RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

Searching..................................................done

Query= gi|255764486|ref|YP_003065119.2| ABC transporter, membrane
spanning protein [Candidatus Liberibacter asiaticus str. psy62]
         (493 letters)



>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 =  257 bits (660), Expect = 3e-69
 Identities = 117/305 (38%), Positives = 178/305 (58%), Gaps = 13/305 (4%)

Query: 188 EKFIVFLLRNSLLLSIVISFGIIISLFANTFKFFSIISATDFFFGIVWDPRFPALGSSNV 247
           EK    LL  S ++ +++   I++ L       F      +F  G VWDP     GS  V
Sbjct: 1   EKIFKGLLLFSAVIIVLVLLLIVLFLLYEAIPAFEKNGILNFLTGTVWDP-----GSGPV 55

Query: 248 MGQFGLIPLLIGTFYIGFIAMLFSVPIGLLIAIYMAEYAPKKLRAVIKPITEMLVGIPTI 307
             Q+G +PL++GT     IA+L +VP+G+ IAI+++E APK++R+V+KP+ E+L GIP++
Sbjct: 56  QEQYGALPLIVGTLITSLIALLIAVPVGIGIAIFLSEIAPKRVRSVLKPVVELLAGIPSV 115

Query: 308 VYGFFALSLVGPFLRDISIYMNGLITGNYKSFIEAQ--SVLTAGLVMGIMLIPYVSSLSE 365
           VYGF+ L ++ PFL+           G+    I      +LTAG+V+ IM++P ++S+S 
Sbjct: 116 VYGFWGLFVLVPFLKPHF----QPFLGSNLGLIPLFGGPILTAGIVLAIMILPTIASISR 171

Query: 366 DVISSIPRSLRDGSLGLGATRSETMKYVIFPAAFPGIAGAILMTASRTIGETMIVVLAAG 425
           D + ++PRS ++ S  LGAT+ ET++ VI PAA  GI GA+++   R +GETM V +  G
Sbjct: 172 DALRAVPRSYKEASYALGATKWETIRRVILPAARSGIVGAVVLGLGRALGETMAVTMVIG 231

Query: 426 VAA-RLQFNPFESMTTITVKIMNQLTGDLDFSSPQTLVAFALGLTLFCITFFLNIYAMYI 484
                   + F+  TTIT  I NQ  G+    S  T   FALGL LF IT  +NI A YI
Sbjct: 232 NVFPISPLSLFDPGTTITSLIANQF-GEASGGSVHTSALFALGLVLFVITLLVNILARYI 290

Query: 485 MKKYQ 489
           +++ +
Sbjct: 291 VRRRR 295


>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 =  138 bits (351), Expect = 3e-33
 Identities = 77/302 (25%), Positives = 145/302 (48%), Gaps = 34/302 (11%)

Query: 188 EKFIVFLLRNSLLLSIVISFGIIISLFANTFKFFSIISATDFFFGIVWDPRFPALGSSNV 247
           +K   F+   S LL++     I+I +        +      FF              +  
Sbjct: 1   DKIFTFISLLSALLALGPLIWILIYILIKGLPALN----LGFFTKS----------PTPT 46

Query: 248 MGQFGLIPLLIGTFYIGFIAMLFSVPIGLLIAIYMAEYAPK-KLRAVIKPITEMLVGIPT 306
             + G+ P ++GT  +  +A++ +VP+G+  AIY+AEYA + +   VI+   ++L G+P+
Sbjct: 47  GAEGGIGPAIVGTLLLILLAIVIAVPLGIGAAIYLAEYANESRFTKVIRFAVDILAGVPS 106

Query: 307 IVYGFFALSLVGPFLRDISIYMNGLITGNYKSFIEAQSVLTAGLVMGIMLIPYVSSLSED 366
           IV G F              ++  ++ G +       S+L   L + ++++P +   +E+
Sbjct: 107 IVVGLFGYGF----------FVLTMLGGGF-------SLLAGALALALLILPVIIRTTEE 149

Query: 367 VISSIPRSLRDGSLGLGATRSETMKYVIFPAAFPGIAGAILMTASRTIGETMIVVLAAGV 426
            + ++P+ LR+ S  LGAT+ +T+  V+ PAA PGI   I+++ +R  GET  ++  AG 
Sbjct: 150 ALKAVPKDLREASYALGATKWQTIFKVVLPAALPGILTGIILSIARAAGETAPLLFTAGG 209

Query: 427 AARLQFNPFESMTTITVKIMNQLTGDLDFSSPQTLVAFALGLTLFCITFFLNIYAMYIMK 486
           +A    N F+   T+ V I N  +      S    +A+A  L L  +   LN+ A  + +
Sbjct: 210 SAFTPPNLFDPFATLPVLIYNLASEGP--YSEAQQLAWAAALVLILLVLLLNLIARLLRR 267

Query: 487 KY 488
           ++
Sbjct: 268 RF 269


>gnl|CDD|183070 PRK11275, pstC, phosphate transporter permease subunit PstC;
           Provisional.
          Length = 319

 Score = 97.5 bits (243), Expect = 6e-21
 Identities = 81/297 (27%), Positives = 142/297 (47%), Gaps = 22/297 (7%)

