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= 0005.0003.p
         (97 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313454|ref|YP_003777546.1| ABC transporter periplasmic pro...   168   7e-44
gi|300313455|ref|YP_003777547.1| ABC transporter periplasmic pro...   149   3e-38

>gi|300313454|ref|YP_003777546.1| ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 329

 Score =  168 bits (426), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 80/93 (86%), Positives = 87/93 (93%)

Query: 5   SKTKVCNDAKIPLLASDTGSVKRGAVAALGVNFYDLGRQTGKIVARILKGEKPGDIPSST 64
           S  KVCNDAK+PL+ASDTGSVKRGAVAALGVNFYD+GRQTGK+V RILKGEK GDIPSS 
Sbjct: 237 SLAKVCNDAKLPLIASDTGSVKRGAVAALGVNFYDMGRQTGKLVVRILKGEKAGDIPSSP 296

Query: 65  SKNLELYINTTAAQKQGVTLSPEFLKSATKVIN 97
            KNLELY+NT+AAQKQGVTLSPEFLKSATKV+N
Sbjct: 297 VKNLELYVNTSAAQKQGVTLSPEFLKSATKVLN 329


>gi|300313455|ref|YP_003777547.1| ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 326

 Score =  149 bits (377), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 71/89 (79%), Positives = 79/89 (88%)

Query: 8   KVCNDAKIPLLASDTGSVKRGAVAALGVNFYDLGRQTGKIVARILKGEKPGDIPSSTSKN 67
           KV NDAKIPL+ASDT SVKRGA+AALGVN+YDLGRQTGK+V RILKGEKPGDIPS+TS  
Sbjct: 236 KVGNDAKIPLVASDTDSVKRGAIAALGVNYYDLGRQTGKVVGRILKGEKPGDIPSATSSK 295

Query: 68  LELYINTTAAQKQGVTLSPEFLKSATKVI 96
           LEL++NT AAQKQGVTLSPE + SA  VI
Sbjct: 296 LELFVNTAAAQKQGVTLSPELVNSAKTVI 324


  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
   0.313    0.130    0.353 

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: 256,520
Number of extensions: 9112
Number of successful extensions: 28
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 28
Number of HSP's successfully gapped: 2
Length of query: 97
Length of database: 1,619,870
Length adjustment: 66
Effective length of query: 31
Effective length of database: 1,307,360
Effective search space: 40528160
Effective search space used: 40528160
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 123 (52.0 bits)