RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780820|ref|YP_003065233.1| acetyl-CoA carboxylase subunit beta [Candidatus Liberibacter asiaticus str. psy62] (284 letters) >gnl|CDD|180184 PRK05654, PRK05654, acetyl-CoA carboxylase subunit beta; Validated. Length = 292 Score = 478 bits (1232), Expect = e-136 Identities = 157/282 (55%), Positives = 204/282 (72%), Gaps = 1/282 (0%) Query: 1 MNWITNFVRPRINSVFGRRA-IPENLWVKCPETGAMVYHKDLKENQWVISSSDFHMKIPA 59 M+W F+ +I S R+A +PE LW KCP G ++Y K+L+ N V HM+I A Sbjct: 1 MSWFDKFLPKKIKSSLPRKAEVPEGLWTKCPSCGQVLYRKELEANLNVCPKCGHHMRISA 60 Query: 60 KERLKFLFDNAKYCLLDQPQVCQDPLKFRDNKKYIDRLKENRSKTGLIDSIVSAVGNVRD 119 +ERL L D + LD +DPLKFRD+KKY DRLK + KTGL D++V+ G + Sbjct: 61 RERLDLLLDEGSFVELDAELEPKDPLKFRDSKKYKDRLKAAQKKTGLKDAVVTGKGTIEG 120 Query: 120 FKLVAVVHEFSFIGGSIGIAAGEAIVKSCERAIAEKCPLVMFTASGGARMQEGILSLMQL 179 +V V +FSF+GGS+G GE IV++ ERAI EKCPLV+F+ASGGARMQEG+LSLMQ+ Sbjct: 121 MPVVLAVMDFSFMGGSMGSVVGEKIVRAVERAIEEKCPLVIFSASGGARMQEGLLSLMQM 180 Query: 180 PRTTIAINMLKDAGLPYIVVLTNPTTGGVTASYAMLGDIHLAEPGAEIGFAGRRVIEQTV 239 +T+ A+ L +AGLPYI VLT+PTTGGV+AS+AMLGDI +AEP A IGFAG RVIEQTV Sbjct: 181 AKTSAALKRLSEAGLPYISVLTDPTTGGVSASFAMLGDIIIAEPKALIGFAGPRVIEQTV 240 Query: 240 REKLPDGFQRSEYLVEHGMIDRIVHRHDIPEVVSSLCKILTK 281 REKLP+GFQR+E+L+EHG ID IVHR ++ + ++SL + TK Sbjct: 241 REKLPEGFQRAEFLLEHGAIDMIVHRRELRDTLASLLALHTK 282 >gnl|CDD|129606 TIGR00515, accD, acetyl-CoA carboxylase, carboxyl transferase, beta 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 beta 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 = 285 Score = 329 bits (844), Expect = 7e-91 Identities = 129/279 (46%), Positives = 192/279 (68%), Gaps = 3/279 (1%) Query: 2 NWITNFVRPRINSVFGRRAIPENLWVKCPETGAMVYHKDLKENQWVISSSDFHMKIPAKE 61 + + + + +PE +W KCP+ G ++Y K+L+ N V D HM++ A+E Sbjct: 5 DRFKSKKKITSTR---KAEVPEGVWTKCPKCGQVLYTKELERNLEVCPKCDHHMRMDARE 61 Query: 62 RLKFLFDNAKYCLLDQPQVCQDPLKFRDNKKYIDRLKENRSKTGLIDSIVSAVGNVRDFK 121 R++ L D + + +DPLKF+D+KKY DR+ + + +TG D++V+ G + Sbjct: 62 RIESLLDEGSFEEFNSHLEPKDPLKFKDSKKYKDRIAKAQKETGEKDAVVTGKGTLYGMP 121 Query: 122 LVAVVHEFSFIGGSIGIAAGEAIVKSCERAIAEKCPLVMFTASGGARMQEGILSLMQLPR 181 +V V +F+F+GGS+G GE V++ E+A+ + CPL++F+ASGGARMQE +LSLMQ+ + Sbjct: 122 IVVAVFDFAFMGGSMGSVVGEKFVRAIEKALEDNCPLIIFSASGGARMQEALLSLMQMAK 181 Query: 182 TTIAINMLKDAGLPYIVVLTNPTTGGVTASYAMLGDIHLAEPGAEIGFAGRRVIEQTVRE 241 T+ A+ + + GLPYI VLT+PTTGGV+AS+AMLGD+++AEP A IGFAG RVIEQTVRE Sbjct: 182 TSAALAKMSERGLPYISVLTDPTTGGVSASFAMLGDLNIAEPKALIGFAGPRVIEQTVRE 241 Query: 242 KLPDGFQRSEYLVEHGMIDRIVHRHDIPEVVSSLCKILT 280 KLP+GFQ SE+L+EHG ID IVHR ++ + ++SL L Sbjct: 242 KLPEGFQTSEFLLEHGAIDMIVHRPEMKKTLASLLAKLQ 280 >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 = 56.8 bits (137), Expect = 6e-09 Identities = 53/193 (27%), Positives = 88/193 (45%), Gaps = 23/193 (11%) Query: 56 KIPAKERLKFLFDNAKYCLLDQPQVCQDPLKFRDNKKYIDRLKENRSKTGLIDSIVSAVG 115 K+ A+ERL LFD + +D V F +KK + + +V+ G Sbjct: 30 KMTARERLALLFDPGSFVEID-QFVKHRCTNFGMDKKELPA-----------EGVVTGYG 77 Query: 116 NVRDFKLVAV-VHEFSFIGGSIGIAAGEAIVKSCERAIAEKCPLVMFTASGGARMQEGIL 174 + D +LV +F+ +GGS+G IVK + A+ P+V SGGAR+QE + Sbjct: 78 TI-DGRLVYAFAQDFTVMGGSLGEMHAAKIVKIMDLAMKMGAPVVGLNDSGGARIQEAVD 136 Query: 175 SLMQ----LPRTTIAINMLKDAGLPYIVVLTNPTTGGVTASYAMLGDIHLAEPGAEIGFA 230 +L R TIA + +P I + P GG S A+ I++ + +++ Sbjct: 137 ALKGYGDIFYRNTIASGV-----VPQISAIMGPCAGGAVYSPALTDFIYMVDNTSQMFIT 191 Query: 231 GRRVIEQTVREKL 243 G +VI+ E++ Sbjct: 192 GPQVIKTVTGEEV 204 >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 = 43.1 bits (102), Expect = 7e-05 Identities = 38/137 (27%), Positives = 57/137 (41%), Gaps = 9/137 (6%) Query: 108 DSIVSAVGNVRDFKLVAVVHEFSFIGGSIGIAAGEAIVKSCERAIAEKC-----PLVMFT 162 D +V G + +V E F GGS+G G IV + AI + +V+ Sbjct: 47 DGVVVGRGTIDGKPVVVAAQEGRFQGGSVGEVHGAKIVGALRLAIEDNRKGQPTAVVLLL 106 Query: 163 ASGGARMQEGILSLMQLPRTTIAINMLKDAGLPYIVVLTNPTT--GGVTASYAMLGDIHL 220 +GG R+QE L+ + AI + A P I V+ GG+ + A L + Sbjct: 107 DTGGVRLQEANAGLIAIAEIMRAILDARAAV-PVIGVIGGRVGCFGGMGIA-AGLCSYLI 164 Query: 221 AEPGAEIGFAGRRVIEQ 237 +G +G VIEQ Sbjct: 165 MTEEGRLGLSGPEVIEQ 181 >gnl|CDD|180869 PRK07189, PRK07189, malonate decarboxylase subunit beta; Reviewed. Length = 301 Score = 34.5 bits (80), Expect = 0.035 Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 7/70 (10%) Query: 108 DSIVSAVGNVRDFKLVAVVHEFSFIGGSIGIAAGEAIVKSCERAIAEK------CPLVMF 161 D +V G + +V E F+GGS+G G + + E A + L++F Sbjct: 56 DGVVVGKGTLDGRPVVVAAQEGRFMGGSVGEVHGAKLAGALELAAEDNRNGIPTAVLLLF 115 Query: 162 TASGGARMQE 171 +GG R+QE Sbjct: 116 E-TGGVRLQE 124 >gnl|CDD|148509 pfam06934, CTI, Fatty acid cis/trans isomerase (CTI). This family consists of several fatty acid cis/trans isomerase proteins which appear to be found exclusively in bacteria of the orders Vibrionales and Pseudomonadales. Cis/trans isomerase (CTI) catalyses the cis-trans isomerisation of esterified fatty acids in phospholipids, mainly cis-oleic acid (C(16:1,9)) and cis-vaccenic acid (C(18:1,11)), in response to solvents. The CTI protein has been shown to be involved in solvent resistance in Pseudomonas putida. Length = 688 Score = 29.1 bits (66), Expect = 1.4 Identities = 9/16 (56%), Positives = 13/16 (81%) Query: 57 IPAKERLKFLFDNAKY 72 IPA+ R +F+ DNA+Y Sbjct: 263 IPARARYQFMLDNAQY 278 >gnl|CDD|179176 PRK00943, PRK00943, selenophosphate synthetase; Provisional. Length = 347 Score = 29.0 bits (66), Expect = 1.6 Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 5/39 (12%) Query: 21 IPENLWVKCPETG--AMVYHKDLKENQWVISSSDFHMKI 57 + NL