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= 0038.0043.p
         (313 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310559|ref|YP_003774651.1| TP-dependent DNA helicase RecG ...   457   e-130
gi|300312329|ref|YP_003776421.1| transcription-repair ATP-depend...   160   1e-40

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

 Score =  457 bits (1175), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 230/278 (82%), Positives = 247/278 (88%), Gaps = 5/278 (1%)

Query: 1   MAPTEILADQHFRKIAAWMEPLGVKVAWLTGSLKKKEKAAANVLIESGEARLVIGTHALI 60
           MAPTEILA+QHFRKIAAWMEPL V VAWL+GS KKKEK  A   IESG ARLVIGTHALI
Sbjct: 348 MAPTEILAEQHFRKIAAWMEPLDVGVAWLSGSQKKKEKTEALAHIESGAARLVIGTHALI 407

Query: 61  QDNVQFQKLGLVIVDEQHRFGVGQRLALRNKARD-GDADINAAPQTVPHQLMMSATPIPR 119
           QD VQF+ LGLVIVDEQHRFGVGQRLALRNK+ +  D D  A    VPHQLMMSATPIPR
Sbjct: 408 QDTVQFENLGLVIVDEQHRFGVGQRLALRNKSFNPADHDSPA----VPHQLMMSATPIPR 463

Query: 120 TLAMTYYADLEVSVIDELPPGRTPIVTRTIDQNRRDEVIARVHAAAQEGRQVYWVCPLIE 179
           TLAMTYYADLEVSVIDELPPGR+PIVTR IDQNRRDEVI RVHAAA EG+Q+YWVCPLIE
Sbjct: 464 TLAMTYYADLEVSVIDELPPGRSPIVTRVIDQNRRDEVIERVHAAALEGKQIYWVCPLIE 523

Query: 180 ESEALQLQTATDTYSMLAEALPDLRIGLVHGRLRQAEKQDVMDAFSRGEIHVLVATTVIE 239
           ESEALQLQTATDT++ L+ ALPDL+IGLVHGR++  EKQ VM+ FSRG IH+LVATTVIE
Sbjct: 524 ESEALQLQTATDTHAALSAALPDLQIGLVHGRMKPVEKQMVMEGFSRGAIHLLVATTVIE 583

Query: 240 VGVDVPNASLMVIEHAERFGLSQLHQLRGRVGRGAAAS 277
           VGVDVPNASLMVIEHAERFGLSQLHQLRGRVGRG+AAS
Sbjct: 584 VGVDVPNASLMVIEHAERFGLSQLHQLRGRVGRGSAAS 621


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

 Score =  160 bits (405), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 103/274 (37%), Positives = 150/274 (54%), Gaps = 25/274 (9%)

Query: 1   MAPTEILADQHFRKIAAWMEPLGVKVAWLTGSLKKKEKAAANVLIESGEARLVIGTHALI 60
           +APT +LA+QH    A       VK+A L+     KE   A   +  G   +VIGTH L+
Sbjct: 657 LAPTTLLAEQHAATFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLL 716

Query: 61  QDNVQFQKLGLVIVDEQHRFGVGQRLALRNKARDGDADINAAPQTVPHQLMMSATPIPRT 120
            D V+F +LGLVI+DE+HRFGV Q+ AL++   + D             L ++ATPIPRT
Sbjct: 717 SDEVKFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDV------------LTLTATPIPRT 764

Query: 121 LAMTYYADLEVSVIDELPPGRTPIVT--RTIDQNRRDEVIARVHAAAQEGRQVYWVCPLI 178
           L M      + SVI   P  R  I T  R   ++   E   R     + G QVY++   +
Sbjct: 765 LGMALEGLRDFSVIATAPQKRLAIKTFVRAEQESTIREACLR---ELKRGGQVYFLHNEV 821

Query: 179 EESEALQLQTATDTYSMLAEALPDLRIGLVHGRLRQAEKQDVMDAFSRGEIHVLVATTVI 238
           E        T  +  + L + LP+ RIG+ HG++ + + + VM  F     ++L+ TT+I
Sbjct: 822 E--------TIANRKAALEQLLPEARIGVAHGQMHERDLEKVMRDFVAQRFNILLCTTII 873

Query: 239 EVGVDVPNASLMVIEHAERFGLSQLHQLRGRVGR 272
           E G+DVP A+ +++  A++FGL+QLHQLRGRVGR
Sbjct: 874 ETGIDVPTANTIIMHRADKFGLAQLHQLRGRVGR 907


  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
   0.319    0.133    0.382 

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: 925,037
Number of extensions: 35592
Number of successful extensions: 145
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 143
Number of HSP's successfully gapped: 2
Length of query: 313
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 228
Effective length of database: 1,217,395
Effective search space: 277566060
Effective search space used: 277566060
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: 130 (54.7 bits)