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= 0001.2019.p
         (439 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311481|ref|YP_003775573.1| transmembrane protein [Herbaspi...   749   0.0  

>gi|300311481|ref|YP_003775573.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 441

 Score =  749 bits (1934), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 383/442 (86%), Positives = 405/442 (91%), Gaps = 4/442 (0%)

Query: 1   MMMDLQTSLIILGAVFVAGVITYNKWQEHKARKTVERAFSSSHDDVLMSPDE--PGLAPT 58
           MMMDLQTSLIILG VFVAGVI+YNKWQEHKARKTVERAFSSSHDDVLMSPDE  P + PT
Sbjct: 1   MMMDLQTSLIILGGVFVAGVISYNKWQEHKARKTVERAFSSSHDDVLMSPDEDAPLVEPT 60

Query: 59  EPVFTAPVAERSGAPASPAAPEMGRAEPSLYEVPERKPVSAPVKAYQEQAEFEPREPFLG 118
                APVAE    PA  AA    RAEPS Y+ PERKPVSAPVKAY +QAEFEPREPFLG
Sbjct: 61  LAPAAAPVAEPRVEPAE-AAVTGERAEPSFYDAPERKPVSAPVKAYLDQAEFEPREPFLG 119

Query: 119 EPPLAEPARGAEAAL-DQALAQAQQSTVAQVIAGAEEQIETAPAFTPPPEMQARLAPKRE 177
           + P+A P +  +AAL D+ LAQA QSTVAQVIAGA++ +ETAPAF PPPEMQARLAPKRE
Sbjct: 120 DAPMAAPTQPGDAALTDEVLAQAPQSTVAQVIAGAQDPVETAPAFAPPPEMQARLAPKRE 179

Query: 178 LPVDELIDCNIPIALDNPLRGDKLLPLLQNLRHVGNKPVHFIGRTLEGDWEAIAHGSIYD 237
           LPVDELIDCNIPIALDNPLRGDKLLPLLQNLRHVGNKPVHFIGRTLEG WEAIAHG +Y+
Sbjct: 180 LPVDELIDCNIPIALDNPLRGDKLLPLLQNLRHVGNKPVHFIGRTLEGQWEAIAHGGVYN 239

Query: 238 ALLAGAQLANRSNAINEIEYSELVMRLRDLTDSLAGEPELPDMPDVIRTAQALHQFIIDH 297
           ALLAGAQLANRSNA+NEIEYSELVMRLRDLTDSL+GEPELPDMPDVIRTAQALHQFI DH
Sbjct: 240 ALLAGAQLANRSNALNEIEYSELVMRLRDLTDSLSGEPELPDMPDVIRTAQALHQFIADH 299

Query: 298 DAQLSVNVRSQGAPWSLATLLAALTRQGFDRRTEGYLVMQDGEGEVLFALSTNATPTDET 357
           DAQLSVNVRSQGAPWSLATLLAALTRQGFDRRTEGYLVMQDGEGEVLFALSTNATPTDET
Sbjct: 300 DAQLSVNVRSQGAPWSLATLLAALTRQGFDRRTEGYLVMQDGEGEVLFALSTNATPTDET 359

Query: 358 TDRLTLLLDVPRVAPSRDGYGALVACAKSLSARLGGIIVDDSDQPLTDEALSDIAEQVAA 417
           TDRLTLLLDVPRV+P+RDGYGALVACA+SL+ RLGG+IVDDSDQPL+DEALSDIAEQVAA
Sbjct: 360 TDRLTLLLDVPRVSPARDGYGALVACARSLAQRLGGVIVDDSDQPLSDEALSDIAEQVAA 419

Query: 418 FYSAMESAEIPAGSTRALRLFS 439
           FYSAMESAEIPAGSTRALRLFS
Sbjct: 420 FYSAMESAEIPAGSTRALRLFS 441


  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    0.132    0.376 

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: 1,384,129
Number of extensions: 60377
Number of successful extensions: 325
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 322
Number of HSP's successfully gapped: 1
Length of query: 439
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 351
Effective length of database: 1,203,190
Effective search space: 422319690
Effective search space used: 422319690
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)