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= 0002.0735.p
         (551 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313620|ref|YP_003777712.1| inner-membrane transmembrane pr...   802   0.0  

>gi|300313620|ref|YP_003777712.1| inner-membrane transmembrane
           protein [Herbaspirillum seropedicae SmR1]
          Length = 542

 Score =  802 bits (2072), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 409/542 (75%), Positives = 453/542 (83%), Gaps = 19/542 (3%)

Query: 25  RHNGKPSMFFPTT--TQE---ATPAAAGADPSKSPVPQAAGAWTGATAGAADVAGGLPAA 79
           RHNG  SMFFP+   TQE   A PAA  A P+ SPVPQA     GA  GA DVA    A 
Sbjct: 2   RHNGHQSMFFPSANPTQEQAAANPAAPTASPTGSPVPQAGTPAPGAVPGA-DVAAT--AT 58

Query: 80  KGETITITTDVVKADIDTVGGELKRLELLKHRDTVDPTKNLVLFDSSAGHTYLAESGLIG 139
           KGETI ITTD+VKA IDTVGGELKRLELLK  D VDPTKN+VLFDS  GH YLAESGLIG
Sbjct: 59  KGETIVITTDLVKASIDTVGGELKRLELLKQPDVVDPTKNVVLFDSEPGHMYLAESGLIG 118

Query: 140 GPFPTHKSIFTAKPGARALDNGNEVQLVLEAQENGVKLTKTYTFKRGDYSIDLKHTVTND 199
           GPFP HK+IFTA+ G R LDNGNE+QLVL A + GVKLTKTYTFKR  Y ID+KHTVTN 
Sbjct: 119 GPFPNHKTIFTAQAGPRTLDNGNEIQLVLVADQGGVKLTKTYTFKRDSYLIDVKHTVTNT 178

Query: 200 SAAAINPSLYLQLVRDGNKPGGESHFYSTFTGPAVYTDADKFQKLTFEKIEEGKEQHANK 259
           + AAINPSLYLQLVRDGNKPGGESHFYSTFTGPAVY++++ F+KL FEKI  GK+QH NK
Sbjct: 179 TGAAINPSLYLQLVRDGNKPGGESHFYSTFTGPAVYSNSEHFEKLDFEKIANGKQQHVNK 238

Query: 260 ADNGWIALVQHYFVSAIIPPEKAQRDIFTKKIGTNLYAVGNILPLGTVAPGASVTMDARL 319
            DNGWIA+VQHYFVSA IPP+ AQRD+F+KK+G NLYAVG+ILPLGTVAP ASVTMD++L
Sbjct: 239 TDNGWIAMVQHYFVSAFIPPQNAQRDVFSKKVGDNLYAVGSILPLGTVAPNASVTMDSQL 298

Query: 320 YSGPQESSVLEKTTPGLELVKDYGWLTIIAKPIFWLMIHIHAYVGNWGWTIILLTMLIKA 379
           YSGP  S  L+   PGL+LV+DYG LT+IA+PIFWLM HIH  VGNWGWTIILLT+LIK 
Sbjct: 299 YSGPTVSKTLQAIAPGLDLVRDYGHLTVIAEPIFWLMTHIHNIVGNWGWTIILLTVLIKL 358

Query: 380 VFFPLSAASYRSMAKMKAVTPKMTAIRERHKGDPQAMNREMMSLYKTEKINPLGGCLPIV 439
           +FFPLSAASYRSMAKMKAV+PKM AIRERHKGDPQAMNREMM+LYKTEKINPLGGCLPI 
Sbjct: 359 IFFPLSAASYRSMAKMKAVSPKMQAIRERHKGDPQAMNREMMTLYKTEKINPLGGCLPIA 418

Query: 440 IQIPVFISLYWVLLASVEMRGAPWLGWIHDLTAPD-----------PFYILPVLMAVSMF 488
           IQIPVFI+LY VLLASVEMRGAPWLGW+HDLTAPD           P  +LP++MA SMF
Sbjct: 419 IQIPVFIALYSVLLASVEMRGAPWLGWVHDLTAPDRLFGTIPYFNMPIGLLPIIMAASMF 478

Query: 489 IQTKLNPTPPDPVQAKVMMFMPIVFSVMFFFFPSGLVLYWVVNNVLSITQQWVITRKLQA 548
           +QTKLNPTPPDPVQAKVMMFMP+VFS MFFFFPSGLVLYWV NN+LSI QQWVITR +++
Sbjct: 479 LQTKLNPTPPDPVQAKVMMFMPLVFSFMFFFFPSGLVLYWVTNNILSIAQQWVITRNIES 538

Query: 549 GK 550
           GK
Sbjct: 539 GK 540


  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
   0.320    0.135    0.415 

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: 1,617,684
Number of extensions: 65800
Number of successful extensions: 193
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 191
Number of HSP's successfully gapped: 1
Length of query: 551
Length of database: 1,619,870
Length adjustment: 90
Effective length of query: 461
Effective length of database: 1,193,720
Effective search space: 550304920
Effective search space used: 550304920
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 (21.8 bits)
S2: 133 (55.8 bits)