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= Os05g0548200 Os05g0548200|AK107525
(316 letters)
Database: rap3
52,214 sequences; 17,035,801 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Os05g0548200 Similar to Transcription initiation factor IIB... 576 e-165
Os03g0193600 328 4e-90
Os09g0534800 Transcription initiation factor IIB (General t... 267 6e-72
Os07g0504200 196 1e-50
Os07g0504500 150 2e-36
>Os05g0548200 Similar to Transcription initiation factor IIB (General
transcription factor TFIIB)
Length = 316
Score = 576 bits (1485), Expect = e-165, Method: Compositional matrix adjust.
Identities = 290/316 (91%), Positives = 290/316 (91%)
Query: 1 MHDAAANDGAYCPDCRRATAVVLDHTTGDTICTECALVLDARYIDETSEWRTFANDGASD 60
MHDAAANDGAYCPDCRRATAVVLDHTTGDTICTECALVLDARYIDETSEWRTFANDGASD
Sbjct: 1 MHDAAANDGAYCPDCRRATAVVLDHTTGDTICTECALVLDARYIDETSEWRTFANDGASD 60
Query: 61 DRDPNRVGDRADPFLPDHVGGTTIXXXXXXXXXXXXXXLLTRRRVDVVGPSPENALVAAF 120
DRDPNRVGDRADPFLPDHVGGTTI LLTRRRVDVVGPSPENALVAAF
Sbjct: 61 DRDPNRVGDRADPFLPDHVGGTTIAYSSAPPKSADAAPLLTRRRVDVVGPSPENALVAAF 120
Query: 121 RGIADMADRLGLVATIRDRAKEVFKKLGEAPTKGLPRGRNRDAVYAACLFIACRNEGMPR 180
RGIADMADRLGLVATIRDRAKEVFKKLGEAPTKGLPRGRNRDAVYAACLFIACRNEGMPR
Sbjct: 121 RGIADMADRLGLVATIRDRAKEVFKKLGEAPTKGLPRGRNRDAVYAACLFIACRNEGMPR 180
Query: 181 TYKELASVTAEGAAAKKEIGRLTTLIKKHLGDQGEGRAMDIGVVRSTDYLRRFCSRLGLG 240
TYKELASVTAEGAAAKKEIGRLTTLIKKHLGDQGEGRAMDIGVVRSTDYLRRFCSRLGLG
Sbjct: 181 TYKELASVTAEGAAAKKEIGRLTTLIKKHLGDQGEGRAMDIGVVRSTDYLRRFCSRLGLG 240
Query: 241 HQDVRAAGDAXXXXXXXXXXXXNPESIAAAIIYMVVQRAGGSKSVRDVSTATGVAEGTIT 300
HQDVRAAGDA NPESIAAAIIYMVVQRAGGSKSVRDVSTATGVAEGTIT
Sbjct: 241 HQDVRAAGDAVRRLEERLDVRRNPESIAAAIIYMVVQRAGGSKSVRDVSTATGVAEGTIT 300
Query: 301 AAHKELAPHASVLFGG 316
AAHKELAPHASVLFGG
Sbjct: 301 AAHKELAPHASVLFGG 316
>Os03g0193600
Length = 308
Score = 328 bits (840), Expect = 4e-90, Method: Compositional matrix adjust.
