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= 0037.0049.p
         (147 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...    80   5e-17
gi|300309909|ref|YP_003774001.1| transcription regulator protein...    70   5e-14
gi|300310870|ref|YP_003774962.1| transcription regulator protein...    53   1e-08

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

 Score = 80.5 bits (197), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 47/110 (42%), Positives = 64/110 (58%), Gaps = 1/110 (0%)

Query: 30  VRRDVLAHAGSRWALGILHALGVYGTLRHAELKRQLSGVTQRMLTKTLRALERDGLLLRH 89
           V R++L   G +W+L I+  L   GT R  ELKR++ G++QRMLT TLR LERDGL+ R 
Sbjct: 22  VTREILDRVGDKWSLYIIATLA-NGTRRFNELKREIDGISQRMLTLTLRGLERDGLITRT 80

Query: 90  ETDEKPLRVEYELTALGKDLLLRMSPIWTWVVEHAEDFRQARRTFDSQDK 139
                P RV+YELTALG  L   +  +  W   +      AR  FD++ +
Sbjct: 81  IYPTIPPRVDYELTALGMTLWGPVMSLVKWADANKLAISAARAHFDTKSE 130


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

 Score = 70.5 bits (171), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 43/97 (44%), Positives = 56/97 (57%), Gaps = 1/97 (1%)

Query: 28  DGVRRDVLAHAGSRWALGILHALGVYGTLRHAELKRQLSGVTQRMLTKTLRALERDGLLL 87
           D   RDVLA    +W L +LHAL    T R AEL+R++ GV+++ML + LR LE+ GL+ 
Sbjct: 19  DCPARDVLALLAEKWTLLVLHALS-EKTYRTAELRRRIGGVSEKMLIQALRRLEQHGLVS 77

Query: 88  RHETDEKPLRVEYELTALGKDLLLRMSPIWTWVVEHA 124
           R      P  VEY LT LG  L   +  + TWV  HA
Sbjct: 78  RMSYQTVPPHVEYSLTPLGVSLSSIVCALDTWVETHA 114


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

 Score = 53.1 bits (126), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 29/63 (46%), Positives = 39/63 (61%), Gaps = 4/63 (6%)

Query: 54  GTLRHAELKRQLSGVTQRMLTKTLRALERDGLLLRHETDEKPLRVEYELTALGKDLLLRM 113
           G  R  +L+R + G++QRMLT  LRALE  GL+ R      P+RVEYE+T  GK    R+
Sbjct: 32  GPKRFNDLRRDVPGISQRMLTLDLRALENAGLVKRTVYPTSPVRVEYEVTEDGK----RL 87

Query: 114 SPI 116
            P+
Sbjct: 88  EPV 90


  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
   0.322    0.136    0.400 

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: 476,729
Number of extensions: 19611
Number of successful extensions: 46
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 45
Number of HSP's successfully gapped: 3
Length of query: 147
Length of database: 1,619,870
Length adjustment: 77
Effective length of query: 70
Effective length of database: 1,255,275
Effective search space: 87869250
Effective search space used: 87869250
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 (21.9 bits)
S2: 126 (53.1 bits)