BLASTP 2.2.26 [Sep-21-2011]
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 006207
(657 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|F4K460|MED17_ARATH Mediator of RNA polymerase II transcription subunit 17
OS=Arabidopsis thaliana GN=MED17 PE=1 SV=1
Length = 653
Score = 757 bits (1955), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 393/662 (59%), Positives = 497/662 (75%), Gaps = 23/662 (3%)
Query: 1 MNGNLEISVDKLPVKRLDAIEETGAERFPPDVGYDEKRESLIRRIDFAWAVEKDDNKRLK 60
M+ ++EIS+D+LP+KRL++IEE GAERFP DV YD+KR SLIRRIDFAWA+E+ LK
Sbjct: 1 MDSDMEISLDRLPIKRLESIEENGAERFPSDVDYDDKRVSLIRRIDFAWALEE--EDELK 58
Query: 61 KSSKESSSSATTTPWQWQNMVENLQFAHQELSVIIDLINTVEANDAVTVAGMTRPKALPN 120
K ++ SS + W+W+ MVENLQ AHQEL+VIIDLI+TV+ANDAVTVAGMTRPK +PN
Sbjct: 59 KKKQKKSSKDSVEQWKWKGMVENLQLAHQELTVIIDLIDTVQANDAVTVAGMTRPKPMPN 118
Query: 121 EVLSDLSVSAATKLQCYRHLGIYFKQSAKSLEQQIAKEARFYGALIRLQQNWKVKRQRVA 180
E+LSDL+VS ATKLQ YR+LG YFKQSAK+LEQ+I +EARFYGALIRLQ+NWKVKRQR+
Sbjct: 119 EILSDLAVSTATKLQGYRNLGNYFKQSAKALEQKINREARFYGALIRLQRNWKVKRQRML 178
Query: 181 APASGNEGFTIDLFDNSLYDSAPVSRPSSLSTIRIDHDSAGMLAINLPPNSCRSFRFGFL 240
A + NEGFTIDL D+SLYD RPS+LSTIR+DHDSAGMLAIN+P +S S RFG++
Sbjct: 179 ASNASNEGFTIDLSDSSLYDPTSGFRPSTLSTIRVDHDSAGMLAINVPQDSWYSLRFGYV 238
Query: 241 GVQSGDSSKQCSKVKNSCSPR--PSKEAKESVNDDECVREKHSLLREVHQAIFYEQVFDI 298
G+ +S + + +S + P K S +DD+ V+E HSLLREVH++IF EQ+FD+
Sbjct: 239 GLNPIGNSNESDEHIDSTTGHDIPGTSEKLSASDDKYVKETHSLLREVHKSIFAEQLFDM 298
Query: 299 VNREAFKQSLGVNVTGIRENYLQLGIGLGISIFLSLIPSNQGDLSVDSWVNQNVESGILP 358
+NREAF + +G N++G+REN++++ IG G S+F+SL PS + S ES L
Sbjct: 299 LNREAFNEGVGFNISGLRENFMEMSIGQGASLFVSLHPSGKNPSIKKS------ESATLL 352
Query: 359 LDSHDGVKLAEEKDDILRKSGGYPNPLTYEIYLQQVFHEYLYGRAKNKPISTGTRVSGPP 418
++S V+ AE D L+K G+PN +YEIYLQQ+FHE+ +G+AK++ S R S
Sbjct: 353 IESSGRVEPAEGGDYRLKKL-GFPNRTSYEIYLQQIFHEHAFGKAKDQLKSKSIRASNQT 411
Query: 419 TKD-GSGLLGHFCLSLAHRIFSNKVHVELENAVCGVPYLHLVSHPTWHSRTSSWTVFLKV 477
KD SGLL HFCLSL HRIFSN+V V LE+ VC VPYLHL+SHPTW+SRTSSWTVF+ V
Sbjct: 412 EKDSNSGLLDHFCLSLTHRIFSNRVLVHLESVVCKVPYLHLISHPTWNSRTSSWTVFMTV 471
Query: 478 PQSIL---HAESNSRTAE-TAKSHFRTNVVVNDDCIHVEGEGTPNVVGLFKGRSEDMSSM 533
P SI+ +E+ S + K+ FRT VVV DDCI VE E TPNVVGL K S ++ S+
Sbjct: 472 PPSIIPQGRSETQSPDGKRNLKTQFRTKVVVKDDCISVEAECTPNVVGLLKSSSCNLFSI 531
Query: 534 NKYDCDLADLPVIILQQVASQVIRWLHEEALMVGIKANRDFLSLSFELDQGETVSLVAHV 593
NKY+CD+ADLPV+ILQQVASQ++ WL EEA VG KA+R+FLSLS E+ +GE VSLVAHV
Sbjct: 532 NKYECDVADLPVMILQQVASQIVCWLLEEARTVGTKASREFLSLSLEIVEGERVSLVAHV 591
