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= 0005.0143.p
         (287 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312097|ref|YP_003776189.1| lysyl-tRNA synthetase [Herbaspi...   382   e-107

>gi|300312097|ref|YP_003776189.1| lysyl-tRNA synthetase
           [Herbaspirillum seropedicae SmR1]
          Length = 513

 Score =  382 bits (980), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 189/229 (82%), Positives = 203/229 (88%), Gaps = 3/229 (1%)

Query: 1   MTTQNDNAAQPQQPPVDENAIIAERRAKLNAIREQGIAFPNDFRPEHNAAALHAQYDELD 60
           MTTQN  AAQP     DEN+IIAERRAKL AIREQG+AFPNDFRP + AA LHA+YD  +
Sbjct: 1   MTTQNTPAAQP---AADENSIIAERRAKLAAIREQGVAFPNDFRPANQAADLHAKYDGFE 57

Query: 61  NEALEANPVKVSIAGRMMLKRVMGKASFATLQDASGLRADGRMQLYVTNDVTGEAAHAAF 120
           NEALEA PV V++AGRMMLKRVMGKA+FATLQDASG+RADGR+QLY+T DVTGE A AAF
Sbjct: 58  NEALEAEPVTVTVAGRMMLKRVMGKAAFATLQDASGVRADGRIQLYITRDVTGEEAMAAF 117

Query: 121 KHYDLGDILGAEGTLFKTKTGELSVKVTGLRLITKSLRPLPDKFHGLSDQETKYRQRYVD 180
           KHYDLGDILGAEGTLFKTKTGELSVKVT L+LITKSLRPLPDKFHGL+DQE KYRQRYVD
Sbjct: 118 KHYDLGDILGAEGTLFKTKTGELSVKVTKLKLITKSLRPLPDKFHGLADQEMKYRQRYVD 177

Query: 181 LIMSEETRRTFKARTAAMSSIRRFMEKNDFMEVETPMLHTIPGGAPQNP 229
           LIMSEETRRTFKARTAAMSSIRRFME + FMEVETPMLH IPGGA   P
Sbjct: 178 LIMSEETRRTFKARTAAMSSIRRFMETHGFMEVETPMLHPIPGGAAAKP 226


  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
   0.317    0.131    0.377 

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: 882,949
Number of extensions: 36943
Number of successful extensions: 107
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 107
Number of HSP's successfully gapped: 1
Length of query: 287
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 203
Effective length of database: 1,222,130
Effective search space: 248092390
Effective search space used: 248092390
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: 130 (54.7 bits)