGGALNQGSI 56 Query: 82 FSLGIMPYISASIIVQLIAATVPSLENL-KKEGEQGRKVINQYTRYATVLLGILQAYGIA 140 F+LGI PYI+ASII+QL+ VP L L KKEGE GR+ INQ TRY T++L +Q+ GI Sbjct: 57 FALGISPYITASIIIQLLTGDVPPLLQLQKKEGEIGRRKINQLTRYLTLILAFIQSLGIV 116 Query: 141 VGLKNGQGIVSDSDYFFVFSTIITLLGGTMFLVWLGEQITMRGIGNGVSLIIFSGIVAGL 200 + G V D FF +I L G+M ++WLGEQIT GIGNG+SL+IF+GI+A + Sbjct: 117 MTG--MYGYVGDPGAFFYLLIVIQLTTGSMIVMWLGEQITKYGIGNGISLLIFAGIIATI 174 Query: 201 PSSLVSVLEL--GRVGSISTPLM----LLIFSSTVAVIALVIFFERAQRRLLIQYPKRQV 254 PS L+ E+ +V + + L LL +T+ V A+V+F ++A+R++ IQ KRQ Sbjct: 175 PSGLLQPTEVRQSKVRDLISFLQNLPFLLYLIATIIVFAVVVFVQQARRKIPIQSAKRQG 234 Query: 255 GNRMFQDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSSSPTWIVGLVDSLGHG 314 G R Q +YLPLKLN AGV+P IFAS+LL PATI F++ + W + + SL Sbjct: 235 GRRGSQ--STYLPLKLNYAGVIPVIFASALLSNPATISQFLNSNQGGAWFLNPILSLSLS 292 Query: 315 RSFYMVLYSVFIVFFAFFYTAIVFNPKEAADNLKKHGGFIPGIRPGDRTALHIDYVLTRV 374 +LY + I+FF+FFY + NP++ A NLKK G FIPGIRPG T ++ V+ R+ Sbjct: 293 DPIGAILYLILIIFFSFFYVELQLNPEDMAKNLKKQGMFIPGIRPGKMTEKYLKRVIPRL 352 Query: 375 TVVGAGYLVCVCIFPEALIAVTGVPVS--LSGTSLLIIVSVVLDTIVQIQGYLIAQQY 430 T VG+ +L + + P L A+ G+P S L GTSLLI+V V +DT Q++ YLI++ Y Sbjct: 353 TFVGSLFLGLIALLPNFLGAIGGLPTSKGLGGTSLLIVVGVAIDTYKQLESYLISRNY 410 >gnl|CDD|183828 PRK12907, secY, preprotein translocase subunit SecY; Reviewed. Length = 434 Score = 273 bits (700), Expect = 5e-74 Identities = 169/434 (38%), Positives = 258/434 (59%), Gaps = 19/434 (4%) Query: 15 ASFSRAKDLKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGG 74 ++F R +++ +I+FT+ LIV+R GT+IP+P + Q A + G+ N+F GG Sbjct: 6 SNFMRVAEIRRKILFTLAMLIVFRIGTFIPVPHTNAEVLKVQDQ---ANVLGMLNVFGGG 62 Query: 75 AVERMAVFSLGIMPYISASIIVQLIAATV-PSLENLKKEGEQGRKVINQYTRYATVLLGI 133 A++ ++F++GI PYI+ASIIVQL+ V P K+GE GRK Q+TRY T++L Sbjct: 63 ALQHFSIFAVGITPYITASIIVQLLQMDVIPKFSEWAKQGEMGRKKSAQFTRYFTIILAF 122 Query: 134 LQAYGIAVGLKN--GQGIVSDSDYFFVFSTIITLLGGTMFLVWLGEQITMRGIGNGVSLI 191 +QA G++ G N G +++D + L GT FL+WLGEQIT G+GNG+S++ Sbjct: 123 IQAIGMSYGFNNIAGGQLITDQSWTTYLFIATVLTAGTAFLLWLGEQITANGVGNGISML 182 Query: 192 IFSGIVAGLPSSLVSVLELGRVGSISTPL------MLLIFSSTVAVIALVIFFERAQRRL 245 IF+G+VA +P+ + + + L + + L MLLI +A++ VI+ ++A R++ Sbjct: 183 IFAGLVAAIPN-VANQIYLQQFQNAGDQLFMHIIKMLLIGLVILAIVVGVIYIQQAVRKI 241 Query: 246 LIQYPKRQVGNRMFQD-DVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSSSPTWI 304 IQY K GN +Q ++LPLK+N+AGV+P IFAS+ L+ P TI SS W+ Sbjct: 242 PIQYAKAVSGNNQYQGAKNTHLPLKVNSAGVIPVIFASAFLMTPRTIAQLFPDSSVSKWL 301 Query: 305 VGLVDSLGHGRSFYMVLYSVFIVFFAFFYTAIVFNPKEAADNLKKHGGFIPGIRPGDRTA 364 V +D M LY IV F +FY I NP++ A+NLKK G++PGIRPG T Sbjct: 302 VANLDF---AHPIGMTLYVGLIVAFTYFYAFIQVNPEQMAENLKKQNGYVPGIRPGKSTE 358 