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= 0001.0090.p
         (347 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...   655   0.0  

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

 Score =  655 bits (1689), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 332/347 (95%), Positives = 337/347 (97%)

Query: 1   MKRLTPALLSPLFLGLLFSGAASAAELTLVNFGGANGNAQKVAYVEPFQKSTGTKVVTAE 60
           MKRLTPALLSPL LGLLFSGAA AAELT+VNFGGANGNAQKVAYVEPFQKSTGTKVVTAE
Sbjct: 1   MKRLTPALLSPLALGLLFSGAACAAELTVVNFGGANGNAQKVAYVEPFQKSTGTKVVTAE 60

Query: 61  FNGELAKVKAMVETKKVSWDVVEIDGGDLTRACDDGLIEKLDLAKTIKKDDYIPEATVSE 120
           FNGELAKVKAMVETKKVSWDVVEIDGGDL RACDDGLIEKLDLAKTIKKDDYIPEATVSE
Sbjct: 61  FNGELAKVKAMVETKKVSWDVVEIDGGDLNRACDDGLIEKLDLAKTIKKDDYIPEATVSE 120

Query: 121 CGMGAFVWSTVLAYNADKLKTAPTGWADFWDTKKYPGKRGMKKSAQYNLEFALMADGVPT 180
           CGMGAFVWSTVLAYN DKLKT PTGWADFWDTKKYPGKRGMKKSAQ+NLEFALMADGVPT
Sbjct: 121 CGMGAFVWSTVLAYNGDKLKTPPTGWADFWDTKKYPGKRGMKKSAQFNLEFALMADGVPT 180

Query: 181 KDVYKVLATKEGVDRAFKKLDQLKPNIQWWDAGALPAQFLASGDVVMANAYNGRIDAAQR 240
           KDVYKVLATKEGVDRAFKKLDQLKPNIQWWDAGALPAQFLASGDVVMANAYNGRIDAAQR
Sbjct: 181 KDVYKVLATKEGVDRAFKKLDQLKPNIQWWDAGALPAQFLASGDVVMANAYNGRIDAAQR 240

Query: 241 EGKNLKVVWAGSVYTLDYWVIPKGSPNKALAEKFINFVSQPENQKVYANNIAYGPVNKGA 300
           EGKNLKVVWAGSVYTLDYWVIPKGSPNKAL EKFI+F SQP+ QK YANNIAYGPVNKGA
Sbjct: 241 EGKNLKVVWAGSVYTLDYWVIPKGSPNKALGEKFISFASQPDTQKTYANNIAYGPVNKGA 300

Query: 301 LKMLDAKTLGNLPTSPANAKDAVQLSLQFWTDHGEELEQRFAAWIAK 347
           LK+LDAKTL NLPTSPANAKDAVQLSLQFWTDHGEELEQRFAAWIAK
Sbjct: 301 LKLLDAKTLANLPTSPANAKDAVQLSLQFWTDHGEELEQRFAAWIAK 347


  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    0.132    0.395 

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: 1,030,736
Number of extensions: 41269
Number of successful extensions: 127
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 128
Number of HSP's successfully gapped: 1
Length of query: 347
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 261
Effective length of database: 1,212,660
Effective search space: 316504260
Effective search space used: 316504260
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 (21.6 bits)
S2: 131 (55.1 bits)