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= 0001.2394.p
         (574 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310142|ref|YP_003774234.1| type IVB pilus formation outer ...   697   0.0  

>gi|300310142|ref|YP_003774234.1| type IVB pilus formation outer
           membrane protein [Herbaspirillum seropedicae SmR1]
          Length = 602

 Score =  697 bits (1800), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 401/600 (66%), Positives = 459/600 (76%), Gaps = 41/600 (6%)

Query: 5   KYWALAPLVVIMGGCTAI-NKMEAEIDGATDKTGSLVKEVGRTAPGAVMPSAPLVTHDTG 63
           K   L PLVV+M GC+A+ +++E  ++   D+   L ++VGRTAPG+V+PS PLV H++G
Sbjct: 7   KLPILLPLVVVMAGCSALADRIEGNVNQEGDRATRLSRDVGRTAPGSVLPSTPLVKHESG 66

Query: 64  IWLGKNVVKLGQPALPPIFYEPTTFDRTLFSLSELAERITLRTGIPSRVTADTQEVAGMA 123
           IWLGK  +KLGQP+LPPIFYEPTTFDRT+ SL+ELAERITLR+G+PS+VT D  EV+  A
Sbjct: 67  IWLGKTAIKLGQPSLPPIFYEPTTFDRTINSLTELAERITLRSGLPSKVTPDALEVSSAA 126

Query: 124 FRNRPGLTGFN----------------ATQPLPPGLPGENTPAATPGTPAASAARLPLPA 167
           FR R G                     A  PLP G PGE    ++P  P         PA
Sbjct: 127 FRLRGGGMPLRPGMMGAGPAPAGGAPVAMLPLPLGAPGEG--QSSPVQPGRG------PA 178

Query: 168 APTPQLLSLPGDASTGVRISYANGSLKGLLDTAAARFGVSWKYVDGTIQFFHTESRNFQI 227
           A T Q      D   GVRI+Y +GSLKGLLDTAAARFGVSWK+ +G IQFFHTESRNFQI
Sbjct: 179 ASTGQTQPTFTDLPNGVRIAYNSGSLKGLLDTAAARFGVSWKFSEGVIQFFHTESRNFQI 238

Query: 228 NAIPGDSTFTATVTSGATSTGGVSGGGSSGGGSSSSGSAVSANNS------QNTGVASKL 281
           +AIPGDSTF+ATVTSGATSTGG +G    GG    SG A S          QNT VASKL
Sbjct: 239 SAIPGDSTFSATVTSGATSTGGTAGTNGGGGSGGGSGGAGSGGGGVNANNTQNTAVASKL 298

Query: 282 SVYSGIENAIKVMLSPYGKVLASPATGAITVVDTPDSLDKIAAYIDGENKALSRQIAINV 341
           SVY+GIE+AIKVMLSPYGKVLASPATG+ITVVDTPDSLD+IA YIDGENK+LSRQIAINV
Sbjct: 299 SVYTGIESAIKVMLSPYGKVLASPATGSITVVDTPDSLDRIATYIDGENKSLSRQIAINV 358

Query: 342 TVLSVSLSHSDEYGINWGAVYNSLNRNFGISNSFTPA-SPGSGNFTAGI--VGSSKFSGT 398
           TVLSV+LS  D+YGINW AVY SLN  FGI+N++  A S G  +FTAGI   G+S FSG+
Sbjct: 359 TVLSVTLSDDDQYGINWNAVYRSLNSTFGIANAYEGALSTGLVSFTAGIPSSGTSGFSGS 418

Query: 399 TAVIDALSEQGKVRRQTTASVVTLNNQPVPVQVARQTSYLQSSQTSIVAQVGTTTTLIPG 458
            AVI ALS+QGKVRRQTTASVVTLNNQPVPVQVARQT+YLQS Q+S+VAQVGTTT+L PG
Sbjct: 419 QAVIQALSQQGKVRRQTTASVVTLNNQPVPVQVARQTTYLQSLQSSLVAQVGTTTSLTPG 478

Query: 459 VVTAGFNMSILPHVLTNGTVMLQFSTDISTLRGIRQI----ESNG---SRIESPELDTRN 511
           VVTAGFNMSILPH+LTNGTVMLQFSTDISTLR IRQI    +S+G   + IESPELDTRN
Sbjct: 479 VVTAGFNMSILPHMLTNGTVMLQFSTDISTLRRIRQITASTDSSGRATALIESPELDTRN 538

Query: 512 FLQRVAMKSNETLIISGFEQTDDNLDYKGVGTPRNFLLGGGVNGQNNKEIIVVLITPVAM 571
           FLQRVAMKSNETLIISGFEQTD+NL   GVG P+N LLGGGV+   NKE+IVVLITPVAM
Sbjct: 539 FLQRVAMKSNETLIISGFEQTDENLGRSGVGDPKNLLLGGGVSAATNKEVIVVLITPVAM 598


  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
   0.313    0.130    0.366 

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: 1,583,038
Number of extensions: 61703
Number of successful extensions: 164
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 159
Number of HSP's successfully gapped: 1
Length of query: 574
Length of database: 1,619,870
Length adjustment: 90
Effective length of query: 484
Effective length of database: 1,193,720
Effective search space: 577760480
Effective search space used: 577760480
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 133 (55.8 bits)