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= Os03g0338400 Os03g0338400|AK073378
         (163 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os03g0338400  Helix-loop-helix DNA-binding domain containing...   305   8e-84
Os07g0676600  Helix-loop-helix DNA-binding domain containing...   208   1e-54
Os05g0337200  Helix-loop-helix DNA-binding domain containing...   153   5e-38
Os11g0111800  Hypothetical protein                                 75   2e-14
Os12g0111400  Hypothetical protein                                 70   9e-13

>Os03g0338400 Helix-loop-helix DNA-binding domain containing protein
          Length = 163

 Score =  305 bits (782), Expect = 8e-84,   Method: Compositional matrix adjust.
 Identities = 151/151 (100%), Positives = 151/151 (100%)

Query: 1   MMSSRERKKAAALQEKLQILRSITHSHALSNTSILMDASKYIKELKQKVVRLNQEIACAQ 60
           MMSSRERKKAAALQEKLQILRSITHSHALSNTSILMDASKYIKELKQKVVRLNQEIACAQ
Sbjct: 1   MMSSRERKKAAALQEKLQILRSITHSHALSNTSILMDASKYIKELKQKVVRLNQEIACAQ 60

Query: 61  DALRQNRVTVETLRHGFLVNVFSGKSCPGLLVSILEAFDELGLSVLEATASCTDTFRLEA 120
           DALRQNRVTVETLRHGFLVNVFSGKSCPGLLVSILEAFDELGLSVLEATASCTDTFRLEA
Sbjct: 61  DALRQNRVTVETLRHGFLVNVFSGKSCPGLLVSILEAFDELGLSVLEATASCTDTFRLEA 120

Query: 121 IGSENLMEKVDEHVVKQAVLRAIRSCSGSGG 151
           IGSENLMEKVDEHVVKQAVLRAIRSCSGSGG
Sbjct: 121 IGSENLMEKVDEHVVKQAVLRAIRSCSGSGG 151



>Os07g0676600 Helix-loop-helix DNA-binding domain containing protein
          Length = 153

 Score =  208 bits (530), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 107/127 (84%), Positives = 114/127 (89%), Gaps = 4/127 (3%)

Query: 2   MSSRERKKAAALQEKLQILRSITHSHALSNTSILMDASKYIKELKQKVVRLNQEIACAQ- 60
           M SRERKKAAAL EKLQILRSITHSHALSNTSI+ DAS+YIKELKQKVVRLN+EIACA+ 
Sbjct: 1   MMSRERKKAAALHEKLQILRSITHSHALSNTSIITDASEYIKELKQKVVRLNKEIACAEA 60

Query: 61  DALRQNR---VTVETLRHGFLVNVFSGKSCPGLLVSILEAFDELGLSVLEATASCTDTFR 117
            ALRQN    VTVETL HGFL+NVFS KSCPGLLVSILEAFDELGL+VLEATASC DTFR
Sbjct: 61  AALRQNSIPTVTVETLGHGFLINVFSDKSCPGLLVSILEAFDELGLNVLEATASCDDTFR 120

Query: 118 LEAIGSE 124
           LEA+G E
Sbjct: 121 LEAVGGE 127



>Os05g0337200 Helix-loop-helix DNA-binding domain containing protein
          Length = 153

 Score =  153 bits (387), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 82/153 (53%), Positives = 112/153 (73%), Gaps = 7/153 (4%)

Query: 2   MSSRERKKAAALQEKLQILRSITHSHALSNTSILMDASKYIKELKQKVVRLNQEIACAQD 61
           M SRE+K+A+ L EKLQILR++THSHA++  SI+ DAS YIK+LKQK+  LN+E+ CA++
Sbjct: 1   MVSREQKRAS-LHEKLQILRTLTHSHAVNKMSIISDASTYIKDLKQKIAALNKELGCAKN 59

Query: 62  A----LRQNRVTVETLRHGFLVNVFSGKSCPGLLVSILEAFDELGLSVLEATASCTDTFR 117
                     V V+ L  GFL+NVF  KS PGLL SIL+AFDELGL+V+EA ASC+++FR
Sbjct: 60  MNICEEPSPVVRVQVLDKGFLINVFMDKSSPGLLSSILQAFDELGLTVIEARASCSNSFR 119

Query: 118 LEAIGSENLMEK--VDEHVVKQAVLRAIRSCSG 148
           LEA+G E+      +D + V+ AV++AI+S  G
Sbjct: 120 LEAVGGEHEEADGGIDANAVELAVMQAIKSTPG 152



>Os11g0111800 Hypothetical protein
          Length = 96

 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 42/76 (55%), Positives = 51/76 (67%), Gaps = 5/76 (6%)

Query: 76  GFLVNVFSGKSCPGLLVSILEAFDELGLSVLEATASCTD--TFRLEAIG---SENLMEKV 130
           GF +NV   KS P LL S+LEAF+ELGL VL+A  SC D   FRLEA+G   SE     V
Sbjct: 15  GFRINVSMEKSQPELLTSVLEAFEELGLDVLDADVSCADDTAFRLEALGSSQSEAAETSV 74

Query: 131 DEHVVKQAVLRAIRSC 146
           DE +V+ AVL+AI+ C
Sbjct: 75  DEQMVRHAVLQAIKKC 90



>Os12g0111400 Hypothetical protein
          Length = 96

 Score = 69.7 bits (169), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 38/84 (45%), Positives = 55/84 (65%), Gaps = 7/84 (8%)

Query: 2  MSSRERKKAAALQEKLQILRSITHSHALSNTSILMDASKYIKELKQKVVRLNQEIACAQD 61
          MS +++KKAAAL+EKL++LRS+T S A + TSIL+DASKYIKELK KV +  +++     
Sbjct: 1  MSGKDQKKAAALEEKLELLRSVTKSSAANETSILVDASKYIKELKDKVSQEPEQLGSTSS 60

Query: 62 ALRQNR-------VTVETLRHGFL 78
          ++   R       V  + +RH  L
Sbjct: 61 SMPMPRSEAAERSVDEQMVRHAVL 84



  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
   0.317    0.129    0.346 

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: 4,168,550
Number of extensions: 133875
Number of successful extensions: 521
Number of sequences better than 1.0e-10: 5
Number of HSP's gapped: 518
Number of HSP's successfully gapped: 5
Length of query: 163
Length of database: 17,035,801
Length adjustment: 93
Effective length of query: 70
Effective length of database: 12,179,899
Effective search space: 852592930
Effective search space used: 852592930
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 152 (63.2 bits)