RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

Query= gi|254780925|ref|YP_003065338.1| bifunctional preprotein
translocase subunit SecD/SecF [Candidatus Liberibacter asiaticus str.
psy62]
         (833 letters)



>gnl|CDD|30690 COG0342, SecD, Preprotein translocase subunit SecD [Intracellular
           trafficking and secretion].
          Length = 506

 Score =  415 bits (1067), Expect = e-116
 Identities = 217/532 (40%), Positives = 323/532 (60%), Gaps = 34/532 (6%)

Query: 1   MRNNPWLVILYSMICCIGLLIALPNFLPQSMLDRFPSAMPKNRISLGLDLRGGSHLVLEV 60
           MR + W   L +++  IG+L AL           + + +  N + LGLDLRGG H++LEV
Sbjct: 2   MRFSRWKKQLLALVVLIGILFAL--------NLSWLAKLKVNPMKLGLDLRGGVHILLEV 53

Query: 61  DEDDFVNGFLQMYSDELRSFLKKEGIGVFSMRQIQNKITLSFADSRFKENIADKVTLFLQ 120
           D    +   L+  +D+LRS L+KEG+    +R   N IT+   D+   +     + L  +
Sbjct: 54  DMPTALKKRLEQLADDLRSRLRKEGVSYSGVRVEGNGITVPLRDAAELDKARKLLRLLHR 113

Query: 121 GVNSKLNVDPKKNLLVTTTEKEISIVLSQNNIDQVISHAIEQSMEIIRQRIDQIGISEST 180
           GV                    + + L++  +D++   A++Q++ I+R R++++G++E  
Sbjct: 114 GV-------------------VLFLALTEAELDEIRKDAVQQNITILRNRVNELGVAEPV 154

Query: 181 IQRLGSHRILIQLPGEQDPSRLRQLLGTTAKMSFHKVLPNNSKKGFMFG-------VRFL 233
           IQR G+ RI+++LPG QD +R + LLG TA + F  V  +        G       V  L
Sbjct: 155 IQRQGADRIVVELPGVQDTARAKDLLGKTATLEFRLVDDSVKLADAADGLAPAGSEVLKL 214

Query: 234 RDSDGNQYLVEDKVEISGIHLNGATANFDPKTHKPVVDISFDEMGARRFFEVTRDNIGKP 293
                   L++ +V ++G H+  AT  FD + ++PVV+ S D  GAR F + T+ N+GK 
Sbjct: 215 DREGNRPVLLKKRVILTGDHITDATVGFDQRGNQPVVNFSLDSEGARIFADFTKANVGKR 274

Query: 294 LAVVLDGRVLTAPVINQAIPSGKAQISGNFTIETAGILAAMLRAGSLPIKLNIVEERNVG 353
           +A+VLDG+V++APVIN+AI  G  QI+GNFT E A  LA +LR+G+LP  L IVEER VG
Sbjct: 275 MAIVLDGQVISAPVINEAITGGSGQITGNFTAEEARDLALLLRSGALPAPLEIVEERTVG 334

Query: 354 ADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGATLT 413
             LG+DSI  G  A + GL L+ +FM++ Y   G++A  ++ LN +L LA+LSLLGATLT
Sbjct: 335 PTLGADSIKAGLIAGLIGLALVAVFMLLYYRLAGVIAAIALGLNGVLILAVLSLLGATLT 394

Query: 414 LPSIAGIVLGIGLAVDSNILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDSNITALIA 473
           LP IAGI+L IG+AVD+N+L+ ERIREE R  +SV  ++D GF RA+STI DSN T LIA
Sbjct: 395 LPGIAGIILTIGMAVDANVLIFERIREELRNGKSVLSAIDAGFKRAFSTILDSNATTLIA 454

Query: 474 TVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMIFIIRYKKMKSIDI 525
             +LF  G G V+GFA+T+ L IL SMFTAI + R ++  ++  +++K + I
Sbjct: 455 AAILFALGTGPVKGFAVTLILGILTSMFTAIPVTRLLLNLLVGRRRLKKLSI 506



 Score = 70.0 bits (171), Expect = 2e-12
 Identities = 37/205 (18%), Positives = 86/205 (41%), Gaps = 5/205 (2%)

Query: 627 DSVAQTRVLEMVKKKITEIVPLSTIQNTEIVGPKISRELIRKGIVGVIISAIAMLIYIWI 686
            +  + R L ++ +      PL  I     VGP +  + I+ G++  +I    + +++ +
Sbjct: 304 FTAEEARDLALLLRSGALPAPL-EIVEERTVGPTLGADSIKAGLIAGLIGLALVAVFMLL 362

Query: 687 RFKWYFALGAITTLILDITKTLGFFALFGIEFNLTAVAAVLTLIGYSVNDKVVVYDRMRK 746
            ++    + A   L L+    L   +L G    L  +A ++  IG +V+  V++++R+R+
Sbjct: 363 YYRL-AGVIAAIALGLNGVLILAVLSLLGATLTLPGIAGIILTIGMAVDANVLIFERIRE 421

Query: 747 NMKLYTTSISFRDLIDKSINETLGRSVYTSMAAFISVLPMAVWGGSVIGSFAIPMAFGIV 806
            ++      S    ID          + ++    I+   +   G   +  FA+ +  GI+
Sbjct: 422 ELRN---GKSVLSAIDAGFKRAFSTILDSNATTLIAAAILFALGTGPVKGFAVTLILGIL 478

Query: 807 VAASSSIFIAAPILLFIYDWRAKNA 831
            +  ++I +   +L  +   R    
Sbjct: 479 TSMFTAIPVTRLLLNLLVGRRRLKK 503


>gnl|CDD|30689 COG0341, SecF, Preprotein translocase subunit SecF [Intracellular
           trafficking and secretion].
          Length = 305

 Score =  261 bits (668), Expect = 6e-70
 Identities = 123/299 (41%), Positives = 189/299 (63%), Gaps = 4/299 (1%)

Query: 532 FLIPDCIAIQFMRARFWGVGISILFSICSICLLFTHGLNYGIDFKGGIQLGVLANRPVDL 591
            L P    I FM+ R   +GIS+   + SI  + T GLN GIDF GG  + +   +  DL
Sbjct: 2   KLYPGKGDIDFMKLRKLALGISLALLVISILFIGTRGLNLGIDFTGGTVIELQYEQTADL 61

Query: 592 SVVRSNLESLQIGDISFQNFDGEKNFLVRLQYQPGDSVAQTRVLEMVKKKITEIVPLSTI 651
             VRS LE L IGD+  Q+F    + L+R+  Q G      +V E +K+   ++ P   +
Sbjct: 62  DQVRSRLEKLGIGDVQVQSFGSSGDVLIRVPTQEGGEDLGNKVKEKLKE---DLDPSGEV 118

Query: 652 QNTEIVGPKISRELIRKGIVGVIISAIAMLIYIWIRFKWYFALGAITTLILDITKTLGFF 711
           ++ E VGP + +EL R+G++ ++++ + +LIY++ RF+W FAL AI  L+ D+  TLGFF
Sbjct: 119 RSVEFVGPTVGKELARQGLLALLLALVGILIYVFFRFEWRFALAAILALLHDVIITLGFF 178

Query: 712 ALFGIEFNLTAVAAVLTLIGYSVNDKVVVYDRMRKNMKLYTTSISFRDLIDKSINETLGR 771
           +LFGIEFNL  +AA+LT+IGYSVND +VV+DR+R+N++ Y    + R++I+ SIN+TL R
Sbjct: 179 SLFGIEFNLATIAALLTIIGYSVNDTIVVFDRIRENLRKY-RRETLREIINTSINQTLTR 237

Query: 772 SVYTSMAAFISVLPMAVWGGSVIGSFAIPMAFGIVVAASSSIFIAAPILLFIYDWRAKN 830
           ++ TS+   + V+ + ++GG  +  FA+ +  GI+    SSIFIAAP+LL +   R K 
Sbjct: 238 TINTSVTTLLVVVALLLFGGGSLKDFALALLVGIIAGTYSSIFIAAPLLLLLGKRREKK 296



