BLASTP 2.2.18 [Mar-02-2008]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0402.0041.p
         (412 letters)

Database: COG 
           115,334 sequences; 38,378,431 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

BS_ydeF [KE] COG1167 Transcriptional regulators containing a DNA...   106   9e-23
DR1307 [GEPR] COG0477 Permeases of the major facilitator superfa...    80   9e-15
Ta0149 [GEPR] COG0477 Permeases of the major facilitator superfa...    77   4e-14
TVN0219 [GEPR] COG0477 Permeases of the major facilitator superf...    76   8e-14
BS_bmrR_1 [K] COG0789 Predicted transcriptional regulators             59   2e-08

>BS_ydeF [KE] COG1167 Transcriptional regulators containing a DNA-binding
           HTH domain and an aminotransferase domain (MocR family)
           and their eukaryotic orthologs
          Length = 395

 Score =  106 bits (264), Expect = 9e-23,   Method: Compositional matrix adjust.
 Identities = 98/359 (27%), Positives = 168/359 (46%), Gaps = 19/359 (5%)

Query: 29  SIPFLSIYLTQVLGASHSQTGITVAVSSLAGVLISFYGGYISDVFGRKIVMLVSVFGWAC 88
           ++PF++IYL++    S    G  + ++   GV+ S   G ++D F +K  ML+++  +A 
Sbjct: 26  TLPFMTIYLSRQYSLSVDLIGYAMTIALTIGVVFSLGFGILADKFDKKRYMLLAITAFAS 85

Query: 89  VFFGFSSAQHIWVFFLVNTLNGLCRAVFEPTSRALLSDITPPDHKLLVFNLRYAAVNLGV 148
            F   +   ++ +  L   L     +VF    +A  +D      K  +F++ Y  +N+G 
Sbjct: 86  GFIAITLVNNVTLVVLFFALINCAYSVFATVLKAWFADNLSSTSKTKIFSINYTMLNIGW 145

Query: 149 VFGPIIGLQLGSAKSTFPFVIAGVVYIAYGIVLFMQFSAHRASLPVRSEA---RAPKLRE 205
             GP +G  L       PF +A +   A+ + LF+Q    R+   + +E     +PK   
Sbjct: 146 TIGPPLGTLLVMQSINLPFWLAAICS-AFPM-LFIQIWVKRSEKIIATETGSVWSPK--- 200

Query: 206 ALAVTGRDRVFLPVLVGTVFCVLGYGHFSSTLAQYLAV--DTHFANGSQVFSYMLSLNAV 263
              V  +D+  L             G F+S ++QY+ V  D  FA   +V + +L +NA 
Sbjct: 201 ---VLLQDKALLWFTCSGFLASFVSGAFASCISQYVMVIADGDFAE--KVVAVVLPVNAA 255

Query: 264 TVLVVQYPIVRTASKFPPLVPLILGNICVALSLVLFGVAGGVALLM-FSVVLFTIGEVLL 322
            V+ +QY + R  +       +  G +C  + LV F  +G   LL   S  +FT+GE++ 
Sbjct: 256 MVVTLQYSVGRRLNPANIRALMTAGTLCFVIGLVGFIFSGNSLLLWGMSAAVFTVGEIIY 315

Query: 323 FTMMDMLIDRIAKPEWKGTYFGTIGFNNLGNVMAPVLGGLLLDQFGATNGPAVFVPLAL 381
                MLID IA PE K +YF       LG  + P++ G++L     ++   +FV LAL
Sbjct: 316 APGEYMLIDHIAPPEMKASYFSAQSLGWLGAAINPLVSGVVLTSLPPSS---LFVILAL 371


>DR1307 [GEPR] COG0477 Permeases of the major facilitator superfamily
          Length = 458

 Score = 79.7 bits (195), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 92/345 (26%), Positives = 161/345 (46%), Gaps = 26/345 (7%)

