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= 0001.3375.p
         (605 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...   905   0.0  
gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter perip...    75   2e-14

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

 Score =  905 bits (2338), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 429/609 (70%), Positives = 495/609 (81%), Gaps = 4/609 (0%)

Query: 1   MVQPLKTTKLFLSCLLGATLAHG-IPAAAEHAFSLYDTPKYGPGFTHFDYVNPDAPKRGT 59
           MV+PLK  K  LSCLL   LAH   PA AEHAFSLYDTP+YGPGF+HFDYVNPDAP+RGT
Sbjct: 1   MVKPLKKHKFLLSCLLATVLAHAPAPARAEHAFSLYDTPRYGPGFSHFDYVNPDAPRRGT 60

Query: 60  LYLANPDRRTSFDKFNPFSLKGVAAAGVEPFMFETLAVGSADEVASMYGLLADDMVLAPD 119
           LYLANPDRRTSFDKFNP S+KGVAAAG++  MFETLAV S DEVA++YGLLADDM LAPD
Sbjct: 61  LYLANPDRRTSFDKFNPMSMKGVAAAGLDQLMFETLAVSSGDEVATVYGLLADDMQLAPD 120

Query: 120 RRSMRFHLNPKARFNNGDPVTAADVKYSFDTLMTKGAPQFKSVFADVERCVVIDPMTVRF 179
           R SM FHLNPKARFNNGD V+AADVKYSFDTLM KGAPQ+KSVFADV+ CVV+D  TVRF
Sbjct: 121 RMSMTFHLNPKARFNNGDKVSAADVKYSFDTLMAKGAPQYKSVFADVKACVVVDASTVRF 180

Query: 180 DFKNDNRELPLIVGGLPVFSPKWGAGTPFDRIQLTAPIASGPYAIESYDLGRSIVYRRRA 239
           DF + N ELPLIV  +PVFS KW  GTPFD+IQLT PI++GPY IE YD GRSI Y+R  
Sbjct: 181 DFASSNHELPLIVASVPVFSRKWAQGTPFDQIQLTPPISTGPYLIERYDTGRSITYKRNP 240

Query: 240 DYWGNDLPSRRGMYNFARIAYRFYKDDLARLEAFKAGEFDVTVEYSAKNWVRGYTGPKFA 299
           DYWG D+P+RRGM+NF RI YRFYKDDLARLEAFKAGEFDV VEYSAKNW R YTGP+F 
Sbjct: 241 DYWGKDVPARRGMFNFERIVYRFYKDDLARLEAFKAGEFDVVVEYSAKNWARSYTGPQFR 300

Query: 300 NGEIIKHAFPHHNGANMQGFVMNLRRPQFQDPRVRRALGLALDFQWMNRQLFYDQYTRVD 359
           +G IIK  F H NGA MQGFVMNLRR QF+D RVR+A+GLALD++WMNRQLFY QYTR+ 
Sbjct: 301 DGRIIKKEFKHSNGAGMQGFVMNLRRDQFKDVRVRQAIGLALDYEWMNRQLFYGQYTRIY 360

Query: 360 SYFANSELAATGTPSAEELKLLEPLRA---QLPAAVFGPVPAQPDTNPPGSLRANLMQAR 416
           S+F NS+LAATG P  +EL LL+ L+A   ++  AVFGP P  P TNPP SLRANL QAR
Sbjct: 361 SFFNNSDLAATGEPQGDELALLKSLQAKGLKIDPAVFGPAPVPPSTNPPSSLRANLRQAR 420

Query: 417 QLFREAGWTYRDGALRNDKGQVFHMEILDDQPAMSRVISIYVRNLEKLGVRVNQRTVDYA 476
           +L  +AGW YRDGA+RN +G     EILDDQ +MSRVIS++ RNL  LG+ V QR+ DYA
Sbjct: 421 ELLAQAGWVYRDGAVRNAQGVPLSFEILDDQSSMSRVISVFARNLRTLGIDVVQRSADYA 480

Query: 477 LAQKLLENFEFDMTSLAIPATNSPGSEMFDIFGSRAADESGSNNVWGLKNPAVDQLIGKV 536
           L  K +E+F+FDMTS+  P T+SPG+E+ D+FGSRAADE GSNN WGLK+P VDQL+  V
Sbjct: 481 LVAKRMEDFDFDMTSIRFPDTSSPGNELLDMFGSRAADEKGSNNAWGLKDPVVDQLVQTV 540

Query: 537 VAARSRAELLTATHALDRVLLNLYITVPHWYSSTHRMAYRNRFGIPAVLPKYYEANPFVV 596
           +AA +R +L  A  ALDRVLL+ YI VPHWYSSTHR+AY+NRFGIP V P YY+A+P+V+
Sbjct: 541 IAADTRVKLTAAARALDRVLLHKYIVVPHWYSSTHRIAYQNRFGIPQVAPLYYQADPYVI 600

Query: 597 SMWWEEKPR 605
           S WWEEK R
Sbjct: 601 STWWEEKGR 609


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

 Score = 74.7 bits (182), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 73/286 (25%), Positives = 124/286 (43%), Gaps = 36/286 (12%)

Query: 119 DRRSMRFHLNPKARFNNGDPVTAADVKYSFDTLMTKGAPQFKSVFA----DVERCVVIDP 174
           D ++  F L P  ++ +G P TA DV +S+     +  P   + FA     VE     DP
Sbjct: 83  DPKTWEFKLRPNVKWQDGKPFTADDVIFSYQ--RARAVPGSVATFAGYLRTVESVTAKDP 140

Query: 175 MTVRFDFKNDNRELPLIVGGLPVFSPKWGAGTPFDRIQL-TAPIASGPYAIESYDLGRSI 233
           +T+       N +LPL +  + + S   G  +  +      A I +GPY   SY  G  +
Sbjct: 141 LTLVIKTNIPNPDLPLNLASVHIVSKHIGEKSTTENYNSGAAVIGTGPYKFVSYTPGDRV 200

Query: 234 VYRRRADYWGNDLPSRRGMYNFARIAYRFYKDDLARLEAFKAGEFDVTVEYSAKNWVRGY 293
           V +R  DYW        G   + ++ YR+  +  AR  A  +G+ DV  + S  +  +  
Sbjct: 201 VMQRNDDYWN-------GKPLWEKVNYRYINNGAARTAALLSGDVDVIDKVSVSDLAKLK 253

Query: 294 TGPKFA----NG---EIIKHAFPHHNGANMQGFVMN-----LRRPQFQDPRVRRALGLAL 341
             P       NG    +I+ +F  H G +   F+ +     L +    D RVRRA+ LA+
Sbjct: 254 QSPNVKVYPYNGLRVLLIQPSF--HQGPS--PFITDNNGKQLDKNPLLDVRVRRAMSLAI 309

Query: 342 DFQWMNRQLFY------DQYTRVDSYFANSELAATGTPSAEELKLL 381
           + + +  ++        +Q+   D++  N E+      +A+  KLL
Sbjct: 310 NRKALIDRILQGAATEANQWMPADTFGYNPEIKNIPFDAAQAKKLL 355


  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
   0.322    0.137    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: 2,053,455
Number of extensions: 93077
Number of successful extensions: 230
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 226
Number of HSP's successfully gapped: 2
Length of query: 605
Length of database: 1,619,870
Length adjustment: 91
Effective length of query: 514
Effective length of database: 1,188,985
Effective search space: 611138290
Effective search space used: 611138290
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)