 Score = 83.3 bits (206), Expect = 2e-16
 Identities = 47/174 (27%), Positives = 97/174 (55%), Gaps = 4/174 (2%)

Query: 352 VGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYG-KWGLVADFSIFLNVILTLALLSLLGA 410
           VG  +G +   +G  A++  LV I++++   +  ++ L A  ++  +VI+TL   SL G 
Sbjct: 124 VGPTVGKELARQGLLALLLALVGILIYVFFRFEWRFALAAILALLHDVIITLGFFSLFGI 183

Query: 411 TLTLPSIAGIVLGIGLAVDSNILVNERIREENRKNQ--SVFCSLDMGFSRAYSTIFDSNI 468
              L +IA ++  IG +V+  I+V +RIRE  RK +  ++   ++   ++  +   ++++
Sbjct: 184 EFNLATIAALLTIIGYSVNDTIVVFDRIRENLRKYRRETLREIINTSINQTLTRTINTSV 243

Query: 469 TALIATVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAM-MIFIIRYKKMK 521
           T L+  V L  FGGG+++ FA+ + + I+   +++I I   + ++   R +K K
Sbjct: 244 TTLLVVVALLLFGGGSLKDFALALLVGIIAGTYSSIFIAAPLLLLLGKRREKKK 297


>gnl|CDD|111266 pfam02355, SecD_SecF, Protein export membrane protein.  This family
           consists of various prokaryotic SecD and SecF protein
           export membrane proteins. This SecD and SecF proteins
           are part of the multimeric protein export complex
           comprising SecA, D, E, F, G, Y, and YajC. SecD and SecF
           are required to maintain a proton motive force.
          Length = 189

 Score =  187 bits (477), Expect = 1e-47
 Identities = 73/189 (38%), Positives = 128/189 (67%), Gaps = 1/189 (0%)

Query: 638 VKKKITEIVPLSTIQNTEIVGPKISRELIRKGIVGVIISAIAMLIYIWIRFKWYFALGAI 697
           V+  + E+ P + I + E VGP + +EL  + ++ ++ + + +L+Y+ +RF+W FALGA+
Sbjct: 2   VEALLKEVGPDAEIISVEFVGPTVGKELREQAVIALLGALLGILVYVSLRFEWRFALGAV 61

Query: 698 TTLILDITKTLGFFALFGIEFNLTAVAAVLTLIGYSVNDKVVVYDRMRKNMKLYTTSISF 757
             L  D+  T+G  +LFGIE +L  +AA+LT+IGYSVND VVV+DR+R+N++  T + + 
Sbjct: 62  IALAHDVIITVGVMSLFGIEIDLATIAALLTIIGYSVNDTVVVFDRIRENLRKKTRA-TV 120

Query: 758 RDLIDKSINETLGRSVYTSMAAFISVLPMAVWGGSVIGSFAIPMAFGIVVAASSSIFIAA 817
            ++++ SIN+TL R++ TS+   ++++ + ++GG  +  FA+ +  G++    SSIFIAA
Sbjct: 121 NEIMNLSINQTLTRTIMTSLTTLLALVSLFIFGGDSLKDFALALLVGLIAGTYSSIFIAA 180

Query: 818 PILLFIYDW 826
           PILL +   
Sbjct: 181 PILLLLGKK 189



 Score = 74.9 bits (185), Expect = 9e-14
 Identities = 46/170 (27%), Positives = 94/170 (55%), Gaps = 15/170 (8%)

Query: 352 VGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYG-KWGLVADFSIFLNVILTLALLSLLGA 410
           VG  +G +   +   A++  L+ I++++ + +  ++ L A  ++  +VI+T+ ++SL G 
Sbjct: 21  VGPTVGKELREQAVIALLGALLGILVYVSLRFEWRFALGAVIALAHDVIITVGVMSLFGI 80

Query: 411 TLTLPSIAGIVLGIGLAVDSNILVNERIREENRK------NQSVFCSLDMGFSRAYSTIF 464
            + L +IA ++  IG +V+  ++V +RIRE  RK      N+ +  S++   +R   T  
Sbjct: 81  EIDLATIAALLTIIGYSVNDTVVVFDRIRENLRKKTRATVNEIMNLSINQTLTRTIMTS- 139

Query: 465 DSNITALIATVVLFFFGGGAVRGFAITMGLSILI----SMFTAISIVRAM 510
              +T L+A V LF FGG +++ FA+ + + ++     S+F A  I+  +
Sbjct: 140 ---LTTLLALVSLFIFGGDSLKDFALALLVGLIAGTYSSIFIAAPILLLL 186


>gnl|CDD|31183 COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms].
          Length = 1009

 Score = 64.9 bits (158), Expect = 9e-11
 Identities = 48/220 (21%), Positives = 95/220 (43%), Gaps = 15/220 (6%)

Query: 358 SDSIYKGTCAIVAGLVLIVLFMIVLYGKW--GLVADFSIFLNVILTLALLSLLGATLTLP 415
             SI +    +   +VL+VL M +  G     L+   ++ ++++ T A++   G +L   
Sbjct: 325 KASIEEVIKTLFEAIVLVVLVMYLFLGNLRATLIPALAVPVSLLGTFAVMYAFGFSLNTL 384

Query: 416 SIAGIVLGIGLAVDSNILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDSNITALIATV 475
           ++  +VL IGL VD  I+V E I E + +      + +         +    +  +   +
Sbjct: 385 TLFALVLAIGLLVDDAIVVVENI-ERHMRGLPPREAAEKAMGEIGGAVIAITLVLIAVFL 443

Query: 476 VLFFFGGGA---VRGFAITMGLSILISMFTAISIVRAMMIFIIRYKKMKSIDINPLSRFF 532
            + F GG      R FAIT+ +++L+S+  A+++  A+   +++            +RFF
Sbjct: 444 PMAFMGGSTGELFRQFAITIAVAMLLSLLVALTLTPALCARLLKPVPPPKGFFGWFNRFF 503

Query: 533 LIPDCIAIQFMRA------RFWGVGISILFSICSICLLFT 566
              D +  ++ R       R   V +  L  +    LLF 
Sbjct: 504 ---DRLEDRYQRGLRWVLRRRALVLLLYLVLLGGSVLLFL 540



 Score = 48.7 bits (116), Expect = 7e-06
 Identities = 34/201 (16%), Positives = 84/201 (41%), Gaps = 7/201 (3%)

Query: 619 VRLQYQPGDSVAQTRVLEMVKKKITEIVPLSTIQNTEIVGPKISRELIRKGIVGVIISAI 678
           V +       V+    +  ++K   E+   S          +  +E   + ++   ++ +
Sbjct: 801 VTISGNLAPGVSSGDAMAAMEKLAAELPLPSGYTYEWSGESEQEKEAGGQALLLFALALL 860

Query: 679 AMLIYIWIRFK-WYFALGAITTLILDITKTLGFFALFGIEFNLTAVAAVLTLIGYSVNDK 737
            + + +  +++ +      + T+ L +   L    L G+  ++ A   ++TLIG    + 
Sbjct: 861 VVFLVLAAQYESFSIPFIVMLTVPLGLLGALLALLLTGLPLDVYAQIGLITLIGLVAKNA 920

Query: 738 VVVYDRMRKNMKLYTTSISFRDLIDKSINETLGRSVYTSMAAFISVLPMAV---WGGSVI 794
           +++ +   +        +S R+ I ++    L   + TS+AA + VLP+A+    G    
Sbjct: 921 ILIVEFANELRAEG---LSLREAILEAARLRLRPILMTSLAAILGVLPLALSTGAGAESR 977

Query: 795 GSFAIPMAFGIVVAASSSIFI 815
               I +  G++VA   ++F+
Sbjct: 978 QPLGIAVVGGLLVATVLTLFV 998



 Score = 48.3 bits (115), Expect = 9e-06
 Identities = 47/242 (19%), Positives = 96/242 (39%), Gaps = 28/242 (11%)

