RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780588|ref|YP_003065001.1| acetyl-CoA carboxylase carboxyltransferase subunit alpha [Candidatus Liberibacter asiaticus str. psy62] (317 letters) >gnl|CDD|180223 PRK05724, PRK05724, acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated. Length = 319 Score = 530 bits (1368), Expect = e-151 Identities = 176/317 (55%), Positives = 234/317 (73%), Gaps = 1/317 (0%) Query: 1 MRHYLDFEEPISDLEAKIHELKKLSREDINEDFSEEIRELEAMVCKTLSEIYSKLTPWQK 60 M +YLDFE+PI++LEAKI EL+ ++ + + D SEEI LE + + +IYS LTPWQK Sbjct: 2 MLNYLDFEKPIAELEAKIEELRAVAEDS-DVDLSEEIERLEKKLEELTKKIYSNLTPWQK 60 Query: 61 TQVSRHPNRPHYIDYINSLFTHFISLAGDRLFGDDPAMQIGLARFHGQPVAIIGQEKGSD 120 Q++RHP RP+ +DYI LFT F L GDR F DD A+ GLAR +G+PV +IG +KG D Sbjct: 61 VQLARHPQRPYTLDYIELLFTDFTELHGDRAFADDKAIVGGLARLNGRPVMVIGHQKGRD 120 Query: 121 TKSRIKHNFGSPRPEGYRKAVRLMEMADRFKIPVISFIDTAGAYPGVDAEARGQGEAIAR 180 TK +I+ NFG PRPEGYRKA+RLM+MA++F +P+I+FIDT GAYPG+ AE RGQ EAIAR Sbjct: 121 TKEKIRRNFGMPRPEGYRKALRLMKMAEKFGLPIITFIDTPGAYPGIGAEERGQSEAIAR 180 Query: 181 ATEMCLKLQVPILSIIIGEGGSGGAMGIAAANFVYMLEHAIYSVISPEGAASILWRDSSR 240 +L+VPI+ +IGEGGSGGA+ I + V MLE++ YSVISPEG ASILW+D+S+ Sbjct: 181 NLREMARLKVPIICTVIGEGGSGGALAIGVGDRVLMLEYSTYSVISPEGCASILWKDASK 240 Query: 241 AAQAAIAMKIIATDLQDLSIIDGIIPEPIGGAHRNPAQTISSVGEIISQFLSETSTYSET 300 A +AA AMKI A DL++L IID IIPEP+GGAHR+P +++ E + + L+E S Sbjct: 241 APEAAEAMKITAQDLKELGIIDEIIPEPLGGAHRDPEAAAAALKEALLEALAELKGLSPE 300 Query: 301 EIREHRRQKYLNIGRNL 317 E+ E R +K+++IGR L Sbjct: 301 ELLERRYEKFMSIGRFL 317 >gnl|CDD|161909 TIGR00513, accA, acetyl-CoA carboxylase, carboxyl transferase, alpha subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the alpha chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta. Length = 316 Score = 387 bits (996), Expect = e-108 Identities = 165/314 (52%), Positives = 225/314 (71%), Gaps = 1/314 (0%) Query: 1 MRHYLDFEEPISDLEAKIHELKKLSREDINEDFSEEIRELEAMVCKTLSEIYSKLTPWQK 60 M +YLDFE+PI++LEAKI L+ SR++ + D SEEI LE + +I+S L WQ+ Sbjct: 2 MANYLDFEKPIAELEAKIESLRARSRDE-DVDLSEEIERLEKRSVELTKKIFSNLGAWQR 60 Query: 61 TQVSRHPNRPHYIDYINSLFTHFISLAGDRLFGDDPAMQIGLARFHGQPVAIIGQEKGSD 120 Q++RHP+RP+ +DYI +F F LAGDR + DD A+ G+AR G+PV +IG +KG D Sbjct: 61 LQLARHPDRPYTLDYIELIFDDFFELAGDRAYADDKAIVGGIARLDGRPVVVIGHQKGRD 120 Query: 121 TKSRIKHNFGSPRPEGYRKAVRLMEMADRFKIPVISFIDTAGAYPGVDAEARGQGEAIAR 180 TK +++ NFG P PEGYRKA+RLM+MA+RFK+P+I+FIDT GAYPG+ AE RGQ EAIAR Sbjct: 121 TKEKLRRNFGMPAPEGYRKALRLMKMAERFKMPIITFIDTPGAYPGIGAEERGQSEAIAR 180 Query: 181 ATEMCLKLQVPILSIIIGEGGSGGAMGIAAANFVYMLEHAIYSVISPEGAASILWRDSSR 240 +L VP++ +IGEGGSGGA+ I + V MLE++ YSVISPEG A+ILW+D+S+ Sbjct: 181 NLREMARLGVPVICTVIGEGGSGGALAIGVGDKVNMLEYSTYSVISPEGCAAILWKDASK 240 Query: 241 AAQAAIAMKIIATDLQDLSIIDGIIPEPIGGAHRNPAQTISSVGEIISQFLSETSTYSET 300 A +AA AMKI A DL++L +ID IIPEP+GGAHRNP +S+ E + L+ S Sbjct: 241 APKAAEAMKITAPDLKELGLIDSIIPEPLGGAHRNPLAAAASLKEQLLADLATLDQLSTE 300 Query: 301 