Query: 30  IPFLSIYLTQVLGASHSQTGITVAVSSLAGVLISFYGGYISDVFGRKIVMLVSV------ 83
           IP ++++    LG + +  G+ + +  L    ++ +GG  +D  G K ++L         
Sbjct: 83  IPLVTVHFVDNLGWAAASVGLVLGLRQLTQQGLTVFGGAWADRIGPKPLILAGCLIRTLG 142

Query: 84  FGWACVFFGFSSAQHIWVFFLVNTLNGLCRAVFEPTSRALLSDITPPDHKLLVFNLRYAA 143
           FGW     GF+S+  +      + L G+   +F+    + ++ +TPP+H+  +F+L   A
Sbjct: 143 FGW----MGFASS--LPELLGASLLAGIGGGLFDAPKSSAITAVTPPEHRPRMFSLVSIA 196

Query: 144 VNLGVVFGPIIGLQLGSAKSTFPFVIAGVVYIAYGIVLFMQFSAHRASLPVRSEARAP-K 202
            NLG+V GP++G  L +       +IA   YI   ++L +       +LP     R P  
Sbjct: 197 GNLGMVTGPLLGAWLIALGFQRASLIAASAYIVAFVLLAV-------TLPRLKPERTPAD 249

Query: 203 LREALAVTGRDRVFLPVLVGTVFCVLGYGHFSSTLAQYLAVDTHFANGSQVFSYMLSLNA 262
               L V   DR F          + GY   S+ L   + +      G    + +  L+A
Sbjct: 250 TFSGLKVALHDRAFRNF----TLVLGGYFLLSTQLNVAVTLKAVELAGQGATAPLYGLSA 305

Query: 263 VTVLVVQYPIVRTASKF-PPLVPLILGNICVALSLVLFGVAGGVALLMFSVVLFTIGEVL 321
              +V+QYP++R A ++    V L+   + VA++L L G+A     L+  VVL+++G +L
Sbjct: 306 GLSVVLQYPLLRLAERYLRVRVVLVGAVVLVAVALGLMGLAQTFPQLLACVVLYSLGTML 365

Query: 322 LFTMMDMLIDRIAKPEWKGTYFGTIGFN-NLGNVMAPVLGGLLLD 365
           +F M   L  R+A     G+YFG    +  LG  +   +GG L+D
Sbjct: 366 VFPMQQTLTARLAPEGLVGSYFGFSAISLGLGGAVGNFVGGALVD 410


>Ta0149 [GEPR] COG0477 Permeases of the major facilitator superfamily
          Length = 403

 Score = 77.4 bits (189), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 91/353 (25%), Positives = 160/353 (45%), Gaps = 30/353 (8%)

Query: 32  FLSIYLTQVLGASHSQTGITVAVSSLAGVLISFYGGYISDVFGRKIVML-VSVFGWACVF 90
           F+ +YLT+V       +GI   ++++  + IS YGG + D  GR+ V L V V  +A + 
Sbjct: 37  FIPVYLTKVRDLPVYFSGILFLLTAMIALPISVYGGNLVDTIGRRKVSLAVPVLLFALMI 96

Query: 91  FGFSSA--QHIWVFFLVNTLNGLCRAVFEPTS-------RALLSDITPPDHKLLVFNLRY 141
               S   +   VF ++  L+       EP S        A++SD+T    +   F +  
Sbjct: 97  ITALSILYRSSIVFIVIEFLS------IEPISVIQWIADNAIVSDVTGIGERTGSFGILR 150

Query: 142 AAVNLGVVFGPIIGLQLGSAKSTFPFVIAGVVYIAYGIVLFMQFSAHRASLPVRSEARAP 201
            A NLG    P IG  L      + F+       A G V+ +    H  +     + R  
Sbjct: 151 IAGNLGFSADPAIGGFLAGYSYAYIFLFG-----AAGAVIELLLYYHLVN--ETGKLRTG 203

