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)