EIREHRRQKYLNIG 314 E++ R QK +++G Sbjct: 301 ELKNRRYQKLMSLG 314 >gnl|CDD|178769 PLN03230, PLN03230, acetyl-coenzyme A carboxylase carboxyl transferase; Provisional. Length = 431 Score = 305 bits (783), Expect = 8e-84 Identities = 134/310 (43%), Positives = 198/310 (63%), Gaps = 1/310 (0%) Query: 5 LDFEEPISDLEAKIHELKKLSREDINEDFSEEIRELEAMVCKTLSEIYSKLTPWQKTQVS 64 L FE+PI DLE +I E+++L+ + DFS +I ELE + E+YS+LTP Q+ V+ Sbjct: 76 LPFEKPIVDLENRIDEVRELANKT-GVDFSAQIAELEERYDQVRRELYSRLTPVQRLSVA 134 Query: 65 RHPNRPHYIDYINSLFTHFISLAGDRLFGDDPAMQIGLARFHGQPVAIIGQEKGSDTKSR 124 RHPNRP ++D++ ++ ++ L GDR DDPA+ G+ G IG +KG +TK Sbjct: 135 RHPNRPTFLDHVLNMTDKWVELHGDRAGFDDPAIVCGIGSMEGMSFMFIGHQKGRNTKEN 194 Query: 125 IKHNFGSPRPEGYRKAVRLMEMADRFKIPVISFIDTAGAYPGVDAEARGQGEAIARATEM 184 I NF P+P GYRKA+R M A++F P+++F+DT GAY G+ AE GQGEAIA Sbjct: 195 IYRNFAMPQPNGYRKALRFMRHAEKFGFPILTFVDTPGAYAGIKAEELGQGEAIAFNLRE 254 Query: 185 CLKLQVPILSIIIGEGGSGGAMGIAAANFVYMLEHAIYSVISPEGAASILWRDSSRAAQA 244 L+VPI++ +IGEGGSGGA+ I N + M+E+A+Y V SPE A+ILW+ ++ A +A Sbjct: 255 MFGLRVPIIATVIGEGGSGGALAIGCGNRMLMMENAVYYVASPEACAAILWKSAAAAPKA 314 Query: 245 AIAMKIIATDLQDLSIIDGIIPEPIGGAHRNPAQTISSVGEIISQFLSETSTYSETEIRE 304 A A++I A +L L ++D I+PEP+GGAH +P Q ++ E+I + + E E+ + Sbjct: 315 AEALRITAAELVKLGVVDEIVPEPLGGAHSDPLQASKNIKEVILRHMKELMKMDPEELLQ 374 Query: 305 HRRQKYLNIG 314 R K+ IG Sbjct: 375 DRAAKFRKIG 384 >gnl|CDD|178768 PLN03229, PLN03229, acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional. Length = 762 Score = 289 bits (740), Expect = 8e-79 Identities = 139/310 (44%), Positives = 199/310 (64%), Gaps = 1/310 (0%) Query: 5 LDFEEPISDLEAKIHELKKLSREDINEDFSEEIRELEAMVCKTLSEIYSKLTPWQKTQVS 64 LDFE+P+ DLE KI +++K++ E DFS++I LE+ + L ++Y+ LTP Q+ ++ Sbjct: 97 LDFEKPLVDLEKKIVDVRKMANE-TGLDFSDQIISLESKYQQALKDLYTHLTPIQRVNIA 155 Query: 65 RHPNRPHYIDYINSLFTHFISLAGDRLFGDDPAMQIGLARFHGQPVAIIGQEKGSDTKSR 124 RHPNRP ++D+I ++ F+ L GDR DDPA+ G+ G+ IG +KG +TK Sbjct: 156 RHPNRPTFLDHIFNITDKFVELHGDRAGYDDPAIVTGIGTIDGKRYMFIGHQKGRNTKEN 215 Query: 125 IKHNFGSPRPEGYRKAVRLMEMADRFKIPVISFIDTAGAYPGVDAEARGQGEAIARATEM 184 I NFG P P GYRKA+R+M AD P+++FIDT GAY + +E GQGEAIA Sbjct: 216 IMRNFGMPTPHGYRKALRMMYYADHHGFPIVTFIDTPGAYADLKSEELGQGEAIAHNLRT 275 Query: 185 CLKLQVPILSIIIGEGGSGGAMGIAAANFVYMLEHAIYSVISPEGAASILWRDSSRAAQA 244 L+VPI+SI+IGEGGSGGA+ I AN + MLE+A++ V SPE A+ILW+ + A +A Sbjct: 276 MFGLKVPIVSIVIGEGGSGGALAIGCANKLLMLENAVFYVASPEACAAILWKSAKAAPKA 335 Query: 245 AIAMKIIATDLQDLSIIDGIIPEPIGGAHRNPAQTISSVGEIISQFLSETSTYSETEIRE 304 A ++I A +L L I DGIIPEP+GGAH +P+ T + I++ + E E+ + Sbjct: 336 AEKLRITAQELCRLQIADGIIPEPLGGAHADPSWTSQQIKIAINENMDELGKMDTEELLK 395 Query: 305 HRRQKYLNIG 314 HR K+ IG Sbjct: 396 HRMLKFRKIG 405 >gnl|CDD|183435 PRK12319, PRK12319, acetyl-CoA carboxylase subunit alpha; Provisional. Length = 256 Score = 260 bits (665), Expect = 5e-70 Identities = 115/247 (46%), Positives = 165/247 (66%), Gaps = 4/247 (1%) Query: 64 