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= 009013
(546 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 = 625 bits (1611), Expect = e-178, Method: Compositional matrix adjust.
Identities = 321/551 (58%), Positives = 406/551 (73%), Gaps = 21/551 (3%)
Query: 1 MTRPKALPNEVLSDLSVSAATKLQCYRHLGIYFKQSAKSLEQQIAKEARFYGALIRLQQN 60
MTRPK +PNE+LSDL+VS ATKLQ YR+LG YFKQSAK+LEQ+I +EARFYGALIRLQ+N
Sbjct: 110 MTRPKPMPNEILSDLAVSTATKLQGYRNLGNYFKQSAKALEQKINREARFYGALIRLQRN 169
Query: 61 WKVKRQRVAAPASGNEGFTIDLFDNSLYDSAPVSRPSSLSTIRIDHDSAGMLAINLPPNS 120
WKVKRQR+ A + NEGFTIDL D+SLYD RPS+LSTIR+DHDSAGMLAIN+P +S
Sbjct: 170 WKVKRQRMLASNASNEGFTIDLSDSSLYDPTSGFRPSTLSTIRVDHDSAGMLAINVPQDS 229
Query: 121 CRSFRFGFLGVQSGDSSKQCSKVKNSCSPR--PSKEAKESVNDDECVREKHSLLREVHQA 178
S RFG++G+ +S + + +S + P K S +DD+ V+E HSLLREVH++
Sbjct: 230 WYSLRFGYVGLNPIGNSNESDEHIDSTTGHDIPGTSEKLSASDDKYVKETHSLLREVHKS 289
Query: 179 IFYEQVFDIVNREAFKQSLGVNVTGIRENYLQLGIGLGISIFLSLIPSNQGDLSVDSWVN 238
IF EQ+FD++NREAF + +G N++G+REN++++ IG G S+F+SL PS + S
Sbjct: 290 IFAEQLFDMLNREAFNEGVGFNISGLRENFMEMSIGQGASLFVSLHPSGKNPSIKKS--- 346
Query: 239 QNVESGILPLDSHDGVKLAEEKDDILRKSGGYPNPLTYEIYLQQVFHEYLYGRAKNKPIS 298
ES L ++S V+ AE D L+K G+PN +YEIYLQQ+FHE+ +G+AK++ S
Sbjct: 347 ---ESATLLIESSGRVEPAEGGDYRLKKL-GFPNRTSYEIYLQQIFHEHAFGKAKDQLKS 402
Query: 299 TGTRVSGPPTKD-GSGLLGHFCLSLAHRIFSNKVHVELENAVCGVPYLHLVSHPTWHSRT 357
R S KD SGLL HFCLSL HRIFSN+V V LE+ VC VPYLHL+SHPTW+SRT
Sbjct: 403 KSIRASNQTEKDSNSGLLDHFCLSLTHRIFSNRVLVHLESVVCKVPYLHLISHPTWNSRT 462
Query: 358 SSWTVFLKVPQSIL---HAESNSRTAE-TAKSHFRTNVVVNDDCIHVEGEGTPNVVGLFK 413
SSWTVF+ VP SI+ +E+ S + K+ FRT VVV DDCI VE E TPNVVGL K
Sbjct: 463 SSWTVFMTVPPSIIPQGRSETQSPDGKRNLKTQFRTKVVVKDDCISVEAECTPNVVGLLK 522
Query: 414 GRSEDMSSMNKYDCDLADLPVIILQQVASQVIRWLHEEALMVGIKANRDFLSLSFELDQG 473
S ++ S+NKY+CD+ADLPV+ILQQVASQ++ WL EEA VG KA+R+FLSLS E+ +G
Sbjct: 523 SSSCNLFSINKYECDVADLPVMILQQVASQIVCWLLEEARTVGTKASREFLSLSLEIVEG 582
Query: 474 ETVSLVAHVDPEDMRGCISWWLVMEDGFAAERKLSIDISDDASDYKKFLGHLSLDVLYST 533
E VSLVAHV+PED +GCISWWLVME+G ER + S+ +K LGHLSLDVLYS
Sbjct: 583 ERVSLVAHVNPEDAKGCISWWLVMENGCTEER-------EGVSESRKLLGHLSLDVLYSV 635
Query: 534 LMDLVSLCGGG 544
LMDL++LCG G
Sbjct: 636 LMDLINLCGTG 646
>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 = 0.079, Method: Compositional matrix adjust.