Query: 594 DPEDMRGCISWWLVMEDGFAAERKLSIDISDDASDYKKFLGHLSLDVLYSTLMDLVSLCG 653
+PED +GCISWWLVME+G ER + S+ +K LGHLSLDVLYS LMDL++LCG
Sbjct: 592 NPEDAKGCISWWLVMENGCTEER-------EGVSESRKLLGHLSLDVLYSVLMDLINLCG 644
Query: 654 GG 655
G
Sbjct: 645 TG 646
>sp|Q08BY1|MED17_DANRE Mediator of RNA polymerase II transcription subunit 17 OS=Danio
rerio GN=med17 PE=2 SV=1
Length = 643
Score = 39.7 bits (91), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 36/186 (19%), Positives = 83/186 (44%), Gaps = 14/186 (7%)
Query: 5 LEISVDKLPVKRLDAIEETGAERFPPDVGYDEKRESLIRRIDFAWAVEKDDN-------- 56
+ +S++ +++ + G E + P + + L++RIDF + + +++
Sbjct: 7 VRVSIESSCERQVQEVSLDGMETYVPPLSMSQNLAKLVQRIDFCQSSDSEEDGAERARAG 66
Query: 57 -KRLKKSSKESSSSATTTP--WQWQNMVENLQFAHQELSVIIDLINTVEANDAVTVAGMT 113
++ K+ +E P W W ++ NL+ A E+ V+ D+++ ++ +T+ ++
Sbjct: 67 REQWKQEPEEDEGQLKFQPSLWPWDSVRNNLRSALTEMCVLHDVLSVLKERKYMTLDPVS 126
Query: 114 RPKALPN--EVLSDLSVSAATKLQCYRHLGIYFKQSAKSLEQQIAKEAR-FYGALIRLQQ 170
+ A+ +V +S + L K S E Q + R F L+RL+
Sbjct: 127 QDPAMAKTPQVFQLISKKKSLGTAAQLLLKGAEKLSKSVSENQEQRRQRDFNSELLRLRS 186
Query: 171 NWKVKR 176
WK+++
Sbjct: 187 QWKLRK 192
>sp|Q8ZZX6|AUBA_PYRAE RNA-binding protein AU-1 OS=Pyrobaculum aerophilum (strain ATCC
51768 / IM2 / DSM 7523 / JCM 9630 / NBRC 100827) GN=aubA
PE=3 SV=1
Length = 443
Score = 39.3 bits (90), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 34/102 (33%), Positives = 49/102 (48%), Gaps = 7/102 (6%)
Query: 118 LPNEVLSDLSVSAATKLQCYRHLGIYFKQSAKSL-EQQIAKEAR-FYGALIRLQQNWKVK 175
+P E L + A T+L+ Y +G+ FK SAK E+QI KEA Y L++L
Sbjct: 166 IPQEDRLRLGILAETRLKQYASIGLRFKSSAKYADEEQIIKEAEVLYRELLQLSHGGPPG 225
Query: 176 RQRVAAPASGNEGFTIDLFDNSLYDSAPVSRPSSLSTIRIDH 217
A GN F + LFD + +R S++ T+R H
Sbjct: 226 ----AVLRRGN-CFAVVLFDRRSKEVLDSARASAVPTVRGHH 262
>sp|Q1DLD2|MED17_COCIM Mediator of RNA polymerase II transcription subunit 17
OS=Coccidioides immitis (strain RS) GN=SRB4 PE=3 SV=1
Length = 691
Score = 36.6 bits (83), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 57/215 (26%), Positives = 94/215 (43%), Gaps = 38/215 (17%)
Query: 127 SVSAATKLQCYRHLGIYFKQSAKSLEQQIAKEARFYGALIRLQQN-WKVKRQRVAAPASG 185
+VS KL+ + QSA+ LE+ IA E +++ ++++++ WKV R G
Sbjct: 152 AVSRGWKLESFDAAANKLLQSAQRLEEDIAAETKYWSEVLKIKEKGWKVCRLPQERQTLG 211
Query: 186 -NEGFTIDLFDNSLYDSAPVSRPSSLSTIRIDHDSAGML----AINLPPNSCRSFRFGFL 240
+ GF +S R L+ +R AG L I L P RF +
Sbjct: 212 VHFGF---------LESTQNFRDRGLAALR--KGEAGRLILDRGIQLKPP-----RFVRV 255
Query: 241 GVQSGDSSKQCSKVKNSCSPRPSKEAKESVNDDECVREKHSLLREVHQAIFYEQVFDIVN 300
