RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= 537021.9.peg.789_1 (143 letters) >gnl|CDD|162764 TIGR02212, lolCE, lipoprotein releasing system, transmembrane protein, LolC/E family. This model describes the LolC protein, and its paralog LolE found in some species. These proteins are homologous to permease proteins of ABC transporters. In some species, two paralogs occur, designated LolC and LolE. In others, a single form is found and tends to be designated LolC. Length = 411 Score = 168 bits (427), Expect = 6e-43 Identities = 68/143 (47%), Positives = 101/143 (70%) Query: 1 MFVILALIVLVAALNIISSLVMLVQERRRDIAILRTMGARISSIMSIFFMIGAFIGIAGT 60 MF+IL+LI+ VAA NI+S+LVM V++++ DIAILRT+GA IM IF + G IG+ GT Sbjct: 269 MFLILSLIIAVAAFNIVSTLVMAVKDKQGDIAILRTLGATPGQIMRIFIVQGLLIGVIGT 328 Query: 61 GMGMIVGILISCNVEAIRKFFLHTLGVVIFDTEAYLLTELPSKISWVEVSWIISMALALS 120 +G+I+G+L++ N+ I F +GV F+ + Y L LPSK+ ++V II AL LS Sbjct: 329 LLGVILGVLLALNLTTIINFIEWLIGVKFFNADIYFLDFLPSKLDPLDVLLIIVTALLLS 388 Query: 121 LLATIFPSWKASRIDPVKVLRGE 143 LLAT++P+W+A+++ P + LR E Sbjct: 389 LLATLYPAWRAAKLQPAEALRYE 411 >gnl|CDD|182995 PRK11146, PRK11146, outer membrane-specific lipoprotein transporter subunit LolE; Provisional. Length = 412 Score = 108 bits (271), Expect = 7e-25 Identities = 54/142 (38%), Positives = 94/142 (66%) Query: 1 MFVILALIVLVAALNIISSLVMLVQERRRDIAILRTMGARISSIMSIFFMIGAFIGIAGT 60 M++ + L++ VA NI+S+LVM V+++ DIAILRT+GA+ I +IF G G+ G+ Sbjct: 270 MYLAMVLVIGVACFNIVSTLVMAVKDKSGDIAILRTLGAKDGLIRAIFVWYGLLAGLKGS 329 Query: 61 GMGMIVGILISCNVEAIRKFFLHTLGVVIFDTEAYLLTELPSKISWVEVSWIISMALALS 120 +G+++G+++S N+ I K +G + Y + LPS++ W++V +++ AL LS Sbjct: 330 LIGVVIGVVVSLNLTPIIKGIEKLIGHQFLSGDIYFIDFLPSELHWLDVFYVLVTALVLS 389 Query: 121 LLATIFPSWKASRIDPVKVLRG 142 LLA+ +P+ +AS++DP +VL G Sbjct: 390 LLASWYPARRASKLDPARVLSG 411 >gnl|CDD|131268 TIGR02213, lolE_release, lipoprotein releasing system, transmembrane protein LolE. This protein is part of an unusual ABC transporter complex that releases lipoproteins from the periplasmic side of the bacterial inner membrane, rather than transport any substrate across the inner membrane. In some species, the permease-like transmembrane protein is represented by two paralogs, LolC and LolE, both in the LolCDE complex. This family consists of LolE, as found in E. coli and related species. Length = 411 Score = 104 bits (262), Expect = 6e-24 Identities = 47/143 (32%), Positives = 90/143 (62%) Query: 1 MFVILALIVLVAALNIISSLVMLVQERRRDIAILRTMGARISSIMSIFFMIGAFIGIAGT 60 M++ + L++ VA NI+S+L+M V++++ DIAILRT+GA I IF G G+ G+ Sbjct: 269 MYLAMVLVIGVACFNIVSTLIMAVKDKQGDIAILRTLGANDGLIKRIFVWYGLQAGMKGS 328 Query: 61 GMGMIVGILISCNVEAIRKFFLHTLGVVIFDTEAYLLTELPSKISWVEVSWIISMALALS 120 +G+++G++++ N+ + +G + Y + LPS++ W++V ++ ALALS Sbjct: 329 LIGIVLGVIVALNLTTFIQGIEWVIGHQFLSGDIYFVDFLPSELHWLDVLMVLVTALALS 388 Query: 121 LLATIFPSWKASRIDPVKVLRGE 143 L+A+ +P+ +A+++ P +VL Sbjct: 389 LMASWYPASRAAKLQPAQVLSSH 411 >gnl|CDD|182753 PRK10814, PRK10814, outer membrane-specific