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= 0001.2960.p
         (312 letters)

Database: BlastDatabases/707/707 
           3697 sequences; 1,221,021 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|152980289|ref|YP_001353788.1| flagellar motor protein MotB [J...   432   e-122
gi|152980650|ref|YP_001353771.1| flagellar motor protein MotD [J...    79   4e-16

>gi|152980289|ref|YP_001353788.1| flagellar motor protein MotB
           [Janthinobacterium sp. Marseille]
          Length = 328

 Score =  432 bits (1111), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 228/304 (75%), Positives = 259/304 (85%), Gaps = 4/304 (1%)

Query: 1   MADEGLRPIIVKRIKKGGGGHHGGAWKIAYADFVTAMMAFFLLMWLLGSTAKGDLNGIAE 60
           MADEGLRPII+KRIKK GGGHHGGAWKIAYADFVTAMMAFFLLMWLLGST KGDL GIA+
Sbjct: 1   MADEGLRPIIIKRIKKSGGGHHGGAWKIAYADFVTAMMAFFLLMWLLGSTTKGDLQGIAD 60

Query: 61  YFKTPLKVAMAGGSGSGDANTVLPGGGKDLTRQDGQLRKGENDIVSRKQSLKQAQQELER 120
           +F TPLKVAMAGGSGSGD+++V+ GGGKD+TR DGQ +KGE+   ++  +LK A+ ELER
Sbjct: 61  FFSTPLKVAMAGGSGSGDSSSVIKGGGKDMTRIDGQQKKGEDLTPAKNFNLKAAEAELER 120

Query: 121 AERTRLEELKTRLEKAIDSNPTLKQFKNQLLIDITTEGLRIQIVDEKNRPMFALASAQLQ 180
            E  RL+ LK R+EKAID+ P L+QFKNQLLIDITTEGLRIQIVDEKNRPMFALA A+LQ
Sbjct: 121 QEVNRLKALKERIEKAIDTIPGLQQFKNQLLIDITTEGLRIQIVDEKNRPMFALARAELQ 180

Query: 181 PYTKEILHEIGRTLNDVPNKISLSGHTDATPYSQGEKGYSNWELSADRANASRRELIAGG 240
           PYTK ILHEI + LND+PN+ISLSGHTDATPYS GEK YSNWELS+DRANASRRELIAGG
Sbjct: 181 PYTKVILHEIAKILNDIPNRISLSGHTDATPYSSGEKSYSNWELSSDRANASRRELIAGG 240

Query: 241 MDESKVLRVVGLSSAVLLDKEDPFNPINRRISIIVMNKKAEEMVEKDSGSLNVPTDASDD 300
           M E+KVLRVVGLSSAVL D  DP NP+NRRISIIV+NKKAE+ + ++    N   D SD 
Sbjct: 241 MAENKVLRVVGLSSAVLFDSSDPLNPVNRRISIIVLNKKAEDSITQE----NKKVDVSDK 296

Query: 301 DVQQ 304
           +  Q
Sbjct: 297 ESAQ 300


>gi|152980650|ref|YP_001353771.1| flagellar motor protein MotD
           [Janthinobacterium sp. Marseille]
          Length = 259

 Score = 78.6 bits (192), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 70/276 (25%), Positives = 126/276 (45%), Gaps = 34/276 (12%)

Query: 26  WKIAYADFVTAMMAFFLLMWLLGSTAKGDLNGIAEYFKTPLKVAMAGGSGSGDANTVLPG 85
           W ++YADF+T + AFF++M+ + S  +G          + L +A  G +           
Sbjct: 16  WLVSYADFITLLFAFFVVMYAISSVNEGKY----RILSSSLGIAFGGVAA---------- 61

Query: 86  GGKDLTRQDGQLRKGENDIVSRKQSLKQAQQELERAERTRLEELKTRLEKAIDSNPTLKQ 145
             K  T +D   +      +      ++A + + + E+ R+  +   + KA+   P + Q
Sbjct: 62  --KTQTIKDPVSQNAPILPLPIPTPAQRANEAVVKREKARMTSIARDILKAMA--PLVSQ 117

Query: 146 FKNQLLIDITTEGLRIQIVDEKNRPMFALASAQLQPYTKEILHEIGRTLNDVPNKISLSG 205
            K  + +  T  G+ ++I       +FA   A+L   ++  L  + + L DV N I + G
Sbjct: 118 GK--VRVTQTNRGVSVEI---NASVLFAPGEAKLNAQSEAALRAVAQVLKDVDNDIQVEG 172

Query: 206 HTDATPYSQGEKGYSNWELSADRANASRRELIAGGMDESKVLRVVGLSSAVLLDKEDPF- 264
           HTD TP +      SNWELSA RA++  R  +A G+ E + L  +G  + + +D  D   
Sbjct: 173 HTDNTPIN-NTMFPSNWELSAVRASSVVRLFLANGVAEKR-LVAMGHGANLPVDSNDTTE 230

Query: 265 -NPINRRISIIVMNKKAEEMVEKDSGSLNVPTDASD 299
               NRR+ +++++   + + E       VP  A D
Sbjct: 231 GRLRNRRVQLMILSGVPDVVTE-------VPVTAED 259


  Database: BlastDatabases/707/707
    Posted date:  Apr 13, 2011 12:58 PM
  Number of letters in database: 1,221,021
  Number of sequences in database:  3697
  
Lambda     K      H
   0.313    0.132    0.371 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3697
Number of Hits to DB: 627,516
Number of extensions: 22693
Number of successful extensions: 63
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 62
Number of HSP's successfully gapped: 2
Length of query: 312
Length of database: 1,221,021
Length adjustment: 83
Effective length of query: 229
Effective length of database: 914,170
Effective search space: 209344930
Effective search space used: 209344930
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 129 (54.3 bits)