Dataset and Motifs High-scoring Sequences Motif Diagrams Annotated Sequences Debugging Information


MAST - Motif Alignment and Search Tool

MAST version 3.0 (Release date: 2004/07/16 05:53:30)

For further information on how to interpret these results or to get a copy of the MAST software please access http://meme.sdsc.edu.


REFERENCE

If you use this program in your research, please cite:

Timothy L. Bailey and Michael Gribskov, "Combining evidence using p-values: application to sequence homology searches", Bioinformatics, 14(48-54), 1998.


DATABASE AND MOTIFS

	DATABASE /home/meme/meme.3.0.6/tests/farntrans5.s (peptide)
	Last updated on Fri Jul 16 15:53:55 2004
	Database contains 5 sequences, 1900 residues

	MOTIFS meme.farntrans5.oops.4.Linuxx86_64.html (peptide)
	MOTIF WIDTH BEST POSSIBLE MATCH
	----- ----- -------------------
	  1    32   QQPEGGFNGRPNKLPDVCYSWWVLGSLPIIGR
	  2    22   CQDEETGGFSDKPGNMVDFYHT

	PAIRWISE MOTIF CORRELATIONS:
	MOTIF     1
	----- -----
	   2   0.46
	No overly similar pairs (correlation > 0.60) found.

	Random model letter frequencies (from non-redundant database):
	A 0.073 C 0.018 D 0.052 E 0.062 F 0.040 G 0.069 H 0.022 I 0.056 K 0.058 
	L 0.092 M 0.023 N 0.046 P 0.051 Q 0.041 R 0.052 S 0.074 T 0.059 V 0.064 
	W 0.013 Y 0.033 

SECTION I: HIGH-SCORING SEQUENCES

LinksSequence NameDescriptionE-valueLength
D A ?
RATRABGERB Rat rab geranylgeranyl tr... 1.4e-48 331
D A ?
BET2_YEAST YPT1/SEC4 PROTEINS GERANY... 1.1e-47 325
D A ?
PFTB_RAT PROTEIN FARNESYLTRANSFERA... 3.1e-40 437
D A ?
RAM1_YEAST PROTEIN FARNESYLTRANSFERA... 3.9e-40 431
D A ?
CAL1_YEAST RAS PROTEINS GERANYLGERAN... 4.2e-33 376

SECTION II: MOTIF DIAGRAMS


LinksNameExpect   Motifs
S A ?
RATRABGERB 1.4e-48

1
1
1
2
S A ?
BET2_YEAST 1.1e-47

2
1
1
1
2
S A ?
PFTB_RAT 3.1e-40

1
1
1
1
2
S A ?
RAM1_YEAST 3.9e-40

1
2
S A ?
CAL1_YEAST 4.2e-33

1
2
SCALE
| | | | | | | | | | | | | | | | | |
1 25 50 75 100 125 150 175 200 225 250 275 300 325 350 375 400 425

SECTION III: ANNOTATED SEQUENCES


RATRABGERB
S D ?

Rat rab geranylgeranyl transferase beta-subunit
LENGTH = 331 COMBINED P-VALUE = 2.87e-49 E-VALUE = 1.4e-48
DIAGRAM: 126-[1]-16-[1]-16-[1]-15-[2]-40

                                                        [1]
                                                        2.1e-09
                                                        QQPEGGFNGRPNKLPDVCYSWWVL
                                                        +++++ + +      ++  ++
76   KSCQHECGGVSASIGHDPHLLYTLSAVQILTLYDSIHVINVDKVVAYVQSLQKEDGSFAGDIWGEIDTRFSFCAV

                             [1]                                             [1]
                             5.2e-06                                         7.6
     GSLPIIGR                QQPEGGFNGRPNKLPDVCYSWWVLGSLPIIGR                QQP
     ++++++++                + +++++  ++         + + + +++                   +++
151  ATLALLGKLDAINVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIYCCTGFLAITSQLHQVNSDLLGWWLCERQLP

                                                 [2]
     e-33                                        3.5e-24
     EGGFNGRPNKLPDVCYSWWVLGSLPIIGR               CQDEETGGFSDKPGNMVDFYHT
     +++++++++++++++++++++++++++++               ++++++++++++++++++++++
226  SGGLNGRPEKLPDVCYSWWVLASLKIIGRLHWIDREKLRSFILACQDEETGGFADRPGDMVDPFHTLFGIAGLSL



BET2_YEAST
S D ?

YPT1/SEC4 PROTEINS GERANYLGERANYLTRANSFERASE BETA SUBUNIT (EC 2.
LENGTH = 325 COMBINED P-VALUE = 2.19e-48 E-VALUE = 1.1e-47
DIAGRAM: 66-[2]-31-[1]-16-[1]-19-[1]-15-[2]-38
                                                                       [2]
                                                                       1.9e-05
                                                                       CQDEETGGF
                                                                       + + + + +
1    MSGSLTLLKEKHIRYIESLDTNKHNFEYWLTEHLRLNGIYWGLTALCVLDSPETFVKEEVISFVLSCWDDKYGAF

