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= 0020.0085.p
         (393 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311341|ref|YP_003775433.1| flagellar biosynthesis FlhB tra...   531   e-152
gi|300310132|ref|YP_003774224.1| type III secretion HrcU transme...   161   9e-41

>gi|300311341|ref|YP_003775433.1| flagellar biosynthesis FlhB
           transmembrane protein [Herbaspirillum seropedicae SmR1]
          Length = 391

 Score =  531 bits (1367), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 263/374 (70%), Positives = 314/374 (83%)

Query: 1   VAEDSDQERTEQPTSKRIEKAREQGDVPRSREMATCVMLLIGGSTLWMFTGPLVTSLNRL 60
           +AEDSD ERTE  T KRIE+AREQGDVPRSRE+ATC++LL+GGS +WMF+GP+VTSL+R+
Sbjct: 1   MAEDSDMERTEPATGKRIERAREQGDVPRSRELATCLVLLVGGSCVWMFSGPVVTSLDRI 60

Query: 61  MVSTMTFEREMAFDPALLFERMSGHFMEVAIACIPIAFLMTLAAVASPLILGGWLFNGSS 120
           MV+ M+ ER   +DP +L   +S   ++VAIA IP+AFLMTLAA+A+PL LGGWLFN SS
Sbjct: 61  MVAMMSLERAAIYDPVVLMNLISARCLDVAIAVIPLAFLMTLAAMAAPLTLGGWLFNVSS 120

Query: 121 LEPKFDRLNPIKGIMNLFSLNSLVELGKGILKSVLVGVIAWYAMRSHLDAVLNLSVEPLK 180
           L PKF +LNPI G  N+FS+NSLVELGK +LK++LVG +AW  +RS LDAV+ L VE LK
Sbjct: 121 LAPKFSKLNPISGFANMFSVNSLVELGKAVLKTLLVGTVAWVTIRSQLDAVMGLGVESLK 180

Query: 181 VASSHMPNLLWTCFIMMVCALIGIAVIDVPYQLWNYTRKLKMSRQEVKQEHKESDGDPLI 240
            A +H   LLW  FI MV ALI IAV+DVPYQLWNY RKL+M+R+EVKQEHKES+GDP I
Sbjct: 181 TAGAHAAQLLWISFITMVSALIFIAVLDVPYQLWNYGRKLRMTREEVKQEHKESEGDPHI 240

Query: 241 KGKIRALQRAAARRRMMSAVPTADVVVTNPTHFAVALKYSEGGMSAPQVVAKGTEAVAAN 300
           KGKIRA+QRA ARRRMM+ VPTADVVVTNPTH+AVALKYSEG M AP+VVAKG++ +AA 
Sbjct: 241 KGKIRAMQRAMARRRMMAEVPTADVVVTNPTHYAVALKYSEGKMGAPKVVAKGSDEIAAK 300

Query: 301 IRKIAAENNVPILEAPPLARALHYHTEIGDEIPESLYTAVAEVLAYIFQLRTYNSNGGVR 360
           IR++A E+ VP+LEAPPLARALH HTEIGDEIPE+LYTAVAEVLAY+FQLRTY   GG R
Sbjct: 301 IRELAREHRVPLLEAPPLARALHTHTEIGDEIPEALYTAVAEVLAYVFQLRTYGQFGGTR 360

Query: 361 PEQPSDLEVPKELD 374
           P +P+ LEVPKELD
Sbjct: 361 PVEPTGLEVPKELD 374


>gi|300310132|ref|YP_003774224.1| type III secretion HrcU
           transmembrane protein [Herbaspirillum seropedicae SmR1]
          Length = 371

 Score =  161 bits (407), Expect = 9e-41,   Method: Compositional matrix adjust.
 Identities = 110/352 (31%), Positives = 180/352 (51%), Gaps = 20/352 (5%)

Query: 8   ERTEQPTSKRIEKAREQGDVPRSREMATCVMLL------IGGSTLWMFTGPLVTSLNRLM 61
           ++ E+PT K+IE A+++G +  SR++A  V L+      +   +LW   G +   +   +
Sbjct: 4   DKNEEPTDKKIEDAKKKGQIAVSRDLARLVTLVAVMEAALAADSLW--RGAVFNLMEGGV 61

Query: 62  VST-MTFEREMAFDPALLFERMSGHFMEVAIACIPIAFLMTLAAVASPLILGGWLFNGSS 120
           +     F+  M         +++   + +A+A   +  +  LAAV       G L    +
Sbjct: 62  LGVGQDFQTAMN-------NQLTAALILLAVAFFAVLVICPLAAVVGHWGQFGMLIATEA 114

Query: 121 LEPKFDRLNPIKGIMNLFSLNSLVELGKGILKSVLVGVIAWYAMRSHLDAVLNLSVEPLK 180
           LEPK D+LNP+ GI  +FS   LVEL   + K+ L+  + + A+ S L A+  L+    K
Sbjct: 115 LEPKLDKLNPVNGIKQIFSKKKLVELFITVGKAALIAGMMYSAIHSQLGAIFTLAGGEPK 174

Query: 181 VASSHMPNLLWTCF--IMMVCALIGIAVIDVPYQLWNYTRKLKMSRQEVKQEHKESDGDP 238
                   LL   F  I++VC ++G  VID   Q + + + L M ++E+K+E KES+GDP
Sbjct: 175 DVYEAFVTLLRNIFHLIIVVCLVLG--VIDYAVQKYFHKKDLMMDQEEIKREFKESEGDP 232

Query: 239 LIKGKIRALQRAAARRRMMSAVPTADVVVTNPTHFAVALKYSEGGMSAPQVVAKGTEAVA 298
           ++KG+ + L R  A     +    A+ VV NPTHFAVA+ Y       P V+AKG + +A
Sbjct: 233 MVKGQRKQLARQWANEAPAAKTEKANAVVVNPTHFAVAMFYDADEAMVPLVLAKGRDEIA 292

Query: 299 ANIRKIAAENNVPILEAPPLARALHYHTEIGDEIPESLYTAVAEVLAYIFQL 350
             +   A    +P++    LAR L+   +    +P S Y AVA+V A + +L
Sbjct: 293 QAMIARAHACGIPVIRHVWLARTLYATCQDDMPVPRSSYQAVAQVYAVVHEL 344


  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
   0.320    0.133    0.386 

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: 1,100,113
Number of extensions: 42007
Number of successful extensions: 149
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 149
Number of HSP's successfully gapped: 2
Length of query: 393
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 306
Effective length of database: 1,207,925
Effective search space: 369625050
Effective search space used: 369625050
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 (21.8 bits)
S2: 131 (55.1 bits)