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= 0036.0056.p
         (389 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313961|ref|YP_003778053.1| SMF protein involved in DNA upt...   463   e-132

>gi|300313961|ref|YP_003778053.1| SMF protein involved in DNA uptake
           protein [Herbaspirillum seropedicae SmR1]
          Length = 378

 Score =  463 bits (1192), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 258/364 (70%), Positives = 298/364 (81%), Gaps = 5/364 (1%)

Query: 25  AAWLRLAMTDGIGPVLARRLLAVFGLPQGIWQADQEALRAVVPAPVAARLVCAPTAQQRE 84
           A WLRL++ +G+GP  ARRLLA FGLP  +WQAD  AL AVV   +AARL+ APT   R 
Sbjct: 19  AWWLRLSLAEGVGPATARRLLAAFGLPGQLWQADASALAAVVSPALAARLLRAPTPAVRA 78

Query: 85  RIAATLAWAQMPGQSVITLADASYPPGLLQIADPPLLLYVRGNPALLAGNALAVVGSRNA 144
           +IAATLAW Q PG +++TLAD+ YPP LL IADPPLLLY+RG+PA L   A+AVVGSRNA
Sbjct: 79  QIAATLAWLQQPGHAILTLADSRYPPALLDIADPPLLLYLRGDPAWLGAEAVAVVGSRNA 138

Query: 145 TAQGVQHAGRFSEELSRGGITIVSGLALGIDAAAHAGGLVGPGSTVAVIGTGIDLDYPQR 204
           TAQG+ HA RFS ELSR G++IVSGLALGIDAAAH GGL GPGSTVAVIGTGID+ YP+R
Sbjct: 139 TAQGIAHASRFSRELSRAGLSIVSGLALGIDAAAHEGGLDGPGSTVAVIGTGIDIVYPRR 198

Query: 205 NRALAQRIAEGGCIVSEYALGTPPLAANFPRRNRLISGLSRAVLVVEAAARSGSLITARM 264
           + ALA RIA  GCIVSEY LGTPPLA+NFPRRNRLISGL+RAVLVVEAAA+SGSLITARM
Sbjct: 199 HEALAARIAAAGCIVSEYPLGTPPLASNFPRRNRLISGLARAVLVVEAAAQSGSLITARM 258

Query: 265 AAEQGRDVFAIPGSIHAPLSKGCHQLIRQGAKLVETTQDILDELPGWSTLPKQQAVVRAT 324
           AAEQGRDVFAIPGSIHAPL+KGCHQLIRQGAKLVETTQD+LDELP      +Q   V   
Sbjct: 259 AAEQGRDVFAIPGSIHAPLAKGCHQLIRQGAKLVETTQDMLDELPS-----RQAVRVAHP 313

Query: 325 SSRTKDELDAASQQLLQSLGHDPVDADTLALRCGLDAAGLAGSLLTLELQGWVELLPGSR 384
           S +++ + DA +  ++Q++ HDPVD DTLA RCGL+AA LAG LLTLEL G +ELLPG+ 
Sbjct: 314 SPQSQVDDDAMTSLVMQAMAHDPVDIDTLAARCGLEAAVLAGLLLTLELAGRIELLPGAL 373

Query: 385 YRRI 388
           YRR+
Sbjct: 374 YRRL 377


  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    0.135    0.394 

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: 1,126,618
Number of extensions: 44710
Number of successful extensions: 203
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 202
Number of HSP's successfully gapped: 1
Length of query: 389
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 302
Effective length of database: 1,207,925
Effective search space: 364793350
Effective search space used: 364793350
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: 131 (55.1 bits)