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= 0227.0007.p
         (101 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC t...   105   8e-25
gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t...    83   5e-18
gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t...    59   6e-11

>gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC
           transporter periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 394

 Score =  105 bits (261), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 53/100 (53%), Positives = 66/100 (66%)

Query: 1   VIQISPASMSNLYTQQGNRAAFRTIGNNGSAGSYTADYAVKTLQAKRFLVVDDGTPFGRG 60
           VIQ++P++MS   T       FRTI NN S G   A YAV  L+ +  + +DD TPFG+G
Sbjct: 134 VIQVTPSAMSRRLTAMSYPRIFRTIPNNESLGRLAAGYAVDKLETRTIVTIDDRTPFGQG 193

Query: 61  FVEQFSRTARELGAQIVGSHSVSDKTSDFNAVLADAAXQQ 100
             EQF+RTA E GAQ+VG +SVSDKTSDFNA L +A   Q
Sbjct: 194 LAEQFARTASERGAQVVGRYSVSDKTSDFNAALLEARKLQ 233


>gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC
           transporter periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 380

 Score = 82.8 bits (203), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 37/93 (39%), Positives = 60/93 (64%)

Query: 1   VIQISPASMSNLYTQQGNRAAFRTIGNNGSAGSYTADYAVKTLQAKRFLVVDDGTPFGRG 60
           + Q+SP++ +  YTQQG + AFR + N+   G+    YAV+ L  K+  V+DD T +G+G
Sbjct: 122 IPQVSPSATNPKYTQQGFKTAFRVVANDAQLGAALGKYAVQKLGTKQIAVIDDRTAYGQG 181

Query: 61  FVEQFSRTARELGAQIVGSHSVSDKTSDFNAVL 93
             ++F++ A+  G  IVG+   +DK +DFNA+L
Sbjct: 182 VADEFAKGAKAAGGTIVGTQYTNDKATDFNAIL 214


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

 Score = 58.9 bits (141), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 30/80 (37%), Positives = 45/80 (56%)

Query: 14  TQQGNRAAFRTIGNNGSAGSYTADYAVKTLQAKRFLVVDDGTPFGRGFVEQFSRTARELG 73
           TQQG    FR   ++   G   A YA K L+ KR  V+DD T +G+G  ++F + A+  G
Sbjct: 136 TQQGFATLFRVAASDSQLGGKMALYAAKELKFKRVAVIDDRTAYGQGLAQEFIKVAKANG 195

Query: 74  AQIVGSHSVSDKTSDFNAVL 93
             +V +   +DK +DF A+L
Sbjct: 196 IDVVSTDFTNDKATDFTAIL 215


  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
   0.317    0.129    0.355 

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: 291,528
Number of extensions: 11038
Number of successful extensions: 42
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 42
Number of HSP's successfully gapped: 3
Length of query: 101
Length of database: 1,619,870
Length adjustment: 70
Effective length of query: 31
Effective length of database: 1,288,420
Effective search space: 39941020
Effective search space used: 39941020
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 123 (52.0 bits)