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Pettersen, EF; Goddard, TD; Huang, CC; Couch, GS; Greenblatt, DM; Meng, EC; Ferrin, TE (2004). "UCSF Chimera--a visualization system for exploratory research and analysis".
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214:. High-quality images and movies can be created. Chimera includes complete documentation and can be downloaded free of charge for noncommercial use.
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Chimera main window (FSH and receptor, 1xwd) and sequence window (alignment of FSH receptors from different species).
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Goddard, T. D.; Huang, C. C.; Meng, E. C.; Pettersen, E. F.; Couch, G. S.; Morris, J. H.; Ferrin, T. E. (2017).
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many formats of volume data maps (electron density, electrostatic potential, others) read, several written
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Chimera is developed by the
Resource for Biocomputing, Visualization, and Informatics (RBVI) at the
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several methods for calculating conservation and displaying values on associated structures
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225:(NIGMS grant P41-GM103311). The next-generation program is UCSF ChimeraX.
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Gaussian smoothing, Fourier transform, other filtering and normalization
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structure superposition with or without pre-existing sequence alignment
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movie recording is integrated with morphing and MD trajectory playback
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morphing between conformations of a protein or even different proteins
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Resource for
Biocomputing, Visualization, and Informatics (RBVI), UCSF
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ViewDock tool to facilitate interactive screening of docking results
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simple graphical interface for creating movies interactively
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renderings of density maps and other volume data (see below)
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trajectory playback (many formats), distance and angle plots
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List of quantum chemistry and solid-state physics software
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rich set of commands, powerful specification syntax
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221:. Development is partially supported by the
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424:many tools for segmenting and editing maps
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545:Software for molecular mechanics modeling
58:Learn how and when to remove this message
356:ellipsoids to show anisotropic B-factors
1123:List of protein-ligand docking software
709:University of California, San Francisco
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481:for homology modeling and loop building
291:many formats read, PDB and Mol2 written
219:University of California, San Francisco
509:trees in Newick format read/displayed
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267:structure building and bond rotation
948:List of molecular graphics systems
520:List of molecular graphics systems
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371:optional raytracing with bundled
234:automatic identification of atom
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1182:Molecular Operating Environment
1083:Molecular Operating Environment
202:) is an extensible program for
108:1.17.3 / 6 July 2023
775:Avalon Cheminformatics Toolkit
359:nonmolecular geometric objects
339:Presentation images and movies
244:, contact, and clash detection
31:comply with Knowledge (XXG)'s
29:This article needs editing to
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325:electrostatics calculations,
223:National Institutes of Health
1788:Molecular modelling software
699:Publications about Chimera
464:multiple sequence alignment
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321:charge/radius assignment,
229:General structure analysis
166:Free for noncommercial use
789:Chemistry Development Kit
208:supramolecular assemblies
204:interactive visualization
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435:Sequence-structure tools
212:conformational ensembles
750:Computational chemistry
110:; 14 months ago
460:search via Web service
344:high-resolution images
714:UCSF ChimeraX website
684:Program documentation
444:formats read, written
1687:JME Molecule Editor
936:Molecular modelling
525:Molecular modelling
294:Web and fetch from
154:Molecular modelling
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535:Molecular dynamics
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398:Volume data tools
381:and other formats
296:Protein Data Bank
259:Ramachandran plot
255:rotamer libraries
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48:November 2021
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1692:MarvinSketch
1098:UCSF Chimera
1097:
1068:MarvinSketch
784:Blue Obelisk
629:(1): 14–25.
626:
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612:
569:
565:
559:
474:Web services
216:
199:
196:UCSF Chimera
195:
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89:Developer(s)
71:UCSF Chimera
54:
45:
38:Please help
30:
1669:BIOVIA Draw
1657:Proprietary
1518:GAMESS (US)
1513:GAMESS (UK)
1456:Proprietary
1243:Proprietary
1164:Proprietary
1021:Proprietary
890:Proprietary
837:Chemicalize
824:Proprietary
263:contact map
253:amino acid
198:(or simply
1777:Categories
1682:ChemWindow
1673:ChemDoodle
1638:JChemPaint
1447:YAMBO code
1401:OpenMolcas
1073:MarvinView
1048:ChemWindow
809:Open Babel
551:References
261:, protein
257:, protein
115:2023-07-06
1759:OpenChrom
1648:XDrawChem
1643:Molsketch
1593:TURBOMOLE
1573:Quantemol
779:Bioclipse
574:CiteSeerX
1783:Freeware
1722:EXC code
1677:ChemDraw
1588:TeraChem
1578:Scigress
1548:OpenAtom
1523:Gaussian
1416:PyQuante
1341:CONQUEST
1336:COLUMBUS
1139:AutoDock
1078:MODELLER
1058:Gaussian
1043:ChemDraw
987:Ghemical
967:Avogadro
897:Autochem
752:software
688:Chimera
653:28710774
596:15264254
514:See also
479:MODELLER
456:protein
185:/chimera
1763:SASHIMI
1733:Mercury
1624:drawing
1583:Spartan
1508:Firefly
1503:CRYSTAL
1428:(PWscf)
1396:Octopus
1376:MADNESS
1361:DP code
1322:(CFOUR)
1271:Desmond
1251:Abalone
1218:GROMACS
1149:FlexAID
1093:Spartan
1063:Maestro
1028:Abalone
1007:QuteMol
997:Molekel
982:Gabedit
922:Khimera
912:COSILAB
907:CHEMKIN
876:Cantera
644:5734306
604:8747218
500:UniProt
373:POV-Ray
333:docking
319:PDB2PQR
312:UniProt
200:Chimera
172:Website
161:License
113: (
1754:Molden
1705:Others
1603:WIEN2k
1568:Q-Chem
1543:ONETEP
1538:MOLPRO
1533:MOLCAS
1528:Jaguar
1498:CRUNCH
1488:CASTEP
1483:CASINO
1478:CADPAC
1442:VB2000
1437:SIESTA
1406:PARSEC
1391:NWChem
1371:FreeON
1351:Dalton
1331:BigDFT
1326:AIMAll
1315:ABINIT
1276:GROMOS
1261:CHARMM
1233:PLUMED
1228:OpenMM
1223:LAMMPS
1177:LeDock
1088:SAMSON
1012:RasMol
977:Biskit
917:DelPhi
832:Canvas
799:JOELib
651:
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472:MUSCLE
1717:Eulim
1712:Aqion
1558:PLATO
1473:DMol3
1468:AMPAC
1421:PySCF
1381:MOPAC
1366:FLEUR
1356:DIRAC
1256:AMBER
1172:Glide
1154:rDock
1053:EzMol
1002:PyMOL
814:RDKit
804:OELib
600:S2CID
458:BLAST
440:many
308:CASTp
181:.ucsf
179:.rbvi
142:Linux
1729:GSim
1726:GenX
1608:XMVB
1598:VASP
1553:ORCA
1493:CPMD
1386:MPQC
1346:CP2K
1320:ACES
1281:NAMD
1266:CPMD
1213:CP2K
992:Jmol
972:BALL
939:and
871:APBS
794:ECCE
692:and
649:PMID
592:PMID
502:and
470:and
466:via
323:APBS
304:SCOP
300:CATH
183:.edu
149:Type
138:OS X
1743:ICM
1563:PQS
1463:ADF
1432:RMG
1411:PSI
1103:VMD
881:KPP
639:PMC
631:doi
584:doi
504:CDD
379:X3D
302:or
177:www
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