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= 0005.0033.p
         (318 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309661|ref|YP_003773753.1| AraC family transcription regul...   169   3e-43
gi|300311760|ref|YP_003775852.1| transcription regulator protein...    73   4e-14
gi|300310404|ref|YP_003774496.1| AraC family transcription regul...    64   1e-11
gi|300311726|ref|YP_003775818.1| AraC family transcription regul...    63   3e-11

>gi|300309661|ref|YP_003773753.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 338

 Score =  169 bits (428), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 107/298 (35%), Positives = 154/298 (51%), Gaps = 12/298 (4%)

Query: 16  HQRMVQLLTELAPD-EGYNLSLLPDVRFLRSNRALSETPVLYEPGIVVVVQGRKRGFLGG 74
            Q ++QLL       EG   + +P++   R          + +P   V+ QG KR F+G 
Sbjct: 41  QQELLQLLEHYTTGVEGMLETAIPNMEIYRITCPSGPKHAVQKPVFAVIAQGSKRIFVGD 100

Query: 75  QTYLYDARHYLAVSVPVPFTMETDATE-KTPLLAIYFRLDFQLLAEVLVQMDDADLSAHP 133
           + Y YD  HYL  SV +P   +   T    P L +   LD Q + E++    D +L A  
Sbjct: 101 EIYEYDPMHYLVASVDLPVVGKVMVTSPDEPYLGLRLELDTQEIGELI---GDENLPAAA 157

Query: 134 QT-------MFATRMDASMSASVLRFLEAMRVPMEARILGRSLVKEIYLRVLTGRQGASM 186
           Q        ++  R+D  +  +VLR L     P +  IL   + +EI  R+L   QGA +
Sbjct: 158 QVSEGAARGLYVNRLDVDLLDAVLRLLRLQERPADVPILAPMIRREILYRLLMNGQGALL 217

Query: 187 RAALRTDGQYGKVARAIRKIHAAYADKLDVEQLAHEAGMSPPSFHAHFKAVTATSPMQYL 246
           R  +  D Q  +VA+AIR I   Y   L ++ +A +  MS  S H HFK VTA SP+QY 
Sbjct: 218 RQTVLQDSQMNRVAKAIRLIKEGYDQALRIDDIARDVHMSVSSLHHHFKLVTAMSPLQYQ 277

Query: 247 KSTRLHQARLLMLRNGLTVAEASARVGYESASQFSREFKRLFDLPPTQEVARMKDAYA 304
           K+ RL +AR L+L    +VA A+ RVGYES+SQFSRE+ RLF  PP ++  R ++  A
Sbjct: 278 KNLRLQEARKLILTADASVATAAHRVGYESSSQFSREYSRLFGAPPLRDKRRWQEEEA 335


>gi|300311760|ref|YP_003775852.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 319

 Score = 72.8 bits (177), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 41/99 (41%), Positives = 59/99 (59%)

Query: 198 KVARAIRKIHAAYADKLDVEQLAHEAGMSPPSFHAHFKAVTATSPMQYLKSTRLHQARLL 257
           ++A+AIR +HA  A   +V +LA  A +S  SF   F+     +PM YL + R+  A+ L
Sbjct: 204 RLAQAIRALHAQPAQDWNVPRLARVAALSRSSFFERFRREVGLTPMDYLLAWRMALAKRL 263

Query: 258 MLRNGLTVAEASARVGYESASQFSREFKRLFDLPPTQEV 296
           +LR   ++AE + +VGY SAS FS  F R   LPP+Q V
Sbjct: 264 LLRADGSIAEVALQVGYSSASTFSVAFSRHVGLPPSQFV 302


>gi|300310404|ref|YP_003774496.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 344

 Score = 64.3 bits (155), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 34/97 (35%), Positives = 51/97 (52%)

Query: 198 KVARAIRKIHAAYADKLDVEQLAHEAGMSPPSFHAHFKAVTATSPMQYLKSTRLHQARLL 257
           +V R +  +H        V +LA   G S  SF   F A    +P +Y+   ++ QAR  
Sbjct: 244 QVGRVLAAVHQHPERDWSVAELAALMGASRSSFIDKFSAAVGETPAKYVARVKMFQARHW 303

Query: 258 MLRNGLTVAEASARVGYESASQFSREFKRLFDLPPTQ 294
           + R GL VA  + R+GY+S + FSR FKR+   PP++
Sbjct: 304 IAREGLRVAVVANRLGYDSEASFSRAFKRIIGHPPSE 340


>gi|300311726|ref|YP_003775818.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 304

 Score = 63.2 bits (152), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 36/95 (37%), Positives = 50/95 (52%)

Query: 198 KVARAIRKIHAAYADKLDVEQLAHEAGMSPPSFHAHFKAVTATSPMQYLKSTRLHQARLL 257
           ++A A++ +HA    +  V QLA  A +S  SF   F      +PM YL + R+  AR L
Sbjct: 196 RLAVALKHMHARIEQRWSVAQLARIAALSRSSFFERFTRTLGVAPMAYLLAWRMEIAREL 255

Query: 258 MLRNGLTVAEASARVGYESASQFSREFKRLFDLPP 292
           + R  L+V+E + R GY S S FS  F R    PP
Sbjct: 256 LRRGELSVSEIAERTGYGSTSAFSVAFTRQVGQPP 290


  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    0.132    0.368 

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: 905,939
Number of extensions: 34783
Number of successful extensions: 142
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 147
Number of HSP's successfully gapped: 4
Length of query: 318
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 233
Effective length of database: 1,217,395
Effective search space: 283653035
Effective search space used: 283653035
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: 130 (54.7 bits)