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= 0037.0108.p
         (408 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 ...   629   0.0  
gi|300312329|ref|YP_003776421.1| transcription-repair ATP-depend...    59   5e-10

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

 Score =  629 bits (1623), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 338/366 (92%), Positives = 352/366 (96%), Gaps = 1/366 (0%)

Query: 1   MPATAKKTTPPASKKKAAPAAKAAAKPAAKPENKLAKLGLHNDMDLVLHLPLRYEDETTL 60
           MPATAKKT+PPA KKKA  A  AA   A   ENKLAKLGLHNDMDLVLHLPLRYEDET+L
Sbjct: 18  MPATAKKTSPPAPKKKATAAKSAAKPAAKP-ENKLAKLGLHNDMDLVLHLPLRYEDETSL 76

Query: 61  MSIAEASMRGLQTVQVEGVVTACDVQFHPRRQLIVTVGDDSGQLTLRFINFYGSQTKQLA 120
           MSIAEASMRGLQTVQVEGVV++C+VQF PRRQLIVTVGDDSGQLTLRF+NFYGSQTKQ+A
Sbjct: 77  MSIAEASMRGLQTVQVEGVVSSCEVQFRPRRQLIVTVGDDSGQLTLRFLNFYGSQTKQMA 136

Query: 121 EGTRVRVRGELRHGFFGAEMVHPSYKVVNEGAPLPDVLTPVYPAGEGLSQAYLRKAIANA 180
           EGTR+RVRGELRHGFFGAEMVHPSYKVVNEGAPLPDVLTPVYPAGEGLSQAYLRKAIANA
Sbjct: 137 EGTRLRVRGELRHGFFGAEMVHPSYKVVNEGAPLPDVLTPVYPAGEGLSQAYLRKAIANA 196

Query: 181 MSRLDWSDTLPPSMLETLNLAGFEPSVRLLHNPPPDVDEHALIERSHPAWIRMKFDELLA 240
           MSRLDWSDTLPPSML TLNLA FEPSVRLLHNPPPDVDEHALIE+SHPAWIRMKFDELLA
Sbjct: 197 MSRLDWSDTLPPSMLATLNLAAFEPSVRLLHNPPPDVDEHALIEKSHPAWIRMKFDELLA 256

Query: 241 QQLSLKRAQAARRAKTSRALPVTGRITEELTKVLPFQLTGAQQRVLEEIRADLRQSFPMQ 300
           QQLSLKRAQAARRAK++RALPVTGRITEELT++LPFQLTGAQQRVLEEIRADLRQSFPMQ
Sbjct: 257 QQLSLKRAQAARRAKSARALPVTGRITEELTRLLPFQLTGAQQRVLEEIRADLRQSFPMQ 316

Query: 301 RLLQGDVGSGKTVVAALAAAQAIDSGCQAVLMAPTEILAEQHFRKIAAWMEPLNVGVAWL 360
           RLLQGDVGSGKTVVAALAAAQAIDSGCQAVLMAPTEILAEQHFRKIAAWMEPL+VGVAWL
Sbjct: 317 RLLQGDVGSGKTVVAALAAAQAIDSGCQAVLMAPTEILAEQHFRKIAAWMEPLDVGVAWL 376

Query: 361 SGSQKK 366
           SGSQKK
Sbjct: 377 SGSQKK 382


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

 Score = 59.3 bits (142), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 41/112 (36%), Positives = 53/112 (47%), Gaps = 1/112 (0%)

Query: 251 ARRA-KTSRALPVTGRITEELTKVLPFQLTGAQQRVLEEIRADLRQSFPMQRLLQGDVGS 309
           ARRA +   A   +    E       F+ T  Q   +  +  D+    PM RL+ GDVG 
Sbjct: 575 ARRALRQGHAFQYSAHDYEAFADSFGFEETADQAAAINAVIKDMTGGKPMDRLICGDVGF 634

Query: 310 GKTVVAALAAAQAIDSGCQAVLMAPTEILAEQHFRKIAAWMEPLNVGVAWLS 361
           GKT VA  AA  A+  G Q  ++APT +LAEQH    A       V +A LS
Sbjct: 635 GKTEVALRAAFVAVMGGKQVAILAPTTLLAEQHAATFADRFANWPVKIAELS 686


  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
   0.318    0.130    0.387 

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: 1,123,913
Number of extensions: 45167
Number of successful extensions: 177
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 177
Number of HSP's successfully gapped: 2
Length of query: 408
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 321
Effective length of database: 1,207,925
Effective search space: 387743925
Effective search space used: 387743925
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 132 (55.5 bits)