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= 000848
(1255 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|F4JGZ1|MED16_ARATH Mediator of RNA polymerase II transcription subunit 16 OS=Arabidopsis
thaliana GN=MED16 PE=1 SV=1
Length = 1278
Score = 1905 bits (4935), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 963/1258 (76%), Positives = 1060/1258 (84%), Gaps = 33/1258 (2%)
Query: 22 KDSEEDLAAQPVETVIKPD------KSDTLSSAAAAEEEASAKSDDPMDEDSVTPATVFC 75
+ EE L + ET+ D + L + E+E S M+ D V+PATVFC
Sbjct: 30 EKEEEGLQQKQEETIESTDPILVVVEEKLLEKSVDGEKEDDNSSSSNMEIDPVSPATVFC 89
Query: 76 IRLKQPRSNLQHKMSVPELCRNFSAVAWCGKLNAIACASETCARIPSSNANTPFWIPIHI 135
++LKQP SNL HKMSVPELCRNFSAVAWCGKLNAIACASETCARIPSS ANTPFWIPIHI
Sbjct: 90 VKLKQPNSNLLHKMSVPELCRNFSAVAWCGKLNAIACASETCARIPSSKANTPFWIPIHI 149
Query: 136 VIPERPTECAVFNVIADCPRDSVQFIEWSPTSCPRALLIANFYGRVTIWTQPSHGPANLV 195
+IPERPTECAVFNV+AD PRDSVQFIEWSPTSCPRALLIANF+GR+TIWTQP+ G ANLV
Sbjct: 150 LIPERPTECAVFNVVADSPRDSVQFIEWSPTSCPRALLIANFHGRITIWTQPTQGSANLV 209
Query: 196 RDASCWQREHEWRQDIAVVTKWLSGVSPYRWLSSKSTSPLNAKSIFEEKFLSQNSQTSDR 255
DA+ WQ EHEWRQDIAVVTKWL+G SPYRWLSSK +S NAKS FEEKFLSQ+S++S R
Sbjct: 210 HDATSWQCEHEWRQDIAVVTKWLTGASPYRWLSSKPSSGTNAKSTFEEKFLSQSSESSAR 269
Query: 256 WPNFLCVCSVFSSGSVQLNWSQWPPSQNGAASKWFPTAKGLLGAGPSGIMAADVIITDSG 315
WPNFLCVCSVFSSGSVQ++WSQWP +Q A KWF T KGLLGAGPSGIMAAD IITDSG
Sbjct: 270 WPNFLCVCSVFSSGSVQIHWSQWPSNQGSTAPKWFSTKKGLLGAGPSGIMAADAIITDSG 329
Query: 316 AMHVAGVPIVNPSTVVVWEVTPGPGNGFQAAPKTTTSNGVPPSLSPPKWAGFAPLAAYLF 375
AMHVAGVPIVNPST+VVWEVTPGPGNG QA PK +T + VPPSLS W GFAPLAAYLF
Sbjct: 330 AMHVAGVPIVNPSTIVVWEVTPGPGNGLQATPKISTGSRVPPSLSSSSWTGFAPLAAYLF 389
Query: 376 SWQEYLLSEAKQGRKLTDQNFSDAITLHCSPVSNFSAYVSPEAAAQSAATTTWGSGVTAV 435
SWQEYL+SE KQG+K +DQ+ SDAI+L CSPVSNFSAYVSPEAAAQSAATTTWGSGVTAV
Sbjct: 390 SWQEYLISEIKQGKKPSDQDSSDAISLSCSPVSNFSAYVSPEAAAQSAATTTWGSGVTAV 449
Query: 436 AFDPTRGGSVIAVVIVEGQYMSPYDPDEGPSITGWRVQRWESSVQPVVLHQIFGNPTSSF 495
AFDPTRGGSVIAVVIVEGQYMSPYDPDEGPSITGWRVQRWESSVQPVVLHQIFGNPTS+F
Sbjct: 450 AFDPTRGGSVIAVVIVEGQYMSPYDPDEGPSITGWRVQRWESSVQPVVLHQIFGNPTSNF 509
Query: 496 GGQAPMQTVWVSKVDTSI-PTSNFKIHQLAAAGPTCDVWKTTDSGLEKSKIVSFDPFDLP 554
GGQ P QTVWVS+VD SI PT +FK HQ+AAAGP+ D K DSG EK+ V FDPFDLP
