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= 0002.0563.p
         (321 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312847|ref|YP_003776939.1| branched-chain amino acid ABC t...   202   2e-53

>gi|300312847|ref|YP_003776939.1| branched-chain amino acid ABC
           transporter periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 383

 Score =  202 bits (515), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 114/269 (42%), Positives = 160/269 (59%), Gaps = 5/269 (1%)

Query: 18  NDIVVGQSADLSGPYAKLTRQFITGANVYFAQLNSRGGITGRRVRLMTLDDQNDPTLALK 77
            ++V+GQSA  SGP + L R F+ GA  YFA +N++GG+ GRRVRL++LDD  +P     
Sbjct: 33  TEVVLGQSAPFSGPASDLGRDFLVGAQSYFAMVNAKGGVHGRRVRLLSLDDGYEPERTAA 92

Query: 78  NTQDLLDEHKAIALFGYIGAQTTVAVLPLINERKVPYFAPVTGSWIVYAAFNRHVFTIRA 137
           NTQ L+   K  ALFGY G  TT+A LP I E  VP FAPV+G+  +   FNR +F +RA
Sbjct: 93  NTQQLIWRDKVFALFGYSGTATTLAALPAIREANVPLFAPVSGALALREPFNRLIFHVRA 152

Query: 138 SYANEYDYLFSRFTQMGLKRLAIF--NDATGLPHNAMMKAKISNANAQLVASESIMGQN- 194
           SYA E D+L  +    G +++A+F  ND  G      ++ +       LV + ++   + 
Sbjct: 153 SYAQETDFLLRQLQGTGRRKVAVFYQNDELGKSMLEQLRLRALVYGLTLVGTAAVERNSD 212

Query: 195 -VAKIADKLLESRPDVVLIMSISQNVNSALIRSLRAKGYLGYFYCASLVCSPLLTSDLEE 253
            V   A  LL+ +PDVV I  +S    +ALI  +R  GYLG F   S V S  L++ L+E
Sbjct: 213 AVEGAAQALLKVKPDVV-IQVVSYRPAAALIARMRQAGYLGGFSHYSFVGSLSLSARLKE 271

Query: 254 AASGLIISQIVPHPWKARTPIVHEYQKAM 282
              G  I+Q+VP P KAR P+V+EY+KA+
Sbjct: 272 CGIGAEIAQVVPFPNKARLPLVYEYRKAV 300


  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
   0.320    0.132    0.390 

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: 894,776
Number of extensions: 33500
Number of successful extensions: 127
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 130
Number of HSP's successfully gapped: 2
Length of query: 321
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 236
Effective length of database: 1,217,395
Effective search space: 287305220
Effective search space used: 287305220
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)