V ET A VY DL + +IS++DF M I Sbjct: 38 VDPNLLVG-NETRDDAAVY--DLNDGTGIISTTDFFMPI 73 >gnl|CDD|182817 PRK10895, PRK10895, lipopolysaccharide ABC transporter ATP-binding protein; Provisional. Length = 241 Score = 28.7 bits (64), Expect = 1.7 Identities = 12/31 (38%), Positives = 19/31 (61%) Query: 69 NAKYCLLDQPQVCQDPLKFRDNKKYIDRLKE 99 N K+ LLD+P DP+ D K+ I+ L++ Sbjct: 155 NPKFILLDEPFAGVDPISVIDIKRIIEHLRD 185 >gnl|CDD|182156 PRK09939, PRK09939, putative oxidoreductase; Provisional. Length = 759 Score = 28.9 bits (64), Expect = 1.7 Identities = 24/83 (28%), Positives = 38/83 (45%), Gaps = 11/83 (13%) Query: 127 HEFSFIG--GSIGIAAGEAIVKSCERAIAEKCPLVMFTA----SGGARMQEGILSLMQLP 180 HE + +G SIG+ G +++ EKC LV+ + RM + +L++ Sbjct: 183 HEPTSVGLAASIGVGKGTVLLED-----FEKCDLVICIGHNPGTNHPRMLTSLRALVKRG 237 Query: 181 RTTIAINMLKDAGLPYIVVLTNP 203 IAIN L++ GL NP Sbjct: 238 AKMIAINPLQERGLERFTAPQNP 260 >gnl|CDD|166227 PLN02586, PLN02586, probable cinnamyl alcohol dehydrogenase. Length = 360 Score = 28.3 bits (63), Expect = 2.1 Identities = 35/136 (25%), Positives = 55/136 (40%), Gaps = 29/136 (21%) Query: 107 IDSIVSAVG-NVRDFKLVAVVHEFSFIGGSIGIAAGEAIVKSCE---RAIAEKCPLVMFT 162 I IV+ +G NV+ FK G +G+ KSCE + + CP ++FT Sbjct: 74 IVGIVTKLGKNVKKFKE----------GDRVGVGVIVGSCKSCESCDQDLENYCPKMIFT 123 Query: 163 ----ASGGARMQEG---ILSLMQLPRTTIAINMLKDAGLPYIVVLTNPTTGGVTASYAML 215 G + G ++ + Q N+ DAG P + G+T Y+ + Sbjct: 124 YNSIGHDGTKNYGGYSDMIVVDQHFVLRFPDNLPLDAGAPLLC-------AGITV-YSPM 175 Query: 216 GDIHLAEPGAEIGFAG 231 + EPG +G AG Sbjct: 176 KYYGMTEPGKHLGVAG 191 >gnl|CDD|140204 PTZ00176, PTZ00176, erythrocyte membrane protein 1 (PfEMP1); Provisional. Length = 1317 Score = 28.1 bits (62), Expect = 3.1 Identities = 11/34 (32%), Positives = 18/34 (52%) Query: 86 KFRDNKKYIDRLKENRSKTGLIDSIVSAVGNVRD 119 K + KY D+LK + + D + S+ G+VR Sbjct: 29 KRENESKYTDKLKGSLWEARFSDGLSSSFGDVRS 62 >gnl|CDD|179035 PRK00454, engB, GTP-binding protein YsxC; Reviewed. Length = 196 Score = 27.8 bits (63), Expect = 3.6 Identities = 8/16 (50%), Positives = 12/16 (75%) Query: 186 INMLKDAGLPYIVVLT 201 I LK+ G+P ++VLT Sbjct: 128 IEWLKEYGIPVLIVLT 143 >gnl|CDD|179095 PRK00719, PRK00719, alkanesulfonate monooxygenase; Provisional. Length = 378 Score = 27.6 bits (62), Expect = 3.7 Identities = 10/24 (41%), Positives = 16/24 (66%), Gaps = 4/24 (16%) Query: 43 ENQWVISSSDFHMKIPAKERLKFL 66 E+ W++++S IP +RLKFL Sbjct: 54 EDAWLVAAS----LIPVTQRLKFL 73 >gnl|CDD|132588 TIGR03549, TIGR03549, conserved hypothetical protein TIGR03549. This family consists of remarkably well-conserved proteins from gamma and beta Proteobacteria, heavily skewed towards organisms of marine environments. This family has an OsmC-like N-terminal domain. It shares a central domain, modeled by pfam02624 and