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= 0007.0114.p
         (158 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310712|ref|YP_003774804.1| transcription elongation factor...   307   3e-85
gi|300311440|ref|YP_003775532.1| transcription elongation/transc...   108   3e-25

>gi|300310712|ref|YP_003774804.1| transcription elongation factor
           protein [Herbaspirillum seropedicae SmR1]
          Length = 158

 Score =  307 bits (786), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 156/158 (98%), Positives = 158/158 (100%)

Query: 1   MSTVPLTKRGAELLKEELHRLKTKERPDVINAIAEARAQGDLSENAEYESAKERQAFIEG 60
           MSTVPLTKRGAELLKEELHRLKTK+RP+VINAIAEARAQGDLSENAEYESAKERQAFIEG
Sbjct: 1   MSTVPLTKRGAELLKEELHRLKTKDRPEVINAIAEARAQGDLSENAEYESAKERQAFIEG 60

Query: 61  RIADLEGKLGAAQIVDPAELNAEGRVVFASTVDLENLDSGEKVTYQIVGLDEADIKESKV 120
           RIADLEGKLGAAQIVDPAELNAEGRVVFASTVDLENLDSGEKVTYQIVGLDEADIKESKV
Sbjct: 61  RIADLEGKLGAAQIVDPAELNAEGRVVFASTVDLENLDSGEKVTYQIVGLDEADIKESKV 120

Query: 121 SVTSPIARALIGKSAGDVVAVEAPSGLKEYEILEVRYV 158
           SVTSPIARALIGKSAGDVVAVEAPSGLKEYEILEVRYV
Sbjct: 121 SVTSPIARALIGKSAGDVVAVEAPSGLKEYEILEVRYV 158


>gi|300311440|ref|YP_003775532.1| transcription
           elongation/transcript cleavage factor protein
           [Herbaspirillum seropedicae SmR1]
          Length = 185

 Score =  108 bits (269), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 60/152 (39%), Positives = 92/152 (60%), Gaps = 1/152 (0%)

Query: 6   LTKRGAELLKEELHRLKTKERPDVINAIAEARAQGDLSENAEYESAKERQAFIEGRIADL 65
           +T +G + +K+EL  L  +ERP+V+  ++ A + GD SEN +Y   K+R   I+ RI  L
Sbjct: 31  MTPQGHQRIKDELLHLIDEERPEVVRVVSWAASNGDRSENGDYLYGKKRLREIDRRIRFL 90

Query: 66  EGKLGAAQIVDPAELNAEGRVVFASTVDLENLDSGEKVTYQIVGLDEADIKESKVSVTSP 125
             +L  A++VDP+  +   ++ F +TV  EN   GE  T  IVG+DE D  + ++S  SP
Sbjct: 91  TKRLDNAEVVDPSVHHGSDQIFFGATVTYEN-QRGEAHTVTIVGIDELDPLKGRISWISP 149

Query: 126 IARALIGKSAGDVVAVEAPSGLKEYEILEVRY 157
           +ARAL     GD V ++ P+GL++  ILEV Y
Sbjct: 150 VARALTKAREGDEVVLQTPAGLEQLTILEVSY 181


  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
   0.310    0.129    0.336 

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: 444,669
Number of extensions: 16762
Number of successful extensions: 76
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 75
Number of HSP's successfully gapped: 2
Length of query: 158
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 80
Effective length of database: 1,250,540
Effective search space: 100043200
Effective search space used: 100043200
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 127 (53.5 bits)