RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254781113|ref|YP_003065526.1| amino acid ABC transporter
(permease) [Candidatus Liberibacter asiaticus str. psy62]
(226 letters)
>gnl|CDD|185055 PRK15100, PRK15100, amino acid ABC transporter permease;
Provisional.
Length = 220
Score = 185 bits (471), Expect = 9e-48
Identities = 91/217 (41%), Positives = 137/217 (63%), Gaps = 2/217 (0%)
Query: 4 EWFNLIIDSFPQLLYAAIVVTLPIACISFVISLIIGFFIAVIRIFFSDTIISLIMHFYVW 63
E L+IDS P LL A TL ++ L++GF +A++R+ + + FYV
Sbjct: 3 ESIQLVIDSAPFLLKGA-GYTLQLSIGGMFFGLLLGFILALMRLSPI-WPVRWLARFYVS 60
Query: 64 IFRGTPLLVQLFVIFYGLPHIGIVFDSFVAIIISLTLNFSAYISEIIRSSIISIPKGQWD 123
IFRGTPL+ QLF+I+YGLP GI D A +I L+LN +AY +E +R++I SI KGQW+
Sbjct: 61 IFRGTPLIAQLFMIYYGLPQFGIELDPIPAAMIGLSLNTAAYAAETLRAAISSIDKGQWE 120
Query: 124 ASYAIGLTRKQTIRHIILPQTITTSAVPLSSEFISILKSTSVASTITIPEIFQTAQRIVS 183
A+ +IG+TR QT+R ILPQ T+ PLS+ FIS++K TS+A+TI +PE+F+ AQ I S
Sbjct: 121 AAASIGMTRWQTLRRAILPQAARTALPPLSNSFISLVKDTSLAATIQVPELFRQAQLITS 180
Query: 184 TTYQPLIIYCELAFVYLILTSFCYIIQIKIESSVTQH 220
T + +Y + +Y I+ + +Q + E+ + +
Sbjct: 181 RTLEVFTMYLAASLIYWIMATVLSALQNRFENQLNRQ 217
>gnl|CDD|132048 TIGR03003, ectoine_ehuD, ectoine/hydroxyectoine ABC transporter,
permease protein EhuD. Members of this family are
presumed to act as permease subunits of ectoine ABC
transporters. Operons containing this gene also contain
the other genes of the ABC transporter and typically are
found next to either ectoine utilization or ectoine
biosynthesis operons.
Length = 212
Score = 127 bits (320), Expect = 3e-30
Identities = 70/204 (34%), Positives = 116/204 (56%), Gaps = 3/204 (1%)
Query: 3 YEWFNLIIDSFPQLLYAAIVVTLPIACISFVISLIIGFFIAVIRIFFSDTIISLIMHFYV 62
++W + P L+ + T+ + F I+ ++G A++R + T IS F V
Sbjct: 1 WDW-EFVRQILPTLIEGLKI-TILATALGFAIAAVLGLVFAILRRS-APTPISWPTSFVV 57
Query: 63 WIFRGTPLLVQLFVIFYGLPHIGIVFDSFVAIIISLTLNFSAYISEIIRSSIISIPKGQW 122
RGTPLLVQL+ ++Y LP IGI + VA ++ L L+++ Y +E+ R+ I ++P+GQW
Sbjct: 58 EFIRGTPLLVQLYFLYYVLPDIGIRLPALVAGVLGLGLHYATYAAEVYRAGIEAVPRGQW 117
Query: 123 DASYAIGLTRKQTIRHIILPQTITTSAVPLSSEFISILKSTSVASTITIPEIFQTAQRIV 182
+A+ A+ LT +QT RHIILPQ I L + +++ K T V S IT+ E+ A+ I
Sbjct: 118 EAATALNLTARQTYRHIILPQAIPPIIPALGNYLVAMFKETPVLSAITVLELMNQAKSIG 177
Query: 183 STTYQPLIIYCELAFVYLILTSFC 206
++T++ L + +LIL+
Sbjct: 178 NSTFRYLEPMTLVGVFFLILSIIS 201
>gnl|CDD|181907 PRK09494, glnP, glutamine ABC transporter permease protein;
Reviewed.