Identities = 34/102 (33%), Positives = 50/102 (49%), Gaps = 7/102 (6%)
Query: 7 LPNEVLSDLSVSAATKLQCYRHLGIYFKQSAK-SLEQQIAKEAR-FYGALIRLQQNWKVK 64
+P E L + A T+L+ Y +G+ FK SAK + E+QI KEA Y L++L
Sbjct: 166 IPQEDRLRLGILAETRLKQYASIGLRFKSSAKYADEEQIIKEAEVLYRELLQLSHGGPPG 225
Query: 65 RQRVAAPASGNEGFTIDLFDNSLYDSAPVSRPSSLSTIRIDH 106
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 = 37.0 bits (84), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 57/215 (26%), Positives = 94/215 (43%), Gaps = 38/215 (17%)
Query: 16 SVSAATKLQCYRHLGIYFKQSAKSLEQQIAKEARFYGALIRLQQN-WKVKRQRVAAPASG 74
+VS KL+ + QSA+ LE+ IA E +++ ++++++ WKV R G
Sbjct: 152 AVSRGWKLESFDAAANKLLQSAQRLEEDIAAETKYWSEVLKIKEKGWKVCRLPQERQTLG 211
Query: 75 -NEGFTIDLFDNSLYDSAPVSRPSSLSTIRIDHDSAGML----AINLPPNSCRSFRFGFL 129
+ GF +S R L+ +R AG L I L P RF +
Sbjct: 212 VHFGF---------LESTQNFRDRGLAALR--KGEAGRLILDRGIQLKPP-----RFVRV 255
Query: 130 GVQSGDSSKQCSKVKNSCSPRPSKEAKESVNDDECVREKHSLLREVHQAIFYEQVFDIVN 189
VQ GD + + P SK+ DD+C+ + +RE +++ E++F +N
Sbjct: 256 RVQRGDQTLGLT------IPAISKQL-----DDQCLDGR---IREARDSLYEEELFYELN 301
Query: 190 REAFKQSLGVNVTGIRENYLQLGIGLGISIFLSLI 224
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 = 0.63, Method: Compositional matrix adjust.
Identities = 33/127 (25%), Positives = 60/127 (47%), Gaps = 11/127 (8%)
Query: 108 SAGMLAINL--PP---NSCRSFRFGFLGVQSGDSSKQCSKVKNSCSPRPSKEAKESVNDD 162
SAGM ++++ PP + R F G+ G +++ KVK + +EA + VND+
Sbjct: 178 SAGMPSMDIMGPPGMEDMTEQIRTMFAGLGQGKKARRKMKVKEAFKLLIDEEAAKLVNDE 237
Query: 163 ECVREKHSLLREVHQ--AIFYEQVFDIVNREAFKQSLGVNVTGIRENYLQLGIGLGISIF 220
E KH + V Q +F +++ I +R V+ G++ + L L G +S
Sbjct: 238 EL---KHKAIANVEQNGIVFLDEIDKIASRSEIGGG-EVSRQGVQRDLLPLVEGTTVSTK 293
Query: 221 LSLIPSN 227
+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 = 1.9, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 60/130 (46%), Gaps = 17/130 (13%)
Query: 108 SAGMLAINL--PP---NSCRSFRFGFLGVQSGDSSKQCSKVKNSCSPRPSKEAKESVNDD 162
+AG+ ++++ PP R F G+ G ++ KVK + +EA + VND+
Sbjct: 178 AAGLPSMDIMGPPGMEEMTEQIRSMFAGMGQGKKHRRKMKVKEAFKLLIDEEAAKLVNDE 237
Query: 163 ECVREKHSLLREVHQ--AIFYEQVFDIVNREAFKQSLG---VNVTGIRENYLQLGIGLGI 217
E KH + V Q +F +++ I NR LG V+ G++ + L L G +
Sbjct: 238 EL---KHKAIANVEQNGIVFLDEIDKIANR----SELGGGEVSRQGVQRDLLPLVEGTTV 290
Query: 218 SIFLSLIPSN 227
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 = 34.7 bits (78), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 10/90 (11%)
Query: 108 SAGMLAINL--PP---NSCRSFRFGFLGVQSGDSSKQCSKVKNSCSPRPSKEAKESVNDD 162
SAGM ++++ PP + R F G+ G +++ KVK + +EA + VND+
