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1. Empirical models (1,174 bytes)
   1: ...e international archive of empirically determined models. The most common experimental methods are evident...
   7: ...ctures very reliably. Less reliable non-empirical models from theory are archived in the [[ModelArchive]].
2. NMR Ensembles of Models (13,546 bytes)
   9: ...ingle solution. The result is thus an ensemble of models, the distribution of which gives a measure of the...
   11: ... [[X-ray crystallography|X-ray crystallographic]] models that often lack the ends, and even loops in the m...
   16: ==Displaying NMR Models==
   18: ===Display of NMR Models by Proteopedia===
   20: ...'all the models''', enabling you to see where the models agree with each other, and where they differ. Eac...
3. Category:Functional models of 70s ribosome (64 bytes)
   1: List of pages with the keyword Functional models of 70s ribosome
4. Quality assessment for molecular models (12,743 bytes)
   1: ==Crystallographic Models==
   3: ...finding and correcting errors in crystallographic models, made easy and convenient with the [[MolProbity]]...
   5: ...Interestingly, the quality of published molecular models is inversely related to the impacts of the journa...
   23: ...ited models of SARS-CoV-2 proteins, comparing the models with the deposited X-ray diffraction data (struct...
   27: ...abase of "validated SARS-CoV-2 related structural models of potential drug targets" at [http://covid19.bio...
5. Hydrogen in macromolecular models (10,118 bytes)
   1: ...ge:Protein Hydrogens in electron Density 1yk4 Y13.jpg|thumb|left|320px|Experimental difference density ...
   2: ...but the results are only as good as the molecular models themselves.
   4: ...=Absence of Hydrogen Atoms in Most Macromolecular Models==
   6: ...ome mostly from the [[Protein Data Bank]]. 83% of models in the [[Protein Data Bank]] lack hydrogen atoms ...
   8: ...]] analysis, and usually present in [[theoretical models]].
6. Water in macromolecular models (2,838 bytes)
   26: *[[Hydrogen in macromolecular models]]
   27: *[[Quality assessment for molecular models]]
7. Group:SMART:Tangible Models of Cdc42 Interacting With Intersectin (8,947 bytes)
   2: [[Image:Lincoln Team 2008.JPG|left|360px]]
   22: [[Image:Poster picture.jpg|right|380px]]
   26: ...ng with computer visualization tools, tangible 3D models allow students and scientists alike to more fully...
   31: [[Image:Filopodia.jpg|left|250px]]
   41: [[Image:Actual 3d models.JPG|right|150px]]
8. Image:Actual 3d models.JPG (83 bytes)
   1: Actual 3D models of complexes cdc42 with GDP and Intersectin (DH d...
9. User:Emi Nakayama/TRIM5a Homology Models (610 bytes)
   2: scene='User:Emi_Nakayama/TRIM5a_Homology_Models/Kasia-swiss-pdb/2' />
   4: ...h (<scene name='User:Emi_Nakayama/TRIM5a_Homology_Models/Kasia-swiss-pdb/2'>initial scene</scene>) of Swis...
   5: <scene name='User:Emi_Nakayama/TRIM5a_Homology_Models/Kasia-swiss-pdb/3'>Secondary structure</scene>
   7: ... structural difference between these two homology models represents the difference between the templates u...
10. Theoretical models (23,954 bytes)
    6: ... by [[X-ray crystallography]], [[NMR Ensembles of Models|nuclear magnetic resonance]] (NMR), or [[cryo-ele...
    8: ...lar macromolecule is determined using [[empirical models|empirical methods]] by different laboratories, or...
    10: ...cal Model]]). One such database where theoretical models are allowed is the [https://modelarchive.org/ Mod...
    12: ==Empirical Models==
    13: ...e discussed at [[Quality assessment for molecular models]]. Independent determinations of the same protein...
11. Improving published models (1,444 bytes)
    1: ...improving many published empirical macromolecular models ([[PDB files]]).
    5: ...e sidechains in suboptimal positions in published models. MolProbity recommends which sidechains have stro...
    7: ... are useful in [[Quality assessment for molecular models|assessing the quality of a model]], overall, and ...
    11: ..._REDO]] does automated re-refinement of published models, and improves about two-thirds of them, according...
    15: *[[Quality assessment for molecular models]]
12. Group:SMART:2010 Pingry SMART Team Models (6,598 bytes)
    99: <scene name='2010_Pingry_SMART_Team_Models/1m9h_final/3'>Mutant 2,5-diketo-d-gluconic acid r...
    185: <scene name='2010_Pingry_SMART_Team_Models/1mi3_final/7'>Xylose reductase with NAD+</scene> ...
    280: <scene name='2010_Pingry_SMART_Team_Models/1afs_final2/1'>Rat liver 3-alpha-hydroxysteroid d...
13. Image:LeuLeuIleTyr 3 models.pdb (230 bytes)
14. Image:GnRH III models.pdb (63 bytes)
    1: models of GnRH, specificalled lamprey III made by I TASS...
15. Image:2hyn ca only 16 models.png (0 bytes)
16. Image:Models.jpg (43 bytes)
17. User:Jaime Prilusky/JSmolExtension/Tags for In-page Models (9,733 bytes)
    1: ...r:Jaime_Prilusky/JSmolExtension that will include models while the page loads ==
    7: ...lExtension/Tags for Pop-in Models|Tags for Pop-in Models]] and [[User:Jaime_Prilusky/JSmolExtension/Simple...
    94: <caption>Data read from the page [[Models/2-propanol]]</caption>
    95: <wikiPageContents> Models/2-propanol </wikiPageContents>
    108: <caption>Data read from the page [[Models/2-propanol]]</caption>
18. Proteopedia:Rotating vs still models (2,770 bytes)
    5: ...outstanding difference between rotating and still models.
19. User:Karsten Theis/Physical Models (872 bytes)
    1: ==3D printed models==
    3: ...m Westfield State University, we printed physcial models of proteins illustrating concepts such as chirali...
    5: ...ong with video footage, for each of the available models. This is work in progress, so all of the pages ar...
20. Image:Geobacter-pilin-2-models.pdb (0 bytes)

