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= 023516
         (281 letters)

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

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



>pdb|1YOX|A Chain A, Structure Of The Conserved Protein Of Unknown Function
           Pa3696 From Pseudomonas Aeruginosa
 pdb|1YOX|B Chain B, Structure Of The Conserved Protein Of Unknown Function
           Pa3696 From Pseudomonas Aeruginosa
 pdb|1YOX|C Chain C, Structure Of The Conserved Protein Of Unknown Function
           Pa3696 From Pseudomonas Aeruginosa
 pdb|1YOX|D Chain D, Structure Of The Conserved Protein Of Unknown Function
           Pa3696 From Pseudomonas Aeruginosa
 pdb|1YOX|E Chain E, Structure Of The Conserved Protein Of Unknown Function
           Pa3696 From Pseudomonas Aeruginosa
 pdb|1YOX|F Chain F, Structure Of The Conserved Protein Of Unknown Function
           Pa3696 From Pseudomonas Aeruginosa
          Length = 250

 Score =  114 bits (284), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 76/233 (32%), Positives = 121/233 (51%), Gaps = 11/233 (4%)

Query: 23  IPFQILGGEAQVCQIMLKPQEKVVARPGSMCFMSGSMEMENIYIPENEVG-----MW--- 74
           + ++ILG   Q  +I L P E V+A  G+  + +G +        +   G     +W   
Sbjct: 8   LDYRILGESXQTVEIELDPGETVIAEAGAXNYXTGDIRF-TARXGDGSDGSLLGKLWSAG 66

Query: 75  -QWLFGKTITSVVLRNPGPSDGFVGIAAPSLARILPIDLAMFGGELLCQPDAFLCSVNDV 133
            + L G+++      N G     V  AAP    ++ +DL   GG L CQ D+FLC+    
Sbjct: 67  KRKLGGESVFXTHFTNEGQGKQHVAFAAPYPGSVVAVDLDDVGGRLFCQKDSFLCAAYGT 126

Query: 134 KVSNTLDQRVRNVIGGIEGFLRQKLTGQGLAFILAGGSVVQKNLEVGEVITVDVSCIVAV 193
           +V     +R+     G EGF+ QKL G GL F+ AGG+++++ L  GE + VD  C+VA 
Sbjct: 127 RVGIAFTKRLGAGFFGGEGFILQKLEGDGLVFVHAGGTLIRRQLN-GETLRVDTGCLVAF 185

Query: 194 TSSVNVQIKYNGPIRRAVFGGDNLVTAVVTGPGIVFIQSLPFHRLSQRIARAV 246
           T  ++  ++  G ++  +FGG+ L+   + G G V++QSLPF RL+ RI  A 
Sbjct: 186 TDGIDYDVQLAGGLKSXLFGGEGLLLTTLKGSGTVWLQSLPFSRLAGRIYDAT 238


>pdb|2XKL|A Chain A, Crystal Structure Of Mouse Apolipoprotein M
          Length = 171

 Score = 28.9 bits (63), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 28/114 (24%), Positives = 45/114 (39%), Gaps = 7/114 (6%)

Query: 61  MENIYIPENEVGMWQWLFGKTITSVVLRNPGPSDGFV-GIAAPSLARILPIDLAMFGGEL 119
           M++   PE  +G+W ++ G   T+  L    P D  V  +AA S  R L +   +     
Sbjct: 15  MDDTETPEPHLGLWYFIAGAASTTEELATFDPVDNIVFNMAAGSAPRQLQLRATIRTKSG 74

Query: 120 LCQPDAFLCSVNDVKVSNTL------DQRVRNVIGGIEGFLRQKLTGQGLAFIL 167
           +C P  +   + + K +  L      D +         G +  K TGQG    L
Sbjct: 75  VCVPRKWTYRLTEGKGNMELRTEGRPDMKTDLFSSSCPGGIMLKETGQGYQRFL 128


>pdb|1QDM|A Chain A, Crystal Structure Of Prophytepsin, A Zymogen Of A Barley
           Vacuolar Aspartic Proteinase.
 pdb|1QDM|B Chain B, Crystal Structure Of Prophytepsin, A Zymogen Of A Barley
           Vacuolar Aspartic Proteinase.
 pdb|1QDM|C Chain C, Crystal Structure Of Prophytepsin, A Zymogen Of A Barley
           Vacuolar Aspartic Proteinase
          Length = 478

 Score = 27.7 bits (60), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 22/89 (24%), Positives = 37/89 (41%), Gaps = 19/89 (21%)

Query: 62  ENIYIPENEVGMWQWLFGKTITSVVLRNPGPSDGFV--GIAAPSLARILPIDLAMFGGEL 119
           E+ Y+P  + G WQ+  G  +        G S GF   G AA          +A  G  L
Sbjct: 221 EHTYVPVTQKGYWQFDMGDVLVG------GKSTGFCAGGCAA----------IADSGTSL 264

Query: 120 LCQPDAFLCSVND-VKVSNTLDQRVRNVI 147
           L  P A +  +N+ +  +  + Q  + ++
Sbjct: 265 LAGPTAIITEINEKIGAAGVVSQECKTIV 293


  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    0.140    0.417 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,909,463
Number of Sequences: 62578
Number of extensions: 309401
Number of successful extensions: 1271
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1267
Number of HSP's gapped (non-prelim): 4
length of query: 281
length of database: 14,973,337
effective HSP length: 98
effective length of query: 183
effective length of database: 8,840,693
effective search space: 1617846819
effective search space used: 1617846819
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: 51 (24.3 bits)