EMDB Solr Search Field Documentation
refinement_software
Software used during refinement
Yes
Yes
Yes
Name: Refinement Software
Type: text
Provenance: Depositor
Archive: EMDB
refinement_software:"example"
Contains the word:
refinement_software:word
Partial match:
refinement_software:wor*
refinement_software:*ord
Has any value:
refinement_software:[* TO *]
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C3 local refinement of Urea Transporter B (SLC14A1) bound to human stomatin oligomer
Paranemic crossover triangle (PXT) with 2'-Fluoro-modified pyrimidines (FY RNA)
5-Helix Tile - Twist Corrected (5HT-TC) with 2'-Fluoro-modified pyrimidines (FY RNA)
Single particle cryo electron microscopy of a Fab fragment bound to recombinant human CD40 ligand
Subtomogram average of synaptic microtubule from rat hippocampal neurons
MBP-maltose bound to distal DARPin (AHIR dodecamer scaffold system)
6-Helix Bundle - with a Clasp (6HB-C)-monomer with 2'-Fluoro-modified pyrimidines (FY RNA)
Control media rat neuronal 80S ribosome state - peptide bond formation
Flagella filament structure in H. pylori composed of flagellin FlaA
Nutrient deprived rat neuronal 80S ribosome state - hibernating IV
Nutrient deprived rat neuronal 80S ribosome state - pre-translocating
Nutrient deprived rat neuronal 80S ribosome state - peptide bond formation
Nutrient deprived rat neuronal 80S ribosome state - hibernating II
Nutrient deprived rat neuronal 80S ribosome state - hibernating III
The structure of a Bacterial Cyanide Dihydratase from Bacillus safensis PER-URP-08
The structure of a Fungal Cyanide Hydratase from Gloeocercospora sorghi
SARS-CoV-2 BA.1 S6P (HexaPro) + COV2-3835 Fab Local Refinement Map (RBD + Fv)
Human TRPM4 ion channel in MSP2N2 lipid nanodisc in a calcium-bound state
Structure of the MAP2K MEK1 without bound nucleotide in complex with its substrate MAPK ERK2
Cryo-EM structure of the type VII CRISPR-Cas14 effector complex (Cas7.7/Cas7.8 focused)
Cryo-EM structure of the type VII CRISPR-Cas14 effector complex (Cas14.2/Cas14.4 focused)
Cryo-EM structure of the type VII CRISPR-Cas14 effector complex (Cas5 focused)
Cryo-EM structure of Sigma28-RNAP open promoter complex from Pseudomonas aeruginosa
Structural insights into photosystem II supercomplex of a a siphonous green algae Bryopsis corticulans from intertidal zone
Structure of PSI-LHCI-LHCII supercomplex from Bryopsis corticulans
Cryo-EM structure of human DNMT3A2-DNMT3B3 complex bound to di-nucleosome
Cryo-EM Structure of Receptor Tyrosine Kinase ROS1 in Complex with Fab-CT4
Negative stain EM map of H1 HA (A/California/4/2009) in complex with monoclonal fab ST15
Negative stain EM map of H1 HA (A/California/4/2009) in complex with monoclonal fab ST10
Negative stain EM map of H1 HA (A/California/4/2009) in complex with monoclonal fab ST6 and monoclonal fab 045-09 2B05
Negative stain EM map of H1 HA (A/California/4/2009) in complex with monoclonal fab ST14
Negative stain EM map of H1 HA (A/California/4/2009) in complex with monoclonal fab ST4
Negative stain EM map of H1 HA (A/California/4/2009) in complex with monoclonal fab ST13
Cryo-EM structure of AMPPNP bound human phosphoribosylformylglycinamidine synthase
Negative stain EM map of H1 HA (A/California/4/2009) in complex with monoclonal fab ST18
Negative stain EM map of H1 HA (A/California/4/2009) in complex with monoclonal fab ST17
Cryo-EM structure of ternary complex of human phosphoribosylglycinamidine synthase with the intermediate (iminophosphate) and ADP bound at the synthase site.
Cryo-EM structure of quaternary complex of human phosphoribosylglycinamidine synthase with thioester intermediate bound (at glutaminase site) and AMPPNP and FGAR (at synthase site).
