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= 000935
         (1219 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 = 1819 bits (4711), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 925/1210 (76%), Positives = 1019/1210 (84%), Gaps = 33/1210 (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 KTGLEGVWYK 1207
            KTGLEGVWYK
Sbjct: 1221 KTGLEGVWYK 1230


>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 = 40.4 bits (93), Expect = 0.093,   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    0.404 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 482,733,523
Number of Sequences: 539616
Number of extensions: 21446398
Number of successful extensions: 128507
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: 86728
Number of HSP's gapped (non-prelim): 34003
length of query: 1219
length of database: 191,569,459
effective HSP length: 129
effective length of query: 1090
effective length of database: 121,958,995
effective search space: 132935304550
effective search space used: 132935304550
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)