RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780719|ref|YP_003065132.1| zinc uptake ABC transporter, permease protein [Candidatus Liberibacter asiaticus str. psy62] (260 letters) >gnl|CDD|109985 pfam00950, ABC-3, ABC 3 transport family. Length = 258 Score = 171 bits (436), Expect = 1e-43 Identities = 83/256 (32%), Positives = 153/256 (59%) Query: 4 EFFIRALFSGIGIVLSTGPLGCFIIWQRIAYFGDTIAHSALLGVALSLIFQLPLTICIFM 63 EF RAL + I + L+ G LG F++ +R + GD ++H+ L GVAL+ + I F+ Sbjct: 3 EFMQRALLASILVSLACGILGSFLVLRRQSLMGDALSHAVLPGVALAFFLGINPLIGAFL 62 Query: 64 IATLTSLVLLQIQKNEALSSDAILGVITHSTISLALVILSFMKWVNTDLTSFLFGDILAV 123 + ++ + +++N L D +G++ S ++L L+++S +K DL +LFG+IL + Sbjct: 63 FGLIAAVAIGYLRRNSRLKEDTAIGIVFSSFLALGLLLISLIKGSAVDLDHYLFGNILGI 122 Query: 124 NTTDILLIWGIGFLNIMILFKIWKPLLATTVNYELAKAEGMQPEKIKLIFIMITSLMISV 183 + D++ I I + +++L WK LL T + + AK G+ + + L+ +++ +L I V Sbjct: 123 SQEDLIQIAIITAIILLLLLLFWKELLLITFDPDHAKVIGLPVQFLYLLLLILLALTIVV 182 Query: 184 SIKFIGITLITSLLILPTVTARRFSTSPENMAILATIIGILGIIIGLYGSLIFDTPSGPS 243 +++ +G L+ +LLI P TAR + S E+M ++A+ IG++ + GL S FDTP+GP Sbjct: 183 AMQAVGAILVIALLITPAATARLLTRSFESMMLIASAIGMVSSVAGLLLSYYFDTPTGPV 242 Query: 244 IIITSLFLFILSFFYK 259 I++ + LF++SF + Sbjct: 243 IVLIATLLFLISFAFA 258 >gnl|CDD|31305 COG1108, ZnuB, ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]. Length = 274 Score = 155 bits (393), Expect = 1e-38 Identities = 88/257 (34%), Positives = 154/257 (59%) Query: 4 EFFIRALFSGIGIVLSTGPLGCFIIWQRIAYFGDTIAHSALLGVALSLIFQLPLTICIFM 63 +F AL + + I ++ G LG F++ +R++ GD ++H+ L GVAL + + + F+ Sbjct: 12 DFMQNALLASLLIGIACGLLGTFLVLRRMSLMGDALSHAVLPGVALGFLLGINPLLGAFI 71 Query: 64 IATLTSLVLLQIQKNEALSSDAILGVITHSTISLALVILSFMKWVNTDLTSFLFGDILAV 123 L +L++ +++ L D +G++ S ++L LV+LS + DL +LFGDILAV Sbjct: 72 FGLLAALLIGYLRRRSKLKEDTAIGIVFSSGLALGLVLLSLVPSSRVDLMHYLFGDILAV 131 Query: 124 NTTDILLIWGIGFLNIMILFKIWKPLLATTVNYELAKAEGMQPEKIKLIFIMITSLMISV 183 + +D+LLI IG L +++L ++ LL T + E A+ G+ + + +++ +L I Sbjct: 132 SRSDLLLIAIIGALVLLLLLLFYRELLLLTFDPEFARVLGLNVRLLHYLLLVLLALTIVA 191 Query: 184 SIKFIGITLITSLLILPTVTARRFSTSPENMAILATIIGILGIIIGLYGSLIFDTPSGPS 243 +IK +G L+++LLI+P TAR + S M I+A +IG+L ++GLY S D PSGP+ Sbjct: 192 AIKAVGALLVSALLIIPAATARLLTKSFRQMLIIAVLIGLLSSVLGLYLSYYLDLPSGPA 251 Query: 244 IIITSLFLFILSFFYKK 260 I++ + LF+LSF + Sbjct: 252 IVLIAALLFLLSFLFGP 268 >gnl|CDD|119348 cd06550, TM_ABC_iron-siderophores_like, Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of a PBP, two TMs, and two cytoplasmic ABCs, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The TMs are bundles of alpha helices that transverse the cytoplasmic membrane multiple times. The two ABCs bind and hydrolyze ATP and drive the transport reaction. Each TM has a prominent cytoplasmic loop which contacts an ABC and represents a conserved motif. The two TMs form either a homodimer (e.g. in the case of the BtuC subunits of the Escherichia coli BtuCD vitamin B12 transporter), a heterodimer (e.g. the TroC and TroD subunits of the Treponema pallidum general transition metal transporter, TroBCD), or a pseudo-heterodimer (e.g. the FhuB protein of the E. coli ferrichrome transporter, FhuBC). FhuB contains two tandem TMs which associate to form the pseudo-heterodimer. Both FhuB TMs are found in this hierarchy.. Length = 261 Score = 101 bits (255), Expect = 1e-22 Identities = 61/262 (23%), Positives = 120/262 (45%), Gaps = 12/262 (4%) Query: 6 FIRALFSGIGIVLSTGPLGCFIIWQRIAYFGDTIAHSALLGVALSLIFQ-----LPLTIC 60 + AL G + +S L + + I+H ALLGV L+L+ L Sbjct: 1 LLAALLVGAALAVSGAILQSLTRNRLASPSILGISHGALLGVVLALLLGIGLSNYALGAF 60 Query: 61 IFMIATLTSLV--LLQIQKNEALSSDAILGVITHSTISLALVILS-FMKWVNTDLTSFLF 117 F A +L+ LL + + S ++G++ + S ++++S DL +LF Sbjct: 61 AFAGALAIALLVLLLASRGGLSPSKLILIGIVLSAFFSAGVILISLLSDDSLQDLNIWLF 120 Query: 118 GDILAVNTTDILLIWGIGFLNIMILFKIWKPLLATTVNYELAKAEGMQPEKIKLIFIMIT 177 G IL V D+L++ I L +++L + + L T + +LAK+ G+ ++L+ +++ Sbjct: 121 GSILGVTWEDLLILLIILLLVLLLLLLLSRKLNLLTFDEDLAKSLGINVNLLRLLLLLLV 180 Query: 178 SLMISVSIKFIGITLITSLLILPTVTARRFSTSPENMAILATIIGILGIIIGLYGSLIF- 236 +L++ ++ +G+ L LI P + R F S + L+ ++G + +++G S Sbjct: 181 ALLVVAAVALVGVILF-VGLIAPHLARRLFGRSHRYLLPLSALLGAILLLLGDLLSRTLL 239 Query: 237 --DTPSGPSIIITSLFLFILSF 256 + P GP + F+ Sbjct: 240 PSELPVGPVTALLGAPYFLYLL 261 >gnl|CDD|29616 cd01569, PBEF_like, pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general, nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction in the NAD salvage synthesis.. Length = 407 Score = 31.0 bits (70), Expect = 0.35 Identities = 11/41 (26%), Positives = 19/41 (46%) Query: 120 ILAVNTTDILLIWGIGFLNIMILFKIWKPLLATTVNYELAK 160 ++ V TD W +L ++L +W P T++ E K Sbjct: 113 LMTVENTDPDFFWLTNYLETILLRNVWYPSTVATISREYKK 153 >gnl|CDD|144573 pfam01032, FecCD, FecCD transport family. This is a sub-family of bacterial binding protein-dependent transport systems family. This Pfam entry contains the inner components of this multicomponent transport system. Length = 312 Score = 30.2 bits (69), Expect = 0.63 Identities = 28/163 (17%), Positives = 78/163 (47%), Gaps = 11/163 (6%) Query: 39 IAHSALLGVALSLIF------QLPLTICIFMIATLTSLVLLQIQKNEALSSDAIL---GV 89 ++ A LG L+++ L + F+ A L +L++L + + S L G+ Sbjct: 79 VSSGAALGAVLAILLFGGSLSIFGLPLAAFIGALLAALLVLLLARKRGGLSPLRLILAGI 138 Query: 90 ITHSTIS--LALVILSFMKWVNTDLTSFLFGDILAVNTTDILLIWGIGFLNIMILFKIWK 147 + S +L++L + +L G + + +D+L++ + + +++L + + Sbjct: 139 AVSALFSALTSLLLLLADPEALQSILFWLLGSLSGASWSDVLILLPLLLIGLLLLLLLAR 198 Query: 148 PLLATTVNYELAKAEGMQPEKIKLIFIMITSLMISVSIKFIGI 190 L + ++AK+ G+ +++L+ +++ +L+ + ++ +G Sbjct: 199 KLNLLALGDDVAKSLGVNVNRVRLLLLLLAALLTAAAVALVGP 241 >gnl|CDD|31423 COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]. Length = 