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= 0234.0019.p
         (149 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312654|ref|YP_003776746.1| C4-dicarboxylate transport resp...   138   2e-34
gi|300312179|ref|YP_003776271.1| nif-specific regulatory protein...    90   1e-19
gi|300313867|ref|YP_003777959.1| phenol-degradative gene regulat...    84   5e-18
gi|300314016|ref|YP_003778108.1| two component transcription reg...    82   2e-17
gi|300313916|ref|YP_003778008.1| two component response regulato...    80   9e-17

>gi|300312654|ref|YP_003776746.1| C4-dicarboxylate transport
           response regulator transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 445

 Score =  138 bits (347), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 73/115 (63%), Positives = 84/115 (73%), Gaps = 5/115 (4%)

Query: 1   VLQERRLERLGGNESIAVDCRVIAASKADLLQLSAQGAFREDLYYRIGVVSIDLPRLRDR 60
           VLQERRLERLGGNES+A+DCRV+AASKADLL+L+A+G FREDLYYRIGVV+IDLP L  R
Sbjct: 262 VLQERRLERLGGNESVAIDCRVVAASKADLLKLAAEGQFREDLYYRIGVVAIDLPALNQR 321

Query: 61  REDIPLLLAHFIHAAAIRYGGRLPARKNAASANWNT---PTAARCSSMKSKACRW 112
           REDI LLLAHF  AAA+RY    PA   A    W     P   R   +++ A RW
Sbjct: 322 REDIALLLAHFCQAAAVRYRRESPAWSAAQMQQWQQRDWPGNVR--ELRNFADRW 374


>gi|300312179|ref|YP_003776271.1| nif-specific regulatory protein
           [Herbaspirillum seropedicae SmR1]
          Length = 542

 Score = 89.7 bits (221), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 43/72 (59%), Positives = 54/72 (75%)

Query: 1   VLQERRLERLGGNESIAVDCRVIAASKADLLQLSAQGAFREDLYYRIGVVSIDLPRLRDR 60
           VLQER  ER+GG+ SI VD R++ A+  DL +  A+G FR DLYYRI VVSI +P LR+R
Sbjct: 318 VLQEREFERVGGSRSIKVDVRLVTATNRDLEKAVAKGEFRADLYYRINVVSIFIPPLRER 377

Query: 61  REDIPLLLAHFI 72
           REDIP L+ HF+
Sbjct: 378 REDIPYLVEHFL 389


>gi|300313867|ref|YP_003777959.1| phenol-degradative gene regulator
           transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 611

 Score = 84.0 bits (206), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 39/80 (48%), Positives = 53/80 (66%)

Query: 1   VLQERRLERLGGNESIAVDCRVIAASKADLLQLSAQGAFREDLYYRIGVVSIDLPRLRDR 60
           VLQE   ER+G    + VD RV+AA+  DL Q   +G FR+DL++R+ V  I LP LR+R
Sbjct: 379 VLQEGEFERVGSARPVKVDVRVVAATNEDLAQAVREGRFRQDLFFRLNVFPIHLPPLRER 438

Query: 61  REDIPLLLAHFIHAAAIRYG 80
           R+DIPLL+ HF+     R+G
Sbjct: 439 RDDIPLLMNHFLKLYGQRHG 458


>gi|300314016|ref|YP_003778108.1| two component transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 466

 Score = 82.0 bits (201), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 40/83 (48%), Positives = 56/83 (67%)

Query: 1   VLQERRLERLGGNESIAVDCRVIAASKADLLQLSAQGAFREDLYYRIGVVSIDLPRLRDR 60
           VLQE+ + ++G N++  VD R+I+A+  DL     +G FREDLYYR+ VV++ LP L +R
Sbjct: 259 VLQEKTVRQVGANQAGEVDVRIISATHRDLEAAMREGQFREDLYYRLNVVTLHLPALEER 318

Query: 61  REDIPLLLAHFIHAAAIRYGGRL 83
           REDI LL  HF+   A +Y  RL
Sbjct: 319 REDIALLANHFLKTIAAKYPKRL 341


>gi|300313916|ref|YP_003778008.1| two component response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 448

 Score = 79.7 bits (195), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 44/92 (47%), Positives = 59/92 (64%), Gaps = 4/92 (4%)

Query: 1   VLQERRLERLGGNESIAVDCRVIAASKADLLQLSAQGAFREDLYYRIGVVSIDLPRLRDR 60
           VLQER L  +GGN+S+ VD RVIAA+  DL     QG FREDL+YR+ V++I +P LR+R
Sbjct: 251 VLQERELTPVGGNQSVRVDVRVIAATHRDLQHEITQGRFREDLWYRLQVLTIMVPALRER 310

Query: 61  REDIPLLLAHFIHAAAIRYGGRLPARKNAASA 92
             DI  +  HF+     + GG  P R + A+A
Sbjct: 311 PGDILTIAEHFLR----QLGGDAPKRISPAAA 338


  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    0.132    0.405 

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: 330,392
Number of extensions: 8931
Number of successful extensions: 45
Number of sequences better than 1.0e-08: 12
Number of HSP's gapped: 45
Number of HSP's successfully gapped: 12
Length of query: 149
Length of database: 1,619,870
Length adjustment: 77
Effective length of query: 72
Effective length of database: 1,255,275
Effective search space: 90379800
Effective search space used: 90379800
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 (22.0 bits)
S2: 126 (53.1 bits)