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= 0001.4216.p
         (365 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313641|ref|YP_003777733.1| uroporphyrinogen decarboxylase ...   695   0.0  

>gi|300313641|ref|YP_003777733.1| uroporphyrinogen decarboxylase
           [Herbaspirillum seropedicae SmR1]
          Length = 364

 Score =  695 bits (1793), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 336/363 (92%), Positives = 351/363 (96%)

Query: 3   STSSMSTFAPLTNDTFLRALLRQPTDYTPLWLMRQAGRYLPEYRATRARAGSFMGLATNP 62
           S+SSMSTFAPL NDTFLRALLRQPTDYTP+WLMRQAGRYLPEYRATRARAGSFMGLATNP
Sbjct: 2   SSSSMSTFAPLKNDTFLRALLRQPTDYTPMWLMRQAGRYLPEYRATRARAGSFMGLATNP 61

Query: 63  DYATEVTLQPLERYPLDAAILFSDILTVPDAMGLGLYFADGEGPKFERPLRDEAAVKALQ 122
           DYATEVTLQPLERYPLDAAILFSDILTVPDAMGLGLYFA+GEGPKF+RPLRDEAAVKAL+
Sbjct: 62  DYATEVTLQPLERYPLDAAILFSDILTVPDAMGLGLYFAEGEGPKFQRPLRDEAAVKALR 121

Query: 123 APDLGKLDYVFKAVTQIRRELHGRVPLIGFSGSPWTLACYMVEGGGSDDFRLVKSMLYGR 182
           APDLGKLDYVFKAVTQIRREL GRVPLIGFSGSPWTLACYMVEGGGSDDFRLVKSMLY R
Sbjct: 122 APDLGKLDYVFKAVTQIRRELDGRVPLIGFSGSPWTLACYMVEGGGSDDFRLVKSMLYSR 181

Query: 183 PDLMHHILKTNADAVAAYLNAQIAAGAQAVMIFDTWGGALADGIYQQFSLAYMQQVVSHL 242
           PDLMHHIL+TNADAVAAYLNAQI AGAQAVMIFDTWGGALADG+YQQFSL+YMQQVVS L
Sbjct: 182 PDLMHHILRTNADAVAAYLNAQIDAGAQAVMIFDTWGGALADGVYQQFSLSYMQQVVSQL 241

Query: 243 QRQQDGQPIPVIVFTKGGGLWLEQIAAIGADAVGLDWTVNLGEARRRVGDKVALQGNLDP 302
           +R+Q GQ +PVIVFTKGGGLWLEQIAAIGADAVGLDWTVNLG+AR+RVGDKVALQGNLDP
Sbjct: 242 KREQGGQQVPVIVFTKGGGLWLEQIAAIGADAVGLDWTVNLGQARQRVGDKVALQGNLDP 301

Query: 303 NVLFAGDAAIRAEVRKLLESFGRPGAGSGHVFNLGHGISQHTPPDAVATLAQAVHEISRE 362
           NVLFAGD AIRAEVRKLLESFGRPGAGSGHVFNLGHGISQHTPP+AV TL QAVHE SR 
Sbjct: 302 NVLFAGDDAIRAEVRKLLESFGRPGAGSGHVFNLGHGISQHTPPEAVTTLVQAVHEFSRA 361

Query: 363 MRA 365
           +RA
Sbjct: 362 LRA 364


  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    0.137    0.411 

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: 1,269,412
Number of extensions: 59431
Number of successful extensions: 171
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 171
Number of HSP's successfully gapped: 1
Length of query: 365
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 279
Effective length of database: 1,212,660
Effective search space: 338332140
Effective search space used: 338332140
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: 131 (55.1 bits)