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= 0002.0273.p
         (582 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309387|ref|YP_003773479.1| membrane protein [Herbaspirillu...   276   3e-75
gi|300311429|ref|YP_003775521.1| transmembrane protein [Herbaspi...    56   1e-08

>gi|300309387|ref|YP_003773479.1| membrane protein [Herbaspirillum
           seropedicae SmR1]
          Length = 711

 Score =  276 bits (706), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 217/424 (51%), Positives = 265/424 (62%), Gaps = 30/424 (7%)

Query: 158 ARQAVARVNAMALLLRTIQSGVAATPGKRNLVHSDTEDARAMLRLRQLVGRAPSQVAQLL 217
           ARQ   RV  +A + R +Q+  AA   +   + +D EDAR M RLRQLV R PS   +LL
Sbjct: 298 ARQRTTRV--LAGIARQLQAMQAAM-SQGEAIAAD-EDARIMARLRQLVARLPSGTGRLL 353

Query: 218 QLRDLH--------DADGLMVLADWKRAARPPLPQPSLRHGALDALRMAAAHLRSGSAEV 269
           Q   +H        D  GL ++A  + AA  P     L H      R AA+H  +GSAE 
Sbjct: 354 Q--QVHTPLAVGSDDPAGLKLMA--RSAAPAPALPAILLHRVRAWWRKAASHAATGSAEW 409

Query: 270 RHGLRCAAAAGITYLIVHLLQLPFGYWATMATMLVMQPSVADSWSRSMERAVGSIVGGVL 329
            H  RCAAAAG TYLIVHLL+LPFGYWATMATMLVMQPS+A+SWSRSMERAVGS+VGGVL
Sbjct: 410 HHAWRCAAAAGATYLIVHLLELPFGYWATMATMLVMQPSIAESWSRSMERAVGSVVGGVL 469

Query: 330 AVALCLYIHSPLALALLVFPMAALSMGLRPVSYGLYSLFLTPVFVLVADVAAQPQLQLQL 389
           AV LCL +HSPLALALLVFP+  L+M L+PVSYGLY+ FLTPVFVLVADV   P    +L
Sbjct: 470 AVVLCLVVHSPLALALLVFPLTVLTMALKPVSYGLYATFLTPVFVLVADVGGDP--AHEL 527

Query: 390 SNALLRAGNNVIGAVVAIVATYLLWPHRRQANLHRSLSHMIVINLACLRGALASQ--PHA 447
           +NA LRAGNNVIGAVVA++A+YL WP R   +    L  M  +NLA L  ALA+   P  
Sbjct: 528 ANAALRAGNNVIGAVVAVLASYLFWPRRHPEDPQAQLQRMAQLNLAYLIEALATPAAPPM 587

Query: 448 AQMHARRREACVVNIESGLLLQRLLREGDMNARQIHDARTSVALARRLACAATHIWLEER 507
           A +HA RR ACV N+E+GLLLQR+ RE     R     RT+VAL+RRLA AA+HIW   +
Sbjct: 588 ATLHAHRRAACVANVEAGLLLQRVARERGWPERDHGRGRTAVALSRRLAAAASHIWAHPQ 647

Query: 508 KSATAAERLAHVEFDNWLQTMEDLFERRVTAAASCAALVQQRPVVHDLARADAVETVCLL 567
            ++           +                + +   L++ RP    LA+A AVET CLL
Sbjct: 648 AASP----------ELLGWLRALAAALSAHQSRALHDLLRHRPAPMHLAQAAAVETACLL 697

Query: 568 AAAM 571
            A +
Sbjct: 698 VATL 701



 Score =  249 bits (637), Expect = 4e-67,   Method: Compositional matrix adjust.
 Identities = 126/164 (76%), Positives = 139/164 (84%)

Query: 1   MRHASLSEGLRAALAAGTMLLVGECLHNPLFSWAAIGAFLTCLADSAGSNRSRLASMGGF 60
           +RHA+LSEGLRAA +A  MLL+GE L NPLFSWAAIGAFLTCLADSAGSNR+RLASMGGF
Sbjct: 40  LRHANLSEGLRAACSAAAMLLLGEWLGNPLFSWAAIGAFLTCLADSAGSNRARLASMGGF 99

Query: 61  ALASTMGGMFAATLSGMGMPAGLLAIMVCAGIAGFSRIYGAATGLVLMLAAGVSAILADF 120
           ALAST+GGM AA+ + + +  G L IM CAG+AGFSRIYGAA GLVLMLAAGVSAI+AD 
Sbjct: 100 ALASTLGGMVAASAASLSVELGWLTIMACAGVAGFSRIYGAAAGLVLMLAAGVSAIMADA 159

Query: 121 PVTLLPLQHSHVAIYFSGCAWATLLGLSVWRIHPFAPARQAVAR 164
           PV L PL  SHV IYF GC WA LLGL+VWRIHPF PARQAVAR
Sbjct: 160 PVILWPLSQSHVLIYFGGCLWALLLGLTVWRIHPFGPARQAVAR 203


>gi|300311429|ref|YP_003775521.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 743

 Score = 55.8 bits (133), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 45/187 (24%), Positives = 87/187 (46%), Gaps = 30/187 (16%)

Query: 255 LRMAAAHLRSGSAEVRHGLRCAAAAGITYLIVHLLQLPF---GYWATMATMLVMQPSVAD 311
             M   +LR  S   R  +R A A      I +  QLP+   GYW  +  +++++P+ + 
Sbjct: 376 FNMLLVNLRWQSPIFRFAIRVALAVTTGLWIAN--QLPYMSHGYWIVLTIVIILKPNFSA 433

Query: 312 SWSRSMERAVGSIVGGVLAVALCLYIHSPLALALLVFPMAALSMGLRPVSYGLYSLFLTP 371
           +  R  +R +G+++G ++ + +  ++H+PL    ++F  +  +     + Y   +     
Sbjct: 434 TKQRMADRLIGTVIGCLITMLILRFVHNPLGQLAVLFAASVAAPAFTYIKYRYTA----- 488

Query: 372 VFVLVADVAAQPQLQLQLSNALLRAG----------NNVIGAVVAIVATYLL--WPHRRQ 419
                  +AA  Q+ L L N L+ AG          + +IG V+A V +Y+L  W +R  
Sbjct: 489 -------IAASVQI-LMLLNLLVPAGHQGVIGERLIDTIIGVVIATVFSYVLPAWEYRDL 540

Query: 420 ANLHRSL 426
             L R++
Sbjct: 541 PKLLRNV 547


  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
   0.326    0.134    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: 1,802,693
Number of extensions: 77059
Number of successful extensions: 531
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 527
Number of HSP's successfully gapped: 3
Length of query: 582
Length of database: 1,619,870
Length adjustment: 90
Effective length of query: 492
Effective length of database: 1,193,720
Effective search space: 587310240
Effective search space used: 587310240
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 133 (55.8 bits)