Query: 365 LHIDYVLTRVTVVGAGYLVCVCIFPEALIAVTGVPVS--LSGTSLLIIVSVVLDTIVQIQ 422 ++ +L R+T +GA +L + I P + +P S + GTSLLIIV V L+T+ ++ Sbjct: 359 QYVTKILYRLTFIGAIFLGAISILPLVFTKIATLPPSAQIGGTSLLIIVGVALETMKTLE 418 Query: 423 GYLIAQQYEGVFKK 436 L+ + Y+G KK Sbjct: 419 SQLVKRHYKGFIKK 432 >gnl|CDD|183517 PRK12417, secY, preprotein translocase subunit SecY; Reviewed. Length = 404 Score = 151 bits (384), Expect = 3e-37 Identities = 96/417 (23%), Positives = 190/417 (45%), Gaps = 33/417 (7%) Query: 26 RIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGAVERMAVFSLG 85 +I+FT L +Y G+ I +P + + +GG + + +FSLG Sbjct: 15 KILFTCFILFIYILGSNISIPFVS----YNDMLGGHESFLKIAAANTGGDLRTLNIFSLG 70 Query: 86 IMPYISASIIVQLIAATVPSLENLKKEGEQGRKVINQYTRYATVLLGILQAYGIAVGLKN 145 + P++++ II+QL + + L K Q + + R T+++ ++Q+ + + L + Sbjct: 71 LGPWMTSMIILQLF--SYRKRDGLMK---QTIEEQHYRERILTLIIAVIQSLAVILSLPS 125 Query: 146 GQGIVSDSDYFFVFSTIITLLGGTMFLVWLGEQITMRGIGNGVSLIIFSGIVAGLPSSLV 205 + I S ++ + + L+ GTMFLVWL + GIG G I+ ++ +P ++ Sbjct: 126 KERI-SQTN---ILLNTLILVTGTMFLVWLSDLNARYGIG-GPMPIVLVSMIKSIPQDVI 180 Query: 206 SVLELGRVGSISTPLMLLIFSSTVAVIALVIFFERAQRRLLIQYPKRQVGNRMFQDDVSY 265 ++ + I L+++I + + F E + R+ P + N SY Sbjct: 181 EYIDASHIVIILLILLVII------TLFFLYFIELVEYRI----PYNDIMNHNRFKMYSY 230 Query: 266 LPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSSSPTW--IVGLVDSLGHGRSFYMVLYS 323 L +KLN AG +P +++ SLL+ P I+ I +S P I +D L G + +Y Sbjct: 231 LSIKLNPAGGMPIMYSMSLLVFPQYIIILI-LSIFPNNSGISADMDMLSFGSPLGVTVYL 289 Query: 324 VFIVFFAFFYTAIVFNPKEAADNLKKHGGFIPGIRPGDRTALHIDYVLTRVTVVGAGYLV 383 + ++F++ + N K+ A ++ K G +IPG+ PG T +++Y+ R + GA ++ Sbjct: 290 ILQFLLSYFFSFVNINTKQIAKDMLKSGNYIPGVYPGKDTERYLNYIARRFSWFGALFVT 349 Query: 384 CVCIFPEALIAVTGVP----VSLSGTSLLIIVSVVLDTIVQIQGYLIAQQYEGVFKK 436 + P L P ++ V + + +I+ L +Y+ + + Sbjct: 350 VIAGIP--LYFTLFDPHLSTEIYFSGQFMMFVGMSFNIADEIRALLYFDKYKPLLNQ 404 >gnl|CDD|131966 TIGR02920, acc_sec_Y2, accessory Sec system translocase SecY2. Members of this family are restricted to the Firmicutes lineage (low-GC Gram-positive bacteria) and appear to be paralogous to, and much more divergent than, the preprotein translocase SecY. Members include the SecY2 protein of the accessory Sec system in Streptococcus gordonii, involved in export of the highly glycosylated platelet-binding protein GspB. Length = 395 Score = 144 bits (364), Expect = 5e-35 Identities = 100/414 (24%), Positives = 192/414 (46%), Gaps = 28/414 (6%) Query: 26 RIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGAVERMAVFSLG 85 +I+FT LI+Y G+YIP+P ++ +S + + F + +GG + +++FSLG Sbjct: 5 KILFTCFILIIYVLGSYIPIPFVE-VSK-QDMEGVKNSFFKIAIANTGGNLTTLSIFSLG 62 Query: 86 IMPYISASIIVQLIAATVPSLENLKKEGEQGRKVINQYTRYATVLLGILQAYGIAVGLKN 