Identities = 178/316 (56%), Positives = 211/316 (66%), Gaps = 8/316 (2%)
Query: 1 MHDAAANDGAYCPDCRRATAVVLDHTTGDTICTECALVLDARYIDETSEWRTFANDGASD 60
M A N+ YCP+C R T VV+DH TGDTICTECALVL+ RYIDETSEWRTF++ G+ +
Sbjct: 1 MCSVAGNEQCYCPECHRTTVVVVDHATGDTICTECALVLEERYIDETSEWRTFSDAGSGE 60
Query: 61 DRDPNRVGDRADPFLPDHVGGTTIXXXXXXXXXXXXXXLLTRRRVDVVGPSPENALVAAF 120
DRDPNRVG +DPFL GT + + RVD +++L AF
Sbjct: 61 DRDPNRVGGCSDPFLSHAELGTVVAPAKRQAKDTASPPHV---RVD-SKSGQDSSLAVAF 116
Query: 121 RGIADMADRLGLVATIRDRAKEVFKKLGEAPTKGLPRGRNRDAVYAACLFIACRNEGMPR 180
R I+DMADRL LVATIRDRAKE+FKK+ EA K R RNRDA YAACL IACRNEG PR
Sbjct: 117 RAISDMADRLQLVATIRDRAKELFKKMEEA--KLCARVRNRDAAYAACLHIACRNEGNPR 174
Query: 181 TYKELASVTAEGAAAKKEIGRLTTLIKKHLGDQGEGRAMDIGVVRSTDYLRRFCSRLGLG 240
T KELASV + KKEIGR+ +I++HLG++ G AM++GVVR+ DY+ RF SRLG+G
Sbjct: 175 TLKELASVMRD-CQDKKEIGRMERIIRRHLGEEA-GTAMEMGVVRAADYMSRFGSRLGMG 232
Query: 241 HQDVRAAGDAXXXXXXXXXXXXNPESIAAAIIYMVVQRAGGSKSVRDVSTATGVAEGTIT 300
+VR A A NPESIAAAIIYMVVQRAG S RDVS A+GVAE TI
Sbjct: 233 KPEVREAQRAAQTLEDKLDVRRNPESIAAAIIYMVVQRAGAQTSARDVSKASGVAEATIK 292
Query: 301 AAHKELAPHASVLFGG 316
A KEL+ H +LF
Sbjct: 293 EACKELSQHEELLFSS 308
>Os09g0534800 Transcription initiation factor IIB (General transcription factor
TFIIB)
Length = 312
Score = 267 bits (683), Expect = 6e-72, Method: Compositional matrix adjust.
Identities = 146/305 (47%), Positives = 194/305 (63%), Gaps = 12/305 (3%)
Query: 10 AYCPDCRRATAVVLDHTTGDTICTECALVLDARYIDETSEWRTFANDGASDDRDPNRVGD 69
++CPDC++ T V DH+ GDT+CTEC LVL+A +DETSEWRTFAN+ S D DP RVG
Sbjct: 4 SFCPDCKKHTEVAFDHSAGDTVCTECGLVLEAHSVDETSEWRTFANE--SSDNDPVRVGG 61
Query: 70 RADPFLPDHVGGTTIXXXXXXXXXXXXXXLLTRRRVDVVGPSPENALVAAFRGIADMADR 129
+P L D T I L R G +P+ +L+ AFR IA+MADR
Sbjct: 62 PTNPLLTDGGLSTVIAKPNGAQGEFLSSSL---GRWQNRGSNPDRSLILAFRTIANMADR 118
Query: 130 LGLVATIRDRAKEVFKKLGEAPTKGLPRGRNRDAVYAACLFIACRNEGMPRTYKELASVT 189
LGLVATI+DRA E++KK+ + + RGRN+DA+ AACL+IACR E PRT KE+ SV
Sbjct: 119 LGLVATIKDRANEIYKKVEDLKS---IRGRNQDAILAACLYIACRQEDRPRTVKEICSVA 175
Query: 190 AEGAAAKKEIGRLTTLIKKHLGDQGEGRAMDIGVVRSTDYLRRFCSRLGLGHQDVRAAGD 249
A KKEIGR I K L + G++M++G + + D+LRRFCS LG+ +Q V+AA +
Sbjct: 176 --NGATKKEIGRAKEFIVKQL-EVEMGQSMEMGTIHAGDFLRRFCSTLGMNNQAVKAAQE 232
Query: 250 AXXXXXXXXXXXXNPESIAAAIIYMVVQRAGGSKSVRDVSTATGVAEGTITAAHKELAPH 309
A +P SIAAA+IYM+ Q + K ++D+S ATGVAEGTI ++K+L P+
Sbjct: 233 A-VQRSEELDIRRSPISIAAAVIYMITQLSDDKKPLKDISLATGVAEGTIRNSYKDLYPY 291
Query: 310 ASVLF 314
AS L
Sbjct: 292 ASRLI 296
>Os07g0504200
Length = 354
Score = 196 bits (499), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 139/349 (39%), Positives = 171/349 (48%), Gaps = 48/349 (13%)
Query: 11 YCPDCRRATAVVLDHTTGDTICTECALVL----DARYIDETSEWRTFANDGASDDRDPNR 66
YC C R T++VLDH TGD ICTECA+VL D R S A D DP
