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)