Query: 191 IVF--LLRNSLLLSIVISFGIIISLFANTFKFFSIISATDFFFGIVWDPRFPALGSSNVM 248
           I+F  L++ + L+++++  GII+SL        S  S   F    +W   + A       
Sbjct: 17  IIFSALVKLAALITLLLLGGIIVSLI-----ISSWPSIQKFGLSFLWTKEWDA-----PN 66

Query: 249 GQFGLIPLLIGTFYIGFIAMLFSVPIGLLIAIYMAEYAPKKLRAVIKPITEMLVGIPTIV 308
             +G +  + GT    FIA+L +VP+   IA+++ E AP  L+  +    E+L  IP+IV
Sbjct: 67  DIYGALVPIYGTLVTSFIALLIAVPVSFGIALFLTELAPGWLKRPLGIAIELLAAIPSIV 126

Query: 309 YGFFALSLVGP-----FLRDISIYMNGL-ITGN-YKSFIEAQSVLTAGLVMGIMLIPYVS 361
           YG + L +  P     F   +   ++ + I G  +        +L AG+++ IM+IPY++
Sbjct: 127 YGMWGLFVFAPLFATYFQEPVGNVLSNIPIVGALFSGPAFGIGILAAGVILAIMIIPYIA 186

Query: 362 SLSEDVISSIPRSLRDGSLGLGATRSETMKYVIFPAAFPGIAGAILMTASRTIGETMIVV 421
           ++  DV    P  +++ + G+G T  E +  ++ P    G+ G +++   R +GETM V 
Sbjct: 187 AVMRDVFEQTPVMMKESAYGIGCTTWEVIWRIVLPFTKNGVIGGVMLGLGRALGETMAVT 246

Query: 422 LAAGVAARL-QFNPFESMTTITVKIMNQLTGDLDFSSPQTLVAFALGLTLFCITFFL 477
              G   +L   + +    +IT  + N+       S   T     LGL LF ITF +
Sbjct: 247 FIIGNTYQLDSASLYMPGNSITSALANEFAEAE--SGLHTAALMELGLILFVITFIV 301


>gnl|CDD|152935 pfam12501, DUF3708, Phosphate ATP-binding cassette transporter.
           This domain family is found in bacteria, and is
           typically between 143 and 173 amino acids in length. The
           family is found in association with pfam00528. There is
           a single completely conserved residue P that may be
           functionally important.
          Length = 127

 Score = 86.1 bits (214), Expect = 2e-17
 Identities = 39/168 (23%), Positives = 64/168 (38%), Gaps = 45/168 (26%)

Query: 7   FSIIFLGLVSYFLGCLRARFLSKKNAI--RLYSKESYYGVYVALYSIIPYIFIFLLWFLF 64
             ++ L  + +FLG  RA  L++       L+S  +YYG YVAL++ +P + +  LW LF
Sbjct: 3   LLLLLLSAIGFFLGRRRALALARGGGDSRALHSLPNYYGAYVALWAALPALLLLALWLLF 62

Query: 65  SPYIIDFQVSNSFSHYLNSLAEGDRQFSYSILHKIVDSLSSLDPDTKFKIQKGDGDISDL 124
            P +I+  V  S    + +L   +R    S +                            
Sbjct: 63  EPILIEQLVLASLPAEVQALEGSERSLVLSDVR--------------------------- 95

Query: 125 LRYQNVISGYVPSPWIIEAAFYQEILSRKSRILMNVCMFLFSFLGCSY 172
                           + AA     LS  SR++M V + L +  G +Y
Sbjct: 96  ----------------LAAAQQYRALSSTSRLIMTVLVLLLALAGFAY 127


>gnl|CDD|183065 PRK11268, pstA, phosphate transporter permease subunit PtsA;
           Provisional.
          Length = 295

 Score = 60.9 bits (148), Expect = 8e-10
 Identities = 43/167 (25%), Positives = 78/167 (46%), Gaps = 20/167 (11%)

Query: 252 GLIPLLIGTFYIGFIAMLFSVPIGLLIAIYMAEYAPKKLRA-VIKPITEMLVGIPTIVYG 310
           GL   + G+  +   A +   P+G++  IY+AEY  K   A VI+ I ++L+  P+IV G
Sbjct: 78  GLANAIAGSGLLILWATVVGTPLGIMAGIYLAEYGRKSWLAEVIRFINDILLSAPSIVVG 137

Query: 311 FFALSLVGPFLRDISIYMNGLITGNYKSFIEAQSVLTAGLVMGIMLIPYVSSLSEDVISS 370
            F  ++V                   + F    S     + + ++ IP V   +E+++  
Sbjct: 138 LFVYTIV---------------VAQMEHF----SGWAGVIALALLQIPIVIRTTENMLKL 178

Query: 371 IPRSLRDGSLGLGATRSETMKYVIFPAAFPGIAGAILMTASRTIGET 417
           +P SLR+ +  LG  + + +  +   A+  GI   +L+  +R  GET
Sbjct: 179 VPDSLREAAYALGTPKWKMISAITLKASVSGIMTGVLLAIARIAGET 225


>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 = 58.8 bits (143), Expect = 3e-09
 Identities = 58/227 (25%), Positives = 98/227 (43%), Gaps = 31/227 (13%)

Query: 260 TFYIGFIAMLFSVPIGLLIAIYMAEYAPKKLRAVIKPITEMLVGIPTI----VYGFFALS 315
           +  +  IA L  +P+G+ +A ++A     + R   KP+ E+LV +P +    V GF+ L 
Sbjct: 3   SLKVAVIATLLLLPLGIPVAWWLA-----RSRFRGKPLLEVLVTLPLVLPPTVLGFYLLI 57

