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= 0003.0016.p
         (485 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309810|ref|YP_003773902.1| dihydroorotase [Herbaspirillum ...    72   1e-13

>gi|300309810|ref|YP_003773902.1| dihydroorotase [Herbaspirillum
           seropedicae SmR1]
          Length = 428

 Score = 72.0 bits (175), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 112/460 (24%), Positives = 186/460 (40%), Gaps = 54/460 (11%)

Query: 4   FDLVIRNGTV---ATASDIMQCDVGIKDGKVAMLGRGLPPG----REEIDASGKLVLPGG 56
             L I+NG +   A   D  Q DV +  GK+  +G G  P      + IDA+G +V PG 
Sbjct: 1   MKLHIKNGRLIDPANGIDAQQ-DVYVAAGKI--VGVGQAPADFVANKTIDATGLVVAPGL 57

Query: 57  VDAHCHLDQPMEEGLRMADDFRSGTISAACGGTTTVI--PFAAQAKGGSLRAAVEDYHRR 114
           VD    L +P   G        S   +A  GG T+++  P             +  +  R
Sbjct: 58  VDLSARLREP---GYEYKATLESEMQAAIQGGVTSLVCPPDTDPVLDEPGLVEMLKHRAR 114

Query: 115 AEGKAVIDYAFHMIVSDPSEEVLKNELPQLVREGYTSFKIYMTYDDLKLNDRQILDLLAL 174
           +  +A + Y    + +    + L  E+ +L   G   F    +  +  + D  +L L AL
Sbjct: 115 SLNQAHV-YPLGALTAGLKGKAL-TEMAELTDAGCIGF----SQAEEPITDTTVL-LSAL 167

Query: 175 ARREGALVMVHAENADCIGWLTEQLEEAGLTAPKHH--AHSR------PMMVEREATHRA 226
                     +A+  +   WL  Q    G +   H   A SR      P+M E  A +  
Sbjct: 168 Q---------YAKTFNYTVWLRPQDPHLGRSGIAHSGPAASRLGLSGVPVMSETIALYTL 218

Query: 227 IALSELVDVPILIVHVSGREAIEQIRWAHGHGLRIHAETCPQYLVLTADHLDDGYHGAKC 286
             L       + +  +S    +E +R A   GL +  +    ++ L    LD G+  +  
Sbjct: 219 FELMRATGARVHLCRMSSAAGLELVRQAKSEGLPVTCDVGVHHIHLC--DLDIGFFDSNA 276

Query: 287 VCSPPPRDKANQQYVWDGLASGLFTVFSSDHAPFRYDDPQGKKPGGKEVPFRYIPNGTPG 346
             +PP R + +++ +   L  G      SDH P   D+        K +PF     G  G
Sbjct: 277 RMTPPLRSQRDREAIRTALLDGTIDAVCSDHTPVDDDE--------KLLPFGEASPGATG 328

Query: 347 LETRMPILFS---EGVGKGRIDLNRFVALTATDPAKMYGLYPRKGTIAIGSDADIAVWDP 403
           LE  + +      E  G+G+  L++ ++      AK+ GL  + G +A+GS AD+ ++DP
Sbjct: 329 LELLLSLSLKWALETEGEGKEVLSKAISKVTHRAAKVAGL--KAGNLAVGSVADLCLFDP 386

Query: 404 HRQVTVSNSMLHHDVDYTPYEGMQLTGWPVLTLSRGEIVW 443
           +    V  + L     +TP+ G +L G    T+  G I +
Sbjct: 387 NAMWKVQGAALASQGKHTPFLGYELPGVVKATIVSGHIAF 426


  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
   0.319    0.139    0.431 

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: 1,652,816
Number of extensions: 75764
Number of successful extensions: 201
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 202
Number of HSP's successfully gapped: 1
Length of query: 485
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 396
Effective length of database: 1,198,455
Effective search space: 474588180
Effective search space used: 474588180
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 (21.7 bits)
S2: 132 (55.5 bits)