RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780551|ref|YP_003064964.1| tolQ protein [Candidatus
Liberibacter asiaticus str. psy62]
(230 letters)
>gnl|CDD|131843 TIGR02796, tolQ, TolQ protein. TolQ is one of the essential
components of the Tol-Pal system. Together with TolR, it
harnesses protonmotive force to energize TolA, which
spans the periplasm to reach the complex of TolB and Pal
at the outer member. The tol-pal system proves to be
important for maintaining outer membrane integrity. Gene
pairs similar to the TolQ and TolR gene pair often
number several per genome, but this model describes
specificially TolQ per se, as found in tol-pal operons.
A close homolog, excluded from this model, is ExbB of
the ExbB/ExbD/TonB protein complex, which powers
transport of siderophores and vitamin B12 across the
bacterial outer membrane. The Tol-Pal system is
exploited by colicin and filamentous phage DNA to enter
the cell. It is also implicated in pathogenesis in
several bacterial species.
Length = 215
Score = 200 bits (510), Expect = 3e-52
Identities = 86/215 (40%), Positives = 123/215 (57%), Gaps = 3/215 (1%)
Query: 12 SIFALFMQMGLAVKCIITLLFIFSILSWSVIIQKSVNFITLRRQFREFEQLFWSGQSLET 71
SI LF+Q VK ++ +L + SI+SW++I QK F RR+ EFE FWSG LE
Sbjct: 1 SILDLFLQASFVVKLVMLILLLASIISWAIIFQKFFIFRRARREAEEFEDRFWSGGDLEK 60
Query: 72 VCKSLKNHHNI-GLAAIFMSAMSEWKKSCDKGARSPIGIQDRIDRMMDVAIARELEEITE 130
+ SL N+ GL +IF + E+ + KG P + +RIDR M VA+ RE E++
Sbjct: 61 LYNSLSNNKPTSGLESIFCAGFKEFSRLKSKGELDPGVVIERIDRAMRVALNRESEKLES 120
Query: 131 KLSFLGSMSSAGLLVGILGAVLGMMGFFQSIAGYYSNNVVSI--PGIIESLISILLGLCV 188
L FL ++ S +G+ G V G+M FQ+I G + +++ PGI E+LI+ +GL
Sbjct: 121 GLPFLATIGSTSPFIGLFGTVWGIMHSFQAIGGSKNQATLAVVAPGIAEALIATAIGLFA 180
Query: 189 SIPSSIAYNKFIEDSKKFAMQMEGFANEFSAILSR 223
+IP+ IAYNK K + E FA+EFS IL R
Sbjct: 181 AIPAVIAYNKLSTQVNKIEQRYENFADEFSTILQR 215
>gnl|CDD|182743 PRK10801, PRK10801, colicin uptake protein TolQ; Provisional.
Length = 227
Score = 112 bits (282), Expect = 6e-26
Identities = 68/217 (31%), Positives = 114/217 (52%), Gaps = 3/217 (1%)
Query: 11 ISIFALFMQMGLAVKCIITLLFIFSILSWSVIIQKSVNFITLRRQFREFEQLFWSGQSLE 70
++I LF++ L VK I+ +L FSI SW++IIQ++ R+ FE FWSG L
Sbjct: 1 MNILDLFLKASLLVKLIMLILIGFSIASWAIIIQRTRILNAAAREAEAFEDKFWSGIELS 60
Query: 71 TVCKSLKNHHNI--GLAAIFMSAMSEWKKSCDKGARSPIGIQDRIDRMMDVAIARELEEI 128
+ + + + G IF S E+ + + +P + + R M +++ RELE +
Sbjct: 61 RLYQESQGRRDNLSGSEQIFYSGFKEFVRLHRANSHAPEAVVEGASRAMRISMNRELETL 120
Query: 129 TEKLSFLGSMSSAGLLVGILGAVLGMMGFFQSIAGYYSNNVVSI-PGIIESLISILLGLC 187
+ FLG++ S +G+ G V G+M F ++ + + PGI E+LI+ +GL
Sbjct: 121 ETHIPFLGTVGSISPYIGLFGTVWGIMHAFIALGAVKQATLQMVAPGIAEALIATAIGLF 180
Query: 188 VSIPSSIAYNKFIEDSKKFAMQMEGFANEFSAILSRQ 224
+IP+ +AYN+ + K + + F EF+AIL RQ
Sbjct: 181 AAIPAVMAYNRLNQRVNKLELNYDNFMEEFTAILHRQ 217
>gnl|CDD|131844 TIGR02797, exbB, tonB-system energizer ExbB. This model describes
ExbB proteins, part of the MotA/TolQ/ExbB protein
family. The paired proteins MotA and MotB, TolQ and
TolR, and ExbB and ExbD harness the proton-motive force
to drive the flagellar motor, energize the Tol-Pal
system, or energize TonB, respectively. Tol-Pal and TonB
are both active at the outer membrane. Genomes may have
many different TonB-dependent receptors, of which many
of those characterized are involved in siderophore
transport across the outer membrane.