Query: 593 VVRSNLESLQIGDI-----------SFQNFDGEKNFLVRLQYQPGDSVAQTRVLEMVKKK 641
           +V+SN   +++ D+           S    +G+    + ++  PG +       + VK K
Sbjct: 243 IVKSNGAVVRLKDVARVELGAEDYTSIARLNGKPAVGLAVKKAPGANALD--TAKAVKAK 300

Query: 642 ITEI-------VPLSTIQNTEIVGPKISRELIRKGIVGVIISAIAMLIYIWIRFKWYFAL 694
           + E+       V ++   +T         E+I+     +++  + M +++         L
Sbjct: 301 LAELQANLPQGVDIAIPYDTTEFIKASIEEVIKTLFEAIVLVVLVMYLFLG---NLRATL 357

Query: 695 GAITTLILDITKTLGFFALFGIEFNLTAVAAVLTLIGYSVNDKVVVYDRMRKNMKLYTTS 754
                + + +  T      FG   N   + A++  IG  V+D +VV + + ++M+     
Sbjct: 358 IPALAVPVSLLGTFAVMYAFGFSLNTLTLFALVLAIGLLVDDAIVVVENIERHMRGLPP- 416

Query: 755 ISFRDLIDKSINETLGRSVYTSMAAFISVLPMAVWGGSVIGSFAIPMAFGIVVAASSSIF 814
              R+  +K++ E  G  +  ++      LPMA  GG   G      A  I VA   S+ 
Sbjct: 417 ---REAAEKAMGEIGGAVIAITLVLIAVFLPMAFMGG-STGELFRQFAITIAVAMLLSLL 472

Query: 815 IA 816
           +A
Sbjct: 473 VA 474



 Score = 44.8 bits (106), Expect = 8e-05
 Identities = 31/141 (21%), Positives = 60/141 (42%), Gaps = 7/141 (4%)

Query: 367 AIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVILTL--ALLSLL--GATLTLPSIAGIVL 422
                L+++ L +   Y  +     F + L V L L  ALL+LL  G  L + +  G++ 
Sbjct: 854 LFALALLVVFLVLAAQYESF--SIPFIVMLTVPLGLLGALLALLLTGLPLDVYAQIGLIT 911

Query: 423 GIGLAVDSNILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDSNITALIATVVLFFFGG 482
            IGL   + IL+ E   E   +  S+  ++          I  +++ A++  + L     
Sbjct: 912 LIGLVAKNAILIVEFANELRAEGLSLREAILEAARLRLRPILMTSLAAILGVLPL-ALST 970

Query: 483 GAVRGFAITMGLSILISMFTA 503
           GA       +G++++  +  A
Sbjct: 971 GAGAESRQPLGIAVVGGLLVA 991


>gnl|CDD|31236 COG1033, COG1033, Predicted exporters of the RND superfamily
           [General function prediction only].
          Length = 727

 Score = 61.8 bits (150), Expect = 8e-10
 Identities = 77/441 (17%), Positives = 167/441 (37%), Gaps = 31/441 (7%)

Query: 367 AIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGATLTLPSIAGIVLGIGL 426
           A+   L++IVL+ +    +  L+    + ++V+ TL  + LLG  LT+ + A   L IG+
Sbjct: 203 ALAVILMVIVLYYVFRSVRRALLPLIIVLVSVLWTLGAMGLLGIPLTITTSAVPPLLIGI 262

Query: 427 AVDSNILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDSNITALIATVVLFFFGGGAVR 486
            +D  +  + R  EE RK ++V  ++          +  + +T     + L      A++
Sbjct: 263 GIDYGVHFHNRYEEERRKGRTVEEAVVEAIKHTGPAVLIAALTTAAGFLSLLTSSIPAIK 322

Query: 487 GFAITMGLSILISMFTAISIVRAMMIFIIRYKKMKSIDINPLSRFFLIPDCIAIQFMRAR 546
            F I + + I+++  ++++++ A++I I + +K +    +                +  R
Sbjct: 323 EFGILLSIGIILAFLSSLTVLPALLILIPKGRKKREEKKDSKKG-----------KLEKR 371

Query: 547 FWGVGISIL---FSICSICLLFTHGLNYGIDFKGGIQLGVLANRPVDLSVVRSNLESLQI 603
              +   I     ++  + L+      YG   K  I+  +    P DL      L+ ++ 
Sbjct: 372 LSKIAKIIARHPVTVLVVALIIVGVSLYG-ASKVKIETDIEKYLPQDLP-ALKALDFIE- 428

Query: 604 GDISFQNFDGEKNFLVRLQYQPG-DSVAQTRVLEMVKK-KITEIVPLSTIQNTEIVGPKI 661
                + F G     + L+ +   D      + E+ ++ +  E    S     ++V    
Sbjct: 429 -----KEFGGSDPITIVLEAEDVRDPEVLRWMDELEEELEKGEEHVFSASSIVDLVKQVN 483

Query: 662 SRELIRKGIVGVIISAIAMLIYIWIRFKWYFALGAITTLILDITKTLGFFALFGIEFNLT 721
              +  K  + +I+  +   I      K Y +   +  L   +  T G     G E    
Sbjct: 484 GGIIPDKSKIQIILEELPESI-----KKRYISGDQLNLLGYSLGDTQGELEDVGREILRD 538

Query: 722 AVAAVL-TLIGYSVNDKVVVYDRMRKNMKLYTTSISFRDLIDKSINETLG-RSVYTSMAA 779
                + T +   V  + V+Y  M + +       +   +I       +  RS   ++  
Sbjct: 539 IEKENIPTGVKVYVTGESVIYVEMNELLTSSQLISTVLGIILVFALLLIIFRSPLKAIIP 598

Query: 780 FISVLPMAVWGGSVIGSFAIP 800
            I +  +  W   ++G   IP
Sbjct: 599 LIPIAIVVGWNFGLMGLLGIP 619



 Score = 56.0 bits (135), Expect = 4e-08
 Identities = 35/154 (22%), Positives = 72/154 (46%), Gaps = 3/154 (1%)

Query: 368 IVAGLVLIVLFMIVLYGKW--GLVADFSIFLNVILTLALLSLLGATLTLPSIAGIVLGIG 425
            V G++L+   +++++      ++    I + V     L+ LLG  LT  +     + +G
Sbjct: 574 TVLGIILVFALLLIIFRSPLKAIIPLIPIAIVVGWNFGLMGLLGIPLTPATATLGAIILG 633

Query: 426 LAVDSNILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDSNITALIATVVLFFFGGGAV 485
           + VD +I + ER REE RK      +++    R    I  S +T  I  + L F     +
Sbjct: 634 IGVDYSIHITERYREE-RKKGGPKEAIETTVERTGKAILASALTTAIGFLALIFSPFPII 692

Query: 486 RGFAITMGLSILISMFTAISIVRAMMIFIIRYKK 519
             F +   + IL+S+  ++ ++ A+++ +   +K
Sbjct: 693 SNFGLLTVIGILLSLLASLVLLPALLVLLDGRRK 726



 Score = 46.0 bits (109), Expect = 5e-05
 Identities = 45/218 (20%), Positives = 95/218 (43%), Gaps = 22/218 (10%)

Query: 627 DSVAQTRVLEMVKKKITEIVPLSTIQNTEIVGP----KISRELIRKGIVGVIISAIAMLI 682
           +   +  + E +++ I      S ++      P    +I RE+ +  +V + ++ I M+I
Sbjct: 152 NDAQKEEIYEEIERIIEIAKFPSGVKLYLTGDPAIRYQILREIQKDMVVLLALAVILMVI 211

Query: 683 YIWIRFK-WYFALGAITTLILDITKTLGFFALFGIEFNLTAVAAVLTLIGYSVNDKVVVY 741
            ++  F+    AL  +  +++ +  TLG   L GI   +T  A    LIG  ++  V  +
Sbjct: 212 VLYYVFRSVRRALLPLIIVLVSVLWTLGAMGLLGIPLTITTSAVPPLLIGIGIDYGVHFH 271

