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= 0009.0004.p
         (458 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310196|ref|YP_003774288.1| ATP-dependent DNA helicase [Her...   481   e-137

>gi|300310196|ref|YP_003774288.1| ATP-dependent DNA helicase
           [Herbaspirillum seropedicae SmR1]
          Length = 1158

 Score =  481 bits (1237), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 247/358 (68%), Positives = 280/358 (78%), Gaps = 9/358 (2%)

Query: 1   LIAYESALREAGIPFVSDKRGGLLDSLEIADLIALLTFLITPNDTRALAHVLKSPIIGAS 60
           L AYESALR AGIPF+SDKRGGLL+SLEIADLIALLTFLITPNDTRALAHVLKSPII A+
Sbjct: 635 LAAYESALRAAGIPFISDKRGGLLESLEIADLIALLTFLITPNDTRALAHVLKSPIISAT 694

Query: 61  DEDLIALAQRGE----ADWWKRVLAMAAQESGAASAAIARAAHLLAQWLDAAPHYPVHDL 116
           D+DL+ +A+R        WW+++ AM  Q+ GAASAA+ RA  LL +WL AAPH PVHDL
Sbjct: 695 DDDLVQIARRAAQAEGGHWWRQLQAM--QQEGAASAALVRAVTLLQRWLLAAPHLPVHDL 752

Query: 117 LDRILHEGQLAARYAQAVAPSMRSQALGNIEAFVELALNLDAGRYPSLPKFIDALRVLQR 176
           LD ILH+G+L ARYAQ  +P  RSQ LGNI AFVEL+LN+DAGRYPSLPKFIDALRVLQR
Sbjct: 753 LDMILHQGELVARYAQHASPLTRSQTLGNIAAFVELSLNMDAGRYPSLPKFIDALRVLQR 812

Query: 177 HAESDAPDEASIDAAADAVRILTVHSAKGLEAPVVVMMDTNHSDPASDNFGILCDWPQDE 236
            A  DAPDEAS+DA+ DAVRILTVHSAKGLEAPVV ++D NHSD   DN GILC WPQDE
Sbjct: 813 SAGGDAPDEASVDASGDAVRILTVHSAKGLEAPVVAILDANHSDSVEDNLGILCAWPQDE 872

Query: 237 DAPTHFSAFGRKSERGTARDRWFDAEEHFKMQEDWNLLYVALTRAKQLLIVSGVAGTKGA 296
           DAPTHFSAFGR+SERG+ARD  F+ EE  + QEDWNLLYVA+TRAKQLL+VSGVAGT+GA
Sbjct: 873 DAPTHFSAFGRRSERGSARDPLFEEEETLRTQEDWNLLYVAVTRAKQLLLVSGVAGTRGA 932

Query: 297 LEGGIQEGSWYARLFDRAGEEQGVEQIVPPAQANDAVRQREEYFELPLFTPAPLPAXL 354
             GG+ +GSWY RLF     +  V +I   A         EE F L LF P PLP  L
Sbjct: 933 DAGGVVQGSWYQRLF---ASDAPVREISEEAVHGAEAAAIEERFSLALFDPRPLPMSL 987



 Score =  160 bits (405), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 78/109 (71%), Positives = 93/109 (85%)

Query: 350  LPAXLAAVIRAQAVAMLAQPALERFFNPALHRYARDEMEIVTTDGVLRCDRVVVFDDEVW 409
            + A +A V+ AQA  +LAQP LERFFNPALHR+AR+EMEIVT +G++R DRVV+FDDE+W
Sbjct: 1049 ISAEMAQVVHAQAREVLAQPQLERFFNPALHRWARNEMEIVTPNGLMRLDRVVMFDDELW 1108

Query: 410  VLDYKRNLLDSERTAYQAQLARYRTALLSVFSDKQIRSALITADGRLWE 458
            V+DYKR LLDSER  Y AQL RYR+AL+SVFSDKQIRSALITA+G L E
Sbjct: 1109 VIDYKRRLLDSERADYAAQLGRYRSALMSVFSDKQIRSALITAEGALIE 1157


  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
   0.320    0.134    0.395 

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: 1,344,073
Number of extensions: 53549
Number of successful extensions: 212
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 211
Number of HSP's successfully gapped: 2
Length of query: 458
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 370
Effective length of database: 1,203,190
Effective search space: 445180300
Effective search space used: 445180300
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 (21.8 bits)
S2: 132 (55.5 bits)