RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780267|ref|YP_003064680.1| acetyl-CoA carboxylase biotin carboxyl carrier protein subunit [Candidatus Liberibacter asiaticus str. psy62] (171 letters) >gnl|CDD|180522 PRK06302, PRK06302, acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated. Length = 155 Score = 152 bits (386), Expect = 5e-38 Identities = 56/158 (35%), Positives = 81/158 (51%), Gaps = 3/158 (1%) Query: 8 INLTLIRNLANILNETNLTEVEIDNDGMRIRLLRSPQKDTVTNYYSEDNKNNHSLVGFPP 67 +++ I+ L +++E+ ++E EI +R+ R+ + P Sbjct: 1 MDIRKIKKLIELVDESGISEFEIKEGEESVRISRAAAAPVAPVAQQAAAA---PVAAAPA 57 Query: 68 SSTIDNTPPESDLIPLLSPDNYHTVTSPMVGTAYLASSPGSDPFVNKGNLVVEGQTLLII 127 ++ P + + H VTSPMVGT Y A SP + PFV G+ V EGQTL II Sbjct: 58 AAAAAAAAPAAAPAAAAAEAEGHVVTSPMVGTFYRAPSPDAPPFVEVGDTVKEGQTLCII 117 Query: 128 EAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVLE 165 EAMK MN I A SG V +I V++GQ VE+G L V+E Sbjct: 118 EAMKVMNEIEADKSGVVTEILVENGQPVEFGQPLFVIE 155 >gnl|CDD|129622 TIGR00531, BCCP, acetyl-CoA carboxylase, biotin carboxyl carrier protein. The gene name is accB or fabE. Length = 156 Score = 99.5 bits (248), Expect = 4e-22 Identities = 52/159 (32%), Positives = 79/159 (49%), Gaps = 4/159 (2%) Query: 8 INLTLIRNLANILNETNLTEVEIDNDGMRIRLLR-SPQKDTVTNYYSEDNKNNHSLVGFP 66 +N+ I+ L ++ E+ +TE+E+ + +RL + + + Sbjct: 1 MNIREIKELIKLIEESGITELELKEEEFEVRLSKAAAAAKKSAVQQAAAPVPAQVPAAPS 60 Query: 67 PSSTIDNTPPESDLIPLLSPDNYHTVTSPMVGTAYLASSPGSDPFVNKGNLVVEGQTLLI 126 + P + H V SPMVGT Y A SP + PFV G+ V +GQ + I Sbjct: 61 AQAPAPAVCAP---APAKADKKGHFVRSPMVGTFYRAPSPDAKPFVEVGDKVKKGQIVCI 117 Query: 127 IEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVLE 165 +EAMK MN I A +GKV +I V++GQ VEYG L+V+E Sbjct: 118 VEAMKLMNEIEAEVAGKVVEILVENGQPVEYGQPLIVIE 156 >gnl|CDD|181754 PRK09282, PRK09282, pyruvate carboxylase subunit B; Validated. Length = 592 Score = 94.9 bits (237), Expect = 1e-20 Identities = 40/140 (28%), Positives = 59/140 (42%), Gaps = 16/140 (11%) Query: 27 EVEIDNDGMRIRLLRSPQKDTVTNYYSEDNKNNHSLVGFPPSSTIDNTPPESDLIPLLSP 86 +VE+D + +++ + Y D +V + P S Sbjct: 469 KVEVDGEKYEVKIEGVKAEGKRPFYLRVDGMPEEVVVEPLKEIVVGGRPRASAPGA---- 524 Query: 87 DNYHTVTSPMVGTAYLASSPGSDPFVNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQD 146 VTSPM GT V +G+ V G T+L++EAMK N I AP G V++ Sbjct: 525 -----VTSPMPGTVV-------KVKVKEGDKVKAGDTVLVLEAMKMENEIQAPVDGTVKE 572 Query: 147 INVKDGQSVEYGDALLVLEK 166 I VK+G V GD L+ +E Sbjct: 573 ILVKEGDRVNPGDVLMEIEP 592 >gnl|CDD|180811 PRK07051, PRK07051, hypothetical protein; Validated. Length = 80 Score = 74.7 bits (184), Expect = 1e-14 Identities = 28/76 (36%), Positives = 42/76 (55%) Query: 90 HTVTSPMVGTAYLASSPGSDPFVNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINV 149 H + SP+ GT Y SP + P+V G+ V G + +IE MK + A +G+V + V Sbjct: 4 HEIVSPLPGTFYRRPSPDAPPYVEVGDAVAAGDVVGLIEVMKQFTEVEAEAAGRVVEFLV 63 Query: 150 KDGQSVEYGDALLVLE 165 +DG+ VE G L +E Sbjct: 64 EDGEPVEAGQVLARIE 79 >gnl|CDD|178564 PLN02983, PLN02983, biotin carboxyl carrier protein of acetyl-CoA carboxylase. Length = 274 Score = 73.3 bits (180), Expect = 3e-14 Identities = 41/101 (40%), Positives = 56/101 (55%), Gaps = 3/101 (2%) Query: 66 PPSSTIDNTPPESDLIPLLSPDNYH-TVTSPMVGTAYLASSPGSDPFVNKGNLVVEGQTL 