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= 0001.4117.p
         (408 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313544|ref|YP_003777636.1| transmembrane protein [Herbaspi...   767   0.0  

>gi|300313544|ref|YP_003777636.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 411

 Score =  767 bits (1980), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 376/411 (91%), Positives = 394/411 (95%), Gaps = 3/411 (0%)

Query: 1   MEAYLLDWLNLLLRWLHVITAIAWIGSSFYFVWLDNSLVAPADAELKEKGVGGELWAVHG 60
           MEAY+LDWLNLLLRWLHVITAIAWIGSSFYFVWLDNSLVAP D ELKEKGVGGELWAVHG
Sbjct: 1   MEAYILDWLNLLLRWLHVITAIAWIGSSFYFVWLDNSLVAPTDPELKEKGVGGELWAVHG 60

Query: 61  GGFYNPQKYLLAPKVLPEHLHWFYWESYSTWLSGFALFSLLYLFNASVFLVDPNVFEMSA 120
           GGFYNPQKYLLAPKVLPEHLHWFYWESYSTWLSGFALFSLLYLFNA+VFLVD NVF+MSA
Sbjct: 61  GGFYNPQKYLLAPKVLPEHLHWFYWESYSTWLSGFALFSLLYLFNANVFLVDRNVFDMSA 120

Query: 121 SMAGGTAIAFLVFNWLIYDAICSTIGDRPGADRLVNLLVGLQVVVSVWAACHLFSGRAAF 180
           SMAGG AIAFL+FNWLIYDAICSTIGDRPGADRLVNLLVGLQVVVSVWAACHLFSGRAAF
Sbjct: 121 SMAGGAAIAFLIFNWLIYDAICSTIGDRPGADRLVNLLVGLQVVVSVWAACHLFSGRAAF 180

Query: 181 LISGASLATIMSANVLVWIIPGQRKMVASMRAGQVPDPIHGKRGKQRSVHNTYFTLPVLF 240
           LISGASLATIMSANVLVWIIPGQRKMVASMRAGQ PDPIHGKRGKQRSVHNTYFTLPVLF
Sbjct: 181 LISGASLATIMSANVLVWIIPGQRKMVASMRAGQAPDPIHGKRGKQRSVHNTYFTLPVLF 240

Query: 241 AMLSNHYSMTYSAPHNWLVLLCIMAAGALIRQFFVLRHKGVYNWWYPGIAVGLLLAVIVW 300
           AMLSNHYSMTY+APHNW+VLL IMAAGALIRQFFVLRHKGVYNWWYPGIAVGLLLAVIVW
Sbjct: 241 AMLSNHYSMTYNAPHNWVVLLVIMAAGALIRQFFVLRHKGVYNWWYPGIAVGLLLAVIVW 300

Query: 301 MSPAMQAKPVAASAASSAPVAEA---GGAFAQVQQVIQARCIQCHSPQPTLMPVPGKGVL 357
           MSP MQA+PV  +A+SS+  + +   GGAFAQVQQVIQARCIQCH+ QPTLMPVPGKGVL
Sbjct: 301 MSPLMQARPVVVAASSSSSSSSSSSEGGAFAQVQQVIQARCIQCHAAQPTLMPVPGKGVL 360

Query: 358 LDSPEHISQHAQQIYQQAVVQKSMPLGNLTHITDDERAVIGKWFESGAPVK 408
           LDSPEHISQHAQQIYQQAVVQK+MPLGN+THIT++ERAVIGKWFE+GA VK
Sbjct: 361 LDSPEHISQHAQQIYQQAVVQKAMPLGNMTHITEEERAVIGKWFEAGAAVK 411


  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
   0.325    0.137    0.444 

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: 1,261,865
Number of extensions: 49859
Number of successful extensions: 208
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 207
Number of HSP's successfully gapped: 1
Length of query: 408
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 321
Effective length of database: 1,207,925
Effective search space: 387743925
Effective search space used: 387743925
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 (21.6 bits)
S2: 132 (55.5 bits)