SRHPNRPHYIDYINSLFTHFISLAGDRLFGDDPAMQIGLARFHGQPVAIIGQEKGSDTKS 123 +R R +DY +F F+ L GDR F DD A+ G+ GQPV ++G +KG + + Sbjct: 11 ARDQGRLTTLDYATLIFDDFMELHGDRHFRDDGAVVGGIGYLAGQPVTVVGIQKGKNLQD 70 Query: 124 RIKHNFGSPRPEGYRKAVRLMEMADRFKIPVISFIDTAGAYPGVDAEARGQGEAIARATE 183 +K NFG P PEGYRKA+RLM+ A++F PV++FI+TAGAYPGV AE RGQGEAIAR Sbjct: 71 NLKRNFGQPHPEGYRKALRLMKQAEKFGRPVVTFINTAGAYPGVGAEERGQGEAIARNLM 130 Query: 184 MCLKLQVPILSIIIGEGGSGGAMGIAAANFVYMLEHAIYSVISPEGAASILWRDSSRAAQ 243 L+VPI++IIIGEGGSGGA+ +A A+ V+MLE+ +Y+V+SPEG ASILW+D SRA + Sbjct: 131 EMSDLKVPIIAIIIGEGGSGGALALAVADQVWMLENTMYAVLSPEGFASILWKDGSRATE 190 Query: 244 AAIAMKIIATDLQDLSIIDGIIPEPIGGAHRNPAQTISSVGEIISQFLSETSTYSETEIR 303 AA MKI A +L ++ ++D +IPE ++ I + + + + L++ S ++ Sbjct: 191 AAELMKITAGELLEMGVVDKVIPE----HGYFSSEIIDMIKKNLIEELAQLSQKPLEQLL 246 Query: 304 EHRRQKY 310 E R Q++ Sbjct: 247 EERYQRF 253 >gnl|CDD|130187 TIGR01117, mmdA, methylmalonyl-CoA decarboxylase alpha subunit. This model describes methymalonyl-CoA decarboxylase aplha subunit in archaea and bacteria. Metylmalonyl-CoA decarboxylase Na+ pump is a representative of a class of Na+ transport decarboxylases that couples the energy derived by decarboxylation of carboxylic acid substrates to drive the extrusion of Na+ ion across the membrane. Length = 512 Score = 69.5 bits (170), Expect = 1e-12 Identities = 46/158 (29%), Positives = 71/158 (44%), Gaps = 12/158 (7%) Query: 96 PAMQIGLARFHGQPVAIIGQEKGSDTKSRIKHNFGSPRPEGYRKAVRLMEMADRFKIPVI 155 P + AR +GQ V II + K G + K R + D F IP++ Sbjct: 303 PNIITCFARINGQSVGIIANQP--------KVMAGCLDIDSSDKIARFIRFCDAFNIPIV 354 Query: 156 SFIDTAGAYPGVDAEARGQGEAIARATEMCLKLQVPILSIIIGE--GGSGGAMGIA--AA 211 +F+D G PGV+ E G A+ + VP ++II + GG+ AM A Sbjct: 355 TFVDVPGFLPGVNQEYGGIIRHGAKVLYAYSEATVPKVTIITRKAYGGAYLAMCSKHLGA 414 Query: 212 NFVYMLEHAIYSVISPEGAASILWRDSSRAAQAAIAMK 249 + VY A +V+ P GAA+I++R + A+ A + Sbjct: 415 DQVYAWPTAEIAVMGPAGAANIIFRKDIKEAKDPAATR 452 Score = 39.4 bits (92), Expect = 0.001 Identities = 27/90 (30%), Positives = 43/90 (47%), Gaps = 5/90 (5%) Query: 139 KAVRLMEMADRFKIPVISFIDTAGA--YPGVDAEARGQGEAIARATEMCLKLQVPILSII 196 K V++M++A + PV+ D+ GA VDA G G+ R T VP +S I Sbjct: 105 KIVKIMDLAMKMGAPVVGLNDSGGARIQEAVDALK-GYGDIFYRNT--IASGVVPQISAI 161 Query: 197 IGEGGSGGAMGIAAANFVYMLEHAIYSVIS 226 +G G A +F+YM+++ I+ Sbjct: 162 MGPCAGGAVYSPALTDFIYMVDNTSQMFIT 191 >gnl|CDD|178415 PLN02820, PLN02820, 3-methylcrotonyl-CoA carboxylase, beta chain. Length = 569 Score = 47.1 bits (112), Expect = 6e-06 Identities = 41/140 (29%), Positives = 61/140 (43%), Gaps = 21/140 (15%) Query: 101 GLARFHGQPVAIIGQEKGSDTKSRIKHNFGSPRPEGYRKAVRLMEMADRFKIPVISFIDT 160 G AR +GQPV IIG N G E K +E+ + IP++ + Sbjct: 364 GFARIYGQPVGIIG-------------NNGILFTESALKGAHFIELCAQRGIPLLFLQNI 410 Query: 161 AGAYPGVDAEARGQGEAIARATEMCLKLQVPILSIIIGEGGSGGAMGIA------AANFV 214 G G +EA G +A A+ +VP ++II+ GGS GA + NF+ Sbjct: 411 TGFMVGSRSEASGIAKAGAKMVMAVACAKVPKITIIV--GGSFGAGNYGMCGRAYSPNFL 468 Query: 215 