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= 031998
         (149 letters)

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

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



>pdb|4AX2|A Chain A, New Type Vi-Secreted Toxins And Self-Resistance Proteins
           In Serratia Marcescens
          Length = 142

 Score = 30.0 bits (66), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 1/82 (1%)

Query: 24  NAAAQAHLAPVQDHVNFTLQQAYFKCAYECFDRTRKQEEISNCVEHCSVPVVRAQQHFEN 83
           N   Q H+AP+QD V F  Q  Y +   E    +R   ++S+  +  S+   R       
Sbjct: 11  NLYFQGHMAPIQDPVAFIKQMPYHQVVKE-LALSRCLAQVSDSDKAFSLDAARTANAMRE 69

Query: 84  EMAKFQERLNRSLMVCQDKYES 105
            M    E  +  + V  DKY+S
Sbjct: 70  WMPFDIESGDEKINVLIDKYKS 91


>pdb|2W41|A Chain A, Crystal Structure Of Plasmodium Falciparum Glycerol Kinase
           With Adp
 pdb|2W41|B Chain B, Crystal Structure Of Plasmodium Falciparum Glycerol Kinase
           With Adp
          Length = 507

 Score = 28.1 bits (61), Expect = 2.1,   Method: Composition-based stats.
 Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 4/68 (5%)

Query: 85  MAKFQERLNRSLMVCQDKYESAKLQKIGI----EAVNDLESCVNQSIDDNIKTLPPLVER 140
           M      +N  + V +DKY S  ++ IGI    E V   +    + + + I  L   VE 
Sbjct: 57  MTNLYNLMNEGIKVLKDKYTSVIIKCIGITNQRETVIIWDRITGKPLYNAIVWLDTRVEE 116

Query: 141 LKTQFSIK 148
           L T+FS K
Sbjct: 117 LVTEFSAK 124


>pdb|2W40|A Chain A, Crystal Structure Of Plasmodium Falciparum Glycerol Kinase
           With Bound Glycerol
 pdb|2W40|B Chain B, Crystal Structure Of Plasmodium Falciparum Glycerol Kinase
           With Bound Glycerol
 pdb|2W40|C Chain C, Crystal Structure Of Plasmodium Falciparum Glycerol Kinase
           With Bound Glycerol
 pdb|2W40|D Chain D, Crystal Structure Of Plasmodium Falciparum Glycerol Kinase
           With Bound Glycerol
          Length = 503

 Score = 28.1 bits (61), Expect = 2.1,   Method: Composition-based stats.
 Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 4/68 (5%)

Query: 85  MAKFQERLNRSLMVCQDKYESAKLQKIGI----EAVNDLESCVNQSIDDNIKTLPPLVER 140
           M      +N  + V +DKY S  ++ IGI    E V   +    + + + I  L   VE 
Sbjct: 53  MTNLYNLMNEGIKVLKDKYTSVIIKCIGITNQRETVIIWDRITGKPLYNAIVWLDTRVEE 112

Query: 141 LKTQFSIK 148
           L T+FS K
Sbjct: 113 LVTEFSAK 120


>pdb|3R2Q|A Chain A, Crystal Structure Analysis Of Yibf From E. Coli
          Length = 202

 Score = 27.3 bits (59), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 5/59 (8%)

Query: 56  RTRKQEEISNCVEHCSVPVVR-----AQQHFENEMAKFQERLNRSLMVCQDKYESAKLQ 109
           R RK E +++ +    +  VR     A Q  E+E+ + +E++NRSL V +       L+
Sbjct: 89  RVRKIEALADGIMDAGLVSVREQARPAAQQSEDELLRQREKINRSLDVLEGYLVDGTLK 147


>pdb|1QUB|A Chain A, Crystal Structure Of The Glycosylated Five-domain Human
           Beta2- Glycoprotein I Purified From Blood Plasma
          Length = 319

 Score = 26.6 bits (57), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 10/35 (28%), Positives = 18/35 (51%)

Query: 63  ISNCVEHCSVPVVRAQQHFENEMAKFQERLNRSLM 97
           + +C   C VPV +A   ++ E  K QE+    ++
Sbjct: 238 MPSCKASCKVPVKKATVVYQGERVKIQEKFKNGML 272


  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    0.130    0.370 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,739,064
Number of Sequences: 62578
Number of extensions: 123427
Number of successful extensions: 443
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 436
Number of HSP's gapped (non-prelim): 18
length of query: 149
length of database: 14,973,337
effective HSP length: 90
effective length of query: 59
effective length of database: 9,341,317
effective search space: 551137703
effective search space used: 551137703
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: 47 (22.7 bits)