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= 0001.2387.p
         (468 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310149|ref|YP_003774241.1| type IV prepilin PilV protein [...   501   e-143

>gi|300310149|ref|YP_003774241.1| type IV prepilin PilV protein
           [Herbaspirillum seropedicae SmR1]
          Length = 467

 Score =  501 bits (1290), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 254/473 (53%), Positives = 340/473 (71%), Gaps = 11/473 (2%)

Query: 1   MRNSPSRPRP----QRGFAIIEVLGALVIGSMILLGLSRLIDSSIDDLKGTQTAYYQSQV 56
           M   PSR  P    QRG A+IEVLGAL +G+ +++GLS ++D+S++D+KG Q AY+QSQ+
Sbjct: 1   MNKIPSRLPPPAHRQRGIAMIEVLGALAVGAALVMGLSSVMDTSLEDVKGQQAAYHQSQI 60

Query: 57  SAAAAKYLSVNNQALQSATPSAATVVAVGLADLKAAKLVANNMATSNPYGQIPCILIRQP 116
            AAA KY++ N+ +LQSA P+A++++AVG+  L A K +A    T N YGQ PC+LIRQP
Sbjct: 61  VAAAQKYIAANSASLQSALPAASSLMAVGVPQLIAGKFLATGTLTKNVYGQTPCLLIRQP 120

Query: 117 DPAGHPGQFDALVITSGGSKIPDRDIAAVSMNAGIGSGYITSANPGVARGASWSIATDPY 176
           DPAG PGQFDALV+TSGG+ IP + IA ++ NAG G GYI++A+PG ARG++WS +T  Y
Sbjct: 121 DPAGAPGQFDALVVTSGGTPIPSKAIAMIAANAGPGGGYISTADPGNARGSNWSNSTAFY 180

Query: 177 RSVACSGATALSGGAADGGHLVSSIFYDGPGQLSTDFLYRNAVPGRPELNRMNTALRFAS 236
           RS  C+G   LSGG+ADGGHL S++FYDGPGQ++ DFLYRNAVPGRPELNRMNT +R AS
Sbjct: 181 RSTTCAGGNNLSGGSADGGHLASNLFYDGPGQVAADFLYRNAVPGRPELNRMNTPIRMAS 240

Query: 237 AALAHSGTSCLNAAGVAEAGIAIDSATRNLITCASNGVWSTSSQWREPVATWSDLPGSGS 296
            AL   G+SCLN+AGVAEAG+AIDSATR L  C + GVW++ +QW+ PVA+++ LP +G+
Sbjct: 241 NALVALGSSCLNSAGVAEAGMAIDSATRGLAVCGAAGVWTSPTQWKNPVASYASLPAAGN 300

Query: 297 QAGDVRMVTSLSRAFTYDGAKWVALAVDQQGNMNVPGTLDASKLAASQSITSAGTISATG 356
             GDVRMVT LSRAFTY+G+ WVALAVDQ G++NVP T+ A  +  +Q+I + GTI A  
Sbjct: 301 SVGDVRMVTGLSRAFTYNGSGWVALAVDQNGDLNVPATMTARNVRTTQNIVANGTIHADQ 360

Query: 357 DINSQGNVGAGNDINAGRDMTVGINLAVGKNITADNIYAQGNVNSKGGMHSPRIQLYDSA 416
           DI++ G+V A  D+NA   +   ++L    N+  + +  Q N  +     S  I  + + 
Sbjct: 361 DISTGGSVSADYDVNAAHAVNT-VDLYAAHNVVTEGL--QVNRWASSPAFSVGINYFVAG 417

Query: 417 NPHDPCNYNAIDD-DGNPFIKFPIGTILMDQNATPLICYQDKTFRYANGTYSP 468
               PC+Y+  D  +G   I FP+GT++MD N  PLIC  DKT RYANGTY+P
Sbjct: 418 ---APCHYSEWDPWEGTNHITFPVGTVVMDANYVPLICGADKTMRYANGTYTP 467


  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
   0.314    0.130    0.380 

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: 1,502,074
Number of extensions: 63989
Number of successful extensions: 184
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 181
Number of HSP's successfully gapped: 1
Length of query: 468
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 379
Effective length of database: 1,198,455
Effective search space: 454214445
Effective search space used: 454214445
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: 42 (22.0 bits)
S2: 132 (55.5 bits)