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= Os04g0690800 Os04g0690800|AK071638
(254 letters)
Database: rap3
52,214 sequences; 17,035,801 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Os04g0690800 22 kDa protein of photosystem II 394 e-110
Os01g0869800 Similar to Photosystem II subunit PsbS 255 2e-68
>Os04g0690800 22 kDa protein of photosystem II
Length = 254
Score = 394 bits (1013), Expect = e-110, Method: Compositional matrix adjust.
Identities = 209/254 (82%), Positives = 209/254 (82%)
Query: 1 MALQQSMAMPMMVVSDLGTAPRSSPMVQLQRMKKHLVVVAAFKSRTKASPKVDKSNKNKS 60
MALQQSMAMPMMVVSDLGTAPRSSPMVQLQRMKKHLVVVAAFKSRTKASPKVDKSNKNKS
Sbjct: 1 MALQQSMAMPMMVVSDLGTAPRSSPMVQLQRMKKHLVVVAAFKSRTKASPKVDKSNKNKS 60
Query: 61 IVEDXXXXXXXXXXXXKENELFVGRVAMLGFAASLLGEAVTGKGILAQLNLETGIPIYEA 120
IVED KENELFVGRVAMLGFAASLLGEAVTGKGILAQLNLETGIPIYEA
Sbjct: 61 IVEDGIFGTSGGIGFTKENELFVGRVAMLGFAASLLGEAVTGKGILAQLNLETGIPIYEA 120
Query: 121 EPXXXXXXXXXXXGAIGALGDRGRFVDDATGLERAVIPPGKGFRAALGLSEGGPLFGFTK 180
EP GAIGALGDRGRFVDDATGLERAVIPPGKGFRAALGLSEGGPLFGFTK
Sbjct: 121 EPLLLFFILFTLLGAIGALGDRGRFVDDATGLERAVIPPGKGFRAALGLSEGGPLFGFTK 180
Query: 181 ANELFVGRLAQLGIAFSLIGEIITGKGALAQLNIETGVPXXXXXXXXXXXXXXXXXXXXX 240
ANELFVGRLAQLGIAFSLIGEIITGKGALAQLNIETGVP
Sbjct: 181 ANELFVGRLAQLGIAFSLIGEIITGKGALAQLNIETGVPINEIEPLLLFNILFFFFAAIN 240
Query: 241 XGTGKFVTDDNDDQ 254
GTGKFVTDDNDDQ
Sbjct: 241 PGTGKFVTDDNDDQ 254
>Os01g0869800 Similar to Photosystem II subunit PsbS
Length = 268
Score = 255 bits (651), Expect = 2e-68, Method: Compositional matrix adjust.
Identities = 145/233 (62%), Positives = 158/233 (67%), Gaps = 2/233 (0%)
Query: 23 SSPMVQLQRMKKHLVVVAAFKSRTKASPKVDKSNKNKSIVEDXXXXXXXXXXXXKENELF 82
S P L R V +S+TKA+P K K ED KENELF
Sbjct: 36 SQPSSSLGRAVSVKTVALFGRSKTKAAPARKAEPKPKFKTEDGIFGTSGGIGFTKENELF 95
Query: 83 VGRVAMLGFAASLLGEAVTGKGILAQLNLETGIPIYEAEPXXXXXXXXXXXGAIGALGDR 142
VGRVAMLGFAAS+LGEA+TGKGILAQLNLETGIPIYEAEP GAIGALGDR
Sbjct: 96 VGRVAMLGFAASILGEAITGKGILAQLNLETGIPIYEAEPLLLFFILFTLLGAIGALGDR 155
Query: 143 GRFVDD--ATGLERAVIPPGKGFRAALGLSEGGPLFGFTKANELFVGRLAQLGIAFSLIG 200
G FVDD TGL++AVI PGKGFR+ALGLSEGGPLFGFTKANELFVGRLAQLGIAFS+IG
Sbjct: 156 GSFVDDQPVTGLDKAVIAPGKGFRSALGLSEGGPLFGFTKANELFVGRLAQLGIAFSIIG 215
Query: 201 EIITGKGALAQLNIETGVPXXXXXXXXXXXXXXXXXXXXXXGTGKFVTDDNDD 253
EIITGKGALAQLNIETGVP GTGKFV+DD+++
Sbjct: 216 EIITGKGALAQLNIETGVPINEIEPLVLFNVVFFFIAAINPGTGKFVSDDDEE 268
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 0.136 0.377
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: 6,461,948
Number of extensions: 219961
Number of successful extensions: 487
Number of sequences better than 1.0e-10: 2
Number of HSP's gapped: 480
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: 41 (21.6 bits)
S2: 155 (64.3 bits)