lipoprotein transporter subunit LolC; Provisional. Length = 399 Score = 96.3 bits (240), Expect = 2e-21 Identities = 54/143 (37%), Positives = 89/143 (62%), Gaps = 10/143 (6%) Query: 1 MFVILALIVLVAALNIISSLVMLVQERRRDIAILRTMGARISSIMSIFFMIGAFIGIAGT 60 M ++L+LIV VAA NII+SL +LV E++ ++AIL+T G IM +F + GA GI G Sbjct: 267 MGLLLSLIVAVAAFNIITSLGLLVMEKQGEVAILQTQGLTRRQIMMVFMVQGASAGIIGA 326 Query: 61 GMGMIVGILISCNVEAIRKFFLHTLGVVIFDTEAYLLTELPSKISWVEVSWIISMALALS 120 +G ++G L++ + + + +GV++ D A LP I ++V I +A+A++ Sbjct: 327 LLGALLGALLASQLNNL----MPIIGVLL-DGAA-----LPVAIEPLQVIVIALVAMAIA 376 Query: 121 LLATIFPSWKASRIDPVKVLRGE 143 LL+T++PSW+A+ P + LR E Sbjct: 377 LLSTLYPSWRAAATQPAEALRYE 399 >gnl|CDD|163262 TIGR03434, ADOP, Acidobacterial duplicated orphan permease. Members of this protein family are found, so far, only in three species of Acidobacteria, namely Acidobacteria bacterium Ellin345, Acidobacterium capsulatum ATCC 51196, and Solibacter usitatus Ellin6076, where they form large paralogous families. Each protein contains two copies of a domain called the efflux ABC transporter permease protein (pfam02687). However, unlike other members of that family (including LolC, FtsX, and MacB), genes for these proteins are essentially never found fused or adjacent to ABC transporter ATP-binding protein (pfam00005) genes. We name this family ADOP, for Acidobacterial Duplicated Orphan Permease, to reflect the restricted lineage, internal duplication, lack of associated ATP-binding cassette proteins, and permease homology. The function is unknown. Length = 803 Score = 40.2 bits (95), Expect = 2e-04 Identities = 36/143 (25%), Positives = 65/143 (45%), Gaps = 22/143 (15%) Query: 1 MFVILALIVLVAALNIISSLVMLVQERRRDIAILRTMGARISSIMSIFFMIGAFIGIAGT 60 +F LAL L+AA+ + L V +R R+I I +GA+ ++ + G + AG Sbjct: 683 LFAALAL--LLAAIGLYGVLAYSVAQRTREIGIRMALGAQRGDVLRLVLRQGLRLAAAGL 740 Query: 61 GMGMIVGILISCNVEAIRKFFLHTLGVVIFDTEAYLLTELPSKISWVEVSWIISMALALS 120 +G+ + ++ + + L GV D + ++ LA++ Sbjct: 741 AIGLAAALALARLLAS----LLF--GVSPTDPLTFAAV--------------AALLLAVA 780 Query: 121 LLATIFPSWKASRIDPVKVLRGE 143 LLA P+ +A+R+DP+ LR E Sbjct: 781 LLACYLPARRAARVDPMIALRAE 803 Score = 31.7 bits (73), Expect = 0.067 Identities = 33/151 (21%), Positives = 65/151 (43%), Gaps = 30/151 (19%) Query: 1 MFVILALIVLVAALNIISSLVMLVQERRRDIAILRTMGARISSIMSIFFMIGAFIGIAGT 60 + + L++L+A N+ + L+ R+R+IA+ +GA ++ + +AG Sbjct: 274 LLGAVGLVLLIACANVANLLLARAAARQREIAVRLALGAGRGRLVRQLLTESLLLALAGG 333 Query: 61 GMGMIVGILISCNVEAIRKFFLHTLGVVIFDTEAYLLTELPSKI-SWVEVS---WIISMA 116 +G+++ +R LL LP+ + E+S ++ A Sbjct: 334 ALGLLLAYW------GLR----------------LLLALLPASLPRLAEISLDGRVLLFA 371 Query: 117 LALSLLATIF----PSWKASRIDPVKVLRGE 143 LALSLL + P+ +A+R D + L+ Sbjct: 372 LALSLLTGLLFGLAPALQATRSDLAEALKEG 402 >gnl|CDD|182528 PRK10535, PRK10535, macrolide transporter ATP-binding /permease protein; Provisional. Length = 648 Score = 32.4 bits (74), Expect = 0.042 Identities = 35/141 (24%), Positives = 67/141 (47%), Gaps = 20/141 (14%) Query: 4 