Query: 202 KLREALAVTGRDRVFLPVLVGTVFCVLGYGHFSSTLAQYLAVDTHFANGSQVFSYMLSLN 261
             + ++ ++ R  V + +++G  + V   G + +TL  +L+V    +N   +   + S+N
Sbjct: 204 SGKFSMPLSDRYFVVVAIMIGVTYFV--SGQWGTTLTLFLSVIYGISN--NMIGILYSIN 259

Query: 262 AVTVLVVQYPIVRTASKFPPLVPLILGNICVALSLVLFGVAGGVALLMFSVVLFTIGEVL 321
            +TV+++Q PI+R   +      L LG I       +  +     LL   +V  TIGE +
Sbjct: 260 GITVILLQMPIIRMIERINGFWQLALGTIVYGFGFFVLALTHSFLLLGLDIVFITIGENI 319

Query: 322 LFTMMDMLIDRIAKPEWKGTYFGTIGF-NNLGNVMAPVLGGLLLDQFGATNGP 373
           L  + + +I +IA  + +G YFG+    +   + +APV+G LL+  +   N P
Sbjct: 320 LAPVTNSIISKIAPEDRRGEYFGSAQLISGFISPLAPVMGTLLI--YRNANDP 370


>TVN0219 [GEPR] COG0477 Permeases of the major facilitator superfamily
          Length = 408

 Score = 76.3 bits (186), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 87/365 (23%), Positives = 169/365 (46%), Gaps = 26/365 (7%)

Query: 32  FLSIYLTQVLGASHSQTGITVAVSSLAGVLISFYGGYISDVFGRKIVMLVSVFGWACVFF 91
           F+ IYLT++        G+   ++++  +  S YGG + D  GR+ V ++  F  + + F
Sbjct: 37  FVPIYLTEIRHIPVYFMGVLFFLTAVIALPFSVYGGNLIDRIGRRRVAVLIPFLVSILLF 96

Query: 92  GFSSA-----QHIWVFFLVNTLNGLCRAVFEPTSRALLSDITPPDHKLLVFNLRYAAVNL 146
             S +     Q I++     ++  L    +   S  +++D+T  D +L  F +   A N+
Sbjct: 97  LTSISIMLRMQAIYIIIEFLSIEPLSVVQWIADS-VIMADVTSEDERLDGFGILRIAGNI 155

Query: 147 GVVFGPIIGLQLGSAKSTFPFVIAGVVYIAYGIVLFMQFSAHRASLPVRSEARAPKLREA 206
           G   GP IG  +      + F+ + +      ++ F+ + A      V S     +    
Sbjct: 156 GFSVGPAIGGFIAQYSYAYIFLASAI----GALIEFILYFAWITETGVYS-----RTNRK 206

Query: 207 LAVTGRDRVFLPV--LVGTVFCVLGYGHFSSTLAQYLAVDTHFANGSQVFSYMLSLNAVT 264
           +++   DR F+ V  L+G  + V   G + +TL  +L++     N S    Y  S+N +T
Sbjct: 207 ISIPFNDRAFMLVASLIGLSYFV--SGQWGTTLTLFLSIVDKITNSSVGILY--SINGIT 262

Query: 265 VLVVQYPIVRTASKFPPLVPLILGNICVALSLVLFGVAGGVALLMFSVVLFTIGEVLLFT 324
           V+++Q PI+R   K      L +G+I  A             ++   VV+ TIGE ++  
Sbjct: 263 VVLLQIPIIRLIRKMDGFQQLAIGSIVYASGFFALAFFSSFWIIALDVVVLTIGENIVSP 322

Query: 325 MMDMLIDRIAKPEWKGTYFGTIG-FNNLGNVMAPVLGGLLLDQFGATN----GPAVFVPL 379
           + + ++ ++A P+ +G Y+G +  F    + +APVLG  LL ++ + +    GP   + +
Sbjct: 323 VSNSIVAKLAPPDKRGEYYGAMSLFVGFISPIAPVLGTSLLYRYESNSLFLWGPVFLIGI 382

