Last updated: 2022/11/18
BLASTP 2.2.12 [Aug-07-2005]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Query= BGIBMGA001898-TA|BGIBMGA001898-PA|IPR000783|RNA polymerase
subunit, RPB5, IPR009026|RNA polymerase subunit, RPB5/RPB6-like,
IPR005571|RNA polymerase Rpb5, N-terminal
(162 letters)
Database: arabidopsis
28,952 sequences; 12,070,560 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
At3g22320.1 68416.m02819 DNA-directed RNA polymerase, putative s... 158 1e-39
At5g57980.1 68418.m07254 eukaryotic rpb5 RNA polymerase subunit ... 104 3e-23
At3g54490.1 68416.m06029 eukaryotic rpb5 RNA polymerase subunit ... 79 1e-15
At3g57080.1 68416.m06355 eukaryotic rpb5 RNA polymerase subunit ... 73 9e-14
At2g41340.1 68415.m05103 eukaryotic rpb5 RNA polymerase subunit ... 71 4e-13
At3g16680.1 68416.m02131 expressed protein ; expression supporte... 61 4e-10
At1g48850.1 68414.m05469 chorismate synthase, putative / 5-enolp... 29 1.1
At1g35160.1 68414.m04360 14-3-3 protein GF14 phi (GRF4) identica... 29 1.1
At5g50640.1 68418.m06274 CBS domain-containing protein / octicos... 28 2.6
At5g50530.1 68418.m06258 CBS domain-containing protein / octicos... 28 2.6
At2g16820.1 68415.m01928 hypothetical protein 28 3.5
At1g78300.1 68414.m09125 14-3-3 protein GF14 omega (GRF2) identi... 28 3.5
At3g49500.1 68416.m05410 RNA-dependent RNA polymerase (SDE1) ide... 27 4.6
At1g20440.1 68414.m02547 dehydrin (COR47) identical to dehydrin ... 27 8.1
>At3g22320.1 68416.m02819 DNA-directed RNA polymerase, putative
similar to SP|P19388 DNA-directed RNA polymerase II 23
kDa polypeptide (EC 2.7.7.6) {Homo sapiens}; contains
Pfam profiles PF03871: RNA polymerase Rpb5 N-terminal
domain, PF01191: RNA polymerase Rpb5 C-terminal domain
Length = 205
Score = 158 bits (384), Expect = 1e-39
Identities = 75/159 (47%), Positives = 109/159 (68%), Gaps = 5/159 (3%)
Query: 4 DAETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIVLVA 63
+ E +L+RI+KT+MQ+ DRGY + EL T +QF + GD R DL+ L A
Sbjct: 4 EEELKRLYRIQKTLMQMLRDRGYFIADSELTMTKQQFIRKHGDNMK-----REDLVTLKA 58
Query: 64 HNDDPTDQMFVFFPDEAKIGIKTIKTYCTRMQEENIHRAIVVVQAGMSPSAKQSLVDMAP 123
+D +DQ+++FFPDEAK+G+KT+K Y RM+ EN+ RAI+VVQ ++P A+ + +++
Sbjct: 59 KRNDNSDQLYIFFPDEAKVGVKTMKMYTNRMKSENVFRAILVVQQNLTPFARTCISEISS 118
Query: 124 KYILEQFLESELLINITEHELVPEHIVLTPDEKQELLAR 162
K+ LE F E+E+L+NI EH LVPEH VLT +EK+ LL R
Sbjct: 119 KFHLEVFQEAEMLVNIKEHVLVPEHQVLTTEEKKTLLER 157
>At5g57980.1 68418.m07254 eukaryotic rpb5 RNA polymerase subunit
family protein similar to SP|P19388 DNA-directed RNA
polymerase II 23 kDa polypeptide (EC 2.7.7.6) {Homo
sapiens}; contains Pfam profiles PF03871: RNA polymerase
Rpb5 N-terminal domain, PF01191: RNA polymerase Rpb5
C-terminal domain
Length = 210
Score = 104 bits (249), Expect = 3e-23
Identities = 51/160 (31%), Positives = 97/160 (60%), Gaps = 3/160 (1%)