Query: 316 LVGPFLRDISIYMNGLITGNYKSFIEAQSVLT-AGLVMG--IMLIPYVSSLSEDVISSIP 372
             GP         NG I G          V T AG V+   I+  P +         ++ 
Sbjct: 58  AFGP---------NGPI-GKLLELFGISLVFTFAGAVLASVIVSFPLMVQPIRAAFEAVD 107

Query: 373 RSLRDGSLGLGATRSETMKYVIFPAAFPGIAGAILMTASRTIGETMIVVLAAG-VAARLQ 431
             L + +  LGA+  +T   V  P AFPG+    +++ +R +GE    ++ AG +    Q
Sbjct: 108 PDLEEAARTLGASEIQTFLKVTLPLAFPGLLAGCVLSFARALGEFGATLMFAGNIPGETQ 167

Query: 432 FNPFESMTTITVKIMNQLTGDLDFSSPQTLVAFALGLTLFCITFFLN 478
                   TI + I + +  D + +   +LV  A  L +  +   LN
Sbjct: 168 --------TIPLAIYDAVESDYELAHQLSLVLLAFSLIVLLLVELLN 206


>gnl|CDD|131194 TIGR02139, permease_CysT, sulfate ABC transporter, permease protein
           CysT.  This model represents CysT, one of two
           homologous, tandem permeases in the sulfate ABC
           transporter system; the other is CysW (TIGR02140). The
           sulfate transporter has been described in E. coli as
           transporting sulfate, thiosulfate, selenate, and
           selenite. Sulfate transporters may also transport
           molybdate ion if a specific molybdate transporter is not
           present.
          Length = 265

 Score = 49.2 bits (118), Expect = 2e-06
 Identities = 55/227 (24%), Positives = 96/227 (42%), Gaps = 31/227 (13%)

Query: 260 TFYIGFIAMLFSVPIGLLIAIYMAEYA-PKKLRAVIKPITEMLVGIPTIVYGFFALSLVG 318
           +F    IA L +   G L+A  +  Y  P K   ++  + ++   +PT V G    +L  
Sbjct: 55  SFGTALIAALINAVFGTLLAWVLVRYRFPGK--RIVDALVDLPFALPTAVAGIALATLYS 112

Query: 319 PFLRDISIYMNGLITGNYKSFIEAQSVLTAGLVMGIML------IPYVSSLSEDVISSIP 372
           P         NG I     SF+    +  A   +GI++      +P+V    + V+  I 
Sbjct: 113 P---------NGWI----GSFLAPLGIKIAFTPLGIVIALVFVSLPFVVRTVQPVLEEIE 159

Query: 373 RSLRDGSLGLGATRSETMKYVIFPAAFPGIAGAILMTASRTIGETMIVVLAAGVAARLQF 432
           + L + +  LGA+R +T   VI PA  P +     +  +R +GE   V+  AG       
Sbjct: 160 KELEEAAASLGASRWQTFWRVILPALLPALLTGFALAFARAVGEYGSVIFIAGNL----- 214

Query: 433 NPFESMTTITVKIMNQLTGDLDFSSPQTLVAFALGLTLFCITFFLNI 479
            P ++     + I  +L    D++   T +A  + +  F I  F+N+
Sbjct: 215 -PMKTEIA-PLLIFQKLE-QYDYAG-ATAIASVMLIISFVILLFINL 257


>gnl|CDD|162139 TIGR00969, 3a0106s02, sulfate ABC transporter, permease protein.
           This model describes a subfamily of both CysT and CysW,
           paralogous and generally tandemly encoded permease
           proteins of the sulfate ABC transporter.
          Length = 271

 Score = 42.3 bits (100), Expect = 3e-04
 Identities = 34/172 (19%), Positives = 68/172 (39%), Gaps = 20/172 (11%)

Query: 260 TFYIGFIAMLFSVPIGLLIAIYMAEYAPKKLRAVIKPITEMLVGIPTIVYGFFALSL--- 316
           T  +  IA+  +   GLLIA  +  Y     R ++  + ++   +  +V G     L   
Sbjct: 65  TLLMALIAVPLNGVFGLLIAWVLTRYQFPG-RKLLDALIDLPFALSPVVAGLTLALLYGS 123

Query: 317 ---VGPFLRDISIYMNGLITGNYKSFIEAQSVLTAGLVMGIMLIPYVSSLSEDVISSIPR 373
              +G +L    I +               +     L M  + +P+V    + V+  +  
Sbjct: 124 NGWLGSWLASFGIQI-------------IFTWPGMALAMIFVSLPFVVREVQPVLEELGT 170

Query: 374 SLRDGSLGLGATRSETMKYVIFPAAFPGIAGAILMTASRTIGETMIVVLAAG 425
              + +  LGA+  +T   V  P+    +   +++T +R +GE   VV+ +G
Sbjct: 171 EAEEAAATLGASGWQTFWRVTLPSIRWALLYGVVLTFARALGEFGAVVVVSG 222


>gnl|CDD|132457 TIGR03416, ABC_choXWV_perm, choline ABC transporter, permease
           protein. 
          Length = 267

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 45/173 (26%), Positives = 70/173 (40%), Gaps = 51/173 (29%)

