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= 028608
         (206 letters)

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

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



>pdb|2ZF5|O Chain O, Crystal Structure Of Highly Thermostable Glycerol Kinase
           From A Hyperthermophilic Archaeon
 pdb|2ZF5|Y Chain Y, Crystal Structure Of Highly Thermostable Glycerol Kinase
           From A Hyperthermophilic Archaeon
          Length = 497

 Score = 28.9 bits (63), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 18/66 (27%)

Query: 58  AIQGATADP-------LTSKKE----YDKDPSPENWKIKMLYDGDCPLCMREVNMLKERN 106
           AIQ A  +P       +T+++E    +DKD  P       LY+     C R   M++E  
Sbjct: 62  AIQSARIEPNQIAAIGVTNQRETTLVWDKDGKP-------LYNAIVWQCRRTAEMVEEIK 114

Query: 107 KQYGTI 112
           ++YGT+
Sbjct: 115 REYGTM 120


>pdb|1JHB|A Chain A, Human Glutaredoxin In Fully Reduced Form, Nmr, 20
           Structures
          Length = 106

 Score = 27.7 bits (60), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 12/43 (27%), Positives = 23/43 (53%)

Query: 83  KIKMLYDGDCPLCMREVNMLKERNKQYGTIKFVDISSDEYSIE 125
           K+ +     CP C R   +L +   + G ++FVDI++  ++ E
Sbjct: 14  KVVVFIKPTCPYCRRAQEILSQLPIKQGLLEFVDITATNHTNE 56


>pdb|3GB0|A Chain A, Crystal Structure Of Aminopeptidase Pept (Np_980509.1)
           From Bacillus Cereus Atcc 10987 At 2.04 A Resolution
          Length = 373

 Score = 27.7 bits (60), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 16/51 (31%), Positives = 29/51 (56%), Gaps = 1/51 (1%)

Query: 99  VNMLKERNKQYGTIKFVDISSDEYSIEENQGLDYKTVMGSI-HAIVSDGTV 148
           + +LKE+N  +GTI+F+    +E  +   + LD + +     +A+ SDG V
Sbjct: 120 IRVLKEKNIPHGTIEFIITVGEESGLVGAKALDRERITAKYGYALDSDGKV 170


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

 Score = 26.6 bits (57), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 1/40 (2%)

Query: 71  KEYDKDPSPENWKIKMLYDGDCPLCMREVNMLKERNKQYG 110
           K+Y     PE+W   +  + D PL  RE  +LKE  K++G
Sbjct: 735 KKYLGGKEPEDWWKFVRTEADLPLATREA-LLKELEKEHG 773


  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
   0.321    0.135    0.413 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,521,941
Number of Sequences: 62578
Number of extensions: 260863
Number of successful extensions: 593
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 592
Number of HSP's gapped (non-prelim): 8
length of query: 206
length of database: 14,973,337
effective HSP length: 94
effective length of query: 112
effective length of database: 9,091,005
effective search space: 1018192560
effective search space used: 1018192560
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: 49 (23.5 bits)