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= 0001.1906.p
         (244 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311365|ref|YP_003775457.1| flagellar biosynthetic protein ...   417   e-118
gi|300310129|ref|YP_003774221.1| type III secretion HrcR transme...   135   3e-33

>gi|300311365|ref|YP_003775457.1| flagellar biosynthetic protein
           FliP [Herbaspirillum seropedicae SmR1]
          Length = 244

 Score =  417 bits (1072), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 231/244 (94%), Positives = 240/244 (98%)

Query: 1   LRSRYWWLALLCLPLAASAQQGLPALNSMPAPGGGTNYSLPIQTMLFLTSLSFIPAALLM 60
           +R+RY WLALLCLPLAASAQQG+PALNSMPAPGGGTNYSLPIQTML LTSLSF+PAALLM
Sbjct: 1   MRNRYCWLALLCLPLAASAQQGIPALNSMPAPGGGTNYSLPIQTMLLLTSLSFLPAALLM 60

Query: 61  MTCFTRIVIVLSLLRQALGTQSTPPTQVLVGLSLFLTFFVMSPVFDRIYTEAYQPFAENK 120
           MTCFTRIVIVLSLLRQALGTQSTPPTQVLVGLSLFLTFFVMSPVFDRIYT+AYQPFAENK
Sbjct: 61  MTCFTRIVIVLSLLRQALGTQSTPPTQVLVGLSLFLTFFVMSPVFDRIYTDAYQPFAENK 120

Query: 121 IQMMEALDKGAAPLKEFMLKQTRQSDLALYVKLSHGPALQGPEDVPLRLLVPAFVTSELK 180
           IQMMEALDKGA PLKEFMLKQTR+SDLALYVKLS GPALQGPEDVPLRLLVPAFVTSELK
Sbjct: 121 IQMMEALDKGAQPLKEFMLKQTRESDLALYVKLSRGPALQGPEDVPLRLLVPAFVTSELK 180

Query: 181 TSFQIGFAIFIPFLIIDMVVASILMSMGMMMMSPAIVSLPFKLMLFVLVDGWQLLIGSLA 240
           T+FQIGFAIF+PFLIIDMVVASILMSMGMMMMSPA+VSLPFKLMLFVLVDGWQLLIGSLA
Sbjct: 181 TAFQIGFAIFLPFLIIDMVVASILMSMGMMMMSPALVSLPFKLMLFVLVDGWQLLIGSLA 240

Query: 241 QSFY 244
           QSFY
Sbjct: 241 QSFY 244


>gi|300310129|ref|YP_003774221.1| type III secretion HrcR
           transmembrane protein [Herbaspirillum seropedicae SmR1]
          Length = 220

 Score =  135 bits (340), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 74/207 (35%), Positives = 124/207 (59%), Gaps = 9/207 (4%)

Query: 46  LFLTSLSFIPAALLMMTCFTRIVIVLSLLRQALGTQSTPPTQVLVGLSLFLTFFVMSPVF 105
           + L  ++ +P  ++  T F +I +VL +LR A+G Q  PPT  + G++L L+ F+M+P  
Sbjct: 13  VLLALMALVPLMVVTTTSFLKISLVLLVLRNAIGVQQVPPTLAIYGIALALSVFIMAPTV 72

Query: 106 DRIYTEAY-----QPFAENKIQMMEALDKGAAPLKEFMLK----QTRQSDLALYVKLSHG 156
             +   A       P A   + ++E       PL++FMLK    + R+  LA   KL   
Sbjct: 73  QEVGKRAMAVDVSHPAASRTVPILERAQDAFDPLRKFMLKMSHAEQREMFLASAKKLWPK 132

Query: 157 PALQGPEDVPLRLLVPAFVTSELKTSFQIGFAIFIPFLIIDMVVASILMSMGMMMMSPAI 216
            A +  +     +L+PAFV SEL+T ++IGF I+IPF++ID++++++LM++GM  +SP  
Sbjct: 133 EAAKDAQPTDALILIPAFVVSELQTGYEIGFLIYIPFVVIDLLISNLLMALGMQQVSPQT 192

Query: 217 VSLPFKLMLFVLVDGWQLLIGSLAQSF 243
           +++P KL+LF LV GW  L+ +LA S+
Sbjct: 193 ITIPLKLLLFTLVGGWAKLLNALAMSY 219


  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
   0.328    0.140    0.414 

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: 649,421
Number of extensions: 23537
Number of successful extensions: 87
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 85
Number of HSP's successfully gapped: 2
Length of query: 244
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 161
Effective length of database: 1,226,865
Effective search space: 197525265
Effective search space used: 197525265
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 129 (54.3 bits)