Length = 219
Score = 112 bits (281), Expect = 1e-25
Identities = 65/205 (31%), Positives = 119/205 (58%), Gaps = 5/205 (2%)
Query: 1 MKYEWFNLIIDSFPQLLYAAIVVTLPIACISFVISLIIGFFIAVIRIFFSDTIISLIMHF 60
M+++W + I + P LL A + TL I+ + L+IG R + I + I
Sbjct: 1 MQFDW-SAIWPAIPLLLEGAKM-TLWISVLGLAGGLVIGLLAGFARAY-GGWIANHIALV 57
Query: 61 YVWIFRGTPLLVQLFVIFYGLPHI--GIVFDSFVAIIISLTLNFSAYISEIIRSSIISIP 118
++ + RGTP++VQ+ I++ LP + D F A ++++ +N AYI+EI R +++SI
Sbjct: 58 FIELIRGTPIVVQVMFIYFALPMAFNDLRIDPFTAAVVTIMINSGAYIAEITRGAVLSIH 117
Query: 119 KGQWDASYAIGLTRKQTIRHIILPQTITTSAVPLSSEFISILKSTSVASTITIPEIFQTA 178
KG +A A+GL+R++T+R++I P + PL +++I +K TS+ I + E+ +
Sbjct: 118 KGFREAGLALGLSRRETLRYVIGPLALRRMLPPLGNQWIISIKDTSLFIVIGVAELTRQG 177
Query: 179 QRIVSTTYQPLIIYCELAFVYLILT 203
Q I++ ++ L I+ +A +YLI+T
Sbjct: 178 QEIIAGNFRALEIWSAVAVIYLIIT 202
>gnl|CDD|132049 TIGR03004, ectoine_ehuC, ectoine/hydroxyectoine ABC transporter,
permease protein EhuC. Members of this family are
presumed to act as permease subunits of ectoine ABC
transporters. Operons containing this gene also contain
the other genes of the ABC transporter and typically are
found next to either ectoine utilization or ectoine
biosynthesis operons. Permease subunits EhuC and EhuD
are homologous.
Length = 214
Score = 109 bits (274), Expect = 6e-25
Identities = 63/204 (30%), Positives = 103/204 (50%), Gaps = 1/204 (0%)
Query: 16 LLYAAIVVTLPIACISFVISLIIGFFIAVIRIFFSDTIISLIMHFYVWIFRGTPLLVQLF 75
LL VT+ I V++ ++ FF + R+ I+ + Y+ +FRGT LLVQLF
Sbjct: 6 LLLQGAWVTMQITLAGSVLATVLAFFAGLGRVS-GGPILRTVALCYIEVFRGTSLLVQLF 64
Query: 76 VIFYGLPHIGIVFDSFVAIIISLTLNFSAYISEIIRSSIISIPKGQWDASYAIGLTRKQT 135
++ LP IG+ D ++ L L+ AY +EI+R ++ S+ Q +A A+ TR QT
Sbjct: 65 WFYFVLPLIGLSLDPVTTGVMVLGLHAGAYGAEIVRGALSSVSVQQLEACRALNFTRFQT 124
Query: 136 IRHIILPQTITTSAVPLSSEFISILKSTSVASTITIPEIFQTAQRIVSTTYQPLIIYCEL 195
+R I LPQ + + I +LK TS+ S I++ ++ AQ I + T L I+
Sbjct: 125 LRRISLPQALVEMMPAFGNLAIELLKLTSLVSLISLADLTFAAQSIRNLTLDTLSIFAIT 184
Query: 196 AFVYLILTSFCYIIQIKIESSVTQ 219
Y ++ +I +E V +
Sbjct: 185 LLCYFVMALIIMLIMRVLERVVRR 208
>gnl|CDD|182978 PRK11122, artM, arginine transporter permease subunit ArtM;
Provisional.
Length = 222
Score = 100 bits (252), Expect = 2e-22
Identities = 59/224 (26%), Positives = 111/224 (49%), Gaps = 28/224 (12%)
Query: 11 DSFPQLLYAAIVVTLPIACISFVISLIIGFFIAVIRIF---FSDTIISLIMHFYVWIFRG 67
+ P+LL L + V SL++ +A+I ++ ++ Y+ +F G
Sbjct: 3 EYLPELLKG-----LHTSLTLTVASLLVALVLALIFTIILTLKTPVLVWLVRGYITLFTG 57
Query: 68 TPLLVQLFVIFYGLPHIGIVFDSFVAI--------------IISLTLNFSAYISEIIRSS 113
TPLLVQ+F+I+YG F +++L LN +AY +++ +
Sbjct: 58 TPLLVQIFLIYYGPGQ----FPWLQEYPWLWHLLSQPWLCAMLALALNSAAYSTQLFYGA 113
Query: 114 IISIPKGQWDASYAIGLTRKQTIRHIILPQTITTSAVPLSSEFISILKSTSVASTITIPE 173
+ +IP+GQW + A+G+++KQT+R I+LP + S+E + + KSTS+A TIT+ +
Sbjct: 114 VRAIPEGQWQSCAALGMSKKQTLR-ILLPYAFKRALSSYSNEVVLVFKSTSLAYTITLMD 172
Query: 174 IFQTAQRIVSTTYQPLIIYCELAFVYLILTSFCYIIQIKIESSV 217
+ +Q + TY + ++ +YL++ ++ IE
Sbjct: 173 VMGYSQLLYGRTYDVM-VFGAAGIIYLVVNGLLTLLMRLIERKA 215
>gnl|CDD|185029 PRK15069, PRK15069, histidine/lysine/arginine/ornithine ABC
transporter permease HisM; Provisional.
