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= 007665
         (594 letters)

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

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



>pdb|1ZO1|I Chain I, If2, If1, And Trna Fitted To Cryo-Em Data Of E. Coli 70s
           Initiation Complex
          Length = 501

 Score = 31.2 bits (69), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 44/162 (27%), Positives = 70/162 (43%), Gaps = 27/162 (16%)

Query: 345 ILQALLSIDMLILFLATFCGLGCSLTAIDNLGQIGESLGYPQHTINTFVSLV-----SIW 399
           +L+A  SI + IL L+     G  +T + +  +  E   Y Q      V L       + 
Sbjct: 230 VLEAGPSIPVEILGLSGVPAAGDEVTVVRDEKKAREVALYRQGKFRE-VKLARQQKSKLE 288

Query: 400 NYFGRVFAGFVSEI-ILLKYKVPRPLIMAIS--------------LILSAVGDVLIAFPK 444
           N F  +  G V E+ I+LK  V +  + AIS              +I S VG +      
Sbjct: 289 NMFANMTEGEVHEVNIVLKADV-QGSVEAISDSLLKLSTDEVKVKIIGSGVGGIT---ET 344

Query: 445 PGSVYVAS--LLVGFSYGAQLTLLFIIISELFGLKYYSTLFN 484
             ++  AS  +LVGF+  A  +   +I +E   L+YYS ++N
Sbjct: 345 DATLAAASNAILVGFNVRADASARKVIEAESLDLRYYSVIYN 386


>pdb|3G60|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
           Poly-Specific Drug Binding
 pdb|3G60|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
           Poly-Specific Drug Binding
 pdb|3G61|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
           Poly-Specific Drug Binding
 pdb|3G61|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
           Poly-Specific Drug Binding
          Length = 1284

 Score = 30.4 bits (67), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 28/49 (57%)

Query: 428 ISLILSAVGDVLIAFPKPGSVYVASLLVGFSYGAQLTLLFIIISELFGL 476
           +S I   +GD +  F +  + +    ++GF+ G +LTL+ + IS + GL
Sbjct: 175 VSKINEGIGDKIGMFFQAMATFFGGFIIGFTRGWKLTLVILAISPVLGL 223


>pdb|3G5U|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
           Poly-Specific Drug Binding
 pdb|3G5U|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
           Poly-Specific Drug Binding
          Length = 1284

 Score = 30.4 bits (67), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 28/49 (57%)

Query: 428 ISLILSAVGDVLIAFPKPGSVYVASLLVGFSYGAQLTLLFIIISELFGL 476
           +S I   +GD +  F +  + +    ++GF+ G +LTL+ + IS + GL
Sbjct: 175 VSKINEGIGDKIGMFFQAMATFFGGFIIGFTRGWKLTLVILAISPVLGL 223


>pdb|1TZP|A Chain A, Mepa, Inactive Form Without Zn In P21
 pdb|1TZP|B Chain B, Mepa, Inactive Form Without Zn In P21
          Length = 255

 Score = 30.0 bits (66), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 3/48 (6%)

Query: 275 AWQQRKQPTPASAVVI-VFEQTTLVATKSEILEIESDHSQTLQTENKK 321
            WQ+  QP P SA  I  F    +V   ++ L I+S+H Q ++T+ ++
Sbjct: 3   PWQKITQPVPGSAQSIGSFSNGCIVG--ADTLPIQSEHYQVMRTDQRR 48


  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
   0.326    0.140    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,061,372
Number of Sequences: 62578
Number of extensions: 617913
Number of successful extensions: 1621
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1617
Number of HSP's gapped (non-prelim): 7
length of query: 594
length of database: 14,973,337
effective HSP length: 104
effective length of query: 490
effective length of database: 8,465,225
effective search space: 4147960250
effective search space used: 4147960250
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 54 (25.4 bits)