RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|255764497|ref|YP_003065010.2| ABC transporter permease
[Candidatus Liberibacter asiaticus str. psy62]
(587 letters)
>gnl|CDD|130251 TIGR01183, ntrB, nitrate ABC transporter, permease protein. This
model describes the nitrate transport permease in
bacteria. This is gene product of ntrB. The nitrate
transport permease is the integral membrane component of
the nitrate transport system and belongs to the
ATP-binding cassette (ABC) superfamily. At least in
photosynthetic bacteria nitrate assimilation is aided by
other proteins derived from the operon which among
others include products of ntrA, ntrB, ntrC, ntrD, narB.
Functionally ntrC and ntrD resemble the ATP binding
components of the binding protein-dependent transport
systems. Mutational studies have shown that ntrB and
ntrC are mandatory for nitrate accumulation. Nitrate
reductase is encoded by narB.
Length = 202
Score = 65.2 bits (159), Expect = 5e-11
Identities = 54/194 (27%), Positives = 93/194 (47%), Gaps = 12/194 (6%)
Query: 381 WLGCITMFRVVVLIIIASIIWIPVGIWIGFRPHISSKIQPFAQLLAAFPANVFFPLVVSC 440
W ++ RV V IA+II I VGI IG +++ + P Q+L P + P ++
Sbjct: 17 WQIIASLTRVAVGFSIAAIIGIAVGILIGLSKFLNAALDPIFQVLRTIPPLAWLP--IAL 74
Query: 441 VSYYHLNPNLWLSLLMIFGTQ-WYILFNVIAGASAFPNDFKEVASSFHITGWRWWRYIIL 499
++ P ++ +IF T W I+ N G P D+ VA ++ ++ ++L
Sbjct: 75 AAFQDAQPA---AIFVIFITAIWPIIINTAVGVQQIPQDYNNVARVLKLSKSDYFLKVLL 131
Query: 500 PGIFPYYVTGAITACGGAWNASIVSEVASWGHIHLRTTGLGAYIAESTEKGSFPEVVLGV 559
P PY TG A G +W A + +E+ G G+G +I ++ GS E++L +
Sbjct: 132 PAAVPYIFTGLRIAIGLSWLAIVAAEMLMGG------VGIGFFIWDAYNSGSVSEIILAI 185
Query: 560 LIMCCFVLALNRFL 573
+ + L L+RF+
Sbjct: 186 IYVGLVGLLLDRFV 199
Score = 54.8 bits (132), Expect = 6e-08
Identities = 45/171 (26%), Positives = 83/171 (48%), Gaps = 14/171 (8%)
Query: 89 LAAKSRRLGMVLVPILDIMQSIPILGFLTFTVVYFMNLYPGKVIGAELAAIFAIFTSQVW 148
L S+ L L PI ++++IP L +L + F + A+ AAIF IF + +W
Sbjct: 43 LIGLSKFLNAALDPIFQVLRTIPPLAWLPIALAAFQD--------AQPAAIFVIFITAIW 94
Query: 149 NMTFSMYQSLCNIPRDLEEVSRSFRLSGWQKFWYLGVPFSMPGLVWNMMMSMSGGWFFVV 208
+ + + IP+D V+R +LS F + +P ++P + + +++ W +V
Sbjct: 95 PIIINTAVGVQQIPQDYNNVARVLKLSKSDYFLKVLLPAAVPYIFTGLRIAIGLSWLAIV 154
Query: 209 ASEMIVVGDTVIPLPGIGSYIALAIKEQDLLAILYAMLTMLGVIFLYDQLL 259
A+EM++ G GIG +I A + I+ A++ + V L D+ +
Sbjct: 155 AAEMLMGG------VGIGFFIWDAYNSGSVSEIILAIIYVGLVGLLLDRFV 199
>gnl|CDD|132457 TIGR03416, ABC_choXWV_perm, choline ABC transporter, permease
protein.
