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= 0020.0161.p
         (338 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...   682   0.0  
gi|300312695|ref|YP_003776787.1| AraC family transcription regul...    76   5e-15
gi|300311760|ref|YP_003775852.1| transcription regulator protein...    64   1e-11

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

 Score =  682 bits (1761), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 337/338 (99%), Positives = 337/338 (99%)

Query: 1   MELDLHTIQDAAALLSPEAHDATPAPAPAPAGEEARFQAMQQELLQLLEHYTTGVEGMLE 60
           MELDLHTIQDAAALLSPEAHDA PAPAPAPAGEEARFQAMQQELLQLLEHYTTGVEGMLE
Sbjct: 1   MELDLHTIQDAAALLSPEAHDAAPAPAPAPAGEEARFQAMQQELLQLLEHYTTGVEGMLE 60

Query: 61  TAIPNMEIYRITCPSGPKHAVQKPVFAVIAQGSKRIFVGDEIYEYDPMHYLVASVDLPVV 120
           TAIPNMEIYRITCPSGPKHAVQKPVFAVIAQGSKRIFVGDEIYEYDPMHYLVASVDLPVV
Sbjct: 61  TAIPNMEIYRITCPSGPKHAVQKPVFAVIAQGSKRIFVGDEIYEYDPMHYLVASVDLPVV 120

Query: 121 GKVMVTSPDEPYLGLRLELDTQEIGELIGDENLPAAAQVSEGAARGLYVNRLDVDLLDAV 180
           GKVMVTSPDEPYLGLRLELDTQEIGELIGDENLPAAAQVSEGAARGLYVNRLDVDLLDAV
Sbjct: 121 GKVMVTSPDEPYLGLRLELDTQEIGELIGDENLPAAAQVSEGAARGLYVNRLDVDLLDAV 180

Query: 181 LRLLRLQERPADVPILAPMIRREILYRLLMNGQGALLRQTVLQDSQMNRVAKAIRLIKEG 240
           LRLLRLQERPADVPILAPMIRREILYRLLMNGQGALLRQTVLQDSQMNRVAKAIRLIKEG
Sbjct: 181 LRLLRLQERPADVPILAPMIRREILYRLLMNGQGALLRQTVLQDSQMNRVAKAIRLIKEG 240

Query: 241 YDQALRIDDIARDVHMSVSSLHHHFKLVTAMSPLQYQKNLRLQEARKLILTADASVATAA 300
           YDQALRIDDIARDVHMSVSSLHHHFKLVTAMSPLQYQKNLRLQEARKLILTADASVATAA
Sbjct: 241 YDQALRIDDIARDVHMSVSSLHHHFKLVTAMSPLQYQKNLRLQEARKLILTADASVATAA 300

Query: 301 HRVGYESSSQFSREYSRLFGAPPLRDKRRWQEEEAPVL 338
           HRVGYESSSQFSREYSRLFGAPPLRDKRRWQEEEAPVL
Sbjct: 301 HRVGYESSSQFSREYSRLFGAPPLRDKRRWQEEEAPVL 338


>gi|300312695|ref|YP_003776787.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 293

 Score = 75.9 bits (185), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 72/253 (28%), Positives = 111/253 (43%), Gaps = 29/253 (11%)

Query: 88  VIAQGSKRIFVGDEIYEYDPMHYLVASVDLPVVGKVMVTSPDE-PYLGLRLELDTQEIGE 146
           VI   S + FVGD I ++ P + ++   +LP      + +  + P   L L+        
Sbjct: 40  VITASSGKFFVGDFIGDFGPGNLVLTGPNLPHNWVSNLGAHQQVPARDLVLQFSRPFAER 99

Query: 147 LIGD-ENLPAAAQVSEGAARGL--------YVNRLDVDLLDA-----VLRLLRLQERPAD 192
           ++G    L    ++ +GAARGL         +  L  +L  A     V+ ++ + ER A 
Sbjct: 100 VVGAIPELSPLQEMLDGAARGLQFPDALGASITPLMQELAQASGARRVVLMMSVLERLAS 159

Query: 193 VPILAPMIRREILYRLLMNGQGALLRQTVLQDSQMNRVAKAIRLIKEGYDQALRIDDIAR 252
            P   P+            G G  L       S +N+V   IR   +     LR  D+A 
Sbjct: 160 CPERKPLA-----------GPGYDLNAQRHMSSTLNQVLSCIR---QNLGGNLRETDLAE 205

Query: 253 DVHMSVSSLHHHFKLVTAMSPLQYQKNLRLQEARKLILTADASVATAAHRVGYESSSQFS 312
              MSVSS    FK  T  + +QYQ  LRL EA +L++  + SV    +RVG+ + S F+
Sbjct: 206 LAGMSVSSFTRFFKRHTGCTFIQYQNGLRLNEACELLMCTELSVTEVCYRVGFNNLSNFN 265

Query: 313 REYSRLFGAPPLR 325
           R++    G PP R
Sbjct: 266 RQFLASKGMPPSR 278


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

 Score = 64.3 bits (155), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 35/95 (36%), Positives = 53/95 (55%)

Query: 229 RVAKAIRLIKEGYDQALRIDDIARDVHMSVSSLHHHFKLVTAMSPLQYQKNLRLQEARKL 288
           R+A+AIR +     Q   +  +AR   +S SS    F+    ++P+ Y    R+  A++L
Sbjct: 204 RLAQAIRALHAQPAQDWNVPRLARVAALSRSSFFERFRREVGLTPMDYLLAWRMALAKRL 263

Query: 289 ILTADASVATAAHRVGYESSSQFSREYSRLFGAPP 323
           +L AD S+A  A +VGY S+S FS  +SR  G PP
Sbjct: 264 LLRADGSIAEVALQVGYSSASTFSVAFSRHVGLPP 298


  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
   0.319    0.135    0.381 

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: 862,005
Number of extensions: 30954
Number of successful extensions: 149
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 152
Number of HSP's successfully gapped: 3
Length of query: 338
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 252
Effective length of database: 1,212,660
Effective search space: 305590320
Effective search space used: 305590320
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: 131 (55.1 bits)