Query: 2 DDDAETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIVL 61
D D E +++++R+TV+Q+ DRGY + + +L+ E+F ++F ++ + L V
Sbjct: 3 DMDDEITRIFKVRRTVLQMLRDRGYTIEESDLNLKREEFVQRFCKTMNKVN--KEALFVS 60
Query: 62 VAHNDDPTDQMFVFFPDEAKIGIKTIKT-YCTRMQEENIHRAIVVVQAGMSPSAKQSLVD 120
+P D+++VF+P+ K+G+ IK +M+++ +HR IVVV ++ A+ ++ +
Sbjct: 61 ANKGPNPADKIYVFYPEGPKVGVPVIKKEVAIKMRDDKVHRGIVVVPMAITAPARMAVSE 120
Query: 121 MAPKYILEQFLESELLINITEHELVPEHIVLTPDEKQELL 160
+ +E F E+EL+ NITEH+LV ++ VL K++LL
Sbjct: 121 LNKMLTIEVFEEAELVTNITEHKLVNKYYVLDDQAKKKLL 160
>At3g54490.1 68416.m06029 eukaryotic rpb5 RNA polymerase subunit
family protein similar to SP|P19388 DNA-directed RNA
polymerase II 23 kDa polypeptide (EC 2.7.7.6) {Homo
sapiens}; contains Pfam profiles PF03871: RNA polymerase
Rpb5 N-terminal domain, PF01191: RNA polymerase Rpb5
C-terminal domain
Length = 233
Score = 79.4 bits (187), Expect = 1e-15
Identities = 47/158 (29%), Positives = 85/158 (53%), Gaps = 8/158 (5%)
Query: 6 ETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIVLVAHN 65
E+ + + R T ++ DRGY V + EL TL +F+ FG+KP +R L + V
Sbjct: 35 ESKRFYLARTTAFEMLRDRGYEVNEAELSLTLSEFRSVFGEKPELER-----LRICVPLR 89
Query: 66 DDPTDQMFVFFPDEAKIGIKTIKTYCTRMQEE-NIHRAIVVVQAGMSPSAKQSLVDMAPK 124
DP ++ V F I +K+++ ++ +H I+V+Q+ M+ A+++L
Sbjct: 90 SDPKKKILVVFMGTEPITVKSVRALHIQISNNVGLHAMILVLQSKMNHFAQKALTTF--P 147
Query: 125 YILEQFLESELLINITEHELVPEHIVLTPDEKQELLAR 162
+ +E F +LL+NIT+H P+ +L +EK++LL +
Sbjct: 148 FTVETFPIEDLLVNITKHIQQPKIEILNKEEKEQLLRK 185
>At3g57080.1 68416.m06355 eukaryotic rpb5 RNA polymerase subunit
family protein similar to SP|P19388 DNA-directed RNA
polymerase II 23 kDa polypeptide (EC 2.7.7.6) {Homo
sapiens}; contains Pfam profiles PF03871: RNA polymerase
Rpb5 N-terminal domain, PF01191: RNA polymerase Rpb5
C-terminal domain
Length = 222
Score = 72.9 bits (171), Expect = 9e-14
Identities = 43/158 (27%), Positives = 87/158 (55%), Gaps = 8/158 (5%)
Query: 6 ETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIVLVAHN 65
E+++ + R+ +Q+ DRGY V+ ++++ +L F+ +G++P R L + H
Sbjct: 24 ESHRYYLARRNGLQMLRDRGYEVSDEDINLSLHDFRTVYGERPDVDR-----LRISALHR 78
Query: 66 DDPTDQMFVFFPDEAKIGIKTIKTYCTR-MQEENIHRAIVVVQAGMSPSAKQSLVDMAPK 124
D T ++ + F + + + I++ + +E I I+V+Q ++ A +++ + K
Sbjct: 79 SDSTKKVKIVFFGTSMVKVNAIRSVVADILSQETITGLILVLQNHVTNQALKAIELFSFK 138
Query: 125 YILEQFLESELLINITEHELVPEHIVLTPDEKQELLAR 162
+E F ++LL+NIT+H L P+H VL +EK LL +
Sbjct: 139 --VEIFQITDLLVNITKHSLKPQHQVLNDEEKTTLLKK 174
>At2g41340.1 68415.m05103 eukaryotic rpb5 RNA polymerase subunit
family protein similar to SP|Q09191 DNA-directed RNA
polymerases II 24 kDa polypeptide (EC 2.7.7.6)
{Schizosaccharomyces pombe}; contains Pfam profiles
PF03871: RNA polymerase Rpb5 N-terminal domain, PF01191:
RNA polymerase Rpb5 C-terminal domain
Length = 218
Score = 70.9 bits (166), Expect = 4e-13
