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/690/690 
           3295 sequences; 1,000,347 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134093604|ref|YP_001098679.1| tRNA-specific 2-thiouridylase M...   639   0.0  

>gi|134093604|ref|YP_001098679.1| tRNA-specific 2-thiouridylase MnmA
           [Herminiimonas arsenicoxydans]
          Length = 372

 Score =  639 bits (1647), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 306/372 (82%), Positives = 328/372 (88%), Gaps = 4/372 (1%)

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

Query: 61  DVVGVDIEAVNFASEYKDRVFAEFLREYQAGRTPNPDVLCNAEIKFKAFLDHAMKLGADL 120
           DVVGVDIEAVNFA+EYKDRVFAEFLREY+AGRTPNPDVLCNAEIKFKAFLDHAM LGAD+
Sbjct: 61  DVVGVDIEAVNFAAEYKDRVFAEFLREYEAGRTPNPDVLCNAEIKFKAFLDHAMLLGADM 120

Query: 121 IATGHYARVRQ---GPQ-GDFQLLKALDASKDQSYFLHRLNQEQLSRTIFPLGEIHKTEV 176
           IATGHYARVR+   GP  G  QLLKA+DASKDQSYFLHRLNQ QLS+T+FPLGEI KTEV
Sbjct: 121 IATGHYARVREVTSGPDAGQVQLLKAVDASKDQSYFLHRLNQAQLSKTLFPLGEIRKTEV 180

Query: 177 RKIAEQLQLPNAKKKDSTGICFIGERPFREFLNRYLSYKPGPIKTADGQTVGEHVGLSFY 236
           RKIAEQLQLPNA KKDSTGICFIGERPFREFLNRYLSY+PGP+KT DG  VGEHVGLSFY
Sbjct: 181 RKIAEQLQLPNASKKDSTGICFIGERPFREFLNRYLSYQPGPMKTPDGTIVGEHVGLSFY 240

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

Query: 297 WVAGHAPQRPALSAKTRYRQADVPCGFADAGSTFSLAFDTPQWAVTPGQSAVLYDGEVCL 356
           WVAG AP    ++AKTRYRQADV C         +LAFDTPQWAVTPGQSAVLY G+VCL
Sbjct: 301 WVAGRAPSEELVAAKTRYRQADVACSQHATADNLALAFDTPQWAVTPGQSAVLYQGDVCL 360

Query: 357 GGGIIETGALPD 368
           GGGII    L +
Sbjct: 361 GGGIITASTLTE 372


  Database: BlastDatabases/690/690
    Posted date:  Apr 9, 2011  4:48 AM
  Number of letters in database: 1,000,347
  Number of sequences in database:  3295
  
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: 3295
Number of Hits to DB: 741,159
Number of extensions: 30617
Number of successful extensions: 71
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 70
Number of HSP's successfully gapped: 1
Length of query: 368
Length of database: 1,000,347
Length adjustment: 83
Effective length of query: 285
Effective length of database: 726,862
Effective search space: 207155670
Effective search space used: 207155670
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: 129 (54.3 bits)