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.zoops.4.Linuxx86_64.html (peptide)
	MOTIF WIDTH BEST POSSIBLE MATCH
	----- ----- -------------------
	  1    32   QQPEGGFNGRPNKLPDVCYSWWVLGSLPIIGR
	  2    50   GEVDTRFVYCALSVASLLNILTPELVEGAIEFVLRCQNFDGGFGCCPGAE

	PAIRWISE MOTIF CORRELATIONS:
	MOTIF     1
	----- -----
	   2   0.30
	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 ?
BET2_YEAST YPT1/SEC4 PROTEINS GERANY... 2.1e-70 325
D A ?
RATRABGERB Rat rab geranylgeranyl tr... 1.7e-67 331
D A ?
PFTB_RAT PROTEIN FARNESYLTRANSFERA... 9.8e-65 437
D A ?
RAM1_YEAST PROTEIN FARNESYLTRANSFERA... 1.1e-63 431
D A ?
CAL1_YEAST RAS PROTEINS GERANYLGERAN... 7.3e-25 376

SECTION II: MOTIF DIAGRAMS


LinksNameExpect   Motifs
S A ?
BET2_YEAST 2.1e-70

2
2
1
1
S A ?
RATRABGERB 1.7e-67

2
2
1
1
S A ?
PFTB_RAT 9.8e-65

1
2
1
1
S A ?
RAM1_YEAST 1.1e-63

2
1
S A ?
CAL1_YEAST 7.3e-25

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

SECTION III: ANNOTATED SEQUENCES


BET2_YEAST
S D ?

YPT1/SEC4 PROTEINS GERANYLGERANYLTRANSFERASE BETA SUBUNIT (EC 2.
LENGTH = 325 COMBINED P-VALUE = 4.14e-71 E-VALUE = 2.1e-70
DIAGRAM: 31-[2]-50-[2]-37-[1]-17-[1]-26
                                    [2]
                                    2.3e-05
                                    GEVDTRFVYCALSVASLLNILTPELVEGAIEFVLRCQNFDGGFG
                                          +++  ++++  +      + + ++ +++++     +
1    MSGSLTLLKEKHIRYIESLDTNKHNFEYWLTEHLRLNGIYWGLTALCVLDSPETFVKEEVISFVLSCWDDKYGAF

                                                             [2]
                                                             8.6e-45
     CCPGAE                                                  GEVDTRFVYCALSVASLLN
     +                                                       +++++++++ +++++++++
76   APFPRHDAHLLTTLSAVQILATYDALDVLGKDRKVRLISFIRGNQLEDGSFQGDRFGEVDTRFVYTALSALSILG

                                                                         [1]
                                                                         3.5e-34
     ILTPELVEGAIEFVLRCQNFDGGFGCCPGAE                                     QQPEGGF
     +++++++ +++++++++++++++++++++++                                     +++++++
151  ELTSEVVDPAVDFVLKCYNFDGGFGLCPNAESHAAQAFTCLGALAIANKLDMLSDDQLEEIGWWLCERQLPEGGL

                                               [1]
                                               1.0e-06
     NGRPNKLPDVCYSWWVLGSLPIIGR                 QQPEGGFNGRPNKLPDVCYSWWVLGSLPIIGR
     +++++++++++++++++++++++++                     ++   +++  +++  +    + + +++
226  NGRPSKLPDVCYSWWVLSSLAIIGRLDWINYEKLTEFILKCQDEKKGGISDRPENEVDVFHTVFGVAGLSLMGYD



RATRABGERB
S D ?

Rat rab geranylgeranyl transferase beta-subunit
LENGTH = 331 COMBINED P-VALUE = 3.40e-68 E-VALUE = 1.7e-67
DIAGRAM: 42-[2]-46-[2]-34-[1]-17-[1]-28
                                               [2]
                                               4.7e-09
                                               GEVDTRFVYCALSVASLLNILTPELVEGAIEFV
                                                     +++  +++  +++ +   + +  + ++
1    MGTQQKDVTIKSDAPDTLLLEKHADYIASYGSKKDDYEYCMSEYLRMSGVYWGLTVMDLMGQLHRMNKEEILVFI

                                                                    [2]
                                                                    3.3e-43
     LRCQNFDGGFGCCPGAE                                              GEVDTRFVYCAL
     ++++   ++  +  +                                                ++++++++++++
76   KSCQHECGGVSASIGHDPHLLYTLSAVQILTLYDSIHVINVDKVVAYVQSLQKEDGSFAGDIWGEIDTRFSFCAV