124 P+S+ TP P +P + H + SPM GT Y + +PG PFV G+ V +GQ + Sbjct: 175 APASSPPPTPASPP--PAKAPKSSHPPLKSPMAGTFYRSPAPGEPPFVKVGDKVQKGQVV 232 Query: 125 LIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVLE 165 IIEAMK MN I A SG + +I +DG+ V L V+E Sbjct: 233 CIIEAMKLMNEIEADQSGTIVEILAEDGKPVSVDTPLFVIE 273 >gnl|CDD|183835 PRK12999, PRK12999, pyruvate carboxylase; Reviewed. Length = 1146 Score = 71.3 bits (176), Expect = 1e-13 Identities = 29/66 (43%), Positives = 35/66 (53%), Gaps = 2/66 (3%) Query: 103 ASSPGS--DPFVNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDA 160 A PGS V +G+ V G L +IEAMK I AP G V+ + VK G VE GD Sbjct: 1081 APMPGSVVTVLVKEGDEVKAGDPLAVIEAMKMETTITAPVDGTVKRVLVKAGDQVEAGDL 1140 Query: 161 LLVLEK 166 L+ LE Sbjct: 1141 LVELEP 1146 Score = 40.1 bits (95), Expect = 3e-04 Identities = 14/32 (43%), Positives = 19/32 (59%) Query: 134 NHIVAPCSGKVQDINVKDGQSVEYGDALLVLE 165 H+ AP G V + VK+G V+ GD L V+E Sbjct: 1077 GHVGAPMPGSVVTVLVKEGDEVKAGDPLAVIE 1108 >gnl|CDD|184472 PRK14040, PRK14040, oxaloacetate decarboxylase; Provisional. Length = 593 Score = 63.8 bits (156), Expect = 2e-11 Identities = 31/91 (34%), Positives = 42/91 (46%), Gaps = 7/91 (7%) Query: 74 TPPESDLIPLLSPDNYHTVTSPMVGTAYLASSPGSDPFVNKGNLVVEGQTLLIIEAMKTM 133 P + + VT+P+ G + V +G V EG LLI+EAMK Sbjct: 509 AAPAAAAAAAPAAAAGEPVTAPLAGNIFKV-------IVTEGQTVAEGDVLLILEAMKME 561 Query: 134 NHIVAPCSGKVQDINVKDGQSVEYGDALLVL 164 I A +G V+ I VK+G +V GD LL L Sbjct: 562 TEIRAAQAGTVRGIAVKEGDAVAVGDTLLTL 592 Score = 37.2 bits (87), Expect = 0.002 Identities = 13/30 (43%), Positives = 20/30 (66%) Query: 136 IVAPCSGKVQDINVKDGQSVEYGDALLVLE 165 + AP +G + + V +GQ+V GD LL+LE Sbjct: 527 VTAPLAGNIFKVIVTEGQTVAEGDVLLILE 556 >gnl|CDD|162983 TIGR02712, urea_carbox, urea carboxylase. Members of this family are ATP-dependent urea carboxylase, including characterized members from Oleomonas sagaranensis (alpha class Proteobacterium) and yeasts such as Saccharomyces cerevisiae. The allophanate hydrolase domain of the yeast enzyme is not included in this model and is represented by an adjacent gene in Oleomonas sagaranensis. The fusion of urea carboxylase and allophanate hydrolase is designated urea amidolyase. The enzyme from Oleomonas sagaranensis was shown to be highly active on acetamide and formamide as well as urea. Length = 1201 Score = 62.0 bits (151), Expect = 8e-11 Identities = 31/92 (33%), Positives = 42/92 (45%), Gaps = 12/92 (13%) Query: 74 TPPESDLIPLLSPDNYHTVTSPMVGTAYLASSPGSDPFVNKGNLVVEGQTLLIIEAMKTM 133 E+DL P+ V S G + V G+ V GQ L+I+EAMK Sbjct: 1122 PEEEADL-----PEGAEQVESEYAGNFW-------KVLVEVGDRVEAGQPLVILEAMKME 1169 Query: 134 NHIVAPCSGKVQDINVKDGQSVEYGDALLVLE 165 + AP +GKV I + G V+ GD + VLE Sbjct: 1170 MPVSAPVAGKVTKILCQPGDMVDAGDIVAVLE 1201 >gnl|CDD|180616 PRK06549, PRK06549, acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated. Length = 130 Score = 60.6 bits (147), Expect = 2e-10 Identities = 31/72 (43%), Positives = 37/72 (51%), Gaps = 7/72 (9%) Query: 91 TVTSPMVGTAYLASSPGSDPFVNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVK 150 + SPM GT V G+ V E Q LLI+EAMK N IVA +G V I+V Sbjct: 63 AMPSPMPGTILKV-------LVAVGDQVTENQPLLILEAMKMENEIVASSAGTVTAIHVT 115 Query: 151 DGQSVEYGDALL 