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= 0001.2115.p
         (153 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311809|ref|YP_003775901.1| two component response regulato...   248   2e-67
gi|300311884|ref|YP_003775976.1| two component response regulato...    65   3e-12
gi|300309955|ref|YP_003774047.1| two-component system sensor his...    55   2e-09
gi|300311949|ref|YP_003776041.1| two component response regulato...    54   5e-09

>gi|300311809|ref|YP_003775901.1| two component response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 154

 Score =  248 bits (633), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 121/142 (85%), Positives = 128/142 (90%)

Query: 1   MATEQSVNIILVEDDDGHALLVEKNLRRAGLVNGFTRLHDGQAALDYFFGSELPRSELQQ 60
           MATEQSVNIILVEDDDGHA+LVEKNLRRAGLVNGF RL DGQ ALDY F  +  R+ELQQ
Sbjct: 1   MATEQSVNIILVEDDDGHAVLVEKNLRRAGLVNGFVRLRDGQEALDYLFDPQRSRTELQQ 60

Query: 61  LVVLLDVNMPRVNGVEVLRRMKQEPATVAIPVIMLTTTDDPREIARCYEVGCNVYITKPV 120
           LVVLLDVNMPRVNGVEVLRR+K +P   AIPVIMLTTTDDPREI RCYE GCNVYITKPV
Sbjct: 61  LVVLLDVNMPRVNGVEVLRRLKADPVLSAIPVIMLTTTDDPREIGRCYEYGCNVYITKPV 120

Query: 121 EYDDFIEAVRRLGFFLQVVKLP 142
           EY+DFIEA+RRLGFFLQVVKLP
Sbjct: 121 EYEDFIEAIRRLGFFLQVVKLP 142


>gi|300311884|ref|YP_003775976.1| two component response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 151

 Score = 65.1 bits (157), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 45/140 (32%), Positives = 75/140 (53%), Gaps = 1/140 (0%)

Query: 5   QSVNIILVEDDDGHALLVEKNLRRAGLVNGFTRLHDGQAALDYFFGSELP-RSELQQLVV 63
           +  +IILV+D    A L    L    L +  T   D + A ++FF  E   R +L   ++
Sbjct: 4   EQYDIILVDDSPEVAELTRLALGSRKLADKLTWFADAELAEEFFFQGEYAQRRDLHPYLI 63

Query: 64  LLDVNMPRVNGVEVLRRMKQEPATVAIPVIMLTTTDDPREIARCYEVGCNVYITKPVEYD 123
           LLD+N+P ++G + L+ +K   AT  IPV+M +++DD R+I + YE+G N Y+ K  +  
Sbjct: 64  LLDLNLPLMSGHDFLKIIKSNAATSHIPVVMFSSSDDQRDINQSYELGANGYVVKSTDPK 123

Query: 124 DFIEAVRRLGFFLQVVKLPV 143
           +F+  V   G + +    P 
Sbjct: 124 EFMGTVVDTGIYWRNRNRPA 143


>gi|300309955|ref|YP_003774047.1| two-component system sensor
           histidine kinase/response regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 122

 Score = 55.5 bits (132), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/125 (29%), Positives = 58/125 (46%), Gaps = 9/125 (7%)

Query: 8   NIILVEDDDGHALLVEKNLRRAGLVNGFTRLHDGQAALDYFFGSELPRSELQQLVVLLDV 67
           NI++V+D       +   L+ AG         DG+ AL +  G +         +V+ D+
Sbjct: 4   NILIVDDSFSLRQTISAALKSAGY--HVEEAADGKQALAHLDGRKFN-------LVISDL 54

Query: 68  NMPRVNGVEVLRRMKQEPATVAIPVIMLTTTDDPREIARCYEVGCNVYITKPVEYDDFIE 127
           NMP ++G+  +R MKQ PA    PVIMLTT             G   ++ KP +    ++
Sbjct: 55  NMPHLDGLSFVREMKQMPAYKFTPVIMLTTESSEARKQEGKAAGIRAWVHKPFQPPVLLD 114

Query: 128 AVRRL 132
           AV +L
Sbjct: 115 AVAKL 119


>gi|300311949|ref|YP_003776041.1| two component response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 318

 Score = 53.9 bits (128), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 37/130 (28%), Positives = 59/130 (45%), Gaps = 25/130 (19%)

Query: 14  DDDGHALLVEKNLRRAGLVNGFTRLHDGQAALDYFFGSELPRSELQQLVVLLDVNMPRVN 73
           DD GH +LV                 DG +AL+           +   ++LLD  MP ++
Sbjct: 29  DDSGHIVLVAT---------------DGLSALERL-------DHITPDLILLDAMMPGID 66

Query: 74  GVEVLRRMKQEPATVAIPVIMLTTTDDPREIARCYEVGCNVYITKPVEYDDFIEAVRRLG 133
           G E  RR+KQ      +PV+ +T   +   + R +EVG   Y+TKP+      E V R+G
Sbjct: 67  GFETCRRIKQVRRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQ---EVVARIG 123

Query: 134 FFLQVVKLPV 143
             ++  ++ V
Sbjct: 124 AHIRTARMMV 133


  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    0.140    0.401 

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: 455,685
Number of extensions: 17575
Number of successful extensions: 153
Number of sequences better than 1.0e-08: 6
Number of HSP's gapped: 173
Number of HSP's successfully gapped: 6
Length of query: 153
Length of database: 1,619,870
Length adjustment: 77
Effective length of query: 76
Effective length of database: 1,255,275
Effective search space: 95400900
Effective search space used: 95400900
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: 126 (53.1 bits)