Query: 265 FIAMLFSVPIGLLIAIYMAEYAPKKLRAVIKPITEMLVGIPTIVYGFFALSLVGPFLRDI 324
            + M+  VP+G+  A          L A+++P+ +++  +PT VY   AL L G      
Sbjct: 100 VVCMVIGVPLGIAAA------HRPWLYAIMRPVLDLMQTLPTFVYLIPALVLFG------ 147

Query: 325 SIYMNGLITGNYKSFIEAQSVLTAGLVMG-----IMLIPYVSSLSEDVISSIPRSLRDGS 379
                                   G+V G     I  IP    L+   ISS+P+ L +  
Sbjct: 148 -----------------------LGMVPGLISTVIFAIPAPIRLTHLGISSVPQELVEAG 184

Query: 380 LGLGATRSETMKYVIFPAAFP----GIAGAILMTASRTIGETMIVVLAAGVAA 428
              GAT S+ +  V  P A P    G+   I+++ S       +VV+AA V A
Sbjct: 185 EAFGATPSQLLWKVELPYAMPQIMAGLTQTIMLSLS-------MVVIAALVGA 230


>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 = 40.1 bits (94), Expect = 0.001
 Identities = 38/179 (21%), Positives = 74/179 (41%), Gaps = 18/179 (10%)

Query: 250 QFGLIPLLIGTFYIGFIAMLFSVPIGLLIAIYMAEYAPKKLRAVIKPITEMLVGIPTIVY 309
              L   L  +     +A++  +P   ++A          L+ ++  + ++ + +P +V 
Sbjct: 20  IKALRLSLATSLASLLLAVIIGIPTAYVLA-----RVRFPLKKLLDTLLDLPMVLPPLVA 74

Query: 310 GFFALSLVGPFLRDISIYMNGLITGNYKSFIEAQSVLT-AGLVMGIMLI--PYVSSLSED 366
           G   L L G          NGL+ G Y      Q + +  G+V+    +  PY   ++  
Sbjct: 75  GLALLLLFG---------RNGLL-GPYLEAAGIQVIFSTLGVVLAQTFVASPYYVRVARS 124

Query: 367 VISSIPRSLRDGSLGLGATRSETMKYVIFPAAFPGIAGAILMTASRTIGETMIVVLAAG 425
              S+     D +  LGA   ET + +  P A PG+   +++  +R +GE    ++ AG
Sbjct: 125 TFKSVDPRYEDVARSLGAGPLETFRKITLPMARPGLLAGLVLAWARALGEFGATLMFAG 183


>gnl|CDD|182726 PRK10782, PRK10782, DL-methionine transporter permease subunit;
           Provisional.
          Length = 217

 Score = 38.6 bits (90), Expect = 0.004
 Identities = 40/155 (25%), Positives = 66/155 (42%), Gaps = 20/155 (12%)

Query: 257 LIGTFYIGFIAMLFSVPIGLLIAIYMAE--YAPKKLRAVIKPITEMLVGIPTIVYGFFAL 314
           L  TF  GF   +  +P+G+L+ +       A  KL   +  +  +   IP I+     L
Sbjct: 17  LAMTFVSGFFGFVIGLPVGVLLYVTRPGQIIANAKLYRTLSALVNIFRSIPFIIL----L 72

Query: 315 SLVGPFLRDISIYMNGLITGNYKSFIEAQSVLTAGLVMGIMLIPYVSSLSEDVISSIPRS 374
             + PF R        +I G       A   LT G        P+++ + E+ +  IP  
Sbjct: 73  VWMIPFTR--------VIVGTSIGLQAAIVPLTVGA------APFIARMVENALLEIPTG 118

Query: 375 LRDGSLGLGATRSETMKYVIFPAAFPGIAGAILMT 409
           L + S  +GAT  + ++ V+ P A PG+  A  +T
Sbjct: 119 LIEASRAMGATPMQIVRKVLLPEALPGLVNAATIT 153


>gnl|CDD|181907 PRK09494, glnP, glutamine ABC transporter permease protein;
           Reviewed.
          Length = 219

 Score = 35.8 bits (83), Expect = 0.027
 Identities = 38/153 (24%), Positives = 64/153 (41%), Gaps = 27/153 (17%)

Query: 254 IPLLIG----TFYIGFIAMLFSVPIGLLIAIYMAEYAPKKLRAVIKPITEMLVGIPTIV- 308
           IPLL+     T +I  + +   + IGLL     A Y       +     E++ G P +V 
Sbjct: 12  IPLLLEGAKMTLWISVLGLAGGLVIGLLAGFARA-YGGWIANHIALVFIELIRGTPIVVQ 70

Query: 309 --YGFFALSLVGPFLRDISIYMNGLITGNYKSFIEAQSVLTAGLVMGIMLIPYVSSLSED 366
             + +FAL +    LR                 I+  +     ++  I    Y++ ++  
Sbjct: 71  VMFIYFALPMAFNDLR-----------------IDPFTAAVVTIM--INSGAYIAEITRG 111

Query: 367 VISSIPRSLRDGSLGLGATRSETMKYVIFPAAF 399
            + SI +  R+  L LG +R ET++YVI P A 
Sbjct: 112 AVLSIHKGFREAGLALGLSRRETLRYVIGPLAL 144


>gnl|CDD|181841 PRK09421, modB, molybdate ABC transporter permease protein;
           Reviewed.
          Length = 229

