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_022_A05
(543 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... 81 1e-15
sp|Q5RD94|MED6_PONPY RNA polymerase transcriptional regulat... 81 1e-15
sp|Q9US45|PMC5_SCHPO RNA polymerase II mediator complex pro... 53 4e-07
sp|P57235|SYGB_BUCAI Glycyl-tRNA synthetase beta chain (Gly... 31 2.2
sp|P54891|RRPO_ACLSA RNA-directed RNA polymerase (RNA repli... 30 2.9
sp|P38782|MED6_YEAST RNA polymerase II mediator complex pro... 30 2.9
>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 = 81.3 bits (199), Expect = 1e-15
Identities = 40/77 (51%), Positives = 54/77 (70%), Gaps = 1/77 (1%)
Frame = +2
Query: 272 LTTKWKNPMWDPNMLNSGNVLNYFCDRSNPFYNHQCNNEKAMMQKFSGD-ITSLQGEEYV 448
L W + W P +LNSG+VL+YF +RSNPFY+ CNNE MQ+ + + + + G EY+
Sbjct: 11 LGISWVDSSWIP-ILNSGSVLDYFSERSNPFYDRTCNNEVVKMQRLTLEHLNQMVGIEYI 69
Query: 449 LFHAQDPILFIICKQRR 499
L HAQ+PILFII KQ+R
Sbjct: 70 LLHAQEPILFIIRKQQR 86
>sp|Q5RD94|MED6_PONPY RNA polymerase transcriptional regulation mediator, subunit 6
homolog
Length = 246
Score = 81.3 bits (199), Expect = 1e-15
Identities = 40/77 (51%), Positives = 54/77 (70%), Gaps = 1/77 (1%)
Frame = +2
Query: 272 LTTKWKNPMWDPNMLNSGNVLNYFCDRSNPFYNHQCNNEKAMMQKFSGD-ITSLQGEEYV 448
L W + W P +LNSG+VL+YF +RSNPFY+ CNNE MQ+ + + + + G EY+
Sbjct: 11 LGISWVDSSWIP-ILNSGSVLDYFSERSNPFYDRTCNNEVVKMQRLTLEHLNQMVGIEYI 69
Query: 449 LFHAQDPILFIICKQRR 499
L HAQ+PILFII KQ+R
Sbjct: 70 LLHAQEPILFIIRKQQR 86
>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 = 53.1 bits (126), Expect = 4e-07
Identities = 33/84 (39%), Positives = 49/84 (58%), Gaps = 11/84 (13%)
Frame = +2
Query: 281 KWKNPMWDPNM--LNSGNVLNYFCDRSNPFYNHQCNNEKAMMQ-KFS----GDITS---- 427
+W+ P W +M L + NVL YF +PFY+H+ NNE MQ +F+ GD+ S
Sbjct: 15 QWRMPEWVQSMGGLRTENVLEYFSQ--SPFYSHKSNNEMLKMQSQFNALDLGDLNSQLKR 72
Query: 428 LQGEEYVLFHAQDPILFIICKQRR 499
L G ++V+ H + P L++I KQ R
Sbjct: 73 LTGIQFVIIHERPPFLWVIQKQNR 96
>sp|P57235|SYGB_BUCAI Glycyl-tRNA synthetase beta chain (Glycine--tRNA ligase beta chain)
(GlyRS)
Length = 690
Score = 30.8 bits (68), Expect = 2.2
Identities = 22/58 (37%), Positives = 29/58 (50%), Gaps = 4/58 (6%)
Frame = +1
Query: 154 FTHKFTQF-KKSIDKTIEKSD*KFSL---NILFLDYLIFIANVFNNKMEKSDVGSQYV 315
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 = 2.9
Identities = 11/28 (39%), Positives = 18/28 (64%)
Frame = +1
Query: 253 IFIANVFNNKMEKSDVGSQYVEFWKCFK 336
+F+ F +++EK+ VGS FW+C K
Sbjct: 344 VFMVQEFASRVEKNGVGSWSCSFWECMK 371
>sp|P38782|MED6_YEAST RNA polymerase II mediator complex protein MED6 (RNA polymerase II
transcriptional regulation mediator 6)
Length = 295
Score = 30.4 bits (67), Expect = 2.9
Identities = 28/126 (22%), Positives = 44/126 (34%), Gaps = 53/126 (42%)
Frame = +2
Query: 281 KWKNPMWDPNM-LNSGNVLNYFCDRSNPFYNHQCNNEKAMMQ------------------ 403
+WK+P W L + NVL+YF + +PF++ NN+ MQ
Sbjct: 10 QWKSPEWIQVFGLRTENVLDYFAE--SPFFDKTSNNQVIKMQRQFSQLNDPNAAVNMTQN 67
Query: 404 ----------------------------------KFSGDITSLQGEEYVLFHAQDPILFI 481
+ ++ L G EYVL ++P ++
Sbjct: 68 IMTLPDGKNGNLEEEFAYVDPARRQILFKYPMYMQLEEELMKLDGTEYVLSSVREPDFWV 127
Query: 482 ICKQRR 499
I KQRR
Sbjct: 128 IRKQRR 133
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: 55,307,295
Number of Sequences: 369166
Number of extensions: 962422
Number of successful extensions: 2205
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 2166
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): 2203
length of database: 68,354,980
effective HSP length: 104
effective length of database: 49,142,540
effective search space used: 3734833040
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)