BLASTP 2.2.23 [Feb-03-2010]


Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 
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. Schäffer, and Yi-Kuo Yu (2005) "Protein database
searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= Os03g0685000 Os03g0685000|AK059896
         (183 letters)

Database: rap3 
           52,214 sequences; 17,035,801 total letters

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


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os03g0685000  Similar to Ferredoxin                               296   5e-81
Os05g0443500  Similar to Ferredoxin VI, chloroplast precurso...    72   3e-13
Os03g0835900  Similar to Ferredoxin III, chloroplast precurs...    69   3e-12
Os01g0860601  Similar to Ferredoxin, root R-B1                     67   6e-12
D83660                                                             66   2e-11

>Os03g0685000 Similar to Ferredoxin
          Length = 183

 Score =  296 bits (758), Expect = 5e-81,   Method: Compositional matrix adjust.
 Identities = 147/183 (80%), Positives = 147/183 (80%)

Query: 1   MAPCPAATTTRIGXXXXXXXXXXXXXXXXXXXXXXXXSGLRQVEGPVSERAYSSSSPAPT 60
           MAPCPAATTTRIG                        SGLRQVEGPVSERAYSSSSPAPT
Sbjct: 1   MAPCPAATTTRIGAPPFAATTARRPARGATTTTKARASGLRQVEGPVSERAYSSSSPAPT 60

Query: 61  HKVTVHDRQRGVVHEFVVPQDQYILHTAEAQDITLPFACRHGCCTSCAVRIKSGQIRQPE 120
           HKVTVHDRQRGVVHEFVVPQDQYILHTAEAQDITLPFACRHGCCTSCAVRIKSGQIRQPE
Sbjct: 61  HKVTVHDRQRGVVHEFVVPQDQYILHTAEAQDITLPFACRHGCCTSCAVRIKSGQIRQPE 120

Query: 121 ALGISAELKDKGYALLCVGFPTSXXXXXXXXXXXXYWLQFGRYFARGPVERDDYALELAM 180
           ALGISAELKDKGYALLCVGFPTS            YWLQFGRYFARGPVERDDYALELAM
Sbjct: 121 ALGISAELKDKGYALLCVGFPTSDVEVETQDEDEVYWLQFGRYFARGPVERDDYALELAM 180

Query: 181 GDE 183
           GDE
Sbjct: 181 GDE 183



>Os05g0443500 Similar to Ferredoxin VI, chloroplast precursor (Fd VI)
          Length = 148

 Score = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 30/71 (42%), Positives = 43/71 (60%)

Query: 71  GVVHEFVVPQDQYILHTAEAQDITLPFACRHGCCTSCAVRIKSGQIRQPEALGISAELKD 130
           GV HEF  P+D YIL  AE   + LPF+CR G C++CA ++ SG++ Q E   +      
Sbjct: 63  GVEHEFEAPEDTYILEAAETAGVELPFSCRAGSCSTCAGKMSSGEVDQSEGSFLDENQMG 122

Query: 131 KGYALLCVGFP 141
           +GY L C+ +P
Sbjct: 123 EGYVLTCISYP 133



>Os03g0835900 Similar to Ferredoxin III, chloroplast precursor (Fd III)
          Length = 153

 Score = 68.6 bits (166), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 29/74 (39%), Positives = 44/74 (59%)

Query: 70  RGVVHEFVVPQDQYILHTAEAQDITLPFACRHGCCTSCAVRIKSGQIRQPEALGISAELK 129
            G  HEF  P D YIL  AE   + LP++CR G C++CA +I++G + Q +   +    +
Sbjct: 67  EGQEHEFEAPDDTYILDAAETAGVELPYSCRAGACSTCAGKIEAGSVDQSDGSFLDDAQQ 126

Query: 130 DKGYALLCVGFPTS 143
           ++GY L CV +P S
Sbjct: 127 EEGYVLTCVSYPKS 140



>Os01g0860601 Similar to Ferredoxin, root R-B1
          Length = 165

 Score = 67.4 bits (163), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 32/89 (35%), Positives = 52/89 (58%), Gaps = 1/89 (1%)

Query: 55  SSPAPTHKVTVHDRQRGVVHEFVVPQDQYILHTAEAQDITLPFACRHGCCTSCAVRIKSG 114
           +S A  HKV +     G   E  VP+D Y+L  AE   + LP++CR G C++CA ++ SG
Sbjct: 65  ASAAAVHKVKLIGPD-GAESELEVPEDTYVLDAAEEAGLELPYSCRAGSCSTCAGKLASG 123

Query: 115 QIRQPEALGISAELKDKGYALLCVGFPTS 143
           ++ Q +   ++ E  ++GY L C+ +P S
Sbjct: 124 EVDQSDGSFLADEQIEQGYVLTCISYPKS 152



>D83660 
          Length = 87

 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 27/67 (40%), Positives = 40/67 (59%)

Query: 75  EFVVPQDQYILHTAEAQDITLPFACRHGCCTSCAVRIKSGQIRQPEALGISAELKDKGYA 134
           EF  P+D YIL  AE   + LPF+CR G C++CA ++ SG++ Q E   +      +GY 
Sbjct: 6   EFEAPEDTYILEAAETAGVELPFSCRAGSCSTCAGKMSSGEVDQSEGSFLDENQMGEGYV 65

Query: 135 LLCVGFP 141
           L C+ +P
Sbjct: 66  LTCISYP 72



  Database: rap3
    Posted date:  Nov 19, 2010  6:03 PM
  Number of letters in database: 17,035,801
  Number of sequences in database:  52,214
  
Lambda     K      H
   0.321    0.135    0.423 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 52214
Number of Hits to DB: 5,369,192
Number of extensions: 181200
Number of successful extensions: 313
Number of sequences better than 1.0e-10: 5
Number of HSP's gapped: 315
Number of HSP's successfully gapped: 5
Length of query: 183
Length of database: 17,035,801
Length adjustment: 95
Effective length of query: 88
Effective length of database: 12,075,471
Effective search space: 1062641448
Effective search space used: 1062641448
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: 153 (63.5 bits)