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= 0021.0003.p
         (378 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309388|ref|YP_003773480.1| periplasmic binding protein [He...   541   e-155

>gi|300309388|ref|YP_003773480.1| periplasmic binding protein
           [Herbaspirillum seropedicae SmR1]
          Length = 374

 Score =  541 bits (1393), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 262/378 (69%), Positives = 317/378 (83%), Gaps = 7/378 (1%)

Query: 1   MEIPYLKDLEPGPLQSGLIVAVAVVVAILLAMVVHRIGILLLRRLAHNRPFTTNATHIAF 60
           +++ +L ++  GPL+SGLIV    +VA+++A+ +HR+GI ++RRLA  RPFTT AT + F
Sbjct: 3   IDLDFLYNMNEGPLRSGLIVLGVALVAVVVAVFLHRVGIAVVRRLARGRPFTTTATEVTF 62

Query: 61  RASQVCVALFAVRVVLTAAPDDTPGLRSLSYISSVALIVALTWCVKKCIESVSITITQLN 120
            AS+ CV LF +R+VLT APD+TPGL S+SY++S+ LI+ALTW + +C++SVS+T+  LN
Sbjct: 63  SASRTCVILFMLRLVLTGAPDNTPGLTSISYLTSIGLILALTWFLIRCVKSVSLTVINLN 122

Query: 121 PYDVADNLKARRILTQTRVLTRSAYFIVGLLGLAFVLLTLPGARQFGASLLASAGVAGLV 180
           PYDVADNLKARRILTQTRVL+RSAYFI+ +LGL+FVLLTLPGARQFGASLLASAGVAG+V
Sbjct: 123 PYDVADNLKARRILTQTRVLSRSAYFIIAMLGLSFVLLTLPGARQFGASLLASAGVAGIV 182

Query: 181 AGIAARPVLGNFIAGLQIAFSQPIRIDDVLIVNGEWGRVEEITGTFVVVRIWDERRMIVP 240
           AGIAA+PVLGNF AGLQIAFSQPIRIDDVLIV GEWGRVEEITGTFVVVRIWDERRMIVP
Sbjct: 183 AGIAAKPVLGNFFAGLQIAFSQPIRIDDVLIVKGEWGRVEEITGTFVVVRIWDERRMIVP 242

Query: 241 LQWFIENPFENWTHTSSTILGTVFLWLDFKLPVAALRAEFERVCKAAPQWDGRVCVLQVT 300
           LQWFIENPFENWTHTSSTILGTVFLWLDF +P  A+R EFERVCK+ P WD RVCV+ VT
Sbjct: 243 LQWFIENPFENWTHTSSTILGTVFLWLDFSVPTQAIRDEFERVCKSLPLWDKRVCVMHVT 302

Query: 301 DVNERAMQVRMLVSAQNSGNAFDLRCAIRESMIAFLAEHHPEALPRLRSAIDPVELTPST 360
           D +ER MQVR+LVSA++SG+AFDLRC IRE MI F+A ++P ALPRLR+ ++        
Sbjct: 303 DASERTMQVRLLVSAKDSGSAFDLRCQIREHMIGFIARNYPGALPRLRAEVEARN----- 357

Query: 361 LADAGVQDKILDGAPTQR 378
             D    D I+DG PTQ+
Sbjct: 358 --DPEAIDSIIDGPPTQK 373


  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
   0.326    0.138    0.415 

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: 977,700
Number of extensions: 34194
Number of successful extensions: 148
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 147
Number of HSP's successfully gapped: 1
Length of query: 378
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 291
Effective length of database: 1,207,925
Effective search space: 351506175
Effective search space used: 351506175
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 131 (55.1 bits)