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= 0002.0541.p
         (332 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313454|ref|YP_003777546.1| ABC transporter periplasmic pro...   353   2e-98
gi|300313455|ref|YP_003777547.1| ABC transporter periplasmic pro...   310   1e-85
gi|300313453|ref|YP_003777545.1| ABC transporter permease [Herba...   194   1e-50

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

 Score =  353 bits (905), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 173/213 (81%), Positives = 193/213 (90%), Gaps = 1/213 (0%)

Query: 1   MFTLSKTLRAITGALALAAVCAAPALAADKSVMVTSIVEHPALDAVRDGTRDELKAEGYE 60
           M  LSK+LRAI GALAL+AVCA+ ALAA+K V VTS VEHPALDAVRDGT+DEL A G+E
Sbjct: 7   MLALSKSLRAIAGALALSAVCAS-ALAAEKVVAVTSYVEHPALDAVRDGTKDELVAAGFE 65

Query: 61  GGKGFKFEFQSAQGNAGTAGQIAKKFVGDNPDVIVAIGTPSAQPLVASTKTIPIVYSGIA 120
            GK  K+EFQSAQ NAGTAGQIAKKFVGDNPDVIVAIGTPSAQP+VA+TKTIPIVYS IA
Sbjct: 66  PGKNLKWEFQSAQANAGTAGQIAKKFVGDNPDVIVAIGTPSAQPMVAATKTIPIVYSAIA 125

Query: 121 DPIAAQLVKDWGPSGTNVTGLSHMLDPVKQVEIIKKVLPSAKRIGIVYNPGESNSVSALN 180
           DP+AAQLVKDW PSGTNVTG+SHMLDPVKQVE+IK+V+P AKR+G+VYNPGE+NSVSALN
Sbjct: 126 DPMAAQLVKDWKPSGTNVTGMSHMLDPVKQVEVIKRVVPEAKRVGVVYNPGEANSVSALN 185

Query: 181 AIKAVLEKQGMTLVEAAAPRSVDVAPAAKSLIG 213
            +K  L+K G+TLVEAAAPRSVDVAPAAKSLIG
Sbjct: 186 NLKGELQKAGLTLVEAAAPRSVDVAPAAKSLIG 218


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

 Score =  310 bits (794), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 148/207 (71%), Positives = 177/207 (85%)

Query: 7   TLRAITGALALAAVCAAPALAADKSVMVTSIVEHPALDAVRDGTRDELKAEGYEGGKGFK 66
           TLRA+  AL+LAAVC+APA+AADKSV VT+IVEHPALDAVRDG +DELK EG+E GK  K
Sbjct: 8   TLRAMVAALSLAAVCSAPAMAADKSVAVTAIVEHPALDAVRDGVKDELKEEGFEAGKNLK 67

Query: 67  FEFQSAQGNAGTAGQIAKKFVGDNPDVIVAIGTPSAQPLVASTKTIPIVYSGIADPIAAQ 126
           +E+QSAQGN GTA QIA+KFVGD PD IVAI TPSAQ LVA+TK+IP+VYSG+ DP+AAQ
Sbjct: 68  WEYQSAQGNTGTAAQIARKFVGDKPDAIVAIATPSAQALVAATKSIPVVYSGVTDPVAAQ 127

Query: 127 LVKDWGPSGTNVTGLSHMLDPVKQVEIIKKVLPSAKRIGIVYNPGESNSVSALNAIKAVL 186
           LVKDW  SGTNVTG+S +L+  KQV++IK+V+P+AKR+G+VYNPGE+NS   + A+K +L
Sbjct: 128 LVKDWKASGTNVTGVSDLLELDKQVDLIKRVVPNAKRVGMVYNPGEANSAVVVKALKELL 187

Query: 187 EKQGMTLVEAAAPRSVDVAPAAKSLIG 213
            K  MTLVEAAAPRSVDV  AAKSLIG
Sbjct: 188 AKSNMTLVEAAAPRSVDVGSAAKSLIG 214


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

 Score =  194 bits (492), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 113/118 (95%), Positives = 116/118 (98%)

Query: 215 RATLAGMALANALVALGGALFAQTQGGADISMGIGTIVIGLAAVIIGENILPARRLVLTT 274
           RATLAGMALAN+LVAL GALFAQTQGG+DISMGIGTIVIGLAAVIIGENILPARRLV TT
Sbjct: 180 RATLAGMALANSLVALAGALFAQTQGGSDISMGIGTIVIGLAAVIIGENILPARRLVWTT 239

Query: 275 LAVILGAILYRFFIALALNSDFIGLQAQDLNLVTAVLVMLALVLPMGKRKLKLLRKGA 332
           LAVILGAILYRFFIALALNSDFIGLQAQDLNLVTAVLVMLALVLPMGKRKLKLL+KGA
Sbjct: 240 LAVILGAILYRFFIALALNSDFIGLQAQDLNLVTAVLVMLALVLPMGKRKLKLLKKGA 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
   0.319    0.135    0.370 

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: 739,183
Number of extensions: 27431
Number of successful extensions: 151
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 151
Number of HSP's successfully gapped: 3
Length of query: 332
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 246
Effective length of database: 1,212,660
Effective search space: 298314360
Effective search space used: 298314360
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: 131 (55.1 bits)