YMLEHAIYSVISPEGAASIL 234 +M +A V+ AA +L Sbjct: 469 FMWPNARIGVMGGAQAAGVL 488 Score = 40.6 bits (95), Expect = 6e-04 Identities = 32/118 (27%), Positives = 50/118 (42%), Gaps = 25/118 (21%) Query: 61 TQVSRHPNRPHY-----IDYI---NSLFTHFISLAGDRLFGDD-PAMQI--GLARFHGQP 109 V RH +R ID + S F LAG L+G+D P+ I G+ HG+ Sbjct: 71 EAVKRHRSRNKLLPRERIDRLLDPGSPFLELSQLAGHELYGEDLPSGGIVTGIGPVHGRL 130 Query: 110 VAIIGQE---KGSDTKSRIKHNFGSPRPEGYRKAVRLMEMADRFKIPVISFIDTAGAY 164 + + KG G+ P +K +R E+A + ++P I +D+ GA Sbjct: 131 CMFVANDPTVKG-----------GTYYPITVKKHLRAQEIAAQCRLPCIYLVDSGGAN 177 >gnl|CDD|163147 TIGR03134, malonate_gamma, malonate decarboxylase, gamma subunit. Members of this protein family are the gamma subunit of malonate decarboxylase. Malonate decarboxylase may be a soluble enzyme, or linked to membrane subunits and active as a sodium pump. In the malonate decarboxylase complex, the beta subunit appears to act as a malonyl-CoA decarboxylase, while the gamma subunit appears either to mediate subunit interaction or to act as a co-decarboxylase with the beta subunit. The beta and gamma subunits exhibit some local sequence similarity. Length = 238 Score = 33.8 bits (78), Expect = 0.058 Identities = 45/232 (19%), Positives = 91/232 (39%), Gaps = 35/232 (15%) Query: 74 DYINSLF--THFISLAGDRLFGDDPAMQIGLARFHGQPVAIIGQEKGSDTKSRIKHNFGS 131 D++ +LF H ++ L G A G V +IG + + + Sbjct: 4 DWLAALFPNGHEVAGDPGVLVGS--------AELAGGKVTVIG----VVPDAEVGLD--- 48 Query: 132 PRPEGYRKAVRLMEM--ADRFKIPVISFIDTAGAYPGVDAEARGQGEAIARATEMCLKLQ 189 E A ++++ AD K P++ +DT G E G +A+A + + Sbjct: 49 ---EALALAQAVLDVIEADD-KRPIVVLVDTPSQAYGRREELLGINQALAHLAKALALAR 104 Query: 190 V---PILSIIIGEGGSGG--AMGIAAANFVYMLEHAIYSVISPEGAASILWRDSSRAAQA 244 + P++ +I G+ SG A G+ A+ + L A+ V+ E A + R Sbjct: 105 LAGHPVIGLIYGKAISGAFLAHGL-QADRIIALPGAMVHVMDLESMARVTKRSVEELEAL 163 Query: 245 AIAMKIIATDLQD---LSIIDGIIPEPIGGAHRNPAQTISSVGEIISQFLSE 293 A + + A +++ L + ++ A PA +++V ++ + + Sbjct: 164 AKSSPVFAPGIENFVKLGGVHALLDVA--DADA-PAAQLAAVLAALAAAIQD 212 >gnl|CDD|162510 TIGR01736, FGAM_synth_II, phosphoribosylformylglycinamidine synthase II. Phosphoribosylformylglycinamidine synthase is a single, long polypeptide in most Proteobacteria and eukarotes. Three proteins are required in Bacillus subtilis and many other species. This is the longest of the three and is designated PurL, phosphoribosylformylglycinamidine synthase II, or FGAM synthase II. Length = 715 Score = 31.9 bits (73), Expect = 0.22 Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 5/34 (14%) Query: 128 NFGSP-RPEGY---RKAVR-LMEMADRFKIPVIS 156 NFG+P RPE Y +AV+ L + PV+ Sbjct: 478 NFGNPERPEVYWQFVEAVKGLGDACRALGTPVVG 511 >gnl|CDD|115487 pfam06833, MdcE, Malonate decarboxylase gamma subunit (MdcE). This family consists of several bacterial malonate decarboxylase gamma subunit proteins. Malonate decarboxylase of Klebsiella pneumoniae consists of four different subunits and catalyses the conversion of