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)