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= 0001.3029.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|300312365|ref|YP_003776457.1| transcription regulator protein...   249   5e-68
gi|300311177|ref|YP_003775269.1| transcription regulator protein...   140   4e-35

>gi|300312365|ref|YP_003776457.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 158

 Score =  249 bits (637), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 123/156 (78%), Positives = 140/156 (89%)

Query: 1   MDKTHTTTLPDALIDEALLLDNQLCFAMYSASLAMTKAYKKILAPLEITYPQYLVMLVLW 60
           MD T    L + LID+ALLLD+QLCFAMYSASLAMTKAYKK+LAPL+ITYPQYLVM+VLW
Sbjct: 1   MDNTQPPLLTEELIDQALLLDHQLCFAMYSASLAMTKAYKKLLAPLDITYPQYLVMMVLW 60

Query: 61  ERDDVTVSELGSRLFLDSGTLTPLLKRMESMGLLHRKRDAGDERRVVVSLSDAGRALRQQ 120
           E+D VTVSELG RLFLDSGTLTPLLKRME+MGLLHR RDA DERRV+VSL+ AGRALR++
Sbjct: 61  EKDQVTVSELGGRLFLDSGTLTPLLKRMEAMGLLHRTRDAEDERRVLVSLTPAGRALREK 120

Query: 121 ARTVPQQMSCMLPALEQVRQLVGELKQVRKGLLEAE 156
           A+TVP QMSCMLP+L+QV+ LV ELKQVRKGL +AE
Sbjct: 121 AKTVPLQMSCMLPSLDQVKNLVVELKQVRKGLQDAE 156


>gi|300311177|ref|YP_003775269.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 153

 Score =  140 bits (354), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 68/112 (60%), Positives = 90/112 (80%)

Query: 17  ALLLDNQLCFAMYSASLAMTKAYKKILAPLEITYPQYLVMLVLWERDDVTVSELGSRLFL 76
           A LLD QLCFA+YS SL+M+K Y+K+L  L ITY QYLV++VLWE+D +TVSE+G RL L
Sbjct: 11  APLLDAQLCFALYSTSLSMSKLYRKLLRDLGITYSQYLVLMVLWEQDQLTVSEIGERLVL 70

Query: 77  DSGTLTPLLKRMESMGLLHRKRDAGDERRVVVSLSDAGRALRQQARTVPQQM 128
           DS TLTPLLKRME+ GL+ R+R A DER+VV+SL+  G  LR++A  +P+++
Sbjct: 71  DSATLTPLLKRMEAQGLVTRERAASDERQVVISLTAEGDTLREKAVELPREV 122


  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
   0.320    0.134    0.373 

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: 450,708
Number of extensions: 16594
Number of successful extensions: 83
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 83
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 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 127 (53.5 bits)