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= 037608
         (371 letters)

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

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



>pdb|3N6R|A Chain A, Crystal Structure Of The Holoenzyme Of Propionyl-coa
           Carboxylase (pcc)
 pdb|3N6R|C Chain C, Crystal Structure Of The Holoenzyme Of Propionyl-coa
           Carboxylase (pcc)
 pdb|3N6R|E Chain E, Crystal Structure Of The Holoenzyme Of Propionyl-coa
           Carboxylase (pcc)
 pdb|3N6R|G Chain G, Crystal Structure Of The Holoenzyme Of Propionyl-coa
           Carboxylase (pcc)
 pdb|3N6R|I Chain I, Crystal Structure Of The Holoenzyme Of Propionyl-coa
           Carboxylase (pcc)
 pdb|3N6R|K Chain K, Crystal Structure Of The Holoenzyme Of Propionyl-coa
           Carboxylase (pcc)
          Length = 681

 Score = 36.6 bits (83), Expect = 0.026,   Method: Compositional matrix adjust.
 Identities = 23/80 (28%), Positives = 43/80 (53%), Gaps = 8/80 (10%)

Query: 95  YIPPFATANGPEIIKGV---NYASGSAGIRDETGSHQGVCISLNKQLKNHKIIISRIAGF 151
           Y PP  TA GP ++ G    +  SG A +R++TG ++G  IS+      +  +I+++  +
Sbjct: 358 YRPPAETAAGPLLVNGKWQGDAPSGEAAVRNDTGVYEGGEISM-----YYDPMIAKLCTW 412

Query: 152 LGSYHSAYEHLKKCLYSFTI 171
             +  +A E ++  L SF +
Sbjct: 413 APTRAAAIEAMRIALDSFEV 432


>pdb|2PM9|A Chain A, Crystal Structure Of Yeast Sec1331 VERTEX ELEMENT OF THE
           Copii Vesicular Coat
          Length = 416

 Score = 30.8 bits (68), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 13/27 (48%), Positives = 19/27 (70%), Gaps = 1/27 (3%)

Query: 20  SVFNLQSPVW-GKPAVPCYFVFGDSLV 45
           SVF+LQ+P W G+P+   ++ FG  LV
Sbjct: 372 SVFHLQAPTWYGEPSPAAHWAFGGKLV 398


>pdb|1MVH|A Chain A, Structure Of The Set Domain Histone Lysine
           Methyltransferase Clr4
 pdb|1MVX|A Chain A, Structure Of The Set Domain Histone Lysine
           Methyltransferase Clr4
          Length = 299

 Score = 28.5 bits (62), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 14/70 (20%)

Query: 254 QLFNKRL-------VTLVDQLNVK---HQDSKFIALNTLVQ----TPPGFRPGFNMSTLR 299
           +LF K+L       VTLV++++ +     D +FI+   L Q      P F+ G N S+L 
Sbjct: 16  ELFRKKLREIEGPEVTLVNEVDDEPCPSLDFQFISQYRLTQGVIPPDPNFQSGCNCSSLG 75

Query: 300 CCDVNDFGLC 309
            CD+N+   C
Sbjct: 76  GCDLNNPSRC 85


>pdb|4A7K|A Chain A, Bifunctional Aldos-2-Ulose Dehydratase
 pdb|4A7Y|A Chain A, Active Site Metal Depleted Aldos-2-Ulose Dehydratase
 pdb|4A7Z|A Chain A, Complex Of Bifunctional Aldos-2-ulose Dehydratase With The
           Reaction Intermediate Ascopyrone M
          Length = 900

 Score = 28.5 bits (62), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 75  RFCNGRTIADVTAERLGFDDYIPPFATANGPEIIKGVNYASGSAGIRDETGSHQGV 130
           RF       DV  ++L     +PPFA  +    + GV   +G+    DE G H+ V
Sbjct: 455 RFKTEMEFLDVAGKKLTLV-VLPPFARLDVERNVSGVKVMAGTVCWADENGKHERV 509


  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
   0.322    0.136    0.431 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,527,763
Number of Sequences: 62578
Number of extensions: 492845
Number of successful extensions: 1030
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1030
Number of HSP's gapped (non-prelim): 4
length of query: 371
length of database: 14,973,337
effective HSP length: 100
effective length of query: 271
effective length of database: 8,715,537
effective search space: 2361910527
effective search space used: 2361910527
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)