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= psy8389
         (156 letters)

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

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



>pdb|3A1F|A Chain A, The Crystal Structure Of Nadph Binding Domain Of
           Gp91(Phox)
          Length = 186

 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 25/56 (44%), Positives = 34/56 (60%), Gaps = 1/56 (1%)

Query: 86  YPLSSQEKRDLITGLKTRTNAGRPNWDRVFKHLLDQKKG-KVTVFYCGPPQLARIL 140
           + +   E++D+ITGLK +T  GRPNWD  FK +  Q    ++ VF CGP  LA  L
Sbjct: 107 FAVHHDEEKDVITGLKQKTLYGRPNWDNEFKTIASQHPNTRIGVFLCGPEALAETL 162


>pdb|2Z1N|A Chain A, Crystal Structure Of Ape0912 From Aeropyrum Pernix K1
 pdb|2Z1N|B Chain B, Crystal Structure Of Ape0912 From Aeropyrum Pernix K1
          Length = 260

 Score = 30.4 bits (67), Expect = 0.41,   Method: Compositional matrix adjust.
 Identities = 28/120 (23%), Positives = 50/120 (41%), Gaps = 10/120 (8%)

Query: 37  VDANIRGKMVVFKNHHGASGYTNESFCSLPEDFKMGNIGVYCFSLTNSPYPLSSQEKRDL 96
           +D  I+GK+ V       +G +   F S  E  + G   +  FS        ++     L
Sbjct: 1   MDLGIQGKLAVVT-----AGSSGLGFASALELARNGA-RLLLFSRNREKLEAAASRIASL 54

Query: 97  ITGLKTRTNAG---RP-NWDRVFKHLLDQKKGKVTVFYCGPPQLARILRLKCDQFGFSFR 152
           ++G +    AG    P + DR+F+   D     + V+  G P+  R + L  + +  S+R
Sbjct: 55  VSGAQVDIVAGDIREPGDIDRLFEKARDLGGADILVYSTGGPRPGRFMELGVEDWDESYR 114


>pdb|1ZCC|A Chain A, Crystal Structure Of Glycerophosphodiester
           Phosphodiesterase From Agrobacterium Tumefaciens Str.C58
 pdb|1ZCC|B Chain B, Crystal Structure Of Glycerophosphodiester
           Phosphodiesterase From Agrobacterium Tumefaciens Str.C58
 pdb|1ZCC|C Chain C, Crystal Structure Of Glycerophosphodiester
           Phosphodiesterase From Agrobacterium Tumefaciens Str.C58
 pdb|1ZCC|D Chain D, Crystal Structure Of Glycerophosphodiester
           Phosphodiesterase From Agrobacterium Tumefaciens Str.C58
 pdb|1ZCC|E Chain E, Crystal Structure Of Glycerophosphodiester
           Phosphodiesterase From Agrobacterium Tumefaciens Str.C58
 pdb|1ZCC|F Chain F, Crystal Structure Of Glycerophosphodiester
           Phosphodiesterase From Agrobacterium Tumefaciens Str.C58
          Length = 248

 Score = 29.6 bits (65), Expect = 0.81,   Method: Compositional matrix adjust.
 Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 3/50 (6%)

Query: 109 PNWDRVFKHLLDQKKGKVTVFYCGPPQLARILR---LKCDQFGFSFRKEV 155
           P  D   +HL  +    + + YC P ++A ++R   +  D F FSF +E+
Sbjct: 90  PRLDAYLEHLRGRAGVYIELKYCDPAKVAALVRHLGMVRDTFYFSFSEEM 139


>pdb|3FFY|A Chain A, Putative Tetrapyrrole (CorrinPORPHYRIN) METHYLTRANSFERASE
           FROM Bacteroides Fragilis
          Length = 115

 Score = 26.6 bits (57), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 12/55 (21%)

Query: 106 AGRPNWDRVFKHLLDQKKGKVT------------VFYCGPPQLARILRLKCDQFG 148
           +G PN    F+  L QKKG+ T            VFY  P +L + L    + FG
Sbjct: 13  SGLPNEKFCFEGFLPQKKGRXTKLKSLVDEHRTXVFYESPHRLLKTLTQFAEYFG 67


  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
   0.323    0.138    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,210,777
Number of Sequences: 62578
Number of extensions: 154124
Number of successful extensions: 270
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 268
Number of HSP's gapped (non-prelim): 6
length of query: 156
length of database: 14,973,337
effective HSP length: 91
effective length of query: 65
effective length of database: 9,278,739
effective search space: 603118035
effective search space used: 603118035
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 47 (22.7 bits)