Query: 742 DRMRKNMKLYTTSISFRDLIDKSINETLGR-------SVYTSMAAFISVLPMAVWGGSVI 794
           +R  +              +++++ E +         +  T+ A F+S+L  ++     I
Sbjct: 272 NRYEE-------ERRKGRTVEEAVVEAIKHTGPAVLIAALTTAAGFLSLLTSSI---PAI 321

Query: 795 GSFAIPMAFGIVVAASSSIFIAAPILLFIYDWRAKNAR 832
             F I ++ GI++A  SS+ +   +L+ I   R K   
Sbjct: 322 KEFGILLSIGIILAFLSSLTVLPALLILIPKGRKKREE 359



 Score = 38.7 bits (90), Expect = 0.006
 Identities = 27/166 (16%), Positives = 64/166 (38%), Gaps = 17/166 (10%)

Query: 670 IVGVIISAIAMLIYIWIRFKWYFALGAITTLILDITKTLGFFALFGIEFNLTAVAAVLTL 729
              + I  +  L+ I  R     A+  +  + + +    G   L GI            +
Sbjct: 573 STVLGIILVFALLLIIFR-SPLKAIIPLIPIAIVVGWNFGLMGLLGIPLTPATATLGAII 631

Query: 730 IGYSVNDKVVVYDRMRKNMKLYTTSISFRDLIDKSINETL---GRSVYTSMAAFISVLPM 786
           +G  V+  + + +R R+  K        +    ++I  T+   G+++  S  A  + +  
Sbjct: 632 LGIGVDYSIHITERYREERK--------KGGPKEAIETTVERTGKAILAS--ALTTAIGF 681

Query: 787 AVWGGS---VIGSFAIPMAFGIVVAASSSIFIAAPILLFIYDWRAK 829
                S   +I +F +    GI+++  +S+ +   +L+ +   R +
Sbjct: 682 LALIFSPFPIISNFGLLTVIGILLSLLASLVLLPALLVLLDGRRKR 727


>gnl|CDD|32544 COG2409, COG2409, Predicted drug exporters of the RND superfamily
           [General function prediction only].
          Length = 937

 Score = 60.4 bits (146), Expect = 2e-09
 Identities = 47/240 (19%), Positives = 94/240 (39%), Gaps = 15/240 (6%)

Query: 283 FEVTRDNIGKPLAVVLDGRVLTAPVINQAIPSGKAQISGNFTIETAGILAAMLRAGSLP- 341
             V +D +  PL   L           Q   +G   +      E+   + +++R    P 
Sbjct: 105 VNVVQDFVSDPLTAELAQSKDGKAAYAQLTLAGY--LGVTQANESVEAVRSIVRQLPAPD 162

Query: 342 -IKLNIVEERNVGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVIL 400
            +   +       ADL +             LVLI++ ++++Y    ++  F   + V L
Sbjct: 163 GLTAYVTGPAATSADLTAAGARDLKVIEAITLVLILVVLLIVYR--SVITAFLPLITVGL 220

Query: 401 TLALLSLLGATLTLPSIAGI---------VLGIGLAVDSNILVNERIREENRKNQSVFCS 451
           +L +   + A L      G+          LGIG   D  + +  R REE R+ Q    +
Sbjct: 221 SLLVAQGIVALLAYAFGLGVSTFALSLLVALGIGAGTDYALFLVSRYREELREGQDREAA 280

Query: 452 LDMGFSRAYSTIFDSNITALIATVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMM 511
           +   +  A  T+  S +T  IA + L F     ++   I   + + +++  A++++ A++
Sbjct: 281 VGTAYRTAGKTVAFSGLTVAIALLGLSFARLPFLKTLGIAAAIGVAVAVLAALTLLPALL 340



 Score = 28.5 bits (63), Expect = 8.5
 Identities = 32/178 (17%), Positives = 60/178 (33%), Gaps = 14/178 (7%)

Query: 342 IKLNIVEERNVGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVILT 401
           I L       +               I   L+ I+L +++       V   ++ L+    
Sbjct: 739 IYLGGTAAWWLDIRDWLTHDLPLVVIITLCLIFIILLILLRSVVAPAVLVGTVLLSYGAA 798

Query: 402 LALLSLLGATL-------TLPSIAGIVLGIGLAVDSNILVNERIREENRKNQSVFCSLDM 454
           L L  L+   +        +P+++ +VL + +  D NIL+  R+REE          L  
Sbjct: 799 LGLSVLIWQHILGIELHWLVPALSFVVL-LAVGSDYNILLISRLREEIGA------GLRT 851

Query: 455 GFSRAYSTIFDSNITALIATVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMI 512
           G  RA          A +           +       +G +I + +     +VR  M+
Sbjct: 852 GIIRAMRGTGGVITAAGLIFAATMASLVFSDLRVLGQIGTTIGLGLLLDTLVVRPFMV 909


>gnl|CDD|33492 COG3696, COG3696, Putative silver efflux pump [Inorganic ion
           transport and metabolism].
          Length = 1027

 Score = 56.8 bits (137), Expect = 2e-08
 Identities = 40/168 (23%), Positives = 79/168 (47%), Gaps = 9/168 (5%)

Query: 372 LVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGATLTLPSIAGIVLGIGLAVDSN 431
           LV+IVL + +   +  L+   S+ L++++   +++  G +  L S+ G+ + IG  VD+ 
Sbjct: 346 LVIIVLALFLGNFRSALIVIISLPLSLLIAFIVMNFFGISANLMSLGGLAIAIGAMVDAA 405

Query: 432 ILVNE----RIREENRKNQSVFCSLDMGFSRAYSTIFDSNITALIATVVLFFFGGGAVRG 487
           I+V E    R+ E    N + F  +          +F   +   +  + +F   G   + 
Sbjct: 406 IVVVENAHRRLEENQHTNATRFHVIYDASKEVGRPVFFGLLIITVVFLPIFTLTGVEGKL 465

Query: 488 F---AITMGLSILISMFTAISIVRAMMIFIIRYKKMKSIDINPLSRFF 532
           F   A T   ++L ++  +I+ + A+M ++IR   +     NPL RF 
Sbjct: 466 FAPLAFTKTYALLAALLLSITFIPALMAYLIR--GILPESENPLMRFL 511



 Score = 41.0 bits (96), Expect = 0.001
 Identities = 42/196 (21%), Positives = 82/196 (41%), Gaps = 20/196 (10%)

Query: 633 RVLEMVKKKITEIVP--------LSTIQNTEIVGPKISRELIRKGIVGVIISAIAMLIYI 684
            V+  VK+K+ E+          ++T   +E++   I   + +  I G ++  I + +++
Sbjct: 297 EVIAAVKEKLEELKKSLPEGVKIVTTYDRSELIDKAI-DTVSKTLIEGSVLVIIVLALFL 355

Query: 685 WIRFKWYFALGAITTLILDITKTLGFFALFGIEFNLTAVAAVLTLIGYSVNDKVVV---- 740
                +  AL  I +L L +         FGI  NL ++  +   IG  V+  +VV    
Sbjct: 356 G---NFRSALIVIISLPLSLLIAFIVMNFFGISANLMSLGGLAIAIGAMVDAAIVVVENA 412

Query: 741 YDRMRKNMKLYTTSISFRDLIDKSINETLGRSVYTSMAAFISVLPMAVWGGSVIGSFAIP 800
           + R+ +N    T +  F  + D S  E      +  +   +  LP+    G V G    P
Sbjct: 413 HRRLEENQH--TNATRFHVIYDASK-EVGRPVFFGLLIITVVFLPIFTLTG-VEGKLFAP 468

Query: 801 MAFGIVVAASSSIFIA 816
           +AF    A  +++ ++
Sbjct: 469 LAFTKTYALLAALLLS 484



 Score = 36.7 bits (85), Expect = 0.025
 Identities = 31/163 (19%), Positives = 68/163 (41%), Gaps = 7/163 (4%)