Length = 267
Score = 53.1 bits (128), Expect = 2e-07
Identities = 38/133 (28%), Positives = 65/133 (48%), Gaps = 12/133 (9%)
Query: 73 LSAMVISLLFTFVYATLAAKSRRLGMVLVPILDIMQSIPILGFLTFTVVYFMNLYPGKVI 132
LSA V+ ++ AA L ++ P+LD+MQ++P +L +V F G V
Sbjct: 96 LSATVVCMVIGVPLGIAAAHRPWLYAIMRPVLDLMQTLPTFVYLIPALVLFG---LGMVP 152
Query: 133 GAELAAIFAIFTSQVWNMTFSMYQSLCNIPRDLEEVSRSFRLSGWQKFWYLGVPFSMP-- 190
G IFAI +T + + ++P++L E +F + Q W + +P++MP
Sbjct: 153 GLISTVIFAIPAPI--RLT---HLGISSVPQELVEAGEAFGATPSQLLWKVELPYAMPQI 207
Query: 191 --GLVWNMMMSMS 201
GL +M+S+S
Sbjct: 208 MAGLTQTIMLSLS 220
>gnl|CDD|182276 PRK10160, PRK10160, taurine transporter subunit; Provisional.
Length = 275
Score = 40.2 bits (94), Expect = 0.001
Identities = 52/200 (26%), Positives = 88/200 (44%), Gaps = 21/200 (10%)
Query: 386 TMFRVVVLIIIASIIWIPVGIWIGFRPHISSKIQPFAQLLAAFPANVFFPLVVSCVSYYH 445
++ R+V+ ++ A +I IPVGI +G P + + P +L P + PL+V
Sbjct: 83 SLTRIVLALLAAVVIGIPVGIAMGLSPTVRGILDPLIELYRPVPPLAYLPLMVIWFGIGE 142
Query: 446 LNPNLWLSLLMIFGTQWYILFNVIAGASAFPNDFKEVASSFHITGWRWWRYIILPGIFPY 505
+ L L IF + + +AG + A S + + ++ILPG P
Sbjct: 143 -TSKILLIYLAIFAP---VAMSALAGVKSAQQVRIRAAQSLGASRAQVLWFVILPGALPE 198
Query: 506 YVTGAITACGGAWNASIVSEVASWGHIHLRTTGLGAYIAESTEKGSFPEVVL---GVLIM 562
+TG G W+ + +E+ + T GLG ++ +S + +VVL V+ +
Sbjct: 199 ILTGLRIGLGVGWSTLVAAELIA------ATRGLG-FMVQSAGEFLATDVVLAGIAVIAI 251
Query: 563 CCFVL-----ALNRFL--WH 575
F+L AL R L WH
Sbjct: 252 IAFLLELGLRALQRRLTPWH 271
Score = 35.5 bits (82), Expect = 0.038
Identities = 30/154 (19%), Positives = 74/154 (48%), Gaps = 8/154 (5%)
Query: 60 SLPQYASRTTLRMLSAMVISLLFTFVYATLAAKSRRLGMVLVPILDIMQSIPILGFLTFT 119
+L Q+ + + R++ A++ +++ S + +L P++++ + +P L +L
Sbjct: 75 TLWQHLAASLTRIVLALLAAVVIGIPVGIAMGLSPTVRGILDPLIELYRPVPPLAYLPLM 134
Query: 120 VVYFMNLYPGKVIGAELAAIFAIFTSQVWNMTFSMYQSLCNIPRDLEEVSRSFRLSGWQK 179
V++F IG E + I I+ + + S + + + ++S S Q
Sbjct: 135 VIWFG-------IG-ETSKILLIYLAIFAPVAMSALAGVKSAQQVRIRAAQSLGASRAQV 186
Query: 180 FWYLGVPFSMPGLVWNMMMSMSGGWFFVVASEMI 213
W++ +P ++P ++ + + + GW +VA+E+I
Sbjct: 187 LWFVILPGALPEILTGLRIGLGVGWSTLVAAELI 220
>gnl|CDD|182861 PRK10952, PRK10952, glycine betaine transporter membrane protein;
Provisional.
Length = 355
Score = 40.5 bits (95), Expect = 0.001
Identities = 41/130 (31%), Positives = 64/130 (49%), Gaps = 16/130 (12%)
Query: 91 AKSRRLGMVLVPILDIMQSIPILGFLTFTVVYFMNLYPGKVIGAELAAIFAIFTSQVWNM 150
A+S R ++ P+LD MQ+ P +L V+ F G V G + IFA+ + +
Sbjct: 172 ARSPRAAKIIRPLLDAMQTTPAFVYLVPIVMLFG---IGNVPGVVVTIIFAL--PPIVRL 226
Query: 151 TFSMYQSLCNIPRDLEEVSRSFRLSGWQKFWYLGVPFSMP----GLVWNMMMSMSGGWFF 206
T + +P DL E SRSF S Q + + +P +MP G+ +M+++S
Sbjct: 227 TI---LGINQVPADLIEASRSFGASPRQMLFKVQLPLAMPTIMAGVNQTLMLALS----M 279
Query: 207 VVASEMIVVG 216
VV + MI VG
Sbjct: 280 VVIASMIAVG 289
>gnl|CDD|183100 PRK11365, ssuC, alkanesulfonate transporter permease subunit;
Provisional.
