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.
Query= Dr_sW_009_H20
(868 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|O75586|MED6_HUMAN RNA polymerase transcriptional regulat... 134 3e-31
sp|Q5RD94|MED6_PONPY RNA polymerase transcriptional regulat... 134 3e-31
sp|Q9US45|PMC5_SCHPO RNA polymerase II mediator complex pro... 79 1e-14
sp|P38782|MED6_YEAST RNA polymerase II mediator complex pro... 70 6e-12
sp|Q16665|HIF1A_HUMAN Hypoxia-inducible factor 1 alpha (HIF... 33 1.0
sp|P25558|BUD3_YEAST Bud site selection protein BUD3 32 3.0
sp|P14068|XPO1_SCHPO Exportin-1 (Chromosome region maintena... 31 3.9
sp|P57235|SYGB_BUCAI Glycyl-tRNA synthetase beta chain (Gly... 31 5.1
sp|P54891|RRPO_ACLSA RNA-directed RNA polymerase (RNA repli... 30 6.6
sp|Q9SB92|WUS_ARATH Protein WUSCHEL (AtWUS) (Plant growth a... 30 8.7
>sp|O75586|MED6_HUMAN RNA polymerase transcriptional regulation mediator, subunit 6
homolog (Activator-recruited cofactor 33 kDa component)
(ARC33) (NY-REN-28 antigen)
Length = 246
Score = 134 bits (337), Expect = 3e-31
Identities = 69/181 (38%), Positives = 108/181 (59%), Gaps = 1/181 (0%)
Frame = +1
Query: 292 LTTKWKNPMWDPNMLNSGNVLNYFCDRSNPFYNHQCNNEKAMMQKFSGD-ITSLQGEEYV 468
L W + W P +LNSG+VL+YF +RSNPFY+ CNNE MQ+ + + + + G EY+
Sbjct: 11 LGISWVDSSWIP-ILNSGSVLDYFSERSNPFYDRTCNNEVVKMQRLTLEHLNQMVGIEYI 69
Query: 469 LFHAQDPILFIICKQRRKSNTQTTPLAYYYIVNGEVMQAPDVASLINARLQTSLYHMNET 648
L HAQ+PILFII KQ+R+S Q PLA YYI+ G + QAPD+ S+IN+R+ T+++ +
Sbjct: 70 LLHAQEPILFIIRKQQRQSPAQVIPLADYYIIAGVIYQAPDLGSVINSRVLTAVHGIQSA 129
Query: 649 FQSLLQQVQHHPSSGTYSWNDESGVKSNKFDSVEEHQRNFGNQFHTTNMTQLMSEWADNY 828
F + ++HPS G Y W+ + + +K + + + F + L+ + +
Sbjct: 130 FDEAMSYCRYHPSKG-YWWHFKDHEEQDKVRPKAKRKEEPSSIFQRQRVDALLLDLRQKF 188
Query: 829 P 831
P
Sbjct: 189 P 189
>sp|Q5RD94|MED6_PONPY RNA polymerase transcriptional regulation mediator, subunit 6
homolog
Length = 246
Score = 134 bits (337), Expect = 3e-31
Identities = 69/181 (38%), Positives = 108/181 (59%), Gaps = 1/181 (0%)
Frame = +1
Query: 292 LTTKWKNPMWDPNMLNSGNVLNYFCDRSNPFYNHQCNNEKAMMQKFSGD-ITSLQGEEYV 468
L W + W P +LNSG+VL+YF +RSNPFY+ CNNE MQ+ + + + + G EY+
Sbjct: 11 LGISWVDSSWIP-ILNSGSVLDYFSERSNPFYDRTCNNEVVKMQRLTLEHLNQMVGIEYI 69
Query: 469 LFHAQDPILFIICKQRRKSNTQTTPLAYYYIVNGEVMQAPDVASLINARLQTSLYHMNET 648
L HAQ+PILFII KQ+R+S Q PLA YYI+ G + QAPD+ S+IN+R+ T+++ +
Sbjct: 70 LLHAQEPILFIIRKQQRQSPAQVIPLADYYIIAGVIYQAPDLGSVINSRVLTAVHGIQSA 129
Query: 649 FQSLLQQVQHHPSSGTYSWNDESGVKSNKFDSVEEHQRNFGNQFHTTNMTQLMSEWADNY 828
F + ++HPS G Y W+ + + +K + + + F + L+ + +
Sbjct: 130 FDEAMSYCRYHPSKG-YWWHFKEHEEQDKVRPKAKRKEEPSSIFQRQRVDALLLDLRQKF 188