Query: 670  IVGVIISAIAMLIYIWIRFKWYFALGAITTLILDITKTLGFFALFGIEFNLTAVAAVLTL 729
            +V V +  I +L+Y   +     AL   + L   +   +   AL G   ++ A    + L
Sbjct: 866  VVPVSLLLIFVLLYFAFK-SVGEALLIFSNLPFALIGGVIALALRGFNLSVAAAVGFIAL 924

Query: 730  IGYSVNDKVVVYDRMRKNMKLYTTSISFRDLIDKSINETLGRSVYTSMAAFISVLPMAV- 788
             G +V + VV+   +R+        +S ++ I +   E +   + T++   + +LP+   
Sbjct: 925  FGVAVLNGVVMVSYIRQ---ALQQGMSLKEAIMEGAVERVRPKLMTALVILLGLLPILWA 981

Query: 789  --WGGSVIGSFAIPMAFGIVVAASSSIFIAAPILLFIYDWRAK 829
               G  V+   AI +  G+V + + ++ +   +       R +
Sbjct: 982  TGAGSEVMRPLAIVVIGGLVTSTALTLLVLPALYALFGKRRLR 1024



 Score = 28.3 bits (63), Expect = 9.1
 Identities = 18/87 (20%), Positives = 43/87 (49%), Gaps = 4/87 (4%)

Query: 367 AIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVILTL----ALLSLLGATLTLPSIAGIVL 422
            +V  + L+++F+++ +    +     IF N+   L      L+L G  L++ +  G + 
Sbjct: 864 KVVVPVSLLLIFVLLYFAFKSVGEALLIFSNLPFALIGGVIALALRGFNLSVAAAVGFIA 923

Query: 423 GIGLAVDSNILVNERIREENRKNQSVF 449
             G+AV + +++   IR+  ++  S+ 
Sbjct: 924 LFGVAVLNGVVMVSYIRQALQQGMSLK 950


>gnl|CDD|144459 pfam00873, ACR_tran, AcrB/AcrD/AcrF family.  Members of this family
           are integral membrane proteins. Some are involved in
           drug resistance. AcrB cooperates with a membrane fusion
           protein, AcrA, and an outer membrane channel TolC. The
           structure shows the AcrB forms a homotrimer.
          Length = 1021

 Score = 53.8 bits (130), Expect = 2e-07
 Identities = 42/156 (26%), Positives = 80/156 (51%), Gaps = 20/156 (12%)

Query: 368 IVAGLVLIVLFMIVLYGKW--GLVADFSIFLNVILTLALLSLLGATLTLPSIAGIVLGIG 425
           ++  +VL++L M +    +   L+   ++ L+++ T A++   G ++   ++ G+VL IG
Sbjct: 337 LLEAIVLVILVMFLFLQNFRATLIPAIAVPLSLLGTFAVMKAFGFSINTLTLGGLVLAIG 396

Query: 426 LAVDSNILVNE----RIREENRKNQSVFCSLDMGFSRAYSTIFDSNI-TALIATVV---L 477
           L VD  I+V E     + EE  K             ++   I  + +  AL+ + V   +
Sbjct: 397 LVVDDAIVVVENIERGLAEEGLKPLEA-------AYKSMGEIGGALVAIALVLSAVFLPI 449

Query: 478 FFFGG--GAV-RGFAITMGLSILISMFTAISIVRAM 510
            F GG  G + R FAIT+ L+IL+S+  A+++  A+
Sbjct: 450 AFLGGVTGRIFRQFAITIVLAILLSVLVALTLTPAL 485



 Score = 43.8 bits (104), Expect = 2e-04
 Identities = 57/213 (26%), Positives = 90/213 (42%), Gaps = 15/213 (7%)

Query: 611 FDGEKNFLVRLQYQPGDSVAQTR-VLEMVKKKITEIVPLSTIQNTEIVGPKISRELIRKG 669
           F+G+    + +Q  PG   A      + V+ K+ E+ P +  Q  EIV P  +   +R  
Sbjct: 274 FNGKPAVGLGVQKLPG---ANAIETADAVRAKLAELKP-TFPQGVEIVVPYDTTPFVRAS 329

Query: 670 IVGV---IISAIAMLIYIWIRFKWYFALGAITTLI--LDITKTLGFFALFGIEFN-LTAV 723
           I  V   ++ AI ++I +   F   F    I  +   L +  T      FG   N LT  
Sbjct: 330 IEEVVKTLLEAIVLVILVMFLFLQNFRATLIPAIAVPLSLLGTFAVMKAFGFSINTLTLG 389

Query: 724 AAVLTLIGYSVNDKVVVYDRMRKNMKLYTTSISFRDLIDKSINETLGRSVYTSMAAFISV 783
             VL  IG  V+D +VV + + + +      +   +   KS+ E  G  V  ++      
Sbjct: 390 GLVLA-IGLVVDDAIVVVENIERGLA--EEGLKPLEAAYKSMGEIGGALVAIALVLSAVF 446

Query: 784 LPMAVWGGSVIGSFAIPMAFGIVVAASSSIFIA 816
           LP+A  GG V G      A  IV+A   S+ +A
Sbjct: 447 LPIAFLGG-VTGRIFRQFAITIVLAILLSVLVA 478



 Score = 41.5 bits (98), Expect = 0.001
 Identities = 28/82 (34%), Positives = 40/82 (48%), Gaps = 6/82 (7%)

Query: 367 AIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVILTL--ALLSLL--GATLTLPSIAGIVL 422
            I   L+L+ L +  LY  W      SI L V L L  ALL+L   G   ++ +  G++ 
Sbjct: 867 LIALALLLVFLVLAALYESW--SDPLSIMLTVPLALVGALLALWLRGLPNSVYAQVGLIT 924

Query: 423 GIGLAVDSNILVNERIREENRK 444
            IGLAV + IL+ E   E   +
Sbjct: 925 LIGLAVKNAILMVEFANELREQ 946


>gnl|CDD|146013 pfam03176, MMPL, MMPL family.  Members of this family are putative
           integral membrane proteins from bacteria. Several of the
           members are mycobacterial proteins. Many of the proteins
           contain two copies of this aligned region. The function
           of these proteins is not known, although it has been
           suggested that they may be involved in lipid transport.
          Length = 332

 Score = 48.1 bits (115), Expect = 1e-05
 Identities = 36/232 (15%), Positives = 80/232 (34%), Gaps = 19/232 (8%)

Query: 291 GKPLAVVLDGRVLTAPV---INQAIPSGKAQISGNFTIETAGILAAMLRAGSLPIKLNIV 347
              L V  DG+     V    +         ++    +  A             +K  + 
Sbjct: 75  TAALFVSPDGKAAYVVVTLEGDPGTTEADESVAA---VRDA---VEQAPPPE-GLKAYLT 127

Query: 348 EERNVGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGK---WGLV---ADFSIF--LNVI 399
                 ADL               LV+I + ++++Y       L       S+     ++
Sbjct: 128 GPAATVADLRDAGDRDLGLIEAVTLVVIFIILLIVYRSVVAALLPLLTVGLSLGAAQGLV 187

Query: 400 LTLALLSLLGATLTLPSIAGIVLGIGLAVDSNILVNERIREENRKNQSVFCSLDMGFSRA 459
             LA +  +G +    ++  ++L I +  D  + +  R REE R  +    ++       
Sbjct: 188 AILAHILGIGLSTFALNLLVVLL-IAVGTDYALFLVSRYREELRAGEDREEAVIRAVRGT 246

Query: 460 YSTIFDSNITALIATVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMM 511
              +  + +T  IA + L F           T+ + +L+ +  A++++ A++
Sbjct: 247 GKVVTAAGLTVAIAMLALSFARLPVFAQVGPTIAIGVLVDVLAALTLLPALL 298


>gnl|CDD|37144 KOG1933, KOG1933, KOG1933, Cholesterol transport protein
           (Niemann-Pick C disease protein) [Lipid transport and
           metabolism].
          Length = 1201

 Score = 38.0 bits (88), Expect = 0.010
 Identities = 38/150 (25%), Positives = 68/150 (45%), Gaps = 7/150 (4%)