                                                 [1]
                                                 4.3e-09
     SDKPGNMVDFYHT                               QQPEGGFNGRPNKLPDVCYSWWVLGSLPIIG
     +  +  ++ +  +                               +++++ +++     +++   +  ++ + +++
76   APFPRHDAHLLTTLSAVQILATYDALDVLGKDRKVRLISFIRGNQLEDGSFQGDRFGEVDTRFVYTALSALSILG

                      [1]                                                [1]
                      7.8e-08                                            3.5e-34
     R                QQPEGGFNGRPNKLPDVCYSWWVLGSLPIIGR                   QQPEGGF
                        +++++   ++       ++ +++ +++ ++                   +++++++
151  ELTSEVVDPAVDFVLKCYNFDGGFGLCPNAESHAAQAFTCLGALAIANKLDMLSDDQLEEIGWWLCERQLPEGGL

                                             [2]
                                             6.0e-22
     NGRPNKLPDVCYSWWVLGSLPIIGR               CQDEETGGFSDKPGNMVDFYHT
     +++++++++++++++++++++++++               ++++++++++++++++++++++
226  NGRPSKLPDVCYSWWVLSSLAIIGRLDWINYEKLTEFILKCQDEKKGGISDRPENEVDVFHTVFGVAGLSLMGYD



PFTB_RAT
S D ?

PROTEIN FARNESYLTRANSFERASE BETA SUBUNIT (EC 2.5.1.-) (CAAX FARNES
LENGTH = 437 COMBINED P-VALUE = 6.27e-41 E-VALUE = 3.1e-40
DIAGRAM: 133-[1]-19-[1]-16-[1]-17-[1]-28-[2]-74

                                                               [1]
                                                               5.4e-09
                                                               QQPEGGFNGRPNKLPDV
                                                               +++++++ + +   +
76   EKHFHYLKRGLRQLTDAYECLDASRPWLCYWILHSLELLDEPIPQIVATDVCQFLELCQSPDGGFGGGPGQYPHL

                                       [1]
                                       5.8e-05
     CYSWWVLGSLPIIGR                   QQPEGGFNGRPNKLPDVCYSWWVLGSLPIIGR
       ++   + + +++                     ++++ +       +++  ++  ++ + + +
151  APTYAAVNALCIIGTEEAYNVINREKLLQYLYSLKQPDGSFLMHVGGEVDVRSAYCAASVASLTNIITPDLFEGT

            [1]                                              [1]
            4.3e-09                                          1.9e-29
            QQPEGGFNGRPNKLPDVCYSWWVLGSLPIIGR                 QQPEGGFNGRPNKLPDVCY
            +  +++  + +   + + +++  ++ + ++ +                 +++++++++++++++++++
226  AEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILKKERSLNLKSLLQWVTSRQMRFEGGFQGRCNKLVDGCY

                                              [2]
                                              2.0e-19
     SWWVLGSLPIIGR                            CQDEETGGFSDKPGNMVDFYHT
     ++++++ ++++++                            + +++++++ ++++++++++++
301  SFWQAGLLPLLHRALHAQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQH



RAM1_YEAST
S D ?

PROTEIN FARNESYLTRANSFERASE BETA SUBUNIT (EC 2.5.1.-) (CAAX FARN
LENGTH = 431 COMBINED P-VALUE = 7.79e-41 E-VALUE = 3.9e-40
DIAGRAM: 291-[1]-19-[2]-67

                                                                       [1]
                                                                       2.8e-27
                                                                       QQPEGGFNG
                                                                        ++++++++
226  LTEELTEGVLNYLKNCQNYEGGFGSCPHVDEAHGGYTFCATASLAILRSMDQINVEKLLEWSSARQLQEERGFCG

                                               [2]
                                               1.7e-21
     RPNKLPDVCYSWWVLGSLPIIGR                   CQDEETGGFSDKPGNMVDFYHT
     ++++++++++++++++++++++                    ++++++++++++++++++++++
301  RSNKLVDGCYSFWVGGSAAILEAFGYGQCFNKHALRDYILYCCQEKEQPGLRDKPGAHSDFYHTNYCLLGLAVAE



CAL1_YEAST
S D ?

RAS PROTEINS GERANYLGERANYLTRANSFERASE (EC 2.5.1.-) (PROTEIN GER
LENGTH = 376 COMBINED P-VALUE = 8.44e-34 E-VALUE = 4.2e-33
DIAGRAM: 270-[1]-18-[2]-34

                                                  [1]
                                                  2.8e-27
                                                  QQPEGGFNGRPNKLPDVCYSWWVLGSLPII
                                                  ++++++++++++++++++++++++++++++
226  TLALLSSLEKLSDKFKEDTITWLLHRQVSSHGCMKFESELNASYDQSDDGGFQGRENKFADTCYAFWCLNSLHLL

                         [2]
                         3.0e-14
     GR                  CQDEETGGFSDKPGNMVDFYHT
     ++                   +++ +++++ +++++++++++
301  TKDWKMLCQTELVTNYLLDRTQKTLTGGFSKNDEEDADLYHSCLGSAALALIEGKFNGELCIPQEIFNDFSKRCC

Debugging Information




CPU: chromo
Time 0.040000 secs.

mast meme.farntrans5.oops.4.Linuxx86_64.html -stdout

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E
Links to Entrez database at NCBI
S
Links to sequence scores (section I)
D
Links to motif diagrams (section II)
A
Links to sequence/motif annotated alignments (section III)
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