ILALIVL-VAALNIISSLVMLVQERRRDIAILRTMGARISSIMSIFFMIGAFIGIAGTGM 62 ++A+I L V + +++ +++ V ER R+I I +GAR S ++ F + + + G + Sbjct: 527 LVAVISLVVGGIGVMNIMLVSVTERTREIGIRMAVGARASDVLQQFLIEAVLVCLVGGAL 586 Query: 63 GMIVGILISCNVEAIRKFFLHTLGVVIFDTEAYLLTELPSKISWVEVSWIISMALALSLL 122 G+ + +LI+ ++ FL + F A L L S ++ + W+ Sbjct: 587 GITLSLLIAFTLQ----LFLPGWEIG-FSPLALLSAFLCSTVTGILFGWL---------- 631 Query: 123 ATIFPSWKASRIDPVKVLRGE 143 P+ A+R+DPV L E Sbjct: 632 ----PARNAARLDPVDALARE 648 >gnl|CDD|162113 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. Length = 1096 Score = 27.7 bits (61), Expect = 1.2 Identities = 22/70 (31%), Positives = 35/70 (50%), Gaps = 7/70 (10%) Query: 1 MFVILALIV---LVAALNIISSLVMLVQERRRDIAILRTMGARISSIMSIFFMIGAFIGI 57 +FV LA++ V AL +I+ + + + D+A M A S+ +IG FI Sbjct: 467 VFVALAIVCDEYFVPALGVITDKLQISE----DVAGATFMAAGGSAPELFTSLIGVFISH 522 Query: 58 AGTGMGMIVG 67 + G+G IVG Sbjct: 523 SNVGIGTIVG 532 >gnl|CDD|178515 PLN02927, PLN02927, antheraxanthin epoxidase/zeaxanthin epoxidase. Length = 668 Score = 26.6 bits (58), Expect = 2.2 Identities = 16/50 (32%), Positives = 32/50 (64%), Gaps = 6/50 (12%) Query: 14 LNIISSLVMLVQERRRDIAILRTMGARISSIMSIFFMIGAFIGIAGTGMG 63 ++++SSL + RR +AI+ M AR+++IM+ + A++G+ G+G Sbjct: 415 VDVVSSLKRYEESRRLRVAIIHAM-ARMAAIMASTYK--AYLGV---GLG 458 >gnl|CDD|140235 PTZ00208, PTZ00208, 65 kDa invariant surface glycoprotein; Provisional. Length = 436 Score = 26.5 bits (58), Expect = 2.7 Identities = 10/27 (37%), Positives = 17/27 (62%) Query: 3 VILALIVLVAALNIISSLVMLVQERRR 29 +ILA++V L II+ ++ +RRR Sbjct: 388 IILAVLVPAIILAIIAVAFFIMVKRRR 414 >gnl|CDD|180055 PRK05398, PRK05398, formyl-coenzyme A transferase; Provisional. Length = 416 Score = 26.1 bits (58), Expect = 3.5 Identities = 9/18 (50%), Positives = 13/18 (72%) Query: 52 GAFIGIAGTGMGMIVGIL 69 GA +G + TGM + +GIL Sbjct: 164 GAALGDSNTGMHLAIGIL 181 >gnl|CDD|162277 TIGR01271, CFTR_protein, cystic fibrosis transmembrane conductor regulator (CFTR). The model describes the cystis fibrosis transmembrane conductor regulator (CFTR) in eukaryotes. The principal role of this protein is chloride ion conductance. The protein is predicted to consist of 12 transmembrane domains. Mutations or lesions in the genetic loci have been linked to the aetiology of asthma, bronchiectasis, chronic obstructive pulmonary disease etc. Disease-causing mutations have been studied by 36Cl efflux assays in vitro cell cultures and electrophysiology, all of which point to the impairment of chloride channel stability and not the biosynthetic processing per se. Length = 1490 Score = 25.3 bits (55), Expect = 6.5 Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 1/42 (2%) Query: 31 IAILRTMGARISSIMSIFFMIGAFIGIAGTGMGM-IVGILIS 71 ++ LR RI I FF+ FI I G VGI+++ Sbjct: 1105 LSTLRWFQMRIDIIFVFFFIAVTFIAIGTNQDGEGEVGIILT 1146 >gnl|CDD|180364 PRK06039, ileS, isoleucyl-tRNA synthetase; Reviewed. Length = 975 Score = 25.1 bits (56), Expect = 6.5 Identities = 10/27 (37%), Positives = 12/27 (44%), Gaps = 5/27 (18%) Query: 