malonate plus H+ to acetate and CO2. The catalysis proceeds via acetyl and malonyl thioester residues with the phosphribosyl-dephospho-CoA prosthetic group of the acyl carrier protein (ACP) subunit. MdcD and E together probably function as malonyl-S-ACP decarboxylase. Length = 234 Score = 31.6 bits (72), Expect = 0.30 Identities = 35/162 (21%), Positives = 60/162 (37%), Gaps = 32/162 (19%) Query: 89 DRLFGDDPAMQIGLARFHGQ-------PVAIIG----QEKGSDTKSRIKHNFGSPRPEGY 137 LF D + G+ PVA+IG E G E Sbjct: 4 AALFPDGHGIPASGDVLDGEATTRDVGPVAVIGTANGGEVGVL--------------EAI 49 Query: 138 RKAVRLME-MADRFKIPVISFIDTAGAYPGVDAEARGQGEAIARATEMCLKLQV---PIL 193 A ++E + R K P+++ +DT E G +A+A + ++ P++ Sbjct: 50 ALAAAVLEAIEQRDKRPILALVDTPSQALSRRDELLGINQALAHLAKAYDLARLAGHPVI 109 Query: 194 SIIIGEGGSGG--AMGIAAANFVYMLEHAIYSVISPEGAASI 233 ++ G+ SG A G+ AN + L A+ V+ A + Sbjct: 110 GLLYGKAMSGAFLAHGL-QANRLIALPGAMVHVMDLAAMARV 150 >gnl|CDD|132177 TIGR03133, malonate_beta, malonate decarboxylase, beta subunit. Members of this protein family are the beta subunit of malonate decarboxylase. Malonate decarboxylase may be a soluble enzyme, or linked to membrane subunits and active as a sodium pump. In the malonate decarboxylase complex, the beta subunit appears to act as a malonyl-CoA decarboxylase. Length = 274 Score = 30.7 bits (70), Expect = 0.55 Identities = 38/146 (26%), Positives = 57/146 (39%), Gaps = 26/146 (17%) Query: 95 DPAMQIGLARFHGQPVAIIGQEKGSDTKSRIKHNFGSPRPEGYRKAVRLMEMA-----DR 149 D + +G G+PV + QE + GS K V + +A Sbjct: 46 DDGVVVGRGTIDGKPVVVAAQEG--------RFQGGSVGEVHGAKIVGALRLAIEDNRKG 97 Query: 150 FKIPVISFIDTAG-----AYPGVDAEARGQGEAIARATEMCLKLQVPILSIIIGEGGSGG 204 V+ +DT G A G+ A A I RA + + VP++ +I G G G Sbjct: 98 QPTAVVLLLDTGGVRLQEANAGLIAIAE-----IMRAI-LDARAAVPVIGVIGGRVGCFG 151 Query: 205 AMGIAAA--NFVYMLEHAIYSVISPE 228 MGIAA +++ M E + PE Sbjct: 152 GMGIAAGLCSYLIMTEEGRLGLSGPE 177 >gnl|CDD|162747 TIGR02177, PorB_KorB, 2-oxoacid:acceptor oxidoreductase, beta subunit, pyruvate/2-ketoisovalerate family. Several related four-subunit enzymes may exist in the same species. This model describes a subfamily of beta subunits, representing mostly pyruvate and 2-ketoisovalerate specific enzymes. Length = 287 Score = 29.7 bits (67), Expect = 0.92 Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 3/40 (7%) Query: 175 GEAIARATEMCLKLQVPILSIIIGEGGSGGAMGIAAANFV 214 G A+ AT +KL P L +I+ GG G GI +FV Sbjct: 56 GRALPVATG--IKLANPHLKVIV-VGGDGDLYGIGGNHFV 92 >gnl|CDD|152379 pfam11944, DUF3461, Protein of unknown function (DUF3461). This family of proteins are functionally uncharacterized. This protein is found in bacteria. Proteins in this family are about 130 amino acids in length. This protein has two conserved sequence motifs: KFK and HLE. Length = 125 Score = 29.2 bits (66), Expect = 1.3 Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 5/57 (8%) Query: 4 YLDFEEPISDLEAKIHELKKLSRE-----DINEDFSEEIRELEAMVCKTLSEIYSKL 