162 GQ V GD L+ Sbjct: 116 PGQVVNPGDGLI 127 >gnl|CDD|130302 TIGR01235, pyruv_carbox, pyruvate carboxylase. This enzyme plays a role in gluconeogensis but not glycolysis. Length = 1143 Score = 54.8 bits (132), Expect = 1e-08 Identities = 28/80 (35%), Positives = 42/80 (52%), Gaps = 7/80 (8%) Query: 86 PDNYHTVTSPMVGTAYLASSPGSDPFVNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQ 145 P N V +PM G + V+ G V +G L+++EAMK I AP G ++ Sbjct: 1071 PGNPAHVGAPMPGVI-------IEVKVSSGQAVNKGDPLVVLEAMKMETAIQAPKDGTIK 1123 Query: 146 DINVKDGQSVEYGDALLVLE 165 ++ VK G+ ++ D LLVLE Sbjct: 1124 EVLVKAGEQIDAKDLLLVLE 1143 >gnl|CDD|162205 TIGR01108, oadA, oxaloacetate decarboxylase alpha subunit. This model describes the bacterial oxaloacetate decarboxylase alpha subunit and its equivalents in archaea. The oxaloacetate decarboxylase Na+ pump is the paradigm of the family of Na+ transport decarboxylases that present in bacteria and archaea. It a multi subunit enzyme consisting of a peripheral alpha-subunit and integral membrane subunits beta and gamma. The energy released by the decarboxylation reaction of oxaloacetate is coupled to Na+ ion pumping across the membrane. Length = 582 Score = 53.6 bits (129), Expect = 2e-08 Identities = 27/71 (38%), Positives = 38/71 (53%), Gaps = 7/71 (9%) Query: 91 TVTSPMVGTAYLASSPGSDPFVNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVK 150 VT+P+ G+ V++G V EG+ LLI+EAMK I A +G V++I VK Sbjct: 519 PVTAPIAGSIVKVK-------VSEGQTVAEGEVLLILEAMKMETEIKAAAAGTVREILVK 571 Query: 151 DGQSVEYGDAL 161 G +V G L Sbjct: 572 VGDAVSVGQVL 582 Score = 34.4 bits (79), Expect = 0.017 Identities = 12/30 (40%), Positives = 20/30 (66%) Query: 136 IVAPCSGKVQDINVKDGQSVEYGDALLVLE 165 + AP +G + + V +GQ+V G+ LL+LE Sbjct: 520 VTAPIAGSIVKVKVSEGQTVAEGEVLLILE 549 >gnl|CDD|168146 PRK05641, PRK05641, putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated. Length = 153 Score = 52.6 bits (126), Expect = 6e-08 Identities = 36/102 (35%), Positives = 51/102 (50%), Gaps = 10/102 (9%) Query: 66 PPSSTIDNTP-PESDLIPLLSPDNY--HTVTSPMVGTAYLASSPGSDPFVNKGNLVVEGQ 122 P+ + + P P + P +P + + VT+PM G V +G V GQ Sbjct: 58 APAPAVPSAPTPVAPAAPAPAPASAGENVVTAPMPGKILRI-------LVREGQQVKVGQ 110 Query: 123 TLLIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVL 164 LLI+EAMK N I AP G V+ I VK+G +V+ G L+ L Sbjct: 111 GLLILEAMKMENEIPAPKDGVVKKILVKEGDTVDTGQPLIEL 152 Score = 32.5 bits (74), Expect = 0.054 Identities = 15/32 (46%), Positives = 21/32 (65%) Query: 134 NHIVAPCSGKVQDINVKDGQSVEYGDALLVLE 165 N + AP GK+ I V++GQ V+ G LL+LE Sbjct: 85 NVVTAPMPGKILRILVREGQQVKVGQGLLILE 116 >gnl|CDD|181304 PRK08225, PRK08225, acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated. Length = 70 Score = 46.7 bits (111), Expect = 3e-06 Identities = 25/54 (46%), Positives = 35/54 (64%) Query: 112 VNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVLE 165 V G+ V EGQ ++I+E+MK IVA +G V+ INV++G V GD LL +E Sbjct: 17 VKVGDTVEEGQDVVILESMKMEIPIVAEEAGTVKKINVQEGDFVNEGDVLLEIE 70 Score = 30.5 bits (69), Expect = 0.24 Identities = 13/33 (39%), Positives = 19/33 (57%) Query: 133 MNHIVAPCSGKVQDINVKDGQSVEYGDALLVLE 165 M + A +G V I VK G +VE G +++LE Sbjct: 1 MTKVYASMAGNVWKIVVKVGDTVEEGQDVVILE 33 >gnl|CDD|162309 