BLASTP 2.2.26 [Sep-21-2011]


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= 044175
         (537 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|2XUT|A Chain A, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
           Family Transporter.
 pdb|2XUT|B Chain B, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
           Family Transporter.
 pdb|2XUT|C Chain C, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
           Family Transporter
          Length = 524

 Score = 38.1 bits (87), Expect = 0.012,   Method: Compositional matrix adjust.
 Identities = 38/176 (21%), Positives = 72/176 (40%), Gaps = 23/176 (13%)

Query: 51  AGASNTLTNLMGSTFLLCLVGGFISDTFLSRFATCLIFGTLEVLALVMITVQAYSEKLHP 110
           A A +   + +   +   L+GG+I+D F  ++ T L    +  +    + +  +S     
Sbjct: 54  AVAKDVFHSFVIGVYFFPLLGGWIADRFFGKYNTILWLSLIYCVGHAFLAIFEHS----- 108

Query: 111 PDCGKSSCVKGGIAAYFYASLCLYALGSGGVRGALPALGAGQFDEKDPKGAKALASY-FN 169
                   V+G     FY  L L ALGSGG++  + +    QFD+ +    K+LA   F+
Sbjct: 109 --------VQG-----FYTGLFLIALGSGGIKPLVSSFMGDQFDQSN----KSLAQKAFD 151

Query: 170 YFLLTTTLAAVIGVTAIVYVSTEKAWWGGFLISSIVTFIGFIALVIGKPFYRNQQP 225
            F  T    +     ++  +         F I  ++ F+  +   +G+  Y +  P
Sbjct: 152 MFYFTINFGSFFASLSMPLLLKNFGAAVAFGIPGVLMFVATVFFWLGRKRYIHMPP 207



 Score = 37.0 bits (84), Expect = 0.030,   Method: Compositional matrix adjust.
 Identities = 24/107 (22%), Positives = 49/107 (45%), Gaps = 13/107 (12%)

Query: 362 MSILLPVYELLFVPFARKITGHPS------GITQLQRVGVGLVLSAVSMTIAGFVEVQRR 415
           M  L P+  +L +PF   +  +P+       +T L+++G G+ ++ +S  + G +++   
Sbjct: 340 MQALNPLLVMLLIPFNNFVL-YPAIERMGVKLTALRKMGAGIAITGLSWIVVGTIQLMMD 398

Query: 416 NAFNQMPPKQISLFWLSFQYCIFGIADMFTLVGLLEFFYKEAPAGMR 462
                     +S+FW    Y +    ++      LEF Y +AP  M+
Sbjct: 399 GG------SALSIFWQILPYALLTFGEVLVSATGLEFAYSQAPKAMK 439


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.325    0.139    0.422 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,071,099
Number of Sequences: 62578
Number of extensions: 536648
Number of successful extensions: 1226
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1221
Number of HSP's gapped (non-prelim): 5
length of query: 537
length of database: 14,973,337
effective HSP length: 103
effective length of query: 434
effective length of database: 8,527,803
effective search space: 3701066502
effective search space used: 3701066502
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)