Identities = 45/159 (28%), Positives = 90/159 (56%), Gaps = 10/159 (6%)
Query: 6 ETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIVLVA-H 64
E +K + R+T M++ DRGY V+ ++++ +L+QF+ +G+ P DL+ + A H
Sbjct: 20 ECHKYYLARRTTMEMLRDRGYDVSDEDINLSLQQFRALYGEHPD------VDLLRISAKH 73
Query: 65 NDDPTDQMFVFFPDEAKIGIKTIKTYCTR-MQEENIHRAIVVVQAGMSPSAKQSLVDMAP 123
D + ++ V F + + ++ + ENI I+V+Q+ ++ A ++ V++
Sbjct: 74 RFDSSKKISVVFCGTGIVKVNAMRVIAADVLSRENITGLILVLQSHITNQALKA-VELF- 131
Query: 124 KYILEQFLESELLINITEHELVPEHIVLTPDEKQELLAR 162
+ +E F ++LL+N+++H L P+H VL EK+ LL +
Sbjct: 132 SFKVELFEITDLLVNVSKHVLRPKHQVLNDKEKESLLKK 170
>At3g16680.1 68416.m02131 expressed protein ; expression supported
by MPSS
Length = 87
Score = 60.9 bits (141), Expect = 4e-10
Identities = 32/79 (40%), Positives = 50/79 (63%), Gaps = 4/79 (5%)
Query: 87 IKTYCTRMQEENIHRAIVVVQAGMSPSAKQSLVDMA---PKYILEQFLESELLINITEHE 143
+K Y +++ N+ RAI+VVQ + ++Q+LV + P + +E F E EL++N+ EH
Sbjct: 1 MKKYIDQLKSANVFRAILVVQ-DIKAFSRQALVFLGAVYPIFHIEVFQEKELIVNVKEHV 59
Query: 144 LVPEHIVLTPDEKQELLAR 162
VPEH LT +EKQ+ L R
Sbjct: 60 FVPEHQALTTEEKQKFLER 78
>At1g48850.1 68414.m05469 chorismate synthase, putative /
5-enolpyruvylshikimate-3-phosphate phospholyase,
putative similar to chorismate synthase from
Lycopersicon esculentum [SP|Q42884], Corydalis
sempervirens [SP|P27793]; contains Pfam chorismate
synthase domain PF01264
Length = 436
Score = 29.5 bits (63), Expect = 1.1
Identities = 18/51 (35%), Positives = 32/51 (62%), Gaps = 6/51 (11%)
Query: 106 VQAGMSPSAKQSLVDMAP----KYILEQFLESELLINITE--HELVPEHIV 150
VQ G SA++++ +AP K IL+QF +E+L +++ H ++PE +V
Sbjct: 169 VQGGGRSSARETIGRVAPGALAKKILKQFAGTEILAYVSQVHHVVLPEELV 219
>At1g35160.1 68414.m04360 14-3-3 protein GF14 phi (GRF4) identical
to GF14 protein phi chain GI:1493805, SP:P46077 from
[Arabidopsis thaliana]
Length = 267
Score = 29.5 bits (63), Expect = 1.1
Identities = 14/36 (38%), Positives = 21/36 (58%)
Query: 17 VMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKR 52
+MQL D L T D D++ E+ KE KP+E++
Sbjct: 229 IMQLLRDNLTLWTSDMQDESPEEIKEAAAPKPAEEQ 264
>At5g50640.1 68418.m06274 CBS domain-containing protein /
octicosapeptide/Phox/Bemp1 (PB1) domain-containing
protein contains Pfam profiles: PF00571 CBS domain,
PF00564: PB1 domain
Length = 548
Score = 28.3 bits (60), Expect = 2.6
Identities = 13/41 (31%), Positives = 23/41 (56%)
Query: 82 IGIKTIKTYCTRMQEENIHRAIVVVQAGMSPSAKQSLVDMA 122
+GI T K R+ +N+ + V+ M+P+ + + VDMA
Sbjct: 273 VGILTSKDILMRVISQNLPQETTTVEKVMTPNPESATVDMA 313
>At5g50530.1 68418.m06258 CBS domain-containing protein /
octicosapeptide/Phox/Bemp1 (PB1) domain-containing
protein contains Pfam profiles: PF00571 CBS domain,
PF00564: PB1 domain
Length = 548
Score = 28.3 bits (60), Expect = 2.6
Identities = 13/41 (31%), Positives = 23/41 (56%)
