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= 0003.0038.p
         (257 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310424|ref|YP_003774516.1| high-affinity gluconate permeas...   454   e-129
gi|300311081|ref|YP_003775173.1| high-affinity gluconate transpo...   266   1e-72
gi|300311416|ref|YP_003775508.1| gluconate transporter family pr...   177   1e-45

>gi|300310424|ref|YP_003774516.1| high-affinity gluconate permease
           [Herbaspirillum seropedicae SmR1]
          Length = 450

 Score =  454 bits (1167), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 235/257 (91%), Positives = 249/257 (96%)

Query: 1   VIIAGPMFGAFIAKYVDIKPSDELMEQLAREPQTKDLPGFAITLVTVLSPVFLMLLKTFV 60
           VIIAGPMFGAFI++YVDIKPS+ELM QL REPQT  LPGFA TL+TVL+PVFLMLLKT V
Sbjct: 194 VIIAGPMFGAFISRYVDIKPSEELMAQLVREPQTTKLPGFATTLITVLAPVFLMLLKTLV 253

Query: 61  DVTLPEGNAMRDLMDFIGNPIVALLAALLLSLYTFGVARGFTRQQVLKFVDQSLAPTAAI 120
           DVTLPEG+AMRDLMDFIGNPIVALLAALLL+++TFG+ARGFTRQQVLKFVDQSLAPTAAI
Sbjct: 254 DVTLPEGHAMRDLMDFIGNPIVALLAALLLAIWTFGIARGFTRQQVLKFVDQSLAPTAAI 313

Query: 121 VLIIGAGGGFKQMLVNSGVGTAIGQLAVHAQISPLLLAWFVAGVIRVATGSATVATITGA 180
           VLIIGAGGGFKQMLVNSGVGTAIGQLAVHAQISPLLLAWFVAGVIRVATGSATVATITGA
Sbjct: 314 VLIIGAGGGFKQMLVNSGVGTAIGQLAVHAQISPLLLAWFVAGVIRVATGSATVATITGA 373

Query: 181 GIVAPLVTLIPGTNRELLVLATGAGSLILSHVNDAGFWLVKEYFNMSVGETFKTWTAMET 240
           GIVAPLV LIPGTN+ELLVLATGAGSLILSHVNDAGFWLVKEYFNMSVGETFKTWT MET
Sbjct: 374 GIVAPLVALIPGTNKELLVLATGAGSLILSHVNDAGFWLVKEYFNMSVGETFKTWTVMET 433

Query: 241 IISVVALVFIMLLNLVV 257
           +ISVVA++FIMLLNLVV
Sbjct: 434 LISVVAIIFIMLLNLVV 450


>gi|300311081|ref|YP_003775173.1| high-affinity gluconate
           transporter (GNT-III system) transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 450

 Score =  266 bits (681), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 136/244 (55%), Positives = 175/244 (71%), Gaps = 1/244 (0%)

Query: 2   IIAGPMFGAFIAKYVDIKPSDELMEQLARE-PQTKDLPGFAITLVTVLSPVFLMLLKTFV 60
           IIAGP+FG  I+K V   P + L+ Q   E  + ++LPGF ITL T+L PV LML+ ++ 
Sbjct: 194 IIAGPIFGKLISKVVIPNPDNPLISQFVDEGKKDRELPGFGITLFTILLPVALMLIGSWA 253

Query: 61  DVTLPEGNAMRDLMDFIGNPIVALLAALLLSLYTFGVARGFTRQQVLKFVDQSLAPTAAI 120
           D+         D +  IGN ++ALL A L+S +TFG ARGF   Q+LKF ++ LAP A+I
Sbjct: 254 DLFFAPKTFANDFLRLIGNSVIALLIATLVSFWTFGRARGFGADQILKFTNECLAPIASI 313

Query: 121 VLIIGAGGGFKQMLVNSGVGTAIGQLAVHAQISPLLLAWFVAGVIRVATGSATVATITGA 180
            L++GAG GF ++L++ GV  AI  +A  A +SPL+L WFVA +IRVATGSATVA  T  
Sbjct: 314 TLVVGAGAGFGRILMDGGVSKAIVGIATDAHLSPLILGWFVAALIRVATGSATVAMTTAC 373

Query: 181 GIVAPLVTLIPGTNRELLVLATGAGSLILSHVNDAGFWLVKEYFNMSVGETFKTWTAMET 240
           GIVAP+V+ + G   EL+VLATGAGSLILSHVND GFWLVKEYFNM+V +TFKTWT MET
Sbjct: 374 GIVAPIVSTVGGVRPELMVLATGAGSLILSHVNDGGFWLVKEYFNMTVPQTFKTWTVMET 433

Query: 241 IISV 244
           ++SV
Sbjct: 434 LVSV 437


>gi|300311416|ref|YP_003775508.1| gluconate transporter family
           protein [Herbaspirillum seropedicae SmR1]
          Length = 456

 Score =  177 bits (448), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 105/248 (42%), Positives = 162/248 (65%), Gaps = 3/248 (1%)

Query: 1   VIIAGPMFGAFIAKYVDIKPSDELMEQL-AREPQTKDLPGFAITLVTVLSPVFLMLLKTF 59
           VIIAGP++G FIA  +++   D++ +   ARE Q++  P F + LVT+L PV LML +T 
Sbjct: 200 VIIAGPLYGNFIAPRLNLAEPDQIGKLFSAREGQSQ--PSFLVALVTILLPVVLMLGRTV 257

Query: 60  VDVTLPEGNAMRDLMDFIGNPIVALLAALLLSLYTFGVARGFTRQQVLKFVDQSLAPTAA 119
             + +     + ++++F G PI+AL   +L ++   G  +G +R +V   + ++L P A 
Sbjct: 258 ARIWVTPKTELFEMLNFFGEPIIALTVTVLFAVVVLGWGQGSSRFEVGATLRRALPPIAG 317

Query: 120 IVLIIGAGGGFKQMLVNSGVGTAIGQLAVHAQISPLLLAWFVAGVIRVATGSATVATITG 179
           ++L IGAGGG KQ L+++G+   I ++A    +  +LLAW +A  +R ATGSATVAT   
Sbjct: 318 LLLTIGAGGGLKQTLLSAGISDTITKIADGTHMPLILLAWIIAVALRQATGSATVATTAT 377

Query: 180 AGIVAPLVTLIPGTNRELLVLATGAGSLILSHVNDAGFWLVKEYFNMSVGETFKTWTAME 239
           AGIVAPLV  +  T+  L+ LA GAGS+   HVNDAGFW+VKEYF +++ +T  TW+ ++
Sbjct: 378 AGIVAPLVAGLSATHNSLMALAIGAGSVFFCHVNDAGFWMVKEYFGLNLKQTLATWSVIQ 437

Query: 240 TIISVVAL 247
           T++SV+ L
Sbjct: 438 TLVSVIGL 445


  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
   0.326    0.140    0.403 

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: 720,588
Number of extensions: 28249
Number of successful extensions: 171
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 166
Number of HSP's successfully gapped: 3
Length of query: 257
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 174
Effective length of database: 1,226,865
Effective search space: 213474510
Effective search space used: 213474510
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 129 (54.3 bits)