Bordetella filamentous hemagglutinin (FhaB) C-terminal domain bound to microtubules, ab initio
Bordetella filamentous hemagglutinin (FhaB) C-terminal domain bound to microtubules
Bordetella filamentous hemagglutinin (FhaB) C-terminal domain bound to 14-3 microtubules, aligned
Bordetella filamentous hemagglutinin (FhaB) C-terminal domain bound to 14-3 microtubules
Bordetella filamentous hemagglutinin (FhaB) C-terminal domain bound to microtubules at the seam
CryoEM structure of M. mazei topoisomerase VI(A-E342Q)-minicircle DNA complex in cleavage state
CryoEM structure of M. mazei topoisomerase VI(A-E342Q)-minicircle DNA complex in asymmetric state
Cryo-EM structure of primidone-bound rabbit TRPM3 having 2 resting and 2 activated subunits (ortho position) at 18 degrees Celsius
CryoEM structure of M. mazei topoisomerase VI-minicircle DNA complex in asymmetric state
CryoEM structure of M. mazei topoisomerase VI-minicircle DNA complex in partially unfolded transducer state
CryoEM structure of M. mazei topoisomerase VI-minicircle DNA complex
Mycoplasma penetrans Methionyl tRNA Synthetase is an Asymmetric Dimer fused to N-terminal Ancillary Domains
Cryo-EM structure of chicken NEL dimer bound with one human NICOL.
Cryo-EM structure of chicken ROS1 in apo-state. Cryo-EM refinement is focused on the "leg" region of chicken ROS1.
Cryo-EM structure of chicken ROS1 in apo-state. Cryo-EM refinement is focused on the "head" region of chicken ROS1.
Cryo-EM structure of 1:2:1 ROS1/NEL/NICOL holo-complex, conformation 1.
Cryo-EM structure of 1:2:1 ROS1/NEL/NICOL holo-complex, conformation 2.
Andes virus glycoprotein tetramer in complex with ADI-65534 Fab (Global map)
The cryo-EM structure of C. crescentus DriD-ssDNA-RNAP-Sigma73-bapE promoter transcription activation complex
Andes virus glycoprotein tetramer in complex with ADI-65534 Fab (Local map)
Cryo-EM structure of chicken ROS1 in apo-state. This is the complete map and model.
The cryo-EM structure of C. crescentus DriD-ssDNA-RNAP-Sigma73-didA promoter transcription activation complex
The cryo-EM structure of C. crescentus DriD-ssDNA-RNAP-Sigma73-CCNA_03891/CCNA_01149 promoter transcription activation complex
The cryo-EM structure of C. crescentus RNAP-Sigma73-CCNA_03891/CCNA_01149 promoter complex
Cryo-EM structure of ATPgammaS-bound Vientovirus FB Rep hexamer with endonuclease domain density
Cryo-EM structure of ATPgammaS-bound Vientovirus FB Rep double hexamer with C1 symmetry
Cryo-EM structure of ATPgammaS-bound Vientovirus FB Rep double hexamer with C6 symmetry
Cryo-EM structure of the human inward-rectifier potassium 7.1 channel (Kir7.1) extended state
Cryo-EM structure of receptor tyrosine kinase ROS1 extracellular domain in complex with NELL2
Cryo-EM structure of the human inward-rectifier potassium 7.1 channel (Kir7.1) docked state
Cryo-EM structure of the human inward-rectifier potassium 7.1 channel (Kir7.1) with enantiomer of 17-hydroxyprogesterone caproate
Cryo-EM structure of receptor tyrosine kinase ROS1 extracellular domain
Cryo-EM map of Mycobacterium tuberculosis pyruvate dehydrogenase complex E2p core subunit DlaT in a hexamer state
Cryo-EM map of Mycobacterium tuberculosis pyruvate dehydrogenase complex E2p core subunit DlaT in a two-hexamer state
Cryo-EM map of Mycobacterium tuberculosis pyruvate dehydrogenase complex E2p core subunit DlaT bound to coenzyme A in a hexamer state
HIV-1 CA hexamer from purified viral cores bound to lenacapavir, C6 symmetry
Cryo-EM map of Corynebacterium glutamicum pyruvate dehydrogenase complex E2p core in a trimer state
Human sterile alpha motif domain-containing protein 9 (SAMD9), monomer
Human sterile alpha motif domain-containing protein 9 (SAMD9), symmetric dimer
Human sterile alpha motif domain-containing protein 9 (SAMD9), loss-of-function mutant R837A
Human sterile alpha motif domain-containing protein 9 (SAMD9), loss-of-function mutant R685Q/G686C/I968C
Human sterile alpha motif domain-containing protein 9 (SAMD9), asymmetric dimer "wing" shape
Human sterile alpha motif domain-containing protein 9 (SAMD9), asymmetric dimer "shell" shape
Cryo-EM structure of Receptor Tyrosine Kinase ROS1 in complex with Fab-RX5
Cryo-EM structure of receptor tyrosine kinase ROS1 in complex with NELL2
Structure of amplified aSyn filament by using seed amplification assay (SAA) from MSA patient CSF.
