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= 0006.0009.p
         (609 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312719|ref|YP_003776811.1| oligopeptide ABC transporter pe...  1248   0.0  
gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter perip...    73   7e-14

>gi|300312719|ref|YP_003776811.1| oligopeptide ABC transporter
           periplasmic protein [Herbaspirillum seropedicae SmR1]
          Length = 609

 Score = 1248 bits (3229), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 606/609 (99%), Positives = 606/609 (99%)

Query: 1   MVKPLKKHKFLLSCLLATVLAHAPAPARAEHAFSLYDTPRYGPGFSHFDYVNPDAPRRGT 60
           MVKPLKKHKFLLSCLLATVLAHAPAPARAEHAFSLYDTPRYGPGFSHFDYVNPDAPRRGT
Sbjct: 1   MVKPLKKHKFLLSCLLATVLAHAPAPARAEHAFSLYDTPRYGPGFSHFDYVNPDAPRRGT 60

Query: 61  LYLANPDRRTSFDKFNPMSMKGVAAAGLDQLMFETLAVSSGDEVATVYGLLADDMQLAPD 120
           LYLANPDRRTSFDKFNPMSMKGVAAAGLDQLMFETLAVSSGDEVATVYGLLADDMQLAPD
Sbjct: 61  LYLANPDRRTSFDKFNPMSMKGVAAAGLDQLMFETLAVSSGDEVATVYGLLADDMQLAPD 120

Query: 121 RMSMTFHLNPKARFNNGDKVSAADVKYSFDTLMAKGAPQYKSVFADVKACVVVDASTVRF 180
           RMSMTFHLNPKARFNNGDKVSAADVKYSFDTLMAKGAPQYKSVFADVKACVVVDASTVRF
Sbjct: 121 RMSMTFHLNPKARFNNGDKVSAADVKYSFDTLMAKGAPQYKSVFADVKACVVVDASTVRF 180

Query: 181 DFASSNHELPLIVASVPVFSRKWAQGTPFDQIQLTPPISTGPYLIERYDTGRSITYKRNP 240
           DFASSNHELPLIVASVPVFSRKWAQGTPFDQIQLTPPISTGPYLIERYDTGRSITYKRNP
Sbjct: 181 DFASSNHELPLIVASVPVFSRKWAQGTPFDQIQLTPPISTGPYLIERYDTGRSITYKRNP 240

Query: 241 DYWGKDVPARRGMFNFERIVYRFYKDDLARLEAFKAGEFDVVVEYSAKNWARSYTGPQFR 300
           DYWGKDVPARRGMFNFERIVYRFYKDDLARLEAFKAGEFDVVVEYSAKNWARSYTGPQFR
Sbjct: 241 DYWGKDVPARRGMFNFERIVYRFYKDDLARLEAFKAGEFDVVVEYSAKNWARSYTGPQFR 300

Query: 301 DGRIIKKEFKHSNGAGMQGFVMNLRRDQFKDVRVRQAIGLALDYEWMNRQLFYGQYTRIY 360
           DGRIIKKEFKHSNGAGMQGFVMNLRRDQFKDVRVRQAIGLALDYEWMNRQLFYGQYTRIY
Sbjct: 301 DGRIIKKEFKHSNGAGMQGFVMNLRRDQFKDVRVRQAIGLALDYEWMNRQLFYGQYTRIY 360

Query: 361 SFFNNSDLAATGEPQGDELALLKSLQAKGLKIDRAVFGPAPVPPSTNPPSSLRANLRQAR 420
           SFFNNSDLAATGEPQGDELALLKSLQAKGLKID AVFGPAPVPPSTNPPSSLRANLRQAR
Sbjct: 361 SFFNNSDLAATGEPQGDELALLKSLQAKGLKIDPAVFGPAPVPPSTNPPSSLRANLRQAR 420