Length = 263
Score = 38.8 bits (90), Expect = 0.004
Identities = 51/222 (22%), Positives = 103/222 (46%), Gaps = 23/222 (10%)
Query: 61 LPQYASRTTLRMLSAMVISLLFTFVYATLAAKSRRLGMVLVPILDIMQSIPILGFLTFTV 120
L Q+ + ++ R L I + ++ SR +L + +++++P L + +
Sbjct: 58 LWQHLAISSWRALIGFSIGGSLGLILGLISGLSRWGERLLDTSIQMLRNVPHLALIPLVI 117
Query: 121 VYFMNLYPGKVIGAELAAIFAIFTSQVWNMTFSMYQSLCNIPRDLEEVSRSFRLSGWQKF 180
++F K+ L +F I+ + + + NI R L E++RS+ LSG F
Sbjct: 118 LWFGIDESAKIFLVALGTLFPIY--------INTWHGIRNIDRGLVEMARSYGLSGIPLF 169
Query: 181 WYLGVPFSMPGLVWNMMMSMSGGWFFVVASEMIVVGDTVIPLPGIGSYIALAIKE---QD 237
++ +P ++P ++ + ++ W ++V +T+ GIG Y+A+ +E D
Sbjct: 170 IHVILPGALPSIMVGVRFALGLMWL------TLIVAETISANSGIG-YLAMNAREFLQTD 222
Query: 238 LLA---ILYAMLTMLGVIFLYDQLLFRPMIVWSNKFRLERTT 276
++ ILYA+L L + QLL R + W+ + L+ T
Sbjct: 223 VVVVAIILYALLGKLADV--SAQLLERLWLRWNPAYHLKEAT 262
Score = 35.7 bits (82), Expect = 0.031
Identities = 36/151 (23%), Positives = 59/151 (39%), Gaps = 18/151 (11%)
Query: 385 ITMFRVVVLIIIASIIWIPVGIWIGFRPHISSKIQPFAQLLAAFPANVFFPLVVSCVSYY 444
I+ +R ++ I + + +G+ G + Q+L P PLV+
Sbjct: 64 ISSWRALIGFSIGGSLGLILGLISGLSRWGERLLDTSIQMLRNVPHLALIPLVI------ 117
Query: 445 HLNPNLWLSL-------LMIFGTQWYILFNVIAGASAFPNDFKEVASSFHITGWRWWRYI 497
LW + L+ GT + I N G E+A S+ ++G + ++
Sbjct: 118 -----LWFGIDESAKIFLVALGTLFPIYINTWHGIRNIDRGLVEMARSYGLSGIPLFIHV 172
Query: 498 ILPGIFPYYVTGAITACGGAWNASIVSEVAS 528
ILPG P + G A G W IV+E S
Sbjct: 173 ILPGALPSIMVGVRFALGLMWLTLIVAETIS 203
>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 = 36.1 bits (84), Expect = 0.028
Identities = 39/141 (27%), Positives = 64/141 (45%), Gaps = 22/141 (15%)
Query: 75 AMVISLLFTFVYATLAAKSRRLGMVLVPILDIMQSIPILGFLTFTVVYFMNLY---PGKV 131
A ++ L A A+SR G P+L+++ ++P++ L TV+ F L P
Sbjct: 10 ATLLLLPLGIPVAWWLARSRFRG---KPLLEVLVTLPLV--LPPTVLGFYLLIAFGPNGP 64
Query: 132 IG--AELAAIFAIFT-------SQVWNMTFSMYQSLCN----IPRDLEEVSRSFRLSGWQ 178
IG EL I +FT S + + M Q + + DLEE +R+ S Q
Sbjct: 65 IGKLLELFGISLVFTFAGAVLASVIVSFPL-MVQPIRAAFEAVDPDLEEAARTLGASEIQ 123
Query: 179 KFWYLGVPFSMPGLVWNMMMS 199
F + +P + PGL+ ++S
Sbjct: 124 TFLKVTLPLAFPGLLAGCVLS 144
Score = 27.6 bits (62), Expect = 9.9
Identities = 10/46 (21%), Positives = 20/46 (43%)
Query: 468 VIAGASAFPNDFKEVASSFHITGWRWWRYIILPGIFPYYVTGAITA 513
+ A A D +E A + + + + + LP FP + G + +
Sbjct: 99 IRAAFEAVDPDLEEAARTLGASEIQTFLKVTLPLAFPGLLAGCVLS 144
>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 = 31.6 bits (72), Expect = 0.54
