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= 0021.0014.p
         (298 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312896|ref|YP_003776988.1| tRNA pseudouridine synthase B p...   591   e-170

>gi|300312896|ref|YP_003776988.1| tRNA pseudouridine synthase B
           protein [Herbaspirillum seropedicae SmR1]
          Length = 325

 Score =  591 bits (1524), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 297/298 (99%), Positives = 298/298 (100%)

Query: 1   VHGVLLLDKPVGLSSNDALIRAKRMLNAPKAGHTGTLDPFATGLLPLCFGEATKFSQDLL 60
           VHGVLLLDKPVGLSSNDALIRAKRMLNAPKAGHTGTLDPFATGLLPLCFGEATKFSQDLL
Sbjct: 28  VHGVLLLDKPVGLSSNDALIRAKRMLNAPKAGHTGTLDPFATGLLPLCFGEATKFSQDLL 87

Query: 61  EADKTYEAVVHLGVRTDTGDTEGQVLSERPVEVSVEQIEAAMAQFRGPISQVPPMHSALK 120
           EADKTYEAVVHLGVRTDTGDTEGQVLSERPVEVSVEQIEAAMAQFRGPISQVPPMHSALK
Sbjct: 88  EADKTYEAVVHLGVRTDTGDTEGQVLSERPVEVSVEQIEAAMAQFRGPISQVPPMHSALK 147

Query: 121 RDGKPLYEYARAGITLEREARNVTIHALELLDYQAPMLRIRVTCSKGTYIRVLGEDIGEV 180
           RDGKPLYEYARAGITLEREARNVTIHALELL+YQAPMLRIRVTCSKGTYIRVLGEDIGEV
Sbjct: 148 RDGKPLYEYARAGITLEREARNVTIHALELLNYQAPMLRIRVTCSKGTYIRVLGEDIGEV 207

Query: 181 LGCGAHLNALRRIGVGPLTLEGAVTLESVDAAGELEARKALLLPVDGLLRSFPAVQLSDE 240
           LGCGAHLNALRRIGVGPLTLEGAVTLESVDAAGELEARKALLLPVDGLLRSFPAVQLSDE
Sbjct: 208 LGCGAHLNALRRIGVGPLTLEGAVTLESVDAAGELEARKALLLPVDGLLRSFPAVQLSDE 267

Query: 241 LARRFLHGQRLPLGKEGVAVPQQTGRVRVYRSSDAALLGTGLLQEYAILAPERLVSTA 298
           LARRFLHGQRLPLGKEGVAVPQQTGRVRVYRSSDAALLGTGLLQEYAILAPERLVSTA
Sbjct: 268 LARRFLHGQRLPLGKEGVAVPQQTGRVRVYRSSDAALLGTGLLQEYAILAPERLVSTA 325


  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
   0.319    0.137    0.388 

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: 953,593
Number of extensions: 41317
Number of successful extensions: 139
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 139
Number of HSP's successfully gapped: 1
Length of query: 298
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 213
Effective length of database: 1,217,395
Effective search space: 259305135
Effective search space used: 259305135
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 (21.7 bits)
S2: 130 (54.7 bits)