Query: 381 VLYGKWGLVADFSIFLNVILTLALLSLLGATLTLPSIAGIVLGIGLAVDSN---ILVNER 437
           VL G  G++    + L+V+ ++   S LG T TL  I  I   + LAV  +   ILV+  
Sbjct: 582 VLLGISGVLI---VLLSVVCSVGFFSYLGITSTLIIIEVIPFLV-LAVGVDNIFILVHTY 637

Query: 438 IREENRKNQSVFCSLDMGFSRAYSTIFDSNITALIATVVLFFFGGGAVRGFAITMGLSIL 497
            R+   K++ +   +         +I  S+++      +  F    AVR FA+  GL++L
Sbjct: 638 QRDGRSKSEPLEQRIGSVLGEVGPSILLSSLSENFCFFLGAFVDMPAVRVFALYAGLAVL 697

Query: 498 ISMFTAISIVRAMMIFIIRYKKMKSIDINP 527
           +     I+   A+++   + +    IDI  
Sbjct: 698 LDFLLQITAFVALIVLDAKRRLDNRIDIFC 727


>gnl|CDD|37145 KOG1934, KOG1934, KOG1934, Predicted membrane protein (patched
           superfamily) [General function prediction only].
          Length = 868

 Score = 37.9 bits (88), Expect = 0.011
 Identities = 31/188 (16%), Positives = 70/188 (37%), Gaps = 15/188 (7%)

Query: 358 SDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGATLTLPSI 417
              +    C  +   + I   + V    W  ++  SI + V      LSL G  L   S+
Sbjct: 681 QSIVIALICMFLVCFLFIPNPLCVF---WITLSIVSINIGVF---GFLSLWGVDLDPISM 734

Query: 418 AGIVLGIGLAVDSNILVN---ERIREENRKNQSVFCSL-DMGFSRAYSTIFDSNITALIA 473
             I++ IG +VD +  V     + R+ +   + +  +L  +G+      +  + ++ ++ 
Sbjct: 735 ITIIMSIGFSVDFSAHVAYHYYQSRKSSTPRERLRSALSAVGWP-----VLQAGLSTILG 789

Query: 474 TVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMIFIIRYKKMKSIDINPLSRFFL 533
            + L F     V+ F  T+ L + + +   +  +  ++      KK         +    
Sbjct: 790 VLPLLFVPSYMVQVFFKTVVLVVTLGLLHGLVFLPVILSLFPPIKKKCKRKKRAAASPRS 849

Query: 534 IPDCIAIQ 541
             +   I+
Sbjct: 850 SSEESEIK 857



 Score = 32.9 bits (75), Expect = 0.37
 Identities = 20/92 (21%), Positives = 35/92 (38%), Gaps = 6/92 (6%)

Query: 649 STIQNTEIVGPKISRELIRKGIVGVIISAIAMLIYI----WIRFKWYFALGAITTLILDI 704
           S   + E+V  +    L+    VG  I  I  ++      W+R K   A+  + + ++ I
Sbjct: 240 SQTLDEELV--RNGLTLVPFLSVGFAILVIFSILTSFMIDWVRSKPILAILGVLSPVMAI 297

Query: 705 TKTLGFFALFGIEFNLTAVAAVLTLIGYSVND 736
               G     G  FN         ++G  V+D
Sbjct: 298 ITAFGLLFWCGFPFNSIVCVMPFLVLGIGVDD 329



 Score = 31.8 bits (72), Expect = 0.87
 Identities = 33/164 (20%), Positives = 67/164 (40%), Gaps = 18/164 (10%)

Query: 368 IVAGLVLIVLFMIV--LYGKW-------GLVADFSIFLNVILTLALLSLLGATLTLPSIA 418
           +  G  ++V+F I+      W        ++   S  + +I    LL   G      SI 
Sbjct: 258 LSVGFAILVIFSILTSFMIDWVRSKPILAILGVLSPVMAIITAFGLLFWCG--FPFNSIV 315

Query: 419 GI----VLGIGLAVDSNILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDSNITALIAT 474
            +    VLGIG+  D+ +++    R    K  SV   +    + A  +I  +++T +++ 
Sbjct: 316 CVMPFLVLGIGVD-DAFLMLAAWRRTS--KKLSVEERMAETLAEAGPSITITSLTNVLSF 372

Query: 475 VVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMIFIIRYK 518
            +       AV+ F +   ++IL      ++   A+M+   R +
Sbjct: 373 GIGAITPTPAVQIFCLYTAVAILFDFIYQLTFFAAVMVITGRRE 416


>gnl|CDD|111366 pfam02460, Patched, Patched family.  The transmembrane protein
           Patched is a receptor for the morphogene Sonic Hedgehog.
           This protein associates with the smoothened protein to
           transduce hedgehog signals.
          Length = 801

 Score = 32.7 bits (75), Expect = 0.46
 Identities = 32/169 (18%), Positives = 66/169 (39%), Gaps = 14/169 (8%)

Query: 351 NVGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGA 410
            +  D     I+   C  +   + I     V       V   +I    I     LSL G 
Sbjct: 644 TILPDTIQSIIWTLICMAIVCFLFIPNPNCVF------VITLAIASICIGVFGFLSLWGV 697

Query: 411 TLTLPSIAGIVLGIGLAVD--SNILVNERIREENRKNQSVFCSLD-MGFSRAYSTIFDSN 467
            L   S+  I++ IG +VD  ++I  +      +  ++ V  +L+ +G+      +F + 
Sbjct: 698 DLDPISMITIIMSIGFSVDFSAHIAYHFYRSRGSTPDERVADALEALGWP-----VFQAA 752

Query: 468 ITALIATVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMIFIIR 516
           ++ ++  +VL F     V  F  T+ L ++I +   +  +  ++     
Sbjct: 753 LSTILCVLVLLFVPSYMVVVFFKTVVLVVVIGLLHGLIFLPIILSLFDT 801



 Score = 28.8 bits (65), Expect = 6.0
 Identities = 18/75 (24%), Positives = 26/75 (34%), Gaps = 16/75 (21%)

Query: 661 ISRELIRKGI-------VGVIISAIAMLIYI---------WIRFKWYFALGAITTLILDI 704
           ++ EL+R  I       VG  I     +I           W+R K   A+    T ++  
Sbjct: 205 LADELVRNAITLIPFFVVGFAILLTFSIITSVRLSSGMIDWVRSKPILAILGCLTPLMAT 264

Query: 705 TKTLGFFALFGIEFN 719
               G    FG  FN
Sbjct: 265 VSAFGLLFWFGFPFN 279


>gnl|CDD|146370 pfam03699, UPF0182, Uncharacterized protein family (UPF0182).  This
           family contains uncharacterized integral membrane
           proteins.
          Length = 771

 Score = 31.4 bits (72), Expect = 1.0
 Identities = 18/123 (14%), Positives = 46/123 (37%), Gaps = 11/123 (8%)

Query: 662 SRELIRKGIVGVIISAIAMLIYIWIRFKWYFALGAITTLILDITKTLGFFALFGIEFNLT 721
           S+ LI   IV +++  I++L  ++  + W+  LG ++     +   +G F L  +     
Sbjct: 3   SKVLIILAIVVLLLLLISLLADLYTDWLWFKELGYLSVFWTRLLTRIGLFLLVFL----- 57

Query: 722 AVAAVLTLIGYSVNDKVVVYDRMRKNMKLYTTSISFRDLIDKSINETLGRSVYTSMAAFI 781
            +  +   +       ++ Y      + L            +S+     R +   ++  +
Sbjct: 58  -IFFLFLFLNL-----LLAYRARPPFVPLSPEQFGDPLARYRSVILPRRRLLLLGISLVL 111

Query: 782 SVL 784
            +L
Sbjct: 112 GLL 114


>gnl|CDD|73247 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13).  The
           sodium/dicarboxylate cotransporter NaDC-1 has been shown
           to translocate Krebs cycle intermediates such as
           succinate, citrate, and alpha-ketoglutarate across
           plasma membranes rabbit, human, and rat kidney. It is
           related to renal and intestinal Na+/sulfate
           cotransporters and a few putative bacterial permeases.
           The SLC13-type proteins belong to the ArsB/NhaD
           superfamily of permeases that translocate sodium and
           various anions across biological membranes in all three
           kingdoms of life. A typical ArsB/NhaD permease is
           composed of 8-13 transmembrane helices..
          Length = 382