TIGR01347, sucB, 2-oxoglutarate dehydrogenase complex dihydrolipoamide succinyltransferase (E2 component). dihydrolipoamide acetyltransferase. The seed for this model includes mitochondrial and Gram-negative bacterial forms. Mycobacterial candidates are highly derived, differ in having and extra copy of the lipoyl-binding domain at the N-terminus. They score below the trusted cutoff, but above the noise cutoff and above all examples of dihydrolipoamide acetyltransferase. Length = 403 Score = 42.8 bits (101), Expect = 5e-05 Identities = 18/58 (31%), Positives = 31/58 (53%) Query: 113 NKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVLEKTGDN 170 G+ V + ++ IE K + + +P G +Q+I K+G +VE G L +LE+ D Sbjct: 23 KVGDTVKRDENIVEIETDKVVLEVPSPADGVLQEILFKEGDTVESGQVLAILEEGNDA 80 >gnl|CDD|183339 PRK11856, PRK11856, branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed. Length = 411 Score = 41.7 bits (99), Expect = 1e-04 Identities = 20/59 (33%), Positives = 31/59 (52%) Query: 111 FVNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVLEKTGD 169 V G+ V EGQ L +E K I +P +G V + V++G V G + V+E+ G+ Sbjct: 23 LVKVGDTVKEGQPLAEVETDKATVEIPSPVAGTVAKLLVEEGDVVPVGSVIAVIEEEGE 81 >gnl|CDD|180306 PRK05889, PRK05889, putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Provisional. Length = 71 Score = 40.6 bits (95), Expect = 2e-04 Identities = 17/53 (32%), Positives = 34/53 (64%) Query: 112 VNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVL 164 VN+G+ + +G TL+++E+MK ++A +G V ++V G ++ GD + V+ Sbjct: 18 VNEGDQIGKGDTLVLLESMKMEIPVLAEVAGTVSKVSVSVGDVIQAGDLIAVI 70 >gnl|CDD|183338 PRK11855, PRK11855, dihydrolipoamide acetyltransferase; Reviewed. Length = 547 Score = 39.8 bits (94), Expect = 4e-04 Identities = 21/55 (38%), Positives = 31/55 (56%) Query: 111 FVNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVLE 165 V G+ V E Q+L+ +E K I +P +G V++I VK G V G L+V+E Sbjct: 139 LVKVGDTVEEDQSLITVETDKATMEIPSPVAGVVKEIKVKVGDKVSVGSLLVVIE 193 Score = 37.9 bits (89), Expect = 0.002 Identities = 22/59 (37%), Positives = 32/59 (54%) Query: 111 FVNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVLEKTGD 169 V +G+ V E Q L+ +E K I +P +G V++I VK G +V G L V+E G Sbjct: 22 LVKEGDTVEEDQPLVTVETDKATMEIPSPAAGVVKEIKVKVGDTVSVGGLLAVIEAAGA 80 >gnl|CDD|162310 TIGR01348, PDHac_trf_long, pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form. This model describes a subset of pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase specifically close by both phylogenetic and per cent identity (UPGMA) trees. Members of this set include two or three copies of the lipoyl-binding domain. E. coli AceF is a member of this model, while mitochondrial and some other bacterial forms belong to a separate model. Length = 546 Score = 39.9 bits (93), Expect = 4e-04 Identities = 16/54 (29%), Positives = 30/54 (55%) Query: 112 VNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVLE 165 V G+ V GQ+L+ +E+ K + + +G +++I VK G ++ G + LE Sbjct: 21 VKPGDKVEAGQSLITLESDKASMEVPSSAAGIIKEIKVKVGDTLPVGGVIATLE 74 >gnl|CDD|172536 PRK14042, PRK14042, pyruvate carboxylase subunit B; Provisional. Length = 596 Score = 38.2 bits (88), Expect = 0.001 Identities = 22/54 (40%), Positives = 31/54 (57%) Query: 112 VNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVLE 165 V+ G+ V GQ +L+IEAMK I AP +G V +I + G V G L+ +E Sbjct: 541 VSAGDEVKAGQAVLVIEAMKMETEIKAPANGVVAEILCQKGDKVTPGQVLIRVE 594 >gnl|CDD|179447 PRK02597, rpoC2, DNA-directed RNA polymerase subunit beta'; Provisional. Length = 1331 Score = 37.3 bits (87), Expect = 0.002 Identities = 28/85 (32%), Positives = 36/85 (42%), Gaps = 33/85 (38%) Query: 110 PFVNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDIN--------------------- 148 P V G+LVV G L + AP SG+V+ ++ Sbjct: 902 PTVKVGDLVVAGDEL--------APGVPAPESGEVEAVSGGSVTLRLGRPYRVSPGAVLH 953 Query: 149 VKDGQSVEYGD--ALLVLE--KTGD 169 V+DG V+ GD ALLV E KTGD Sbjct: 954 VRDGDLVQRGDNLALLVFERAKTGD 978 >gnl|CDD|183337 PRK11854, aceF, pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated. Length = 633 Score = 36.5 bits (85), Expect = 0.004 Identities = 18/55 (32%), Positives = 30/55 (54%) Query: 111 FVNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVLE 165 V G+ V Q+L+ +E K + +P +G V++I VK G VE G +++ E Sbjct: 21 LVKVGDKVEAEQSLITVEGDKASMEVPSPQAGVVKEIKVKVGDKVETGALIMIFE 75 Score = 35.4 bits (82), Expect = 0.009 Identities = 19/58 (32%), Positives = 30/58 (51%) Query: 112 VNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVLEKTGD 169 V G+ V Q+L+ +E K + AP +G V++I V G V G ++V E G+ Sbjct: 125 VKVGDTVEAEQSLITVEGDKASMEVPAPFAGTVKEIKVNVGDKVSTGSLIMVFEVAGE 182 Score = 33.4 bits (77), Expect = 0.027 Identities = 18/57 (31%), Positives = 29/57 (50%) Query: 112 VNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVLEKTG 168 V G+ V Q+L+ +E K + AP +G V++I V G V+ G ++ E G Sbjct: 226 VKVGDKVEAEQSLITVEGDKASMEVPAPFAGTVKEIKVNVGDKVKTGSLIMRFEVEG 282 >gnl|CDD|180214 PRK05704, PRK05704, dihydrolipoamide succinyltransferase; Validated. Length = 407 Score = 34.8 bits (81), Expect = 0.012 Identities = 14/51 (27%), Positives = 25/51 (49%) Query: 111 FVNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDAL 161 G+ V + L+ IE K + + AP +G + +I ++G +V G L Sbjct: 23 HKKPGDAVKRDEVLVEIETDKVVLEVPAPAAGVLSEILAEEGDTVTVGQVL 73 >gnl|CDD|178556 PLN02973, PLN02973, beta-fructofuranosidase. Length = 571 Score = 33.5 bits (76), Expect = 0.027 Identities = 24/94 (25%), Positives = 38/94 (40%), Gaps = 8/94 (8%) Query: 17 ANILNETNLTEVEIDNDGMRIRLLRSPQKDTVTNYYSEDNKNNHSLVGFPPSSTIDNTPP 76 NI N +L+ ++ +D +LL P+ + S D ++ L G P DN Sbjct: 14 GNIKNVDSLSTLDDIDDIDFAKLLEKPRPLNIDRLRSLDERSLTELTGSPQLRNADNASR 73 Query: 77 ESDLIPLLSPDNYHTVTSPMVGTAYLASSPGSDP 110 +PD+ V SP G ++P S P Sbjct: 74 --------APDHADYVISPSFGRRSGFNTPRSQP 99 >gnl|CDD|182488 PRK10476, PRK10476, multidrug resistance protein MdtN; Provisional. Length = 346 Score = 33.1 bits (76), Expect = 0.041 Identities = 8/31 (25%), Positives = 19/31 (61%) Query: 135 HIVAPCSGKVQDINVKDGQSVEYGDALLVLE 165 H+ + G++ ++ V + Q+V+ GD L ++ Sbjct: 50 HVASEVGGRIVELAVTENQAVKKGDLLFRID 80 >gnl|CDD|162152 TIGR00998, 8a0101, efflux pump membrane protein (multidrug resistance protein A). Length = 334 Score = 32.5 bits (74), Expect = 0.056 Identities = 12/32 (37%), Positives = 19/32 (59%) Query: 136 IVAPCSGKVQDINVKDGQSVEYGDALLVLEKT 167 + + SG V ++NV D V+ GD L+ L+ T Sbjct: 45 VSSQVSGSVIEVNVDDTDYVKQGDVLVRLDPT 76 >gnl|CDD|130902 