145 + P++++ II+QL S Q K R+ T+++ I+Q I N Sbjct: 63 LGPWMTSMIILQLF-----SFTKSDGFDAQSPKEQQYRERFLTLIIAIIQGLAIIHSFTN 117 Query: 146 GQGIVSDSDYFFVFSTIITLLGGTMFLVWLGEQITMRGIGNGVSLIIFSGIVAGLPSSLV 205 G+ + + + L+ GT LVWL + GIG G I+ ++ +PS++ Sbjct: 118 KNGLSDFN----MLLATLILVTGTCLLVWLADLNAKYGIG-GSMPIVLVSMLKNIPSNVF 172 Query: 206 SVLELGRVGSISTPLMLLIFSSTVAVIALVIFFERAQRRLLIQYPKRQVGNRMFQDDVSY 265 + ++ + I+ ++L + + L+ F ERA+ R+ P + + +SY Sbjct: 173 ELFQMSYIWLIALLILLTLVALF-----LLAFIERAEYRI----PVNDISLHNRSNLMSY 223 Query: 266 LPLKLNTAGVVPSIFASSLLLLPATIMGFI-DVSSSPTWIVGLVDSLGHGRSFYMVLYSV 324 LP+KLN AG + ++ SLL+LP I+ + + + + I V +++Y + Sbjct: 224 LPIKLNPAGGMMYMYVMSLLMLPQYIIILLGRIFPNSSLINNWVFQFSFSSPVGILIYLI 283 Query: 325 FIVFFAFFYTAIVFNPKEAADNLKKHGGFIPGIRPGDRTALHIDYVLTRVTVVGAGYLVC 384 + ++F+T + NPKE + + +K G +IPGI PG T +++ + R G + Sbjct: 284 LQMLLSYFFTFVNINPKEISKSFRKSGNYIPGIAPGKDTQRYLNRLARRFCWFGGVFNAF 343 Query: 385 VCIFPEALIAVTGVP----VSLSGTSLLIIVSVVLDTIVQIQGYLIAQQYEGVF 434 P L VP + ++I + + +I+ L +Y+ + Sbjct: 344 QLGIP--LYFALFVPHLLTEAYIPGQFMMITGMSFNIADEIRTILYFDRYKPLL 395 >gnl|CDD|181475 PRK08568, PRK08568, preprotein translocase subunit SecY; Reviewed. Length = 462 Score = 68.3 bits (168), Expect = 3e-12 Identities = 110/445 (24%), Positives = 173/445 (38%), Gaps = 84/445 (18%) Query: 23 LKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGAVERMAVF 82 K ++ +T I LI+Y T IPL I S +F L + G+ + Sbjct: 26 FKEKLKWTAIVLILYFILTNIPLYGI---------SQSSQDLFELLRIIFAGS--FGTLL 74 Query: 83 SLGIMPYISASIIVQLIAATVPSLENLKKEGEQGRKVINQYTRYATVLLGILQAYGIAVG 142 LGI P ++A II+QL+ + L NL + R + + +++ L+A + Sbjct: 75 QLGIGPIVTAGIILQLLVGS--KLINLDLSDPEDRALFQGLQKLLAIVMIALEAAPFVLA 132 Query: 143 LKNGQGIVSDSDYFFVFSTIITLLGGTMFLVWLGEQITMRGIGNGVSLIIFSGI------ 196 G S + L G + ++ L E ++ GIG+G+SL I +G+ Sbjct: 133 GAFGPATGLASTPLLALLIFLQLFLGGILIILLDELVSKWGIGSGISLFILAGVSQTIFV 192 Query: 197 ------------VAGLPSSLVSVLELGRVGS----ISTPLMLLIFSSTVAVIALVIFFER 240 G +L S + G + + L+LL +T+ + +V++ E Sbjct: 193 GLFNWLTGGQGLPVGFIPALFSAITSGNLTLALLLTTRGLLLLGLITTIVIFLIVVYLES 252 Query: 241 AQRRLLIQYPKRQVGNRMFQDDVSYLPLKLNTAGVVPSIFASSLL-----------LLPA 289 + + + + R G R Y PLK V+P I +L L Sbjct: 253 MRVEIPLSHG-RVRGARG-----RY-PLKFIYVSVLPVILVRALQANIQLFGQLLQRLGI 305 Query: 290 TIMGFIDVSSSPTWIVGLVDSLGHGRS------------FYMVLYSVFIVFFAFFYTAIV 337 I+G D SS + I GL L S Y + V + FA F+ Sbjct: 306 PILGTYD-SSGASPISGLAYYLSPPHSPYDWIQDPLRAIIYALFMIVLSILFAIFWVETT 364 Query: 338 -FNPKEAADNLKKHGGFIPGIRPGDRTALHIDYVLTR----VTVVGAGYLVCVCIFPEAL 392 +PK A L+ G IPG R + I+ VL R VTV+G G +V L Sbjct: 365 GLDPKTQARQLQNSGMQIPGFRRNPKV---IEKVLERYIPPVTVIG-GAIV-------GL 413 Query: 393 IAVTG--VPVSLSGTSLLIIVSVVL 415 +AV + GT LL+ VS+V Sbjct: 414 LAVLADLLGALGGGTGLLLTVSIVY 438 >gnl|CDD|185519 PTZ00219, PTZ00219, Sec61 alpha subunit; Provisional. Length = 474 Score = 36.1 bits (84), Expect = 0.017 Identities = 48/179 (26%), Positives = 80/179 (44%), Gaps = 23/179 (12%) Query: 23 LKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGAVERMAVF 82 K ++++T IAL V+ IPL I S S F + M A R + Sbjct: 30 FKEKVLWTAIALFVFLVCCQIPLYGIRSSSSSDPF----------YWMRVILASNRGTLM 79 Query: 83 SLGIMPYISASIIVQLIAAT--VPSLENLKKEGEQGRKVINQYTRYATVLLGILQAYGIA 140 LGI P +++S+++QL+A + + +N K++ R + A LLG+L G A Sbjct: 80 ELGISPIVTSSMVMQLLAGSKIIDVDQNNKED----RALFEG----AQKLLGLLITLGEA 131 Query: 141 VG--LKNGQGIVSDSDYFFVFSTIITLLGGTMFLVWLGEQITM-RGIGNGVSLIIFSGI 196 V G +S+ I+ L + ++ L E + G+G+G+SL I + I Sbjct: 132 VAYVWSGMYGDISEIGAGNAILIILQLFFAGIVVILLDELLQKGYGLGSGISLFIATNI 190 >gnl|CDD|177560 PHA03231, PHA03231, glycoprotein BALF4; Provisional. Length = 829 Score = 33.8 bits (78), Expect = 0.097 Identities = 21/65 (32%), Positives = 28/65 (43%), Gaps = 11/65 (16%) Query: 182 RGIGNGVSLIIFSGIVAGLPSSLVSVLELGRVGSISTPL-MLLIFSSTVAVIALVIFFER 240 + +GN VS VAG S+VS G + + P L I +AV+ V R Sbjct: 676 KAVGNVVS------GVAGAVGSIVS----GVISFLKNPFGGLAIGLLVIAVLVAVFLAYR 725 Query: 241 AQRRL 245 RRL Sbjct: 726 RVRRL 730 >gnl|CDD|161691 TIGR00071, hisT_truA, pseudouridylate synthase I. universal so far, single copy in all prokaryotes, 3 in yeast. Trusted cutoff for orthology is about 100 based on 1 match only in complete prokaryote with length > 200. Length = 227 Score = 31.9 bits (73), Expect = 0.33 Identities = 14/43 (32%), Positives = 23/43 (53%) Query: 1 MASAVEQFVSNLNFASFSRAKDLKSRIVFTIIALIVYRFGTYI 43 M +A +Q + +F++FS+AK + TI + V G YI Sbjct: 128 MRAAAKQLLGKHDFSNFSKAKSKSRSPIRTISDIKVSESGEYI 170 >gnl|CDD|181853 PRK09433, thiP, thiamine transporter membrane protein; Reviewed. Length = 525 Score = 31.0 bits (71), Expect = 0.74 Identities = 28/118 (23%), Positives = 54/118 (45%), Gaps = 15/118 (12%) Query: 196 IVAGLPSSLVSVLELGRV-GSISTPLMLLIFSSTVAVIALVIFFERAQRRLLIQYPKRQV 254 +V+GL +SL+ VL + ++ T L + + ++ +AV+ L + + R L +++ Sbjct: 300 VVSGLNASLLRVLAQPALWQALWTSLRIALAAALLAVV-LTMMLLWSSREL---RLRQRK 355 Query: 255 GNRMFQDDVSYLPLKLNTAGVVPSI-FASSLLLLPATIMGFIDVSSSPTWIVGLVDSL 311 + L L +P I A+ L LL + D+ +S IV L ++L Sbjct: 356 LAAQALELSGMLIL------AMPGIVLATGLFLL---LRNTTDLPASALGIVILTNAL 404 >gnl|CDD|182127 PRK09874, PRK09874, drug efflux system protein MdtG; Provisional. Length = 408 Score = 29.1 bits (65), Expect = 2.3 Identities = 29/106 (27%), Positives = 55/106 (51%), Gaps = 10/106 (9%) Query: 133 ILQAYGIAVGLKNGQGIVSDSDYFFVFSTIITLLGGTMFLVWLGEQITMRGIGNGVSLII 192 +L + LKN + ++S FV + II + G++ + + +R + VS I Sbjct: 