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= 0029.0230.p
         (123 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311032|ref|YP_003775124.1| chemotaxis CheY protein [Herbas...   248   8e-68
gi|300312287|ref|YP_003776379.1| chemotaxis cheY protein [Herbas...    90   6e-20
gi|300311034|ref|YP_003775126.1| chemotaxis response regulator p...    87   3e-19
gi|300311339|ref|YP_003775431.1| CheY chemotaxis protein [Herbas...    85   2e-18
gi|300312356|ref|YP_003776448.1| cobalt/zinc/cadmium resistance ...    79   1e-16

>gi|300311032|ref|YP_003775124.1| chemotaxis CheY protein
           [Herbaspirillum seropedicae SmR1]
          Length = 123

 Score =  248 bits (634), Expect = 8e-68,   Method: Compositional matrix adjust.
 Identities = 123/123 (100%), Positives = 123/123 (100%)

Query: 1   MKRILLVDDAATVRMYHRNILEAAHYLVEEAVNGIEGLEKALHQPYDLYIVDINMPKLDG 60
           MKRILLVDDAATVRMYHRNILEAAHYLVEEAVNGIEGLEKALHQPYDLYIVDINMPKLDG
Sbjct: 1   MKRILLVDDAATVRMYHRNILEAAHYLVEEAVNGIEGLEKALHQPYDLYIVDINMPKLDG 60

Query: 61  YGFLRQLRGEPLVHAPAIMISTESQANDRVLAYRAGANDYLVKPVTPAQLLMHVRLLVGE 120
           YGFLRQLRGEPLVHAPAIMISTESQANDRVLAYRAGANDYLVKPVTPAQLLMHVRLLVGE
Sbjct: 61  YGFLRQLRGEPLVHAPAIMISTESQANDRVLAYRAGANDYLVKPVTPAQLLMHVRLLVGE 120

Query: 121 GGQ 123
           GGQ
Sbjct: 121 GGQ 123


>gi|300312287|ref|YP_003776379.1| chemotaxis cheY protein
           [Herbaspirillum seropedicae SmR1]
          Length = 121

 Score = 89.7 bits (221), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 49/119 (41%), Positives = 69/119 (57%), Gaps = 1/119 (0%)

Query: 2   KRILLVDDAATVRMYHRNILEAAHYLVEEAVNGIEGLEKALHQPYDLYIVDINMPKLDGY 61
           K IL VDD+ ++R      L+AA Y V EAV+G++ LEKA  Q +DL + D NMP++DG 
Sbjct: 3   KTILAVDDSGSLRQMVVFSLKAAGYNVTEAVDGVDALEKAKSQTFDLVLTDQNMPRMDGL 62

Query: 62  GFLRQLRG-EPLVHAPAIMISTESQANDRVLAYRAGANDYLVKPVTPAQLLMHVRLLVG 119
             +R LR        P +M++TE     +     AGAN +LVKP  P +L   VR ++G
Sbjct: 63  TLIRSLRELTSYARVPILMLTTEFSDEMKAKGKAAGANGWLVKPFDPQRLTEVVRKVIG 121


>gi|300311034|ref|YP_003775126.1| chemotaxis response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 126

 Score = 87.4 bits (215), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 52/117 (44%), Positives = 72/117 (61%), Gaps = 4/117 (3%)

Query: 2   KRILLVDDAATVRMYHRNILEAAHYLVEEAVNGIEGLEK--ALHQPYDLYIVDINMPKLD 59
           K I LVDD+AT+ M  R+ LE A + V+ A +G++ L+K  A ++P DL I DINMP +D
Sbjct: 5   KSIFLVDDSATMLMSVRSHLEMAGFAVDTAEDGVKALKKMQAGYKP-DLLITDINMPNMD 63

Query: 60  GYGFLRQLRGEP-LVHAPAIMISTESQANDRVLAYRAGANDYLVKPVTPAQLLMHVR 115
           G   +R +R  P     P + ++TESQ+  R    +AGA  +LVKPV  A LL  VR
Sbjct: 64  GLELIRNVRALPGFRFIPILTLTTESQSGKRDEGKKAGATGWLVKPVGGADLLKIVR 120


>gi|300311339|ref|YP_003775431.1| CheY chemotaxis protein
           [Herbaspirillum seropedicae SmR1]
          Length = 131

 Score = 84.7 bits (208), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 43/110 (39%), Positives = 69/110 (62%), Gaps = 2/110 (1%)

Query: 3   RILLVDDAATVRMYHRNILEAAHYL-VEEAVNGIEGLEKALHQPYDLYIVDINMPKLDGY 61
           + L+VDD +T+R   RN+L+   Y  V+EA +G++ L+K     +D  + D NMP +DG 
Sbjct: 7   KFLVVDDFSTMRRIVRNLLKELGYTNVDEAEDGVQALQKLRSDQFDFVVSDWNMPNMDGL 66

Query: 62  GFLRQLRGEP-LVHAPAIMISTESQANDRVLAYRAGANDYLVKPVTPAQL 110
             L+++R +P L   P +M++ E++  + V A +AGAN Y+VKP T A L
Sbjct: 67  TMLQEIRKDPALSKLPVLMVTAEAKKENIVAAAQAGANGYVVKPFTAATL 116


>gi|300312356|ref|YP_003776448.1| cobalt/zinc/cadmium resistance two
           component response regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 223

 Score = 78.6 bits (192), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 41/118 (34%), Positives = 67/118 (56%), Gaps = 2/118 (1%)

Query: 4   ILLVDDAATVRMYHRNILEAAHYLVEEAVNGIEGLEKALHQPYDLYIVDINMPKLDGYGF 63
           IL+++D      Y R  L  + Y V+ A NG +GL  AL Q YDL ++D+ +P LDG+  
Sbjct: 3   ILVIEDDPKTGDYLRKGLRESGYAVDLARNGADGLHMALEQDYDLVVLDVMLPGLDGWQV 62

Query: 64  LRQLRGEPLVHAPAIMISTESQANDRVLAYRAGANDYLVKPVTPAQLLMHVRLLVGEG 121
           +  LR +     P + ++     +DR+   + GA+DYLVKP +  +L++ +R L+  G
Sbjct: 63  MSALRSKR--DLPVLFLTARDHVDDRIRGLQLGADDYLVKPFSFTELVLRIRTLLRRG 118


  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: 403,949
Number of extensions: 15881
Number of successful extensions: 194
Number of sequences better than 1.0e-08: 39
Number of HSP's gapped: 179
Number of HSP's successfully gapped: 39
Length of query: 123
Length of database: 1,619,870
Length adjustment: 74
Effective length of query: 49
Effective length of database: 1,269,480
Effective search space: 62204520
Effective search space used: 62204520
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: 125 (52.8 bits)