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= 0047.0019.p
         (287 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Her...   243   1e-65
gi|300312872|ref|YP_003776964.1| ATP-dependent RNA helicase [Her...   225   3e-60
gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Her...   224   6e-60

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

 Score =  243 bits (620), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 125/259 (48%), Positives = 167/259 (64%), Gaps = 1/259 (0%)

Query: 1   VLAPTRELAIQVAEAFQRYATHIPGFQVLPIYGGQSYGPQLSALRRGVHVVVGTPGRVID 60
           VL PTRELA+QV  A  +Y  ++   +V+ I GG  Y  Q+  L R   ++V TPGR+ID
Sbjct: 101 VLTPTRELALQVTTATDKYGAYMRRVRVVSILGGMPYPKQMQLLSRNPEILVATPGRLID 160

Query: 61  HLDKGSLDLSQLKTMVLDEADEMLRMGFIDDVESILKKTPATRQTTLFSATMPAVIKRIA 120
           H++ G +D SQL+ +VLDEAD ML MGFIDD+E I+  TPATRQT LFSAT+  V+  +A
Sbjct: 161 HMESGKIDFSQLQILVLDEADRMLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMA 220

Query: 121 KTYLRDPAEVTIAAKTGTAENIRQRYWLVSGM-HKLDALTRILEVEPFDGLIIFSRTKLG 179
           K    +P  + IA+ +   ENI QR   V  + HK   L  +L     D  +IF+ TK  
Sbjct: 221 KRITNNPLTIQIASSSTRHENIMQRVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATKRD 280

Query: 180 TEELAGKLKARGFAAAAINGDVQQQQRERTIQQLKDGQIDILIATDVAARGLDVERISHV 239
            + +A +L   GFAAAA++GD+ Q  R RT+  L+ GQ+ +L+ATDVAARG+DV  I+HV
Sbjct: 281 ADTIADRLNIAGFAAAALHGDMHQGARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHV 340

Query: 240 INYDVPYDPESYTHRIGRT 258
            NYD+P   E Y HRIGRT
Sbjct: 341 FNYDLPKFAEDYVHRIGRT 359


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

 Score =  225 bits (574), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 113/258 (43%), Positives = 162/258 (62%), Gaps = 1/258 (0%)

Query: 1   VLAPTRELAIQVAEAFQRYATHIPGFQVLPIYGGQSYGPQLSALRRGVHVVVGTPGRVID 60
           +L PTRELA QVA+    Y    P  +   ++GG    PQ + LR GV +V+ TPGR++D
Sbjct: 97  ILTPTRELADQVADNVAAYCRFTP-LRSTVVFGGVDMAPQTAILRAGVEIVIATPGRLLD 155

Query: 61  HLDKGSLDLSQLKTMVLDEADEMLRMGFIDDVESILKKTPATRQTTLFSATMPAVIKRIA 120
           H+ + +++LSQ + +V+DEAD ML MGF+ D++ I+   P  RQ  LFSAT    IK++A
Sbjct: 156 HVQQKTVNLSQTQILVMDEADRMLDMGFLPDLQRIINLLPKQRQNLLFSATFSPEIKKLA 215

Query: 121 KTYLRDPAEVTIAAKTGTAENIRQRYWLVSGMHKLDALTRILEVEPFDGLIIFSRTKLGT 180
            ++  +P  + +A    TAEN+ Q  + V    K DA++ I+       +I+FS TK+G 
Sbjct: 216 ASFQNNPVTIEVARSNATAENVTQTIYKVEEAAKADAVSFIIRQRELKQVIVFSNTKIGA 275

Query: 181 EELAGKLKARGFAAAAINGDVQQQQRERTIQQLKDGQIDILIATDVAARGLDVERISHVI 240
             LA  L A G  A+AI+GD  Q +R   ++  K GQI++L+ATDVAARGLD+  +  VI
Sbjct: 276 SRLARTLVAEGVKASAIHGDKTQSERMAALEAFKQGQIEVLVATDVAARGLDIAELPCVI 335

Query: 241 NYDVPYDPESYTHRIGRT 258
           NYD+PY+ E Y HRIGRT
Sbjct: 336 NYDLPYNAEDYVHRIGRT 353


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

 Score =  224 bits (571), Expect = 6e-60,   Method: Compositional matrix adjust.
 Identities = 109/258 (42%), Positives = 166/258 (64%), Gaps = 1/258 (0%)

Query: 1   VLAPTRELAIQVAEAFQRYATHIPGFQVLPIYGGQSYGPQLSALRRGVHVVVGTPGRVID 60
           +LAPTRELA QV E+ ++Y  ++P      I+GG    PQ++ L+RGV ++V TPGR++D
Sbjct: 81  ILAPTRELAAQVEESVRQYGKYLP-LTSACIFGGVGINPQITLLKRGVDILVATPGRLLD 139

Query: 61  HLDKGSLDLSQLKTMVLDEADEMLRMGFIDDVESILKKTPATRQTTLFSATMPAVIKRIA 120
           H+ +G+++L  ++ +VLDEAD ML MGFI D+  +L   P  RQ  LFSAT    IK++A
Sbjct: 140 HMQQGTVNLQHIQILVLDEADRMLDMGFIRDIRKVLAALPPKRQNLLFSATFADEIKKLA 199

Query: 121 KTYLRDPAEVTIAAKTGTAENIRQRYWLVSGMHKLDALTRILEVEPFDGLIIFSRTKLGT 180
            + L +PA + +A +  T E I Q+   V    K   L  +++   +  +++F+RTK G 
Sbjct: 200 DSLLNNPALIEVARRNSTVEVIAQKIHPVDRDKKHPMLAHLIKTHQWKQVLVFTRTKHGA 259

Query: 181 EELAGKLKARGFAAAAINGDVQQQQRERTIQQLKDGQIDILIATDVAARGLDVERISHVI 240
            +L  +L   G  A AI+G+  Q  R + + + KDG++  LIATD+AARG+D++++ HV+
Sbjct: 260 NKLVEQLGRDGITAMAIHGNKSQSARTKALAEFKDGKLTALIATDIAARGIDIDQLPHVV 319

Query: 241 NYDVPYDPESYTHRIGRT 258
           NYD+P  PE Y HRIGRT
Sbjct: 320 NYDLPNVPEDYVHRIGRT 337


  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
   0.321    0.137    0.401 

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: 890,260
Number of extensions: 36102
Number of successful extensions: 130
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 127
Number of HSP's successfully gapped: 3
Length of query: 287
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 203
Effective length of database: 1,222,130
Effective search space: 248092390
Effective search space used: 248092390
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 (21.9 bits)
S2: 130 (54.7 bits)