TIGR01843, type_I_hlyD, type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins. Length = 423 Score = 31.9 bits (73), Expect = 0.076 Identities = 10/29 (34%), Positives = 17/29 (58%) Query: 142 GKVQDINVKDGQSVEYGDALLVLEKTGDN 170 G V++I V++G V+ G L+ L+ T Sbjct: 52 GIVREILVREGDRVKAGQVLVELDATDVE 80 >gnl|CDD|132121 TIGR03077, not_gcvH, glycine cleavage protein H-like protein, Chlamydial. The H protein (GcvH) of the glycine cleavage system shuttles the methylamine group of glycine from the P protein to the T protein. Most Chlamydia but lack the P and T proteins, and have a single homolog of GcvH that appears deeply split from canonical GcvH in molecular phylogenetic trees. The protein family modeled here is observed the Chlamydial GcvH homolog, so far always seen as part of a two-gene operon, downstream of a member of the uncharacterized protein family TIGR03076. The function of this protein is unknown. Length = 110 Score = 31.8 bits (72), Expect = 0.10 Identities = 12/35 (34%), Positives = 25/35 (71%) Query: 115 GNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINV 149 G+ EG+ L+I+E+ K+ +++P SG+V ++N+ Sbjct: 41 GSSCKEGEVLVILESSKSAIEVLSPVSGEVIEVNI 75 >gnl|CDD|177871 PLN02226, PLN02226, 2-oxoglutarate dehydrogenase E2 component. Length = 463 Score = 31.6 bits (71), Expect = 0.11 Identities = 18/55 (32%), Positives = 29/55 (52%) Query: 115 GNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVLEKTGD 169 G V + + IE K I +P SG +Q+ VK+G +VE G + ++ K+ D Sbjct: 116 GERVQADEAIAQIETDKVTIDIASPASGVIQEFLVKEGDTVEPGTKVAIISKSED 170 >gnl|CDD|185477 PTZ00144, PTZ00144, dihydrolipoamide succinyltransferase; Provisional. Length = 418 Score = 30.8 bits (70), Expect = 0.20 Identities = 19/54 (35%), Positives = 28/54 (51%) Query: 115 GNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDINVKDGQSVEYGDALLVLEKTG 168 G+ V E + + IIE K I AP SG + I ++G +VE G L ++ G Sbjct: 69 GDYVKEDEVICIIETDKVSVDIRAPASGVITKIFAEEGDTVEVGAPLSEIDTGG 122 >gnl|CDD|167014 PRK00624, PRK00624, glycine cleavage system protein H; Provisional. Length = 114 Score = 30.6 bits (69), Expect = 0.21 Identities = 12/34 (35%), Positives = 24/34 (70%) Query: 115 GNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDIN 148 G+ EG+ L+I+E+ K+ +++P SG+V ++N Sbjct: 43 GSFCKEGEVLVILESSKSAIEVLSPVSGEVIEVN 76 >gnl|CDD|162505 TIGR01730, RND_mfp, RND family efflux transporter, MFP subunit. This model represents the MFP (membrane fusion protein) component of the RND family of transporters. RND refers to Resistance, Nodulation, and cell Division. It is, in part, a subfamily of pfam00529 (Pfam release 7.5) but hits substantial numbers of proteins missed by that model. The related HlyD secretion protein, for which pfam00529 is named, is outside the scope of this model. Attributed functions imply outward transport. These functions include nodulation, acriflavin resistance, heavy metal efflux, and multidrug resistance proteins. Most members of this family are found in Gram-negative bacteria. The proposed function of MFP proteins is to bring the inner and outer membranes together and enable transport to the outside of the outer membrane. Note, however, that a few members of this family are found in Gram-positive