 Score = 34.5 bits (80), Expect = 0.064
 Identities = 40/159 (25%), Positives = 69/159 (43%), Gaps = 17/159 (10%)

Query: 263 IGFIAMLFSVPIGLLIAIYMAEYA-PKKLRAVIKPITEMLVGIPTIVYGFFALSLVGPFL 321
           +  +A+LFS+P G+L+A  +A    P K  +++  +  + + +P +V G+  L  +G   
Sbjct: 17  VSSVAVLFSLPFGILVAWLLARCRFPGK--SLLDSLLHLPLVLPPVVTGYLLLISMGR-- 72

Query: 322 RDISIYMNGLITG---NYKSFIEAQSVLTAGLVMGIMLIPYVSSLSEDVISSIPRSLRDG 378
                   G I      +     A S   A L   +M  P +       + ++ R L   
Sbjct: 73  -------RGFIGQWLYEWFGISFAFSWRGAALAAAVMAFPLMVRAIRLSLEAVDRKLEQA 125

Query: 379 SLGLGATRSETMKYVIFPAAFPGI-AGAILMTASRTIGE 416
           +  LGA+       +  P   PGI AG +L  A R++GE
Sbjct: 126 ARTLGASPWRVFFTITLPLTLPGIIAGTVLAFA-RSLGE 163


>gnl|CDD|182873 PRK10971, PRK10971, sulfate/thiosulfate transporter subunit;
           Provisional.
          Length = 277

 Score = 34.3 bits (79), Expect = 0.077
 Identities = 39/172 (22%), Positives = 74/172 (43%), Gaps = 20/172 (11%)

Query: 260 TFYIGFIAMLFSVPIGLLIAIYMAEYAPKKLRAVIKPITEMLVGIPTIVYGFFALSLVGP 319
           T    F+A +F+   GLL+A  +  Y     R ++  + ++   +PT V G   L+L   
Sbjct: 63  TLLSAFVASIFNAVFGLLMAWILTRYRFPG-RTLLDALMDLPFALPTAVAG---LTLASL 118

Query: 320 FLRDISIYMNGLITGNYKSFIEAQSV------LTAGLVMGIMLIPYVSSLSEDVISSIPR 373
           F           + G Y  ++    +      L   + M    IP+V    + V+  +  
Sbjct: 119 FS----------VNGWYGEWLAKFDIKVTYTWLGIAVAMAFTSIPFVVRTVQPVLEELGP 168

Query: 374 SLRDGSLGLGATRSETMKYVIFPAAFPGIAGAILMTASRTIGETMIVVLAAG 425
              + +  LGATR ++ + V+ P   P +   + ++ +R++GE   V+  AG
Sbjct: 169 EYEEAAETLGATRWQSFRKVVLPELSPALLAGVALSFTRSLGEFGAVIFIAG 220


>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 = 32.1 bits (73), Expect = 0.30
 Identities = 51/239 (21%), Positives = 89/239 (37%), Gaps = 43/239 (17%)

Query: 253 LIPLLIGTFYIGFIAMLFSVPIGLLIAIYMA---EYAPKKLRAVIKPITEMLVGIPTIVY 309
           ++P LI    I  +A      I  ++ +  A     AP  +      + E + G P +V 
Sbjct: 9   ILPTLIEGLKITILATALGFAIAAVLGLVFAILRRSAPTPISWPTSFVVEFIRGTPLLVQ 68

Query: 310 GFFALSLVGPFLRDISIYMNGLITGNYKSFIEAQSVLTAGLVMGIMLIPYVSSLSEDVIS 369
            +F   +    L DI I +  L+ G               L +G+    Y + +    I 
Sbjct: 69  LYFLYYV----LPDIGIRLPALVAG--------------VLGLGLHYATYAAEVYRAGIE 110

Query: 370 SIPRSLRDGSLGLGATRSETMKYVIFPAAFPGIAGAILMTASRTIGETMIVVLAAGVAAR 429
           ++PR   + +  L  T  +T +++I P A P                 +I  L   + A 
Sbjct: 111 AVPRGQWEAATALNLTARQTYRHIILPQAIP----------------PIIPALGNYLVAM 154

Query: 430 LQFNPFESMTTITVKIMNQL----TGDLDFSSPQTLVA-FALGLTLFCITFFLNIYAMY 483
            +  P  S  T+ +++MNQ          +  P TLV  F L L++  + F   + A  
Sbjct: 155 FKETPVLSAITV-LELMNQAKSIGNSTFRYLEPMTLVGVFFLILSIISVFFLRRLEARL 212


>gnl|CDD|132299 TIGR03255, PhnV, 2-aminoethylphosphonate ABC transport system,
           membrane component PhnV.  This membrane component of an
           ABC transport system is found in Salmonella and
           Burkholderia lineages in the vicinity of enzymes for the
           breakdown of 2-aminoethylphosphonate.
          Length = 272

 Score = 31.9 bits (72), Expect = 0.44
 Identities = 32/162 (19%), Positives = 67/162 (41%), Gaps = 19/162 (11%)

Query: 257 LIGTFYIGFIAMLFSVPIGLLIAIYMAEYAPKK--LRAVIKPITEMLVGIPTIVYGFFAL 314
           L  +  IGF A  F++  GL  A+ +A    K+  + A++  +  +   IP++  G   L
Sbjct: 70  LAASLEIGFCAAAFALACGLGAALALALEGRKRQGVGALLDALFMLPNAIPSVSLGLAIL 129