Query: 82 IGIKTIKTYCTRMQEENIHRAIVVVQAGMSPSAKQSLVDMA 122
+GI T K R+ +N+ + V+ M+P+ + + VDMA
Sbjct: 273 VGILTSKDILMRVISQNLPQETTTVEKVMTPNPESATVDMA 313
>At2g16820.1 68415.m01928 hypothetical protein
Length = 201
Score = 27.9 bits (59), Expect = 3.5
Identities = 26/89 (29%), Positives = 41/89 (46%), Gaps = 9/89 (10%)
Query: 77 PDEAKIGIKTIKTYCTRMQEENIHRAIVVVQAGMSPSAKQSLVDMAPKYILEQFLE--SE 134
P E K +KTIK RM+ + +V M L P +L ++ ++
Sbjct: 67 PGEIKTTLKTIKQM--RMKRRGTTK---MVMGMMIIRVTMDLWGEVPSILLLMVVKVVAK 121
Query: 135 LLINITEHEL--VPEHIVLTPDEKQELLA 161
++I EH + V E+++LTP E LLA
Sbjct: 122 IMITTKEHGIGNVEENVILTPGEFSPLLA 150
>At1g78300.1 68414.m09125 14-3-3 protein GF14 omega (GRF2) identical
to GF14omega isoform GI:487791 from [Arabidopsis
thaliana]
Length = 259
Score = 27.9 bits (59), Expect = 3.5
Identities = 13/36 (36%), Positives = 19/36 (52%)
Query: 17 VMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKR 52
+MQL D L T D D ++ KE KP+E++
Sbjct: 223 IMQLLRDNLTLWTSDMQDDAADEIKEAAAPKPTEEQ 258
>At3g49500.1 68416.m05410 RNA-dependent RNA polymerase (SDE1)
identical to RNA-dependent RNA polymerase [Arabidopsis
thaliana] gi|8248473|gb|AAF74208
Length = 1196
Score = 27.5 bits (58), Expect = 4.6
Identities = 14/54 (25%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 70 DQMFVFFPDEAKIGIKTIKTYCTRMQEENIHRAIVVVQAGMSPSAKQSLVDMAP 123
D+ FF ++ K + IKT+ + +++N+ A + G+ S+ + VD+ P
Sbjct: 516 DRSAWFFAEDGKTRVSDIKTWMGKFKDKNV--AKCAARMGLCFSSTYATVDVMP 567
>At1g20440.1 68414.m02547 dehydrin (COR47) identical to dehydrin
COR47 (Cold-induced COR47 protein) [Arabidopsis
thaliana] SWISS-PROT:P31168
Length = 265
Score = 26.6 bits (56), Expect = 8.1
Identities = 19/63 (30%), Positives = 34/63 (53%), Gaps = 4/63 (6%)
Query: 30 QDELDQTLEQFKEQFG---DKPSEKRPA-RSDLIVLVAHNDDPTDQMFVFFPDEAKIGIK 85
++E +E+ KE+ D+ +E PA S +V+ H +PT ++ V P+E K ++
Sbjct: 180 EEEKKGLVEKIKEKLPGHHDEKAEDSPAVTSTPLVVTEHPVEPTTELPVEHPEEKKGILE 239
Query: 86 TIK 88
IK
Sbjct: 240 KIK 242
Database: arabidopsis
Posted date: Oct 3, 2007 3:31 PM
Number of letters in database: 12,070,560
Number of sequences in database: 28,952
Lambda K H
0.319 0.135 0.386
Gapped
Lambda K H
0.279 0.0580 0.190
Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 3,871,348
Number of Sequences: 28952
Number of extensions: 151652
Number of successful extensions: 470
Number of sequences better than 10.0: 14
Number of HSP's better than 10.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 453
Number of HSP's gapped (non-prelim): 14
length of query: 162
length of database: 12,070,560
effective HSP length: 76
effective length of query: 86
effective length of database: 9,870,208
effective search space: 848837888
effective search space used: 848837888
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.7 bits)
S2: 56 (26.6 bits)
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