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= 0004.0107.p
         (187 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312387|ref|YP_003776479.1| sugar ABC transporter periplasm...   348   2e-97
gi|300313089|ref|YP_003777181.1| glycerol-3-phosphate ABC transp...    87   7e-19
gi|300311925|ref|YP_003776017.1| glycerol-3-phosphate ABC transp...    69   2e-13

>gi|300312387|ref|YP_003776479.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 430

 Score =  348 bits (892), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 179/186 (96%), Positives = 182/186 (97%)

Query: 1   MRRTFLKSLAALAVSAAFCAPVLAANPVEISFYYPVAVGGAVTKTIDSMVADFEKANPDI 60
           MRRT LKSLAALAVSAAFC PVLAANPVEISFYYPVAVGGAVTKTIDSMVADFEKA+PDI
Sbjct: 1   MRRTVLKSLAALAVSAAFCTPVLAANPVEISFYYPVAVGGAVTKTIDSMVADFEKAHPDI 60

Query: 61  KVKAIYAGTYQESIVKALTAFKGGTPPTLAVLLSTDLFTLIDENAIVPIDSLASSAEDKR 120
           KVKAIYAGTYQESIVKALTAFKGGTPPTLAVLLSTDLFTLIDENAI+PIDSLASSAEDK+
Sbjct: 61  KVKAIYAGTYQESIVKALTAFKGGTPPTLAVLLSTDLFTLIDENAILPIDSLASSAEDKK 120

Query: 121 WIDGFYKGFMENSQTEGKTWGIPFQRSTIVMYYNKNLFKEAGLNPDKAPANWNEMVEAAK 180
           WI GFYKGFMENSQTEGKTWGIPFQRSTIVMYYNK LFKEAGLNPDKAPANWNEMVEAAK
Sbjct: 121 WIAGFYKGFMENSQTEGKTWGIPFQRSTIVMYYNKALFKEAGLNPDKAPANWNEMVEAAK 180

Query: 181 KLTKRD 186
           KLTKRD
Sbjct: 181 KLTKRD 186


>gi|300313089|ref|YP_003777181.1| glycerol-3-phosphate ABC
           transporter periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 437

 Score = 87.4 bits (215), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 52/178 (29%), Positives = 90/178 (50%), Gaps = 5/178 (2%)

Query: 6   LKSLAALAVSAAFCAPVLAANPVEISFYYPVAVGGAVTKTIDSMVADFEKANPDIKVKAI 65
           +K+L A  V A   +   AA    I++++ +   GA+ + ++++  DF K   D K+  +
Sbjct: 4   MKTLIATGVLATITSSAFAA--TAITWWHSMT--GALGERVNALADDFNKTQGDYKIVPV 59

Query: 66  YAGTYQESIVKALTAFKGGTPPTLAVLLSTDLFTLI-DENAIVPIDSLASSAEDKRWIDG 124
           Y GTY ES+  A+ A++ G  P +  +      T+I  + A+ P+  +   A +K   + 
Sbjct: 60  YKGTYDESMSAAIAAYRAGNAPAILQVFEVGTATMIYAKGAVKPVYEVMHQAGEKFDQNA 119

Query: 125 FYKGFMENSQTEGKTWGIPFQRSTIVMYYNKNLFKEAGLNPDKAPANWNEMVEAAKKL 182
           +         T       PF  ST +M+YNK++F +AGL+P+K P  W E V  A K+
Sbjct: 120 YVPAVAGYYSTPKGMMSFPFNSSTTIMFYNKDMFAKAGLDPEKPPVTWQEFVGMAAKI 177


>gi|300311925|ref|YP_003776017.1| glycerol-3-phosphate ABC
           transporter periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 452

 Score = 68.9 bits (167), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 39/155 (25%), Positives = 76/155 (49%), Gaps = 7/155 (4%)

Query: 31  SFYYPVAVGGAVTKTIDSMVADFEKANPDIKVKAIYAGTYQESIVKALTAFKGGTPPTLA 90
           SF +  +  GA+ + +  + A F  A    +V+ +  GTY++++ K +  ++    P L 
Sbjct: 39  SFEFWSSHAGAMAQAVRQLCAGFNAAQQQHQVRCVVPGTYEQTMQKTIATYRAAQQPALV 98

Query: 91  VLLSTDLFTLIDENAIVPIDSL-ASSAEDKRWIDGF--YKGFMENSQTEGKTWGIPFQRS 147
            +       ++   AIVP+  L A       W D     +G+  ++Q  G+   +PF  S
Sbjct: 99  EIYDVGTLDMMLSGAIVPVHQLMADHGYRVDWQDYLPAIRGYYTDAQ--GQFDSLPFNVS 156

Query: 148 TIVMYYNKNLFKEAGLNPDKAPANWNEMVEAAKKL 182
           T V+Y N +  ++AG++    P+ W E+ + A++L
Sbjct: 157 TAVLYLNTDQLRQAGIS--TLPSTWRELEQTARQL 189


  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    0.132    0.383 

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: 524,833
Number of extensions: 19222
Number of successful extensions: 86
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 86
Number of HSP's successfully gapped: 4
Length of query: 187
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 107
Effective length of database: 1,241,070
Effective search space: 132794490
Effective search space used: 132794490
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: 128 (53.9 bits)