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= 0234.0009.p
         (280 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311599|ref|YP_003775691.1| transcription regulator protein...    62   4e-11
gi|300310738|ref|YP_003774830.1| transcription regulator protein...    61   1e-10

>gi|300311599|ref|YP_003775691.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 243

 Score = 62.4 bits (150), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 61/214 (28%), Positives = 89/214 (41%), Gaps = 9/214 (4%)

Query: 61  GADRIQQVLMERVYLR--------DMPPGTEFSEAELAREADASTVSVREFLIGFSRFGL 112
           G DR  + L E V+ +        ++ PG++ SE ELAR    S   +RE +       L
Sbjct: 9   GNDREGETLSEHVFRKIQSAIVQGEIAPGSKISEPELARTYGISRGPLREAIHRLEGQNL 68

Query: 113 IEKKPRGGWRLCAFDLSFAEELADMRQMFEFAAVEHFATLPPSDPAYKELARLISRHERL 172
           + + P  G R+ +  L    EL  +R+  E  A    A    S     EL R++  HE+ 
Sbjct: 69  LVRVPHVGARVVSLTLEGLVELFQIRESLEGMACR-LAAQRMSRAELDELRRVLDTHEKD 127

Query: 173 AAKIETRGSEFPPLDREFHTFLIGLLNNRFAQGFYDIVSFVFHYHYQWDKSDEMDRNKHA 232
            A    RG      D +FH  +I    N+          +     Y+   S    R + A
Sbjct: 128 EAFQAGRGYYQQEGDYDFHYKIIQASGNQILTRILCGELYQLARMYRIQYSATPHRPRQA 187

Query: 233 LQEHLSILRALADCDAPRALSCMKTHLNSSRRTM 266
             EH  IL ALAD D   A   M+ H+ +SRR +
Sbjct: 188 FAEHHRILDALADGDGELADLLMRRHIGASRRNI 221


>gi|300310738|ref|YP_003774830.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 234

 Score = 60.8 bits (146), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 55/205 (26%), Positives = 88/205 (42%), Gaps = 16/205 (7%)

Query: 69  LMERVY--LRD------MPPGTEFSEAELAREADASTVSVREFLIGFSRFGLIEKKPRGG 120
           L E+VY  L+D      + PG  F+E E+A+    S   +R+ L    R G +E   R G
Sbjct: 9   LAEQVYHRLKDDIFSFRLLPGDNFTETEMAQRQGVSRTPLRDALFRLQREGYLEVGFRRG 68

Query: 121 WRLCAFDLSFAEELADMRQMFEFAAVEHFATLPPSDPAYKELARLISRHERLAAKIETRG 180
           W++C  D    + L D+R + E AA++   + P    A  EL +L +         +T  
Sbjct: 69  WKVCPIDFDRLDNLYDLRIVLEMAALDKLCSQP---EASAELTQLNAIWLAEPDARQTDA 125

Query: 181 SEFPPLDREFHTFLIGLLNNRFAQGFYDIVSFVFHYHYQWD--KSDEMDRNKHALQEHLS 238
            +   LD  FHT L+    N      +  V+       + D  K   +D      +EH  
Sbjct: 126 VKVAQLDEAFHTNLVAAAGNEEMTRVHTEVTEKIRIVRRLDFLKKKRID---ATYEEHGK 182

Query: 239 ILRALADCDAPRALSCMKTHLNSSR 263
           IL+ +A   A  A   ++ H+  S+
Sbjct: 183 ILQLIAKRKATEAQILLRAHITQSK 207


  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
   0.324    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: 823,437
Number of extensions: 32072
Number of successful extensions: 121
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 120
Number of HSP's successfully gapped: 2
Length of query: 280
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 196
Effective length of database: 1,222,130
Effective search space: 239537480
Effective search space used: 239537480
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 130 (54.7 bits)