296 Score = 27.9 bits (62), Expect = 2.8 Identities = 11/67 (16%), Positives = 28/67 (41%) Query: 189 GITLITSLLILPTVTARRFSTSPENMAILATIIGILGIIIGLYGSLIFDTPSGPSIIITS 248 + LI L++ +R P ++ I+G+++ L +L+ ++ + Sbjct: 98 ALLLIVVSLLILWEAIQRLLAPPPIHYSGMLVVAIIGLVVNLVSALLLHKGHEENLNMRG 157 Query: 249 LFLFILS 255 +L +L Sbjct: 158 AYLHVLG 164 >gnl|CDD|37146 KOG1935, KOG1935, KOG1935, Membrane protein Patched/PTCH [Signal transduction mechanisms]. Length = 1143 Score = 26.8 bits (59), Expect = 5.6 Identities = 25/135 (18%), Positives = 49/135 (36%), Gaps = 21/135 (15%) Query: 42 SALLGVALSLIFQLPLTICIFMIATLTSLVLL-------QIQKNEALSSDAILGVITHST 94 LLG+ LS I + L + + T V L + + + + ++H Sbjct: 963 MGLLGIKLSAIPAVILIASVGIGVEFTVHVALGFLTALGTRSQRASSALQHMFVPVSHGA 1022 Query: 95 ISLALVILSFMKWVNTDLTSFLFGDILAVNTTDILLIWGIGFLNIMILFKIWKPLLATTV 154 +S L +L + + F + + +G LN +++ P+L + V Sbjct: 1023 LSTLLGVLMLSFSEFDFVVRYFFAVLTVLTC--------LGVLNGLVVL----PVLLSLV 1070 Query: 155 N--YELAKAEGMQPE 167 EL+ +G P Sbjct: 1071 GPKPELSPTDGSSPL 1085 >gnl|CDD|113375 pfam04602, Arabinose_trans, Mycobacterial cell wall arabinan synthesis protein. Arabinosyltransferase is involved in arabinogalactan (AG) biosynthesis pathway in mycobacteria. AG is a component of the macromolecular assembly of the mycolyl-AG-peptidoglycan complex of the cell wall. This enzyme has important clinical applications as it is believed to be the target of the antimycobacterial drug Ethambutol. Length = 1075 Score = 26.7 bits (59), Expect = 6.4 Identities = 14/36 (38%), Positives = 18/36 (50%) Query: 206 RFSTSPENMAILATIIGILGIIIGLYGSLIFDTPSG 241 RFSTSP + + A I+GI +I L D G Sbjct: 193 RFSTSPTLLKLAAMILGIAATVIALVALWRLDRLDG 228 >gnl|CDD|177100 MTH00004, ND5, NADH dehydrogenase subunit 5; Validated. Length = 602 Score = 26.3 bits (59), Expect = 9.8 Identities = 23/67 (34%), Positives = 31/67 (46%), Gaps = 2/67 (2%) Query: 192 LITSLLILPTVTARRFSTSPENMAILATIIGILGIIIGLYGSLIFDTPSGPSIIITSLFL 251 L+ S ILPT T T P + A I+ ILGI++ L S + T + P F Sbjct: 465 LLISSTILPTKTP--PMTMPTTTKLAALIVTILGILLALELSNMTTTLTPPKQNTLHNFS 522 Query: 252 FILSFFY 258 L+FF Sbjct: 523 NQLAFFN 529 Database: CddA Posted date: Feb 4, 2011 9:38 PM Number of letters in database: 6,263,737 Number of sequences in database: 21,609 Lambda K H 0.331 0.145 0.424 Gapped Lambda K H 0.267 0.0736 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 3,131,016 Number of extensions: 174524 Number of successful extensions: 1204 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1152 Number of HSP's successfully gapped: 256 Length of query: 260 Length of database: 6,263,737 Length adjustment: 92 Effective length of query: 168 Effective length of database: 4,275,709 Effective search space: 718319112 Effective search space used: 718319112 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.9 bits) S2: 56 (25.3 bits)