VQ GD + + P SK+ DD+C+ + +RE +++ E++F +N
Sbjct: 256 RVQRGDQTLGLT------IPAISKQL-----DDQCLDGR---IREARDSLYEEELFYELN 301
Query: 301 REAFKQSLGVNVTGIRENYLQLGIGLGISIFLSLI 335
REA + L V IR + L+ IF+ L+
Sbjct: 302 REA-RVLLQYGVE-IRRDLLKFPADDNKHIFVDLV 334
>sp|Q0KF69|HSLU_CUPNH ATP-dependent protease ATPase subunit HslU OS=Cupriavidus necator
(strain ATCC 17699 / H16 / DSM 428 / Stanier 337)
GN=hslU PE=3 SV=1
Length = 443
Score = 36.2 bits (82), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 33/127 (25%), Positives = 60/127 (47%), Gaps = 11/127 (8%)
Query: 219 SAGMLAINL--PP---NSCRSFRFGFLGVQSGDSSKQCSKVKNSCSPRPSKEAKESVNDD 273
SAGM ++++ PP + R F G+ G +++ KVK + +EA + VND+
Sbjct: 178 SAGMPSMDIMGPPGMEDMTEQIRTMFAGLGQGKKARRKMKVKEAFKLLIDEEAAKLVNDE 237
Query: 274 ECVREKHSLLREVHQ--AIFYEQVFDIVNREAFKQSLGVNVTGIRENYLQLGIGLGISIF 331
E KH + V Q +F +++ I +R V+ G++ + L L G +S
Sbjct: 238 EL---KHKAIANVEQNGIVFLDEIDKIASRSEIGGG-EVSRQGVQRDLLPLVEGTTVSTK 293
Query: 332 LSLIPSN 338
+I ++
Sbjct: 294 YGMIKTD 300
>sp|Q476Y3|HSLU_CUPPJ ATP-dependent protease ATPase subunit HslU OS=Cupriavidus
pinatubonensis (strain JMP134 / LMG 1197) GN=hslU PE=3
SV=1
Length = 443
Score = 34.7 bits (78), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 60/130 (46%), Gaps = 17/130 (13%)
Query: 219 SAGMLAINL--PP---NSCRSFRFGFLGVQSGDSSKQCSKVKNSCSPRPSKEAKESVNDD 273
+AG+ ++++ PP R F G+ G ++ KVK + +EA + VND+
Sbjct: 178 AAGLPSMDIMGPPGMEEMTEQIRSMFAGMGQGKKHRRKMKVKEAFKLLIDEEAAKLVNDE 237
Query: 274 ECVREKHSLLREVHQ--AIFYEQVFDIVNREAFKQSLG---VNVTGIRENYLQLGIGLGI 328
E KH + V Q +F +++ I NR LG V+ G++ + L L G +
Sbjct: 238 EL---KHKAIANVEQNGIVFLDEIDKIANR----SELGGGEVSRQGVQRDLLPLVEGTTV 290
Query: 329 SIFLSLIPSN 338
S +I ++
Sbjct: 291 STKYGMIKTD 300
>sp|B2AGB7|HSLU_CUPTR ATP-dependent protease ATPase subunit HslU OS=Cupriavidus
taiwanensis (strain R1 / LMG 19424) GN=hslU PE=3 SV=1
Length = 443
Score = 34.3 bits (77), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 60/127 (47%), Gaps = 11/127 (8%)
Query: 219 SAGMLAINL--PP---NSCRSFRFGFLGVQSGDSSKQCSKVKNSCSPRPSKEAKESVNDD 273
SAGM ++++ PP + R F G+ G +++ KVK + +EA + VND+
Sbjct: 178 SAGMPSMDIMGPPGMEDMTEQIRTMFAGLGQGKKARRKMKVKEAFKLLIDEEAAKLVNDE 237
Query: 274 ECVREKHSLLREVHQ--AIFYEQVFDIVNREAFKQSLGVNVTGIRENYLQLGIGLGISIF 331
E KH + V Q +F +++ I +R V+ G++ + L L G ++
Sbjct: 238 EL---KHKAIANVEQNGIVFLDEIDKIASRSDIGGG-EVSRQGVQRDLLPLVEGTTVNTK 293
Query: 332 LSLIPSN 338
+I ++
Sbjct: 294 YGMIKTD 300
>sp|Q8VCD5|MED17_MOUSE Mediator of RNA polymerase II transcription subunit 17 OS=Mus
musculus GN=Med17 PE=1 SV=1
