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= Os04g0531300 Os04g0531300|AK072647
(319 letters)
Database: rap3
52,214 sequences; 17,035,801 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Os04g0531300 Dihydrouridine synthase, DuS family protein 661 0.0
AK110093 207 1e-53
Os06g0712900 Dihydrouridine synthase, DuS family protein 123 2e-28
Os04g0117600 Dihydrouridine synthase, DuS family protein 106 2e-23
>Os04g0531300 Dihydrouridine synthase, DuS family protein
Length = 319
Score = 661 bits (1705), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 319/319 (100%), Positives = 319/319 (100%)
Query: 1 MEYRDKLVLAPMVRVGTLPFRLLAAEYGADITYGEEIIDHKFLKCERVTNESLGTTDFLE 60
MEYRDKLVLAPMVRVGTLPFRLLAAEYGADITYGEEIIDHKFLKCERVTNESLGTTDFLE
Sbjct: 1 MEYRDKLVLAPMVRVGTLPFRLLAAEYGADITYGEEIIDHKFLKCERVTNESLGTTDFLE 60
Query: 61 RGTDTVVFRTCPQERDRVVFQMGTSDAVRALKAAQLVCNDVAAIDINMGCPKSFSLSGGM 120
RGTDTVVFRTCPQERDRVVFQMGTSDAVRALKAAQLVCNDVAAIDINMGCPKSFSLSGGM
Sbjct: 61 RGTDTVVFRTCPQERDRVVFQMGTSDAVRALKAAQLVCNDVAAIDINMGCPKSFSLSGGM 120
Query: 121 GAALLSKPELIHDILTTLRRNLDTTVTCKIRLLNTRQDTVELARRVEKIGVPALAVHGRK 180
GAALLSKPELIHDILTTLRRNLDTTVTCKIRLLNTRQDTVELARRVEKIGVPALAVHGRK
Sbjct: 121 GAALLSKPELIHDILTTLRRNLDTTVTCKIRLLNTRQDTVELARRVEKIGVPALAVHGRK 180
Query: 181 VKDRPRDPAKWDEIADVVSALSIPVIANGDVFEYEDFKRIKDATGAASVMVARGAMWNAS 240
VKDRPRDPAKWDEIADVVSALSIPVIANGDVFEYEDFKRIKDATGAASVMVARGAMWNAS
Sbjct: 181 VKDRPRDPAKWDEIADVVSALSIPVIANGDVFEYEDFKRIKDATGAASVMVARGAMWNAS 240
Query: 241 IFCPKGKTPWEDVKREYVRKSILWDNDLKSTKQTIKEMIMHYSCLEFPEGKGVNKCDTIA 300
IFCPKGKTPWEDVKREYVRKSILWDNDLKSTKQTIKEMIMHYSCLEFPEGKGVNKCDTIA
Sbjct: 241 IFCPKGKTPWEDVKREYVRKSILWDNDLKSTKQTIKEMIMHYSCLEFPEGKGVNKCDTIA 300
Query: 301 DLAKLYGEEYYNFVLSNRN 319
DLAKLYGEEYYNFVLSNRN
Sbjct: 301 DLAKLYGEEYYNFVLSNRN 319
>AK110093
Length = 845
Score = 207 bits (526), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 118/293 (40%), Positives = 178/293 (60%), Gaps = 17/293 (5%)
Query: 1 MEYRDKLVLAPMVRVGTLPFRLLAAEYGADITYGEEIIDHKFLKCERVTNESLGTTDFLE 60
+ +++ + LAPMVR+GTLP RLL+ EYGAD+ +G EI+D + CER + + G ++L+
Sbjct: 150 LTFQNGIFLAPMVRIGTLPTRLLSLEYGADLVWGPEIVDRAIIGCERKVSPTTGVVEYLK 209
Query: 61 RGTDTVVFRTCPQERDRVVFQMGTSDAVRALKAAQLV--CNDVAAIDINMGCPKSFSLSG 118
+F P ER +V+Q+G+++ A +A +++ +DVAA+D+N GCPK FS
Sbjct: 210 EHKQ--IFSCHPIERPYLVYQLGSANPDLAYQAIKIITQADDVAAVDLNCGCPKPFSTHA 267
Query: 119 GMGAALLSKPELIHDILTTLRRNL--DTTVTCKIRLLNTRQDTVELARRVEKIG-VPALA 175
GMGA +LS P L+ + L +RR VTCKIRLL T++ T+EL ++ + G + L
Sbjct: 268 GMGANMLSTPVLLCNTLKAMRRAAPPHVAVTCKIRLLPTQEATIELVDKIVRTGAIECLT 327
Query: 176 VHGRKVKDRPRDPA---KWDEIADVVSALS------IPVIANGDVFEYEDFKRIKDATGA 226
VH R RPR+PA + EI D V+ L+ IPV+ NGDV++ + RIK+ TG
Sbjct: 328 VHCRTKDMRPREPALLHRLREIVDHVNTLAAEMGRIIPVVCNGDVWDAVNAPRIKELTGV 387
Query: 227 ASVMVARGAMWNASIFCPKGKTPWEDV-KREYVRKSILWDNDLKSTKQTIKEM 278
S MVARGA N S F P+G DV ++VR S+ +N + +TK + ++
Sbjct: 388 TSTMVARGAEANPSCFRPQGSLSIPDVIAPKWVRYSLALNNPIGNTKYCMAQL 440