 Score = 30.5 bits (69), Expect = 2.1
 Identities = 12/53 (22%), Positives = 25/53 (47%)

Query: 463 IFDSNITALIATVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMIFII 515
           +  + +   IAT +L   G G  R   + M ++  +S F + +   A+M+ + 
Sbjct: 62  LTRTGLAKRIATKLLKRAGKGERRLLLLLMLVTAFLSAFMSNTATVAIMLPVA 114


>gnl|CDD|37146 KOG1935, KOG1935, KOG1935, Membrane protein Patched/PTCH [Signal
           transduction mechanisms].
          Length = 1143

 Score = 29.9 bits (67), Expect = 2.7
 Identities = 27/110 (24%), Positives = 45/110 (40%), Gaps = 7/110 (6%)

Query: 633 RVLEMVKKKITEIVPLSTIQNTEIVGP--KISRELIRKGIVGVIISAIAMLIYIW--IRF 688
           RV + +  +  +I P S+    +I+    + S   I  G + ++  A    +  W  ++ 
Sbjct: 380 RVYQHLANERRQIHPFSSTSLDDILEEFSQFSAISIVIGYLLMVAYACLTQLRWWDAVQS 439

Query: 689 KWYFALGAITTLILDITKTLGFFALFGIEFN--LTAVAAVLTLIGYSVND 736
           +    L  +  +       LG   L GIEFN   T V   L L G  V+D
Sbjct: 440 QGSVGLAGVLLVTFSSAAGLGLATLLGIEFNAATTQVVPFLAL-GLGVDD 488


>gnl|CDD|37555 KOG2344, KOG2344, KOG2344, Exocyst component protein and related
           proteins [Intracellular trafficking, secretion, and
           vesicular transport].
          Length = 623

 Score = 29.6 bits (66), Expect = 3.4
 Identities = 26/150 (17%), Positives = 53/150 (35%), Gaps = 11/150 (7%)

Query: 109 ENIADKVTLFLQGVNSKLNVDPKKNLLVTTTEKEISIVLS-----QNNIDQVISHAIEQS 163
           E   + +  FL  +N +      K +    + +E    LS     Q  +  ++S    QS
Sbjct: 50  EQAEEIIEKFLTALNLR---SSSKIISFLESREEAKNFLSAVNTLQETLQFLVSQNGLQS 106

Query: 164 MEIIRQRIDQIGISESTIQRLGSHRILIQLPGEQDPSRLRQLLGTTAKMSFHKVLPNNSK 223
            ++++ + D +     +       +IL     E DP RL   L ++      +   N+  
Sbjct: 107 SKLLKAQADSLLQIAMSRLEKEFRQILENNREELDPERLSVRLRSSLNSKDEEASLNSDS 166

Query: 224 KGFMFGVRFLRDSDGNQYLVEDKVEISGIH 253
           K   +      +S G+  +  D      + 
Sbjct: 167 K---YSALSDEESFGDDEIEPDLFPPDVMT 193


>gnl|CDD|72856 cd04716, BAH_plantDCM_I, BAH, or Bromo Adjacent Homology domain,
           first copy present in DNA
           (Cytosine-5)-methyltransferases (DCM) from plants. DNA
           methylation, or the covalent addition of a methyl group
           to cytosine within the context of the CpG dinucleotide,
           has profound effects on the genome. These effects
           include transcriptional repression via inhibition of
           transcription factor binding, the recruitment of
           methyl-binding proteins and their associated chromatin
           remodeling factors, X chromosome inactivation,
           imprinting, and the suppression of parasitic DNA
           sequences. DNA methylation is also essential for proper
           embryonic development and is an important player in both
           DNA repair and genome stability. BAH domains are found
           in a variety of proteins playing roles in
           transcriptional silencing and the remodeling of
           chromatin. It is assumed that in most or all of these
           instances the BAH domain mediates protein-protein
           interactions..
          Length = 122

 Score = 29.5 bits (66), Expect = 3.9
 Identities = 20/76 (26%), Positives = 32/76 (42%), Gaps = 6/76 (7%)

Query: 590 DLSVVRSNLESLQIGDIS--FQNFDGEKNFLVRLQYQPGDSVAQTRVLEMVKKKITEIVP 647
           D  V     E   I  I+  F+  DG+  F  +  Y+  D+V + +     KK+    V 
Sbjct: 9   DAYVQGGEGEEPFICKITEFFEGTDGKTYFTAQWFYRAEDTVIERQATNHDKKR----VF 64

Query: 648 LSTIQNTEIVGPKISR 663
            S I+N   +   IS+
Sbjct: 65  YSEIKNDNPLDCLISK 80


>gnl|CDD|147058 pfam04707, PRELI, PRELI-like family.  This family includes a
           conserved region found in the PRELI protein and yeast
           YLR168C gene MSF1 product. The function of this protein
           is unknown, though it is thought to be involved in
           intra-mitochondrial protein sorting. This region is also
           found in a number of other eukaryotic proteins.
          Length = 157

 Score = 29.2 bits (66), Expect = 5.4
 Identities = 10/37 (27%), Positives = 19/37 (51%), Gaps = 5/37 (13%)

Query: 740 VYDRMRKNMKLYTTSISFRDLIDKSINETLGRSVYTS 776
           V D  ++ + L T +++F   +  S++E   R  YT 
Sbjct: 68  VVDPKKRTLTLETRNLTFSSRL--SVDE---RCTYTP 99


>gnl|CDD|164495 CHL00091, apcE, phycobillisome linker protein.
          Length = 877

 Score = 28.6 bits (64), Expect = 6.6
 Identities = 14/72 (19%), Positives = 38/72 (52%), Gaps = 4/72 (5%)

Query: 97  KITLSFADSRFKENIADKVTLFLQ-GVNSKLNVDPKKNLLVTTTEKEISIVLSQNNIDQV 155
            + LS  DS+  + I+ K   F++ G   +       + + +  ++ +S++  Q+ + +V
Sbjct: 652 ILRLSIIDSKSAKVISSKEARFIELGQAKES---RSSSSIQSRIQQGVSLLRDQSVVFKV 708

Query: 156 ISHAIEQSMEII 167
            SH+ ++++E +
Sbjct: 709 NSHSDKENLEQV 720


>gnl|CDD|111338 pfam02432, Fimbrial_K88, Fimbrial, major and minor subunit.
           Fimbriae (also know as pili) are polar filaments found
           on the bacterial surface, allowing colonisation of the
           host. This family consists of the minor and major
           fimbrial subunits.
          Length = 238

 Score = 28.5 bits (64), Expect = 6.9
 Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 5/60 (8%)

Query: 752 TTSISFRDLIDKSINETLGRSVYTSMAAFISVLPMAVWGGSVIGSFAIPMAFGIVVAASS 811
           T  ISF+     S+         TS       LP+    G+VIG+ +  +    V++  S
Sbjct: 70  TPQISFKSYEGFSVT-----LSTTSPGTARVTLPVKGESGTVIGTLSFNLQAAGVLSTGS 124


>gnl|CDD|111273 pfam02364, Glucan_synthase, 1,3-beta-glucan synthase component.
           This family consists of various 1,3-beta-glucan synthase
           components including Gls1, Gls2 and Gls3 from yeast.
           1,3-beta-glucan synthase EC:2.4.1.34 also known as
           callose synthase catalyses the formation of a
           beta-1,3-glucan polymer that is a major component of the
           fungal cell wall. The reaction catalysed is:-
           UDP-glucose + {(1,3)-beta-D-glucosyl}(N) <=> UDP +
           {(1,3)-beta-D-glucosyl}(N+1).
          Length = 817

 Score = 28.6 bits (64), Expect = 7.8
 Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 5/43 (11%)