Length = 649
Score = 33.9 bits (76), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 23/108 (21%), Positives = 53/108 (49%), Gaps = 8/108 (7%)
Query: 75 WQWQNMVENLQFAHQELSVIIDLINTVEANDAVTVAGMTRPKALPNEVLSDLSVSAATKL 134
W W ++ NL+ A E+ V+ D+++ V +T+ +++ P + S ++ +K
Sbjct: 91 WPWDSVRNNLRSALTEMCVLYDVLSIVRDKKFMTLDPVSQDALPPKQ--SPQTLQLISKK 148
Query: 135 QCYRHLGIYFKQSAKSLEQQIAK------EARFYGALIRLQQNWKVKR 176
+ + A+ L + +A+ + F L+RL+Q+WK+++
Sbjct: 149 KSLAGAAQILLKGAERLTKSVAENQENKLQRDFNSELLRLRQHWKLRK 196
>sp|A1RQK4|AUBA_PYRIL RNA-binding protein AU-1 OS=Pyrobaculum islandicum (strain DSM 4184
/ JCM 9189) GN=aubA PE=3 SV=1
Length = 448
Score = 33.1 bits (74), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 48/102 (47%), Gaps = 15/102 (14%)
Query: 126 LSVSAATKLQCYRHLGIYFKQSAK-SLEQQIAKEA-RFYGALIRLQQNWK----VKRQRV 179
L + A TKL+ Y +G+ FK SAK + E ++AKEA Y ++++ Q ++R +
Sbjct: 174 LRILAETKLKNYASIGLRFKSSAKYASEDELAKEAEELYKEMLKISQGGPPGTLLRRGKC 233
Query: 180 AAPASGNEGFTIDLFDNSLYDSAPVSRPSSLSTIRIDHDSAG 221
A + LFD +R + + TIR H G
Sbjct: 234 IA---------VVLFDRQAKFKLDEARAAVVPTIRGHHALRG 266
>sp|Q9Z2P6|SNP29_RAT Synaptosomal-associated protein 29 OS=Rattus norvegicus GN=Snap29
PE=1 SV=1
Length = 257
Score = 33.1 bits (74), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 42/104 (40%), Gaps = 6/104 (5%)
Query: 230 NSCRSFRFGFLGVQSGDSSKQCSKVKNSCSPRPSKEAKESVNDDECVREK----HSLLRE 285
NS +S GF+ + + S P+PS KE++N + K H LR
Sbjct: 110 NSIKSVFGGFINYFKSKPVEPPPEQNGSIVPQPSSRLKEAINTSKDQESKYQASHPNLRR 169
Query: 286 VHQAIFYEQVFDIVNREAFKQ--SLGVNVTGIRENYLQLGIGLG 327
+H A VN E + + SL I N +L +GLG
Sbjct: 170 LHDAELDSVPASTVNTEVYPKNSSLRAYHQKIDSNLDELSVGLG 213
>sp|Q9NVC6|MED17_HUMAN Mediator of RNA polymerase II transcription subunit 17 OS=Homo
sapiens GN=MED17 PE=1 SV=2
Length = 651
Score = 33.1 bits (74), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 39/202 (19%), Positives = 84/202 (41%), Gaps = 40/202 (19%)
Query: 5 LEISVDKLPVKRLDAIEETGAERFPPDVGYDEKRESLIRRIDFA---------------- 48
+ IS++ K++ + G E + P + + L +RIDF+
Sbjct: 7 VRISIESACEKQVHEVGLDGTETYLPPLSMSQNLARLAQRIDFSQGSGSEEEEAAGTEGD 66
Query: 49 ---W-----AVEKDDNKRLKKSSKESSSSATTTPWQWQNMVENLQFAHQELSVIIDLINT 100
W + ++DD +E + W W ++ NL+ A E+ V+ D+++
Sbjct: 67 AQEWPGAGSSADQDD--------EEGVVKFQPSLWPWDSVRNNLRSALTEMCVLYDVLSI 118
Query: 101 VEANDAVTVAGMTR----PKALPN--EVLSDLSVSAATKLQCYRHLGIYFKQSAKSLEQQ 154
V +T+ +++ PK P +++S A + K ++ E +
Sbjct: 119 VRDKKFMTLDPVSQDALPPKQNPQTLQLISKKKSLAGAAQILLKGAERLTKSVTENQENK 178
Query: 155 IAKEARFYGALIRLQQNWKVKR 176
