BLASTP 2.2.18 [Mar-02-2008]


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= 0052.0002.p
         (255 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA lig...   224   7e-60
gi|300313986|ref|YP_003778078.1| acyl-CoA synthetase/AMP-acid li...    70   2e-13

>gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA ligase
           [Herbaspirillum seropedicae SmR1]
          Length = 545

 Score =  224 bits (570), Expect = 7e-60,   Method: Compositional matrix adjust.
 Identities = 107/133 (80%), Positives = 118/133 (88%), Gaps = 3/133 (2%)

Query: 6   IDRTPEAYGYPLLIKQLLHSSMATAPAQEIVYGIDNQRRHTYADLNVRIQRLGNMLRELG 65
           I +TP AYGYPLLIKQLLHS++ATA  QEI+YG   QRR +YA    R+QRL N L+E+G
Sbjct: 5   IHQTPSAYGYPLLIKQLLHSALATASGQEIIYG---QRRLSYAGFYERVQRLANALKEMG 61

Query: 66  LQPGNTVAVMDWDSHRYLECFFAVPMLGCVLQTVNVRLSPEQIAYTLNHAQADVLLVNSD 125
           LQPGNTVAVMDWDS+RYLECFFAVPM+GCVLQTVNVRLSPEQIAYTLNHAQADVLLVNSD
Sbjct: 62  LQPGNTVAVMDWDSNRYLECFFAVPMMGCVLQTVNVRLSPEQIAYTLNHAQADVLLVNSD 121

Query: 126 FLPVLKQIRGELN 138
           FLP+LKQIRGEL 
Sbjct: 122 FLPLLKQIRGELT 134


>gi|300313986|ref|YP_003778078.1| acyl-CoA synthetase/AMP-acid
           ligase II protein [Herbaspirillum seropedicae SmR1]
          Length = 546

 Score = 70.1 bits (170), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 44/136 (32%), Positives = 69/136 (50%), Gaps = 12/136 (8%)

Query: 36  VYG-----IDNQRRHTYADLNVRIQRLGNMLRELGLQPGNTVAVMDWDSHRYLECFFAVP 90
           VYG     I    R  +     R +RL + L+ LG+   +TV+ M  ++   +E  F VP
Sbjct: 30  VYGKRTAIIHGALRQDWDQTYRRTRRLASALQGLGVGKNDTVSAMLPNTPAMVEAHFGVP 89

Query: 91  MLGCVLQTVNVRLSPEQIAYTLNHAQADVLLVNSDFLPVLKQIRGELNINILMELFMPSR 150
           M G VL  +N+RL  E I + L H +A VLL++S+F  + +Q+R +L    ++E+F    
Sbjct: 90  MAGAVLNALNIRLDAESIVFMLRHGEAKVLLIDSEFAALAQQLRTQLPALKIVEVFDELG 149

Query: 151 PGAGASARPPASRRRL 166
           P       PP +  R 
Sbjct: 150 P-------PPVAGERF 158


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.323    0.137    0.418 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 781,234
Number of extensions: 29318
Number of successful extensions: 86
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 85
Number of HSP's successfully gapped: 2
Length of query: 255
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 172
Effective length of database: 1,226,865
Effective search space: 211020780
Effective search space used: 211020780
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 129 (54.3 bits)