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= Os04g0465700 Os04g0465700|AK064379
(377 letters)
Database: rap3
52,214 sequences; 17,035,801 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Os04g0465700 RNA dependent RNA polymerase family protein 716 0.0
Os01g0527600 RNA dependent RNA polymerase family protein 254 6e-68
Os02g0736200 Similar to RNA-directed RNA polymerase (EC 2.7... 119 4e-27
Os01g0198000 RNA dependent RNA polymerase family protein 87 1e-17
Os01g0197900 RNA dependent RNA polymerase family protein 67 3e-11
>Os04g0465700 RNA dependent RNA polymerase family protein
Length = 377
Score = 716 bits (1848), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 347/377 (92%), Positives = 347/377 (92%)
Query: 1 YFYNDDGKTATVVGKVAITKNPCLHPGDIRVLEAIYDPDLVGMVDCLVFPQRGERPHPNE 60
YFYNDDGKTATVVGKVAITKNPCLHPGDIRVLEAIYDPDLVGMVDCLVFPQRGERPHPNE
Sbjct: 1 YFYNDDGKTATVVGKVAITKNPCLHPGDIRVLEAIYDPDLVGMVDCLVFPQRGERPHPNE 60
Query: 61 CSGGDLDGDLYFITWDDKLIPEKVDTPMDYTATRPRIMDHVVTLEEIQKHFVDYMINDSL 120
CSGGDLDGDLYFITWDDKLIPEKVDTPMDYTATRPRIMDHVVTLEEIQKHFVDYMINDSL
Sbjct: 61 CSGGDLDGDLYFITWDDKLIPEKVDTPMDYTATRPRIMDHVVTLEEIQKHFVDYMINDSL 120
Query: 121 GAISTAHLIHADRSPLKARSPECLQLATLHSMAVDFAKTGAPAEMPRTLRPREYPDFMER 180
GAISTAHLIHADRSPLKARSPECLQLATLHSMAVDFAKTGAPAEMPRTLRPREYPDFMER
Sbjct: 121 GAISTAHLIHADRSPLKARSPECLQLATLHSMAVDFAKTGAPAEMPRTLRPREYPDFMER 180
Query: 181 WEKPMYISNGVLGKLYRSAMGHMEKXXXXXXXXXXXXXXXXTYDPDLEVPGSDEFLQAAX 240
WEKPMYISNGVLGKLYRSAMGHMEK TYDPDLEVPGSDEFLQAA
Sbjct: 181 WEKPMYISNGVLGKLYRSAMGHMEKSGDSGALSSSSAQPSPTYDPDLEVPGSDEFLQAAE 240
Query: 241 XXXXXXXXXXXXXMNYYRAELEDEILTGNIRNKMLYLKRDNKRYFEMKDRIVAAVDALHR 300
MNYYRAELEDEILTGNIRNKMLYLKRDNKRYFEMKDRIVAAVDALHR
Sbjct: 241 EYYELYEEKLTTLMNYYRAELEDEILTGNIRNKMLYLKRDNKRYFEMKDRIVAAVDALHR 300
Query: 301 EARGWLLSSRKEEDASRMASAWYRVTYHPDRRRGKRFWSFPWIACDNLLAIKASSQLRRR 360
EARGWLLSSRKEEDASRMASAWYRVTYHPDRRRGKRFWSFPWIACDNLLAIKASSQLRRR
Sbjct: 301 EARGWLLSSRKEEDASRMASAWYRVTYHPDRRRGKRFWSFPWIACDNLLAIKASSQLRRR 360
Query: 361 RQKDDDSTAVVQMDCSA 377
RQKDDDSTAVVQMDCSA
Sbjct: 361 RQKDDDSTAVVQMDCSA 377
>Os01g0527600 RNA dependent RNA polymerase family protein
Length = 385
Score = 254 bits (650), Expect = 6e-68, Method: Compositional matrix adjust.
Identities = 152/378 (40%), Positives = 207/378 (54%), Gaps = 32/378 (8%)
Query: 12 VVGKVAITKNPCLHPGDIRVLEAIYDPDLVGMVDCLVFPQRGERPHPNECSGGDLDGDLY 71
++G V I KNPCLHPGD+R+LEA+ P+L +VDCLVFPQ+GERPH NE SG DLDGDLY
Sbjct: 1 ILGTVVIAKNPCLHPGDVRILEAVDVPELHHLVDCLVFPQKGERPHANEASGSDLDGDLY 60
Query: 72 FITWDDKLIP--EKVDTPMDYTATRPRIMDHVVTLEEIQKHFVDYMINDSLGAISTAHLI 129
F+TWD+KLIP +K PMDY+ + + V+ +I F+ MI+++LG I AH++
Sbjct: 61 FVTWDEKLIPPGKKSWNPMDYSPPEAKQLPRQVSQHDIIDFFLKNMISENLGRICNAHVV 120
Query: 130 HADRSPLKARSPECLQLATLHSMAVDFAKTGAPAEMPRTLRPREYPDFMERWEKPMYISN 189
HAD S A +C+ LA L + AVDF KTG A MP L+P+ YPDFM + + Y S
Sbjct: 121 HADLSEYGAMDEKCIHLAELAATAVDFPKTGKLAIMPPHLKPKVYPDFMGKEDGQSYKSE 180
Query: 190 GVLGKLYRSAMGHMEKXXXXXXXXXXXXXXXXTYDPDLEVPGSDEFLQAAXXXXXXXXXX 249
+LG+LYRS E YD DLEVPG+ +FL +A
Sbjct: 181 KILGRLYRSI---QEASNGDVVSQEVCTPNDLPYDIDLEVPGASDFLASAWQCKCSYDAQ 237
Query: 250 XXXXMNYYRAELEDEILTGNIRNKMLYLKRDNKRYFEMKDRIVAAVDALHREARGWLLSS 309
++ YR E E++TG+I +K +K+ ++KDR+ A AL +E + S