Length = 234
Score = 96.7 bits (241), Expect = 5e-21
Identities = 66/193 (34%), Positives = 108/193 (55%), Gaps = 11/193 (5%)
Query: 21 IVVTLPIACISFVISLIIGFFIAVIRIFFSDTIISLIMHFYVWIFRGTPLLVQLFVIFYG 80
+ +TL + S VI ++ +A+ R+ S+ I + Y ++FRGTPL VQL V + G
Sbjct: 23 LAITLWLLVASVVIGFVLAVPLAIARVS-SNKWIRFPVWLYTYVFRGTPLYVQLLVFYTG 81
Query: 81 LPHIGIV-----FDSFV-----AIIISLTLNFSAYISEIIRSSIISIPKGQWDASYAIGL 130
+ + IV D+F I++ TLN AY +EI +I S+P G+ +A+ A G+
Sbjct: 82 MYSLEIVRGTDLLDAFFRSGLNCTILAFTLNTCAYTTEIFAGAIRSVPHGEIEAARAYGM 141
Query: 131 TRKQTIRHIILPQTITTSAVPLSSEFISILKSTSVASTITIPEIFQTAQRIVSTTYQPLI 190
+ + R IILP + + S+E I +L +T++A T T+P+I + A+ I S TYQP
Sbjct: 142 STFKLYRRIILPSALRRALPAYSNEVILMLHATTLAFTATVPDILKIARDINSATYQPFQ 201
Query: 191 IYCELAFVYLILT 203
+ A +YLI++
Sbjct: 202 AFGIAAVLYLIIS 214
>gnl|CDD|185089 PRK15135, PRK15135, histidine/lysine/arginine/ornithine ABC
transporter permease HisQ; Provisional.
Length = 228
Score = 87.2 bits (216), Expect = 3e-18
Identities = 59/207 (28%), Positives = 106/207 (51%), Gaps = 12/207 (5%)
Query: 9 IIDSFPQLLYAAIVVTLPIACISFVISLIIGFFIAVIRIFFSDTIISLIMHFYVWIFRGT 68
++ F ++ +VTL +A S V+++IIG A ++ + ++ LI Y + RG
Sbjct: 1 MLYGFSGVILQGALVTLELALSSVVLAVIIGLIGAGGKLS-QNRLLGLIFEGYTTLIRGV 59
Query: 69 PLLVQLFVIFYGLP--------HIG---IVFDSFVAIIISLTLNFSAYISEIIRSSIISI 117
P LV + +IFYGL +G I D VA II+L + AY +E R + +++
Sbjct: 60 PDLVLMLLIFYGLQIALNSVTEALGVGQIDIDPMVAGIITLGFIYGAYFTETFRGAFMAV 119
Query: 118 PKGQWDASYAIGLTRKQTIRHIILPQTITTSAVPLSSEFISILKSTSVASTITIPEIFQT 177
PKG +A+ A G TR Q R I+ P + + + + + ILK+T++ S + + ++ +
Sbjct: 120 PKGHIEAATAFGFTRGQVFRRIMFPAMMRYALPGIGNNWQVILKATALVSLLGLEDVVKA 179
Query: 178 AQRIVSTTYQPLIIYCELAFVYLILTS 204
Q +T++P +YL+ T+
Sbjct: 180 TQLAGKSTWEPFYFAIVCGVIYLVFTT 206
>gnl|CDD|130787 TIGR01726, HEQRo_perm_3TM, amine acid ABC transporter, permease
protein, 3-TM region, His/Glu/Gln/Arg/opine family.
