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= 0002.0330.p
         (442 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313869|ref|YP_003777961.1| superfamily II helicase [Herbas...   389   e-109

>gi|300313869|ref|YP_003777961.1| superfamily II helicase
           [Herbaspirillum seropedicae SmR1]
          Length = 829

 Score =  389 bits (998), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 232/457 (50%), Positives = 287/457 (62%), Gaps = 56/457 (12%)

Query: 16  SEVLGRFRPRLTLQTFTRGDGVLGLRPGGLFGPRGGNVTVAQVDWTYQAXTSRWRRSI-- 73
           S  +  F PRLTLQT TRGDG+LG+R  GLFGPRGG VTVAQ+DW Y      W      
Sbjct: 14  SPTVSAFHPRLTLQTLTRGDGLLGMRAHGLFGPRGGMVTVAQIDWVYGQGAQGWSTPAPT 73

Query: 74  ----------------NLHAEADALEAIQAAGLLPLPADALQWRADDMATIDGQLWSLLL 117
                           +  AEA ALE I+  GLLPL  DALQWRA +     G LW+L+ 
Sbjct: 74  SPNGDQPDYTPAHIQRDHQAEAAALEDIRELGLLPLREDALQWRAHNPLHDAGPLWTLVQ 133

Query: 118 ENNFGDFWADRVPELQQQGWSIVVRPGFAHESVPVESWRVIVSPESGAVLGKEVASAL-- 175
           E  FGDFWAD+ P LQ QGW +  RPGFAHESVPV +WR IVS ++G V+ +EVA+ L  
Sbjct: 134 EEFFGDFWADQAPRLQAQGWILRARPGFAHESVPVTAWRFIVSSQTGEVINREVAAPLTP 193

Query: 176 QQGRTKIIGDFSEPGRAAWWLLTMGVEIEGQFFDLTPMLADLLRRDARWTDVKTIAAIDD 235
           +   +++       GR   WLL +G+E+EGQ  D+ PM+ADLLRRD RW D + +  +D 
Sbjct: 194 RAFSSEVFDGLDPSGR---WLLAIGIEVEGQSMDVAPMVADLLRRDPRWGDAQQVERMDP 250

Query: 236 ISLISLRAPGGKRVDALAAPLKVIVSAMLDLLTDVRRKDGALRISAWDAGRLDDMCRRL- 294
            ++ISLRAPGG+R+DA+A PLK +V A+LDLL D+ RKDG LR++ WDA R+D +   L 
Sbjct: 251 HAVISLRAPGGRRIDAMAGPLKAVVLALLDLLVDLGRKDGPLRLTPWDAHRIDGLQAALQ 310

Query: 295 GEDGATY-----------------------------GNGFHLQSDAGLRELALRXYSRAH 325
           G +GAT                              G G  L+ D     +A   Y R H
Sbjct: 311 GLEGATPWHISGADGLLALARRLRAAGSVAPVPQPDGLGLTLR-DYQRYGVAWMQYLRTH 369

Query: 326 HLAGILADDMGLGKTAQMLAHILIEKQSGRLDCPALVVLPTSLVFNWQAEARRMTPDLRV 385
            LAGILADDMGLGKTAQ+LAH+LIEKQ+GRLD P LVV PTSL+FNWQ EARR+TPDLRV
Sbjct: 370 GLAGILADDMGLGKTAQVLAHVLIEKQAGRLDLPVLVVAPTSLLFNWQQEARRITPDLRV 429

Query: 386 LALQGPQREDDFARMAG--FDIVLTTYPLVWRDLDAL 420
           L L G +R   F+ +A    D+VLT+YPL+WRDLD L
Sbjct: 430 LLLHGQERAQHFSALASGQVDLVLTSYPLLWRDLDQL 466


  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
   0.322    0.138    0.425 

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: 1,347,448
Number of extensions: 56976
Number of successful extensions: 166
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 162
Number of HSP's successfully gapped: 1
Length of query: 442
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 354
Effective length of database: 1,203,190
Effective search space: 425929260
Effective search space used: 425929260
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: 132 (55.5 bits)