55 Y + E +L I EL K+++ DI E E++R LE +V ++EI L Sbjct: 66 YKNVSEISPNLLYVIDELDKITKHEHEEVDIKEKILEDLRHLEKVVNSKIAEIERDL 122 >gnl|CDD|173303 PRK14842, PRK14842, undecaprenyl pyrophosphate synthase; Provisional. Length = 241 Score = 29.2 bits (65), Expect = 1.5 Identities = 12/42 (28%), Positives = 19/42 (45%), Gaps = 4/42 (9%) Query: 120 DTKSRIKHNFGSPRPEGYRKAV----RLMEMADRFKIPVISF 157 D R + G R EG+R+ RLM+ + + + IS Sbjct: 17 DGNGRWAESQGKKRSEGHREGANAIDRLMDASLEYGLKNISL 58 >gnl|CDD|180762 PRK06936, PRK06936, type III secretion system ATPase; Provisional. Length = 439 Score = 29.0 bits (65), Expect = 1.8 Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 4/40 (10%) Query: 110 VAIIGQEKGSDTKSRIKHNFGSPRPEGYRKAVRLMEMADR 149 +A+IG E+G + + I+ + G EG RKAV ++ +DR Sbjct: 193 LALIG-ERGREVREFIESDLG---EEGLRKAVLVVATSDR 228 >gnl|CDD|180869 PRK07189, PRK07189, malonate decarboxylase subunit beta; Reviewed. Length = 301 Score = 28.7 bits (65), Expect = 1.9 Identities = 38/136 (27%), Positives = 52/136 (38%), Gaps = 42/136 (30%) Query: 95 DPAMQIGLARFHGQPVAIIGQEK----GSDTKSRIKHNFGSPRPE-GYRKAVRLMEMADR 149 D + +G G+PV + QE GS G E K +E+A Sbjct: 55 DDGVVVGKGTLDGRPVVVAAQEGRFMGGS---------VG----EVHGAKLAGALELAAE 101 Query: 150 FK------IPVISFIDTAGAYPGVDAEARGQ----GE-AIA---RATEMCLKLQVPILSI 195 ++ F +T G R Q G AIA RA + L+ VP++ + Sbjct: 102 DNRNGIPTAVLLLF-ETGGV--------RLQEANAGLAAIAEIMRAI-VDLRAAVPVIGL 151 Query: 196 IIGEGGSGGAMGIAAA 211 I G G G MGIAAA Sbjct: 152 IGGRVGCFGGMGIAAA 167 >gnl|CDD|182754 PRK10815, PRK10815, sensor protein PhoQ; Provisional. Length = 485 Score = 28.4 bits (64), Expect = 2.3 Identities = 9/31 (29%), Positives = 17/31 (54%) Query: 10 PISDLEAKIHELKKLSREDINEDFSEEIREL 40 PI L ++ EL++ RE ++ + E+ L Sbjct: 218 PIEALAKQVRELEEGEREQLDPNPPRELTSL 248 >gnl|CDD|163611 pfam10046, BLOC1_2, Biogenesis of lysosome-related organelles complex-1 subunit 2. Members of this family of proteins play a role in cellular proliferation, as well as in the biogenesis of specialized organelles of the endosomal-lysosomal system. Length = 99 Score = 27.6 bits (62), Expect = 4.2 Identities = 10/64 (15%), Positives = 21/64 (32%), Gaps = 8/64 (12%) Query: 1 MRHYLDFEEPISDLEAKIHELKKLSRE-----DINEDFSEEIRELEA---MVCKTLSEIY 52 Y + L +I L + E + +++ LE + + E+ Sbjct: 34 ALKYKKMRQSAKGLRVEIEALNQKYEELKPYLQQIDAIEQQVTTLEEAVYELDEYSKELE 93 Query: 53 SKLT 56 SK+ Sbjct: 94 SKVK 97 >gnl|CDD|181185 PRK07979, PRK07979, acetolactate synthase 3 catalytic subunit; Validated. Length = 574 Score = 27.5 bits (61), Expect = 4.4 Identities = 9/31 (29%), Positives = 18/31 (58%) Query: 143 LMEMADRFKIPVISFIDTAGAYPGVDAEARG 173 L E+ ++ +PV+S + GA+P ++ G Sbjct: 226 LKELVEKLNLPVVSSLMGLGAFPATHRQSLG 256 >gnl|CDD|150370 pfam09682, Holin_LLH, Phage holin protein (Holin_LLH). This entry identifies a family of putative phage holin from a number of phage and prophage regions of Gram-positive bacteria. Like other holins, it is small (about 100 amino