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= 0002.0543.p
         (325 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...   550   e-158
gi|300313454|ref|YP_003777546.1| ABC transporter periplasmic pro...   492   e-140

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

 Score =  550 bits (1418), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 271/324 (83%), Positives = 298/324 (91%)

Query: 1   MSSMKKLSLSTLVGTLVLAAVCSAPALAADKAVLVTAIVEHPALDAVRDGVKDELKDEGF 60
           MS   KL+L  +V  L LAAVCSAPA+AADK+V VTAIVEHPALDAVRDGVKDELK+EGF
Sbjct: 1   MSYNNKLTLRAMVAALSLAAVCSAPAMAADKSVAVTAIVEHPALDAVRDGVKDELKEEGF 60

Query: 61  EAGKNLKWEYQSAQGNTGTAAQIARKFVGDKPDAIVAIATPSAQALVSATKTIPVVYSGV 120
           EAGKNLKWEYQSAQGNTGTAAQIARKFVGDKPDAIVAIATPSAQALV+ATK+IPVVYSGV
Sbjct: 61  EAGKNLKWEYQSAQGNTGTAAQIARKFVGDKPDAIVAIATPSAQALVAATKSIPVVYSGV 120

Query: 121 TDPVAAQLVKDWKPSGTNVTGVSDLLELEKQVDLIKRVVPSVKRVGMVYNPGEANSAVVV 180
           TDPVAAQLVKDWK SGTNVTGVSDLLEL+KQVDLIKRVVP+ KRVGMVYNPGEANSAVVV
Sbjct: 121 TDPVAAQLVKDWKASGTNVTGVSDLLELDKQVDLIKRVVPNAKRVGMVYNPGEANSAVVV 180

Query: 181 KAMKELLGKSGITLVEAAAPRTVDVGSAAKSLIGKIDLMYTTTDNVVVSTFESLAKVCND 240
           KA+KELL KS +TLVEAAAPR+VDVGSAAKSLIGK+D++YT TDN VVS +E+L KV ND
Sbjct: 181 KALKELLAKSNMTLVEAAAPRSVDVGSAAKSLIGKVDVIYTNTDNNVVSAYEALVKVGND 240

Query: 241 ARIPLLASDTGSVKRGAVAALGVNFYDLGRQTGKIVARILKGEKPGDIPSSTSKNLELYI 300
           A+IPL+ASDT SVKRGA+AALGVN+YDLGRQTGK+V RILKGEKPGDIPS+TS  LEL++
Sbjct: 241 AKIPLVASDTDSVKRGAIAALGVNYYDLGRQTGKVVGRILKGEKPGDIPSATSSKLELFV 300

Query: 301 NTSAAQKQGVTLSPEFLKSATKVI 324
           NT+AAQKQGVTLSPE + SA  VI
Sbjct: 301 NTAAAQKQGVTLSPELVNSAKTVI 324


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

 Score =  492 bits (1267), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 243/318 (76%), Positives = 273/318 (85%), Gaps = 1/318 (0%)

Query: 8   SLSTLVGTLVLAAVCSAPALAADKAVLVTAIVEHPALDAVRDGVKDELKDEGFEAGKNLK 67
           SL  + G L L+AVC A ALAA+K V VT+ VEHPALDAVRDG KDEL   GFE GKNLK
Sbjct: 13  SLRAIAGALALSAVC-ASALAAEKVVAVTSYVEHPALDAVRDGTKDELVAAGFEPGKNLK 71

Query: 68  WEYQSAQGNTGTAAQIARKFVGDKPDAIVAIATPSAQALVSATKTIPVVYSGVTDPVAAQ 127
           WE+QSAQ N GTA QIA+KFVGD PD IVAI TPSAQ +V+ATKTIP+VYS + DP+AAQ
Sbjct: 72  WEFQSAQANAGTAGQIAKKFVGDNPDVIVAIGTPSAQPMVAATKTIPIVYSAIADPMAAQ 131

Query: 128 LVKDWKPSGTNVTGVSDLLELEKQVDLIKRVVPSVKRVGMVYNPGEANSAVVVKAMKELL 187
           LVKDWKPSGTNVTG+S +L+  KQV++IKRVVP  KRVG+VYNPGEANS   +  +K  L
Sbjct: 132 LVKDWKPSGTNVTGMSHMLDPVKQVEVIKRVVPEAKRVGVVYNPGEANSVSALNNLKGEL 191

Query: 188 GKSGITLVEAAAPRTVDVGSAAKSLIGKIDLMYTTTDNVVVSTFESLAKVCNDARIPLLA 247
            K+G+TLVEAAAPR+VDV  AAKSLIGKID+MYTTTDN VVS FESLAKVCNDA++PL+A
Sbjct: 192 QKAGLTLVEAAAPRSVDVAPAAKSLIGKIDVMYTTTDNNVVSVFESLAKVCNDAKLPLIA 251

Query: 248 SDTGSVKRGAVAALGVNFYDLGRQTGKIVARILKGEKPGDIPSSTSKNLELYINTSAAQK 307
           SDTGSVKRGAVAALGVNFYD+GRQTGK+V RILKGEK GDIPSS  KNLELY+NTSAAQK
Sbjct: 252 SDTGSVKRGAVAALGVNFYDMGRQTGKLVVRILKGEKAGDIPSSPVKNLELYVNTSAAQK 311

Query: 308 QGVTLSPEFLKSATKVIN 325
           QGVTLSPEFLKSATKV+N
Sbjct: 312 QGVTLSPEFLKSATKVLN 329


  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
   0.312    0.128    0.347 

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: 882,065
Number of extensions: 36491
Number of successful extensions: 101
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 100
Number of HSP's successfully gapped: 2
Length of query: 325
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 240
Effective length of database: 1,217,395
Effective search space: 292174800
Effective search space used: 292174800
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 131 (55.1 bits)