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= 0002.0542.p
         (195 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313455|ref|YP_003777547.1| ABC transporter periplasmic pro...   220   7e-59
gi|300313454|ref|YP_003777546.1| ABC transporter periplasmic pro...   176   1e-45
gi|300313453|ref|YP_003777545.1| ABC transporter permease [Herba...   125   2e-30

>gi|300313455|ref|YP_003777547.1| ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 326

 Score =  220 bits (560), Expect = 7e-59,   Method: Compositional matrix adjust.
 Identities = 111/118 (94%), Positives = 113/118 (95%)

Query: 78  AAKSLIGKVDVIYTNTDNNVVSAYEALVKVGNDAKIPLVASDTDSVKRGAIAALGVNYYD 137
           AAKSLIGKVDVIYTNTDNNVVSAYEALVKVGNDAKIPLVASDTDSVKRGAIAALGVNYYD
Sbjct: 208 AAKSLIGKVDVIYTNTDNNVVSAYEALVKVGNDAKIPLVASDTDSVKRGAIAALGVNYYD 267

Query: 138 LGRQTGKVVARILKGEKPGDIASATSSKLELFVNTTAAQKQGVTLSADLIKSAKTVIK 195
           LGRQTGKVV RILKGEKPGDI SATSSKLELFVNT AAQKQGVTLS +L+ SAKTVIK
Sbjct: 268 LGRQTGKVVGRILKGEKPGDIPSATSSKLELFVNTAAAQKQGVTLSPELVNSAKTVIK 325


>gi|300313454|ref|YP_003777546.1| ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 329

 Score =  176 bits (446), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 85/117 (72%), Positives = 101/117 (86%)

Query: 78  AAKSLIGKVDVIYTNTDNNVVSAYEALVKVGNDAKIPLVASDTDSVKRGAIAALGVNYYD 137
           AAKSLIGK+DV+YT TDNNVVS +E+L KV NDAK+PL+ASDT SVKRGA+AALGVN+YD
Sbjct: 212 AAKSLIGKIDVMYTTTDNNVVSVFESLAKVCNDAKLPLIASDTGSVKRGAVAALGVNFYD 271

Query: 138 LGRQTGKVVARILKGEKPGDIASATSSKLELFVNTTAAQKQGVTLSADLIKSAKTVI 194
           +GRQTGK+V RILKGEK GDI S+    LEL+VNT+AAQKQGVTLS + +KSA  V+
Sbjct: 272 MGRQTGKLVVRILKGEKAGDIPSSPVKNLELYVNTSAAQKQGVTLSPEFLKSATKVL 328


>gi|300313453|ref|YP_003777545.1| ABC transporter permease
           [Herbaspirillum seropedicae SmR1]
          Length = 297

 Score =  125 bits (314), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 70/120 (58%), Positives = 87/120 (72%), Gaps = 2/120 (1%)

Query: 1   MSLYTLLGALEIGLIFSLVALGVLISFRILTFPDLTVDGSFPLGGAVAATMIAAGYNSFL 60
           MSLYTLLGALEIGLIFSLVALGVLISFRIL FPDLTVDGSFPLGGAVAATMIAAGYN FL
Sbjct: 1   MSLYTLLGALEIGLIFSLVALGVLISFRILVFPDLTVDGSFPLGGAVAATMIAAGYNPFL 60

Query: 61  ATGVAILAGYNSFLATGAAKSLIGKVDVIYTNTDNNVVSAYEALVKVGNDAKIPLVASDT 120
           +T +A+LAG  +   T      +  +D++ +     +++ Y   ++V     +PL++  T
Sbjct: 61  STFIALLAGALAGFTTAWLNVRLKIMDLLASIL--MMIALYSINLRVMGKPNVPLISEPT 118


  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    0.359 

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: 560,896
Number of extensions: 23353
Number of successful extensions: 101
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 100
Number of HSP's successfully gapped: 3
Length of query: 195
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 115
Effective length of database: 1,241,070
Effective search space: 142723050
Effective search space used: 142723050
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: 128 (53.9 bits)