Query: 829 P 831
P
Sbjct: 189 P 189
>sp|Q9US45|PMC5_SCHPO RNA polymerase II mediator complex protein pmc5 (RNA polymerase II
mediator complex protein med6) (RNA polymerase II
transcriptional regulation mediator 6)
Length = 216
Score = 79.3 bits (194), Expect = 1e-14
Identities = 45/142 (31%), Positives = 76/142 (53%), Gaps = 11/142 (7%)
Frame = +1
Query: 301 KWKNPMWDPNM--LNSGNVLNYFCDRSNPFYNHQCNNEKAMMQ-KFS----GDITS---- 447
+W+ P W +M L + NVL YF +PFY+H+ NNE MQ +F+ GD+ S
Sbjct: 15 QWRMPEWVQSMGGLRTENVLEYFSQ--SPFYSHKSNNEMLKMQSQFNALDLGDLNSQLKR 72
Query: 448 LQGEEYVLFHAQDPILFIICKQRRKSNTQTTPLAYYYIVNGEVMQAPDVASLINARLQTS 627
L G ++V+ H + P L++I KQ R + + PL Y++ N + AP+ +L+ R+ +
Sbjct: 73 LTGIQFVIIHERPPFLWVIQKQNRLNENEVKPLTVYFVCNENIYMAPNAYTLLATRMLNA 132
Query: 628 LYHMNETFQSLLQQVQHHPSSG 693
Y + + + Q++P G
Sbjct: 133 TYCFQKALTKIEKFPQYNPQEG 154
>sp|P38782|MED6_YEAST RNA polymerase II mediator complex protein MED6 (RNA polymerase II
transcriptional regulation mediator 6)
Length = 295
Score = 70.5 bits (171), Expect = 6e-12
Identities = 47/194 (24%), Positives = 80/194 (41%), Gaps = 61/194 (31%)
Frame = +1
Query: 301 KWKNPMWDPNM-LNSGNVLNYFCDRSNPFYNHQCNNEKAMMQ------------------ 423
+WK+P W L + NVL+YF + +PF++ NN+ MQ
Sbjct: 10 QWKSPEWIQVFGLRTENVLDYFAE--SPFFDKTSNNQVIKMQRQFSQLNDPNAAVNMTQN 67
Query: 424 ----------------------------------KFSGDITSLQGEEYVLFHAQDPILFI 501
+ ++ L G EYVL ++P ++
Sbjct: 68 IMTLPDGKNGNLEEEFAYVDPARRQILFKYPMYMQLEEELMKLDGTEYVLSSVREPDFWV 127
Query: 502 ICKQRRKSNT--------QTTPLAYYYIVNGEVMQAPDVASLINARLQTSLYHMNETFQS 657
I KQRR +N+ + PL YYI+ + Q+P + ++ +RL ++ YH+N T +S
Sbjct: 128 IRKQRRTNNSGVGSAKGPEIIPLQDYYIIGANIYQSPTIFKIVQSRLMSTSYHLNSTLES 187
Query: 658 LLQQVQHHPSSGTY 699
L ++ PS G +
Sbjct: 188 LYDLIEFQPSQGVH 201
>sp|Q16665|HIF1A_HUMAN Hypoxia-inducible factor 1 alpha (HIF-1 alpha) (HIF1 alpha) (ARNT
interacting protein) (Member of PAS protein 1) (MOP1)
Length = 826
Score = 33.1 bits (74), Expect = 1.0
Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 5/61 (8%)
Frame = +1
Query: 586 PDVASLINARLQTSLYHMNETFQS-----LLQQVQHHPSSGTYSWNDESGVKSNKFDSVE 750
P + +L NA+ + + H FQ+ LLQQ H ++ + SW G KS++ + +E
Sbjct: 708 PKILALQNAQRKRKMEHDGSLFQAVGIGTLLQQPDDHAATTSLSWKRVKGCKSSEQNGME 767
Query: 751 E 753
+
Sbjct: 768 Q 768
>sp|P25558|BUD3_YEAST Bud site selection protein BUD3
Length = 1636
Score = 31.6 bits (70), Expect = 3.0
Identities = 23/100 (23%), Positives = 48/100 (48%), Gaps = 6/100 (6%)
Frame = +1
Query: 490 ILFIICKQRRKSNTQTTPLAYYYIVNGEVMQAPDVASLINARLQTSLYHMNETFQSLLQQ 669
IL ++ K K T+ + I+N ++ P S +N+ + L +NE +L++
Sbjct: 683 ILDVLTKHDDKHIEVTSDNIVFTIINQLAIEIPICFSSLNSSMAKDLLCVNE---NLIKN 739
