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= 0077.0004.p
         (352 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...   193   1e-50

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

 Score =  193 bits (491), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 112/324 (34%), Positives = 182/324 (56%), Gaps = 11/324 (3%)

Query: 34  QLVVADPGGPYTAAYRKAFYDPFEKATGVKIVNVAREAQPVAQLTAMVQTKNFVWDVTTL 93
           +L V + GG    A + A+ +PF+K+TG K+V      + +A++ AMV+TK   WDV  +
Sbjct: 26  ELTVVNFGGANGNAQKVAYVEPFQKSTGTKVVTAEFNGE-LAKVKAMVETKKVSWDVVEI 84

Query: 94  TLAQDIPILEEAGMLEPLGIVPTDFKN-MLP-GSITSSFVGVDVYATILAYRTDKFAKNP 151
               D+    + G++E L +  T  K+  +P  +++   +G  V++T+LAY  DK  K P
Sbjct: 85  D-GGDLNRACDDGLIEKLDLAKTIKKDDYIPEATVSECGMGAFVWSTVLAYNGDKL-KTP 142

Query: 152 PKTWADFWNVEKFPGRRSLRRNAIDTLEQALMADGVAPDKLYPL-----DLDRAFKSLDR 206
           P  WADFW+ +K+PG+R ++++A   LE ALMADGV    +Y +      +DRAFK LD+
Sbjct: 143 PTGWADFWDTKKYPGKRGMKKSAQFNLEFALMADGVPTKDVYKVLATKEGVDRAFKKLDQ 202

Query: 207 IKKHVAVWWTSGAQAMQLIQSGEVDMISTWNARAQTAIEGGAPVAINWNQGLYSIEGWGV 266
           +K ++  WW +GA   Q + SG+V M + +N R   A   G  + + W   +Y+++ W +
Sbjct: 203 LKPNIQ-WWDAGALPAQFLASGDVVMANAYNGRIDAAQREGKNLKVVWAGSVYTLDYWVI 261

Query: 267 PKGNPRAAVAKEFVKFCADAKRQSGFTDTLAYGPTALEAYKDIPAARAAILPTAPANIAL 326
           PKG+P  A+ ++F+ F +    Q  + + +AYGP    A K + A   A LPT+PAN   
Sbjct: 262 PKGSPNKALGEKFISFASQPDTQKTYANNIAYGPVNKGALKLLDAKTLANLPTSPANAKD 321

Query: 327 MRPPSGPWWHKNRNAVSDRFNAWL 350
               S  +W  +   +  RF AW+
Sbjct: 322 AVQLSLQFWTDHGEELEQRFAAWI 345


  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
   0.319    0.133    0.410 

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: 1,088,600
Number of extensions: 44386
Number of successful extensions: 142
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 137
Number of HSP's successfully gapped: 1
Length of query: 352
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 266
Effective length of database: 1,212,660
Effective search space: 322567560
Effective search space used: 322567560
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 131 (55.1 bits)