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= 040338
         (385 letters)

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

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



>pdb|2FTP|A Chain A, Crystal Structure Of Hydroxymethylglutaryl-Coa Lyase From
           Pseudomonas Aeruginosa
          Length = 302

 Score = 33.9 bits (76), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 40/154 (25%), Positives = 65/154 (42%), Gaps = 19/154 (12%)

Query: 201 VVHMEPSLDVFVG----SGLIDMYLKCGCNGIESSIQIGKALVTMYAEGGSTQKADLAFE 256
           V  M  S +VF G     G+    L     G E++++ G   V ++A          A E
Sbjct: 58  VPQMAGSAEVFAGIRQRPGVTYAALAPNLKGFEAALESGVKEVAVFA---------AASE 108

Query: 257 LMSRRNMISWMVLISAFSQAGVLEKPRFFFF----FVSLLSGCSHSGPVTKGKHYFTAMA 312
             S+RN I+  +  S      VLE  R        ++S + GC + G V   +  + A  
Sbjct: 109 AFSQRN-INCSIKDSLERFVPVLEAARQHQVRVRGYISCVLGCPYDGDVDPRQVAWVARE 167

Query: 313 KFTYTCYFVCMVDLLGLSGLLGEAKKLIDEMPSK 346
                CY V + D +G+ G  G  ++LI+ + S+
Sbjct: 168 LQQMGCYEVSLGDTIGV-GTAGATRRLIEAVASE 200


>pdb|2QLU|A Chain A, Crystal Structure Of Activin Receptor Type Ii Kinase
           Domain From Human
          Length = 314

 Score = 33.1 bits (74), Expect = 0.29,   Method: Compositional matrix adjust.
 Identities = 20/71 (28%), Positives = 30/71 (42%), Gaps = 1/71 (1%)

Query: 121 WKFGIIRLLIMFQKMPERDLVSWNTMISILTRHGFGFETLCTFIELWNHGFGLSSMLY-A 179
           WK  ++   +  +  P +D  SW +   I +  G   E L  FI     G  L   L+  
Sbjct: 32  WKAQLMNDFVAVKIFPLQDKQSWQSEREIFSTPGMKHENLLQFIAAEKRGSNLEVELWLI 91

Query: 180 TAFSARASVYD 190
           TAF  + S+ D
Sbjct: 92  TAFHDKGSLTD 102


>pdb|3IOY|A Chain A, Structure Of Putative Short-Chain Dehydrogenase
           (Saro_0793) From Novosphingobium Aromaticivorans
 pdb|3IOY|B Chain B, Structure Of Putative Short-Chain Dehydrogenase
           (Saro_0793) From Novosphingobium Aromaticivorans
          Length = 319

 Score = 28.1 bits (61), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 3/53 (5%)

Query: 212 VGSGLIDMYLKCGCNGIESSIQ---IGKALVTMYAEGGSTQKADLAFELMSRR 261
           VG GL+   L  GC    + I+   I KAL T+ AEG   +   +  ++ SR 
Sbjct: 20  VGIGLVRQLLNQGCKVAIADIRQDSIDKALATLEAEGSGPEVMGVQLDVASRE 72


  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
   0.328    0.140    0.444 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,911,407
Number of Sequences: 62578
Number of extensions: 428788
Number of successful extensions: 732
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 732
Number of HSP's gapped (non-prelim): 5
length of query: 385
length of database: 14,973,337
effective HSP length: 101
effective length of query: 284
effective length of database: 8,652,959
effective search space: 2457440356
effective search space used: 2457440356
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 52 (24.6 bits)