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= 002110
         (965 letters)

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

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



>pdb|2IFY|A Chain A, Structure Of Bacillus Anthracis Cofactor-Independent
           Phosphoglucerate Mutase
          Length = 508

 Score = 32.0 bits (71), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 39/153 (25%), Positives = 65/153 (42%), Gaps = 28/153 (18%)

Query: 219 LLPSLYEEDWDVLIAHFLGVDHAGHILGVDSVPMIEKLEQYNEILDKVIEVLDNQSGPGG 278
           L+  +  +  DV+I +F   D  GH   ++  P I+ +E  +E L KV+E +        
Sbjct: 381 LVNEIENDKHDVIILNFANCDMVGHSGMME--PTIKAVEATDECLGKVVEAI-------- 430

Query: 279 LHENTFLLVMGDHGQTINGDHGGGSAEEVETSVFAMSFKKPPSTMPSEFDTSSCEMDLDQ 338
           L ++   L+  DHG   N D      EE+ +    M+     +T P  F  +  +++L +
Sbjct: 431 LAKDGVALITADHG---NAD------EELTSEGEPMTAH---TTNPVPFIVTKNDVELRE 478

Query: 339 KKTCISSFQQLDFAATVSALLGVPFPFGSIGRV 371
                      D A T+  LLGV  P    G+ 
Sbjct: 479 DGIL------GDIAPTMLTLLGVEQPKEMTGKT 505


>pdb|1JSS|A Chain A, Crystal Structure Of The Mus Musculus
           Cholesterol-Regulated Start Protein 4 (Stard4).
 pdb|1JSS|B Chain B, Crystal Structure Of The Mus Musculus
           Cholesterol-Regulated Start Protein 4 (Stard4)
          Length = 224

 Score = 32.0 bits (71), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 29/115 (25%), Positives = 45/115 (39%), Gaps = 10/115 (8%)

Query: 128 IADPPTTSLQRLKGLTTGGLPTFIDVGNSFGAPAILEDNLI--HQLASNGKRVVMMGDDT 185
           +ADP +   Q  + +   GL     +         L++ LI  H +  +  RV     D 
Sbjct: 1   MADPESPWSQIGRKIKLEGLSDVASISTK------LQNTLIQYHSIEEDEWRVAKKAKDV 54

Query: 186 WVQLFPHHFKKSYPYPSFNVKDLHTVDNGCIEHLLPSLYEEDWDVLIAHFLGVDH 240
            V   P      Y Y +  V D   V N  I+H+ P  +  DWD L+     ++H
Sbjct: 55  TVWRKPSEEFNGYLYKAQGVMD--DVVNNVIDHIRPGPWRLDWDRLMTSLDVLEH 107


>pdb|3A04|A Chain A, Crystal Structure Of Tryptophanyl-Trna Synthetase From
           Hyperthermophilic Archaeon, Aeropyrum Pernix K1
 pdb|3A05|A Chain A, Crystal Structure Of Tryptophanyl-Trna Synthetase From
           Hyperthermophilic Archaeon, Aeropyrum Pernix K1 Complex
           With Tryptophan
          Length = 372

 Score = 31.6 bits (70), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 26/115 (22%), Positives = 52/115 (45%), Gaps = 15/115 (13%)

Query: 65  NQSNSCCWTRPAVDRLVIIVLDALRFDFVAPSTFFKEPKPWMDKLQVLQKLASTKRSARI 124
           +Q      TR   DR+  +V      +   P++ + + +P +D     +K++S++  + I
Sbjct: 217 DQDPHLRLTRDLADRMAGVV------ELERPASTYHKLQPGLDG----RKMSSSRPDSTI 266

Query: 125 FKAIADPPTTSLQRLKGLTTGGLPTFIDVGNSFGAP---AILEDNLIHQLASNGK 176
           F  + DPP  +  +L    TGG  T  +     G P   ++   +L H +  +G+
Sbjct: 267 F--LTDPPEVARNKLFRALTGGRATAEEQRRLGGVPEVCSVYHMDLYHLMPDDGE 319


  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
   0.325    0.139    0.432 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,254,398
Number of Sequences: 62578
Number of extensions: 1101248
Number of successful extensions: 2741
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 2741
Number of HSP's gapped (non-prelim): 17
length of query: 965
length of database: 14,973,337
effective HSP length: 108
effective length of query: 857
effective length of database: 8,214,913
effective search space: 7040180441
effective search space used: 7040180441
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 56 (26.2 bits)