Roseiflexus cells from microbial mat with contractile injection systems.
Roseiflexus castenholzii cells with contractile injection systems.
Roseiflexus castenholzii cells with contractile injection systems.
Roseiflexus cell from microbial mat with contractile injection systems.
Calidithermus chliarophilus cells with contractile injection systems.
Roseiflexus cell from microbial mat with contracted contractile injection systems.
Roseiflexus cells from microbial mat with contractile injection systems.
Roseiflexus cells from microbial mat with contracted contractile injection systems.
Roseiflexus cells from microbial mat with contractile injection systems.
Lysed Roseiflexus cells from microbial mat with contracted contractile injection systems.
Roseiflexus cells from microbial mat with contractile injection systems.
Roseiflexus cells from microbial mat with contracted contractile injection systems.
Roseiflexus cells from microbial mat with contractile injection systems.
Roseiflexus cell from microbial mat with contracted contractile injection systems.
Roseiflexus cell from microbial mat with contracted contractile injection systems.
Roseiflexus cells from microbial mat with contractile injection systems.
Cryo-EM structure of Oceanobacillus iheyensis group II intron domains D1-D5
Cryo-EM structure of Oceanobacillus iheyensis group II intron domains D1-D5
Outward-open structure of human glycine transporter 2 bound to allosteric inhibitor RPI-GLYT2-82
Outward-open structure of human glycine transporter 2 bound to allosteric inhibitor ORG25543
Inward-open structure of human glycine transporter 2 in substrate-free state
Inward-occluded structure of human glycine transporter 2 bound to substrate glycine
A 3D density map of a 2D lattice formed by octahedral DNA origami with 100% loaded ferritin, was revealed by IMOD (Tomo #1).
A non-averaged 3D density map of an individual particle, with a 2D lattice formed by octahedral DNA origami and ferritin, was revealed by individual particle cryo-electron tomography (Arm #11 of Particle #001).
A 3D density map of a 2D lattice formed by octahedral DNA origami with 100% loaded ferritin, was revealed by IMOD (Tomo #2).
A non-averaged 3D density map of an individual particle, with a 2D lattice formed by octahedral DNA origami and ferritin, was revealed by individual particle cryo-electron tomography (Arm #09 of Particle #001).
NAC H59-docked barrel: Ribosome nascent chain complex (Oxa1LdelMTS)
A 3D density map of a 2D lattice formed by octahedral DNA origami without ferritin, was revealed by IMOD (Tomo #4).
Cryo-ET of FIB-milled synapse region between CD19+ NALM6 leukemia cells and T-cells expressing 8H47 CD19 CAR construct (sample 2)
Cryo-ET of FIB-milled synapse region between CD19+ NALM6 leukemia cells and T-cells expressing 8H8 CD19 CAR construct (sample2, region1)
A 3D density map of a 2D lattice formed by octahedral DNA origami with 70% loaded ferritin, was revealed by IMOD (Tomo #3).
NAC H59-undocked barrel: Ribosome nascent chain complex (Oxa1LdelMTS)
Structure of the MOR/Gi/DAMGO Complex, GTP-Bound, G-ACT-2/3 Consensus Refinement
Cryo-EM structure of the Cytoplasmic lattice(CPL) from mouse oocyte
Sub-particle structure of the iterative acetyltransferase from Actinomycetes in complex with AcCoA and monoacetylated lasso peptides
Cryo-EM map of a 3-repeat filament from mouse oocyte Cytoplasmic Lattice (CPL)
Cryo EM structure of elk ACE2 in complex with SARS-CoV-2 spike trimer
C1 local refinement of aquaporin 1 bound to endogenous human stomatin
Activated Leptotrichia buccalis (Lbu) CRISPR-Cas13a bound to AI-designed anti-CRISPR AIcrVIA1