                                                                             [1]
                                                                             7.6
     SVASLLNILTPELVEGAIEFVLRCQNFDGGFGCCPGAE                                  QQP
     ++++++++++++++++++++++++++++++++++++++                                  +++
151  ATLALLGKLDAINVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIYCCTGFLAITSQLHQVNSDLLGWWLCERQLP

                                                   [1]
     e-33                                          2.1e-07
     EGGFNGRPNKLPDVCYSWWVLGSLPIIGR                 QQPEGGFNGRPNKLPDVCYSWWVLGSLPI
     +++++++++++++++++++++++++++++                   + +++  ++  +++   +    + + +
226  SGGLNGRPEKLPDVCYSWWVLASLKIIGRLHWIDREKLRSFILACQDEETGGFADRPGDMVDPFHTLFGIAGLSL

     
     
     IGR
     ++
301  LGEEQIKPVSPVFCMPEEVLQRVNVQPELVS



PFTB_RAT
S D ?

PROTEIN FARNESYLTRANSFERASE BETA SUBUNIT (EC 2.5.1.-) (CAAX FARNES
LENGTH = 437 COMBINED P-VALUE = 1.95e-65 E-VALUE = 9.8e-65
DIAGRAM: 133-[1]-31-[2]-35-[1]-30-[1]-62

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

                                                   [2]
                                                   4.2e-44
     CYSWWVLGSLPIIGR                               GEVDTRFVYCALSVASLLNILTPELVEGA
       ++   + + +++                                +++++++++++++++++++++++++++++
151  APTYAAVNALCIIGTEEAYNVINREKLLQYLYSLKQPDGSFLMHVGGEVDVRSAYCAASVASLTNIITPDLFEGT

                                                             [1]
                                                             1.9e-29
     IEFVLRCQNFDGGFGCCPGAE                                   QQPEGGFNGRPNKLPDVCY
     +++++++++++++++++++++                                   +++++++++++++++++++
226  AEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILKKERSLNLKSLLQWVTSRQMRFEGGFQGRCNKLVDGCY

                                                [1]
                                                6.3e-07
     SWWVLGSLPIIGR                              QQPEGGFNGRPNKLPDVCYSWWVLGSLPIIGR
     ++++++ ++++++                              + + +++   + +  +   +  +++ + +
301  SFWQAGLLPLLHRALHAQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQH



RAM1_YEAST
S D ?

PROTEIN FARNESYLTRANSFERASE BETA SUBUNIT (EC 2.5.1.-) (CAAX FARN
LENGTH = 431 COMBINED P-VALUE = 2.14e-64 E-VALUE = 1.1e-63
DIAGRAM: 205-[2]-36-[1]-108

                                                            [2]
                                                            3.3e-45
                                                            GEVDTRFVYCALSVASLLNI
                                                            ++++++++++++++++++++
151  PGQLSHLASTYAAINALSLCDNIDGCWDRIDRKGIYQWLISLKEPNGGFKTCLEVGEVDTRGIYCALSIATLLNI

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

     
     
     RPNKLPDVCYSWWVLGSLPIIGR
     ++++++++++++++++++++++
301  RSNKLVDGCYSFWVGGSAAILEAFGYGQCFNKHALRDYILYCCQEKEQPGLRDKPGAHSDFYHTNYCLLGLAVAE



CAL1_YEAST
S D ?

RAS PROTEINS GERANYLGERANYLTRANSFERASE (EC 2.5.1.-) (PROTEIN GER
LENGTH = 376 COMBINED P-VALUE = 1.46e-25 E-VALUE = 7.3e-25
DIAGRAM: 212-[2]-8-[1]-20-[1]-22

                                                                   [2]
                                                                   7.4e-06
                                                                   GEVDTRFVYCALS
                                                                    +       ++++
151  DYKTNCGSSVDSDDLRFCYIAVAILYICGCRSKEDFDEYIDTEKLLGYIMSQQCYNGAFGAHNEPHSGYTSCALS

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

                           [1]
                           6.4e-05
     GR                    QQPEGGFNGRPNKLPDVCYSWWVLGSLPIIGR
     ++                        +++    +  ++   +    + +++++
301  TKDWKMLCQTELVTNYLLDRTQKTLTGGFSKNDEEDADLYHSCLGSAALALIEGKFNGELCIPQEIFNDFSKRCC

Debugging Information




CPU: chromo
Time 0.090000 secs.

mast meme.farntrans5.zoops.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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