+ ++ F L+RL+Q+WK+++
Sbjct: 179 LQRD--FNSELLRLRQHWKLRK 198
>sp|Q9VEC1|MED17_DROME Mediator of RNA polymerase II transcription subunit 17
OS=Drosophila melanogaster GN=MED17 PE=1 SV=1
Length = 642
Score = 32.7 bits (73), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 46/195 (23%), Positives = 82/195 (42%), Gaps = 33/195 (16%)
Query: 1 MNGNLEISVDKLPVKRLDAIEETGAERFPPDVGYDEKRESLIRRIDFAWAVEKDDNKRLK 60
M+ ++ ISV+ ++ I G E + P E RIDF+ D K K
Sbjct: 1 MSNSVNISVETTCENQIREIGYDGTELYQPPPTLSESLAKCAARIDFSKTSLDDLKKEEK 60
Query: 61 KSSKESSSSATTTP-----WQWQNMVENLQFAHQELSVIIDLINTV-------------E 102
++ + T W W + L+ A E+ V+ D+I+ E
Sbjct: 61 SAAAAADEDKDATQFQESLWPWDAVRNKLKDALTEICVLSDVISIAKDKRYLVLDPLLEE 120
Query: 103 ANDAVTVAGM-TRPKALPNEVLSDLSVSAATKLQCYRHLGIYFKQSAKSLEQQIAKEARF 161
A+D + + +R KA+ + + +S A +L ++A S EQ+ + F
Sbjct: 121 ADDTKPIVQVYSRKKAISQA--AQVLLSGAERL-----------RNAHS-EQRNRNVSDF 166
Query: 162 YGALIRLQQNWKVKR 176
+ L+RL+QNW++K+
Sbjct: 167 HIELLRLRQNWRLKK 181
>sp|Q5ZID1|MED17_CHICK Mediator of RNA polymerase II transcription subunit 17 OS=Gallus
gallus GN=MED17 PE=2 SV=1
Length = 643
Score = 32.7 bits (73), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 37/188 (19%), Positives = 84/188 (44%), Gaps = 18/188 (9%)
Query: 5 LEISVDKLPVKRLDAIEETGAERFPPDVGYDEKRESLIRRIDFAWAV--EKDDNKRLKKS 62
+ IS++ K++ + G+E + + + L +RIDF+ E+D+ ++
Sbjct: 7 VRISIESACEKQVQEVGLDGSETYLQPLSMSQNLARLAQRIDFSQGSGSEEDEPGSAGRA 66
Query: 63 SKESSSSA--------TTTPWQWQNMVENLQFAHQELSVIIDLINTVEANDAVTVAGMTR 114
E S + + W W ++ NL+ A E+ V+ D+++ V+ +T+ + +
Sbjct: 67 WAEPSEAEDEEGLVKFQPSLWPWDSVRNNLRSALTEMCVLYDVLSIVKDKKFMTLDPVVQ 126
Query: 115 PKALPNEVLSDLSVSAATKLQCYRHLGIYFKQSAKSLEQQIA------KEARFYGALIRL 168
P + L + +K + + A+ L + +A ++ F L+RL
Sbjct: 127 DPPPPKQDPQFLQL--ISKKKSLAGAAQILLKGAERLSKSVAENQENKRQRDFNSELLRL 184
Query: 169 QQNWKVKR 176
+Q+WK+++
Sbjct: 185 RQHWKLRK 192
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.317 0.133 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 246,524,257
Number of Sequences: 539616
Number of extensions: 10468962
Number of successful extensions: 24844
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 24817
Number of HSP's gapped (non-prelim): 23
length of query: 657
length of database: 191,569,459
effective HSP length: 124
effective length of query: 533
effective length of database: 124,657,075
effective search space: 66442220975
effective search space used: 66442220975
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 65 (29.6 bits)