Query: 315 SLVGPFLRDISIYMNGLITGNYKSFIEAQSVLTAGLVMGIMLIPYVSSLSEDVISSIPRS 374
                       +  G +  N    I    VL A   +   ++ +    +   ++     
Sbjct: 130 I----------AFHAGPLDLNGSLAI----VLFAHFAL---ILAFCFRCAAAALAPELAD 172

Query: 375 LRDGSLGLGATRSETMKYVIFPAAFPGIAGAILMTASRTIGE 416
           + + +  LGA  +  +++V+ P   P I  A+ +  + ++GE
Sbjct: 173 IEEAAASLGAPPAMRLRHVLLPLLMPAIMAALALGFALSLGE 214


>gnl|CDD|180249 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
          Length = 646

 Score = 31.1 bits (71), Expect = 0.72
 Identities = 42/202 (20%), Positives = 75/202 (37%), Gaps = 26/202 (12%)

Query: 173 AILRIKPSFCARSAVEKFIVFLLRNSLLLSIVISFGIIISLFANTFKFFSIISATDFFFG 232
            +L           +++ +  L+     L I     II  L   +F F   +        
Sbjct: 375 GLLLSFKLKKKSEGLKRLLKILI----YLGI---STIIWGLLTGSF-FGFSLPIFLPGGY 426

Query: 233 IVWDPRFPALGSSNVMGQFGLIPLLIGTFYIGFIAMLFSVPIGLLIAIYMAEYAPKKLRA 292
           +     +P+L + N      ++ +LI +  IG I +      GLL+             A
Sbjct: 427 LELPEGYPSLSTEN-----DVMTILIISLLIGVIHLFL----GLLLGFINNVRKGDYKDA 477

Query: 293 VIKPI--TEMLVGIPTIVYGFFALSLVGPFLRDISIYM--NGLITGNYKSFIEAQSVLTA 348
            +  +    +L+GI  IV G F L +    L  I  Y+   G++       I+ +S+  A
Sbjct: 478 FLAQLGWLLILLGILLIVLGGFGLVVGLGPLGLIGKYLIIGGVVLIILGEGIDGKSLGGA 537

Query: 349 GLVMGIMLIP-YVSSLSEDVIS 369
              +G+  I  Y+     DV+S
Sbjct: 538 LGGLGLYEITGYLG----DVLS 555


>gnl|CDD|185062 PRK15107, PRK15107, glutamate/aspartate transport system permease
           GltK; Provisional.
          Length = 224

 Score = 30.6 bits (69), Expect = 1.0
 Identities = 16/41 (39%), Positives = 21/41 (51%)

Query: 359 YVSSLSEDVISSIPRSLRDGSLGLGATRSETMKYVIFPAAF 399
           Y S +    I SI R     +L LG T  ++MK +I P AF
Sbjct: 111 YYSEIIRAGIQSISRGQSSAALALGMTHWQSMKLIILPQAF 151


>gnl|CDD|132270 TIGR03226, PhnU, 2-aminoethylphosphonate ABC transporter, permease
           protein.  This ABC transporter permease
           (membrane-spanning) component is found in a region of
           the salmonella typhimurium LT2 genome responsible for
           the catabolism of 2-aminoethylphosphonate via the phnWX
           pathway (GenProp0238).
          Length = 312

 Score = 30.4 bits (68), Expect = 1.1
 Identities = 32/116 (27%), Positives = 48/116 (41%), Gaps = 8/116 (6%)

Query: 358 PYVSSLSEDVISSIPRSLRDGSLGLGATRSETMKYVIFPAAFPGIAGAILMTASRTIGET 417
           P+V        + I + L + +  LGA        VIFPAA P IA   ++    T+ E 
Sbjct: 193 PFVMRPLLAAFAQIDKRLLEAASILGAHGLMLAGQVIFPAALPAIAAGGILCFLLTLNEF 252

Query: 418 MIVVLAAGVAARLQFNPFESMTTITVKIMNQLTGDLDFSSPQTLVAFALGLTLFCI 473
            I++     AA L   P    +   + I      DL  ++   L+  AL L LF +
Sbjct: 253 GILLFIG--AAGLITLPMAIYSKAILDI------DLPAAAAGALIMIALSLALFAL 300


>gnl|CDD|162323 TIGR01371, met_syn_B12ind,
           5-methyltetrahydropteroyltriglutamate--homocysteine
           S-methyltransferase.  This model describes the
           cobalamin-independent methionine synthase. A family of
           uncharacterized archaeal proteins is homologous to the
           C-terminal region of this family. That family is
           excluded from this model but, along with this family,
           belongs to pfam model pfam01717.
          Length = 750

 Score = 30.4 bits (69), Expect = 1.1
 Identities = 19/65 (29%), Positives = 28/65 (43%), Gaps = 4/65 (6%)

Query: 61  WFLFSPYIIDFQVSNSFSHYLNSLAEGDRQFSYSILHKIVDSLS-SLDPDTKFKIQKGDG 119
           W L     +DF  SN FS Y + L   D       + +   +    LD DT F + +G+ 
Sbjct: 41  WKLQKEAGVDFIPSNDFSLYDHVL---DTAVMLGAIPERFGNYGGDLDLDTYFAMARGNK 97

