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= 0226.0001.p
         (243 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312872|ref|YP_003776964.1| ATP-dependent RNA helicase [Her...   177   1e-45
gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Her...    98   5e-22
gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Her...    80   1e-16

>gi|300312872|ref|YP_003776964.1| ATP-dependent RNA helicase
           [Herbaspirillum seropedicae SmR1]
          Length = 487

 Score =  177 bits (448), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 86/103 (83%), Positives = 89/103 (86%)

Query: 16  VRFEDFGLSPDILKALTAQGYIHPTPIQEQAIPIVLQGRDVMGAAQTGTGKTAGFSLPII 75
           VRFEDFGLSPDILKAL  QGY+HPTPIQ QAIP+VLQGRDVMGAAQTGTGKTAGFSLPII
Sbjct: 16  VRFEDFGLSPDILKALAEQGYVHPTPIQAQAIPVVLQGRDVMGAAQTGTGKTAGFSLPII 75

Query: 76  QLLLAHASTSMSPARHPVRALILTPTRELADQVAXEKLIKIKF 118
           Q LL HAS S SPARHPVRALILTPTRELADQVA       +F
Sbjct: 76  QRLLQHASHSASPARHPVRALILTPTRELADQVADNVAAYCRF 118



 Score =  102 bits (253), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 60/105 (57%), Positives = 65/105 (61%), Gaps = 27/105 (25%)

Query: 111 EKLIKIKFVRAELAGFVPRQRSERSDRGGERGERPERSGRGERTERGDRGDRGERSSSAA 170
           EKLIK KF RAEL GF PR R ERSD    R ER ERS RGER++RGDR DRGERS S+ 
Sbjct: 378 EKLIKKKFERAELTGFAPRARHERSD----RAERGERSERGERSDRGDRSDRGERSRSS- 432

Query: 171 SGSSDGERSSVRRDTQSYGRSGG---VRREKVDPWFLKPYEPTAA 212
                              R GG   +RREKVDPWFLKPYEP+A 
Sbjct: 433 -------------------REGGAAPMRREKVDPWFLKPYEPSAV 458


>gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase
           [Herbaspirillum seropedicae SmR1]
          Length = 520

 Score = 98.2 bits (243), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 51/91 (56%), Positives = 65/91 (71%), Gaps = 1/91 (1%)

Query: 18  FEDFGLSPDILKALTAQGYIHPTPIQEQAIPIVLQGRDVMGAAQTGTGKTAGFSLPIIQL 77
           F   GLS +I++A++ QGY  PTPIQ QA+P VL G D++  AQTGTGKTAGF+LP++Q 
Sbjct: 3   FSALGLSDEIVRAVSEQGYTSPTPIQAQAVPAVLSGGDLLAGAQTGTGKTAGFTLPLLQR 62

Query: 78  LLAHASTSMSPARHPVRALILTPTRELADQV 108
           L A     ++    P+RALIL PTRELA QV
Sbjct: 63  LSAMPRQKIN-GHVPIRALILAPTRELAAQV 92


>gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase
           [Herbaspirillum seropedicae SmR1]
          Length = 510

 Score = 80.1 bits (196), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 48/110 (43%), Positives = 64/110 (58%), Gaps = 19/110 (17%)

Query: 18  FEDFGLSPDILKALTAQGYIHPTPIQEQAIPIVLQGRDVMGAAQTGTGKTAGFSLPIIQL 77
           FE  GL+P I+KALT  GY  PTP+QE+AIP  + G+D++ ++QTG+GKTA F LP +  
Sbjct: 3   FEALGLNPSIIKALTEAGYTSPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSLHQ 62

Query: 78  LLA-----HASTSMSPARHPVRA--------------LILTPTRELADQV 108
           L        A+ + +  R   RA              L+LTPTRELA QV
Sbjct: 63  LADLPPAPQAARTPNQERQASRARGERPRYQPAQPKMLVLTPTRELALQV 112


  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
   0.313    0.131    0.381 

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: 540,921
Number of extensions: 16480
Number of successful extensions: 50
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 47
Number of HSP's successfully gapped: 4
Length of query: 243
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 160
Effective length of database: 1,226,865
Effective search space: 196298400
Effective search space used: 196298400
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)