Page text matches

1. Help:Editing (24,612 bytes)
   74: ... parameter like so: <nowiki>[[Image:someImageName.jpg|frame|someCaption]]</nowiki>. If frame is set to...
   236: ...inking to Wikipedia, protected pages, theoretical models.
2. Sandbox Tst (3,047 bytes)
   4: [[Image:1som.jpg|left|200px]]<br />
   18: ...ere essentially identical and provided structural models for the negatively charged, tetrahedral intermedi...
3. 2lxy (3,569 bytes)
   6: ...class="sblockDat" id="methodDat">Solution NMR, 32 models</td></tr>
4. 1e4e (4,596 bytes)
   6: ... id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="metho...
   24: ...pected interactions and is distinct from previous models for d-alanyl-d-lactate ligase mechanistic studies...
5. 2boq (5,896 bytes)
   6: ... id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="metho...
   24: ...resolution crystal structures as well as homology models of VP isoenzymes from the fungus Pleurotus eryngi...
6. 2cnc (5,285 bytes)
   6: ... id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="metho...
   24: ...tability; thus, these enzymes represent excellent models to examine the structural basis for the variation...
7. User:Karsten Theis/Rigid body interpolation (4,709 bytes)
   5: ...nates. The starting point is a structure with two models containing the same atoms in the same order, but ...
8. 3pcl (5,180 bytes)
   6: ... id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="metho...
   24: ...997) Biochemistry 36, 10039-10051] provide atomic models for several steps in the reaction cycle of 3,4-PC...
9. 3pck (5,174 bytes)
   6: ... id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="metho...
   24: ...997) Biochemistry 36, 10039-10051] provide atomic models for several steps in the reaction cycle of 3,4-PC...
10. 3pcj (5,177 bytes)
    6: ... id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="metho...
    24: ...997) Biochemistry 36, 10039-10051] provide atomic models for several steps in the reaction cycle of 3,4-PC...
11. 3pca (5,154 bytes)
    6: ... id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="metho...
    24: ...997) Biochemistry 36, 10039-10051] provide atomic models for several steps in the reaction cycle of 3,4-PC...
12. 3pcm (5,177 bytes)
    6: ... id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="metho...
    24: ...997) Biochemistry 36, 10039-10051] provide atomic models for several steps in the reaction cycle of 3,4-PC...
13. 1gkb (4,794 bytes)
    6: ... id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="metho...
    24: ...fectively represent ensembles of crystallographic models of a given molecule are provided.
14. 9bik (4,099 bytes)
    6: ... id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="metho...
    14: ...e checkpoint inhibitors in syngeneic mouse cancer models. These data offer compelling evidence for the use...
15. 1vdf (4,605 bytes)
    6: ... id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="metho...
    24: ...ain of COMP has marked similarities with proposed models of the pentameric transmembrane ion channels in p...
16. 1ygw (4,009 bytes)
    6: ...class="sblockDat" id="methodDat">Solution NMR, 34 models</td></tr>
    23: ...of side-chain conformations were based on various models of motional averaging of 3J coupling constants. T...
17. 2lip (4,981 bytes)
    6: ... id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="metho...
    24: ...ements of surface loops and appears to conform to models of activation deduced from the structures of fung...
18. 3lip (4,991 bytes)
    6: ... id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="metho...
    24: ...ements of surface loops and appears to conform to models of activation deduced from the structures of fung...
19. 2v2z (5,258 bytes)
    6: ... id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="metho...
    24: ...of well-ordered and reproducible crystals and the models resulting from the analyses provide reagents and ...
20. 1qo4 (5,939 bytes)
    6: ... id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="metho...
    24: ...re of general importance to the use of homologous models and structure determination at low temperatures.

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