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= 0001.0054.p
         (298 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310413|ref|YP_003774505.1| spermidine/putrescine ABC trans...    70   3e-13
gi|300309933|ref|YP_003774025.1| Fe3+ ABC transporter periplasmi...    59   5e-10

>gi|300310413|ref|YP_003774505.1| spermidine/putrescine ABC
           transporter periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 347

 Score = 69.7 bits (169), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 75/252 (29%), Positives = 107/252 (42%), Gaps = 32/252 (12%)

Query: 12  LAKLRA-ANGNNPAYDIVVFQPDSVQRAAAAGLLEPLEAKNIPNLAKLYPTVQEKFTKDG 70
           LAK++A       ++D+V      + RA   GL+E L+      LAK          KD 
Sbjct: 65  LAKVKAMVETKKVSWDVVEIDGGDLNRACDDGLIEKLD------LAKT-------IKKDD 111

Query: 71  KTYAAAFSLGQLG-------LAYRTDLVKTPPKSWLDLWN----PEYKGHVAISSPSYAA 119
               A  S   +G       LAY  D +KTPP  W D W+    P  +G    +  +   
Sbjct: 112 YIPEATVSECGMGAFVWSTVLAYNGDKLKTPPTGWADFWDTKKYPGKRGMKKSAQFNLEF 171

Query: 120 GLQFFAGLTHALGGELKNDADVERTFAKLAELKGNAVAFPDSPGAIQTLLERGDAWVVPY 179
            L      T  +   L     V+R F KL +LK N + + D+       L  GD  +   
Sbjct: 172 ALMADGVPTKDVYKVLATKEGVDRAFKKLDQLKPN-IQWWDAGALPAQFLASGDVVMANA 230

Query: 180 WDGRVFALQKSG--LKVGFAYPTDGPVVGAANWVIAKGAPNLANAYKLLDFLSSDKVQKA 237
           ++GR+ A Q+ G  LKV +A    G V     WVI KG+PN A   K + F S    QK 
Sbjct: 231 YNGRIDAAQREGKNLKVVWA----GSVYTLDYWVIPKGSPNKALGEKFISFASQPDTQKT 286

Query: 238 FSDGSLYGMTNQ 249
           +++   YG  N+
Sbjct: 287 YANNIAYGPVNK 298


>gi|300309933|ref|YP_003774025.1| Fe3+ ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 335

 Score = 58.9 bits (141), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 57/183 (31%), Positives = 75/183 (40%), Gaps = 15/183 (8%)

Query: 68  KDGKTYAAAFSLGQLGLAYRTDLVKTPP--KSWLDLWNPEYKGHVAISSPSYA-AGLQFF 124
           KD   Y      G +G+    D +K  P  KSW DL  PEYKG +    P+ A  G    
Sbjct: 112 KDPDGYWFTIHSGTMGIMVNVDALKGKPVPKSWADLQKPEYKGLIGYLDPASAFVGYVGA 171

Query: 125 AGLTHALGGELKNDADVERTFAKLAELKGNAVAFPDSPGAIQTLLERGDAWVVPYWDGRV 184
             +  ALGG L    D          L+ N    P      QT   R  +  +P   G  
Sbjct: 172 VAINQALGGTLD---DFSPAIGYFKNLQKNQPIVPK-----QTSYARLISGEIPILLGYD 223

Query: 185 F----ALQKSGLKVGFAYPTDGPVVGAANWVIAKGAPNLANAYKLLDFLSSDKVQKAFSD 240
           F    A  K    V F  P++G V       + K AP+ A A K+LDFL SD+ Q  +++
Sbjct: 224 FDAYRAKYKDHANVAFVIPSEGTVTVPYVVALVKNAPHQAEAKKVLDFLLSDQGQAIWAN 283

Query: 241 GSL 243
             L
Sbjct: 284 AYL 286


  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
   0.315    0.133    0.404 

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: 1,024,565
Number of extensions: 42315
Number of successful extensions: 96
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 95
Number of HSP's successfully gapped: 2
Length of query: 298
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 213
Effective length of database: 1,217,395
Effective search space: 259305135
Effective search space used: 259305135
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: 42 (22.0 bits)
S2: 130 (54.7 bits)