205 MLHMREVVTSLKNPKLVLS----LFVTTLIIQVATGSIAPIL---TLYVRELAGNVSNIA 257 Query: 193 F-SGIVAGLP--SSLVSVLELGRVGSISTPLMLLIFSSTVAVIALV 235 F SG++A +P ++L+S LG++G P +LI + +V+ L+ Sbjct: 258 FISGMIASVPGVAALLSAPRLGKLGDRIGPEKILITALIFSVLLLI 303 >gnl|CDD|173305 PRK14844, PRK14844, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional. Length = 2836 Score = 28.8 bits (64), Expect = 2.6 Identities = 19/69 (27%), Positives = 29/69 (42%), Gaps = 5/69 (7%) Query: 198 AGLPSSLVSVLELGRVGSISTPLMLLIFSSTVAVIALVIFFERAQRRLLIQYPKRQVGNR 257 AG V GR+ I TP + +I + + R + I+ P R+V NR Sbjct: 564 AGFEVRDVHPTHYGRICPIETPE-----GQNIGLINSLAIYARINKYGFIESPYRKVVNR 618 Query: 258 MFQDDVSYL 266 + D + YL Sbjct: 619 VVTDQIEYL 627 >gnl|CDD|117912 pfam09370, TIM-br_sig_trns, TIM-barrel signal transduction protein. This domain is likely to have a TIM barrel fold related to IGPS. Although this family of proteins are functionally uncharacterized this domain is found as an N-terminal domain of sigma 54 -dependent transcriptional activators (enhancer-binding proteins) suggesting a potential role in signal recognition/receiving and signal transduction. Length = 268 Score = 28.8 bits (65), Expect = 3.1 Identities = 28/94 (29%), Positives = 37/94 (39%), Gaps = 22/94 (23%) Query: 292 MGFIDVSSSPTWIVGLVDS----------LGHGRSFYMVLYSVFIVFFAFFYTAIVFNPK 341 MGF V + PT VGL+D +G+ M+ + T VFN + Sbjct: 107 MGFAGVQNFPT--VGLIDGEFRQNLEETGMGYDLEVEMIRLAHEK---GLLTTPYVFNVE 161 Query: 342 EA-------ADNLKKHGGFIPGIRPGDRTALHID 368 EA AD + H G G G TAL +D Sbjct: 162 EARAMAEAGADIIVAHMGLTTGGTIGADTALSLD 195 >gnl|CDD|163334 TIGR03573, WbuX, N-acetyl sugar amidotransferase. This enzyme has been implicated in the formation of the acetamido moiety (sugar-NC(=NH)CH3) which is found on some exopolysaccharides and is positively charged at neutral pH. The reaction involves ligation of ammonia with a sugar N-acetyl group, displacing water. In E. coli (O145 strain) and Pseudomonas aeruginosa (O12 strain) this gene is known as wbuX and ifnA respectively and likely acts on sialic acid. In Campylobacter jejuni, the gene is known as pseA and acts on pseudaminic acid in the process of flagellin glycosylation. In other Pseudomonas strains and various organisms it is unclear what the identity of the sugar substrate is, and in fact, the phylogenetic tree of this family sports a considerably deep branching suggestive of possible major differences in substrate structure. Nevertheless, the family is characterized by a conserved tetracysteine motif (CxxC.....