Sbjct: 178 SAGMPSMDIMGPPGMEDMTEQIRTMFAGLGQGKKARRKMKVKEAFKLLIDEEAAKLVNDE 237
Query: 163 ECVREKHSLLREVHQ--AIFYEQVFDIVNR 190
E KH + V Q +F +++ I +R
Sbjct: 238 EL---KHKAIANVEQNGIVFLDEIDKIASR 264
>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 = 5.3, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 48/102 (47%), Gaps = 15/102 (14%)
Query: 15 LSVSAATKLQCYRHLGIYFKQSAK-SLEQQIAKEA-RFYGALIRLQQNWK----VKRQRV 68
L + A TKL+ Y +G+ FK SAK + E ++AKEA Y ++++ Q ++R +
Sbjct: 174 LRILAETKLKNYASIGLRFKSSAKYASEDELAKEAEELYKEMLKISQGGPPGTLLRRGKC 233
Query: 69 AAPASGNEGFTIDLFDNSLYDSAPVSRPSSLSTIRIDHDSAG 110
A + LFD +R + + TIR H G
Sbjct: 234 IA---------VVLFDRQAKFKLDEARAAVVPTIRGHHALRG 266
>sp|B4SG51|SYP_PELPB Proline--tRNA ligase OS=Pelodictyon phaeoclathratiforme (strain DSM
5477 / BU-1) GN=proS PE=3 SV=1
Length = 481
Score = 33.1 bits (74), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 53/127 (41%), Gaps = 14/127 (11%)
Query: 420 SSMNKYDCDLADLPVIILQQVASQVIRWLHEEALMVGIKANRDFLSLSFELDQGETVSLV 479
SS K+ DLP++I Q + V+RW L + + F +G T
Sbjct: 116 SSYKKWIQSYRDLPILINQW--ANVVRWEMRTRLFL--------RTTEFLWQEGHT---- 161
Query: 480 AHVDPEDMRGCISWWLVMEDGFAAERKLSIDISDDASDYKKFLGHLSLDVLYSTLMDLVS 539
AH +PE+ + + + + FA E I +D +KF G + + + + D +
Sbjct: 162 AHANPEESQEEVLRMINVYKTFAEEYMAMPVIMGKKTDNEKFAGAVDTWCIEAMMQDSKA 221
Query: 540 LCGGGSH 546
L G SH
Sbjct: 222 LQAGTSH 228
>sp|Q9Z2P6|SNP29_RAT Synaptosomal-associated protein 29 OS=Rattus norvegicus GN=Snap29
PE=1 SV=1
Length = 257
Score = 32.7 bits (73), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 42/104 (40%), Gaps = 6/104 (5%)
Query: 119 NSCRSFRFGFLGVQSGDSSKQCSKVKNSCSPRPSKEAKESVNDDECVREK----HSLLRE 174
NS +S GF+ + + S P+PS KE++N + K H LR
Sbjct: 110 NSIKSVFGGFINYFKSKPVEPPPEQNGSIVPQPSSRLKEAINTSKDQESKYQASHPNLRR 169
Query: 175 VHQAIFYEQVFDIVNREAFKQ--SLGVNVTGIRENYLQLGIGLG 216
+H A VN E + + SL I N +L +GLG
Sbjct: 170 LHDAELDSVPASTVNTEVYPKNSSLRAYHQKIDSNLDELSVGLG 213
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
0.318 0.134 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 207,098,501
Number of Sequences: 539616
Number of extensions: 8857960
Number of successful extensions: 19063
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 19054
Number of HSP's gapped (non-prelim): 14
length of query: 546
length of database: 191,569,459
effective HSP length: 122
effective length of query: 424
effective length of database: 125,736,307
effective search space: 53312194168
effective search space used: 53312194168
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 64 (29.3 bits)