acids) with stretches of hydrophobic sequence and is encoded adjacent to lytic enzymes. Length = 108 Score = 27.3 bits (61), Expect = 4.7 Identities = 11/32 (34%), Positives = 15/32 (46%) Query: 172 RGQGEAIARATEMCLKLQVPILSIIIGEGGSG 203 + GE A+ E+ K V + I EGG G Sbjct: 35 KAGGEKAAKIEEILAKNAVNAVEQIAKEGGKG 66 >gnl|CDD|130336 TIGR01269, Tyr_3_monoox, tyrosine 3-monooxygenase, tetrameric. This model describes tyrosine 3-monooxygenase, a member of the family of tetrameric, biopterin-dependent aromatic amino acid hydroxylases found in metazoans. It is closely related to tetrameric phenylalanine-4-hydroxylase and tryptophan 5-monooxygenase, and more distantly related to the monomeric phenylalanine-4-hydroxylase found in some Gram-negative bacteria. Length = 457 Score = 27.6 bits (61), Expect = 4.7 Identities = 19/49 (38%), Positives = 25/49 (51%), Gaps = 5/49 (10%) Query: 58 WQKTQVSRHPNRPHYI---DYINSLFTHFISLAGDRLFGDDPAMQIGLA 103 +Q TQ RH + P + D I+ L H LA DR F + +IGLA Sbjct: 268 FQCTQYIRHHSSPMHTPEPDCIHELLGHMPMLA-DRQFAQF-SQEIGLA 314 >gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional. Length = 880 Score = 27.3 bits (61), Expect = 5.3 Identities = 13/45 (28%), Positives = 24/45 (53%), Gaps = 2/45 (4%) Query: 9 EPISDLEAKIHELKKLSREDINE--DFSEEIRELEAMVCKTLSEI 51 E + LEA+I +L++ E E + +EE+R+L + + E Sbjct: 251 EELETLEAEIEDLRETIAETEREREELAEEVRDLRERLEELEEER 295 >gnl|CDD|183990 PRK13351, PRK13351, elongation factor G; Reviewed. Length = 687 Score = 27.2 bits (61), Expect = 5.6 Identities = 17/55 (30%), Positives = 23/55 (41%), Gaps = 10/55 (18%) Query: 142 RLMEMADRFKIPVISFI---DTAGA-YPGVDAEARGQGEAIARATEMCLKLQVPI 192 + ADR+ IP + FI D GA V + R + L LQ+PI Sbjct: 116 TVWRQADRYGIPRLIFINKMDRVGADLFKVLEDIE------ERFGKRPLPLQLPI 164 >gnl|CDD|184234 PRK13677, PRK13677, hypothetical protein; Provisional. Length = 125 Score = 27.3 bits (61), Expect = 5.8 Identities = 15/57 (26%), Positives = 29/57 (50%), Gaps = 5/57 (8%) Query: 4 YLDFEEPISDLEAKIHELKKLSRE-----DINEDFSEEIRELEAMVCKTLSEIYSKL 55 Y + +E +L I EL ++ + D+ +++R LE++V +SEI + L Sbjct: 66 YKEVQEISPNLRYVIDELDQICQRDREEVDLKRKILDDLRHLESVVANKISEIEADL 122 >gnl|CDD|181602 PRK08979, PRK08979, acetolactate synthase 3 catalytic subunit; Validated. Length = 572 Score = 27.1 bits (60), Expect = 5.9 Identities = 9/32 (28%), Positives = 21/32 (65%) Query: 142 RLMEMADRFKIPVISFIDTAGAYPGVDAEARG 173 +++++A++ +PV+S + GA+PG + G Sbjct: 225 QILQLAEKLNLPVVSTLMGLGAFPGTHKNSLG 256 >gnl|CDD|162858 TIGR02439, catechol_proteo, catechol 1,2-dioxygenase, proteobacterial. Members of this family known so far are catechol 1,2-dioxygenases of the Proteobacteria. They are distinct from catechol 1,2-dioxygenases and chlorocatechol 1,2-dioxygenases of the Actinobacteria, which are quite similar to each other and resolved by separate models. This enzyme catalyzes intradiol cleavage in which catechol + O2 becomes cis,cis-muconate. Catechol is an intermediate in the