bacteria, where there is no outer membrane. Length = 322 Score = 30.0 bits (68), Expect = 0.36 Identities = 10/25 (40%), Positives = 17/25 (68%) Query: 141 SGKVQDINVKDGQSVEYGDALLVLE 165 +GK+ I+V++GQ V+ G L L+ Sbjct: 34 AGKITKISVREGQKVKKGQVLARLD 58 >gnl|CDD|147834 pfam05896, NQRA, Na(+)-translocating NADH-quinone reductase subunit A (NQRA). This family consists of several bacterial Na(+)-translocating NADH-quinone reductase subunit A (NQRA) proteins. The Na(+)-translocating NADH: ubiquinone oxidoreductase (Na(+)-NQR) generates an electrochemical Na(+) potential driven by aerobic respiration. Length = 257 Score = 29.4 bits (67), Expect = 0.49 Identities = 22/83 (26%), Positives = 31/83 (37%), Gaps = 19/83 (22%) Query: 67 PSSTIDNTPPESDLIPLLSPDNYHTVTSPMVGTAYLASSPGSDPFVNKGNLVVEGQTLLI 126 P I++ P + LL ++Y + M+ V +G+ V GQ L Sbjct: 16 PEQEIEDGPA-VRTVALL-GEDYVGMKPKML--------------VKEGDKVKAGQPLF- 58 Query: 127 IEAMKTMN-HIVAPCSGKVQDIN 148 E K AP SG V IN Sbjct: 59 -EDKKNPGVKFTAPASGTVVAIN 80 >gnl|CDD|150579 pfam09923, DUF2155, Uncharacterized protein conserved in bacteria (DUF2155). This domain, found in various hypothetical prokaryotic proteins, has no known function. Length = 91 Score = 29.1 bits (66), Expect = 0.58 Identities = 6/26 (23%), Positives = 15/26 (57%) Query: 141 SGKVQDINVKDGQSVEYGDALLVLEK 166 +G+ D+ +K G++ +G + L + Sbjct: 10 TGRTTDLELKVGETARFGALQVTLRE 35 >gnl|CDD|163506 TIGR03794, NHPM_micro_HlyD, NHPM bacteriocin system secretion protein. Members of this protein family are homologs of the HlyD membrane fusion protein of type I secretion systems. Their occurrence in prokaryotic genomes is associated with the occurrence of a novel class of microcin (small bacteriocins) with a propeptide region related to nitrile hydratase. We designate the class of bacteriocin as Nitrile Hydratase Propeptide Microcin, or NHPM. This family, therefore, is designated as NHPM bacteriocin system secretion protein. Some but not all NHPM-class putative microcins belong to the TOMM (thiazole/oxazole modified microcin) class as assessed by the presence of the scaffolding protein and/or cyclodehydratase in the same gene clusters. Length = 421 Score = 29.0 bits (65), Expect = 0.65 Identities = 13/33 (39%), Positives = 17/33 (51%) Query: 136 IVAPCSGKVQDINVKDGQSVEYGDALLVLEKTG 168 IV+ SG+V ++N GQ V G L LE Sbjct: 256 IVSQHSGRVIELNYTPGQLVAAGAPLASLEVED 288 >gnl|CDD|185374 PRK15477, PRK15477, oxaloacetate decarboxylase subunit beta; Provisional. Length = 433 Score = 27.2 bits (60), Expect = 2.1 Identities = 11/37 (29%), Positives = 22/37 (59%) Query: 94 SPMVGTAYLASSPGSDPFVNKGNLVVEGQTLLIIEAM 130 +P++G+A +++ P + NK L + Q L++ AM Sbjct: 373 NPLIGSAGVSAVPMAARVSNKVGLESDPQNFLLMHAM 409 >gnl|CDD|185372 PRK15475, PRK15475, oxaloacetate decarboxylase subunit beta; Provisional. Length = 433 Score = 27.2 bits (60), Expect = 2.1 Identities = 11/37 (29%), Positives = 22/37 (59%) Query: 94 SPMVGTAYLASSPGSDPFVNKGNLVVEGQTLLIIEAM 130 +P++G+A +++ P + NK L + Q L++ AM Sbjct: 373 NPLIGSAGVSAVPMAARVSNKVGLESDPQNFLLMHAM 409 >gnl|CDD|183742 PRK12784, PRK12784, hypothetical protein; Provisional. Length = 84 Score = 26.8 bits (59), Expect = 2.6 Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 