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= 0001.2393.p
         (421 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310143|ref|YP_003774235.1| type IV Tfp pilus assembly PilO...   563   e-161

>gi|300310143|ref|YP_003774235.1| type IV Tfp pilus assembly PilO
           protein [Herbaspirillum seropedicae SmR1]
          Length = 421

 Score =  563 bits (1450), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 271/421 (64%), Positives = 333/421 (79%)

Query: 1   MASYVTQIEKHRFVCGLFWQSLSRPRELKKEAIDLGRKIDSDLLVIRMDHSTAQAGFAHS 60
           MAS V  ++KH+FV GLFWQSLS+PREL +EA DLGRKIDSDL+VIRMDH+TAQAGFA S
Sbjct: 1   MASIVITLDKHKFVGGLFWQSLSKPRELNREAADLGRKIDSDLMVIRMDHTTAQAGFAQS 60

Query: 61  REGGRCGMFSLAAIVSKTLAIEGAFYDGEQQAVHNWLGAFMLPDGKWLYLAVRDANFLPN 120
           REG R GM+SLAA+VSKTLAIEGAFYDGEQQ VHNWLGAF LP+G W+Y AVRDANFLPN
Sbjct: 61  REGIRRGMYSLAAVVSKTLAIEGAFYDGEQQPVHNWLGAFKLPEGNWIYFAVRDANFLPN 120

Query: 121 GDFVGEKEEVLDRLHSDYALGGWNVVIGEPELVDMGFHNFNARTIATLIPRKKDGSIRVH 180
           GDFVG KEEVLDRLH+DYALGGWNVV+GE EL   GFHNF  R I + IP++ DGS+R+H
Sbjct: 121 GDFVGSKEEVLDRLHNDYALGGWNVVLGEEELKSFGFHNFQPRDIRSFIPQRADGSLRIH 180

Query: 181 KWWRLYQIDGLPSWLPTALGVTAVLLVAAGGWLAWRYYQQKQVERESELAIARAREQIQR 240
           KWW L QI G PSWLP A GV A+  ++  G   WR YQQKQ ERE E+A+ +ARE+I R
Sbjct: 181 KWWGLRQIGGRPSWLPMAAGVAALAALSLAGAWGWRLYQQKQQEREREIAMQQARERILR 240

Query: 241 EASAAAHPWSHIPLPVLMVKTCMDRFDHLTAGGWQLDSYLCTPERQSYSWLRGDSTIALL 300
           EASAAA PWS    P ++V+ C  +F H TAGGW LDSY CT ++Q+Y W RG S+IA+L
Sbjct: 241 EASAAARPWSKRVAPAMLVRACQKQFVHPTAGGWLLDSYSCTQDQQTYLWRRGSSSIAML 300

Query: 301 RAQVPEAMIDASGDKASYVRALSMSSGDNDILGEAQPTLEELMSRFQAIGLPMKLSEVPP 360
           R Q+PEA +DASG+ ASYVRAL + +  N+ L + +  +E+++SR Q +G+PMK+   P 
Sbjct: 301 REQLPEAQVDASGEHASYVRALKLGNPQNEELQDQRQAMEQVLSRLQMMGVPMKVVAAPA 360

Query: 361 LKLQAQQQQWQPRWRSFLFSISAHGMAPADIATMLSRPGVRVEKLVYHGAEWSLEGTIYA 420
           L+LQ  +QQWQP WRS+LF ++A GM P +IA +L+RPGVRV+K++Y G+EW +EGTIYA
Sbjct: 361 LQLQNGEQQWQPNWRSYLFKLNAAGMEPQEIAGILNRPGVRVDKVLYQGSEWIMEGTIYA 420

Query: 421 K 421
           K
Sbjct: 421 K 421


  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
   0.321    0.135    0.423 

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: 1,302,754
Number of extensions: 52992
Number of successful extensions: 153
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 153
Number of HSP's successfully gapped: 1
Length of query: 421
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 333
Effective length of database: 1,203,190
Effective search space: 400662270
Effective search space used: 400662270
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 (21.9 bits)
S2: 132 (55.5 bits)