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= 0001.0308.p
         (421 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309677|ref|YP_003773769.1| rod shape-determining (RodA pro...   726   0.0  
gi|300313948|ref|YP_003778040.1| rod shape-determining (RodA pro...   112   5e-26

>gi|300309677|ref|YP_003773769.1| rod shape-determining (RodA
           protein) transmembrane protein [Herbaspirillum
           seropedicae SmR1]
          Length = 421

 Score =  726 bits (1874), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 400/421 (95%), Positives = 413/421 (98%)

Query: 1   MKLGLSSLRNWLGGVKQAAPVAAGRIRAGRGSASGSIGLEQRSRMMEYDQPLIWVVVLLM 60
           MKL LSS+R+WLGG+++AAP AAGR R+GRG ASGSIG EQRSRMMEYDQPLIWVV+LLM
Sbjct: 1   MKLNLSSMRSWLGGLREAAPAAAGRARSGRGGASGSIGFEQRSRMMEYDQPLIWVVLLLM 60

Query: 61  LFGMVMVYSASVALPDSPKYAAYSNYHFLVRQAIFIVLSIIAGALVFRVRIETWQKWAPY 120
           LFGMVMVYSASVALPDSPKYA+YSNYHFL+RQAIFIVLSIIAGAL FRVRIETWQKWAPY
Sbjct: 61  LFGMVMVYSASVALPDSPKYASYSNYHFLIRQAIFIVLSIIAGALAFRVRIETWQKWAPY 120

Query: 121 LFAVTLILLLLVLIPGVGKGVNGAKRWLSLKIINLQPSELMKLFIVLYAADYTVRKQAVM 180
           LF +TLILLL+VL+PGVGKGVNGAKRWLSLKIINLQPSELMKLFIVLYAADYTVRKQAVM
Sbjct: 121 LFGITLILLLMVLVPGVGKGVNGAKRWLSLKIINLQPSELMKLFIVLYAADYTVRKQAVM 180

Query: 181 HKLVKGFFPMAAAVGLVGLLLLLEPDLGAFGVIVCIAMGILFLGGINGVWFGGIGATLVG 240
           HKLVKGFFPMAAAVGLVGLLLLLEPDLGAFGVIVCIAMGILFLGGINGVWFGGIGATLVG
Sbjct: 181 HKLVKGFFPMAAAVGLVGLLLLLEPDLGAFGVIVCIAMGILFLGGINGVWFGGIGATLVG 240

Query: 241 VFSLVIVTSPWRRERIFAYLNPWEEDNALGKAYQLSHSLIAFGRGELFGVGLGSSVEKLH 300
           VFSLVIVTSPWRRERIFAYLNPWEE+NALGKAYQLSHSLIAFGRGELFGVGLGSSVEKLH
Sbjct: 241 VFSLVIVTSPWRRERIFAYLNPWEEENALGKAYQLSHSLIAFGRGELFGVGLGSSVEKLH 300

Query: 301 YLPEAHTDFLLAVIGEELGFAGVLVVVLLFYWLVKHAFEIGRQAIALDLTFAGLVAKGIG 360
           YLPEAHTDFLLAVIGEELGF GVLVVVLLFYWLVKHAFEIGRQAIALDLTFAGLVAKGIG
Sbjct: 301 YLPEAHTDFLLAVIGEELGFVGVLVVVLLFYWLVKHAFEIGRQAIALDLTFAGLVAKGIG 360

Query: 361 IWLGVQAFINMGVNLGLLPTKGLTLPLMSYGGSGVLLNCVGLAILLRIDYENRVLMRGGR 420
           IWLGVQAFINMGVNLGLLPTKGLTLPLMSYGGSGVLLNCVGLAILLRIDYENRVLMRGGR
Sbjct: 361 IWLGVQAFINMGVNLGLLPTKGLTLPLMSYGGSGVLLNCVGLAILLRIDYENRVLMRGGR 420

Query: 421 L 421
           L
Sbjct: 421 L 421


>gi|300313948|ref|YP_003778040.1| rod shape-determining (RodA
           protein) transmembrane protein [Herbaspirillum
           seropedicae SmR1]
          Length = 369

 Score =  112 bits (281), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 104/378 (27%), Positives = 191/378 (50%), Gaps = 27/378 (7%)

Query: 42  RSRMMEYDQPLIWVVVLLMLFGMVMVYSASVALPDSPKYAAYSNYHFLVRQAIFIVLSII 101
           +  +  +D  L  +V L++  G+V +YSA +  P           + LV   +  + + +
Sbjct: 13  KPHLTVFDGALSLIVFLILSVGIVTLYSAGMNFPGR---VEDQLRNILVAFVVMWIAANV 69

Query: 102 AGALVFRVRIETWQKWAPYLFAVTLILLLLVLIPGVGKGVNGAKRWLSLKIINLQPSELM 161
           +  L+ R+ +         ++ V + LL+ V + G+ K   G++RWL++ ++ +QPSE+M
Sbjct: 70  SPQLLLRLAVP--------VYTVGVTLLIAVALFGIIK--KGSRRWLNIGMV-VQPSEIM 118

Query: 162 KLFIVLYAADYTVRKQAVMHKLVKGFFPMAAAVGLVGLLLLLEPDLGAFGVIVCIAMGIL 221
           K+ + L  A Y  +++ ++      F   A  + + G L++ +PDLG   +++     ++
Sbjct: 119 KIAMPLMLAWYFQKREGMLRW--DAFVVAAILLLIPGFLIIRQPDLGTGLLVLAAGFYVI 176

Query: 222 FLGGINGVWFGGIGATLVGVFSLVIVTS---PWRRERIFAYLNPWEEDNALGKAYQLSHS 278
           F  G+   W    G  + G  SL +V S    ++R+R+   ++P    + LGK + +  S
Sbjct: 177 FFAGLP--WKILAGLFVAGAASLPVVWSFMHDYQRQRVMMLIDP--TSDPLGKGFHIIQS 232

Query: 279 LIAFGRGELFGVG-LGSSVEKLHYLPEAHTDFLLAVIGEELGFAGVLVVVLLFYWLVKHA 337
            IA G G + G G L  +   L ++PE  TDF+ +V  EE G  G +V+++L+  L+   
Sbjct: 233 TIAIGSGGVTGKGWLMGTQTHLEFIPERTTDFIFSVYSEEFGLIGNIVLLVLYLLLIGRG 292

Query: 338 FEIGRQAIALDLTFAGLVAKGIGIWLGVQAFINMGVNLGLLPTKGLTLPLMSYGGSGVLL 397
             I   A  L   F  L+   I +     AF+NMG+  G+LP  G+ LP MSYGG+ ++ 
Sbjct: 293 LMITANAPTL---FTRLLGGAITMIFFTYAFVNMGMVSGILPVVGVPLPFMSYGGTALVT 349

Query: 398 NCVGLAILLRIDYENRVL 415
             +G  IL+ I    +++
Sbjct: 350 LGLGAGILMSIQRHRKLV 367


  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    0.145    0.443 

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: 1,075,702
Number of extensions: 37577
Number of successful extensions: 183
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 179
Number of HSP's successfully gapped: 2
Length of query: 421
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 333
Effective length of database: 1,203,190
Effective search space: 400662270
Effective search space used: 400662270
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 (21.7 bits)
S2: 132 (55.5 bits)