This model represents one of several classes of multiple
membrane spanning regions found immediately N-terminal
to the domain described by pfam00528,
binding-protein-dependent transport systems inner
membrane component. The region covered by this model
generally is predicted to contain three transmembrane
helices. Substrate specificities attributed to members
of this family include histidine, arginine, glutamine,
glutamate, and (in Agrobacterium) the opines octopine
and nopaline.
Length = 99
Score = 84.1 bits (209), Expect = 2e-17
Identities = 41/101 (40%), Positives = 65/101 (64%), Gaps = 2/101 (1%)
Query: 12 SFPQLLYAAIVVTLPIACISFVISLIIGFFIAVIRIFFSDTIISLIMHFYVWIFRGTPLL 71
+ P LL ++TL ++ +S ++ L++G +A++R+ + + I YV +FRGTPLL
Sbjct: 1 NLPFLLKGL-LLTLLLSVLSILLGLVLGLLLALLRLS-GNRPLRWIATVYVELFRGTPLL 58
Query: 72 VQLFVIFYGLPHIGIVFDSFVAIIISLTLNFSAYISEIIRS 112
VQLF I++GLP IGI A +I+LTL + AY++EI R
Sbjct: 59 VQLFFIYFGLPLIGIRLSPLTAAVIALTLFYGAYLAEIFRG 99
>gnl|CDD|182979 PRK11123, PRK11123, arginine transporter permease subunit ArtQ;
Provisional.
Length = 238
Score = 82.4 bits (204), Expect = 9e-17
Identities = 56/233 (24%), Positives = 110/233 (47%), Gaps = 27/233 (11%)
Query: 10 IDSFPQLLYAAIVVTLPIACISFVISLIIGFFIAVIRIFFSDTIISLIMHFYVWIFRGTP 69
+ FP L +A +T+ +A + ++ L + AV ++ V + RG P
Sbjct: 2 NEFFP--LASAAGMTVGLAVCALIVGLALAMLFAVWESAKW-RPVAWPGTALVTLLRGLP 58
Query: 70 -LLVQLFVIF----------------YGLPHIGIVFDS-------FVAIIISLTLNFSAY 105
+LV LF+ F G I + D F+ +I+L+L ++AY
Sbjct: 59 EILVVLFIYFGSSQLLLTLSDGFTLNLGFVQIPVQMDIENFEVSPFLCGVIALSLLYAAY 118
Query: 106 ISEIIRSSIISIPKGQWDASYAIGLTRKQTIRHIILPQTITTSAVPLSSEFISILKSTSV 165
S+ +R ++ ++P GQW++ A+GL++ +++PQ + L ++++ +LK T++
Sbjct: 119 ASQTLRGALKAVPVGQWESGQALGLSKSAIFFRLVMPQMWRHALPGLGNQWLVLLKDTAL 178
Query: 166 ASTITIPEIFQTAQRIVSTTYQPLIIYCELAFVYLILTSFCYIIQIKIESSVT 218
S I++ ++ + I + T +P Y A +YL++T I +IE T
Sbjct: 179 VSLISVNDLMLQTKSIATRTQEPFTWYIIAAAIYLVITLISQYILKRIELRAT 231
>gnl|CDD|185062 PRK15107, PRK15107, glutamate/aspartate transport system permease
GltK; Provisional.
Length = 224
Score = 72.2 bits (177), Expect = 9e-14
Identities = 56/181 (30%), Positives = 99/181 (54%), Gaps = 10/181 (5%)
Query: 9 IIDSFPQLLYAAIVVTLPIACISFVISLIIGFFIAVIRIFFSDTIISLIMHFYVWIFRGT 68
I+ S P LL +V+TL I + VI ++ G +AV+R+ S ++ YV +FR
Sbjct: 9 IVPSLPYLL-DGLVITLKITVTAVVIGILWGTILAVMRLS-SFKPVAWFAKAYVNVFRSI 66
Query: 69 PLLVQLFVIFYGLPHI-----GIVFDSFVAII---ISLTLNFSAYISEIIRSSIISIPKG 120
PL++ L + +P G+ + + +I ++ ++ +AY SEIIR+ I SI +G
Sbjct: 67 PLVMVLLWFYLIVPGFLQNVLGLSPKTDIRLISAMVAFSMFEAAYYSEIIRAGIQSISRG 126
Query: 121 QWDASYAIGLTRKQTIRHIILPQTITTSAVPLSSEFISILKSTSVASTITIPEIFQTAQR 180
Q A+ A+G+T Q+++ IILPQ L ++ I + + TS+ +++ + F+TA
Sbjct: 127 QSSAALALGMTHWQSMKLIILPQAFRAMVPLLLTQGIVLFQDTSLVYVLSLADFFRTAST 186
Query: 181 I 181
I
Sbjct: 187 I 187
>gnl|CDD|182726 PRK10782, PRK10782, DL-methionine transporter permease subunit;
Provisional.
