Animated Molecules for Biol 5304
These Quicktime movies of molecules are from the lectures.
| Lecture | Molecules | Citation | Movies | |
| Section 1: Structure, Replication, Repair, Recombination | ||||
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2
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B-DNA | Side view End view | ||
|
2
|
A-DNA | Side view End view | ||
|
2
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Z-DNA | Side view End view | ||
|
3
|
E. coli DNA gyrase (Type II topoisomerase) | PubMed | pdb | QT |
|
3
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E. coli Topoisomerase (Type I) | PubMed | pdb | QT |
|
3
|
Human Topoisomerase + DNA (Type I) | PubMed | pdb | QT |
|
3
|
Hammerhead Catalytic RNA | PubMed | pdb | QT |
|
3
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tRNA | PubMed | pdb | QT |
|
3
|
5S ribosomal RNA | PubMed | pdb | QT |
|
4
|
T7 DNA Polymerase with substrates | PubMed | pdb | QT |
|
4
|
DNA Ligase | PubMed | pdb | QT |
|
4
|
Single strand binding protein | PubMed | pdb | QT |
|
5
|
Sliding clamp for DNA Polymerase | PubMed | pdb | QT |
|
5
|
Clamp Loader | PubMed | pdb | QT |
|
6
|
DnaA (domain 1) | PubMed | pdb | QT |
|
7
|
MutS | PubMed | pdb | QT |
|
8
|
DNA Photolyase | PubMed | pdb | QT |
|
8
|
Human Alkyl Guanine Transferase | PubMed | pdb | QT |
|
8
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AP endonuclease | PubMed | pdb | QT |
|
8
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Double strand break repair:Ku | PubMed | pdb | QT |
|
9
|
Holliday Junction | PubMed | pdb | QT |
|
9
|
RecA filament | PubMed | pdb | QT |
|
10
|
RuvAB | PubMed | pdb | QT |
| Other molecules: | ||||
| DNA Polymerase I (Klenow fragment) | PubMed | pdb | QT | |
| Reverse Transcriptase | PubMed | pdb | QT | |
| Uracil Glycosylase | PubMed | pdb | QT | |
| T5 exonuclease | PubMed | pdb | QT | |
| DnaG Primase | PubMed | pdb | QT | |
| UvrB | PubMed | pdb | QT | |
| Tn5 | PubMed | pdb | QT | |
| Section 2: Transcription and Transposition | ||||
|
11
|
Serine Recombinase | QT | ||
|
11
|
Cre recombinase | PubMed | pdb | QT |
| RNA Polymerase (T. thermophilus) | PubMed | pdb | QT | |
| RNA Polymerase + DNA (T. aquaticus) | PubMed | pdb | QT | |
| RNA Polymerase -compare 2 conformations (T7) | PubMed | pdb | QT | |
| TNA Polymerase-transcription bubble (T7) | PubMed | pdb | QT | |
| Rho factor | PubMed | pdb | QT | |
| T. aquaticus+sigma | QT | |||
| Sigma factor-fragment | PubMed | pdb | gif | |
| GreA | gif | |||
| 10-subunit yeast RNA Polymerase II | PubMed | pdb | QT | |
| RNA Polymerase + alpha-amanitin | QT | |||
| Actinomycin D + DNA | QT | |||
| 12-subunit yeast RNA Polymerase II | Gif | |||
| 10-subunit yeast RNA Polymerase II + DNA/RNA | QT | |||
| TBP + DNA | QT | |||
| TBP+TFIIA+DNA | QT | |||
| TBP + TFIIB + DNA | QT | |||
| TBP + NC2 + DNA | QT | |||
| TBP + BRF1 + DNA | QT | |||
| TAP-N-terminal region | QT | |||
| TAP-central domain-dimer | QT | |||
| TAP-C-terminus | QT | |||
| guanylyltransferase | QT | |||
| Poly(A) Polymerase | QT | |||
| Poly(A) Binding protein monomer | QT | |||
| Poly(A) Binding protein oligomer | QT | |||
| RNase III | QT | |||
| 16S rRNA | gif | |||
| 5S + 23S rRNA | gif | |||
| RNase P | QT | |||
| Group II Intron | QT | |||
| CCA adding enzyme | QT | |||
| Section 3: Translation | ||||
| 16S rRNA | GIF | |||
| 23S + 5S rRNA | GIF | |||
| Colored tRNA | QT | |||
| Gly-tRNA synthetase + ATP | QT | |||
| Glu-tRNA synthetase+ ATP | QT | |||
| Aspartic acid-tRNA Synthetase + tRNA | QT | |||
| Glutamine-tRNA Synthetase + tRNA | QT | |||
| Threonine-tRNA Synthetase + tRNA | QT | |||
| 30S Ribosome Subunit-1 | QT | |||
| 30S Ribosome Subunit-2 | QT | |||
| Wobble base-pairing | QT | |||
| 50S Ribosome Subunit | QT | |||
| 50S Ribosome Subunit-1 (Proteins) | QT | |||
| 50S Ribosome Subunit-2 (Proteins) | QT | |||
| EF-Tu | QT | |||
| EF-Tu-Ts | QT | |||
| EF-Tu-tRNA | QT | |||
| Release Factor-isolated | QT | |||
| Release Factor Comparison | GIF | |||
| Ribosome + Release Factor | QT | |||
| Paromomycin-ribosome | QT | |||
| Chloramphenicol-ribosome | QT | |||
| Section 4: Regulation of Transcription | ||||
| lac repressor-DNA-binding domain only | QT | |||
| lac repressor-DNA-anti-inducer | QT | |||
| lac repressor tetramer | QT | |||
| CAP | gif | |||
| CAP-cAMP-DNA | QT | |||
| CAP+C-terminal domain of alpha/RNA polymerase +DNA | QT | |||
| araC-comparison +/- arabinose | QT | |||
| trp repressor | QT | |||
| TRAP+RNA+Trp | QT | |||
| nutL-BoxB | QT | |||
| Lambda repressor + DNA | QT | |||
| Lambda repressor -oligomerization domain | QT | |||
| Cro repressor | QT | |||
| Integration Host Factor | QT | |||
| Integrase-DNA binding domain | QT | |||
| nucleosome | QT | |||
| Histone 1 | QT | |||
| Histone 2A | GIF | |||
| Histone 2B | GIF | |||
| Histone 3 | GIF | |||
| Histone 4 | GIF | |||
| Histone acetyltransferase | QT | |||
| Nucleosome+polyamide | GIF | |||
| TFIIIA-Zn | QT | |||
| TFIIB-Zn | QT | |||
| GAL4 | QT | |||
| GCN4 | QT | |||
| MEF2A | QT | |||
| Glucocorticoid | QT | |||
| p53 | QT | |||
| E2F-DP | QT | |||
| Antibody | QT | |||
| PubMed | pdb | QT |
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Copyright 2007, Steven B. Vik, Southern Methodist University
