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= 010009
         (520 letters)

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

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



>pdb|3QE7|A Chain A, Crystal Structure Of Uracil Transporter--Uraa
          Length = 429

 Score = 65.1 bits (157), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 50/176 (28%), Positives = 84/176 (47%), Gaps = 6/176 (3%)

Query: 254 ISTAPWFKFPYPLQWGPPTFSAGHSFAMMSAVLVSMVESTGAYKAASRLAIATPPPAYVL 313
           I  A WF  P       P F       ++ A LV + E  G     + +          L
Sbjct: 207 IINAHWFALP---TLYTPRFEWFAILTILPAALVVIAEHVGHLVVTANIVKKDLLRDPGL 263

Query: 314 SRGIGWQGIGILLDGLFGTGTGSTVSVENVGLLGLTRVGSRRVVQISAGFMIFFSCLGKF 373
            R +   G+  ++ G FG+ T +T   EN+G++ +TRV S  V+  +A F I  SC+GK 
Sbjct: 264 HRSMFANGLSTVISGFFGS-TPNTTYGENIGVMAITRVYSTWVIGGAAIFAILLSCVGKL 322

Query: 374 GAVFASIPIPIFAALYCVLFGLVASVGLSFL--QFTNMNCMRNLVITGLSLFLGIS 427
            A    IP+P+   +  +L+G++ + G+  L     + N  +NL++T + L +G+S
Sbjct: 323 AAAIQMIPLPVMGGVSLLLYGVIGASGIRVLIESKVDYNKAQNLILTSVILIIGVS 378



 Score = 36.6 bits (83), Expect = 0.037,   Method: Compositional matrix adjust.
 Identities = 26/83 (31%), Positives = 43/83 (51%), Gaps = 12/83 (14%)

Query: 19  IDSNPPWAETILLAFQNYILMLGTSVMIPTLLVHAMGGSNGDKARVIQTLLFVSGINTLL 78
           +   PP  +TI L+ Q+   M G +V++P L        + + A    T+L  +GI TLL
Sbjct: 8   VSERPPLLQTIPLSLQHLFAMFGATVLVPVLF-------HINPA----TVLLFNGIGTLL 56

Query: 79  QALFGT-RLPAVVGGSFAYVIPI 100
                  ++PA +G SFA++ P+
Sbjct: 57  YLFICKGKIPAYLGSSFAFISPV 79


>pdb|4HYC|A Chain A, Structure Of A Presenilin Family Intramembrane Aspartate
           Protease In P2 Space Group
 pdb|4HYC|B Chain B, Structure Of A Presenilin Family Intramembrane Aspartate
           Protease In P2 Space Group
 pdb|4HYC|C Chain C, Structure Of A Presenilin Family Intramembrane Aspartate
           Protease In P2 Space Group
 pdb|4HYC|D Chain D, Structure Of A Presenilin Family Intramembrane Aspartate
           Protease In P2 Space Group
 pdb|4HYC|E Chain E, Structure Of A Presenilin Family Intramembrane Aspartate
           Protease In P2 Space Group
 pdb|4HYC|F Chain F, Structure Of A Presenilin Family Intramembrane Aspartate
           Protease In P2 Space Group
 pdb|4HYC|G Chain G, Structure Of A Presenilin Family Intramembrane Aspartate
           Protease In P2 Space Group
 pdb|4HYC|H Chain H, Structure Of A Presenilin Family Intramembrane Aspartate
           Protease In P2 Space Group
 pdb|4HYD|A Chain A, Structure Of A Presenilin Family Intramembrane Aspartate
           Protease In C2221 Space Group
 pdb|4HYD|B Chain B, Structure Of A Presenilin Family Intramembrane Aspartate
           Protease In C2221 Space Group
 pdb|4HYD|C Chain C, Structure Of A Presenilin Family Intramembrane Aspartate
           Protease In C2221 Space Group
 pdb|4HYD|D Chain D, Structure Of A Presenilin Family Intramembrane Aspartate
           Protease In C2221 Space Group
 pdb|4HYG|A Chain A, Structure Of A Presenilin Family Intramembrane Aspartate
           Protease In C222 Space Group
 pdb|4HYG|B Chain B, Structure Of A Presenilin Family Intramembrane Aspartate
           Protease In C222 Space Group
 pdb|4HYG|C Chain C, Structure Of A Presenilin Family Intramembrane Aspartate
           Protease In C222 Space Group
 pdb|4HYG|D Chain D, Structure Of A Presenilin Family Intramembrane Aspartate
           Protease In C222 Space Group
          Length = 301

 Score = 29.3 bits (64), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 25/80 (31%), Positives = 38/80 (47%), Gaps = 2/80 (2%)

Query: 350 RVGSRRVVQISAGFMIFFSCLGKFGAVFASIPIPIFAALYCVLFGLVASVGLSFL--QFT 407
           R G RR +    GF +F + L  FGA+      P  AA    L G VA   L +L  ++ 
Sbjct: 66  RTGGRRFIAAFIGFALFMTFLYIFGALSLLALGPTTAAAAGTLIGAVAVTALLYLYPEWY 125

Query: 408 NMNCMRNLVITGLSLFLGIS 427
            ++ +  L+  G++   GIS
Sbjct: 126 VIDILGVLISAGVASIFGIS 145


  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
   0.327    0.142    0.446 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,281,413
Number of Sequences: 62578
Number of extensions: 627269
Number of successful extensions: 1536
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1530
Number of HSP's gapped (non-prelim): 11
length of query: 520
length of database: 14,973,337
effective HSP length: 103
effective length of query: 417
effective length of database: 8,527,803
effective search space: 3556093851
effective search space used: 3556093851
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)