Query: 670 VQH------HPSSGTYSWNDESGVKSNKFDSVEEHQRNFG 771
++H HPS+ + + ++ FD+ E +R++G
Sbjct: 740 LEHQLEEVKHPSTDEHRAVNSKLSGASDFDATHEKKRSYG 779
>sp|P14068|XPO1_SCHPO Exportin-1 (Chromosome region maintenance protein 1) (Caffeine
resistance protein 2)
Length = 1078
Score = 31.2 bits (69), Expect = 3.9
Identities = 12/42 (28%), Positives = 25/42 (59%)
Frame = +1
Query: 721 VKSNKFDSVEEHQRNFGNQFHTTNMTQLMSEWADNYPCYLPQ 846
+K++ ++V + Q+ F N+ T + L EW N+P ++P+
Sbjct: 99 IKNSSDETVLQQQKTFLNKLDLTLVQILKQEWPHNWPNFIPE 140
>sp|P57235|SYGB_BUCAI Glycyl-tRNA synthetase beta chain (Glycine--tRNA ligase beta chain)
(GlyRS)
Length = 690
Score = 30.8 bits (68), Expect = 5.1
Identities = 22/58 (37%), Positives = 29/58 (50%), Gaps = 4/58 (6%)
Frame = +3
Query: 174 FTHKFTQF-KKSIDKTIEKSD*KFSL---NILFLDYLIFIANVFNNKMEKSDVGSQYV 335
F KF Q KK + TIEK F + L Y IFI+N+ + EK +G+Q V
Sbjct: 265 FQEKFLQIPKKILINTIEKKQKCFPIYNSEKKLLPYFIFISNIQTQESEKIIIGNQRV 322
>sp|P54891|RRPO_ACLSA RNA-directed RNA polymerase (RNA replicase) (216.5 kDa protein)
(ORF1)
Length = 1885
Score = 30.4 bits (67), Expect = 6.6
Identities = 11/28 (39%), Positives = 18/28 (64%)
Frame = +3
Query: 273 IFIANVFNNKMEKSDVGSQYVEFWKCFK 356
+F+ F +++EK+ VGS FW+C K
Sbjct: 344 VFMVQEFASRVEKNGVGSWSCSFWECMK 371
>sp|Q9SB92|WUS_ARATH Protein WUSCHEL (AtWUS) (Plant growth activator 6)
Length = 292
Score = 30.0 bits (66), Expect = 8.7
Identities = 28/102 (27%), Positives = 44/102 (43%), Gaps = 2/102 (1%)
Frame = +1
Query: 523 SNTQTTPLAYYYIVNGEVMQAPDVASLINARLQTS--LYHMNETFQSLLQQVQHHPSSGT 696
+N PL +++ +G MQ P A+ +N +L LYH N+ + S +H SSGT
Sbjct: 120 ANDHYHPLLHHH--HGVPMQRP--ANSVNVKLNQDHHLYHHNKPYPSFNNGNLNHASSGT 175
Query: 697 YSWNDESGVKSNKFDSVEEHQRNFGNQFHTTNMTQLMSEWAD 822
E GV + + H Q + N + WA+
Sbjct: 176 -----ECGVVNASNGYMSSHVYGSMEQDCSMNYNNVGGGWAN 212
Database: Non-redundant SwissProt sequences
Posted date: Dec 6, 2005 7:40 AM
Number of letters in database: 68,354,980
Number of sequences in database: 184,735
Database: swissprot.01
Posted date: Dec 6, 2005 8:18 AM
Number of letters in database: 66,202,850
Number of sequences in database: 184,431
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 94,550,419
Number of Sequences: 369166
Number of extensions: 1829329
Number of successful extensions: 4360
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 4213
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 4355
length of database: 68,354,980
effective HSP length: 110
effective length of database: 48,034,130
effective search space used: 8550075140
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)