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= 0242.0002.p
         (247 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313406|ref|YP_003777498.1| branched-chain amino acid ABC t...   213   2e-56
gi|300310682|ref|YP_003774774.1| amino acid ABC transporter perm...   145   4e-36
gi|300313299|ref|YP_003777391.1| branched-chain amino acid ABC t...   122   3e-29

>gi|300313406|ref|YP_003777498.1| branched-chain amino acid ABC
           transporter permease [Herbaspirillum seropedicae SmR1]
          Length = 350

 Score =  213 bits (541), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 110/143 (76%), Positives = 125/143 (87%)

Query: 7   LKDLPMLVQIALALAIVVPMGPMVYRLAYQPLAHASILVLLIVSLGVHLAMVGLGLLMFG 66
           L+ L M  QI LAL IVVPMGPM+YR+AYQPLAH+S+LVLLIVSLGVHLAMVGLGLLMFG
Sbjct: 119 LQALAMPWQILLALLIVVPMGPMIYRVAYQPLAHSSVLVLLIVSLGVHLAMVGLGLLMFG 178

Query: 67  PEGSNTLPFTDAQFAMGEMTVSGQSLIVIGTVVALIVGIYFYFERTLSGKALRATAVNRL 126
           PEG+NT PFT+ QF +GE  VSGQS+IV+ TV ALI  IY +FERTL+GKALRATAVNRL
Sbjct: 179 PEGTNTRPFTEMQFNLGESPVSGQSVIVLITVAALIAVIYVFFERTLTGKALRATAVNRL 238

Query: 127 GARLVGIGTNQAGKLSFTLSAGI 149
           GARLVG+G NQAGKLSF ++AGI
Sbjct: 239 GARLVGVGINQAGKLSFGMAAGI 261


>gi|300310682|ref|YP_003774774.1| amino acid ABC transporter
           permease [Herbaspirillum seropedicae SmR1]
          Length = 344

 Score =  145 bits (365), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 86/159 (54%), Positives = 117/159 (73%), Gaps = 2/159 (1%)

Query: 1   VTLTVPLKDLPMLVQIALALAIVVPMGPMVYRLAYQPLAHASILVLLIVSLGVHLAMVGL 60
           V L+V    LPMLVQIA+ L ++VP+GP++YR+A+QP+A AS LVLLIVS+ VH+A+VG+
Sbjct: 107 VALSVNFATLPMLVQIAMTLLLLVPLGPLMYRMAFQPIATASPLVLLIVSIAVHVALVGV 166

Query: 61  GLLMFGPEGSNTLPFTDAQFAMGEMTVSGQSLIVIGTVVALIVGIYFYFERTLSGKALRA 120
            LL+FGPEG+ T PFT+A   +G + +S Q+L VI   + LIVG++  FERTL GKALRA
Sbjct: 167 ALLVFGPEGARTAPFTEAALELGSLRLSSQALWVICVSLLLIVGLFLMFERTLYGKALRA 226

Query: 121 TAVNRLGARLVGIGTNQAGKLSFTLSA--GIXRPDLVRP 157
            A+NR+GARL+GI    AGK  F L++  G+    L+ P
Sbjct: 227 AALNRMGARLMGISPVFAGKAMFLLASLIGVMSGVLIAP 265


>gi|300313299|ref|YP_003777391.1| branched-chain amino acid ABC
           transporter permease [Herbaspirillum seropedicae SmR1]
          Length = 346

 Score =  122 bits (306), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 71/136 (52%), Positives = 101/136 (74%)

Query: 14  VQIALALAIVVPMGPMVYRLAYQPLAHASILVLLIVSLGVHLAMVGLGLLMFGPEGSNTL 73
           VQ+ L L ++  +GP++Y++ Y+ +A AS+L LLIVS+G+HLAM GLGL+ FG EG  T 
Sbjct: 121 VQVLLTLLLITALGPLMYQVVYESMADASVLQLLIVSVGIHLAMTGLGLVFFGAEGFRTP 180

Query: 74  PFTDAQFAMGEMTVSGQSLIVIGTVVALIVGIYFYFERTLSGKALRATAVNRLGARLVGI 133
            F D ++ +  +T+S Q+++V+    AL+V ++F+  RTL GKALRATAVNRLGARL+GI
Sbjct: 181 AFWDERWNLASLTLSAQTVVVVAAAAALLVALWFFSGRTLYGKALRATAVNRLGARLMGI 240

Query: 134 GTNQAGKLSFTLSAGI 149
            T  AGKLSF ++A I
Sbjct: 241 STTLAGKLSFAVAAFI 256


  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
   0.329    0.144    0.436 

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: 759,889
Number of extensions: 31308
Number of successful extensions: 154
Number of sequences better than 1.0e-08: 7
Number of HSP's gapped: 152
Number of HSP's successfully gapped: 7
Length of query: 247
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 164
Effective length of database: 1,226,865
Effective search space: 201205860
Effective search space used: 201205860
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 129 (54.3 bits)