Length = 211
Score = 77.1 bits (190), Expect = 4e-15
Identities = 48/189 (25%), Positives = 93/189 (49%), Gaps = 3/189 (1%)
Query: 12 SIFALFMQMGLAVKCIITLLFIFSILSWSVIIQKSVNFITLRRQFREFEQLFWSGQSLET 71
S + +F+ + VK ++ L + S+++W++ I KSV RR+ + + ++L
Sbjct: 1 SPWGMFLAADIVVKAVMIGLALASVVTWTIWIAKSVELAGARRRLKRALKALGEARTLAE 60
Query: 72 VCKSLKNHHNIGLAAIFMSAMSEWKKSCDKGARSPIGIQDRIDRMMDVAIARELEEITEK 131
++L + AA+ +A E + S G GI++R+ ++ A ++
Sbjct: 61 AQEALGDRGGPA-AALVRAAEEEMELS-AAGLSDGEGIKERVASRLERIEAAAGRRMSRG 118
Query: 132 LSFLGSMSSAGLLVGILGAVLGMMGFFQSIAGYYSNNV-VSIPGIIESLISILLGLCVSI 190
L ++ + VG+ G V G+M F I+ + N+ V PGI E+L++ +GL +I
Sbjct: 119 TGVLATIGATAPFVGLFGTVWGIMNSFIGISKSQTTNLAVVAPGIAEALLATAIGLVAAI 178
Query: 191 PSSIAYNKF 199
P+ + YN F
Sbjct: 179 PAVVIYNVF 187
>gnl|CDD|182439 PRK10414, PRK10414, biopolymer transport protein ExbB; Provisional.
Length = 244
Score = 74.5 bits (183), Expect = 2e-14
Identities = 50/193 (25%), Positives = 101/193 (52%), Gaps = 4/193 (2%)
Query: 9 MDISIFALFMQMGLAVKCIITLLFIFSILSWSVIIQKSVNFITLRRQFREFEQLFWSGQS 68
D+S++ ++ + VKC++ L + S+++W++ KSV F +R+ + +QL +S
Sbjct: 8 TDLSVWGMYQHADIVVKCVMIGLILASVVTWAIFFSKSVEFFNQKRRLKREQQLLAEARS 67
Query: 69 LETVCKSLKNHHNIGLAAIFMS-AMSEWKKSCDKGARSPIGIQDRIDRMMDVAIARELEE 127
L+ + + L+ ++ A +E + S +G+ GI++R ++ +A +
Sbjct: 68 LDQANDIAADFGSKSLSLHLLNEAQNELELS--EGSDDNEGIKERTSFRLERRVAAVGRQ 125
Query: 128 ITEKLSFLGSMSSAGLLVGILGAVLGMMGFFQSIAGYYSNNV-VSIPGIIESLISILLGL 186
+ +L ++ + VG+ G V G+M F IA + N+ V PGI E+L++ +GL
Sbjct: 126 MGRGNGYLATIGAISPFVGLFGTVWGIMNSFIGIAQTQTTNLAVVAPGIAEALLATAIGL 185
Query: 187 CVSIPSSIAYNKF 199
+IP+ + YN F
Sbjct: 186 VAAIPAVVIYNVF 198
>gnl|CDD|131852 TIGR02805, exbB2, tonB-system energizer ExbB, group 2. Members of
this protein family appear to be the ExbB protein of an
ExbBD proton-transporting membrane complex that, by
means of TonB, energizes transport by TonB-dependent
receptors. Note that this family represents one of at
least two distinct groups TolQ homologs designated ExbB
- see also TIGR02797. Each group associates with a
distinct group of ExbD proteins, and a single species
may have two ExbB/ExbD/TonB systems.
