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= 0028.0162.p
         (137 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A...    77   4e-16
gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel A...    73   7e-15
gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A...    60   8e-11

>gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC
           transporter permease [Herbaspirillum seropedicae SmR1]
          Length = 318

 Score = 77.4 bits (189), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 54/113 (47%), Positives = 72/113 (63%)

Query: 10  LARRLLLSVPTLLLVSMVVFSLLAVLPGDPVAAILGMEATPEAAAALRLKLGLDDPLLVQ 69
           +ARRLL +V TLLLVS  VF +  +LPGD     LG  ATPE  AALRL+ GLD P  ++
Sbjct: 9   IARRLLQAVLTLLLVSAGVFFITNLLPGDAAQTALGQAATPETVAALRLQYGLDLPAPLR 68

Query: 70  YGRWLWAVLHGDLGRSFIDNTPVADALWQRLPVTIELAIGSFLVAVVIAVPAG 122
           Y  WL  +L G+ G S ++N PVA  +  RLP ++ LA  + LV+V +A+  G
Sbjct: 69  YAHWLGNLLSGNPGMSLVNNVPVAQMIGGRLPASLMLAAVTALVSVPLALFLG 121


>gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC
           transporter permease [Herbaspirillum seropedicae SmR1]
          Length = 305

 Score = 73.2 bits (178), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 42/111 (37%), Positives = 65/111 (58%), Gaps = 1/111 (0%)

Query: 12  RRLLLSVPTLLLVSMVVFSLLAVLPGDPVAAILGMEATPEAAAALRLKLGLDDPLLVQYG 71
           RRL +++   + VS+V F+LL  + GD   +I G EAT     ++R + GLD P+  QY 
Sbjct: 7   RRLAIALCVAVTVSVVSFTLLH-MSGDLAVSIAGPEATAAQVESVRTQFGLDRPMATQYL 65

Query: 72  RWLWAVLHGDLGRSFIDNTPVADALWQRLPVTIELAIGSFLVAVVIAVPAG 122
            WL   +  D G+SF    PV + + +RLP+T +L   + L+AV+ A+P G
Sbjct: 66  DWLGRAVQLDFGKSFYFQGPVMEMIAERLPITFKLGGSALLLAVLTAIPLG 116


>gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC
           transporter permease [Herbaspirillum seropedicae SmR1]
          Length = 324

 Score = 59.7 bits (143), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 43/113 (38%), Positives = 72/113 (63%), Gaps = 1/113 (0%)

Query: 10  LARRLLLSVPTLLLVSMVVFSLLAVLPGDPVAAILGMEATPEAAAALRLKLGLDDPLLVQ 69
           +AR ++ ++  +LL++++VF  L ++ G+PV  ++G +        +  +LGLD P+  Q
Sbjct: 5   IARSVVQALMVVLLMTVIVFFGLHMI-GNPVDILIGQDVDQVDRLRIIQELGLDQPVWRQ 63

Query: 70  YGRWLWAVLHGDLGRSFIDNTPVADALWQRLPVTIELAIGSFLVAVVIAVPAG 122
           Y  +L   LHG+LG SF+ NTP    ++QRLP T+ELA  + L+A+V+ VP G
Sbjct: 64  YLAFLNGALHGNLGNSFVYNTPAILLIFQRLPATLELACAALLLALVVGVPLG 116


  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
   0.325    0.140    0.429 

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: 373,213
Number of extensions: 13528
Number of successful extensions: 74
Number of sequences better than 1.0e-08: 6
Number of HSP's gapped: 74
Number of HSP's successfully gapped: 6
Length of query: 137
Length of database: 1,619,870
Length adjustment: 76
Effective length of query: 61
Effective length of database: 1,260,010
Effective search space: 76860610
Effective search space used: 76860610
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: 126 (53.1 bits)