Length = 217
Score = 39.3 bits (92), Expect = 8e-04
Identities = 31/130 (23%), Positives = 67/130 (51%), Gaps = 8/130 (6%)
Query: 21 IVVTLPIACISFVISLIIGFFIAVIRI--FFSDTIISLIMHFYVWIFRGTPLLVQLFVIF 78
+ +T FVI L +G + V R ++ + + V IFR P ++ ++
Sbjct: 17 LAMTFVSGFFGFVIGLPVGVLLYVTRPGQIIANAKLYRTLSALVNIFRSIPFII---LLV 73
Query: 79 YGLPHIGIVFDSFV---AIIISLTLNFSAYISEIIRSSIISIPKGQWDASYAIGLTRKQT 135
+ +P ++ + + A I+ LT+ + +I+ ++ ++++ IP G +AS A+G T Q
Sbjct: 74 WMIPFTRVIVGTSIGLQAAIVPLTVGAAPFIARMVENALLEIPTGLIEASRAMGATPMQI 133
Query: 136 IRHIILPQTI 145
+R ++LP+ +
Sbjct: 134 VRKVLLPEAL 143
>gnl|CDD|162141 TIGR00974, 3a0107s02c, phosphate ABC transporter, permease protein
PstA. This model describes PtsA, one of a pair of
permease proteins in the ABC (high affinity) phosphate
transporter. In a number of species, this permease is
fused with the PtsC protein (TIGR02138). In the model
bacterium Escherichia coli, this transport system is
induced when the concentration of extrallular inorganic
phosphate is low. A constitutive, lower affinity
transporter operates otherwise.
Length = 271
Score = 38.8 bits (91), Expect = 0.001
Identities = 38/131 (29%), Positives = 71/131 (54%), Gaps = 8/131 (6%)
Query: 17 LYAAIVVTLPIACISFVISLIIGFFIAVIRIFFS-DTIISLIMHFYVWIFRGTP-LLVQL 74
+ AIV TL + ++ VI++ +G A+ ++ ++ + ++ F V I G P ++V L
Sbjct: 52 IGPAIVGTLLLILLAIVIAVPLGIGAAIYLAEYANESRFTKVIRFAVDILAGVPSIVVGL 111
Query: 75 FVIFYGLPHIGIVFDSFVAIIISLTLNFSAYISEIIRSS---IISIPKGQWDASYAIGLT 131
F YG + ++ F + +L L + IIR++ + ++PK +ASYA+G T
Sbjct: 112 FG--YGFFVLTMLGGGFSLLAGALALAL-LILPVIIRTTEEALKAVPKDLREASYALGAT 168
Query: 132 RKQTIRHIILP 142
+ QTI ++LP
Sbjct: 169 KWQTIFKVVLP 179
>gnl|CDD|162724 TIGR02138, phosphate_pstC, phosphate ABC transporter, permease
protein PstC. The typical operon for the high affinity
inorganic phosphate ABC transporter encodes an
ATP-binding protein, a phosphate-binding protein, and
two permease proteins. This family consists of one of
the two permease proteins, PstC, which is homologous to
PstA (TIGR00974). In the model bacterium Escherichia
coli, this transport system is induced when the
concentration of extrallular inorganic phosphate is low.
A constitutive, lower affinity transporter operates
otherwise.
Length = 295
Score = 36.5 bits (85), Expect = 0.006
Identities = 35/140 (25%), Positives = 62/140 (44%), Gaps = 16/140 (11%)
Query: 19 AAIVVTLPIACISFVISLIIGFFIAV---------IRIFFSDTI-----ISLIMHFYVWI 64
IV TL + I+ +I++ +G IA+ +R + I +++ + +
Sbjct: 63 PLIVGTLITSLIALLIAVPVGIGIAIFLSEIAPKRVRSVLKPVVELLAGIPSVVYGFWGL 122
Query: 65 FRGTPLLVQLFVIFYGLPHIGIVFDSFVAIIISLTLNFSA--YISEIIRSSIISIPKGQW 122
F P L F F G I + + L I+ I R ++ ++P+
Sbjct: 123 FVLVPFLKPHFQPFLGSNLGLIPLFGGPILTAGIVLAIMILPTIASISRDALRAVPRSYK 182
Query: 123 DASYAIGLTRKQTIRHIILP 142
+ASYA+G T+ +TIR +ILP
Sbjct: 183 EASYALGATKWETIRRVILP 202
>gnl|CDD|131837 TIGR02790, nickel_nikC, nickel ABC transporter, permease subunit
NikC. This family consists of the NikC family of nickel
ABC transporter permeases. Operons that contain this
protein also contain a homologous permease subunit NikB.
