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= 0001.4125.p
         (379 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313552|ref|YP_003777644.1| ABC transporter periplasmic/sur...   720   0.0  
gi|300310744|ref|YP_003774836.1| ABC transporter periplasmic/sur...   214   1e-56

>gi|300313552|ref|YP_003777644.1| ABC transporter
           periplasmic/surface lipoprotein [Herbaspirillum
           seropedicae SmR1]
          Length = 379

 Score =  720 bits (1858), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 371/379 (97%), Positives = 376/379 (99%)

Query: 1   MKISRRASLTMLATLAAATLIGCGKKEEPAAAAPAAAPAAAAPATDPLKVAFVYIGPVGD 60
           MKISRRASLTMLATLAAATLIGCGKKEEPAAAAPAAAPAAAAPA DPLKVAFVYIGPVGD
Sbjct: 1   MKISRRASLTMLATLAAATLIGCGKKEEPAAAAPAAAPAAAAPAADPLKVAFVYIGPVGD 60

Query: 61  AGWTFAHDKGRKAVEEKFGDKVKTTFVENIPESAADAERVFRQLATDGNKLIFGTTFGYM 120
           AGWTFAHDKGRKAVEEKFGDKVKTTFVENIPESAADAERVFRQLATDGNKLIFGTTFGYM
Sbjct: 61  AGWTFAHDKGRKAVEEKFGDKVKTTFVENIPESAADAERVFRQLATDGNKLIFGTTFGYM 120

Query: 121 EAMLKVAKEFPDVKFEHATGFKTADNLAQYDVRTYEGAYLAGVVAGKMSKSGKLGVVASV 180
           EAMLKVAKEFPDVKFEHATGFKTADNLAQYDVRTYEGAYLAGVVAGKMSKSGKLGVVASV
Sbjct: 121 EAMLKVAKEFPDVKFEHATGFKTADNLAQYDVRTYEGAYLAGVVAGKMSKSGKLGVVASV 180

Query: 181 PIPEVIRNIDSFTLGARSVNPKATTAVVWVNKWFDPGKEREAATTLIGQGVDVLMQNTDS 240
           PIPEVIRNIDSFTLGARSVNPKATTAVVWVNKWFDPGKEREAATTLIGQGVDVLMQNTDS
Sbjct: 181 PIPEVIRNIDSFTLGARSVNPKATTAVVWVNKWFDPGKEREAATTLIGQGVDVLMQNTDS 240

Query: 241 AAVVQTAQEKGVYAFGWDSDMTSFGPKAHLAASMINWGVYYTARVQAVLDGTWKSSTSWI 300
           AAVVQTAQEKGVYAFGWDSDMTSFGPKAHLAAS+INWGVYYTARVQAVLDG+WKSSTSWI
Sbjct: 241 AAVVQTAQEKGVYAFGWDSDMTSFGPKAHLAASVINWGVYYTARVQAVLDGSWKSSTSWI 300

Query: 301 GLKDNGIDLAAFNPELPAEVKTLVEERKKAIIDGSAPIWKGPIKDNTGKEVLGKDAVADD 360
           GLK+NGIDLAAFNPELPA+VKTLVEERKK I+DGSAPIWKGPIKDN GKEVLGKDAVADD
Sbjct: 301 GLKENGIDLAAFNPELPADVKTLVEERKKGIVDGSAPIWKGPIKDNAGKEVLGKDAVADD 360

Query: 361 GFLHGIKFYVEGVDGKVPG 379
           GFLHGIKFYVEGVDGKVPG
Sbjct: 361 GFLHGIKFYVEGVDGKVPG 379


>gi|300310744|ref|YP_003774836.1| ABC transporter
           periplasmic/surface lipoprotein [Herbaspirillum
           seropedicae SmR1]
          Length = 365

 Score =  214 bits (544), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 130/342 (38%), Positives = 191/342 (55%), Gaps = 10/342 (2%)

Query: 44  ATDPLKVAFVYIGPVGDAGWTFAHDKGRKAVEEKFGDKVKTTFVENIPESAADAERVFRQ 103
           A  PL V F+Y+G   D G+  +H +    +++  G  VK    E +PE+ A  + +   
Sbjct: 26  AAGPLTVGFIYVGARDDFGYNQSHAQAAAVIKKMPG--VKVIEEEKVPETVAVQKTMEAM 83

Query: 104 LATDGNKLIFGTTFGYMEA-MLKVAKEFPDVKFEHATGFKTAD----NLAQYDVRTYEGA 158
           +  DG  L+F T+FGY +  +LK+A+++P V+  H  G  TA     N+  Y     E  
Sbjct: 84  IQQDGATLLFPTSFGYFDPHVLKIAEKYPKVRIAHCGGLWTAGKHPMNVGSYFGYIEECE 143

Query: 159 YLAGVVAGKMSKSGKLGVVASVPIPEVIRNIDSFTLGARSVNPKATTAVVWVNKWFDPGK 218
           YL+GVVAG MSKS KL  +A+ PIP+V+RNI++FTLGA+SV+P  T  V++   W  P K
Sbjct: 144 YLSGVVAGYMSKSKKLAFIAAKPIPQVLRNINAFTLGAQSVDPAITCHVIFTGDWSLPVK 203

Query: 219 EREAATTLIGQGVDVLMQNTDSAAV-VQTAQEKGVYAFGWDSDMTSFGPKAHLAASMINW 277
           E EAA +LI QG DV+  + D   V V+TA+++GV   G+ +   S  PK +L  +  NW
Sbjct: 204 EAEAANSLIDQGCDVITCHVDGPKVIVETAEKRGVMTTGYHASQASLAPKGYLTGAEWNW 263

Query: 278 GVYYTARVQAVLDGTWKSSTSWIGLKDNGIDLAAFNPELPAEVKTLVEERKKAIIDGSAP 337
              YT  V+A L+G    +    GLKDN + ++ +   + A  K   +E K  ++ G   
Sbjct: 264 ATPYTEIVKATLEGKPMINFLRGGLKDNFVKMSPYGAAVSAPAKKKADEIKAQMLAGKFQ 323

Query: 338 IWKGPIKDNTGKEVL--GKDAVADDGFLHGIKFYVEGVDGKV 377
           I+KGPIKDN G  V+  G   V  D  L  + + V GV G+V
Sbjct: 324 IFKGPIKDNKGNTVIPAGTTQVQTDVVLEKMNYLVAGVVGQV 365


  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
   0.316    0.132    0.391 

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: 1,131,672
Number of extensions: 46817
Number of successful extensions: 157
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 153
Number of HSP's successfully gapped: 2
Length of query: 379
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 292
Effective length of database: 1,207,925
Effective search space: 352714100
Effective search space used: 352714100
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: 131 (55.1 bits)