TIGR00702, with other families of smaller proteins. The function is unknown. Fifteen of the first sixteen members of this family are from selenouridine-positive genomes, but this correlation may be fortuitous. Length = 718 Score = 27.5 bits (61), Expect = 4.7 Identities = 15/30 (50%), Positives = 19/30 (63%), Gaps = 5/30 (16%) Query: 188 MLKDAGL----PYI-VVLTNPTTGGVTASY 212 ++KDA L P + V L NP TGGV AS+ Sbjct: 390 LVKDASLGGQFPVMCVTLMNPRTGGVFASF 419 >gnl|CDD|130828 TIGR01767, MTRK, 5-methylthioribose kinase. This enzyme is involved in the methionine salvage pathway in certain bacteria. Length = 370 Score = 27.2 bits (60), Expect = 5.6 Identities = 23/105 (21%), Positives = 39/105 (37%), Gaps = 22/105 (20%) Query: 50 SSDFHMKIPAKERLKFLFDNAKYCLLDQPQVCQDPLKFRDNKKYIDRLKENRSKTGLIDS 109 SSD+ ++ K+ L F N + C + + V DP D + + L Sbjct: 116 SSDYALEPKVKKALVAQFTNPELCDITERLVFTDPYFDHDTNDFEEEL----------RP 165 Query: 110 IVSAVGNVRDFKLVAVVHEFSFIG------------GSIGIAAGE 142 V+ + N K+ A + SF+ GSI ++ E Sbjct: 166 FVAKLRNDDSLKIEAAKLKHSFLASAETLLHGDLHSGSIFVSEHE 210 >gnl|CDD|180991 PRK07475, PRK07475, hypothetical protein; Provisional. Length = 245 Score = 26.8 bits (60), Expect = 5.7 Identities = 30/143 (20%), Positives = 47/143 (32%), Gaps = 39/143 (27%) Query: 143 AIVKSC------ERAIAEKCPLVMFTASGGARMQEGILSLMQLPRTTIAINMLKDAGLPY 196 AI SC +R +A + + T+S L+Q+P L A LP Sbjct: 81 AITTSCGFLALFQRELAAALGVPVATSS-----------LLQVP--------LIQALLP- 120 Query: 197 IVVLTNPTTGGVTASYAMLGDIHLAEPGAEIGFAGRRVIEQTVREKLPDG--FQRSEYLV 254 G +TA + L HL G L +G F+R+ L Sbjct: 121 ----AGQKVGILTADASSLTPAHLLAVGVPPD------TSSLPIAGLEEGGEFRRN-ILE 169 Query: 255 EHGMIDRIVHRHDIPEVVSSLCK 277 G +D ++ +L + Sbjct: 170 NRGELDNEAAEQEVVAAARALLE 192 >gnl|CDD|129576 TIGR00485, EF-Tu, translation elongation factor TU. This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation. Length = 394 Score = 26.7 bits (59), Expect = 6.5 Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 4/43 (9%) Query: 164 SGGARMQEGILSLMQ----LPRTTIAINMLKDAGLPYIVVLTN 202 +G A+M IL + +P+T I + + G+PYIVV N Sbjct: 94 TGAAQMDGAILVVSATDGPMPQTREHILLARQVGVPYIVVFLN 136 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 0.322 0.138 0.411 Gapped Lambda K H 0.267 0.0686 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 4,746,941 Number of extensions: 309355 Number of successful extensions: 694 Number of sequences better than 10.0: 1 Number of HSP's gapped: 691 Number of HSP's successfully gapped: 24 Length of query: 284 Length of database: 5,994,473 Length adjustment: 92 Effective length of query: 192 Effective length of database: 4,006,537 Effective search space: 769255104 Effective search space used: 769255104 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 (21.9 bits) S2: 57 (25.8 bits)