74 VEAI---RKFF--LHTLGVVIFDTEAY 95 VE I R +F L L +FD Y Sbjct: 550 VEGIDQTRGWFYTLLALSTALFDRPPY 576 >gnl|CDD|129544 TIGR00452, TIGR00452, methyltransferase, putative. Known examples to date are restricted to the proteobacteria. Length = 314 Score = 25.3 bits (55), Expect = 6.5 Identities = 11/27 (40%), Positives = 13/27 (48%), Gaps = 4/27 (14%) Query: 59 GTGMGMIVGI----LISCNVEAIRKFF 81 G G +VGI L C EA+RK Sbjct: 141 GHGAKSLVGIDPTVLFLCQFEAVRKLL 167 >gnl|CDD|162195 TIGR01082, murC, UDP-N-acetylmuramate--alanine ligase. UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso- diaminopimelate ligase (murein tripeptide ligase) is described by TIGR01081. Length = 448 Score = 25.0 bits (55), Expect = 7.9 Identities = 9/16 (56%), Positives = 10/16 (62%) Query: 54 FIGIAGTGMGMIVGIL 69 F+GI G GM I IL Sbjct: 4 FVGIGGIGMSGIAEIL 19 >gnl|CDD|132297 TIGR03253, oxalate_frc, formyl-CoA transferase. This enzyme, formyl-CoA transferase, transfers coenzyme A from formyl-CoA to oxalate. It forms a pathway, together with oxalyl-CoA decarboxylase, for oxalate degradation; decarboxylation by the latter gene regenerates formyl-CoA. The two enzymes typically are encoded by a two-gene operon. Length = 415 Score = 24.8 bits (54), Expect = 8.4 Identities = 9/18 (50%), Positives = 14/18 (77%) Query: 52 GAFIGIAGTGMGMIVGIL 69 GA +G + TGM +++GIL Sbjct: 163 GAALGDSNTGMHLMIGIL 180 >gnl|CDD|130580 TIGR01517, ATPase-IIB_Ca, plasma-membrane calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIB based on a phylogenetic analysis which distinguishes this group from the Type IIA SERCA calcium pump. A separate analysis divides Type IIA into sub-types (SERCA and PMR1), which are modelled by the corresponding TIGR01116 and TIGR01522. This model is well separated from the two others. Length = 941 Score = 24.7 bits (54), Expect = 9.3 Identities = 12/53 (22%), Positives = 20/53 (37%) Query: 19 SLVMLVQERRRDIAILRTMGARISSIMSIFFMIGAFIGIAGTGMGMIVGILIS 71 S + +V D ++ A + S++ G TG V IL+S Sbjct: 85 SFLQIVWAALSDQTLILLSVAAVVSLVLGLPEPGEGKADTETGWIEGVAILVS 137 >gnl|CDD|183250 PRK11638, PRK11638, lipopolysaccharide biosynthesis protein WzzE; Provisional. Length = 342 Score = 24.6 bits (54), Expect = 9.4 Identities = 11/29 (37%), Positives = 15/29 (51%), Gaps = 5/29 (17%) Query: 111 WIISMALALSLLATIF-----PSWKASRI 134 WII MAL +L+A + W A+ I Sbjct: 25 WIIGMALLFALIALGYSFLARQEWSATAI 53 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 0.143 0.411 Gapped Lambda K H 0.267 0.0726 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 2,378,781 Number of extensions: 152934 Number of successful extensions: 701 Number of sequences better than 10.0: 1 Number of HSP's gapped: 689 Number of HSP's successfully gapped: 137 Length of query: 143 Length of database: 5,994,473 Length adjustment: 84 Effective length of query: 59 Effective length of database: 4,179,401 Effective search space: 246584659 Effective search space used: 246584659 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: 52 (23.8 bits)