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= 0030.0010.p
         (310 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300314029|ref|YP_003778121.1| permease [Herbaspirillum serope...   449   e-127

>gi|300314029|ref|YP_003778121.1| permease [Herbaspirillum
           seropedicae SmR1]
          Length = 310

 Score =  449 bits (1155), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 233/305 (76%), Positives = 262/305 (85%), Gaps = 1/305 (0%)

Query: 1   MNYTPGRMMAYVCLALSMSMVGAYVALTKPLAAALPVFLLAWLRFAIGAVAMLRWLRKPG 60
           M+YTP R M Y CL LSMS+VGAYVALTKPLAA LPVFLLAWLRF IGAVAMLRWL+KP 
Sbjct: 1   MSYTPSRPMGYGCLILSMSLVGAYVALTKPLAAMLPVFLLAWLRFGIGAVAMLRWLKKPA 60

Query: 61  NEAPLTPRTRLLVFLESFLGNFLFTICMISGVSMTSAVSAGVIMSVIPAVVALMSWIFLR 120
           +E PL+ ++R LVFLESFLGNFLFT+CMI+GVSMT+AVSAGVIMS IPAVVA+MSWIFL+
Sbjct: 61  SEQPLSTQSRWLVFLESFLGNFLFTLCMITGVSMTNAVSAGVIMSAIPAVVAVMSWIFLK 120

Query: 121 ERIGARVWMAVACGALGIGLLSLARNPHAPGLDADGAHQAWLGNLLVFAAVLCEASYAVI 180
           E+I  RVW AVACGA+GIGLLSLA++ H     A G   AWLGN LVF AVLCEA+YAVI
Sbjct: 121 EKISLRVWGAVACGAVGIGLLSLAKDGHGAS-AASGGQYAWLGNGLVFCAVLCEAAYAVI 179

Query: 181 GKKLTAVLSPKRISSVINLWGLVLMTPLGFYTALQFDFAAVHKGIWLLLVFYALAASVWS 240
           GKKLTAVL+PKRIS+VINLWGL+LMTP+G YTAL FDF AV   +W LL+FY LAASVW+
Sbjct: 180 GKKLTAVLTPKRISAVINLWGLLLMTPMGVYTALHFDFGAVPANMWWLLLFYGLAASVWT 239

Query: 241 VWLWMTGLKSVPAARAGVFTVMLPVSTALVGVLALGEQLTLIQLAAFAVALAGMLLVTVT 300
           VWLWMTGLK VPAARAGVFTVMLPVS ALVGVLALGE L+ +Q  AFA+ALAGMLL T+ 
Sbjct: 240 VWLWMTGLKVVPAARAGVFTVMLPVSAALVGVLALGESLSALQAGAFAIALAGMLLATLP 299

Query: 301 GRSAA 305
           GR+AA
Sbjct: 300 GRAAA 304


  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
   0.328    0.137    0.427 

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: 982,202
Number of extensions: 40325
Number of successful extensions: 269
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 269
Number of HSP's successfully gapped: 3
Length of query: 310
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 225
Effective length of database: 1,217,395
Effective search space: 273913875
Effective search space used: 273913875
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 (21.8 bits)
S2: 130 (54.7 bits)