Sbjct: 510 GGQVPTQTVWVSRVDMSIPPTKDFKNHQVAAAGPSVDAPKEPDSGDEKANKVVFDPFDLP 569
Query: 555 SDIRSLARIVYSAHGGEIAIALLRGGVHIFSGPNFAPVDNYQISVGSAIAAPAFSSTSCC 614
SDIR+LARIVYSAHGGEIAIA LRGGVHIFSGP F+PV+NYQI+VGSAIAAPAFS TSCC
Sbjct: 570 SDIRTLARIVYSAHGGEIAIAFLRGGVHIFSGPTFSPVENYQINVGSAIAAPAFSPTSCC 629
Query: 615 SASVWHDTNKDRTILKIIRVLPPAVPSSQVKANSSTWERAIAERFWWSLLVNVDWWDAVG 674
SASVWHD KD +LKIIRVLPPA+P +Q K + STWERAIAERFWWSLLV VDWWDAVG
Sbjct: 630 SASVWHDAAKDCAMLKIIRVLPPALPRNQSKVDQSTWERAIAERFWWSLLVGVDWWDAVG 689
Query: 675 CTQSAAEDGIVSLNSVIAVLDADFHSLPSIQHRQQYGPSLDRIKCRLLEGTNAQEVRAMV 734
CTQSAAEDGIVSLNSVIAV+DADFHSLPS QHRQQYGP+LDRIKCRLLEGTNAQEVRAMV
Sbjct: 690 CTQSAAEDGIVSLNSVIAVMDADFHSLPSTQHRQQYGPNLDRIKCRLLEGTNAQEVRAMV 749
Query: 735 LDMQARLLLDMLGKGIESALINPSALVPDPWQASGETLSGIDPEAMAVEPALVASIQAYV 794
LDMQARLLLDMLGKGIESAL+NPSALV +PW+ GET++GI+PEAMAV+PALV+SIQAYV
Sbjct: 750 LDMQARLLLDMLGKGIESALVNPSALVFEPWRVDGETITGINPEAMAVDPALVSSIQAYV 809
Query: 795 DAVLDLASHFITRLRRYASFCRTLASHAVTAGTGSNRNMVASPTQSSATPAASQ------ 848
DAVLDLASHFITRLRRYASFCRTLASHA +AGTGSNRN V SPTQ++++PA Q
Sbjct: 810 DAVLDLASHFITRLRRYASFCRTLASHAASAGTGSNRNNVTSPTQNASSPATPQVFPDKS 869
Query: 849 ----AGQ-------SGTTSSTGSTQMQAWVQGAIAKISSTNDGVSNPTSNPISGPSSFMP 897
GQ + TT+S+GS+ +QAW+QGAIAKISS+NDG SN T++PISG +FMP
Sbjct: 870 LYLAVGQPTTTTTTTATTNSSGSSHVQAWMQGAIAKISSSNDG-SNSTASPISGSPTFMP 928
Query: 898 ISINTGTFPGTPAVRLIGDCHFLHRLCQLLLFCFFFRRAQQPRLLANAQRNNDANVQKPQ 957
ISINTGTFPGTPAVRLIGDCHFLHRLCQLLLFCF R ++ P QRN D + QK Q
Sbjct: 929 ISINTGTFPGTPAVRLIGDCHFLHRLCQLLLFCFLQRSSRFP------QRNADVSSQKLQ 982
Query: 958 VSAPGKVEEINSVPGKPTSAMVKLDEGQVARAGQTVPGAKGVEEGPAGRPKMGFGNAGQG 1017
A K+EE+NS KPT A+ ++++ Q R Q G KG++E A KMG GNAGQG
Sbjct: 983 TGATSKLEEVNS--AKPTPALNRIEDAQGFRGAQLGTGVKGIDENSARTTKMGSGNAGQG 1040
Query: 1018 YTFEEVKVLFLILMDLCRRTAALSHPLPVSQVGSSNIQVRLHYIDGNYTVLPEVVEASLG 1077
YT+EEV+VLF ILMDLC+RT+ L+HPLP SQVGS NIQVRLHYIDGNYTVLPEVVEA+LG
Sbjct: 1041 YTYEEVRVLFHILMDLCKRTSGLAHPLPGSQVGSGNIQVRLHYIDGNYTVLPEVVEAALG 1100
Query: 1078 PHMQNMPRPRGADAAGLLLRELELHPPAEEWHRRNMFGGPWSDPEDVGPVDDTPKLSNWV 1137
PHMQNMPRPRGADAAGLLLRELELHPP+EEWHRRN+FGGP S+PED+ DD KLSN +
Sbjct: 1101 PHMQNMPRPRGADAAGLLLRELELHPPSEEWHRRNLFGGPGSEPEDMILTDDVSKLSNSL 1160
