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= 011406
         (486 letters)

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

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



>pdb|3CF4|A Chain A, Structure Of The Codh Component Of The M. Barkeri Acds
           Complex
          Length = 807

 Score = 30.8 bits (68), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 31/124 (25%), Positives = 51/124 (41%), Gaps = 16/124 (12%)

Query: 19  QVGDAEPKAEALD--DGCTPGL-----------KENDSQSVQSQNEKQNQSMAAKSFVGT 65
           QV DAE +AE L+   G TPG+              D   +  +  K+N  +      G 
Sbjct: 496 QVSDAEIRAEGLNLVMGTTPGIIAIIGCPNYAGGTKDVYYIAEEFLKRNFIVVT---TGC 552

Query: 66  EMVDGKMVNVVDGLKLYEEVSGNSEVSKLVSLVNDLRTAGKRGQIQGPAYVVSKRPIRGH 125
             +D  M    DG  LYE   G  +   L ++ + +  A   G  +  A + ++R + G+
Sbjct: 553 GAMDIGMFKDADGKTLYERFPGGFQCGGLANIGSCVSNAHITGAAEKVAAIFAQRTLEGN 612

Query: 126 GREV 129
             E+
Sbjct: 613 LAEI 616


>pdb|3B4V|C Chain C, X-Ray Structure Of Activin In Complex With Fstl3
 pdb|3B4V|D Chain D, X-Ray Structure Of Activin In Complex With Fstl3
 pdb|3B4V|G Chain G, X-Ray Structure Of Activin In Complex With Fstl3
 pdb|3B4V|H Chain H, X-Ray Structure Of Activin In Complex With Fstl3
          Length = 237

 Score = 28.9 bits (63), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 20/74 (27%), Positives = 32/74 (43%), Gaps = 13/74 (17%)

Query: 173 QIMTVKPDSCIVDVFNEGD----HSQPHISPSWFGRPVC----ILFLTECDMT-----FG 219
            ++  +P SC+VD           + P   PS  G+ +C    + +++ C M       G
Sbjct: 147 HVVCPRPQSCVVDQTGSAHCVVCRAAPCPVPSSPGQELCGNNNVTYISSCHMRQATCFLG 206

Query: 220 RMIGIDHPGDYRGT 233
           R IG+ H G   GT
Sbjct: 207 RSIGVRHAGSCAGT 220


>pdb|2C2X|A Chain A, Three Dimensional Structure Of Bifunctional
           Methylenetetrahydrofolate Dehydrogenase-Cyclohydrolase
           From Mycobacterium Tuberculosis
 pdb|2C2X|B Chain B, Three Dimensional Structure Of Bifunctional
           Methylenetetrahydrofolate Dehydrogenase-Cyclohydrolase
           From Mycobacterium Tuberculosis
 pdb|2C2Y|A Chain A, Three Dimensional Structure Of Bifunctional
           Methylenetetrahydrofolate Dehydrogenase-Cyclohydrolase
           From Mycobacterium Tuberculosis
          Length = 281

 Score = 28.9 bits (63), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 15/33 (45%), Positives = 21/33 (63%)

Query: 232 GTLRLSVAPGSLLVMQGKSADIAKHAISSIRKQ 264
           GT+ +   PGS   ++GK AD AK  I+SIR+ 
Sbjct: 36  GTILVGDDPGSQAYVRGKHADCAKVGITSIRRD 68


  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
   0.312    0.131    0.375 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,575,050
Number of Sequences: 62578
Number of extensions: 479432
Number of successful extensions: 723
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 722
Number of HSP's gapped (non-prelim): 5
length of query: 486
length of database: 14,973,337
effective HSP length: 103
effective length of query: 383
effective length of database: 8,527,803
effective search space: 3266148549
effective search space used: 3266148549
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (25.0 bits)