Length = 138
Score = 35.5 bits (82), Expect = 0.011
Identities = 22/73 (30%), Positives = 40/73 (54%), Gaps = 3/73 (4%)
Query: 127 EITEKLSFLGSMSSAGLLVGILGAVLGMMGFFQSI--AGYYSNNVVSIPGIIESLISILL 184
++ L+ + + S +G+LG V+G+M F + G +V+ + G+ +L + L
Sbjct: 50 DLNRNLTVISIIGSNAPYIGLLGTVIGIMVTFYQMGHGGGIDPSVIML-GLSLALKATAL 108
Query: 185 GLCVSIPSSIAYN 197
GL V+IPS + YN
Sbjct: 109 GLLVAIPSLVFYN 121
>gnl|CDD|172363 PRK13836, PRK13836, conjugal transfer protein TrbF; Provisional.
Length = 220
Score = 29.8 bits (67), Expect = 0.61
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 126 EEITEKLSFLGSMSSAGLLVGILGAVLGMMGFFQSIAGYYSNNVVSIPGIIE 177
+E E+ ++A +VGILG + ++GF A Y S V +P I+E
Sbjct: 16 QEWNERYGSYVKAAAAWRIVGILGLTMAVIGF--GYALYQSTQVKLVPYIVE 65
>gnl|CDD|179889 PRK04885, ppnK, inorganic polyphosphate/ATP-NAD kinase;
Provisional.
Length = 265
Score = 29.4 bits (67), Expect = 0.71
Identities = 11/15 (73%), Positives = 12/15 (80%), Gaps = 1/15 (6%)
Query: 185 GLCVSIPS-SIAYNK 198
GLCVS P+ S AYNK
Sbjct: 150 GLCVSTPTGSTAYNK 164
>gnl|CDD|115462 pfam06805, Lambda_tail_I, Bacteriophage lambda tail assembly
protein I. This family consists of several
Bacteriophage lambda tail assembly protein I and related
phage and bacterial sequences. Members of this family
are typically around 200 residues in length. The
function of this family is unknown.
Length = 194
Score = 28.2 bits (63), Expect = 1.9
Identities = 21/83 (25%), Positives = 35/83 (42%), Gaps = 3/83 (3%)
Query: 103 ARSPIGIQDRIDRMMDVAIARELEEITEKLSFLGSMSSAGLLVGILGAVLGMMGFFQSIA 162
A I + + R+ + + I ++ GS GL ILGAVL + GFF + A
Sbjct: 53 AGKNISVDELTARLHEPLPGGAVIRIVPVVA--GS-KKGGLFQTILGAVLIVAGFFTAGA 109
Query: 163 GYYSNNVVSIPGIIESLISILLG 185
+ + + S++LG
Sbjct: 110 SAGAGAAGAGAFLFSLGASMVLG 132
>gnl|CDD|181950 PRK09556, uhpT, sugar phosphate antiporter; Reviewed.
Length = 467
Score = 27.7 bits (62), Expect = 2.4
Identities = 11/35 (31%), Positives = 21/35 (60%)
Query: 137 SMSSAGLLVGILGAVLGMMGFFQSIAGYYSNNVVS 171
S+ S + +G++ A+ + GFFQS G S + ++
Sbjct: 114 SLGSGSVSLGLMIALWALSGFFQSTGGPCSYSTIT 148
>gnl|CDD|179210 PRK01030, PRK01030, tetrahydromethanopterin S-methyltransferase
subunit C; Provisional.
