RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780924|ref|YP_003065337.1| potassium-efflux system protein [Candidatus Liberibacter asiaticus str. psy62] (609 letters) >gnl|CDD|182633 PRK10669, PRK10669, putative cation:proton antiport protein; Provisional. Length = 558 Score = 569 bits (1469), Expect = e-163 Identities = 288/579 (49%), Positives = 395/579 (68%), Gaps = 38/579 (6%) Query: 1 MTTIIWGFVLAFIFGAIANRCRLPTLIGYLVAGILVGPRTPGFVASQSLVPALAEIGIIL 60 +TTI+ G VLAFI G +ANR R+ L+GYL+AG+L GP TPGFVA L P LAE+G+IL Sbjct: 8 ITTIVGGLVLAFILGMLANRLRISPLVGYLLAGVLAGPFTPGFVADTKLAPELAELGVIL 67 Query: 61 LMFGVGLHFSVKDLISVRGIALPGALIQIILGTALGALMGMVMGWSLGGSVVFGLALSIA 120 LMFGVGLHFS+KDL++V+ IA+PGA+ QI + T LG + V+GWSL +VFGL LS A Sbjct: 68 LMFGVGLHFSLKDLMAVKSIAIPGAIAQIAVATLLGMALSAVLGWSLMTGIVFGLCLSTA 127 Query: 121 STVVLLKALQENRILETDRGKIAVGWLIVEDLIIVLALVLIPAAATNYSAEPSSMTHPWT 180 STVVLL+AL+E +++++ RG+IA+GWLIVEDL++VL LVL+PA A Sbjct: 128 STVVLLRALEERQLIDSQRGQIAIGWLIVEDLVMVLTLVLLPAVAGMMEQGDVGFA---- 183 Query: 181 SFITQQMGFEVGMPGLIMITLLKVVAFIGVMLIFGRRVIPWILHMIFYTGSRELFRLGVL 240 + ++G IT+ KV+AFI +M++ GRR++PWIL TGSRELF L VL Sbjct: 184 -----TLAVDLG------ITIGKVIAFIAIMMLVGRRLVPWILARSAATGSRELFTLSVL 232 Query: 241 AIALGFAYGSSKLFGVSLSLGAFFAGMILAESELSQSAAQESLPLRDAFSVLFFISVGMM 300 A+ALG A+G+ +LF VS +LGAFFAGM+L ESELS AA ++LPLRDAF+VLFF+SVGM+ Sbjct: 233 ALALGIAFGAVELFDVSFALGAFFAGMVLNESELSHRAAHDTLPLRDAFAVLFFVSVGML 292 Query: 301 FNPDILISNPILLMMAVIIVIIGKALIAFIVVIAFGRSVATALTIAASLSQIGEFSFILA 360 F+P ILI P+ ++ + I++ GK+L AF +V FG S TALTIAASL+QIGEF+FILA Sbjct: 293 FDPMILIQQPLAVLATLAIIVFGKSLAAFFLVRLFGHSRRTALTIAASLAQIGEFAFILA 352 Query: 361 NLGVELGILPDQARDLILASSIISIILNPLVFVLAEFLQSFLVLRFARVTSSTEQYSHIC 420 LG+ L +LP ++L+LA +I+SI+LNP++F L E R + TE Sbjct: 353 GLGMALNLLPQAGQNLVLAGAILSIMLNPVLFTLLE-----------RYLAKTETLEEQT 401 Query: 421 VEQDTKQEVPVESILEQQEVTIQKTDLCDHVILVGYGRIGKVIVQNLKAAGIALLVIEDS 480 +E E+I E++++ + D+C+H +LVGYGR+G ++ + L AAGI L+VIE S Sbjct: 402 LE---------EAIEEEKQIPV---DICNHALLVGYGRVGSLLGEKLLAAGIPLVVIETS 449 Query: 481 EKKIEELRSLGIDVIYGNATITKILLMANIEKARSLVVSISTAFEAAYITQEARNSNPSI 540 +++ELR GI + GNA +I+ +A+++ AR L+++I +EA I AR P I Sbjct: 450 RTRVDELRERGIRAVLGNAANEEIMQLAHLDCARWLLLTIPNGYEAGEIVASAREKRPDI 509 Query: 541 LIIALADSDSEVEHLTRYGADTVVMSAREIALGMLDRLN 579 IIA A D EV ++T GA+ VVM REIA ML+ L Sbjct: 510 EIIARAHYDDEVAYITERGANQVVMGEREIARTMLELLE 548 >gnl|CDD|162117 TIGR00932, 2a37, transporter, monovalent cation:proton antiporter-2 (CPA2) family. Length = 273 Score = 191 bits (487), Expect = 6e-49 Identities = 96/296 (32%), Positives = 164/296 (55%), Gaps = 24/296 (8%) Query: 8 FVLAFIFGAIANRCRLPTLIGYLVAGILVGPRTPGFVASQSLVPALAEIGIILLMFGVGL 67 + A + ++ R +P+++GYL+AG+L+GP G +++ V LAE G+ILLMF +GL Sbjct: 1 LLAAVLAVPLSRRLGIPSVLGYLLAGVLIGPSGLGLISNVEGVNHLAEFGVILLMFLIGL 60 Query: 68 HFSVKDLISVRGIALPGALIQIIL-GTALGALMGMVMGWSLGGSVVFGLALSIASTVVLL 126 ++ L +R A ++Q+++ G LG L+G ++G +LG +VV G+ L+++ST V++ Sbjct: 61 ELDLERLWKLRKAAFGVGVLQVLVPGVLLGLLLGHLLGLALGAAVVIGIILALSSTAVVV 120 Query: 127 KALQENRILETDRGKIAVGWLIVEDLIIVLALVLIPAAATNYSAEPSSMTHPWTSFITQQ 186 + L+E +L+T G+ +G L+ +D+ +V L L+P AT+ S E Sbjct: 121 QVLKERGLLKTPFGQTVLGILLFQDIAVVPLLALLPLLATSASTE--------------- 165 Query: 187 MGFEVGMPGLIMITLLKVVAFIGVMLIFGRRVIPWILHMIFYTGSRELFRLGVLAIALGF 246 + + LLKV ++++ GR ++ +L + ELF G L + G Sbjct: 166 -------HVALALLLLKVFLAFLLLVLLGRWLLRPVLRLTAELRPSELFTAGSLLLMFGS 218 Query: 247 AYGSSKLFGVSLSLGAFFAGMILAESELSQSAAQESLPLRDAFSVLFFISVGMMFN 302 AY + L G+S++LGAF AG++L+ESE + P+ LFFISVGM + Sbjct: 219 AY-FADLLGLSMALGAFLAGVVLSESEYRHKLESDLEPIGGVLLPLFFISVGMSVD 273 >gnl|CDD|179625 PRK03659, PRK03659, glutathione-regulated potassium-efflux system protein KefB; Provisional. Length = 601 Score = 188 bits (479), Expect = 4e-48 Identities = 156/573 (27%), Positives = 270/573 (47%), Gaps = 62/573 (10%) Query: 9 VLAFIFGA-----IANRCRLPTLIGYLVAGILVGPRTPGFVASQSLVPALAEIGIILLMF 63 + F+F A +A R + ++GYL+AGI +GP GF++ + +E+G++ LMF Sbjct: 10 GVLFLFAAVVAVPLAQRLGIGAVLGYLLAGIAIGPWGLGFISDVDEILHFSELGVVFLMF 69 Query: 64 GVGLHFSVKDLISVRGIALPGALIQIILGTALGALMGMVMGWSLGGSVVFGLALSIASTV 123 +GL + L +R Q++L A+ A + M+ +S +VV G+ L+++ST Sbjct: 70 IIGLELNPSKLWQLRRSIFGVGAAQVLLSAAVLAGLLMLTDFSWQAAVVGGIGLAMSSTA 129 Query: 124 VLLKALQENRILETDRGKIAVGWLIVEDLIIVLALVLIPAAATNYSAEPSSMTHPWTSFI 183 + L+ ++E + ++ G++ L+ +DL ++ AL L+P A + W Sbjct: 130 MALQLMREKGMNRSESGQLGFSVLLFQDLAVIPALALVPLLAGSADEHFD-----W---- 180 Query: 184 TQQMGFEVGMPGLIMITLLKVVAFIGVMLIFGRRVIPWILHMIFYTGSRELFRLGVLAIA 243 M +KV+AF G MLI GR ++ + I +G RE+F L + Sbjct: 181 --------------MKIGMKVLAFAG-MLIGGRYLLRPLFRFIAASGVREVFTAAALLLV 225 Query: 244 LGFAYGSSKLFGVSLSLGAFFAGMILAESELSQSAAQESLPLRDAFSVLFFISVGMMFNP 303 LG A L G+S++LG F AG++LAESE P + LFFISVGM N Sbjct: 226 LGSALFMDAL-GLSMALGTFIAGVLLAESEYRHELEIAIEPFKGLLLGLFFISVGMALNL 284 Query: 304 DILISNPILLMMAVIIVIIGKALIAFIVVIAFGRSVATALTIAASLSQIGEFSFILANLG 363 +L ++ + ++++V++++ K L+ +++ +G + + A LSQ GEF+F+L + Sbjct: 285 GVLYTHLLWVLISVVVLVAVKGLVLYLLARLYGLRSSERMQFAGVLSQGGEFAFVLFSAA 344 Query: 364 VELGILPDQARDLILASSIISIILNPLVFVLAEFLQSFLVLRFARVTSSTEQYSHICVEQ 423 +L L+L +S++ PL+ L + +L R E+ VE Sbjct: 345 SSQRLLQGDQMALLLVVVTLSMMTTPLLMKL---IDKWLARRLNGPEEEDEKPW---VED 398 Query: 424 DTKQEVPVESILEQQEVTIQKTDLCDHVILVGYGRIGKVIVQNLKAAGIALLVIEDSEKK 483 D Q VI+VG+GR G+VI + L A + + V+E Sbjct: 399 DKPQ-----------------------VIIVGFGRFGQVIGRLLMANKMRITVLERDISA 435 Query: 484 IEELRSLGIDVIYGNATITKILLMANIEKARSLVVSISTAFEAAYITQEARNSNPSILII 543 + +R G V YG+AT ++L A EKA ++V++ + + I + + P + I+ Sbjct: 436 VNLMRKYGYKVYYGDATQLELLRAAGAEKAEAIVITCNEPEDTMKIVELCQQHFPHLHIL 495 Query: 544 ALADSDSEVEHLTRYGADTVVMSAREIALGMLD 576 A A E L + G +RE L+ Sbjct: 496 ARARGRVEAHELLQAGVTQF---SRETFSSALE 525 >gnl|CDD|179594 PRK03562, PRK03562, glutathione-regulated potassium-efflux system protein KefC; Provisional. Length = 621 Score = 173 bits (440), Expect = 1e-43 Identities = 142/567 (25%), Positives = 253/567 (44%), Gaps = 72/567 (12%) Query: 17 IANRCRLPTLIGYLVAGILVGPRTPGFVASQSLVPALAEIGIILLMFGVGLHFSVKDLIS 76 IA R L +++GYL+AG ++GP V + AE G++L++F +GL + L Sbjct: 23 IAVRLGLGSVLGYLIAGCIIGPWGLRLVTDVESILHFAEFGVVLMLFVIGLELDPQRLWK 82 Query: 77 VRGIALPGALIQIILGTALGALMGMVMGWSLGGSVVFGLALSIASTVVLLKALQENRILE 136 +R G +Q++ L L M++G +++ GL L+++ST + ++A+ E ++ Sbjct: 83 LRRSIFGGGALQMVACGGLLGLFCMLLGLRWQVALLIGLGLALSSTAIAMQAMNERNLMV 142 Query: 137 TDRGKIAVGWLIVEDLIIVLALVLIPAAATNYSAEPSSMTHPWTSFITQQMGFEVGMPGL 196 T G+ A L+ +D+ + + +IP A S +++ Sbjct: 143 TQMGRSAFAILLFQDIAAIPLVAMIPLLAA--SGASTTLGAFA----------------- 183 Query: 197 IMITLLKVVAFIGVMLIFGRRVIPWILHMIFYTGSRELFRLGVLAIALGFAYGSSKLF-- 254 ++ LKV + ++++ GR V L + +G RE+F A+AL +G L Sbjct: 184 --LSALKVAGALALVVLGGRYVTRPALRFVARSGLREVFT----AVALFLVFGFGLLMEE 237 Query: 255 -GVSLSLGAFFAGMILAESELSQSAAQESLPLRDAFSVLFFISVGMMFNPDILISNP--I 311 G+S++LGAF AG++LA SE + + P + LFFI+VGM + L+ NP I Sbjct: 238 VGLSMALGAFLAGVLLASSEYRHALESDIEPFKGLLLGLFFIAVGMSIDFGTLLENPLRI 297 Query: 312 LLMMAVIIVIIGKALIAFIVVIAFGRSVATALTIAASLSQIGEFSFILANLGVELGILPD 371 L+++ + I K + +++ G A L Q GEF+F++ +L Sbjct: 298 LILLLGFLAI--KIAMLWLLARPLGVPRKQRRWFAVLLGQGGEFAFVVFGAAQMANVLEP 355 Query: 372 QARDLILASSIISIILNPLVFVLAEFLQSFLVLRFARVTSSTEQYSHICVEQDTKQEVPV 431 + L+ + +S+ PL+ VL + L R + Sbjct: 356 EWAKLLTLAVALSMAATPLLLVLLDRL---EQSRTE-------------------EAREA 393 Query: 432 ESILEQQEVTIQKTDLCDHVILVGYGRIGKVIVQNLKAAGIALLVIEDSEKKIEELRSLG 491 + I EQQ VI+ G+GR G+++ + L ++G+ + V++ IE LR G Sbjct: 394 DEIDEQQ----------PRVIIAGFGRFGQIVGRLLLSSGVKMTVLDHDPDHIETLRKFG 443 Query: 492 IDVIYGNATITKILLMANIEKARSLVVSISTAFEAAYITQEARNSNPSILIIALADS--- 548 + V YG+AT +L A KA L+ +I + + + + P + IIA A Sbjct: 444 MKVFYGDATRMDLLESAGAAKAEVLINAIDDPQTSLQLVELVKEHFPHLQIIARARDVDH 503 Query: 549 -----DSEVEHLTRYGADTVVMSAREI 570 + VE R + + S R + Sbjct: 504 YIRLRQAGVEKPERETFEGALKSGRLV 530 >gnl|CDD|178704 PLN03159, PLN03159, cation/H(+) antiporter 15; Provisional. Length = 832 Score = 52.6 bits (126), Expect = 3e-07 Identities = 86/395 (21%), Positives = 164/395 (41%), Gaps = 53/395 (13%) Query: 22 RLPTLIGYLVAGILVGPRTPGFVA----------SQSLVPALAEIGIILLMFGVGLHFSV 71 R P +I ++ G+++GP G S ++ +A +G++ +F VG+ + Sbjct: 66 RQPRVISEILGGVILGPSVLGQSEVFANTIFPLRSVMVLETMANLGLLYFLFLVGVEMDI 125 Query: 72 KDLISVRG-----IALPGALIQIILGTALGALMGMVMGWSLGGSVVF--GLALSIASTVV 124 +I G IA+ G + +G A + V G+ + G+ALS+ + V Sbjct: 126 -SVIRRTGKKALAIAIAGMALPFCIGLAFSFIFHQVSRNVHQGTFILFLGVALSVTAFPV 184 Query: 125 LLKALQENRILETDRGKIAVGWLIVEDLIIVLALVLIPAAATNYSAEPSSMTHPWTSFIT 184 L + L E +++ T+ G+IA+ +V D+ + L L A A N S +S+ W Sbjct: 185 LARILAEIKLINTELGRIAMSAALVNDMCAWILLALAIALAENDSTSLASL---W----- 236 Query: 185 QQMGFEVGMPGLIMITLLKVVAFIGVMLIFGRRVIPWILHMIFYTGSRELFRLGVLAIAL 244 LL VAF+ R I WI+ + F + ++ + Sbjct: 237 ---------------VLLSSVAFVLFCFYVVRPGIWWIIRRTPEGETFSEFYICLILTGV 281 Query: 245 GFAYGSSKLFGVSLSLGAFFAGMILAESELSQSAAQESLPLRDAFS----VLFFISVGMM 300 + + G GAF G+++ L + ++ L D S LFF G+ Sbjct: 282 MISGFITDAIGTHSVFGAFVFGLVIPNGPLGVTLIEK---LEDFVSGLLLPLFFAISGLK 338 Query: 301 FNPDILISNPI---LLMMAVIIVIIGKALIAFIVVIAFGRSVATALTIAASLSQIGEFSF 357 N I P LL++ +I+ GK + I+ + +T+ ++ G Sbjct: 339 TNVT-KIQGPATWGLLVLVIIMASAGKIMGTIIIAFFYTMPFREGITLGFLMNTKGLVEM 397 Query: 358 ILANLGVELGILPDQA-RDLILASSIISIILNPLV 391 I+ N+G + +L D++ ++L + ++ ++ P+V Sbjct: 398 IVLNVGRDQEVLDDESFAVMVLVAVAMTALITPVV 432 >gnl|CDD|181909 PRK09496, trkA, potassium transporter peripheral membrane component; Reviewed. Length = 453 Score = 35.1 bits (82), Expect = 0.050 Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 1/65 (1%) Query: 450 HVILVGYGRIGKVIVQNLKAAGIALLVIEDSEKKIEELRS-LGIDVIYGNATITKILLMA 508 +I+VG G++G + +NL + VI+ E+++ L+ L + + GN + +L A Sbjct: 2 KIIIVGAGQVGYTLAENLSGENNDVTVIDTDEERLRRLQDRLDVRTVVGNGSSPDVLREA 61 Query: 509 NIEKA 513 E A Sbjct: 62 GAEDA 66 Score = 33.9 bits (79), Expect = 0.12 Identities = 19/65 (29%), Positives = 36/65 (55%), Gaps = 2/65 (3%) Query: 451 VILVGYGRIGKVIVQNLKAAGIALLVIEDSEKKIEELRSL--GIDVIYGNATITKILLMA 508 