Nickel is used in cells as part of urease or certain
hydrogenases or superoxide dismutases.
Length = 258
Score = 35.8 bits (83), Expect = 0.008
Identities = 31/133 (23%), Positives = 60/133 (45%), Gaps = 9/133 (6%)
Query: 11 DSFPQLLYAAIVVTLPIACISFVISLIIGFFIAVIRIFFSDTIISLIMHFYVWIFRGTPL 70
F +L++ A V+L A + + L IG I + + + IM +F P
Sbjct: 52 CIFSRLIFGA-RVSLGSALLVLGLVLTIGLLIGGLAGYIGGRVDEAIMRV-CDVFLSFPT 109
Query: 71 LVQLFVIFYGLPHIGIVFDSFVAIIISLTLNFSAYISEIIRSSIISIPKGQW-DASYAIG 129
++ I +GI+ +II++ L A+ + ++R ++S+ + ++ A+ G
Sbjct: 110 IILSLAI------VGILGPGLENVIIAIVLVHWAWYARMVRGMVVSLKQREFVLAARTSG 163
Query: 130 LTRKQTIRHIILP 142
+ Q IR ILP
Sbjct: 164 ASHWQIIRRHILP 176
>gnl|CDD|162201 TIGR01097, PhnE, phosphonate ABC transporter, permease protein
PhnE. Phosphonates are a class of compound analogous to
organic phosphates, but in which the C-O-P linkage is
replaced by a direct, stable C-P bond. Some bacteria can
utilize phosphonates as a source of phosphorus. This
family consists of permease proteins of known or
predicted phosphonate ABC transporters. Often this
protein is found as a duplicated pair, occasionally as a
fused pair. Certain "second" copies score in between the
trusted and noise cutoff and should be considered true
hits (by context).
Length = 250
Score = 31.7 bits (73), Expect = 0.14
Identities = 33/139 (23%), Positives = 59/139 (42%), Gaps = 13/139 (9%)
Query: 13 FPQLLYAAIVVTLPIACISFVISLIIGFFIAVI--RIFFSDTIISLIMHFYVWIFRGTPL 70
P++L A ++ TL +A + V++ I+ +A++ R +S + + R P
Sbjct: 53 LPKILKA-LLETLAMAILGTVLAAILALPLALLAARNITPSPWLSGLARLLLNFLRAIPE 111
Query: 71 LV--QLFVIFYGLPHIGIVFDSFVAIIISLTLNFSAYISEIIRSSIISIPKGQWDASYAI 128
LV +FV GL F +A+ +E I + G +A A
Sbjct: 112 LVWALIFVAAVGLG----PFAGVLALAFHTVGFLGKLFAEAIEE----VDPGPVEALRAT 163
Query: 129 GLTRKQTIRHIILPQTITT 147
G ++ Q IR+ +LPQ +
Sbjct: 164 GASKLQVIRYGVLPQVLPQ 182
>gnl|CDD|130643 TIGR01581, Mo_ABC_porter, NifC-like ABC-type porter. Included in
this group is a gene designated NifC in Clostridium
pasturianum. It would be reasonable to presume that NifC
acts as a molybdate porter since the most common form of
nitrogenase is a molybdoenzyme. Several other sequences
falling within the scope of this model are annotated as
molybdate porters and one, from Halobacterium, is
annotated as a sulfate porter. There is presently no
experimental evidence to support annotations with this
degree of specificity.
Length = 225
Score = 29.7 bits (67), Expect = 0.58
Identities = 14/53 (26%), Positives = 26/53 (49%)
Query: 90 SFVAIIISLTLNFSAYISEIIRSSIISIPKGQWDASYAIGLTRKQTIRHIILP 142
S + ++++ T S Y + RS+ S+ D + ++G +T R I LP
Sbjct: 102 STLGVVLAQTFVASPYYVRVARSTFKSVDPRYEDVARSLGAGPLETFRKITLP 154
>gnl|CDD|181886 PRK09471, oppB, oligopeptide transporter permease; Reviewed.
