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= 007243
         (611 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 = 67.0 bits (162), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 54/231 (23%), Positives = 99/231 (42%), Gaps = 32/231 (13%)

Query: 33  MPFIIANEAFEKVASYGLVTNMILYLMKDYHLGV------AKGTNVLFFWTAATNFMPIL 86
           +P+IIA+EA E+ + YG+   +  +LM    L +      A   +V   +     F P+L
Sbjct: 14  IPYIIASEACERFSFYGMRNILTPFLMTALLLSIPEELRGAVAKDVFHSFVIGVYFFPLL 73

Query: 87  GAFLSDSYLGRFLTIGLASFCSLLGMFLLWLTAMIPKVKPSPCNILTQSCESPTTAQMTL 146
           G +++D + G++ TI             LWL+ +I  V  +   I   S +         
Sbjct: 74  GGWIADRFFGKYNTI-------------LWLS-LIYCVGHAFLAIFEHSVQG-------- 111

Query: 147 LISSFCFISIGAGGIRPCSIAFGADQLDRKDNPNNERVLESFFGWYYXXXXXXXXXXXXX 206
             +    I++G+GGI+P   +F  DQ D+    +N+ + +  F  +Y             
Sbjct: 112 FYTGLFLIALGSGGIKPLVSSFMGDQFDQ----SNKSLAQKAFDMFYFTINFGSFFASLS 167

Query: 207 XXYIQDHLGWKVGFGVPAILMVLSLLLFFIASPLYVKLKASSSLLTGFAQV 257
              +  + G  V FG+P +LM ++ + F++    Y+ +        GF  V
Sbjct: 168 MPLLLKNFGAAVAFGIPGVLMFVATVFFWLGRKRYIHMPPEPKDPHGFLPV 218



 Score = 36.6 bits (83), Expect = 0.043,   Method: Compositional matrix adjust.
 Identities = 28/104 (26%), Positives = 48/104 (46%), Gaps = 17/104 (16%)

Query: 410 RLGVKL----RMGIGLFLSCMGMVVSGLVENIRRRRAIREGYLNNGQAVLEMSAMWLVPQ 465
           R+GVKL    +MG G+ ++ +  +V G ++ +          ++ G A   +S  W +  
Sbjct: 365 RMGVKLTALRKMGAGIAITGLSWIVVGTIQLM----------MDGGSA---LSIFWQILP 411

Query: 466 HCLNGLAEAFNAIAQTEFFYSEFPKSMSSIAASLFGLGMAVANL 509
           + L    E   +    EF YS+ PK+M     S + L + V NL
Sbjct: 412 YALLTFGEVLVSATGLEFAYSQAPKAMKGTIMSFWTLSVTVGNL 455


  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
   0.322    0.136    0.412 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,723,143
Number of Sequences: 62578
Number of extensions: 641941
Number of successful extensions: 1371
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1366
Number of HSP's gapped (non-prelim): 3
length of query: 611
length of database: 14,973,337
effective HSP length: 105
effective length of query: 506
effective length of database: 8,402,647
effective search space: 4251739382
effective search space used: 4251739382
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)