1 / 6

DNA-PROTEIN INTERACTIONS

DNA-PROTEIN INTERACTIONS. AN IN-CLASS PROJECT. DNA-PROTEIN INTERACTIONS. NONSPECIFIC LOOSE BETWEEN PROTEIN FUNCTIONAL GROUPS AND DNA BACKBONE IONIC H-BONDS VANDERWAALS SPECIFIC (SEQUENCE-SPECIFIC) TIGHT BINDING DIRECT H-BONDING INDIRECT H-BONDING “INDIRECT READOUT”.

bernicecobbs
Download Presentation

DNA-PROTEIN INTERACTIONS

An Image/Link below is provided (as is) to download presentation Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author. Content is provided to you AS IS for your information and personal use only. Download presentation by click this link. While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server. During download, if you can't get a presentation, the file might be deleted by the publisher.

E N D

Presentation Transcript

  1. DNA-PROTEIN INTERACTIONS AN IN-CLASS PROJECT

  2. DNA-PROTEIN INTERACTIONS • NONSPECIFIC • LOOSE • BETWEEN PROTEIN FUNCTIONAL GROUPS AND DNA BACKBONE • IONIC • H-BONDS • VANDERWAALS • SPECIFIC (SEQUENCE-SPECIFIC) • TIGHT BINDING • DIRECT H-BONDING • INDIRECT H-BONDING • “INDIRECT READOUT”

  3. PROKARYOTIC CONTROL MOTIFS • STUDY THE FOLLOWING MOTIFS • 434 PHAGE REPRESSOR WITH TARGET DNA (PDBid 2OR1) • E.coli Trp REPRESSOR-OPERATOR COMPLEX (PDBid 1TRO) • E.COLI Met REPRESSOR-SAM OPERATOR COMPLEX (PDBid 1CMA) • ANSWER ALL QUESTIONS • FILL OUT THE SUMMARY SHEET

  4. EUKARYOTIC TRANSCRIPTION CONTROL FACTORS • LOOK AT THE FOLLOWING CONTROL FACTORS • Cys2 – His2 ZINC FINGER BINDING MOTIFS (PDBidS 1ZNF AND 1AIF) • Cys4 ESTROGEN RECEPTOR (PDBid 1HCQ) • Cys6 YEAST TRANSCRIPTION FACTOR GAL4 (PDBid 1D66) • GCN4 LEUCINE ZIPPER MOTIF (PDBid 1YSA) • ANSWER ALL QUESTIONS • FILL OUT THE SUMMARY SHEET

  5. IN-CLASS PROJECT ON TRANSCRIPTION FACTORS • WORK TOGETHER IN SMALL GROUPS OF 2 OR 3 STUDENTS WHEN LOOKING AT THE STRUCTURES AND ANSWERING THE QUESTIONS • EACH STUDENT IN EACH GROUP WILL FILL OUT EACH OF THE TWO “SUMMARY SHEETS” AND HAND THEM IN FOR GRADING NO LATER THAN MONDAY, APRIL 20, 2009 AT 2:00 PM IN CLASS. • BEFORE HANDING IN THE SHEETS, PUT THE NAME OF EACH GROUP MEMBER ON THEM. THERE SHOULD BE NO COLLABORATION AMONG GROUPS WHEN FILLING THESE OUT. • THIS WILL COUNT FOR 25 POINTS OF YOUR LAST EXAM.

  6. CONCLUSIONS • NATURE USES A NUMBER OF DEVICES WHICH CAN BE VARIED TO MAXIMIZE DIVERSITY BUT MINIMIZE COMPLEXITY OF DNA-PROTEIN INTERACTIONS: • MOTIF TYPE • DIMERIZATION • PALINDROMIC DNA SEQUENCES • BONDING TYPES • CONTACT SITE ON DNA • NEED FOR ADDITIONAL SUBSTRATE

More Related