V++VG G IG + + L+ G ++ +IE ++ EEL V++G+ T ++L Sbjct: 234 VMIVGGGNIGYYLAKLLEKEGYSVKLIERDPERAEELAEELPNTLVLHGDGTDQELLEEE 293 Query: 509 NIEKA 513 I++A Sbjct: 294 GIDEA 298 >gnl|CDD|132245 TIGR03201, dearomat_had, 6-hydroxycyclohex-1-ene-1-carbonyl-CoA dehydrogenase. Members of this protein family are 6-hydroxycyclohex-1-ene-1-carbonyl-CoA dehydrogenase, an enzyme in the anaerobic metabolism of aromatic enzymes by way of benzoyl-CoA, as seen in Thauera aromatica, Geobacter metallireducens, and Azoarcus sp. The experimentally characterized form from T. aromatica uses only NAD+, not NADP+. Note that Rhodopseudomonas palustris uses a different pathway to perform a similar degradation of benzoyl-CoA to 3-hydroxpimelyl-CoA. Length = 349 Score = 33.7 bits (77), Expect = 0.15 Identities = 25/89 (28%), Positives = 47/89 (52%), Gaps = 7/89 (7%) Query: 407 ARVTSSTEQYSHICVEQDTKQEVPVESILEQQEVTIQKTDLCDHVILVGYGRIGKVIVQN 466 AR+ ++ H+ V D P ++ ++ ++K DL VI++G G +G +VQ Sbjct: 133 ARLAAAGLPLEHVSVVADAVT-TPYQAAVQ---AGLKKGDL---VIVIGAGGVGGYMVQT 185 Query: 467 LKAAGIALLVIEDSEKKIEELRSLGIDVI 495 KA G A++ I+ +K+E ++ G D+ Sbjct: 186 AKAMGAAVVAIDIDPEKLEMMKGFGADLT 214 >gnl|CDD|163514 TIGR03802, Asp_Ala_antiprt, aspartate-alanine antiporter. All members of the seed alignment for this model are asparate-alanine anti-transporters (AspT) encoded next to the gene for aspartate 4-decarboxylase (AspD), which converts asparate to alanine, releasing CO2. The exchange of Asp for Ala is electrogenic, so the AspD/AspT system confers a proton-motive force. This transporter contains two copies of the AspT/YidE/YbjL antiporter duplication domain (TIGR01625). Length = 562 Score = 33.0 bits (76), Expect = 0.24 Identities = 29/116 (25%), Positives = 51/116 (43%), Gaps = 7/116 (6%) Query: 240 LAIALGFAYGSSKLFGVSLSLGAFFAGMILAESELSQSAAQESLPLRDAFSVLFFISVGM 299 L++ALG+ G K FG S LG AG ++ + Q Q ++ F LF ++G Sbjct: 17 LSLALGYLIGKIK-FG-SFQLGGV-AGSLIVAVLIGQLGIQIDPGVKAVFFALFIFAIGY 73 Query: 300 MFNPDILIS---NPILLMMAVIIVIIGKALIAFIVVIAFGRSVATALTIAA-SLSQ 351 P S + + ++ ++ + + + + FG TA +AA L+Q Sbjct: 74 EVGPQFFASLKKDGLREIILALVFAVSGLITVYALAKIFGLDKGTAAGLAAGGLTQ 129 >gnl|CDD|182530 PRK10537, PRK10537, voltage-gated potassium channel; Provisional. Length = 393 Score = 31.9 bits (73), Expect = 0.44 Identities = 23/115 (20%), Positives = 50/115 (43%), Gaps = 2/115 (1%) Query: 449 DHVILVGYGRIGKVIVQNLKAAGIALLVIEDSEKKIEELRSLGIDVIYGNATITKILLMA 508 DH I+ G+ + L+ G A+ VI +E D+I G+++ + +L A Sbjct: 241 DHFIICGHSPLAINTYLGLRQRGQAVTVI--VPLGLEHRLPDDADLIPGDSSDSAVLKKA 298 Query: 509 NIEKARSLVVSISTAFEAAYITQEARNSNPSILIIALADSDSEVEHLTRYGADTV 563 +AR+++ + A++ A+ + + +A + +E + R D + Sbjct: 299 GAARARAILALRDNDADNAFVVLAAKEMSSDVKTVAAVNDSKNLEKIKRVHPDMI 353 >gnl|CDD|162126 TIGR00946, 2a69, he Auxin Efflux Carrier (AEC) Family. Length = 321 Score = 30.8 bits (70), Expect = 1.1 Identities = 20/113 (17%), Positives = 46/113 (40%), Gaps = 6/113 (5%) Query: 284 PLRDAFSVLFFISVGMMFNPDILISNPILLMMAVIIVIIGKALIAFIVVIAFG--RSVAT 341 L A + + S+G+ +P + ++A+I+ + + + + G + Sbjct: 211 ILSGATTPMALFSLGLALSPRKIKLGVRDAILALIVRFLVQPAVMAGISKLIGLRGLELS 270 Query: 342 ALTIAASLSQIGEFSFILANLGVELGILPDQARDLILASSIISIILNPLVFVL 394 + A+L + A L E + + A + S+++S+I PL +L Sbjct: 271 VAILQAALPG----GAVAAVLATEYEVDVELASTAVTLSTVLSLISLPLFIIL 319 >gnl|CDD|178684 PLN03139, PLN03139, formate dehydrogenase; Provisional. Length = 386 Score = 29.8 bits (67), Expect = 1.8 Identities = 32/128 (25%), Positives = 52/128 (40%), Gaps = 36/128 (28%) Query: 454 VGYGRIGKVIVQNLKAAGIALLVIE------DSEKKI-----EELRSL--GIDVIYGNAT 500 VG GRIG++++Q LK LL + + EK+ E+L ++ DV+ N Sbjct: 205 VGAGRIGRLLLQRLKPFNCNLLYHDRLKMDPELEKETGAKFEEDLDAMLPKCDVVVINTP 264 Query: 501 ITKILLMANIEKARSLVVS--ISTAFEAAYITQEARNSNPSILIIALADSDSEVE----- 553 +T EK R + I+ + I AR A+ D+ + + Sbjct: 265 LT--------EKTRGMFNKERIAKMKKGVLIVNNARG--------AIMDTQAVADACSSG 308 Query: 554 HLTRYGAD 561 H+ YG D Sbjct: 309 HIGGYGGD 316 >gnl|CDD|184511 PRK14106, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 450 Score = 29.9 bits (68), Expect = 2.1 Identities = 17/53 (32%), Positives = 31/53 (58%), Gaps = 7/53 (13%) Query: 451 VILVGYGRIGKVIVQNLKAAGIALLVIEDSEKK------IEELRSLGIDVIYG 497 V++VG G G + + LK G A +++ D +++ +EEL LGI+++ G Sbjct: 8 VLVVGAGVSGLALAKFLKKLG-AKVILTDEKEEDQLKEALEELGELGIELVLG 59 >gnl|CDD|179519 PRK02983, lysS, lysyl-tRNA synthetase; Provisional. Length = 1094 Score = 29.5 bits (67), Expect = 2.3 Identities = 27/121 (22%), Positives = 43/121 (35%), Gaps = 26/121 (21%) Query: 2 TTIIWGFVLAFIFGAIANRCRLP--TLIGYLVAGILVGPRTPGFVASQSLVPALAEIGII 59 T++ W FVLA + A+ R R L+ YLV L+ + + Sbjct: 55 TSLAWAFVLALLAAALRRRKRAAWWVLLAYLVLAALLN-----------VALLALGVNTA 103 Query: 60 LLMFGVGLHFSVKDLISVRGIAL-------------PGALIQIILGTALGALMGMVMGWS 106 FG + + V I L GAL + + G +G+++GW Sbjct: 104 AETFGENSLSIIGFAVHVVAIVLLVLARREFPARVRRGALRKALAVLVGGLAVGILVGWG 163 Query: 107 L 107 L Sbjct: 164 L 164 >gnl|CDD|163128 TIGR03082, Gneg_AbrB_dup, membrane protein AbrB duplication. The model describes a hydrophobic sequence region that is duplicated to form the AbrB protein of Escherichia coli (not to be confused with a Bacillus subtilis protein with the same gene symbol). In some species, notably the Cyanobacteria and Thermus thermophilus, proteins consist of a single copy rather than two copies. The member from Pseudomonas putida, PP_1415, was suggested to be an ammonia monooxygenase characteristic of heterotrophic nitrifiers, based on an experimental indication of such activity in the organism and a glimmer of local sequence similarity between parts of P. putida protein and an instance of the AmoA protein from Nitrosomonas europaea (PubMed:9732537); we do not believe the sequence similarity to be meaningful. The member from E. coli (b0715, ybgN) appears to be the largely uncharacterized AbrB (aidB regulator) protein of E. coli cited in Volkert, et al. (PubMed 8002588), although we did not manage to trace the origin of association of the article to the sequence. Length = 156 Score = 29.4 bits (67), Expect = 2.9 Identities = 23/103 (22%), Positives = 47/103 (45%), Gaps = 6/103 (5%) Query: 8 FVLAFIFGAIANRCRLPT--LIGYLVAGILVGPRTPGFVASQSLVPALAEIGIILLMFGV 65 ++ G +A+ LP L+G L+AG ++ +L P L + +++ + Sbjct: 4 LLVGLAGGLLASLLGLPAAWLLGPLLAGAVLSL---AGGLEITLPPWLLALAQVVIGILI 60 Query: 66 GLHFSVKDLISVRGIALPGALIQIILGTALGALMGMVMGWSLG 108 G F+ + L ++ + AL+ +L AL AL+ ++ G Sbjct: 61 GSRFTREVLAELKRLWPA-ALLSTVLLLALSALLAWLLARLTG 102 >gnl|CDD|182850 PRK10935, PRK10935, nitrate/nitrite sensor protein NarQ; Provisional. Length = 565 Score = 29.4 bits (67), Expect = 3.0 Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 8/65 (12%) Query: 313 LMMAVIIVIIGKALIAFIV--VIAFGR-SVAT---ALTIAASLSQIGEFSFIL--ANLGV 364 L++ I ++G LI +V + F R V L A+ + G+F I L Sbjct: 147 LILLAAISLLGLILILTLVFFTVRFTRRQVVAPLNQLVTASQQIEKGQFDHIPLDTTLPN 206 Query: 365 ELGIL 369 ELG+L Sbjct: 207 ELGLL 211 >gnl|CDD|106361 PRK13403, PRK13403, ketol-acid reductoisomerase; Provisional. Length = 335 Score = 29.3 bits (65), Expect = 3.3 Identities = 14/45 (31%), Positives = 25/45 (55%) Query: 451 VILVGYGRIGKVIVQNLKAAGIALLVIEDSEKKIEELRSLGIDVI 495 V ++GYG G QNL+ +G+ ++V K E ++ G +V+ Sbjct: 19 VAVIGYGSQGHAQAQNLRDSGVEVVVGVRPGKSFEVAKADGFEVM 63 >gnl|CDD|130475 TIGR01408, Ube1, ubiquitin-activating enzyme E1. This model represents the full length, over a thousand amino acids, of a multicopy family of eukaryotic proteins, many of which are designated ubiquitin-activating enzyme E1. Members have two copies of the ThiF family domain (pfam00899), a repeat found in ubiquitin-activating proteins (pfam02134), and other regions. Length = 1008 Score = 29.1 bits (65), Expect = 3.4 Identities = 14/41 (34%), Positives = 25/41 (60%), Gaps = 1/41 (2%) Query: 450 HVILVGYGRIGKVIVQNLKAAGIALLVIEDSEK-KIEELRS 489 +V++ G G +G I +NL AG+ + + D+EK + +L S Sbjct: 26 NVLISGMGGLGLEIAKNLVLAGVKSVTLHDTEKCQAWDLSS 66 >gnl|CDD|132368 TIGR03325, BphB_TodD, cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase. Members of this family occur as the BphD protein of biphenyl catabolism and as the TodD protein of toluene catabolism. Members catalyze the second step in each pathway and proved interchangeable when tested; the first and fourth enzymes in each pathway confer metabolic specificity. In the context of biphenyl degradation, the enzyme acts as cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase (EC 1.3.1.56), while in toluene degradation it acts as cis-toluene dihydrodiol dehydrogenase. Length = 262 Score = 28.6 bits (64), Expect = 4.3 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 2/53 (3%) Query: 447 LCDHVILV--GYGRIGKVIVQNLKAAGIALLVIEDSEKKIEELRSLGIDVIYG 497 L V+LV G +G+ IV A G + V++ S ++EL + D + G Sbjct: 3 LKGEVVLVTGGASGLGRAIVDRFVAEGARVAVLDKSAAGLQELEAAHGDAVVG 55 >gnl|CDD|181371 PRK08306, PRK08306, dipicolinate synthase subunit A; Reviewed. Length = 296 Score = 28.7 bits (65), Expect = 4.5 Identities = 12/33 (36%), Positives = 20/33 (60%), Gaps = 3/33 (9%) Query: 442 IQKTDLCDH---VILVGYGRIGKVIVQNLKAAG 471 I+ T + H V+++G+GR G + + LKA G Sbjct: 143 IEHTPITIHGSNVLVLGFGRTGMTLARTLKALG 175 >gnl|CDD|177659 PLN00021, PLN00021, chlorophyllase. Length = 313 Score = 28.9 bits (65), Expect = 4.6 Identities = 11/26 (42%), Positives = 14/26 (53%) Query: 102 VMGWSLGGSVVFGLALSIASTVVLLK 127 + G S GG F LAL A+ + LK Sbjct: 130 LAGHSRGGKTAFALALGKAAVSLPLK 155 >gnl|CDD|130686 TIGR01625, YidE_YbjL_dupl, AspT/YidE/YbjL antiporter duplication domain. This model represents a domain that is duplicated the aspartate-alanine antiporter AspT, as well as HI0035 of Haemophilus influenzae, YidE and YbjL of E. coli, and a number of other known or putative transporters. Member proteins may have 0, 1, or 2 copies of TrkA potassium uptake domain pfam02080 between the duplications. The domain contains several apparent transmembrane regions and is proposed here to act in transport. Length = 154 Score = 28.5 bits (64), Expect = 4.7 Identities = 21/97 (21%), Positives = 36/97 (37%), Gaps = 9/97 (9%) Query: 22 RLPTLIGYLVAGILVG---PRTPGFV-ASQSLVPALAEIGIILLMFGVGLH-----FSVK 72 +L G L G+L+G P S + E G++L ++GVGL FS Sbjct: 20 KLGNAGGVLFVGLLLGHFGATGPLTWYIPFSANLFIREFGLMLFLYGVGLSAGPGFFSSL 79 Query: 73 DLISVRGIALPGALIQIILGTALGALMGMVMGWSLGG 109 GALI ++ + + ++ + Sbjct: 80 KDGGGLLRINGGALITVVPTLLVAVALIKLLRINYAL 116 >gnl|CDD|114690 pfam05982, DUF897, Domain of unknown function (DUF897). Family of bacterial proteins with unknown function. Length = 327 Score = 28.5 bits (64), Expect = 4.9 Identities = 24/98 (24%), Positives = 41/98 (41%), Gaps = 4/98 (4%) Query: 26 LIGYLVAGILVGPRTPGFVASQSLVPALAEIGIILLMFGVGLHFS--VKDLISVRGIALP 83 L+G LV G++ G G L + + L + +GL +K+L V + Sbjct: 183 LLGGLVIGLITGEE--GVYVLSPFFDPLFQGVLCLFLLEMGLTAGRRLKELRKVGQGLVV 240 Query: 84 GALIQIILGTALGALMGMVMGWSLGGSVVFGLALSIAS 121 ++ IL +G +G G GG V+ + + AS Sbjct: 241 FGIVAPILLGFIGIGVGYATGLPPGGVVLLAVLAASAS 278 >gnl|CDD|161976 TIGR00644, recJ, single-stranded-DNA-specific exonuclease RecJ. All proteins in this family are 5'-3' single-strand DNA exonucleases. These proteins are used in some aspects of mismatch repair, recombination, and recombinational repair. Length = 539 Score = 28.4 bits (64), Expect = 5.5 Identities = 13/45 (28%), Positives = 25/45 (55%), Gaps = 5/45 (11%) Query: 455 GYGRIGKVIVQNLKAAGIALLVIED----SEKKIEELRSLGIDVI 495 GYG + ++ G++L++ D + ++I+ + LGIDVI Sbjct: 96 GYG-LSPEALREAIENGVSLIITVDNGISAHEEIDYAKELGIDVI 139 >gnl|CDD|180146 PRK05582, PRK05582, DNA topoisomerase I; Validated. Length = 650 Score = 28.2 bits (64), Expect = 5.5 Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 8/41 (19%) Query: 453 LVGYGRIGKVI---VQNLKAAG----IALLVIEDSEKKIEE 486 LVGY ++ ++ V+ +AG +AL +I D EK+I Sbjct: 145 LVGY-KLSPLLWKKVKKGLSAGRVQSVALKLIIDREKEIRA 184 >gnl|CDD|163522 TIGR03810, arg_ornith_anti, arginine/ornithine antiporter. Members of this protein family are the arginine/ornithine antiporter, ArcD. This exchanger of ornithine for arginine occurs in a system with arginine deiminase, ornithine carbamoyltransferase, and carbamate kinase, with together turn arginine to ornithine with the generation of ATP and release of CO2. Length = 468 Score = 28.5 bits (64), Expect = 5.6 Identities = 16/66 (24%), Positives = 27/66 (40%), Gaps = 15/66 (22%) Query: 95 LGALMGMVMGWSLGGSVVFGLALSIASTVVLLKALQENRILETDRGKIAVGWLIVEDLII 154 LGAL +V+G +G + F L +A+ G + +GW+I ++ Sbjct: 5 LGALTALVVGSMIGSGI-FSLPSDMAAG--------------AAAGAVLIGWVITGVGML 49 Query: 155 VLALVL 160 LA Sbjct: 50 ALAFSF 55 >gnl|CDD|162820 TIGR02356, adenyl_thiF, thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily. Members of the HesA/MoeB/ThiF family of proteins (pfam00899) include a number of members encoded in the midst of thiamine biosynthetic operons. This mix of known and putative ThiF proteins shows a deep split in phylogenetic trees, with the Escherichia. coli ThiF and the E. coli MoeB proteins seemingly more closely related than E. coli ThiF and Campylobacter (for example) ThiF. This model represents the more widely distributed clade of ThiF proteins such found in E. coli. Length = 202 Score = 28.1 bits (63), Expect = 6.5 Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 2/59 (3%) Query: 