[GN]xCxxC) possibly indicative of a metal binding site, as well as an invariable contextual association with homologs of the HisH and HisF proteins known as WbuY and WbuZ, respectively. These two proteins are believed to supply the enzyme with ammonium by hydrolysis of glutamine and delivery through an ammonium conduit. Length = 343 Score = 28.4 bits (64), Expect = 3.9 Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 1/37 (2%) Query: 339 NPKEAADNLKKHGGFIPGIRPGDRTAL-HIDYVLTRV 374 + K+ + +KK GG+ G PG HID + T Sbjct: 240 DKKKNYEFIKKRGGWREGPHPGTYENYKHIDSIFTIF 276 >gnl|CDD|179654 PRK03818, PRK03818, putative transporter; Validated. Length = 552 Score = 27.9 bits (63), Expect = 5.4 Identities = 11/27 (40%), Positives = 19/27 (70%), Gaps = 1/27 (3%) Query: 173 VWLGEQITMRGIGNGVSLIIFSGIVAG 199 +W+G I +RG+G G+ ++F GI+ G Sbjct: 19 LWIG-NIKIRGVGLGIGGVLFGGIIVG 44 >gnl|CDD|178615 PLN03063, PLN03063, alpha,alpha-trehalose-phosphate synthase (UDP-forming); Provisional. Length = 797 Score = 27.9 bits (62), Expect = 6.2 Identities = 30/121 (24%), Positives = 48/121 (39%), Gaps = 21/121 (17%) Query: 23 LKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSG----GAVER 78 +S ++ ++ + F TY +++ F S I G+ G G V R Sbjct: 193 SRSELLRAVLTADLIGFHTY---------DFARHFLSACTRILGVEGTHEGVVDQGKVTR 243 Query: 79 MAVFSLGIMP--YISASIIVQLIAATVPSLENLKKEGEQGRKVINQYTRYATVLLGILQA 136 +AVF +GI P +I+ + ++ K GRKVI R + GI Q Sbjct: 244 VAVFPIGIDPERFINTCELPEVKQHM-----KELKRFFAGRKVILGVDRLDMI-KGIPQK 297 Query: 137 Y 137 Y Sbjct: 298 Y 298 >gnl|CDD|162042 TIGR00796, livcs, branched-chain amino acid uptake carrier. transmembrane helical spanners. Length = 378 Score = 27.3 bits (61), Expect = 7.8 Identities = 14/42 (33%), Positives = 25/42 (59%) Query: 196 IVAGLPSSLVSVLELGRVGSISTPLMLLIFSSTVAVIALVIF 237 IV L S +V+ L L ++ SIS P++++I+ + +I L Sbjct: 310 IVFTLFSFIVANLGLTQIISISIPVLMIIYPLAIVLILLSFL 351 >gnl|CDD|179519 PRK02983, lysS, lysyl-tRNA synthetase; Provisional. Length = 1094 Score = 27.2 bits (61), Expect = 8.1 Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 13/46 (28%) Query: 220 LMLLIFSSTVAVIALVIFF-------------ERAQRRLLIQYPKR 252 +L +F + + AL++ F E A R LL+ Y + Sbjct: 206 ALLGLFGAAALIAALIVLFRSQRADNALTGEDELAIRGLLLLYGED 251 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.326 0.142 0.403 Gapped Lambda K H 0.267 0.0731 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 7,338,094 Number of extensions: 506344 Number of successful extensions: 1656 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1612 Number of HSP's successfully gapped: 75 Length of query: 444 Length of database: 5,994,473 Length adjustment: 96 Effective length of query: 348 Effective length of database: 3,920,105 Effective search space: 1364196540 Effective search space used: 1364196540 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 59 (26.5 bits)