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= 0002.0351.p
         (400 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309914|ref|YP_003774006.1| ammonium transporter transmembr...   733   0.0  
gi|300309431|ref|YP_003773523.1| ammonium transporter transmembr...   114   1e-26

>gi|300309914|ref|YP_003774006.1| ammonium transporter transmembrane
           protein [Herbaspirillum seropedicae SmR1]
          Length = 401

 Score =  733 bits (1892), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 362/400 (90%), Positives = 384/400 (96%)

Query: 1   VDDHKNGADALFVLLGAIMILAMHAGFAFLELGTVRRKNQVNALVKILADFAVSTIAYFF 60
           VDDHKNGADALF+LLGAIMILAMHAGFAFLELGTVR+KNQVNALVKILADFAVSTI YFF
Sbjct: 2   VDDHKNGADALFILLGAIMILAMHAGFAFLELGTVRKKNQVNALVKILADFAVSTIVYFF 61

Query: 61  VGYYVAYGVSFFSGAEVLSARSGFELVKFFFLLTFAAAIPAIISGGIAERSKFHPQLIAT 120
           +GYYVAY VSFF+GAE L+ RSGFELVKFFFLLTFAAAIPAIISGGIAERSKF+PQL+AT
Sbjct: 62  IGYYVAYRVSFFAGAETLAQRSGFELVKFFFLLTFAAAIPAIISGGIAERSKFNPQLVAT 121

Query: 121 AVLVGLVYPFFEGIAWNQHFGVQAWLKDVFGAEFHDFAGSIVVHAVGGWIALPAVLLLGA 180
           AVLVGLVYPFFEGIAWNQH GVQAWL   F AEFHDFAGSIVVHAVGGWIALPAVLLLGA
Sbjct: 122 AVLVGLVYPFFEGIAWNQHLGVQAWLAATFDAEFHDFAGSIVVHAVGGWIALPAVLLLGA 181

Query: 181 RRGRYTREGAIAAHPPSNIPFLALGAWILTVGWFGFNVMSAQTLDKMNGLVALNSLMAMA 240
           RRGRY++EGA+AAHPPSNIPFLALGAWILTVGWFGFNVMSAQTLDKMNGLVA+NSLMAMA
Sbjct: 182 RRGRYSKEGAVAAHPPSNIPFLALGAWILTVGWFGFNVMSAQTLDKMNGLVAMNSLMAMA 241

Query: 241 GGTLVALVMGKNDPGFVYNGPLAGLVAVCAGSDLMHPLGALVTGGIAGAIFVWMFTRTQN 300
           GGTLVAL+MG+NDPGF YNGPLAGLVAVCAGSDLMHPLGALVTGGIAGAIFVWMFTRTQN
Sbjct: 242 GGTLVALLMGRNDPGFAYNGPLAGLVAVCAGSDLMHPLGALVTGGIAGAIFVWMFTRTQN 301

Query: 301 KWKIDDVLGVWPLHGLCGAWGGLAAGIFGTKALGGLGGVSFMAQLCGSLLGIGIAVIGGW 360
           KWKIDDVLGVWPLHGLCG WGGLAAGIFG +ALGG GGVSF++QL GS++GI IA +GGW
Sbjct: 302 KWKIDDVLGVWPLHGLCGLWGGLAAGIFGLQALGGRGGVSFLSQLIGSVMGIVIAALGGW 361

Query: 361 IVYGLLKKAIGIRLDPEQEFEGADLSIHKISSTAERDTSW 400
           IVYGLLKKA+GIRLDPEQEFEGADL+IHKISSTAER+TSW
Sbjct: 362 IVYGLLKKAVGIRLDPEQEFEGADLAIHKISSTAERETSW 401


>gi|300309431|ref|YP_003773523.1| ammonium transporter transmembrane
           protein [Herbaspirillum seropedicae SmR1]
          Length = 510

 Score =  114 bits (286), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 121/439 (27%), Positives = 192/439 (43%), Gaps = 59/439 (13%)

Query: 5   KNGADALFVLLGAIMILAMHAGFAFLELGTVRRKNQVNALVKILADFAVSTIAYFFVGYY 64
             G  A  ++  A +IL    G      G VR KN ++ L++    F++  I +F  GY 
Sbjct: 78  NKGDTAWMLVCTAFVILMTLPGLGLFYGGLVRSKNMLSVLMQCFMIFSLIYILWFVYGYS 137

Query: 65  VAY--GVSFFSGAEVL-------SARSGF--------ELVKFFFLLTFAAAIPAIISGGI 107
           +A+  G +FF G + L        + +G         ELV   F   FAA   A+I G  
Sbjct: 138 IAFTEGNAFFGGFDRLFLHGLTGDSNTGTFSKGVVIPELVFVAFQGAFAAITVALIIGAF 197

Query: 108 AERSKFHPQLIATAVLVGLVY--------------PFFEGIAWNQHFGVQAWLKDVFGAE 153
           AER KF   ++ + +     Y               F +  A  +   +  WL   F   
Sbjct: 198 AERVKFSAVILFSILWFTFSYLPMAHMVWFWPGPDAFTDAAAGEKATAISGWL---FQKG 254

Query: 154 FHDFAGSIVVHAVGGWIALPAVLLLGARRGRYTREGAIAAHPPSNIPFLALGAWILTVGW 213
             D+AG  VVH       L    ++G R G + +E    A  P ++    +GA +L  GW
Sbjct: 255 ALDYAGGTVVHINAAIAGLVGSYVIGKRIG-FGKE----AFKPHSLTLTMVGASLLWFGW 309

Query: 214 FGFNVMSAQTLDKMNGLVALNSLMAMAGGTL---VALVMGKNDPGFV--YNGPLAGLVAV 268
           FGFN  S    +    L  +N+++A A   L       +GK  P  +   +G +AGLVA+
Sbjct: 310 FGFNAGSGLEANGTAALAFVNTILATAAAVLSWSFGEWIGKGKPSMLGAASGAVAGLVAI 369

Query: 269 CAGSDLMHPLGALVTGGIAGAIFVWMFTRTQNKWKIDDVLGVWPLHGLCGAWGGLAAGIF 328
              +  +  +GA+V G IAG + +W  +  +     DD L V+ +HG+ G  G +  G+F
Sbjct: 370 TPAAGFVGVIGAVVMGLIAGLLCLWGVSGLKKILGSDDALDVFGVHGVGGILGAILTGVF 429

Query: 329 GTKALGGLGGVSFMA---------------QLCGSLLGIGIAVIGGWIVYGLLKKAIGIR 373
              +LGG G   ++A               Q  G L  + ++ +  +I Y ++   IG+R
Sbjct: 430 AAPSLGGTGIYDYVANAVAPDYSIGGQVWIQFQGVLTTVVLSGVVSFIAYKIVDVVIGLR 489

Query: 374 LDPEQEFEGADLSIHKISS 392
           +  E+E EG D+S H  S+
Sbjct: 490 VTEEEEREGLDISSHGESA 508


  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    0.143    0.450 

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: 1,136,640
Number of extensions: 45908
Number of successful extensions: 257
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 252
Number of HSP's successfully gapped: 2
Length of query: 400
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 313
Effective length of database: 1,207,925
Effective search space: 378080525
Effective search space used: 378080525
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 (21.6 bits)
S2: 132 (55.5 bits)