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)