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= 0001.2601.p
         (443 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311878|ref|YP_003775970.1| amino acid ABC transporter peri...   853   0.0  
gi|300310288|ref|YP_003774380.1| hypothetical protein Hsero_0955...   428   e-121

>gi|300311878|ref|YP_003775970.1| amino acid ABC transporter
           periplasmic protein [Herbaspirillum seropedicae SmR1]
          Length = 443

 Score =  853 bits (2205), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 426/443 (96%), Positives = 439/443 (99%)

Query: 1   MKTMKHLRQLVLATTCAAGLLSAAVPALAQSNEQFIAIPSYRVGPYGTNGQSYYGGYVDY 60
           MK++KHLRQL+LAT CAA LLSAA PALAQ+++QFIAIPSYRVGPYGTNGQSYYGGYVDY
Sbjct: 1   MKSIKHLRQLLLATACAASLLSAAAPALAQASDQFIAIPSYRVGPYGTNGQSYYGGYVDY 60

Query: 61  LNYVNLKEGGINGVKLSWEECETEYNNAKGVECYERMKNKNPVTHGTAINPMATGISYAL 120
           LNY+N+KEGG+NGVKLSWEECETEYNNAKGVECYERMKNKNPVTHGTAINPMATGISYAL
Sbjct: 61  LNYINIKEGGVNGVKLSWEECETEYNNAKGVECYERMKNKNPVTHGTAINPMATGISYAL 120

Query: 121 IDKTAEDKVPLVMIGYGRTDAVDGSVFPYAFPLVTTYQMQVSAIVKYLAGKNNGSLAGKK 180
           IDKTAEDKVPLVMIGYGRTDAVDGSVFPYAFPLVTTYQMQVSAIVKYLAGKNNGSLAGKK
Sbjct: 121 IDKTAEDKVPLVMIGYGRTDAVDGSVFPYAFPLVTTYQMQVSAIVKYLAGKNNGSLAGKK 180

Query: 181 IVFLYHDSAYGKEPIVALQAEASIGKFKLVEIPVAHPGNEQGAQWLRIRQENPDYVIFWG 240
           IVFLYHDSAYGKEPIVALQAEASIGKFKLVEIPVAHPGNEQGAQWLRIRQENPDYVIFWG
Sbjct: 181 IVFLYHDSAYGKEPIVALQAEASIGKFKLVEIPVAHPGNEQGAQWLRIRQENPDYVIFWG 240

Query: 241 WGVMNQTALKAAQKVGYARDKIIGSWWAGSEEDTIPAGEAAKGYLSATWNVAGKDVPVIA 300
           WGVMNQTALKAAQKVGYARDKI+GSWWAGSEEDTIPAG+AAKGYLSATWNVAGKDVPVIA
Sbjct: 241 WGVMNQTALKAAQKVGYARDKIVGSWWAGSEEDTIPAGDAAKGYLSATWNVAGKDVPVIA 300

Query: 301 DIDKVVYGAGKGNMQDKNKLGSILYNRGVSAAIATVEAVRTAQAKFGKGKVMSGEQVRWG 360
           DIDKVVYGAGKGNMQDKNKLGSILYNRGVSAAIATVEAVRTAQ K+GKGKVMSGEQVRWG
Sbjct: 301 DIDKVVYGAGKGNMQDKNKLGSILYNRGVSAAIATVEAVRTAQGKYGKGKVMSGEQVRWG 360

Query: 361 FENLNITDARLKALGATGLLPEIKTSCENHEGSGKVKIQQWDGSKWVLVSDWIEGNKNLI 420
           FENLNITDARLKALGATGLLPEIKTSC+NHEGSGKVKIQQWDGSKWVLVSDWIEGNKNLI
Sbjct: 361 FENLNITDARLKALGATGLLPEIKTSCDNHEGSGKVKIQQWDGSKWVLVSDWIEGNKNLI 420