Query: 380 ALSTA 384
            ++ A
Sbjct: 383 IVAIA 387


>BS_bmrR_1 [K] COG0789 Predicted transcriptional regulators
          Length = 389

 Score = 58.9 bits (141), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 100/390 (25%), Positives = 170/390 (43%), Gaps = 31/390 (7%)

Query: 24  LVTSMSIPFLSIYLT--------QVLGASHSQTGITVAVSSLAGVLISFYGGYISDVFGR 75
           L+T++ I FL I L           L  S +  G  VA  ++  +++S   G   D FGR
Sbjct: 11  LLTNLFIAFLGIGLVIPVTPTIMNELHLSGTAVGYMVACFAITQLIVSPIAGRWVDRFGR 70

Query: 76  KIVMLVSVFGWACVFFGFSSAQHIWVFFLVNTLNGLCRAVFEPTSRALLSDITPPDHKLL 135
           KI++++ +  ++   F F   + + + F+   L G+      P   A ++DIT    +  
Sbjct: 71  KIMIVIGLLFFSVSEFLFGIGKTVEMLFISRMLGGISAPFIMPGVTAFIADITTIKTRPK 130

Query: 136 VFNLRYAAVNLGVVFGPIIGLQLGSAKSTFPFVIAGVVYIAYGIVLFMQFSAHRASLPVR 195
                 AA++ G + GP IG  L    S  PF  A    +   I+         + L +R
Sbjct: 131 ALGYMSAAISTGFIIGPGIGGFLAEVHSRLPFFFAAAFALLAAIL---------SILTLR 181

Query: 196 SEARAPKLREALA-VTGRDRVFLPVLVGTVFCVL----GYGHFSSTLAQYLAVDTHFANG 250
              R P+ +E     TG  R+F P+       +L    G   F S  A +  VD  F   
Sbjct: 182 EPERNPENQEIKGQKTGFKRIFAPMYFIAFLIILISSFGLASFESLFALF--VDHKFGFT 239

Query: 251 SQVFSYMLSLNAVTVLVVQYPIVRTASKFPPLVPLILGNICVALSLV--LFGVAGGVALL 308
           +   + M++  A+   + Q  +    +++   + LI  ++ ++ SLV  L  V   VA+L
Sbjct: 240 ASDIAIMITGGAIVGAITQVVLFDRFTRWFGEIHLIRYSLILSTSLVFLLTTVHSYVAIL 299

Query: 309 MFSVVLFTIGEVLLFTMMDMLIDRIAKPEWKGTYFGTIGFNNLGNVMAPVLGGLLLDQFG 368
           + +V +F +G  L+   +   + +IA  E          F ++GNV  P++GG+L D   
Sbjct: 300 LVTVTVF-VGFDLMRPAVTTYLSKIAGNEQGFAGGMNSMFTSIGNVFGPIIGGMLFDI-- 356

Query: 369 ATNGPAVF--VPLALSTALGLPFLITAHKR 396
             N P  F  V LA+  AL + +   AH +
Sbjct: 357 DVNYPFYFATVTLAIGIALTIAWKAPAHLK 386


  Database: COG
    Posted date:  Aug 3, 2010  9:58 AM
  Number of letters in database: 38,378,431
  Number of sequences in database:  115,334
  
Lambda     K      H
   0.329    0.142    0.425 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 115334
Number of Hits to DB: 28,750,933
Number of extensions: 1188498
Number of successful extensions: 4737
Number of sequences better than 1.0e-05: 46
Number of HSP's gapped: 4719
Number of HSP's successfully gapped: 48
Length of query: 412
Length of database: 38,378,431
Length adjustment: 109
Effective length of query: 303
Effective length of database: 25,807,025
Effective search space: 7819528575
Effective search space used: 7819528575
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: 117 (49.7 bits)