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= 0001.1885.p
         (391 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...   687   0.0  
gi|300310132|ref|YP_003774224.1| type III secretion HrcU transme...   166   3e-42

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

 Score =  687 bits (1774), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 345/391 (88%), Positives = 371/391 (94%)

Query: 1   MAEDSDMERTEPATGKRIERAREQGDVPRSRELATTLMLLVGGSCVWLFSGPVVTSLDRI 60
           MAEDSDMERTEPATGKRIERAREQGDVPRSRELAT L+LLVGGSCVW+FSGPVVTSLDRI
Sbjct: 1   MAEDSDMERTEPATGKRIERAREQGDVPRSRELATCLVLLVGGSCVWMFSGPVVTSLDRI 60

Query: 61  LVATMSFERAAAFDPVVMFNMLSAHLIDVAVALIPLAFLMTLAAMAAPLMLGGWLFNVQS 120
           +VA MS ERAA +DPVV+ N++SA  +DVA+A+IPLAFLMTLAAMAAPL LGGWLFNV S
Sbjct: 61  MVAMMSLERAAIYDPVVLMNLISARCLDVAIAVIPLAFLMTLAAMAAPLTLGGWLFNVSS 120

Query: 121 LAPKFGKLNPISGFANMFSINSLVELGKAVLKTVLVGTVAWVAIRGQLDAVVGLGVESLK 180
           LAPKF KLNPISGFANMFS+NSLVELGKAVLKT+LVGTVAWV IR QLDAV+GLGVESLK
Sbjct: 121 LAPKFSKLNPISGFANMFSVNSLVELGKAVLKTLLVGTVAWVTIRSQLDAVMGLGVESLK 180

Query: 181 TAGAHSAYLLWVSFITIVSALVLIAALDVPYQIWNYGRKLRMTREEVKQEHKESEGDPHI 240
           TAGAH+A LLW+SFIT+VSAL+ IA LDVPYQ+WNYGRKLRMTREEVKQEHKESEGDPHI
Sbjct: 181 TAGAHAAQLLWISFITMVSALIFIAVLDVPYQLWNYGRKLRMTREEVKQEHKESEGDPHI 240

Query: 241 KGKIRAMQRAMARRRMMAEVPTADVVVTNPTHYAVALKYTEGKMGAPKVVAKGADDIAAK 300
           KGKIRAMQRAMARRRMMAEVPTADVVVTNPTHYAVALKY+EGKMGAPKVVAKG+D+IAAK
Sbjct: 241 KGKIRAMQRAMARRRMMAEVPTADVVVTNPTHYAVALKYSEGKMGAPKVVAKGSDEIAAK 300

Query: 301 IRELAREHKVPLLEAPPLARALHTHTEIGDEIPEALYTAVAEVLAYVFQLRTYGKFGGNR 360
           IRELAREH+VPLLEAPPLARALHTHTEIGDEIPEALYTAVAEVLAYVFQLRTYG+FGG R
Sbjct: 301 IRELAREHRVPLLEAPPLARALHTHTEIGDEIPEALYTAVAEVLAYVFQLRTYGQFGGTR 360

Query: 361 PVEPTELNVPKELDPATAPKKPRGAKNRSRQ 391
           PVEPT L VPKELDP TAPKKPRG++ R+RQ
Sbjct: 361 PVEPTGLEVPKELDPLTAPKKPRGSQRRTRQ 391


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

 Score =  166 bits (420), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 128/383 (33%), Positives = 190/383 (49%), Gaps = 21/383 (5%)

Query: 5   SDMERTEPATGKRIERAREQGDVPRSRELATTLMLL------VGGSCVWLFSGPVVTSLD 58
           SD +  EP T K+IE A+++G +  SR+LA  + L+      +    +W   G V   ++
Sbjct: 2   SDDKNEEP-TDKKIEDAKKKGQIAVSRDLARLVTLVAVMEAALAADSLW--RGAVFNLME 58

Query: 59  R-ILVATMSFERAAAFDPVVMFNMLSAHLIDVAVALIPLAFLMTLAAMAAPLMLGGWLFN 117
             +L     F+ A       M N L+A LI +AVA   +  +  LAA+       G L  
Sbjct: 59  GGVLGVGQDFQTA-------MNNQLTAALILLAVAFFAVLVICPLAAVVGHWGQFGMLIA 111

Query: 118 VQSLAPKFGKLNPISGFANMFSINSLVELGKAVLKTVLVGTVAWVAIRGQLDAVVGLGVE 177
            ++L PK  KLNP++G   +FS   LVEL   V K  L+  + + AI  QL A+  L   
Sbjct: 112 TEALEPKLDKLNPVNGIKQIFSKKKLVELFITVGKAALIAGMMYSAIHSQLGAIFTLAGG 171

Query: 178 SLKTAGAHSAYLLWVSFITIVSALVLIAALDVPYQIWNYGRKLRMTREEVKQEHKESEGD 237
             K        LL   F  I+   +++  +D   Q + + + L M +EE+K+E KESEGD
Sbjct: 172 EPKDVYEAFVTLLRNIFHLIIVVCLVLGVIDYAVQKYFHKKDLMMDQEEIKREFKESEGD 231

Query: 238 PHIKGKIRAMQRAMARRRMMAEVPTADVVVTNPTHYAVALKYTEGKMGAPKVVAKGADDI 297
           P +KG+ + + R  A     A+   A+ VV NPTH+AVA+ Y   +   P V+AKG D+I
Sbjct: 232 PMVKGQRKQLARQWANEAPAAKTEKANAVVVNPTHFAVAMFYDADEAMVPLVLAKGRDEI 291

Query: 298 AAKIRELAREHKVPLLEAPPLARALHTHTEIGDEIPEALYTAVAEVLAYVFQLRTYGKFG 357
           A  +   A    +P++    LAR L+   +    +P + Y AVA+V A V +L   G+  
Sbjct: 292 AQAMIARAHACGIPVIRHVWLARTLYATCQDDMPVPRSSYQAVAQVYAVVHELVASGEV- 350

Query: 358 GNRPVEPTELNVPKELDPATAPK 380
             R VE   L  P E D  T PK
Sbjct: 351 -QREVELESLGEPPERD--TLPK 370


  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    0.134    0.387 

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: 1,090,034
Number of extensions: 39939
Number of successful extensions: 146
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 146
Number of HSP's successfully gapped: 2
Length of query: 391
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 304
Effective length of database: 1,207,925
Effective search space: 367209200
Effective search space used: 367209200
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)