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= 009862
         (523 letters)

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

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



>pdb|4GBY|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
           Proton:xylose Symporter Xyle Bound To D-Xylose
 pdb|4GBZ|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
           Proton:xylose Symporter Xyle Bound To D-Glucose
 pdb|4GC0|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
           Proton:xylose Symporter Xyle Bound To
           6-Bromo-6-Deoxy-D-Glucose
          Length = 491

 Score = 77.8 bits (190), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 69/271 (25%), Positives = 118/271 (43%), Gaps = 23/271 (8%)

Query: 243 YDVPEEGEYIQAAALVSQPALYSKELMDQHPVGPAMVHPSETASKG-PSWAALLEAGVKR 301
           Y VPE   ++ +     Q     +++M       A+     +   G  +   LL  GV  
Sbjct: 218 YTVPESPRWLMSRGKQEQAEGILRKIMGNTLATQAVQEIKHSLDHGRKTGGRLLMFGVG- 276

Query: 302 ALLVGVGIQILQQFSGINGVLYYTPQILEQAGVEVLLSNLGISSESASFLISAFTTFLML 361
            +++GV + I QQF GIN VLYY P++ +  G          +S   + L +     + L
Sbjct: 277 VIVIGVMLSIFQQFVGINVVLYYAPEVFKTLG----------ASTDIALLQTIIVGVINL 326

Query: 362 PCIGVAMKLMDVAGRRKXXXXXXXXXXXXXXXXXXXXXXQLISPVLKAGISTACVIIYFC 421
               +A+  +D  GR+                       Q  +P + A +S   ++ Y  
Sbjct: 327 TFTVLAIMTVDKFGRKPLQIIGALGMAIGMFSLGTAFYTQ--APGIVALLS---MLFYVA 381

Query: 422 CFVAAYGPIPNILCAEIFPTKVRGICIAICAMAYWICDIIVTYTLPVMLSSIGLAGAF-- 479
            F  ++GP+  +L +EIFP  +RG  +AI   A W+ +  V++T P+M  +  L   F  
Sbjct: 382 AFAMSWGPVCWVLLSEIFPNAIRGKALAIAVAAQWLANYFVSWTFPMMDKNSWLVAHFHN 441

Query: 480 ----GVYAVVCFISWVFVFLRVPETKGMPLE 506
                +Y  +  ++ +F++  VPETKG  LE
Sbjct: 442 GFSYWIYGCMGVLAALFMWKFVPETKGKTLE 472


>pdb|1PAF|A Chain A, The 2.5 Angstroms Structure Of Pokeweed Antiviral Protein
 pdb|1PAF|B Chain B, The 2.5 Angstroms Structure Of Pokeweed Antiviral Protein
 pdb|1PAG|A Chain A, The 2.5 Angstroms Structure Of Pokeweed Antiviral Protein
 pdb|1PAG|B Chain B, The 2.5 Angstroms Structure Of Pokeweed Antiviral Protein
 pdb|1QCG|A Chain A, Low Temperature Structure Of Pokeweed Antiviral Protein
 pdb|1QCG|B Chain B, Low Temperature Structure Of Pokeweed Antiviral Protein
 pdb|1QCI|A Chain A, Low Temperature Structure Of Pokeweed Antiviral Protein
           Complexed With Adenine
 pdb|1QCI|B Chain B, Low Temperature Structure Of Pokeweed Antiviral Protein
           Complexed With Adenine
 pdb|1QCJ|A Chain A, Low Temperature Complex Of Pokeweed Antiviral Protein With
           Pteoric Acid
 pdb|1QCJ|B Chain B, Low Temperature Complex Of Pokeweed Antiviral Protein With
           Pteoric Acid
 pdb|1D6A|A Chain A, Structure Of Pokeweed Antiviral Protein Complexed With
           Guanine
 pdb|1D6A|B Chain B, Structure Of Pokeweed Antiviral Protein Complexed With
           Guanine
          Length = 262

 Score = 30.8 bits (68), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 23/56 (41%), Positives = 32/56 (57%), Gaps = 5/56 (8%)

Query: 296 EAGVKRALLVGVGIQILQQFSG-INGVLYYTPQILEQAGVEVLLSNLGISSESASF 350
           +AGVK    V +GIQIL    G I+GV+ +T    E+   E LL  + + SE+A F
Sbjct: 129 KAGVKSRSQVQLGIQILDSNIGKISGVMSFT----EKTEAEFLLVAIQMVSEAARF 180


  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
   0.319    0.136    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,571,582
Number of Sequences: 62578
Number of extensions: 577891
Number of successful extensions: 1228
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1221
Number of HSP's gapped (non-prelim): 7
length of query: 523
length of database: 14,973,337
effective HSP length: 103
effective length of query: 420
effective length of database: 8,527,803
effective search space: 3581677260
effective search space used: 3581677260
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)