>Os06g0712900 Dihydrouridine synthase, DuS family protein
Length = 421
Score = 123 bits (308), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 83/249 (33%), Positives = 124/249 (49%), Gaps = 18/249 (7%)
Query: 6 KLVLAPMVRVGTLPFRLLAAEYGADITYGEEIIDHKFLKCERVTNESLGTTDFLERGTDT 65
K+V+APMV LPFR+L YGA Y + F + E+ R +
Sbjct: 88 KMVVAPMVDNSELPFRMLCRRYGATGAYTPMLHSRIFSENEK------------HRAME- 134
Query: 66 VVFRTCPQERDRVVFQMGTSDAVRALKAAQLVCNDVAAIDINMGCPKSFSLSGGMGAALL 125
F TC ++R V Q +D L+AA++V +DIN GCP+ + G GA L+
Sbjct: 135 --FTTCKEDRPLFV-QFCANDPDILLQAAKIVEPYCDYVDINFGCPQRIARRGYYGAFLM 191
Query: 126 SKPELIHDILTTLRRNLDTTVTCKIRLLNTRQDTVELARRVEKIGVPALAVHGRK--VKD 183
+ L+ ++ L NL V+CKIR+ +DT+ A+ +E+ G +AVHGR KD
Sbjct: 192 NNLPLVKSLVQNLSANLHVPVSCKIRIFPRLEDTLAYAKMLEEAGASLVAVHGRTRDEKD 251
Query: 184 RPRDPAKWDEIADVVSALSIPVIANGDVFEYEDFKRIKDATGAASVMVARGAMWNASIFC 243
+ A WD I V AL IPV+ANG++ +D K + TGA V+ A + N ++F
Sbjct: 252 GKKFRADWDAIKAVKDALRIPVLANGNIRHLDDVKDCLEHTGADGVLSAETLLENPALFA 311
Query: 244 PKGKTPWED 252
W++
Sbjct: 312 GFRTKEWKE 320
>Os04g0117600 Dihydrouridine synthase, DuS family protein
Length = 685
Score = 106 bits (264), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 87/310 (28%), Positives = 138/310 (44%), Gaps = 38/310 (12%)
Query: 1 MEYRDKLVLAPMVRVGTLPFRLLAAEYGADITYGEEIIDHKFLKCERVTNESLGTTDFLE 60
+++R+KL LAP+ VG LPFR L GADIT GE + C + L
Sbjct: 328 IDFREKLYLAPLTTVGNLPFRRLCKTLGADITCGEMAM------CTNLLQGQASEWALLR 381
Query: 61 RGTDTVVF--RTCPQERDRVVFQMGTSDAVRALKAAQLVCNDVAA--IDINMGCPKSFSL 116
R + +F + C D V + +LV N+ + IDINMGCP +
Sbjct: 382 RHSSEDLFGVQICGAYPDTVA------------RTVELVDNECSVDFIDINMGCPIDIVV 429
Query: 117 SGGMGAALLSKPELIHDILTTLRRNLDTTVTCKIR--LLNTRQDTVELARRVEKIGVPAL 174
+ G G++LL+KP I I+ + +T K+R R + + G A+
Sbjct: 430 NKGAGSSLLTKPMRIKSIVQAASTVTEKPLTVKVRTAFFEGRNRADSIVSDIYDWGASAI 489
Query: 175 AVHGRKVKDRPRDPAKWDEIADVVSAL--SIPVIANGDVFEYEDF-KRIKDATGAASVMV 231
VHGR + R A WD I + V+ NGDVF + D+ K + + ++ M+
Sbjct: 490 TVHGRSRQQRYSKLADWDYIYQCAQKAPDQLHVVGNGDVFSFTDWNKHVSGCSKISTSMI 549
Query: 232 ARGAMWNASIFCP-KGKTPWE-------DVKREYVRKSI-LWDNDLKSTKQTIKEMI--M 280
ARGA+ IF K + W+ ++ +++V + W +D K + T ++ +
Sbjct: 550 ARGALIKPWIFTEVKEQRHWDITSGERFNILKDFVSFGLEHWGSDSKGVETTRYFLLEWL 609
Query: 281 HYSCLEFPEG 290
Y+C P G
Sbjct: 610 SYTCRYIPVG 619
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 0.405
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: 10,281,239
Number of extensions: 405355
Number of successful extensions: 794
Number of sequences better than 1.0e-10: 4
Number of HSP's gapped: 785
Number of HSP's successfully gapped: 4
Length of query: 319
Length of database: 17,035,801
Length adjustment: 101
Effective length of query: 218
Effective length of database: 11,762,187
Effective search space: 2564156766
Effective search space used: 2564156766
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: 156 (64.7 bits)