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= 0002.0715.p
         (120 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309900|ref|YP_003773992.1| transcription regulator protein...    85   2e-18
gi|300309909|ref|YP_003774001.1| transcription regulator protein...    80   4e-17
gi|300310870|ref|YP_003774962.1| transcription regulator protein...    69   2e-13

>gi|300309900|ref|YP_003773992.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 132

 Score = 84.7 bits (208), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 43/93 (46%), Positives = 57/93 (61%)

Query: 15  LDLVGGKWKSLVLYRLSAGTLRFGQLQRSIPEVTQRMLTLQLRELERDGLVRRVVYAEVP 74
           LD VG KW   ++  L+ GT RF +L+R I  ++QRMLTL LR LERDGL+ R +Y  +P
Sbjct: 27  LDRVGDKWSLYIIATLANGTRRFNELKREIDGISQRMLTLTLRGLERDGLITRTIYPTIP 86

Query: 75  PRVEYSLTPPGRSLTPVLEQLGGWFHQNVSALQ 107
           PRV+Y LT  G +L   +  L  W   N  A+ 
Sbjct: 87  PRVDYELTALGMTLWGPVMSLVKWADANKLAIS 119


>gi|300309909|ref|YP_003774001.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 124

 Score = 80.5 bits (197), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 43/90 (47%), Positives = 55/90 (61%)

Query: 9   CPVDMALDLVGGKWKSLVLYRLSAGTLRFGQLQRSIPEVTQRMLTLQLRELERDGLVRRV 68
           CP    L L+  KW  LVL+ LS  T R  +L+R I  V+++ML   LR LE+ GLV R+
Sbjct: 20  CPARDVLALLAEKWTLLVLHALSEKTYRTAELRRRIGGVSEKMLIQALRRLEQHGLVSRM 79

Query: 69  VYAEVPPRVEYSLTPPGRSLTPVLEQLGGW 98
            Y  VPP VEYSLTP G SL+ ++  L  W
Sbjct: 80  SYQTVPPHVEYSLTPLGVSLSSIVCALDTW 109


>gi|300310870|ref|YP_003774962.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 112

 Score = 68.6 bits (166), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 42/96 (43%), Positives = 61/96 (63%), Gaps = 3/96 (3%)

Query: 9   CPVDMALDLVGGKWKSLVLYRLSAGTLRFGQLQRSIPEVTQRMLTLQLRELERDGLVRRV 68
           C V+ ++ L+GG+W+ L++  L  G  RF  L+R +P ++QRMLTL LR LE  GLV+R 
Sbjct: 8   CSVEESMRLLGGRWRLLLVSYLLEGPKRFNDLRRDVPGISQRMLTLDLRALENAGLVKRT 67

Query: 69  VYAEVPPRVEYSLTPPGRSLTP---VLEQLGGWFHQ 101
           VY   P RVEY +T  G+ L P   V+++ G W  +
Sbjct: 68  VYPTSPVRVEYEVTEDGKRLEPVVKVMKEFGLWLKE 103


  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
   0.319    0.136    0.404 

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: 403,669
Number of extensions: 15415
Number of successful extensions: 48
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 49
Number of HSP's successfully gapped: 3
Length of query: 120
Length of database: 1,619,870
Length adjustment: 74
Effective length of query: 46
Effective length of database: 1,269,480
Effective search space: 58396080
Effective search space used: 58396080
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: 125 (52.8 bits)