Length = 264
Score = 27.6 bits (62), Expect = 3.0
Identities = 17/77 (22%), Positives = 31/77 (40%), Gaps = 13/77 (16%)
Query: 135 LGSMSSAGLLVGILGAVLGMM-GFFQSIAGYYSNNVVS--IPGIIESLISI-------LL 184
+G L I+ ++ + G + G +NNVV IP + S+ + +L
Sbjct: 86 IGDALGIVLAGPIVALIIAAIIGA---VVGKLANNVVGMKIPIMERSMTELSGAGALAIL 142
Query: 185 GLCVSIPSSIAYNKFIE 201
G +I S ++ I
Sbjct: 143 GFSTAIAGSFDFDAIIT 159
>gnl|CDD|162643 TIGR01989, COQ6, Ubiquinone biosynthesis mono0xygenase COQ6. This
model represents the monooxygenase responsible for the
4-hydroxylateion of the phenol ring in the aerobic
biosynthesis of ubiquinone.
Length = 437
Score = 27.0 bits (60), Expect = 4.0
Identities = 17/53 (32%), Positives = 21/53 (39%), Gaps = 5/53 (9%)
Query: 135 LGSMSS-AGLLVGILGAVLGM---MGFFQSIAGYYSNNVVSI-PGIIESLISI 182
LG+ L V +L AV ++ G YSN V SI P I I
Sbjct: 19 LGNNPLTKDLKVLLLDAVDNPKLKSRNYEKPDGPYSNRVSSITPASISFFKKI 71
>gnl|CDD|183338 PRK11855, PRK11855, dihydrolipoamide acetyltransferase; Reviewed.
Length = 547
Score = 26.7 bits (60), Expect = 4.6
Identities = 20/71 (28%), Positives = 30/71 (42%), Gaps = 25/71 (35%)
Query: 68 SLETVCKSL--KNHHNIGLAAIFMSAMSEWKKSCDKGARSPIG-----IQDRIDRMMDVA 120
SL+ L K + NIG A D +P G I+D +D+ +
Sbjct: 397 SLDEDGDELTYKKYFNIGFAV-------------D----TPNGLVVPVIKD-VDKKSLLE 438
Query: 121 IARELEEITEK 131
IARE+ E+ +K
Sbjct: 439 IAREIAELAKK 449
>gnl|CDD|129816 TIGR00733, TIGR00733, putative oligopeptide transporter, OPT
family. This protein represents a small family of
integral membrane proteins from Gram-negative bacteria,
a Gram-positive bacteria, and an archaeal species.
Members of this family contain 15 to 18 GES predicted
transmembrane regions, and this family has extensive
homology to a family of yeast tetrapeptide transporters,
including isp4 (Schizosaccharomyces pombe) and Opt1
(Candida albicans). EspB, an apparent equivalog from
Myxococcus xanthus, shares an operon with a two
component system regulatory protein, and is required for
the normal timing of sporulation after the aggregation
of cells. This is consistent with a role in transporting
oligopeptides as signals across the membrane.
Length = 591
Score = 26.4 bits (58), Expect = 7.0
Identities = 13/41 (31%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 106 PIGIQDRIDRMMDVAIARELEEITEKLSFLGSMSSAGLLVG 146
PI + + R++ +E E T+K G + +AGL+VG
Sbjct: 539 PILLGAFLARILVSRGRKEGESFTDKKRL-GVLGAAGLIVG 578
>gnl|CDD|131878 TIGR02831, spo_II_M, stage II sporulation protein M. A comparative
genome analysis of all sequenced genomes of shows a
number of proteins conserved strictly among the
endospore-forming subset of the Firmicutes. This
predicted integral membrane protein is designated stage
II sporulation protein M.
Length = 200
Score = 26.1 bits (58), Expect = 8.6
Identities = 14/35 (40%), Positives = 18/35 (51%)
Query: 142 GLLVGILGAVLGMMGFFQSIAGYYSNNVVSIPGII 176
G VG L LGM G + G N++ IPGI+
Sbjct: 105 GFTVGFLVNQLGMKGVLLAFLGVLPQNLIIIPGIL 139
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
0.325 0.138 0.394
Gapped
Lambda K H
0.267 0.0808 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,694,624
Number of extensions: 236207
Number of successful extensions: 937
Number of sequences better than 10.0: 1
Number of HSP's gapped: 925
Number of HSP's successfully gapped: 49
Length of query: 230
Length of database: 5,994,473
Length adjustment: 90
Effective length of query: 140
Effective length of database: 4,049,753
Effective search space: 566965420
Effective search space used: 566965420
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (24.8 bits)