Length = 306
Score = 28.9 bits (65), Expect = 1.1
Identities = 45/170 (26%), Positives = 77/170 (45%), Gaps = 19/170 (11%)
Query: 15 QLLYAAIVVTLPIACISFVISLIIGFFIAVIRIFFSDTIIS-LIMHFY---VWI--FRGT 68
L+ ++ V+ + +F +++I+G VI +T +M F V I F
Sbjct: 88 DLVASSFPVSAKLGAAAFFLAVILGVSAGVIAALKQNTKWDYTVMGFAMTGVVIPSFVVA 147
Query: 69 PLLVQLFVIFYG-LPHIGIVFDSFVAII---ISLTLNFSAYISEIIRSSIISIPKGQW-D 123
PLLV +F I LP G + +I ++L+L + A I+ I R S+I + +
Sbjct: 148 PLLVLIFAITLHWLPGGGWNGGALKFMILPMVALSLAYIASIARITRGSMIEVLHSNFIR 207
Query: 124 ASYAIGLTRKQTIRHIILPQTITTSAVPLSS----EFISILKSTSVASTI 169
+ A GL +R IIL + + +P+ S F+ I+ + V TI
Sbjct: 208 TARAKGL----PMRRIILRHALKPALLPVLSYMGPAFVGIITGSMVIETI 253
>gnl|CDD|131836 TIGR02789, nickel_nikB, nickel ABC transporter, permease subunit
NikB. This family consists of the NikB family of nickel
ABC transporter permeases. Operons that contain this
protein also contain a homologous permease subunit NikC.
Nickel is used in cells as part of urease or certain
hydrogenases or superoxide dismutases.
Length = 314
Score = 29.0 bits (65), Expect = 1.2
Identities = 33/157 (21%), Positives = 64/157 (40%), Gaps = 11/157 (7%)
Query: 23 VTLPIACISFVISLIIGFFIAVIRIFFSDTIISLIMHFYVWIFRGTP------LLVQLFV 76
TL +A + VI +++ + ++ + D + + F +++ P LLV F
Sbjct: 100 ATLELAGFALVIVVLVSVPLGILAARYRDRLPDHAVRFIIFLGVSIPNFWLAFLLVWGFS 159
Query: 77 IFYG-LPHIGI-VFDSFVAIIISLTLNFSAYISEIIRSSIISIPKGQWDASYA--IGLTR 132
++ LP G + V ++L L + + ++R+S++ + +YA G+
Sbjct: 160 VYLNLLPTNGAGTWQHLVLPAVTLALMSVSIYARLLRASMLDN-MQERYVTYARVRGIKE 218
Query: 133 KQTIRHIILPQTITTSAVPLSSEFISILKSTSVASTI 169
+ IR IL I L +L T V I
Sbjct: 219 RWVIRRHILRNAILPMITALGMHIGELLGGTFVIENI 255
>gnl|CDD|182833 PRK10913, PRK10913, dipeptide transporter; Provisional.
Length = 300
Score = 28.2 bits (63), Expect = 1.8
Identities = 30/110 (27%), Positives = 56/110 (50%), Gaps = 7/110 (6%)
Query: 11 DSFPQLLYAAIVVTLPIACISFVISLIIGFFIAVIRIFFSDTIISLIMHFYVWIFRGTP- 69
D +L+Y A ++L + C+ V+SL++G + +I +F + ++IM V I P
Sbjct: 89 DVLSRLMYGA-RLSLLVGCLVVVLSLVMGVILGLIAGYFGGLVDNIIMRV-VDIMLALPS 146
Query: 70 -LLVQLFVIFYGLPHIG--IVFDSFVAIIISLTLNFSAYISEIIRSSIIS 116
LL + V +G P I + +FVA+ + L +A + E+ R + +
Sbjct: 147 LLLALVLVAIFG-PSIVNAALALTFVALPHYVRLTRAAVLVEVNRDYVTA 195
>gnl|CDD|118258 pfam09726, Macoilin, Transmembrane protein. This entry is a highly
conserved protein present in eukaryotes.