Query: 421 HPLFKASAAKYAKEKGITPACMK 443
           HPLFKASAAKYAKEKGITPACMK
Sbjct: 421 HPLFKASAAKYAKEKGITPACMK 443


>gi|300310288|ref|YP_003774380.1| hypothetical protein Hsero_0955
           [Herbaspirillum seropedicae SmR1]
          Length = 438

 Score =  428 bits (1101), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 224/439 (51%), Positives = 292/439 (66%), Gaps = 11/439 (2%)

Query: 1   MKTMKHLRQLVLATTCAAGLLSAAVPALAQSNEQFIAIPSYRVGPYGTNGQSYYGGYVDY 60
           M   K L+ + L T     LL+A +   A+++EQF  + SYRVGPY   G  ++GG++DY
Sbjct: 1   MLHSKILKAIALTTV----LLTAGLQQ-ARADEQFFPLQSYRVGPYAAGGTGFFGGFIDY 55

Query: 61  LNYVNLKEGGINGVKLSWEECETEYNNAKGVECYERMKNKNPVTHGTAINPMATGISYAL 120
           LN VNL++GG+ GVKL+WEE ET+Y   +GVE YER+K +  +      NP++ GI+YAL
Sbjct: 56  LNLVNLRDGGVGGVKLTWEEGETQYEVERGVEVYERLKQRPNIA---TWNPLSVGIAYAL 112

Query: 121 IDKTAEDKVPLVMIGYGRTDAVDGSVFPYAFPLVTTYQMQVSAIVKYLAGKNNGS--LAG 178
           +D+   DKVPL+ I +GRTD  DG VF Y FPL+     + S IV Y+A K  G+  L G
Sbjct: 113 LDRVTADKVPLLTINHGRTDTTDGRVFKYIFPLLLNPYSETSGIVNYIASKEGGADKLKG 172

Query: 179 KKIVFLYHDSAYGKEPIVALQAEASIGKFKLVEIPVAHPGNEQGAQWLRIRQENPDYVIF 238
           KKIV LYH S YGKE I   +  +    F L +I V HPGN+Q AQWL IR+  PDYV+ 
Sbjct: 173 KKIVVLYHGSPYGKETIPIYKLLSEKYGFSLQQIEVPHPGNDQQAQWLAIRRAKPDYVVL 232

Query: 239 WGWGVMNQTALKAAQKVGYARDKIIGSWWAGSEEDTIPAGEAAKGYLSATWNVAGKDVPV 298
            GWGVMN  ALK AQK G+  D+IIG+ W+ SEED IPAG+AAKGY++ T   AG   PV
Sbjct: 233 RGWGVMNPVALKTAQKSGFPADRIIGNVWSNSEEDVIPAGDAAKGYVAITTVAAGAQYPV 292

Query: 299 IADIDKVVYGAGKGNMQDKNKLGSILYNRGVSAAIATVEAVRTAQAKFGKGKVMSGEQVR 358
           + +I K VYGAGKGN+QD  ++GS+ +N GV   I  VEA+R AQA+FGK + ++G+++R
Sbjct: 293 LQEIQKTVYGAGKGNLQDPKRIGSVYHNLGVLNGILNVEAIRIAQARFGK-RTLTGDEIR 351

Query: 359 WGFENLNITDARLKALGATGLLPEIKTSCENHEGSGKVKIQQWDGSKWVLVSDWIEGNKN 418
           WG ENLNI  AR  ALGA GL   I  + +NHEG G V  QQWDG +W +VSDWI  +  
Sbjct: 352 WGLENLNIDQARTAALGAKGLFHSIHVTWDNHEGDGLVAFQQWDGKQWHVVSDWIAPDWK 411

Query: 419 LIHPLFKASAAKYAKEKGI 437
           L+ P+ + SA  YAKEK I
Sbjct: 412 LLRPIIEKSALAYAKEKNI 430


  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
   0.315    0.133    0.400 

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: 1,480,043
Number of extensions: 65658
Number of successful extensions: 172
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 170
Number of HSP's successfully gapped: 2
Length of query: 443
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 355
Effective length of database: 1,203,190
Effective search space: 427132450
Effective search space used: 427132450
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 (21.6 bits)
S2: 132 (55.5 bits)