Query: 120 DISDL 124
           D+  L
Sbjct: 98  DVPAL 102


>gnl|CDD|179176 PRK00943, PRK00943, selenophosphate synthetase; Provisional.
          Length = 347

 Score = 29.8 bits (68), Expect = 1.9
 Identities = 11/17 (64%), Positives = 11/17 (64%)

Query: 222 SIISATDFFFGIVWDPR 238
            IIS TDFF  IV DP 
Sbjct: 62  GIISTTDFFMPIVDDPF 78


>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 = 29.4 bits (67), Expect = 2.1
 Identities = 16/62 (25%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 260 TFYIGFIAMLFSVPIGLLIAIYMAEYAPKKLRAVIKPITEMLVGIPTIV---YGFFALSL 316
           T  +  +++L  + +GLL+A+ +     + LR +     E+  G P +V   + +F L L
Sbjct: 12  TLLLSVLSILLGLVLGLLLAL-LRLSGNRPLRWIATVYVELFRGTPLLVQLFFIYFGLPL 70

Query: 317 VG 318
           +G
Sbjct: 71  IG 72


>gnl|CDD|162646 TIGR01992, PTS-IIBC-Tre, PTS system, trehalose-specific IIBC
           component.  Trehalose may also be transported (in
           Salmonella) via the mannose PTS or galactose permease
           systems, or (in Sinorhizobium, Thermococcus and
           Sulfolobus, for instance) by ABC transporters.
          Length = 462

 Score = 29.3 bits (66), Expect = 2.2
 Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 3/64 (4%)

Query: 274 IGLLIAIYMAEYAPKKLRAVIKPITEMLVGIPT--IVYGFFALSLVGPFLRDISIYM-NG 330
           +  L+A Y+     K LR  +    ++LV  P   +V GF A +++GP  R I   + +G
Sbjct: 234 LPALLAGYVLAVIEKWLRKRVPDAIQLLVVPPVSLLVTGFLAHAIIGPIGRLIGNGITSG 293

Query: 331 LITG 334
           +   
Sbjct: 294 VTAL 297


>gnl|CDD|182245 PRK10110, PRK10110, bifunctional PTS system maltose and
           glucose-specific transporter subunits IICB; Provisional.
          Length = 530

 Score = 28.9 bits (65), Expect = 3.3
 Identities = 25/70 (35%), Positives = 34/70 (48%), Gaps = 6/70 (8%)

Query: 200 LLSIVISFGIIISLFANTFKFFSIISATDFFFGIVWDPRFPALGSSNVMGQFGL-IPLLI 258
           +L  VI+ GII+ +    F    +  A  FF G     RF  + SS VMG  GL IPL+ 
Sbjct: 148 ILGAVIA-GIIVWMLHERFHNIRLPDALAFFGGT----RFVPIISSLVMGLVGLVIPLVW 202

Query: 259 GTFYIGFIAM 268
             F +G   +
Sbjct: 203 PIFAMGISGL 212


>gnl|CDD|162655 TIGR02004, PTS-IIBC-malX, PTS system, maltose and glucose-specific
           IIBC component.  This model represents a family of PTS
           enzyme II fused B and C components including and most
           closely related to the MalX maltose and glucose-specific
           transporter of E. coli. A pair of paralogous genes from
           E. coli strain CFT073 score between trusted and noise
           and may have diverged sufficiently to have an altered
           substrate specificity.
          Length = 517

 Score = 28.7 bits (64), Expect = 3.9
 Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 5/65 (7%)

Query: 205 ISFGIIISLFANTFKFFSIISATDFFFGIVWDPRFPALGSSNVMGQFGL-IPLLIGTFYI 263
           +  G+I+    N F    +  A  FF G     RF  + S+ V+   GL IPL+   F +
Sbjct: 143 VIVGLIVYKLHNRFYTVQMPDALAFFGGA----RFVPIISALVLAVVGLVIPLVWPLFAL 198

Query: 264 GFIAM 268
             +A+
Sbjct: 199 MIMAI 203


>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 = 28.7 bits (64), Expect = 4.1
 Identities = 48/246 (19%), Positives = 85/246 (34%), Gaps = 50/246 (20%)

Query: 252 GLIPLLIG----TFYIGFIAMLFSVPIGLLIAIYMAEYAPKKLRAVIKPITEMLVGIPTI 307
             +PLL+     T  I     + +  +     +      P  LR V     E+  G   +
Sbjct: 2   AYLPLLLQGAWVTMQITLAGSVLATVLAFFAGLGRVSGGPI-LRTVALCYIEVFRGTSLL 60

Query: 308 V---YGFFALSLVGPFLRDISIYMNGLITGNYKSFIEAQSVLTAGLVMGIMLIPYVSSLS 364
           V   + +F L L+G                     +    V T  +V+G+    Y + + 
Sbjct: 61  VQLFWFYFVLPLIG---------------------LSLDPVTTGVMVLGLHAGAYGAEIV 99

Query: 365 EDVISSIPRSLRDGSLGLGATRSETMKYVIFPAAFPGIAGAILMTASRTIGETMIVVLAA 424
              +SS+     +    L  TR +T++ +  P A   +  A    A   +  T +V L +
Sbjct: 100 RGALSSVSVQQLEACRALNFTRFQTLRRISLPQALVEMMPAFGNLAIELLKLTSLVSLIS 159