Identities = 27/144 (18%), Positives = 54/144 (37%), Gaps = 15/144 (10%)
Query: 65 ASRTTLRM-LSAMVISLLFTFVYAT-LAAKSRRLGMVLVPILDIMQSIPI---------- 112
+ LR+ L+ + SLL + A R+ L +LD + +P+
Sbjct: 18 ENIKALRLSLATSLASLLLAVIIGIPTAYVLARVRFPLKKLLDTLLDLPMVLPPLVAGLA 77
Query: 113 --LGFLTFTVV-YFMNLYPGKVIGAELAAIFAIFTSQVWNMTFSMYQSLCNIPRDLEEVS 169
L F ++ ++ +VI + L + A + ++ E+V+
Sbjct: 78 LLLLFGRNGLLGPYLEAAGIQVIFSTLGVVLAQTFVASPYYVRVARSTFKSVDPRYEDVA 137
Query: 170 RSFRLSGWQKFWYLGVPFSMPGLV 193
RS + F + +P + PGL+
Sbjct: 138 RSLGAGPLETFRKITLPMARPGLL 161
>gnl|CDD|162899 TIGR02516, type_III_yscC, type III secretion outer membrane pore,
YscC/HrcC family. A number of proteins homologous to
the type IV pilus secretin PilQ (TIGR02515) are involved
in type IV pilus formation, competence for
transformation, type III secretion, and type II
secretion (also called the main terminal branch of the
general secretion pathway). The clade described by this
model contains the outer membrane pore proteins of
bacterial type III secretion systems, typified by YscC
for animal pathogens and HrcC for plant pathogens.
Length = 462
Score = 30.8 bits (70), Expect = 0.93
Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 13/82 (15%)
Query: 413 HISSKIQPFAQLLAAFPANVFFPLVVSC-----VS--YYHLNPNLWLS-LLMIFGTQWYI 464
+K + LLA F AN P+VVS V+ + NP +L L +++G WY
Sbjct: 3 FYVAKQESLRALLADFAANYGIPVVVSSKVNKKVTGKFEDDNPEKFLQRLALLYGLTWYY 62
Query: 465 LFNVIAGASAFPNDFKEVASSF 486
N + +PN E+A +
Sbjct: 63 DGNAL---YIYPNS--EIARAV 79
>gnl|CDD|140258 PTZ00231, PTZ00231, variable surface protein Vir17; Provisional.
Length = 385
Score = 30.2 bits (68), Expect = 1.5
Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 6/51 (11%)
Query: 241 ILYAMLTMLGVIF----LYDQLLFRPMI--VWSNKFRLERTTGIYPADSWV 285
I YA L++ GV F LY P I + S K +L +TT + A+ W+
Sbjct: 310 IYYAGLSVSGVFFTSMVLYKYTALGPFIRSLVSKKEKLRQTTNKHLAEQWL 360
>gnl|CDD|181841 PRK09421, modB, molybdate ABC transporter permease protein;
Reviewed.
Length = 229
Score = 29.9 bits (68), Expect = 2.0
Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 133 GAELAAIFAIFTSQVWNMTFSMYQSLCNIPRDLEEVSRSFRLSGWQKFWYLGVPFSMPGL 192
GA LAA F M ++ SL + R LE+ +R+ S W+ F+ + +P ++PG+
Sbjct: 94 GAALAAAVMAFPL----MVRAIRLSLEAVDRKLEQAARTLGASPWRVFFTITLPLTLPGI 149
Query: 193 VWNMMMS 199
+ +++
Sbjct: 150 IAGTVLA 156
>gnl|CDD|181910 PRK09497, potB, spermidine/putrescine ABC transporter membrane
protein; Reviewed.
