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= Os03g0169800 Os03g0169800|AK068278
(187 letters)
Database: rap3
52,214 sequences; 17,035,801 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Os03g0169800 HNH nuclease domain containing protein 304 2e-83
Os10g0335200 HNH nuclease domain containing protein 127 6e-30
Os04g0478200 86 1e-17
>Os03g0169800 HNH nuclease domain containing protein
Length = 187
Score = 304 bits (779), Expect = 2e-83, Method: Compositional matrix adjust.
Identities = 153/187 (81%), Positives = 153/187 (81%)
Query: 1 MVGRKPLRRRRHDAPPSPPLFGXXXXXXXXXXXXXXXXXXXEELDGLLLTXXXXXXXXXX 60
MVGRKPLRRRRHDAPPSPPLFG EELDGLLLT
Sbjct: 1 MVGRKPLRRRRHDAPPSPPLFGATPRPTSPRSSSASVAAVAEELDGLLLTAPRPSASSSE 60
Query: 61 XXXXXYVVKQRCWEKAERVAGRDPERWRRDALGNVVFRKLVGCPGCLCHDYDHIVPYSKG 120
YVVKQRCWEKAERVAGRDPERWRRDALGNVVFRKLVGCPGCLCHDYDHIVPYSKG
Sbjct: 61 PRSFPYVVKQRCWEKAERVAGRDPERWRRDALGNVVFRKLVGCPGCLCHDYDHIVPYSKG 120
Query: 121 GKSTLENCQVLQATVNRSKGNKTELSKSELIQKSAYCRVSGRDMDLLELSAYGNVRRGPD 180
GKSTLENCQVLQATVNRSKGNKTELSKSELIQKSAYCRVSGRDMDLLELSAYGNVRRGPD
Sbjct: 121 GKSTLENCQVLQATVNRSKGNKTELSKSELIQKSAYCRVSGRDMDLLELSAYGNVRRGPD 180
Query: 181 SGGCRIQ 187
SGGCRIQ
Sbjct: 181 SGGCRIQ 187
>Os10g0335200 HNH nuclease domain containing protein
Length = 178
Score = 127 bits (318), Expect = 6e-30, Method: Compositional matrix adjust.
Identities = 57/119 (47%), Positives = 82/119 (68%)
Query: 68 VKQRCWEKAERVAGRDPERWRRDALGNVVFRKLVGCPGCLCHDYDHIVPYSKGGKSTLEN 127
+ CW KA V GR PERWR+DA GNVV R+ C GCLC++YDHIVP+SKGG+ST++N
Sbjct: 35 TRSACWRKAAVVMGRHPERWRQDAAGNVVCRRFWSCHGCLCYEYDHIVPFSKGGESTVDN 94
Query: 128 CQVLQATVNRSKGNKTELSKSELIQKSAYCRVSGRDMDLLELSAYGNVRRGPDSGGCRI 186
CQ+LQ VNRSK +K + ++E+ S + + +++D++E++ YG+V R CR
Sbjct: 95 CQILQTRVNRSKSDKAWIEQAEMQGFSCDIKFTDKELDVIEMAVYGDVIRPGKQCRCRT 153
>Os04g0478200
Length = 212
Score = 86.3 bits (212), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 45/117 (38%), Positives = 66/117 (56%), Gaps = 1/117 (0%)
Query: 68 VKQRCWEKAERVAGRDPERWRRDALGNVVFRKLVGCPGCLCHDYDHIVPYSKGGKSTLEN 127
V++ CW A +V GR +RWR DA GN V + L G GC +++DHI P+SK G + N
Sbjct: 33 VREACWNNAPKVIGRSGDRWRLDANGNPVLKALNGKHGCCGYEFDHIQPHSKRGPNDQSN 92
Query: 128 CQVLQATVNRSKGNKTELSKSELIQKSAYCRVSGRDMDLLELSAYGNVRRGPDSGGC 184
CQ++Q NRSK N+ L K ++ S + +D +E++ Y +V R S C
Sbjct: 93 CQIIQTGANRSKSNRI-LRKDQMKGLSRTMNWTHPHLDTIEIAVYASVERDDLSCTC 148
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
0.320 0.139 0.438
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: 6,017,255
Number of extensions: 204859
Number of successful extensions: 654
Number of sequences better than 1.0e-10: 3
Number of HSP's gapped: 655
Number of HSP's successfully gapped: 3
Length of query: 187
Length of database: 17,035,801
Length adjustment: 95
Effective length of query: 92
Effective length of database: 12,075,471
Effective search space: 1110943332
Effective search space used: 1110943332
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 (21.8 bits)
S2: 153 (63.5 bits)