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= 0018.0004.p
         (363 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309614|ref|YP_003773706.1| sugar ABC transporter periplasm...   711   0.0  
gi|300313831|ref|YP_003777923.1| sugar ABC transporter periplasm...    62   6e-11

>gi|300309614|ref|YP_003773706.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 415

 Score =  711 bits (1835), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 340/358 (94%), Positives = 351/358 (98%)

Query: 6   LDVKVSFIEEEAYKVQLPGWLSTQAPDIINWHNGERMAFYASRGLLEDLSEDWKKNGWDS 65
           +D+K SFIEEEAYKVQLPGWLSTQAPDIINWHNGERMAFYASRGLLED+SEDWKKNGWD+
Sbjct: 58  VDIKPSFIEEEAYKVQLPGWLSTQAPDIINWHNGERMAFYASRGLLEDVSEDWKKNGWDA 117

Query: 66  TYASTKEASSWQGKQYSAPTVYYSWGMFYRKDLFKKVGIAAEPKSWDEFLEACKKLKAAG 125
           TYASTKEASSW GKQYS PTVYYSWGMFYRKDLFKKVGIA EPK+WDEFL+ACKKLKAAG
Sbjct: 118 TYASTKEASSWHGKQYSVPTVYYSWGMFYRKDLFKKVGIAGEPKTWDEFLDACKKLKAAG 177

Query: 126 IAPIAVGGRDAWTLAGWFDYLDLRINGNAFHQQLMAGDVAYTDPRVKKVYTAWKSLIDNK 185
           IAPIAVGGRDAWTLAGWFDYLDLRINGNAFHQQLMAGD+AYTD RVKKV+TAWKSLIDNK
Sbjct: 178 IAPIAVGGRDAWTLAGWFDYLDLRINGNAFHQQLMAGDIAYTDARVKKVHTAWKSLIDNK 237

Query: 186 YFIDNALSYDLDGAQPFLFQGKAAMMLMGTFIAKGFPAKLAPEMGYFQFPIIDANVPTAE 245
           YFIDNALSYDLDGAQPFLFQGKAAMMLMGTFIAKGFPAKLAPEMGYFQFPIIDANVPTAE
Sbjct: 238 YFIDNALSYDLDGAQPFLFQGKAAMMLMGTFIAKGFPAKLAPEMGYFQFPIIDANVPTAE 297

Query: 246 EGPTESIHIPAKARNKTDARRFIAFVGTPAISAKLADGLGSLPANSKSPAPADPISRIGF 305
           EGPTESIHIPAKARNK DARRFIAFVGTPAISAKLA+GLGSLPANSKSPAP +PISRIGF
Sbjct: 298 EGPTESIHIPAKARNKADARRFIAFVGTPAISAKLAEGLGSLPANSKSPAPTEPISRIGF 357

Query: 306 EILSNAKGGISQFYDRDMTKEMADEGMKGMQKFVSDPTKIDDVLNELEQSRKRIYKKS 363
           EILSNAKGGISQFYDRDMTKEMADEGMKGMQKFVSDPT+IDDVLNELEQSRKRIYKKS
Sbjct: 358 EILSNAKGGISQFYDRDMTKEMADEGMKGMQKFVSDPTRIDDVLNELEQSRKRIYKKS 415


>gi|300313831|ref|YP_003777923.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 446

 Score = 62.0 bits (149), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 56/210 (26%), Positives = 103/210 (49%), Gaps = 32/210 (15%)

Query: 26  LSTQAPDIINWHNGERMAFYASRGLLEDLSE-----DWKKNGWDSTYASTKEASSWQGKQ 80
           L+ +AP++    NG     +A  GLL +L       +W+K  + + ++         G  
Sbjct: 105 LANRAPEVTQL-NGVVFGEWADLGLLLELDNVAVQGNWEKQMFPTVWSLLNN----HGHV 159

Query: 81  YSAPT-VYYSWGMFYRKDLFKKVGIAAEPKSWDEFLEACKKLKAAGIAPIAVGGRDAWTL 139
            +AP  ++    ++Y   +FK+  ++  PK+WDEF +  KKL+ +G+ P+A    +AW L
Sbjct: 160 VAAPLGIHRINSLYYNVAVFKRYNLS-PPKTWDEFDQIVKKLQGSGVVPLAQSA-EAWQL 217

Query: 140 AGWFDYLDLRINGNAFHQQLMA--GDVAYTDPRVKKVYTAWKSL-------IDNKYFIDN 190
           A  F+ L L  +G A++++L       AY D R+  +    ++L       +  + + + 
Sbjct: 218 ATLFENLALAESGPAYYRKLFVEMSPAAYLDARMLHILKRLRALAGAMAQPVRERPWTEV 277

Query: 191 ALSYDLDGAQPFLFQGKAAMMLMGTFIAKG 220
           A S         +  G+AAM++MG + AKG
Sbjct: 278 ARS---------MVSGEAAMLIMGDW-AKG 297


  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    0.134    0.407 

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: 1,195,117
Number of extensions: 52197
Number of successful extensions: 158
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 157
Number of HSP's successfully gapped: 3
Length of query: 363
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 277
Effective length of database: 1,212,660
Effective search space: 335906820
Effective search space used: 335906820
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: 131 (55.1 bits)