1/56 (1%) Query: 111 FVNKGNLVVEGQTLLIIEAMK-TMNHIVAPCSGKVQDINVKDGQSVEYGDALLVLE 165 FVN+ + V E + L++I + + SG ++ +NV GQ + L+ LE Sbjct: 20 FVNESSYVYEWEKLMMIRKNNGELEKVAVGISGNIRLVNVVVGQQIHTDTLLVRLE 75 Score = 25.3 bits (55), Expect = 8.6 Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 1/38 (2%) Query: 130 MKT-MNHIVAPCSGKVQDINVKDGQSVEYGDALLVLEK 166 MKT M I + GKV++I V + V + L+++ K Sbjct: 1 MKTRMEEICSSYEGKVEEIFVNESSYVYEWEKLMMIRK 38 >gnl|CDD|162617 TIGR01945, rnfC, electron transport complex, RnfABCDGE type, C subunit. The six subunit complex RnfABCDGE in Rhodobacter capsulatus encodes an apparent NADH oxidoreductase responsible for electron transport to nitrogenase, necessary for nitrogen fixation. A closely related complex in E. coli, RsxABCDGE (Reducer of SoxR), reduces the 2Fe-2S-containing superoxide sensor SoxR, active as a transcription factor when oxidized. This family of putative NADH oxidoreductase complexes exists in many of the same species as the related NQR, a Na(+)-translocating NADH-quinone reductase, but is distinct. This model describes the C subunit. Length = 435 Score = 26.9 bits (60), Expect = 2.7 Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 1/39 (2%) Query: 109 DPFVNKGNLVVEGQTLLIIEAMKTMNHIVAPCSGKVQDI 147 +P V G+ V++GQ + + + I AP SG V I Sbjct: 44 EPIVKVGDKVLKGQKIAKADGFVSAP-IHAPTSGTVVAI 81 >gnl|CDD|185373 PRK15476, PRK15476, oxaloacetate decarboxylase subunit beta; Provisional. Length = 433 Score = 26.9 bits (59), Expect = 3.0 Identities = 11/37 (29%), Positives = 22/37 (59%) Query: 94 SPMVGTAYLASSPGSDPFVNKGNLVVEGQTLLIIEAM 130 +P++G+A +++ P + NK L + Q L++ AM Sbjct: 373 NPLIGSAGVSAVPMAARVSNKVGLESDPQNFLLMHAM 409 >gnl|CDD|179544 PRK03140, PRK03140, phosphatidylserine decarboxylase; Provisional. Length = 259 Score = 26.1 bits (58), Expect = 5.0 Identities = 9/16 (56%), Positives = 12/16 (75%) Query: 84 LSPDNYHTVTSPMVGT 99 LSP +YH + SP+ GT Sbjct: 133 LSPSHYHRIHSPISGT 148 >gnl|CDD|184753 PRK14581, hmsF, outer membrane N-deacetylase; Provisional. Length = 672 Score = 26.1 bits (57), Expect = 5.3 Identities = 10/26 (38%), Positives = 14/26 (53%) Query: 64 GFPPSSTIDNTPPESDLIPLLSPDNY 89 G+ P + I PP D+ P+LS Y Sbjct: 643 GYYPDNFITGEPPLKDVRPVLSSAWY 668 >gnl|CDD|180288 PRK05850, PRK05850, acyl-CoA synthetase; Validated. Length = 578 Score = 25.3 bits (56), Expect = 9.4 Identities = 14/39 (35%), Positives = 18/39 (46%), Gaps = 2/39 (5%) Query: 72 DNTPP--ESDLIPLLSPDNYHTVTSPMVGTAYLASSPGS 108 + PP E DL+ L SP + TAYL + GS Sbjct: 133 QSAPPVIEVDLLDLDSPRGSDARPRDLPSTAYLQYTSGS 171 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 0.311 0.131 0.366 Gapped Lambda K H 0.267 0.0623 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 2,696,728 Number of extensions: 159754 Number of successful extensions: 283 Number of sequences better than 10.0: 1 Number of HSP's gapped: 277 Number of HSP's successfully gapped: 57 Length of query: 171 Length of database: 5,994,473 Length adjustment: 87 Effective length of query: 84 Effective length of database: 4,114,577 Effective search space: 345624468 Effective search space used: 345624468 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.8 bits) S2: 54 (24.8 bits)