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= Os02g0315600 Os02g0315600|AK107002
(254 letters)
Database: rap3
52,214 sequences; 17,035,801 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Os02g0315600 Helix-loop-helix DNA-binding domain containing... 340 8e-94
Os01g0626900 Helix-loop-helix DNA-binding domain containing... 101 6e-22
>Os02g0315600 Helix-loop-helix DNA-binding domain containing protein
Length = 254
Score = 340 bits (871), Expect = 8e-94, Method: Compositional matrix adjust.
Identities = 178/254 (70%), Positives = 178/254 (70%)
Query: 1 MQGDHGYYGGRDSPPQXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXEDPMV 60
MQGDHGYYGGRDSPPQ EDPMV
Sbjct: 1 MQGDHGYYGGRDSPPQGYGYGGGYGYGGGYGYDAGGYYSGGGGGYPSAGAAAAAYEDPMV 60
Query: 61 GRRTHDFPAPMNELEFQPSATCPKNYVIFDQTCTKSRVMFHPSLAHKFGGGSSAYDNNVY 120
GRRTHDFPAPMNELEFQPSATCPKNYVIFDQTCTKSRVMFHPSLAHKFGGGSSAYDNNVY
Sbjct: 61 GRRTHDFPAPMNELEFQPSATCPKNYVIFDQTCTKSRVMFHPSLAHKFGGGSSAYDNNVY 120
Query: 121 XXXXXXXXXXXXYRDSVGYDDDDSCSVRQKEDTDEIXXXXXXXXXXXXXXXSTGRTPGYR 180
YRDSVGYDDDDSCSVRQKEDTDEI STGRTPGYR
Sbjct: 121 GGGGAHDAAKGAYRDSVGYDDDDSCSVRQKEDTDEIDALLSSEDGDEDDVVSTGRTPGYR 180
Query: 181 DGXXXXXXXXXXYGGGQARPGRKKERMKKMVRTLKGIIPGGNQMDTPAVLDEAVRYLKSL 240
DG YGGGQARPGRKKERMKKMVRTLKGIIPGGNQMDTPAVLDEAVRYLKSL
Sbjct: 181 DGSSPDSTCSSSYGGGQARPGRKKERMKKMVRTLKGIIPGGNQMDTPAVLDEAVRYLKSL 240
Query: 241 KVEVKKLGVRGSDN 254
KVEVKKLGVRGSDN
Sbjct: 241 KVEVKKLGVRGSDN 254
>Os01g0626900 Helix-loop-helix DNA-binding domain containing protein
Length = 245
Score = 101 bits (251), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 73/198 (36%), Positives = 92/198 (46%), Gaps = 30/198 (15%)
Query: 74 LEFQPSATCPKNYVIFDQTCTKSRVMFHPSLAHKFGGGSSAYDNNVYXXXXXXXXXXXXY 133
EFQPS CP+N++IFDQT K R+M HP+L K ++ N +
Sbjct: 61 FEFQPSKVCPRNFIIFDQTDDKGRIMCHPALVSKLNPSAT----NAFPSYPEPICR---- 112
Query: 134 RDSVGYDDD--DSCSVRQKEDTDEI-XXXXXXXXXXXXXXXSTGRTPGY----------- 179
S G D+ + S KEDT EI STGRTP
Sbjct: 113 --SSGQDNGNLEEVSSSFKEDTREIDALLSSDEESDEDDVKSTGRTPDCFESDSLDSSSP 170
Query: 180 ---RDGXXXXXXXXXXYGGGQARPGRKKERMKKMVRTLKGIIPGGNQMDTPAVLDEAVRY 236
R +G ERM+ MV L+GIIPGG+Q+DT +V++EAVRY
Sbjct: 171 PRSRKMHHSSSQSSVFHGSMDT---VTHERMRNMVTVLRGIIPGGDQLDTASVIEEAVRY 227
Query: 237 LKSLKVEVKKLGVRGSDN 254
LK LK+E KKLGV SDN
Sbjct: 228 LKFLKMEAKKLGVEVSDN 245
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
0.315 0.136 0.412
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: 7,552,720
Number of extensions: 253191
Number of successful extensions: 387
Number of sequences better than 1.0e-10: 2
Number of HSP's gapped: 388
Number of HSP's successfully gapped: 2
Length of query: 254
Length of database: 17,035,801
Length adjustment: 99
Effective length of query: 155
Effective length of database: 11,866,615
Effective search space: 1839325325
Effective search space used: 1839325325
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: 42 (22.0 bits)
S2: 155 (64.3 bits)