Length = 285
Score = 29.3 bits (66), Expect = 2.6
Identities = 16/66 (24%), Positives = 32/66 (48%)
Query: 128 PGKVIGAELAAIFAIFTSQVWNMTFSMYQSLCNIPRDLEEVSRSFRLSGWQKFWYLGVPF 187
P +++ E A I + + M +Y S+ + + L E +R + Q F + +P
Sbjct: 143 PIRIMFTESAVIIGLVYILLPFMVLPLYSSIEKLDKPLLEAARDLGANKLQTFIRIIIPL 202
Query: 188 SMPGLV 193
+MPG++
Sbjct: 203 TMPGII 208
>gnl|CDD|129921 TIGR00841, bass, bile acid transporter. Functionally characterized
members of the BASS family catalyze Na+:bile acid
symport. These systems have been identified in
intestinal, liver and kidney tissues of animals. These
symporters exhibit broad specificity, taking up a
variety of non bile organic compounds as well as
taurocholate and other bile salts. Functionally
uncharacterised homologues are found in plants, yeast,
archaea and bacteria.
Length = 286
Score = 28.5 bits (64), Expect = 4.9
Identities = 18/68 (26%), Positives = 31/68 (45%), Gaps = 4/68 (5%)
Query: 363 SIGYIVNHFTYQDVLYVIWLGCITMFRVVVLIIIASIIWIPVGIWIGFRPHI--SSKIQP 420
SIG +V H Q ++ +G I++F ++ +IIA + I V P + + P
Sbjct: 148 SIGMLVKHKLPQIAKIILKVGLISVF--LLSVIIAVVGGINVENLATIGPLLLLVGILLP 205
Query: 421 FAQLLAAF 428
A L +
Sbjct: 206 LAGFLLGY 213
>gnl|CDD|133878 PHA00422, PHA00422, hypothetical protein.
Length = 69
Score = 28.2 bits (63), Expect = 6.6
Identities = 17/33 (51%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 519 NASIVSEVASWGHIH-LRTTGLGAYIAESTEKG 550
NAS+V+E AS GHI L T G A E T G
Sbjct: 26 NASLVAEAASRGHISCLSTDGRNAGAWEITASG 58
>gnl|CDD|133949 PHA01399, PHA01399, membrane protein P6.
Length = 242
Score = 27.7 bits (61), Expect = 7.8
Identities = 32/133 (24%), Positives = 44/133 (33%), Gaps = 12/133 (9%)
Query: 390 VVVLIIIASIIWIPVGIWIGFRPHISSKIQPFAQL-LAAFPANVFFPLVVSCVSYYHLNP 448
V + I II V + + F I SKI + L A FFP + +
Sbjct: 30 VKAIKAIVKIIKKIVSVILDFISKIFSKIGIILIIILIIIAAWFFFPAFAAFLQS----- 84
Query: 449 NLWLSLLMIFGTQWYILFNVIAGASAFPNDFKEVASSFHITGWRWWRYIILPGIFPYYVT 508
W S + F T W + A + F A + W W + G
Sbjct: 85 -AWASFVNFFQTAWAWVTKTAGAAWQAISSFASAAWGYIQAAWEW-----IAGAVAAIWK 138
Query: 509 GAITACGGAWNAS 521
GA A AW A+
Sbjct: 139 GAGAAADAAWEAA 151
>gnl|CDD|179102 PRK00733, hppA, membrane-bound proton-translocating
pyrophosphatase; Validated.
Length = 666
Score = 27.8 bits (63), Expect = 8.8
Identities = 7/27 (25%), Positives = 13/27 (48%), Gaps = 3/27 (11%)
Query: 346 IFWFCVVCGVAIGIAWQSIGYIVNHFT 372
+ V+ G+ +G IG I ++T
Sbjct: 303 NLFGAVLIGLVVGAL---IGLITEYYT 326
>gnl|CDD|181823 PRK09401, PRK09401, reverse gyrase; Reviewed.
Length = 1176
Score = 27.6 bits (62), Expect = 9.4
Identities = 13/62 (20%), Positives = 27/62 (43%), Gaps = 16/62 (25%)
Query: 155 YQSLCNIPRDLEEVSRSFR------LSGWQKFW----YLGVPFSM---PGL---VWNMMM 198
Y+ L N+ + +E + F+ Q+ W LG F++ G+ + ++M
Sbjct: 56 YEELYNLEEEYKEFEKFFKKKTGSKPWSLQRTWAKRLLLGESFAIIAPTGVGKTTFGLVM 115
Query: 199 SM 200
S+
Sbjct: 116 SL 117
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 0.145 0.480
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: 10,111,580
Number of extensions: 686472
Number of successful extensions: 2140
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2122
Number of HSP's successfully gapped: 94
Length of query: 587
Length of database: 5,994,473
Length adjustment: 99
Effective length of query: 488
Effective length of database: 3,855,281
Effective search space: 1881377128
Effective search space used: 1881377128
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: 60 (26.9 bits)