Sbjct: 238 LSALLSQYRVRTEAELVTGHI---TFLVKNSSKKQGDIKDRLKTAYSALRKEFKSTFESI 294
Query: 310 RKEE-----DASRM-----ASAWYRVTYHP---DRRRG---------KRFWSFPWIACDN 347
++ D + ASAWY+VTYHP ++ RG SF WI D
Sbjct: 295 ASDQCEIGDDEKNLLYEMKASAWYQVTYHPKWVEKSRGILGPDGEEIPASLSFAWIPVDY 354
Query: 348 LLAIK--ASSQLRRRRQK 363
L IK ++R QK
Sbjct: 355 LARIKLRCHGKVRVEGQK 372
>Os02g0736200 Similar to RNA-directed RNA polymerase (EC 2.7.7.48)
Length = 476
Score = 119 bits (298), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 50/80 (62%), Positives = 61/80 (76%)
Query: 5 DDGKTATVVGKVAITKNPCLHPGDIRVLEAIYDPDLVGMVDCLVFPQRGERPHPNECSGG 64
+D TV GKV I KNPCLHPGDIR+L A+ P L M +C+VFPQ+G RPHPNECSG
Sbjct: 396 NDNDRFTVTGKVVIAKNPCLHPGDIRILHAVDVPVLHHMFNCVVFPQQGPRPHPNECSGS 455
Query: 65 DLDGDLYFITWDDKLIPEKV 84
DLDGD+YF++WD LIP ++
Sbjct: 456 DLDGDIYFVSWDPSLIPPRM 475
>Os01g0198000 RNA dependent RNA polymerase family protein
Length = 582
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 64/216 (29%), Positives = 103/216 (47%), Gaps = 36/216 (16%)
Query: 12 VVGKVAITKNPCLHPGDIRVLEAIYDPDLVGMVD----CLVFPQRGERPHPNECSGGDLD 67
V G V + K P LHPGDI VL+A Y D+ +V ++FP G+R +E + D D
Sbjct: 219 VSGDVLVYKYPGLHPGDIHVLKATYSSDIEKVVGNSKHAILFPTTGQRSLADEMANSDFD 278
Query: 68 GDLYFITWDDKLIPE----------------KVDTPMDYTATRPRIMDHVVTLEEIQKHF 111
GD+Y+++ + KL+ K P D+ + ++ V+ E ++ F
Sbjct: 279 GDIYWVSLNPKLLEHFKPSKPWVPAITPNGTKQKGPEDFNESE---LERVLFHEFLKTRF 335
Query: 112 VDYMINDSLGAISTAHLIHADR--------SPLKARSPECLQLATLHSMAVDFAKTGAPA 163
+ + +T L++ DR S K + L+L L+ +A+D K G
Sbjct: 336 AP---SYARATAATNWLVYMDRLLTVSLDESEKKLIEKKMLKLVDLYYLALDAPKMGNKV 392
Query: 164 EMPRTLRPREYPDFMERWEKPMYISNGVLGKLYRSA 199
+PR L ++YP FM+R P Y S+ +LGK+Y A
Sbjct: 393 NIPRDLMVKQYPHFMDR--SPSYHSSSILGKIYDKA 426
>Os01g0197900 RNA dependent RNA polymerase family protein
Length = 387
Score = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 60/212 (28%), Positives = 94/212 (44%), Gaps = 31/212 (14%)
Query: 14 GKVAITKNPCLHPGDIRVLEAIYDPDL----VGMVD-CLVFPQRGERPHPNECSGGDLDG 68
G V + K+P LH GDI VL+A Y DL VG ++FP G R +E + D DG
Sbjct: 26 GDVLVYKHPGLHFGDIHVLKATYIRDLEKEYVGYAKYAILFPISGPRSLADEMANSDFDG 85
Query: 69 DLYFITWDDKL-------------IPEKVDTPMDYTATRPRIMDHVVTLEEIQKHFVDYM 115
D+Y+++ + KL I K ++ ++ E ++ F
Sbjct: 86 DIYWVSKNPKLLEHFKPSEPWVQAIKPKKTKQKKPQDCNESKLERLLFHEFLKTRFTPSF 145
Query: 116 INDSLGAISTAHLIHADR--------SPLKARSPECLQLATLHSMAVDFAKTGAPAEMPR 167
+LG + + L + DR K + L+L L+ +A+D KTG +P
Sbjct: 146 ---ALGTAADSWLAYMDRLLTDSLDEIEKKLIEEKMLKLVDLYYLALDAPKTGNKVNIPS 202
Query: 168 TLRPREYPDFMERWEKPMYISNGVLGKLYRSA 199
L ++YP FM R Y S+ +LG++Y A
Sbjct: 203 DLMVKQYPHFMGR--SFSYHSSSILGQIYDKA 232
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 0.136 0.422
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: 13,050,022
Number of extensions: 541370
Number of successful extensions: 1150
Number of sequences better than 1.0e-10: 5
Number of HSP's gapped: 1143
Number of HSP's successfully gapped: 5
Length of query: 377
Length of database: 17,035,801
Length adjustment: 103
Effective length of query: 274
Effective length of database: 11,657,759
Effective search space: 3194225966
Effective search space used: 3194225966
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: 157 (65.1 bits)