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= 0218.0019.p
         (236 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC t...   443   e-126
gi|300312236|ref|YP_003776328.1| amino acid ABC transporter peri...    63   2e-11
gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t...    58   6e-10

>gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC
           transporter periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 383

 Score =  443 bits (1139), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 218/236 (92%), Positives = 222/236 (94%), Gaps = 7/236 (2%)

Query: 1   MIADEAVDKQKXAKMIADEAVVAILADSTNYGQLGREDLEKVLASKKVTPVAVEKYNIKD 60
           MIADEAVDKQK  K       VAILADSTNYGQLGREDLEKVLA KKVTPVAVEKYNIKD
Sbjct: 155 MIADEAVDKQKFTK-------VAILADSTNYGQLGREDLEKVLADKKVTPVAVEKYNIKD 207

Query: 61  VDMTAQLLKSKQGGAQVVLTYGIGPELAQIANGMEKLNWHVPIIGSWPLSMGNFIDNSGK 120
           VDMTAQLLKSKQGGAQ VLTYGIGPELAQIANGMEKLNWHVPIIGSWPLSMGNFIDNSGK
Sbjct: 208 VDMTAQLLKSKQGGAQAVLTYGIGPELAQIANGMEKLNWHVPIIGSWPLSMGNFIDNSGK 267

Query: 121 NGNGARMPQTFIQDGNTPKRKAFIEAYQKAYKVDRIPSAVSAAQGYDSIYLLAAAIKQAG 180
           NGNGARMPQTFIQDGNTPKRKAFIEAYQKAYKVDR+PSAVSAAQGYDSI LLAAAIKQAG
Sbjct: 268 NGNGARMPQTFIQDGNTPKRKAFIEAYQKAYKVDRMPSAVSAAQGYDSILLLAAAIKQAG 327

Query: 181 TTDGEKVRAALENLNTKVEGVVTTYEKPFSHTDHEAIKPNMVVMGEVKNGRVILGK 236
           TTDG+KVRAALENLNTKVEGVVTTY+KPF+H DHEAIKP MVVMGEVKNGRVILGK
Sbjct: 328 TTDGDKVRAALENLNTKVEGVVTTYDKPFTHDDHEAIKPAMVVMGEVKNGRVILGK 383


>gi|300312236|ref|YP_003776328.1| amino acid ABC transporter
           periplasmic protein [Herbaspirillum seropedicae SmR1]
          Length = 385

 Score = 63.2 bits (152), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 82/190 (43%), Gaps = 10/190 (5%)

Query: 21  VVAILADSTNYGQLGREDLEKVLASKKVTPVAVEKYNIKDVDMTAQLLKSKQGGAQVVLT 80
           V  I  +   + + G +  +  L  +K+     E Y   DVD  AQL K K G    ++ 
Sbjct: 166 VAVIYGNDDAFTKSGYDVFKATLEHQKIPVTTTEAYAKGDVDFKAQLTKIKAGNPDAIVC 225

Query: 81  YGIGPELAQIANGMEKLNWHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKR 140
             +  E A I      L    P IG   L+     + +   G+   M   +  +  TP  
Sbjct: 226 SCLAEEAANIILQTRALGMKQPFIGGNGLNSPKLFEIAKDAGDNTLMGSPWSAENQTPAN 285

Query: 141 KAFIEAYQKAYKVDRIPSAVSAAQGYDSIYLLAAAIKQAGTT-----DGEKVRAALENLN 195
           KAFI AY+  +  D  P    AAQ YD++Y++A A+K    +     D + +RAAL  + 
Sbjct: 286 KAFITAYKAKFGAD--PDQF-AAQAYDAMYIVADALKNVKLSGNLAKDRDALRAALPAV- 341

Query: 196 TKVEGVVTTY 205
            K++G    +
Sbjct: 342 -KIDGATGKF 350


>gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC
           transporter periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 378

 Score = 58.2 bits (139), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 57/195 (29%), Positives = 84/195 (43%), Gaps = 14/195 (7%)

Query: 22  VAILADSTNYGQLGREDLEKVLASKKVTPVAVEKYNIKDVDMTAQLLKSKQGGAQVVLTY 81
           VA++ D T YGQ   ++  KV  +  +  V+ +  N K  D TA L   K      V   
Sbjct: 170 VAVIDDRTAYGQGLAQEFIKVAKANGIDVVSTDFTNDKATDFTAILTSIKGKKPDAVFLG 229

Query: 82  GIGPELAQIANGMEKLNWHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRK 141
           G  P+   I   M++L   VP++G      G      G+ G  A     +   G T   K
Sbjct: 230 GYAPQGGPIKRQMKQLGVDVPLMGGD----GICSPEMGRLGGDAIGESVYCTQGGTMLDK 285

Query: 142 A-----FIEAYQKAYKVDRIPSAVSAAQGYDSIYLLAAAIKQAGTTDGEKVRAALENLNT 196
           A     F + YQK Y     P+   A   YD + L+A A+KQA + D ++   AL  ++ 
Sbjct: 286 AKEGKVFSDEYQKKYNR---PAETYAVSFYDGMMLIAQAMKQANSVDPKQFGPALAKISY 342

Query: 197 KVEGVVTTYEKPFSH 211
           K  GV   Y+   +H
Sbjct: 343 K--GVAGQYDFDANH 355


  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    0.363 

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: 710,472
Number of extensions: 28892
Number of successful extensions: 72
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 71
Number of HSP's successfully gapped: 4
Length of query: 236
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 154
Effective length of database: 1,231,600
Effective search space: 189666400
Effective search space used: 189666400
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: 129 (54.3 bits)