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= 043261
         (233 letters)

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

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



>pdb|1WH7|A Chain A, Solution Structure Of Homeobox Domain Of Arabidopsis
           Thaliana Hypothetical Protein F22k18.140
          Length = 80

 Score =  109 bits (273), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 48/60 (80%), Positives = 55/60 (91%)

Query: 169 TKKRHRTKFTAEQKEKMLGFAEQLGWRIQKHDEASVEQFCAETGVKRHVLKVWMHNNKHT 228
           T KR RTKFTAEQKEKML FAE+LGWRIQKHD+ +VEQFCAETGV+R VLK+WMHNNK++
Sbjct: 16  TTKRFRTKFTAEQKEKMLAFAERLGWRIQKHDDVAVEQFCAETGVRRQVLKIWMHNNKNS 75


>pdb|1WH5|A Chain A, Solution Structure Of Homeobox Domain Of
           Arabidopsisthaliana Zinc Finger Homeobox Family Protein
          Length = 80

 Score = 97.4 bits (241), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 40/60 (66%), Positives = 51/60 (85%)

Query: 169 TKKRHRTKFTAEQKEKMLGFAEQLGWRIQKHDEASVEQFCAETGVKRHVLKVWMHNNKHT 228
            +KRHRTKFTAEQKE+ML  AE++GWRIQ+ D+  +++FC ETGV R VLKVW+HNNKH+
Sbjct: 16  IRKRHRTKFTAEQKERMLALAERIGWRIQRQDDEVIQRFCQETGVPRQVLKVWLHNNKHS 75


>pdb|2C9H|A Chain A, Structure Of Mitochondrial Beta-Ketoacyl Synthase
          Length = 444

 Score = 29.6 bits (65), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 26/52 (50%), Gaps = 4/52 (7%)

Query: 40  AAARKSIRYRECLKNHAVS----IGGHAVDGCGEFMAAGDEGTLESLKCAAC 87
           AA + SIRY+    NHAVS     G HAV     F+A GD   + +    +C
Sbjct: 173 AAGQVSIRYKLKGPNHAVSTAXTTGAHAVGDSFRFIAHGDADVMVAGGTDSC 224


>pdb|2IWY|A Chain A, Human Mitochondrial Beta-ketoacyl Acp Synthase
 pdb|2IWY|B Chain B, Human Mitochondrial Beta-ketoacyl Acp Synthase
 pdb|2IWZ|A Chain A, Human Mitochondrial Beta-Ketoacyl Acp Synthase Complexed
           With Hexanoic Acid
 pdb|2IWZ|B Chain B, Human Mitochondrial Beta-Ketoacyl Acp Synthase Complexed
           With Hexanoic Acid
          Length = 438

 Score = 29.3 bits (64), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 26/52 (50%), Gaps = 4/52 (7%)

Query: 40  AAARKSIRYRECLKNHAVS----IGGHAVDGCGEFMAAGDEGTLESLKCAAC 87
           AA + SIRY+    NHAVS     G HAV     F+A GD   + +    +C
Sbjct: 167 AAGQVSIRYKLKGPNHAVSTACTTGAHAVGDSFRFIAHGDADVMVAGGTDSC 218


>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
           Protein Lhx9
          Length = 80

 Score = 28.1 bits (61), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 6/55 (10%)

Query: 171 KRHRTKFTAEQKEKMLGFAEQLGWRIQKH-DEASVEQFCAETGVKRHVLKVWMHN 224
           KR RT F   Q   M  +     + I  + D   ++Q   +TG+ + VL+VW  N
Sbjct: 8   KRMRTSFKHHQLRTMKSY-----FAINHNPDAKDLKQLAQKTGLTKRVLQVWFQN 57


  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
   0.314    0.127    0.385 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,794,704
Number of Sequences: 62578
Number of extensions: 191600
Number of successful extensions: 330
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 328
Number of HSP's gapped (non-prelim): 6
length of query: 233
length of database: 14,973,337
effective HSP length: 96
effective length of query: 137
effective length of database: 8,965,849
effective search space: 1228321313
effective search space used: 1228321313
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)