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= 025704
         (249 letters)

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

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



>pdb|3P8C|A Chain A, Structure And Control Of The Actin Regulatory Wave Complex
          Length = 1253

 Score = 35.4 bits (80), Expect = 0.031,   Method: Compositional matrix adjust.
 Identities = 31/120 (25%), Positives = 52/120 (43%), Gaps = 1/120 (0%)

Query: 122 EELQKQVTVKSSVLEALLEITKFCDLYLMERVLDNESEKKVLLALETAGVFTSGGLVKDK 181
           + LQ+Q+ V S   E L +I   C  Y   R+    SEK +LL +   G++   G V + 
Sbjct: 222 QSLQQQLEVISGYEELLADIVNLCVDYYENRMYLTPSEKHMLLKVMGFGLYLMDGSVSNI 281

Query: 182 V-LFCSTEIGRTSFVRQLEPDWHIDTNPEIVSQLARFIKYQLHISPNRPERSAANVFSSP 240
             L     I  +   +  +    +    ++  +LAR+IK   H   N+   +  +  SSP
Sbjct: 282 YKLDAKKRINLSKIDKYFKQLQVVPLFGDMQIELARYIKTSAHYEENKSRWTCTSSGSSP 341


>pdb|2IV2|X Chain X, Reinterpretation Of Reduced Form Of Formate Dehydrogenase
           H From E. Coli
 pdb|1AA6|A Chain A, Reduced Form Of Formate Dehydrogenase H From E. Coli
 pdb|1FDI|A Chain A, Oxidized Form Of Formate Dehydrogenase H From E. Coli
           Complexed With The Inhibitor Nitrite
 pdb|1FDO|A Chain A, Oxidized Form Of Formate Dehydrogenase H From E. Coli
          Length = 715

 Score = 33.5 bits (75), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 12/43 (27%), Positives = 26/43 (60%)

Query: 183 LFCSTEIGRTSFVRQLEPDWHIDTNPEIVSQLARFIKYQLHIS 225
           +F + + G   F + +EP W + T+ +I+S++A  + Y +H +
Sbjct: 454 VFTAADRGFQRFFKAVEPKWDLKTDWQIISEIATRMGYPMHYN 496


>pdb|1WQS|A Chain A, Crystal Structure Of Norovirus 3c-Like Protease
 pdb|1WQS|B Chain B, Crystal Structure Of Norovirus 3c-Like Protease
 pdb|1WQS|C Chain C, Crystal Structure Of Norovirus 3c-Like Protease
 pdb|1WQS|D Chain D, Crystal Structure Of Norovirus 3c-Like Protease
          Length = 173

 Score = 28.9 bits (63), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 3/57 (5%)

Query: 105 RKVTCRLLGVILEESCPEELQKQVTVKSSVLEAL---LEITKFCDLYLMERVLDNES 158
           RKV   L G++LEE CPE +   + +K    E L   + +     + +  R++  +S
Sbjct: 62  RKVRPDLTGMVLEEGCPEGVVCSILIKRDSGELLPLAVRMGAIASMKIQGRLVHGQS 118


  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    0.132    0.384 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,589,368
Number of Sequences: 62578
Number of extensions: 238033
Number of successful extensions: 635
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 629
Number of HSP's gapped (non-prelim): 7
length of query: 249
length of database: 14,973,337
effective HSP length: 96
effective length of query: 153
effective length of database: 8,965,849
effective search space: 1371774897
effective search space used: 1371774897
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: 50 (23.9 bits)