Sbjct: 10 YCQQCERTTSMVLDHDTGDAICTECAIVLGNGNDPRRPAVASAATKHGGADAPADDDPLL 69
Query: 67 VGDRADPFLPDHVGGTTIXXXXXXXXXXXXXXLLTRRRVDVVGPS--------------- 111
G +D R R VV P
Sbjct: 70 QG--SDVVAAAAAEVACSVAPTKLQAEGAAPAAPPRMRGAVVAPKVRGGGGGAVTKARGG 127
Query: 112 ---PENALVAAFRGIADMADRLGLVATIRDRAKEVFKKLGEAPTKGLPRGRNRDAVYAAC 168
+L F I +MA RLGL +RDR K+V +K+ EA K RGR+RDA+YAAC
Sbjct: 128 VPDTNKSLAEGFDAIDNMASRLGLAGNVRDRGKDVLRKVEEA--KVCARGRSRDALYAAC 185
Query: 169 LFIACRNEGMPRTYKELASVTAEGAAAKKEIGRLTTLIKKHLG----------DQGEGRA 218
L ACR EG PRT KEL + T + AA K+ +G+ IK+ LG DQ +A
Sbjct: 186 LHTACRMEGAPRTLKELIAATPDAAATKRNLGKFIHAIKRLLGSNDEEAEAGQDQAGSKA 245
Query: 219 MD--------IGVVRSTDYLRRFCSRLGLGHQDVRAAGDAXXXXXXXXXXXXNPESIAAA 270
+ VVR+++YL R+ S +G+ Q+V AA A NP+SIAAA
Sbjct: 246 TNGCGGGGGAGAVVRASNYLLRYGSAVGMSGQEVSAAQRAASRLDESLDVRRNPQSIAAA 305
Query: 271 IIYMVVQRAGG----SKSVRDVSTATGVAEGTITAAHKELAPHASVLFG 315
IIYM VQRAGG SKSVR+VS ATGV+E TI A+K+L HA VLFG
Sbjct: 306 IIYMAVQRAGGGGGRSKSVREVSAATGVSESTIKDAYKDLCQHAEVLFG 354
>Os07g0504500
Length = 362
Score = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 115/307 (37%), Positives = 150/307 (48%), Gaps = 33/307 (10%)
Query: 10 AYCPDCRRATAVVLDHTTGDTICTECALVLD--ARYIDETSEWRTFANDGASDDRDPNRV 67
+YC C+R T +VLDH TGD ICT CA L A E WR A G SD +
Sbjct: 9 SYCQHCQRTTPMVLDHATGDAICTGCAFDLGNGANACPEPPRWRAAAGHGDSDGDRSSSS 68
Query: 68 GDR--------ADPFLPDHVGGTTIXXXXXXXXXXXXXXLLTRR---------RVDVVGP 110
ADP L G + ++ +V P
Sbjct: 69 SSVGGDVSPAAADPLLQGGEGVACSVGAPPVQPRVRGAVVPPKQMRAGGAVPPKVRCGVP 128
Query: 111 SPENALVAAFRGIADMADRLGLVATIRDRAKEVFKKLGEAPTKGLPRGRNRDAVYAACLF 170
AL F I MA RLGL + DRAKEV +KL EA + P+GR+RDA+YAACL
Sbjct: 129 DTSKALAEGFDAIVGMASRLGLADKVSDRAKEVLRKLEEA--RACPKGRSRDALYAACLH 186
Query: 171 IACRNEGMPRTYKELASVTAEGAAAKKEIGRLTTLIKKHLG--DQGEGRAMDIGV----- 223
ACR EG PRT KEL + T++ AA K+++G+ IK+HLG ++G+ +A D+
Sbjct: 187 AACRVEGAPRTLKELIAATSDAAATKRDLGKFINAIKRHLGMEERGQDQAADMKASGGGV 246
Query: 224 ---VRSTDYLRRFCSRLGLGHQDVRAAGDAXXXXXXXXXXXXNPESIAAAIIYMVVQRAG 280
VR+ DYL R+ S +G+ Q+ AA NP+SIAAAI+YM Q +
Sbjct: 247 GVVVRAGDYLHRYGSAVGMSGQEASAA-RRAAGRLDSLDVRRNPQSIAAAIVYMAAQGSS 305
Query: 281 G-SKSVR 286
G KSVR
Sbjct: 306 GVRKSVR 312
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
0.319 0.135 0.399
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: 10,400,268
Number of extensions: 408175
Number of successful extensions: 967
Number of sequences better than 1.0e-10: 5
Number of HSP's gapped: 951
Number of HSP's successfully gapped: 5
Length of query: 316
Length of database: 17,035,801
Length adjustment: 101
Effective length of query: 215
Effective length of database: 11,762,187
Effective search space: 2528870205
Effective search space used: 2528870205
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)