Length = 680
Score = 28.0 bits (62), Expect = 2.3
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 15/68 (22%)
Query: 2 KYEW-FNLII----DSFPQLLYAAIVVTLPIACISFVISLIIGFFIAVIRIFFSDTIISL 56
+Y W F L+I DSF Y + ++ CI+ I FI V +FF+ +
Sbjct: 52 EYLWPFWLLIRSVYDSFK---YQGLAFSVFFVCIAITSDTICLLFIPVQWLFFAAST--- 105
Query: 57 IMHFYVWI 64
YVW+
Sbjct: 106 ----YVWV 109
>gnl|CDD|162043 TIGR00797, matE, putative efflux protein, MATE family. The MATE
family consists of probable efflux proteins including a
functionally characterized multi drug efflux system from
Vibrio parahaemolyticus, a putative ethionine resistance
protein of Saccharomyces cerevisiae, and the
functionally uncharacterized DNA damage-inducible
protein F (DinF) of E. coli. These proteins have 12
probable TMS.
Length = 342
Score = 27.6 bits (62), Expect = 2.4
Identities = 16/82 (19%), Positives = 33/82 (40%), Gaps = 10/82 (12%)
Query: 31 SFVISLIIGFFIAVIRIFFSDTIISLI----------MHFYVWIFRGTPLLVQLFVIFYG 80
S +++L++G + ++ FF D ++SL+ + + G P + FV+
Sbjct: 75 SLLLALLLGLPVLLVGYFFIDPLLSLMGADGEVAELAQDYLRILILGIPAYLLNFVLRGF 134
Query: 81 LPHIGIVFDSFVAIIISLTLNF 102
L G +I +N
Sbjct: 135 LRGQGDTKTPMYITLIGNVINI 156
>gnl|CDD|185611 PTZ00428, PTZ00428, 60S ribosomal protein L4; Provisional.
Length = 381
Score = 27.0 bits (60), Expect = 4.2
Identities = 9/34 (26%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 147 TSAVPLSSEFISILKSTSVASTITIPEIFQTAQR 180
+A P+ S + + SV T+ +P +F R
Sbjct: 1 MTARPVVSVYSA--SDKSVVGTVPLPAVFTAPIR 32
>gnl|CDD|162726 TIGR02141, modB_ABC, molybdate ABC transporter, permease protein.
Molybdate is chemically similar to sulfate, thiosulfate,
and selenate. These related substrates, and sometimes
molybdate itself, can be transported by the homologous
sulfate receptor. Some apparent molybdenum transport
operons include a permease related to this ModB,
although less similar than some sulfate permease
proteins and not included in this model.
Length = 208
Score = 26.4 bits (59), Expect = 6.9
Identities = 25/136 (18%), Positives = 59/136 (43%), Gaps = 20/136 (14%)
Query: 23 VTLPIACISFVISLIIGFFIAVIRIFFS-------DTIISL-------IMHFYVWIFRGT 68
++L +A I+ ++ L +G +A + +++L ++ FY+ I G
Sbjct: 2 LSLKVAVIATLLLLPLGIPVAWWLARSRFRGKPLLEVLVTLPLVLPPTVLGFYLLIAFGP 61
Query: 69 PLLVQLFVIFYGLPHIGIVFDSFVAIIISLTLNFS-AYISEIIRSSIISIPKGQWDASYA 127
+ + +G+ +VF A++ S+ ++F IR++ ++ +A+
Sbjct: 62 NGPIGKLLELFGIS---LVFTFAGAVLASVIVSFPLMVQP--IRAAFEAVDPDLEEAART 116
Query: 128 IGLTRKQTIRHIILPQ 143
+G + QT + LP
Sbjct: 117 LGASEIQTFLKVTLPL 132
>gnl|CDD|179418 PRK02391, PRK02391, heat shock protein HtpX; Provisional.
Length = 296
Score = 26.0 bits (58), Expect = 7.8
Identities = 12/44 (27%), Positives = 19/44 (43%)
Query: 16 LLYAAIVVTLPIACISFVISLIIGFFIAVIRIFFSDTIISLIMH 59
LY V L +S V+ ++I + + FFSD + M
Sbjct: 23 ALYLVFVAVLIALGVSLVLIVVIAGGFLLAQYFFSDKLALWSMG 66
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
0.332 0.144 0.423
Gapped
Lambda K H
0.267 0.0744 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,600,123
Number of extensions: 230126
Number of successful extensions: 1015
Number of sequences better than 10.0: 1
Number of HSP's gapped: 967
Number of HSP's successfully gapped: 153
Length of query: 226
Length of database: 5,994,473
Length adjustment: 90
Effective length of query: 136
Effective length of database: 4,049,753
Effective search space: 550766408
Effective search space used: 550766408
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 (22.0 bits)
S2: 55 (24.9 bits)