Query: 421 ELLAQAGWVYRDGAVRNAQGVPLSFEILDDQSSMSRVISVFARNLRTLGIDVVQRSADYA 480
           ELLAQAGWVYRDGAVRNAQGVPLSFEILDDQSSMSRVISVFARNLRTLGIDVVQRSADYA
Sbjct: 421 ELLAQAGWVYRDGAVRNAQGVPLSFEILDDQSSMSRVISVFARNLRTLGIDVVQRSADYA 480

Query: 481 LVAKRMEDFDFDMTSIRFPDTSSPGNELLDMFGSRAADEKGSNNAWGLKDPVVDQLVQTV 540
           LVAKRMEDFDFDMTSIRFPDTSSPGNELLDMFGSRAADEKGSNNAWGLKDPVVDQLVQTV
Sbjct: 481 LVAKRMEDFDFDMTSIRFPDTSSPGNELLDMFGSRAADEKGSNNAWGLKDPVVDQLVQTV 540

Query: 541 IAADTRVKLMAAARALDRVLLHKYIVVPHWYSSTHRIAYQNRFGIPQVAPFYYQADPYVI 600
           IAADTRVKL AAARALDRVLLHKYIVVPHWYSSTHRIAYQNRFGIPQVAP YYQADPYVI
Sbjct: 541 IAADTRVKLTAAARALDRVLLHKYIVVPHWYSSTHRIAYQNRFGIPQVAPLYYQADPYVI 600

Query: 601 STWWEEKGR 609
           STWWEEKGR
Sbjct: 601 STWWEEKGR 609


>gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter
           periplasmic protein [Herbaspirillum seropedicae SmR1]
          Length = 528

 Score = 72.8 bits (177), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 65/256 (25%), Positives = 113/256 (44%), Gaps = 30/256 (11%)

Query: 120 DRMSMTFHLNPKARFNNGDKVSAADVKYSFDTLMAKGAPQYKSVFA----DVKACVVVDA 175
           D  +  F L P  ++ +G   +A DV +S+    A+  P   + FA     V++    D 
Sbjct: 83  DPKTWEFKLRPNVKWQDGKPFTADDVIFSYQ--RARAVPGSVATFAGYLRTVESVTAKDP 140

Query: 176 STVRFDFASSNHELPLIVASVPVFSRKWAQGTPFDQIQLTPP-ISTGPYLIERYDTGRSI 234
            T+       N +LPL +ASV + S+   + +  +        I TGPY    Y  G  +
Sbjct: 141 LTLVIKTNIPNPDLPLNLASVHIVSKHIGEKSTTENYNSGAAVIGTGPYKFVSYTPGDRV 200

Query: 235 TYKRNPDYWGKDVPARRGMFNFERIVYRFYKDDLARLEAFKAGEFDVVVEYSAKNWARSY 294
             +RN DYW        G   +E++ YR+  +  AR  A  +G+ DV+ + S  + A+  
Sbjct: 201 VMQRNDDYW-------NGKPLWEKVNYRYINNGAARTAALLSGDVDVIDKVSVSDLAKLK 253

Query: 295 TGPQFR----DG---RIIKKEFKHSNGAGMQGFVMN-----LRRDQFKDVRVRQAIGLAL 342
             P  +    +G    +I+  F      G   F+ +     L ++   DVRVR+A+ LA+
Sbjct: 254 QSPNVKVYPYNGLRVLLIQPSFHQ----GPSPFITDNNGKQLDKNPLLDVRVRRAMSLAI 309

Query: 343 DYEWMNRQLFYGQYTR 358
           + + +  ++  G  T 
Sbjct: 310 NRKALIDRILQGAATE 325


  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
   0.321    0.136    0.410 

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: 1,843,648
Number of extensions: 75162
Number of successful extensions: 184
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 185
Number of HSP's successfully gapped: 2
Length of query: 609
Length of database: 1,619,870
Length adjustment: 91
Effective length of query: 518
Effective length of database: 1,188,985
Effective search space: 615894230
Effective search space used: 615894230
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 (21.9 bits)
S2: 133 (55.8 bits)