Query: 478 FFFGG----GAVRGFAIT-MGLSILISMFTAISIVRAMMIFII 515
             FGG       RGFA   +  S L S F   SI +   + ++
Sbjct: 605 LSFGGARYIATGRGFATARLPFSTLYSRFAGPSIYKGARLGLM 647


>gnl|CDD|31488 COG1297, COG1297, Predicted membrane protein [Function unknown].
          Length = 624

 Score = 28.3 bits (63), Expect = 8.1
 Identities = 33/171 (19%), Positives = 59/171 (34%), Gaps = 16/171 (9%)

Query: 365 TCAIVAG-LVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGATLTLPSIAGIVLG 423
           T A  AG L   V+F++      G  + F  F    +  AL  +LG   T+P    +++ 
Sbjct: 75  TQASAAGTLSAGVIFVLPGLLMLGYWSGFP-FWQTAIICALGGILGVLFTIPLRRAMIVE 133

Query: 424 IGLAVDSNILVNERIREENRKNQSVFCSLDMGFSRAYSTIF-----------DSNITALI 472
             L     +   E ++  N++         +    A + ++            S   A  
Sbjct: 134 SKLPYPEGVAAAEVLKAGNQREGDASGIKLIALGGALAALYSLLASGLRVIASSLSAAFS 193

Query: 473 ATVVLFFFGGG---AVRGFAITMGLSILISMFTAISIVRAMMIFIIRYKKM 520
                F  G G   A+ G    +GL   I+M   I I   + + ++     
Sbjct: 194 VGRAAFALGLGLSLALIGAGYLVGLPAGIAMLIGIFIAWGVAVPLLTLIVP 244


>gnl|CDD|176184 cd05281, TDH, Threonine dehydrogenase.  L-threonine dehydrogenase
           (TDH) catalyzes the zinc-dependent formation of
           2-amino-3-ketobutyrate from L-threonine via NAD(H)-
           dependent oxidation.  THD is a member of the
           zinc-requiring, medium chain NAD(H)-dependent alcohol
           dehydrogenase family (MDR). MDRs  have a
           NAD(P)(H)-binding domain in a Rossmann fold of a
           beta-alpha form. NAD(P)(H)-dependent oxidoreductases are
           the major enzymes in the interconversion of alcohols and
           aldehydes, or ketones. The N-terminal region typically
           has an all-beta catalytic domain. These proteins
           typically form dimers (typically higher plants, mammals)
           or tetramers (yeast, bacteria) and have 2 tightly bound
           zinc atoms per subunit. Sorbitol and aldose reductase
           are NAD(+) binding proteins of the polyol pathway, which
           interconverts glucose and fructose.
          Length = 341

 Score = 28.4 bits (64), Expect = 8.6
 Identities = 15/39 (38%), Positives = 22/39 (56%)

Query: 764 SINETLGRSVYTSMAAFISVLPMAVWGGSVIGSFAIPMA 802
           SI E LG +V+T +A  +S   + + G   IG  AI +A
Sbjct: 145 SIQEPLGNAVHTVLAGDVSGKSVLITGCGPIGLMAIAVA 183


>gnl|CDD|72941 cd02826, Piwi-like, Piwi-like: PIWI domain. Domain found in
           proteins involved in RNA silencing. RNA silencing refers
           to a group of related gene-silencing mechanisms mediated
           by short RNA molecules, including siRNAs, miRNAs, and
           heterochromatin-related guide RNAs. The central
           component of the RNA-induced silencing complex (RISC)
           and related complexes is Argonaute. The PIWI domain is
           the C-terminal portion of Argonaute and consists of two
           subdomains, one of which provides the 5' anchoring of
           the guide RNA and the other, the catalytic site for
           slicing. This domain is also found in closely related
           proteins, including the Piwi subfamily, where it is
           believed to perform a crucial role in germline cells,
           via a similar mechanism..
          Length = 393

 Score = 28.4 bits (63), Expect = 8.6
 Identities = 16/72 (22%), Positives = 24/72 (33%), Gaps = 2/72 (2%)

Query: 64  DFVNGFLQMYSDELRSFLKKEGIGVFSMRQ-IQNKITLSFADSRF-KENIADKVTLFLQG 121
             V   L+     L   +K+         Q IQ K        +   +N+  KV   L G
Sbjct: 98  QLVIFILKEKKPPLHDEIKRLEAKSDIPSQVIQLKTAKKMRRLKQTLDNLLRKVNSKLGG 157

Query: 122 VNSKLNVDPKKN 133
           +N  L+   K  
Sbjct: 158 INYILDSPVKLF 169


>gnl|CDD|33602 COG3808, OVP1, Inorganic pyrophosphatase [Energy production and
           conversion].
          Length = 703

 Score = 28.3 bits (63), Expect = 8.8
 Identities = 85/480 (17%), Positives = 171/480 (35%), Gaps = 93/480 (19%)

Query: 354 ADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGATLT 413
           AD G++ + +   AI  G       M  L  ++  +A   I + ++L   LLS L A   
Sbjct: 30  ADAGNERMKEIAAAIREGA------MAYLARQYKTIAVVGIVVAILLAWFLLSWLTA--- 80

Query: 414 LPSIAGIVLGIGLAVDSNILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDSNITALIA 473
              I  ++  +  A      ++   R   R  Q+    L      A+             
Sbjct: 81  ---IGFLLGAVLSAAAGFAGMHVSTRANVRTAQAASTGLGKALDVAFK------------ 125

Query: 474 TVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMIFIIRYKKMKSIDINPLSRFFL 533
                    GAV G ++  GL++L      +S+   ++  ++ ++    I I+ L     
Sbjct: 126 --------SGAVMGLSVA-GLALL-----GLSLYYLVLTSVLGHEPNLRIVIDSLVGLGF 171

Query: 534 IPDCIAIQFMRARFWGVGISILFSICSICLLFTHGLNYGIDFKGGIQLGVLANRPVDLSV 593
               I++ F R    G GI            FT   + G D  G ++ G+  + P + + 
Sbjct: 172 GASLISL-FARV---GGGI------------FTKAADVGADLVGKVEAGIPEDDPRNPAT 215

Query: 594 VRSNLESLQIGDIS------FQNFDGE---KNFLVRLQYQPGDSVAQTRVLEMVKKKITE 644
           +  N+    +GD +      F+++         L  + +   +++    +  +    I  
Sbjct: 216 IADNVGD-NVGDCAGMAADLFESYVVTVVATMVLAAIFFLGTETIEAVILYPLA---ICA 271

Query: 645 IVPLSTIQNTEIVGPKISRELIRKGIVGVIISAIAMLIYIWIRFKWYFALGAITTLILDI 704
           +  +++I  T  V    S  ++     G+I + I  ++ +     +       T   + I
Sbjct: 272 VGIITSIIGTFFVKLGKSGSIMGALYKGLIATGILSVVALAFVTSFLLGGTIGTVAGMSI 331

Query: 705 TKTLGFFALFGIEFNLTAVAAVLTLIGYSVNDKVVVYDRMRKNMKLYTTSISFRDL--ID 762
                FF                 +IG  V   +VV          Y TS ++R +  I 
Sbjct: 332 GAINLFFC---------------GVIGLVVTALIVVITE-------YYTSTNYRPVNSIA 369

Query: 763 KSINETLGRSVYTSMAAFI--SVLPMAVWGGSVIGSFAIPMAFGIVVAASSSIFIAAPIL 820
           ++     G ++   +A  +  + LP  V    +I ++ +   +G  +AA   +  A  I+
Sbjct: 370 QASVTGHGTNIIQGLAVGLESTALPAIVIVIGIIITYQLAGLYGTAIAAVGMLSTAGMIV 429


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.326    0.141    0.405 

Gapped
Lambda     K      H
   0.267   0.0714    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 9,895,157
Number of extensions: 565447
Number of successful extensions: 2819
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2778
Number of HSP's successfully gapped: 190
Length of query: 833
Length of database: 6,263,737
Length adjustment: 102
Effective length of query: 731
Effective length of database: 4,059,619
Effective search space: 2967581489
Effective search space used: 2967581489
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 (21.6 bits)
S2: 62 (27.7 bits)