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= 0001.0656.p
         (368 letters)

Database: BlastDatabases/707/707 
           3697 sequences; 1,221,021 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|152981022|ref|YP_001352063.1| tRNA (5-methylaminomethyl-2-thi...   634   0.0  

>gi|152981022|ref|YP_001352063.1| tRNA
           (5-methylaminomethyl-2-thiouridylate)-methyltransferase
           [Janthinobacterium sp. Marseille]
          Length = 372

 Score =  634 bits (1636), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 305/371 (82%), Positives = 329/371 (88%), Gaps = 4/371 (1%)

Query: 1   MSKKRVVIGMSGGVDSSVSAWLLKQQGYEVIGLFMKNWEDDDDSEYCSTREDWIDAVSVA 60
           M+KKRVVIGMSGGVDSSVSAWLLK+QGYEVIGLFMKNWEDDDDSEYCSTR+DWIDA SVA
Sbjct: 1   MAKKRVVIGMSGGVDSSVSAWLLKEQGYEVIGLFMKNWEDDDDSEYCSTRQDWIDAASVA 60

Query: 61  DVVGVDIEAVNFASEYKDRVFAEFLREYQAGRTPNPDVLCNAEIKFKAFLDHAMKLGADL 120
           DVVGVDIEAVNFASEYKDRVFAEFLREYQAGRTPNPDVLCNAEIKFKAFLDHAM LGAD+
Sbjct: 61  DVVGVDIEAVNFASEYKDRVFAEFLREYQAGRTPNPDVLCNAEIKFKAFLDHAMLLGADM 120

Query: 121 IATGHYARVRQ---GPQ-GDFQLLKALDASKDQSYFLHRLNQEQLSRTIFPLGEIHKTEV 176
           IATGHYARVR+   GP  G  +LLKA+DASKDQSYFLHRLNQ QL++T+FPLGEI KTEV
Sbjct: 121 IATGHYARVREVTSGPDAGRVELLKAVDASKDQSYFLHRLNQAQLAKTLFPLGEIRKTEV 180

Query: 177 RKIAEQLQLPNAKKKDSTGICFIGERPFREFLNRYLSYKPGPIKTADGQTVGEHVGLSFY 236
           RKIAEQL+LPNA KKDSTGICFIGERPFREFLNRYLSY+PGP+KT +G  VGEHVGLSFY
Sbjct: 181 RKIAEQLKLPNATKKDSTGICFIGERPFREFLNRYLSYQPGPMKTPEGVIVGEHVGLSFY 240

Query: 237 TLGQRKGIGIGGLKAHQNADGHGDAWYVARKDVDNNTLYIVQGHDHPWLLSPTLSAGQVS 296
           TLGQRKGIG+GG+K+H+N DG+ + WYVARKDV  NTLYIVQGHDHPWLLS  LSAGQ+S
Sbjct: 241 TLGQRKGIGLGGMKSHKNTDGNSEPWYVARKDVATNTLYIVQGHDHPWLLSSELSAGQMS 300

Query: 297 WVAGHAPQRPALSAKTRYRQADVPCGFADAGSTFSLAFDTPQWAVTPGQSAVLYDGEVCL 356
           WVAG  P    +SAKTRYRQADV C        FSLAF  PQWAVTPGQSAVLY G+VCL
Sbjct: 301 WVAGSPPSEELVSAKTRYRQADVACSQRSDADGFSLAFAAPQWAVTPGQSAVLYQGDVCL 360

Query: 357 GGGIIETGALP 367
           GGGII T A+P
Sbjct: 361 GGGIINTSAVP 371


  Database: BlastDatabases/707/707
    Posted date:  Apr 13, 2011 12:58 PM
  Number of letters in database: 1,221,021
  Number of sequences in database:  3697
  
Lambda     K      H
   0.318    0.136    0.418 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3697
Number of Hits to DB: 911,090
Number of extensions: 37699
Number of successful extensions: 104
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 103
Number of HSP's successfully gapped: 1
Length of query: 368
Length of database: 1,221,021
Length adjustment: 85
Effective length of query: 283
Effective length of database: 906,776
Effective search space: 256617608
Effective search space used: 256617608
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)