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= 0009.0070.p
         (366 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310029|ref|YP_003774121.1| tRNA (5-methylaminomethyl-2-thi...   669   0.0  

>gi|300310029|ref|YP_003774121.1| tRNA
           (5-methylaminomethyl-2-thiouridylate)-methyltransferase
           [Herbaspirillum seropedicae SmR1]
          Length = 368

 Score =  669 bits (1726), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 319/365 (87%), Positives = 337/365 (92%), Gaps = 2/365 (0%)

Query: 1   MAKKKVVIGMSGGVDSSVSAWLLKEQGYEVIGLFMKNWEDDDDSEYCSTRQDWIDAVSVA 60
           M+KK+VVIGMSGGVDSSVSAWLLKEQGYEVIGLFMKNWEDDDDSEYCSTR+DWIDAVSVA
Sbjct: 1   MSKKRVVIGMSGGVDSSVSAWLLKEQGYEVIGLFMKNWEDDDDSEYCSTREDWIDAVSVA 60

Query: 61  DVVGVDIEAVNFASEYKDRVFAEFLREYQAGRTPNPDVLCNAEIKFKAFLDHAMHLGADL 120
           DVVGVDIEAVNFASEYKDRVFAEFLREYQAGRTPNPDVLCNAEIKFKAFLDHAM LGADL
Sbjct: 61  DVVGVDIEAVNFASEYKDRVFAEFLREYQAGRTPNPDVLCNAEIKFKAFLDHAMKLGADL 120

Query: 121 IATGHYARVRENPVGKFELMKAVDASKDQSYFLHRLNQAQLSKTLFPLGEIHKTEVRRIA 180
           IATGHYARVR+ P G F+L+KA+DASKDQSYFLHRLNQ QLS+T+FPLGEIHKTEVRRIA
Sbjct: 121 IATGHYARVRQGPQGDFQLLKALDASKDQSYFLHRLNQEQLSRTVFPLGEIHKTEVRRIA 180

Query: 181 EQLKLPNATKKDSTGICFIGERPFREFLNRYLSYKPGPMKTPDGDIVGEHVGLSFYTLGQ 240
           EQL+LPNA KKDSTGICFIGERPFREFLNRYLSYKPGP+KT DG  VGEHVGLSFYTLGQ
Sbjct: 181 EQLQLPNAKKKDSTGICFIGERPFREFLNRYLSYKPGPIKTADGQTVGEHVGLSFYTLGQ 240

Query: 241 RKGIGLGGIKAHQNADGNSDAWYVARKDVDTNTLYIVQGHEHPWLLSSQLGASQISWVAG 300
           RKGIG+GG+KAHQNADG+ DAWYVARKDV+ NTLYIVQGH+HPWLLS  L A Q+SWVAG
Sbjct: 241 RKGIGIGGLKAHQNADGHGDAWYVARKDVENNTLYIVQGHDHPWLLSPTLSAGQVSWVAG 300

Query: 301 EAPNMSGAGLSAKTRYRQADVPCSFSDAGGRFDLRFSDPQWAVTPGQSAVLYQGDVCLGG 360
            AP M  A LSAKTRYRQADVPC FSDAG  F L F  PQWAVTPGQSAVLY GDVCLGG
Sbjct: 301 HAPQM--AALSAKTRYRQADVPCGFSDAGASFSLAFDTPQWAVTPGQSAVLYDGDVCLGG 358

Query: 361 GIIES 365
           GIIE+
Sbjct: 359 GIIEN 363


  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
   0.318    0.136    0.413 

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: 1,190,440
Number of extensions: 49487
Number of successful extensions: 117
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 116
Number of HSP's successfully gapped: 1
Length of query: 366
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 280
Effective length of database: 1,212,660
Effective search space: 339544800
Effective search space used: 339544800
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 131 (55.1 bits)