DNA-binding protein 7d
UniProt P39476 · gene sso7d · Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2) · 64 residues
25evidence items
0mapped to a state
0states
6techniques
4sources
0conflicts
Coverage grid
Mapped evidence per state and technique. Shaded rows rest on a single technique. Badge = best data level in the cell: raw (traces, images, FIDs: can be re-analysed), proc (maps, curves, tables, trajectories) or rep (values in the paper only).
| State | Basis | xray | cryoem | nmr_structure | nmr_shifts | force_spectroscopy | af_prediction | Total |
|---|---|---|---|---|---|---|---|---|
| No states defined yet. | ||||||||
Unmapped evidence: 25 of 25 items. Mappings come from curator assignments and curated rules; see About for how rules work.
Sources
| Source | Evidence | Mapped |
|---|---|---|
| AlphaFold DB | 1 | 0 |
| BMRB | 1 | 0 |
| RCSB PDB | 22 | 0 |
| SMASH-BIO | 1 | 0 |
Structure
No state models are exported for this protein yet. Observed states export the representative PDB entry; inferred states need fitted models, not yet built.
States and transitions
No states defined.
| State | Basis | Parent | Description |
|---|
No transitions recorded in this version (no rate or free-energy evidence has been curated yet).
Evidence
One row per deposit or experiment. Filter by technique, environment or text. Unmapped evidence is listed too.
| Evidence | Technique | Observable | Conditions | Mapped to state |
|---|---|---|---|---|
| EV-PDB-1BBX-2 RCSB PDB | nmr_structure | structure | in vitro · 49.85 °C · pH 5 NON-SPECIFIC PROTEIN-DNA INTERACTIONS IN THE SSO7D-DNA COMPLEX, NMR, 1 STRUCTURE · DNA-BINDING PROTEIN 7D (chains C,D) | unmapped |
| EV-PDB-1BNZ-2 RCSB PDB | xray | resolution: 2 Å | in vitro · 13.85 °C · pH 6.5 SSO7D HYPERTHERMOPHILE PROTEIN/DNA COMPLEX · DNA-BINDING PROTEIN 7A (chains A) | unmapped |
| EV-PDB-1C8C-2 RCSB PDB | xray | resolution: 1.45 Å | in vitro · -150.15 °C · pH 6.5 CRYSTAL STRUCTURES OF THE CHROMOSOMAL PROTEINS SSO7D/SAC7D BOUND TO DNA CONTAINING T-G MISMATCHED BASE PAIRS · DNA-BINDING PROTEIN 7A (chains A) | unmapped |
| EV-PDB-1JIC-1 RCSB PDB | nmr_structure | structure | in vitro · 26.85 °C · pH 4.5 SOLUTION NMR STRUCTURE OF RECOMBINANT SSO7D WITH RNASE ACTIVITY, MINIMIZED AVERAGE STRUCTURE · SSO7D (chains A) | unmapped |
| EV-PDB-5B0J-1 RCSB PDB | xray | resolution: 2.5 Å | in vitro · -173.15 °C · pH 8.1 · ligands UMQ Structure of MoeN5-Sso7d fusion protein in complex with beta-undecyl maltoside · MoeN5,DNA-binding protein 7d (chains A,B,C,D) | unmapped |
| EV-PDB-5B0K-1 RCSB PDB | xray | resolution: 2.75 Å | in vitro · -173.15 °C · pH 8.1 · ligands DMU Structure of MoeN5-Sso7d fusion protein in complex with beta-decyl maltoside · MoeN5,DNA-binding protein 7d (chains A,B,C,D) | unmapped |
| EV-PDB-5B0L-1 RCSB PDB | xray | resolution: 2.8 Å | in vitro · -173.15 °C · pH 8.1 · ligands BNG Structure of MoeN5-Sso7d fusion protein in complex with beta-nonyl glucoside · MoeN5,DNA-binding protein 7d (chains A,B,C,D,E,F,G,H) | unmapped |
| EV-PDB-5B0M-1 RCSB PDB | xray | resolution: 3.05 Å | in vitro · -173.15 °C · pH 8.1 · ligands LMT Structure of MoeN5-Sso7d fusion protein in complex with beta-dodecyl maltoside · MoeN5,DNA-binding protein 7d (chains A,B,C,D,E,F,G,H) | unmapped |
| EV-PDB-5GWV-1 RCSB PDB | xray | resolution: 2.4 Å | in vitro · -173.15 °C · pH 8.1 · ligands 78S Structure of MoeN5-Sso7d fusion protein in complex with a substrate analogue · MoeN5,DNA-binding protein 7d (chains A,B,C,D) | unmapped |
| EV-PDB-5GWW-1 RCSB PDB | xray | resolution: 2.3 Å | in vitro · -173.15 °C · pH 8.1 · ligands 7B5 Structure of MoeN5-Sso7d fusion protein in complex with a permethylated substrate analogue · MoeN5,DNA-binding protein 7d (chains A,B,C,D) | unmapped |
