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= 0004.0085.p
         (161 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...   259   7e-71
gi|300311177|ref|YP_003775269.1| transcription regulator protein...   144   4e-36

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

 Score =  259 bits (662), Expect = 7e-71,   Method: Compositional matrix adjust.
 Identities = 129/158 (81%), Positives = 141/158 (89%)

Query: 4   MDKTHTTNLPDALIDEALLLDNQLCFAMYSASLAMTKAYKKILAPLEITYPQYLVMLVLW 63
           MD T    L + LID+ALLLD+QLCFAMYSASLAMTKAYKK+LAPL+ITYPQYLVM+VLW
Sbjct: 1   MDNTQPPLLTEELIDQALLLDHQLCFAMYSASLAMTKAYKKLLAPLDITYPQYLVMMVLW 60

Query: 64  EKDGVTVSELGTRLFLDSGTLTPLLKRMESMGLLHRNRDAGDERRVVVSLSDGGRALREK 123
           EKD VTVSELG RLFLDSGTLTPLLKRME+MGLLHR RDA DERRV+VSL+  GRALREK
Sbjct: 61  EKDQVTVSELGGRLFLDSGTLTPLLKRMEAMGLLHRTRDAEDERRVLVSLTPAGRALREK 120

Query: 124 AKAVPQQMSCMLPALDQIKALVVELKQVRKGLIDAEDE 161
           AK VP QMSCMLP+LDQ+K LVVELKQVRKGL DAED+
Sbjct: 121 AKTVPLQMSCMLPSLDQVKNLVVELKQVRKGLQDAEDK 158


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

 Score =  144 bits (363), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 76/137 (55%), Positives = 99/137 (72%), Gaps = 1/137 (0%)

Query: 20  ALLLDNQLCFAMYSASLAMTKAYKKILAPLEITYPQYLVMLVLWEKDGVTVSELGTRLFL 79
           A LLD QLCFA+YS SL+M+K Y+K+L  L ITY QYLV++VLWE+D +TVSE+G RL L
Sbjct: 11  APLLDAQLCFALYSTSLSMSKLYRKLLRDLGITYSQYLVLMVLWEQDQLTVSEIGERLVL 70

Query: 80  DSGTLTPLLKRMESMGLLHRNRDAGDERRVVVSLSDGGRALREKAKAVPQQ-MSCMLPAL 138
           DS TLTPLLKRME+ GL+ R R A DER+VV+SL+  G  LREKA  +P++ +       
Sbjct: 71  DSATLTPLLKRMEAQGLVTRERAASDERQVVISLTAEGDTLREKAVELPREVLRATESTA 130

Query: 139 DQIKALVVELKQVRKGL 155
            ++ A+  EL Q+R  L
Sbjct: 131 AELAAIKEELMQLRARL 147


  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    0.377 

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: 465,359
Number of extensions: 17127
Number of successful extensions: 57
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 58
Number of HSP's successfully gapped: 2
Length of query: 161
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 83
Effective length of database: 1,250,540
Effective search space: 103794820
Effective search space used: 103794820
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)