443 QKTDLCDHVILVGYGRIGKVIVQNLKAAGIALLVIEDSEKKIEELRSLGIDVIYGNATI 501 Q+ L HV+++G G +G L AG+ +VI D + +L +L +++ + Sbjct: 16 QQRLLNSHVLIIGAGGLGSPAALYLAGAGVGTIVIVDDD--HVDLSNLQRQILFTEEDV 72 >gnl|CDD|183357 PRK11880, PRK11880, pyrroline-5-carboxylate reductase; Reviewed. Length = 267 Score = 27.8 bits (63), Expect = 7.5 Identities = 19/89 (21%), Positives = 35/89 (39%), Gaps = 19/89 (21%) Query: 451 VILVGYGRIGKVIVQNLKAAGIA---LLVIEDSEKKIEELRS-LGIDVIYGNATITK--- 503 + +G G + I+ L A+G+ ++V + S +K L G+ N + Sbjct: 5 IGFIGGGNMASAIIGGLLASGVPAKDIIVSDPSPEKRAALAEEYGVRAATDNQEAAQEAD 64 Query: 504 -ILL------MANI-----EKARSLVVSI 520 ++L M + + LVVSI Sbjct: 65 VVVLAVKPQVMEEVLSELKGQLDKLVVSI 93 >gnl|CDD|183400 PRK12282, PRK12282, tryptophanyl-tRNA synthetase II; Reviewed. Length = 333 Score = 27.9 bits (63), Expect = 7.7 Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 5/36 (13%) Query: 29 YLVAGILVGP-RTPGFVASQSLVPALAEIGIILLMF 63 YL GI P ++ F+ QS +P LAE+ + + Sbjct: 67 YLAVGI--DPAKSTIFI--QSQIPELAELTMYYMNL 98 >gnl|CDD|177441 PHA02624, PHA02624, large T antigen; Provisional. Length = 647 Score = 27.6 bits (62), Expect = 8.3 Identities = 11/35 (31%), Positives = 16/35 (45%) Query: 495 IYGNATITKILLMANIEKARSLVVSISTAFEAAYI 529 I+ N T+T L+ EKA L + F +I Sbjct: 165 IFSNKTLTCFLIYTTKEKAELLYKKLLEKFNPTFI 199 >gnl|CDD|180212 PRK05702, flhB, flagellar biosynthesis protein FlhB; Reviewed. Length = 359 Score = 27.8 bits (63), Expect = 8.6 Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 8/77 (10%) Query: 91 LGTALGALMGMVMGWSLGGSVVFGLALSIASTVVLLKALQENRILETDRGKIA--VGWLI 148 L TA L G+V+ W G S+ L+ +L +R + D + L+ Sbjct: 33 LNTAASLLAGLVVLWFFGPSLARRLS------GMLRALFSFDREIIFDPNDVLSLFLLLL 86 Query: 149 VEDLIIVLALVLIPAAA 165 +E L+ +L ++L+ A Sbjct: 87 LEALLALLPILLLLVLA 103 >gnl|CDD|162060 TIGR00836, amt, ammonium transporter. The mechanism of energy coupling, if any, to methyl-NH2 or NH3 uptake by the AmtB protein of E. coli is not entirely clear. NH4+ uniport driven by the pmf, energy independent NH3 facilitation, and NH4+/K+ antiport have been proposed as possible transport mechanisms. In Corynebacterium glutamicum and Arabidopsis thaliana, uptake via the Amt1 homologues of AmtB has been reported to be driven by the pmf. Length = 403 Score = 27.6 bits (62), Expect = 9.7 Identities = 23/92 (25%), Positives = 38/92 (41%), Gaps = 5/92 (5%) Query: 30 LVAGILVGPRTPGFVASQSLVP---ALAEIGIILLMFGVGLHFSVKDLISVRGIALPGAL 86 L A +++GPR F ++ P L +G +L FG F+ ++ G A A Sbjct: 172 LAAALVLGPRIGRFPRPVAIRPHNVPLVVLGTFILWFG-WFGFNAGSALAANGTA-AYAA 229 Query: 87 IQIILGTALGALMGMVMGWSLGGSVVFGLALS 118 + L A G L +++ W G A + Sbjct: 230 VNTNLAAAAGGLTWLLIDWLKHGKPTLLGACN 261 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 0.140 0.392 Gapped Lambda K H 0.267 0.0634 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 9,900,647 Number of extensions: 700167 Number of successful extensions: 3186 Number of sequences better than 10.0: 1 Number of HSP's gapped: 3106 Number of HSP's successfully gapped: 250 Length of query: 609 Length of database: 5,994,473 Length adjustment: 99 Effective length of query: 510 Effective length of database: 3,855,281 Effective search space: 1966193310 Effective search space used: 1966193310 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: 60 (27.1 bits)