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= 0022.0396.p
         (384 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...   639   0.0  

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

 Score =  639 bits (1647), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 367/378 (97%), Positives = 373/378 (98%)

Query: 7   MPTSTALPDFPDDDPADLAWWLRLSLAEGVGPATARRLLAAFGLPGQLWQADASAVAAVV 66
           MPTSTALPDFPDDDPADLAWWLRLSLAEGVGPATARRLLAAFGLPGQLWQADASA+AAVV
Sbjct: 1   MPTSTALPDFPDDDPADLAWWLRLSLAEGVGPATARRLLAAFGLPGQLWQADASALAAVV 60

Query: 67  SPALAVRPLGAPTPAVRAQIAATLAWLQQPGHAILTLADSRYPPALLEIADPPLLLYLRG 126
           SPALA R L APTPAVRAQIAATLAWLQQPGHAILTLADSRYPPALL+IADPPLLLYLRG
Sbjct: 61  SPALAARLLRAPTPAVRAQIAATLAWLQQPGHAILTLADSRYPPALLDIADPPLLLYLRG 120

Query: 127 DPAWLSAEAVAVVGSRNATAQGIAHASRFSRELSRAGLTIVSGLALGIDAAAHEGGLDGP 186
           DPAWL AEAVAVVGSRNATAQGIAHASRFSRELSRAGL+IVSGLALGIDAAAHEGGLDGP
Sbjct: 121 DPAWLGAEAVAVVGSRNATAQGIAHASRFSRELSRAGLSIVSGLALGIDAAAHEGGLDGP 180

Query: 187 GSTVAVIGTGIDIVYPRRHEALAARIAAAGCIVSEYPLGTPPLASNFPRRNRLISGLARA 246
           GSTVAVIGTGIDIVYPRRHEALAARIAAAGCIVSEYPLGTPPLASNFPRRNRLISGLARA
Sbjct: 181 GSTVAVIGTGIDIVYPRRHEALAARIAAAGCIVSEYPLGTPPLASNFPRRNRLISGLARA 240

Query: 247 VLVVEAAAQSGSLITARMAAEQGRDVFAIPGSIHAPLAKGCHQLIRQGAKLVETTQDMLD 306
           VLVVEAAAQSGSLITARMAAEQGRDVFAIPGSIHAPLAKGCHQLIRQGAKLVETTQDMLD
Sbjct: 241 VLVVEAAAQSGSLITARMAAEQGRDVFAIPGSIHAPLAKGCHQLIRQGAKLVETTQDMLD 300

Query: 307 ELPSRQAVRVANPSPQSQVEDDAMTSLVMQAMAYDPVDTDTLAARCGLEAAVLAGLLLTL 366
           ELPSRQAVRVA+PSPQSQV+DDAMTSLVMQAMA+DPVD DTLAARCGLEAAVLAGLLLTL
Sbjct: 301 ELPSRQAVRVAHPSPQSQVDDDAMTSLVMQAMAHDPVDIDTLAARCGLEAAVLAGLLLTL 360

Query: 367 ELAGRIELLPGALYRRLE 384
           ELAGRIELLPGALYRRLE
Sbjct: 361 ELAGRIELLPGALYRRLE 378


  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    0.134    0.391 

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: 1,053,405
Number of extensions: 41000
Number of successful extensions: 252
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 252
Number of HSP's successfully gapped: 1
Length of query: 384
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 297
Effective length of database: 1,207,925
Effective search space: 358753725
Effective search space used: 358753725
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)