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= 0093.0003.p
         (134 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311796|ref|YP_003775888.1| outer membrane channel lipoprot...   109   1e-25
gi|300310854|ref|YP_003774946.1| NodT family protein [Herbaspiri...    84   4e-18
gi|300313898|ref|YP_003777990.1| outer membrane drug efflux lipo...    71   3e-14
gi|300309656|ref|YP_003773748.1| outer membrane drug efflux prot...    66   1e-12

>gi|300311796|ref|YP_003775888.1| outer membrane channel lipoprotein
           [Herbaspirillum seropedicae SmR1]
          Length = 510

 Score =  109 bits (272), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 50/71 (70%), Positives = 54/71 (76%)

Query: 5   AIATALLLGGCAVGPDYVRPQLDLPTAYKEQGPWKNAEPGQIDSNQRWWEAYNDTVLNGL 64
           A+  A LLGGCAVGPDY RP LDLP AYKE GPWK A P QID +Q WWEAY D VLN L
Sbjct: 37  ALVLAALLGGCAVGPDYARPALDLPQAYKETGPWKLAAPRQIDDHQPWWEAYGDPVLNAL 96

Query: 65  IEQANQANQNI 75
           ++QAN ANQ I
Sbjct: 97  MDQANAANQTI 107


>gi|300310854|ref|YP_003774946.1| NodT family protein
           [Herbaspirillum seropedicae SmR1]
          Length = 507

 Score = 84.0 bits (206), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 41/96 (42%), Positives = 58/96 (60%), Gaps = 1/96 (1%)

Query: 4   AAIATALLLGGCAVGPDYVRPQLDL-PTAYKEQGPWKNAEPGQIDSNQRWWEAYNDTVLN 62
           A +  +L L  C+VGPDYVRPQ+D  P  +KE   WK A+P  + ++ +WWE + D  LN
Sbjct: 14  AMLVASLALAACSVGPDYVRPQMDTGPAIFKEGQNWKPAQPRDLVADGKWWEMFGDPQLN 73

Query: 63  GLIEQANQANQNIRLAEAQYRQAQATAAIARRWXPP 98
            L+ Q + +NQN+ LAEA +R A A    +R    P
Sbjct: 74  ALVAQVDISNQNLALAEANFRSAVALVQSSRSAYSP 109


>gi|300313898|ref|YP_003777990.1| outer membrane drug efflux
          lipoprotein [Herbaspirillum seropedicae SmR1]
          Length = 486

 Score = 71.2 bits (173), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 32/74 (43%), Positives = 45/74 (60%)

Query: 14 GCAVGPDYVRPQLDLPTAYKEQGPWKNAEPGQIDSNQRWWEAYNDTVLNGLIEQANQANQ 73
          GCA GPDY RPQ+D+P A+  + PW++ +P        WWE + D  LN L +QA   NQ
Sbjct: 18 GCASGPDYTRPQVDMPAAWTSEAPWRSMQPADATPRGPWWERFGDAQLNALQQQALAGNQ 77

Query: 74 NIRLAEAQYRQAQA 87
           + +A A+  QA+A
Sbjct: 78 TLAIATARLAQARA 91


>gi|300309656|ref|YP_003773748.1| outer membrane drug efflux protein
           [Herbaspirillum seropedicae SmR1]
          Length = 504

 Score = 65.9 bits (159), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 35/90 (38%), Positives = 49/90 (54%), Gaps = 10/90 (11%)

Query: 14  GCAVGPDYVRPQLDLPTAYKEQGP----------WKNAEPGQIDSNQRWWEAYNDTVLNG 63
           GC+V P Y RP +D P A+KE  P          WK A+P +  +   WW+ + D  LN 
Sbjct: 30  GCSVAPTYERPSVDTPAAFKEAAPATQTGENGSQWKTAQPAEDIARGEWWKIFGDEKLNA 89

Query: 64  LIEQANQANQNIRLAEAQYRQAQATAAIAR 93
           L + A QANQ+++ A A+  QA+A    AR
Sbjct: 90  LEDTAQQANQDLKAAAARLGQARALTRDAR 119


  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    0.129    0.420 

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: 291,438
Number of extensions: 8472
Number of successful extensions: 41
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 43
Number of HSP's successfully gapped: 5
Length of query: 134
Length of database: 1,619,870
Length adjustment: 76
Effective length of query: 58
Effective length of database: 1,260,010
Effective search space: 73080580
Effective search space used: 73080580
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: 125 (52.8 bits)