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= 0010.0018.p
         (332 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...   473   e-135

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

 Score =  473 bits (1218), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 236/306 (77%), Positives = 262/306 (85%), Gaps = 1/306 (0%)

Query: 25  RPPRAPRVPVHGVLLLDKPVGWSSNDALIKAKRLLNALKAGHTGTLDPFATGLLPLCFGE 84
           R PR PRVPVHGVLLLDKPVG SSNDALI+AKR+LNA KAGHTGTLDPFATGLLPLCFGE
Sbjct: 19  RTPRLPRVPVHGVLLLDKPVGLSSNDALIRAKRMLNAPKAGHTGTLDPFATGLLPLCFGE 78

Query: 85  ATKFSQDLLEADKTYEAVVHFGIVTSTGDTEGEVLSTKAVDVTPEQIEAVLEKFRGPINQ 144
           ATKFSQDLLEADKTYEAVVH G+ T TGDTEG+VLS + V+V+ EQIEA + +FRGPI+Q
Sbjct: 79  ATKFSQDLLEADKTYEAVVHLGVRTDTGDTEGQVLSERPVEVSVEQIEAAMAQFRGPISQ 138

Query: 145 VPPMHSALKRDGKPLYEYARAGITLEREARPVTIHQLELLSYEAPFLRIRVLCSKGTYIR 204
           VPPMHSALKRDGKPLYEYARAGITLEREAR VTIH LELL+Y+AP LRIRV CSKGTYIR
Sbjct: 139 VPPMHSALKRDGKPLYEYARAGITLEREARNVTIHALELLNYQAPMLRIRVTCSKGTYIR 198

Query: 205 VLGEDIGAALGCGAHLQQLRRTGVGALTLDGSVTLDEFIAL-EDGQRTQALLPVDGLLRT 263
           VLGEDIG  LGCGAHL  LRR GVG LTL+G+VTL+   A  E   R   LLPVDGLLR+
Sbjct: 199 VLGEDIGEVLGCGAHLNALRRIGVGPLTLEGAVTLESVDAAGELEARKALLLPVDGLLRS 258

Query: 264 FPAVMLTDVLTQRFLHGQRLALGKEGIALPAESGRARVYQESSGRLLGTGLMQEFGILAP 323
           FPAV L+D L +RFLHGQRL LGKEG+A+P ++GR RVY+ S   LLGTGL+QE+ ILAP
Sbjct: 259 FPAVQLSDELARRFLHGQRLPLGKEGVAVPQQTGRVRVYRSSDAALLGTGLLQEYAILAP 318

Query: 324 ERLIST 329
           ERL+ST
Sbjct: 319 ERLVST 324


  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
   0.320    0.138    0.397 

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: 1,011,561
Number of extensions: 43011
Number of successful extensions: 126
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 124
Number of HSP's successfully gapped: 1
Length of query: 332
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 246
Effective length of database: 1,212,660
Effective search space: 298314360
Effective search space used: 298314360
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 (21.8 bits)
S2: 131 (55.1 bits)