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= 0212.0005.p
         (115 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi...    97   3e-22
gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi...    96   1e-21
gi|300313782|ref|YP_003777874.1| transmembrane protein [Herbaspi...    86   9e-19
gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies...    86   1e-18
gi|300312320|ref|YP_003776412.1| response regulator protein [Her...    77   4e-16

>gi|300313329|ref|YP_003777421.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 501

 Score = 97.4 bits (241), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 52/108 (48%), Positives = 68/108 (62%)

Query: 1   VLAAVSGAISAQLPRSSDIAARYGGEEFIVVLAETNTDGALFVGEKIRSAIEELDIPHSK 60
           VL AV+  +   L R +D+A RYGGEEF+V+L +T+  GAL + +++  AI    IPHS 
Sbjct: 385 VLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTDEHGALRMAQQLCEAIYNRGIPHSG 444

Query: 61  SQSGHISASIGAAVYDAAIHDSINAVLNAADSALYKAKGSGRNNVQIS 108
           S  G IS SIG A  + A H  +  VLNAAD ALY AK  GRN V ++
Sbjct: 445 SPLGVISVSIGVATMNRAPHQRMEDVLNAADHALYIAKREGRNRVCVA 492


>gi|300313918|ref|YP_003778010.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 515

 Score = 95.5 bits (236), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 45/110 (40%), Positives = 72/110 (65%)

Query: 1   VLAAVSGAISAQLPRSSDIAARYGGEEFIVVLAETNTDGALFVGEKIRSAIEELDIPHSK 60
           VL  V+  ++A+LPR +D A RYGGEEF+V+L +T+  GA  + +++  A+ E  I H+ 
Sbjct: 405 VLKEVAATLTARLPRHTDCAGRYGGEEFVVLLEQTDLQGAQMMAQRLCDAVRERHIAHTS 464

Query: 61  SQSGHISASIGAAVYDAAIHDSINAVLNAADSALYKAKGSGRNNVQISTR 110
           S    ++ S+G A  +   H  +  VLNAAD+ALY+AK +GR+ V +S++
Sbjct: 465 SPLAVVTISVGVATLERDHHRRVEDVLNAADAALYRAKQAGRDRVHLSSQ 514


>gi|300313782|ref|YP_003777874.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 475

 Score = 85.5 bits (210), Expect = 9e-19,   Method: Compositional matrix adjust.
 Identities = 49/103 (47%), Positives = 63/103 (61%)

Query: 2   LAAVSGAISAQLPRSSDIAARYGGEEFIVVLAETNTDGALFVGEKIRSAIEELDIPHSKS 61
           L AVS  I A + R SD + RYGGEEF+V+L  T+T GA  V ++I SAI+ L IPH +S
Sbjct: 370 LMAVSRCIVAAVSRLSDQSGRYGGEEFVVLLNGTDTVGATHVAKRIISAIQSLKIPHERS 429

Query: 62  QSGHISASIGAAVYDAAIHDSINAVLNAADSALYKAKGSGRNN 104
               ++ SIG        H SI  V+  AD+ALY+AK  GRN 
Sbjct: 430 PFDILTVSIGVTSLLREHHSSIEDVVKDADAALYRAKQDGRNK 472


>gi|300313993|ref|YP_003778085.1| diguanylate
           cyclase/phosphodiesterase with PAS/PAC sensor
           domain-containing protein [Herbaspirillum seropedicae
           SmR1]
          Length = 573

 Score = 85.5 bits (210), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 46/91 (50%), Positives = 58/91 (63%)

Query: 15  RSSDIAARYGGEEFIVVLAETNTDGALFVGEKIRSAIEELDIPHSKSQSGHISASIGAAV 74
           R++D+ ARYGGEEF V++AE +T  AL   E I  AI EL +PH+ S  G+ISASIG AV
Sbjct: 473 RATDLVARYGGEEFSVIIAECDTTQALQQAENICQAIFELKLPHADSPFGYISASIGVAV 532

Query: 75  YDAAIHDSINAVLNAADSALYKAKGSGRNNV 105
                H +   ++  AD ALY AK  GRN V
Sbjct: 533 LLPDEHTAPEQMVRIADQALYHAKYQGRNRV 563


>gi|300312320|ref|YP_003776412.1| response regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 341

 Score = 76.6 bits (187), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 40/106 (37%), Positives = 61/106 (57%), Gaps = 1/106 (0%)

Query: 1   VLAAVSGAISAQLPRSSDIAARYGGEEFIVVLAETNTDGALFVGEKIRSAIEELDIPHSK 60
           VL  V+ A+ + + R +D++AR+GGEEF ++L  T  DGA  + +K+   +E L +PH  
Sbjct: 231 VLRQVAEALDSSIQRPADLSARFGGEEFAMILPRTGLDGAHAIAQKVCHLVESLQVPHEG 290

Query: 61  SQ-SGHISASIGAAVYDAAIHDSINAVLNAADSALYKAKGSGRNNV 105
           S  S  ++ S+GAA         +  ++ AAD  LY AK  GRN V
Sbjct: 291 SSVSAWLTVSVGAATLVPQEQQELRELIEAADRRLYLAKQQGRNRV 336


  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
   0.311    0.127    0.338 

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: 335,815
Number of extensions: 11587
Number of successful extensions: 95
Number of sequences better than 1.0e-08: 21
Number of HSP's gapped: 99
Number of HSP's successfully gapped: 21
Length of query: 115
Length of database: 1,619,870
Length adjustment: 73
Effective length of query: 42
Effective length of database: 1,274,215
Effective search space: 53517030
Effective search space used: 53517030
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 124 (52.4 bits)