| EV-PDB-5U1C-1 RCSB PDB | cryoem | resolution: 3.9 Å | in vitro · ligands MG, ZN Structure of tetrameric HIV-1 Strand Transfer Complex Intasome · HIV-1 Integrase, Sso7d chimera (chains A,B,C,D) | unmapped |
| EV-PDB-6PUT-1 RCSB PDB | cryoem | resolution: 2.9 Å | in vitro · ligands CA, ZN Structure of HIV cleaved synaptic complex (CSC) intasome bound with calcium · Chimeric Sso7d and HIV-1 integrase (chains A,B,C,D) | unmapped |
| EV-PDB-6PUW-1 RCSB PDB | cryoem | resolution: 2.9 Å | in vitro · ligands KLQ, MG, ZN Structure of HIV cleaved synaptic complex (CSC) intasome bound with magnesium and Bictegravir (BIC) · Chimeric Sso7d and HIV-1 integrase (chains A,B,C,D) | unmapped |
| EV-PDB-6PUZ-1 RCSB PDB | cryoem | resolution: 2.8 Å | in vitro · ligands MG, XXJ, ZN Structure of HIV cleaved synaptic complex (CSC) intasome bound with magnesium and INSTI XZ446 (compound 4f) · Chimeric Sso7d and HIV-1 integrase (chains A,B,C,D) | unmapped |
| EV-PDB-6V3K-1 RCSB PDB | cryoem | resolution: 3.4 Å | in vitro · ligands MG, QUW, ZN Structure of HIV cleaved synaptic complex (CSC) intasome bound with magnesium and INSTI XZ419 (compound 4c) · Chimeric Sso7d and HIV-1 integrase (chains A,B,C,D) | unmapped |
| EV-PDB-6VOY-1 RCSB PDB | cryoem | resolution: 3.7 Å | in vitro · ligands MG, ZN Cryo-EM structure of HTLV-1 instasome · DNA-binding protein 7d (chains A,B,C,D) | unmapped |
| EV-PDB-6PUY-1 RCSB PDB | cryoem | resolution: 2.8 Å | in vitro · ligands MG, OZ1, ZN Structure of HIV cleaved synaptic complex (CSC) intasome bound with magnesium and INSTI XZ426 (compound 4d) · Chimeric Sso7d and HIV-1 integrase (chains A,B,C,D) | unmapped |
| EV-PDB-6J8W-1 RCSB PDB | xray | resolution: 2.35 Å | in vitro · -173.15 °C · pH 8.1 · ligands C0X Structure of MOEN5-SSO7D fusion protein in complex with lig 1 · MoeN5,DNA-binding protein 7d (chains A,B,C,D) | unmapped |
| EV-PDB-6J8V-1 RCSB PDB | xray | resolution: 2.23 Å | in vitro · -173.15 °C · pH 8.1 · ligands FAR Structure of MOEN5-SSO7D fusion protein in complex with ligand 2 · MoeN5,DNA-binding protein 7d (chains A,B,C,D) | unmapped |
| EV-PDB-5B0I-1 RCSB PDB | xray | resolution: 2.26 Å | in vitro · -173.15 °C · pH 8.1 · ligands BOG Structure of MoeN5-Sso7d fusion protein in complex with beta-octyl glucoside · MoeN5,DNA-binding protein 7d (chains A,B,C,D) | unmapped |
| EV-PDB-5B03-1 RCSB PDB | xray | resolution: 2.6 Å | in vitro · -173.15 °C · pH 8.1 · ligands GPP Structure of MoeN5-Sso7d fusion protein in complex with geranyl pyrophosphate · MoeN5,DNA-binding protein 7d (chains A,B,C,D) | unmapped |
| EV-PDB-5B02-1 RCSB PDB | xray | resolution: 2.21 Å | in vitro · -173.15 °C · pH 8.1 Structure of the prenyltransferase MoeN5 with a fusion protein tag of Sso7d · MoeN5,DNA-binding protein 7d (chains A,B,C,D) | unmapped |
| EV-BMRB-5909 BMRB | nmr_shifts | chemical_shift | in vitro · 29.85 °C · pH 5.15 Backbone 1HN and 15N Chemical Shift Assignments for Sso7d · BMRB data: 1H chemical shifts, 13C chemical shifts, 15N chemical shifts | unmapped |
| EV-AFDB-AF-P39476-F1 AlphaFold DB | af_prediction | plddt: 91.38 pLDDT | in silico AlphaFold DB prediction AF-P39476-F1 · AlphaFold Monomer v2.0 pipeline, residues 1-64 | unmapped |
| EV-SMASH-SMFS-003108 SMASH-BIO | force_spectroscopy | study_record | in vitro · pH 3 Force and Scale Dependence of the Elasticity of Self-Assembled DNA Bottle Brushes. · Sso7d; optical tweezers; experiment class: nucleic_acid_protein_interaction | unmapped |
Conflicts
No conflicts found among comparable evidence.
25 evidence items could not be compared: they lack a comparable observable type, a value, or an uncertainty. Absence of a conflict here is not agreement.