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= 0240.0005.p
         (257 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312329|ref|YP_003776421.1| transcription-repair ATP-depend...   487   e-139
gi|300310559|ref|YP_003774651.1| TP-dependent DNA helicase RecG ...   157   8e-40

>gi|300312329|ref|YP_003776421.1| transcription-repair ATP-dependent
           coupling factor [Herbaspirillum seropedicae SmR1]
          Length = 1145

 Score =  487 bits (1253), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 238/255 (93%), Positives = 247/255 (96%)

Query: 1   MGGKQVAILAPTTLLAEQHAQTFADRFANWPVRIAELSRFRTGKEVTQAIKGMADGTLDI 60
           MGGKQVAILAPTTLLAEQHA TFADRFANWPV+IAELSRFRTGKEVTQAIKG+ DGT+DI
Sbjct: 649 MGGKQVAILAPTTLLAEQHAATFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDI 708

Query: 61  IIGTHKLLSDDVKFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMA 120
           +IGTHKLLSD+VKFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMA
Sbjct: 709 VIGTHKLLSDEVKFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMA 768

Query: 121 LEGLRDFSIIATAPQKRLAIKTFVRAEGESTIREACLRELKRGGQVYFLHNEVDTIENRK 180
           LEGLRDFS+IATAPQKRLAIKTFVRAE ESTIREACLRELKRGGQVYFLHNEV+TI NRK
Sbjct: 769 LEGLRDFSVIATAPQKRLAIKTFVRAEQESTIREACLRELKRGGQVYFLHNEVETIANRK 828

Query: 181 AMLEALLPEARVVIAHGQMHERDLEKVMRDFVAQRSNILLCTTIIETGIDVPTANTIIMH 240
           A LE LLPEAR+ +AHGQMHERDLEKVMRDFVAQR NILLCTTIIETGIDVPTANTIIMH
Sbjct: 829 AALEQLLPEARIGVAHGQMHERDLEKVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMH 888

Query: 241 RADKFGLAQLHQLRG 255
           RADKFGLAQLHQLRG
Sbjct: 889 RADKFGLAQLHQLRG 903


>gi|300310559|ref|YP_003774651.1| TP-dependent DNA helicase RecG
           protein [Herbaspirillum seropedicae SmR1]
          Length = 722

 Score =  157 bits (397), Expect = 8e-40,   Method: Compositional matrix adjust.
 Identities = 102/275 (37%), Positives = 151/275 (54%), Gaps = 26/275 (9%)

Query: 3   GKQVAILAPTTLLAEQHAQTFADRFANWPVRIAELSRFRTGKEVTQAIKGMADGTLDIII 62
           G Q  ++APT +LAEQH +  A       V +A LS  +  KE T+A+  +  G   ++I
Sbjct: 342 GCQAVLMAPTEILAEQHFRKIAAWMEPLDVGVAWLSGSQKKKEKTEALAHIESGAARLVI 401

Query: 63  GTHKLLSDDVKFSRLGLVIIDEEHRFGVRQKEALKSLR---AEVDV------LTLTATPI 113
           GTH L+ D V+F  LGLVI+DE+HRFGV Q+ AL++     A+ D       L ++ATPI
Sbjct: 402 GTHALIQDTVQFENLGLVIVDEQHRFGVGQRLALRNKSFNPADHDSPAVPHQLMMSATPI 461

Query: 114 PRTLGMALEGLRDFSIIATAPQKRLAIKTFV-----RAEGESTIREACLRELKRGGQVYF 168
           PRTL M      + S+I   P  R  I T V     R E    +  A L     G Q+Y+
Sbjct: 462 PRTLAMTYYADLEVSVIDELPPGRSPIVTRVIDQNRRDEVIERVHAAAL----EGKQIYW 517

Query: 169 LHN--------EVDTIENRKAMLEALLPEARVVIAHGQMHERDLEKVMRDFVAQRSNILL 220
           +          ++ T  +  A L A LP+ ++ + HG+M   + + VM  F     ++L+
Sbjct: 518 VCPLIEESEALQLQTATDTHAALSAALPDLQIGLVHGRMKPVEKQMVMEGFSRGAIHLLV 577

Query: 221 CTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRG 255
            TT+IE G+DVP A+ +++  A++FGL+QLHQLRG
Sbjct: 578 ATTVIEVGVDVPNASLMVIEHAERFGLSQLHQLRG 612


  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
   0.323    0.137    0.389 

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: 751,374
Number of extensions: 28618
Number of successful extensions: 84
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 82
Number of HSP's successfully gapped: 2
Length of query: 257
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 174
Effective length of database: 1,226,865
Effective search space: 213474510
Effective search space used: 213474510
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 129 (54.3 bits)