catabolism of many different aromatic compounds, as is the alternative intermediate protocatechuate. In Acinetobacter lwoffii, two isozymes are present with abilities, differing somewhat, to act on catechol analogs 3-methylcatechol, 4-methylcatechol, 4-methoxycatechol, and 4-chlorocatechol. Length = 285 Score = 27.0 bits (60), Expect = 6.0 Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 5/41 (12%) Query: 62 QVSRHPNRPHYIDYINSLFTHF-----ISLAGDRLFGDDPA 97 + RH NRP ++ + S H I++ GD DD A Sbjct: 207 LLGRHGNRPAHVHFFVSAPGHRKLTTQINIEGDPYLWDDFA 247 >gnl|CDD|131364 TIGR02311, HpaI, 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase. This model represents the aldolase which performs the final step unique to the 4-hydroxyphenylacetic acid catabolism pathway in which 2,4-dihydroxyhept-2-ene-1,7-dioic acid is split into pyruvate and succinate-semialdehyde. The gene for enzyme is generally found adjacent to other genes for this pathway organized into an operon. Length = 249 Score = 27.0 bits (60), Expect = 6.3 Identities = 26/106 (24%), Positives = 37/106 (34%), Gaps = 34/106 (32%) Query: 172 RGQGEAIARAT--------------EMCLKLQV----------PILS------IIIGEGG 201 RG G A+ARA+ E+C+ LQV I + + IG Sbjct: 114 RGVGSALARASRWNRIPDYLQQADEEICVLLQVETREALDNLEEIAAVEGVDGVFIGPAD 173 Query: 202 SGGAMGIA----AANFVYMLEHAIYSVISPEGAASILWRDSSRAAQ 243 +MG ++ AI + + AA IL D A Q Sbjct: 174 LAASMGHLGNPSHPEVQAAIDDAIERIKAAGKAAGILTADPKLARQ 219 >gnl|CDD|178319 PLN02717, PLN02717, uridine nucleosidase. Length = 316 Score = 26.9 bits (60), Expect = 6.4 Identities = 20/63 (31%), Positives = 27/63 (42%), Gaps = 12/63 (19%) Query: 93 GDDPAMQIGLARFHGQPVAIIGQEKGSDTKSRIKHNFGS-PRPEGYRKAVRLMEMADRFK 151 G D AM I +A V +IG + FG+ R A+ L+EMA R Sbjct: 10 GIDDAMAILMA-LRSPEVEVIG----------LTTIFGNVTTKLATRNALHLLEMAGRPD 58 Query: 152 IPV 154 +PV Sbjct: 59 VPV 61 >gnl|CDD|148614 pfam07106, TBPIP, Tat binding protein 1(TBP-1)-interacting protein (TBPIP). This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation. Length = 169 Score = 26.9 bits (60), Expect = 7.3 Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 7/50 (14%) Query: 7 FEEPISDLEAKIHELKKLSREDINEDFSEEIRELEAMVCKTLSEIYSKLT 56 ++ S LE ELK L+ + E+ EEI+EL+ K + EI KL Sbjct: 91 LKQDCSTLEI---ELKSLTSDLTTEELQEEIQELK----KEVREIEEKLE 133 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 0.319 0.135 0.389 Gapped Lambda K H 0.267 0.0758 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 5,398,856 Number of extensions: 362149 Number of successful extensions: 997 Number of sequences better than 10.0: 1 Number of HSP's gapped: 984 Number of HSP's successfully gapped: 54 Length of query: 317 Length of database: 5,994,473 Length adjustment: 93 Effective length of query: 224 Effective length of database: 3,984,929 Effective search space: 892624096 Effective search space used: 892624096 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 (21.7 bits) S2: 57 (25.7 bits)