Query: 1138 DSVDVNSSGNHDVYYDSHGLWPRKRRMSERDAAFGLNTSVGLGAYLGIMGSRRDVVTAVW 1197
D D N SG D Y H LWPRKRRMSERDAAFG NTSVGLGAYLGIMGSRRDVVTA W
Sbjct: 1161 DLPDTNFSGICDGYNRVHSLWPRKRRMSERDAAFGSNTSVGLGAYLGIMGSRRDVVTATW 1220
Query: 1198 KTGLEGVWYKCIRCLRQTAAFASPGATNPPNQNDREAWWISRWAFGCPMCGGTWVRVV 1255
KTGLEGVWYKCIRCLRQT+AFASPGAT PN N+RE WW SRW + CPMCGGTWVRVV
Sbjct: 1221 KTGLEGVWYKCIRCLRQTSAFASPGATKQPNPNERETWWTSRWVYCCPMCGGTWVRVV 1278
>sp|Q54X75|MED16_DICDI Putative mediator of RNA polymerase II transcription subunit 16
OS=Dictyostelium discoideum GN=med16 PE=3 SV=2
Length = 1284
Score = 43.9 bits (102), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 13/67 (19%)
Query: 1186 MGSRRDVVTAV-WKTGLEGVWYKCIRCLRQTAAFASPGATNPPNQNDREAWWISRWAFGC 1244
MG D++T + ++ + KCIRC R T + +W RW+ C
Sbjct: 1134 MGIVHDIITRIPIAPRIDKPYKKCIRCHRITVMLRT------------SMFWSDRWSMAC 1181
Query: 1245 PMCGGTW 1251
P+CGG W
Sbjct: 1182 PICGGKW 1188
Score = 40.4 bits (93), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 35/127 (27%), Positives = 57/127 (44%), Gaps = 8/127 (6%)
Query: 647 NSSTWERAIAERFWWSLLVNVDWWDAVGCTQ--SAAEDGIVSLNSVIAVLDADFHSLPSI 704
N + +A+ F S+L + DWWD + + S + D + + I L +DF LP +
Sbjct: 724 NQKVVSKWLAQLFQNSMLKSNDWWDILILLKIYSTSPDTRTTFHHTIIHLSSDFSCLP-L 782
Query: 705 QHRQQYGPSLDRIKCRLLEGTNAQEVRAMVLDMQARLLLDMLGKGIESALINPSALVPDP 764
+Q Y D IK + + EV +D QA+ + L ++S+ S L+ P
Sbjct: 783 TFQQTYRHCFDAIKASIYRIVSGMEVA--FVDSQAKSFIYYLCDTLKSSF---SPLLMQP 837
Query: 765 WQASGET 771
Q S T
Sbjct: 838 SQQSDGT 844
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
0.316 0.130 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 499,856,505
Number of Sequences: 539616
Number of extensions: 22135854
Number of successful extensions: 129458
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 462
Number of HSP's successfully gapped in prelim test: 84
Number of HSP's that attempted gapping in prelim test: 87674
Number of HSP's gapped (non-prelim): 34008
length of query: 1255
length of database: 191,569,459
effective HSP length: 129
effective length of query: 1126
effective length of database: 121,958,995
effective search space: 137325828370
effective search space used: 137325828370
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: 67 (30.4 bits)