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= 0165.0003.p
         (246 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

BS_yvfS [V] COG0842 ABC-type multidrug transport system, permeas...   332   3e-91
SP2002 [V] COG0842 ABC-type multidrug transport system, permease...   124   2e-28
CC1148 [V] COG0842 ABC-type multidrug transport system, permease...    87   2e-17

>BS_yvfS [V] COG0842 ABC-type multidrug transport system, permease component
          Length = 245

 Score =  332 bits (851), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 150/245 (61%), Positives = 194/245 (79%)

Query: 2   MRLIAMQCKAEMLRIFRNPYYVFWSLLMPILFYFIFTRVVNTGTDDVSKWQAHYLMSMAA 61
           M ++  Q  AEM R+ RN Y+V WSL+MPI FY+ FT VVNT   D   W+AHYLMSM  
Sbjct: 1   MNVLQKQSIAEMKRVLRNKYFVLWSLIMPIAFYYFFTNVVNTNVPDQRAWEAHYLMSMTV 60

Query: 62  FSVMGSAIMTLGIRLVQERTQGWNTFIRITPLPSSVYFAGKMFGQTIMHLFSVLCIFVAG 121
           FSVMGS+IMTLGIR+VQER+QGW  FIR+TPLP  +Y + +M GQ+++H+ S+  IF+ G
Sbjct: 61  FSVMGSSIMTLGIRMVQERSQGWAAFIRLTPLPDHIYLSAQMIGQSVIHVLSITVIFLFG 120

Query: 122 YLINGVALTPGQWVLSGLWILAGSLPFLALGTLVGFMKRADTASGVSNVLYMGLAVAGGM 181
            +IN +AL+P +W++SGLWIL G+LPFLALGTL+G M++ +TA+G+SNVLYM LA+ GGM
Sbjct: 121 AIINDIALSPFEWMMSGLWILFGALPFLALGTLIGLMRKVETAAGISNVLYMLLALGGGM 180

Query: 182 WMPLEILPKVMQRIGHWLPSYNYGEGAWEIVGGGYPQWSNILILLGYLAVFMLLSVYIRK 241
           WMP E++P +MQ IG WLPSY++G GAWE+V GG P W NILIL+ Y+ +FMLLS YIR+
Sbjct: 181 WMPFEVMPDMMQSIGQWLPSYHFGSGAWELVRGGSPTWKNILILIAYMMLFMLLSKYIRR 240

Query: 242 KQEAV 246
           KQEAV
Sbjct: 241 KQEAV 245


>SP2002 [V] COG0842 ABC-type multidrug transport system, permease component
          Length = 245

 Score =  124 bits (310), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 76/244 (31%), Positives = 129/244 (52%), Gaps = 1/244 (0%)

Query: 1   MMRLIAMQCKAEMLRIFRNPYYVFWSLLMPILFYFIFTRVVNTGTDDVSKWQAHYLMSMA 60
           M R +A+  K E L   R   Y   S+ MP  FY  F+ +      +++ +   YL+SM 
Sbjct: 1   MKRWLALS-KIEFLLTKRQLIYYLLSVGMPTAFYLFFSGIYQDTPGELANFMRDYLISMT 59

Query: 61  AFSVMGSAIMTLGIRLVQERTQGWNTFIRITPLPSSVYFAGKMFGQTIMHLFSVLCIFVA 120
           AFS+M +AI +  + L  ++   W   +R +P+    Y+  K+    + +L S+L +F  
Sbjct: 60  AFSMMSTAIFSFPVVLHTDKINNWQKTLRHSPVNMVEYYLSKITSMLVDYLVSILVVFSV 119

Query: 121 GYLINGVALTPGQWVLSGLWILAGSLPFLALGTLVGFMKRADTASGVSNVLYMGLAVAGG 180
           G+ + GV ++ G W+ + L ++ GS+ F+ALG  +  +  +   S V N+LY+GLAV GG
Sbjct: 120 GHFVRGVDMSLGNWIGAALLLIVGSIAFVALGLTLTLLPTSQLMSVVGNLLYLGLAVLGG 179

Query: 181 MWMPLEILPKVMQRIGHWLPSYNYGEGAWEIVGGGYPQWSNILILLGYLAVFMLLSVYIR 240
           +WMP+ + P  MQ +G  LP+Y   E     +  G    S  + LL +  V   L++Y++
Sbjct: 180 LWMPISLFPDWMQVVGKCLPTYQLMELLKTFLNEGGINLSATVYLLVFSVVLFGLTIYLQ 239

Query: 241 KKQE 244
             +E
Sbjct: 240 GHKE 243


>CC1148 [V] COG0842 ABC-type multidrug transport system, permease component
          Length = 245

 Score = 87.4 bits (215), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 50/200 (25%), Positives = 108/200 (54%), Gaps = 6/200 (3%)

Query: 8   QCKAEMLRIFRNPYYVFWSLLMPILFYFIFTRVVNTGTDDVSKWQ-AHYLMSMAAFSVMG 66
           + +A++L  +R P ++  S+++P+LFY +    ++ G ++++    A+Y++    F+ + 
Sbjct: 10  EARAQVLATWRTPQFMVPSVILPLLFYGVMGLGLSKGREEIAHMMLANYVI----FAAIA 65

Query: 67  SAIMTLGIRLVQERTQGWNTFIRITPLPSSVYFAGKMFGQTIMHLFSVLCIFVAGYLING 126
            A+   G  +  ER        +I PLP+  Y  G++     +   ++  +    Y I G
Sbjct: 66  PAMFGFGAGVAAEREAKLVELKQIAPLPAGGYLTGRLATALALIAAAIALLGGLAY-IGG 124

Query: 127 VALTPGQWVLSGLWILAGSLPFLALGTLVGFMKRADTASGVSNVLYMGLAVAGGMWMPLE 186
           V + PGQW  +    L  ++PF  +G  +G    +  A+ ++N++++G ++ GG+W+PL+
Sbjct: 125 VRMEPGQWAATLGLGLGSTIPFALIGLNLGLRMGSQGATALANLVFLGFSLFGGLWIPLQ 184

Query: 187 ILPKVMQRIGHWLPSYNYGE 206
            +P    +I  ++PSY+ G+
Sbjct: 185 AMPAWFGKIAVFMPSYHLGQ 204


  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    0.458 

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: 19,080,974
Number of extensions: 841874
Number of successful extensions: 2761
Number of sequences better than 1.0e-05: 5
Number of HSP's gapped: 2775
Number of HSP's successfully gapped: 5
Length of query: 246
Length of database: 38,378,431
Length adjustment: 104
Effective length of query: 142
Effective length of database: 26,383,695
Effective search space: 3746484690
Effective search space used: 3746484690
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: 114 (48.5 bits)