Query: 425 GVAARLQFNPFESMTTITVKIMNQLTGDLDFSSPQTLVAFALGLTLFCITFFLNIYAMYI 484
                       +  T   + +  LT D       TL  FA+ L  +   F + +  M I
Sbjct: 160 -----------LADLTFAAQSIRNLTLD-------TLSIFAITLLCY---FVMALIIMLI 198

Query: 485 MKKYQR 490
           M+  +R
Sbjct: 199 MRVLER 204


>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 = 28.5 bits (64), Expect = 4.4
 Identities = 15/69 (21%), Positives = 33/69 (47%), Gaps = 1/69 (1%)

Query: 260 TFYIGFIAMLFSVPIGLLIAIYMAEYAPKKLRAVIKPITEMLVGIPTIVYGFFALSLVGP 319
           +     + +   + IGLLI   +A Y   ++   I  + ++ +  PTI+     + ++GP
Sbjct: 64  SLGSALLVLGLVLTIGLLIGG-LAGYIGGRVDEAIMRVCDVFLSFPTIILSLAIVGILGP 122

Query: 320 FLRDISIYM 328
            L ++ I +
Sbjct: 123 GLENVIIAI 131


>gnl|CDD|185373 PRK15476, PRK15476, oxaloacetate decarboxylase subunit beta;
           Provisional.
          Length = 433

 Score = 28.4 bits (63), Expect = 4.7
 Identities = 27/98 (27%), Positives = 43/98 (43%), Gaps = 9/98 (9%)

Query: 220 FFSIISATDFFFGIVWDPRFPALGSSNVMGQFGLIPLLIGTF---YIGFIAMLFSVPIGL 276
           F  + + TDF   ++ +PR   LG++    QFG+   ++G     Y G I+  F++P   
Sbjct: 141 FMGVGAMTDFG-PLLANPRTLLLGAA---AQFGIFATVLGALTLNYFGLIS--FTLPQAA 194

Query: 277 LIAIYMAEYAPKKLRAVIKPITEMLVGIPTIVYGFFAL 314
            I I      P  +    K   E+L  I    Y + AL
Sbjct: 195 AIGIIGGADGPTAIYLSGKLAPELLGAIAVAAYSYMAL 232


>gnl|CDD|185010 PRK15050, PRK15050, 2-aminoethylphosphonate transport system
           permease PhnU; Provisional.
          Length = 296

 Score = 28.0 bits (63), Expect = 5.5
 Identities = 26/106 (24%), Positives = 44/106 (41%), Gaps = 12/106 (11%)

Query: 369 SSIPRSLRDGSLGLGATRSETMKYVIFPAAFPGIAGAILMTASRTIGETMIVVLAAGVAA 428
           + +     + +  LGA+     + VI P A+P +A    +    T+ E  I VL  G A 
Sbjct: 185 AQLDARQLEAAASLGASPWRVARRVILPEAWPALAAGGSLCLLLTLNEFGI-VLFTG-AK 242

Query: 429 RLQFNPFESMTTITVKIMNQLTGDLDFSSPQTL--VAFALGLTLFC 472
            +         T+ V I ++   D D+ +   +  V  AL L L+ 
Sbjct: 243 DVV--------TLPVLIYSKAIVDFDYPTACAIAVVNLALSLGLYA 280


>gnl|CDD|185055 PRK15100, PRK15100, amino acid ABC transporter permease;
           Provisional.
          Length = 220

 Score = 27.8 bits (62), Expect = 7.1
 Identities = 15/59 (25%), Positives = 27/59 (45%)

Query: 340 IEAQSVLTAGLVMGIMLIPYVSSLSEDVISSIPRSLRDGSLGLGATRSETMKYVIFPAA 398
           IE   +  A + + +    Y +      ISSI +   + +  +G TR +T++  I P A
Sbjct: 83  IELDPIPAAMIGLSLNTAAYAAETLRAAISSIDKGQWEAAASIGMTRWQTLRRAILPQA 141


>gnl|CDD|149639 pfam08652, RAI1, RAI1 like.  RAI1 is homologous to Caenorhabditis
           elegans DOM-3 and human DOM3Z and binds to a nuclear
           exoribonuclease. It is required for 5.8S rRNA
           processing.
          Length = 68

 Score = 27.6 bits (62), Expect = 8.3
 Identities = 8/11 (72%), Positives = 9/11 (81%)

Query: 301 LVGIPTIVYGF 311
           LVG+P IV GF
Sbjct: 49  LVGVPRIVVGF 59


>gnl|CDD|179806 PRK04270, PRK04270, H/ACA RNA-protein complex component Cbf5p;
           Reviewed.
          Length = 300

 Score = 27.1 bits (61), Expect = 9.8
 Identities = 8/19 (42%), Positives = 11/19 (57%)

Query: 290 LRAVIKPITEMLVGIPTIV 308
           LR VI P+   L  +P I+
Sbjct: 211 LRRVILPMEYALSHLPKII 229


  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
   0.330    0.145    0.425 

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: 8,232,867
Number of extensions: 570270
Number of successful extensions: 2166
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2117
Number of HSP's successfully gapped: 187
Length of query: 493
Length of database: 5,994,473
Length adjustment: 97
Effective length of query: 396
Effective length of database: 3,898,497
Effective search space: 1543804812
Effective search space used: 1543804812
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 59 (26.5 bits)