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= 0001.2897.p
         (259 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312228|ref|YP_003776320.1| uroporphyrinogen-III synthase [...   370   e-104

>gi|300312228|ref|YP_003776320.1| uroporphyrinogen-III synthase
           [Herbaspirillum seropedicae SmR1]
          Length = 269

 Score =  370 bits (950), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 201/250 (80%), Positives = 219/250 (87%), Gaps = 3/250 (1%)

Query: 3   SSLPVVVTRPLQQAQAFAASVEQLGRRAVIFPLLTIGPVADDAELKATLAHLHEFALVVF 62
           ++LPVVVTRP QQA AFAASV+ LGR AV+FPLL I  V D A L+A LA L EFALVVF
Sbjct: 9   AALPVVVTRPRQQAHAFAASVQALGRPAVVFPLLEISAVEDVATLQAMLARLEEFALVVF 68

Query: 63  VSPNAIDAAFAHLSG---WPSQVPIGIVGEGSRLALRAHGVDNSNATLYGPQRADKMDSE 119
           VSPNAIDAAFA L     WP++V IGIVGEGSRLALRAHGVD + ATLYGPQRADKMDSE
Sbjct: 69  VSPNAIDAAFAQLPAGRPWPAKVAIGIVGEGSRLALRAHGVDAACATLYGPQRADKMDSE 128

Query: 120 ELLKSLPMEQLRNKRALIVRGQTGRDFLSEALQQHGVTVEHLTAYRRLAPTLDARSGALL 179
           ELLKSLP+ QLR +RALIVRGQ+GRDFLSEALQQ GVTVE+LTAYRR AP LDA++G LL
Sbjct: 129 ELLKSLPLAQLRGQRALIVRGQSGRDFLSEALQQQGVTVEYLTAYRRTAPRLDAQNGPLL 188

Query: 180 LDLLDGGADWVITSSEALRNLLDLARLAGGEERVVKLQRQRIVVSHHRIAETARQQGFVQ 239
           LDLLDGGADWVITSSEALRNL+DL RLAGGEERVVKLQRQRI VSHHRIAETAR+QGF +
Sbjct: 189 LDLLDGGADWVITSSEALRNLVDLTRLAGGEERVVKLQRQRIFVSHHRIAETAREQGFER 248

Query: 240 VILTGSGDER 249
           V+LTGSGDER
Sbjct: 249 VVLTGSGDER 258


  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
   0.320    0.134    0.377 

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: 661,820
Number of extensions: 24485
Number of successful extensions: 80
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 79
Number of HSP's successfully gapped: 1
Length of query: 259
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 176
Effective length of database: 1,226,865
Effective search space: 215928240
Effective search space used: 215928240
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 (21.8 bits)
S2: 129 (54.3 bits)