Entry STF0009
C-terminal domain of rat CD2 (CD2.D1)
Protein information
| Name of the protein: | T-cell surface antigen CD2 |
| Organism: | Rattus norvegicus |
| Number of residues: | 98 |
| Related UniProt entry: | P08921 (Fragment: 23 - 121) |
| Related PDB entry: | 1A64 |
Visualize the data
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Experiment sets
EARLY
Method: HDX-folding competition by NMR
Conditions: pH 6.0-10.0; 25.0 Celsius; Probes: 42
Related publication:
PMID 9341233
Experiment details: "A 0.5 mL amount of a 2 mM sample of 15N-labeled CD2.D1 in H2O, containing 2.8 M GuHCl, was mixed against 8.3 vol of D2O, containing 25 mM sodium borate and 25 mM NaH2PO4, at the appropriate pH (not corrected), and 0.448 M Na2SO4, at 25C in a custom-built, rapid mixing device with a dead time of 2-3 ms (gives final concentrations of Na2SO4 and GuHCl of 0.4 and 0.3 M, respectively). Exchange was then quenched by the rapid addition (delay time = 2 s) of 6 mL of ice-cold D2O containing 100 mM sodium d3-acetate, pH 4.0."
Protection threshold: ln(P) > 1.0
Sequence:
RDSGTVWGALGHGINLNIPNFQMTDDIDEVRWERGSTLVAEFKRK__PFLKSGAFEILANGDLKIKNLTRDDSGTYNVTVYSTNGTRILDKALDLRILE
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EARLY residues
8: G;
28: D;
31: R;
34: R;
42: F;
55: F;
56: E;
61: G;
62: D;
65: I;
74: G;
76: Y;
77: N;
78: V;
79: T;
80: V;
82: S;
91: K;
94: D;
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INTERMEDIATE
Method: HDX-folding competition by NMR
Conditions: pH 6.0-10.0; 25.0 Celsius; Probes: 42
Related publication:
PMID 9341233
Experiment details: "A 0.5 mL amount of a 2 mM sample of 15N-labeled CD2.D1 in H2O, containing 2.8 M GuHCl, was mixed against 8.3 vol of D2O, containing 25 mM sodium borate and 25 mM NaH2PO4, at the appropriate pH (not corrected), and 0.448 M Na2SO4, at 25C in a custom-built, rapid mixing device with a dead time of 2-3 ms (gives final concentrations of Na2SO4 and GuHCl of 0.4 and 0.3 M, respectively). Exchange was then quenched by the rapid addition (delay time = 2 s) of 6 mL of ice-cold D2O containing 100 mM sodium d3-acetate, pH 4.0."
Protection threshold: 0.5 < ln(P) < 1.0
Sequence:
RDSGTVWGALGHGINLNIPNFQMTDDIDEVRWERGSTLVAEFKRK__PFLKSGAFEILANGDLKIKNLTRDDSGTYNVTVYSTNGTRILDKALDLRILE
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INTERMEDIATE residues
14: I;
32: W;
40: A;
41: E;
58: L;
63: L;
64: K;
68: L;
72: D;
81: Y;
93: L;
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LATE
Method: HDX-folding competition by NMR
Conditions: pH 6.0-10.0; 25.0 Celsius; Probes: 42
Related publication:
PMID 9341233
Experiment details: "A 0.5 mL amount of a 2 mM sample of 15N-labeled CD2.D1 in H2O, containing 2.8 M GuHCl, was mixed against 8.3 vol of D2O, containing 25 mM sodium borate and 25 mM NaH2PO4, at the appropriate pH (not corrected), and 0.448 M Na2SO4, at 25C in a custom-built, rapid mixing device with a dead time of 2-3 ms (gives final concentrations of Na2SO4 and GuHCl of 0.4 and 0.3 M, respectively). Exchange was then quenched by the rapid addition (delay time = 2 s) of 6 mL of ice-cold D2O containing 100 mM sodium d3-acetate, pH 4.0."
Protection threshold: 0 < ln(P) < 0.5
Sequence:
RDSGTVWGALGHGINLNIPNFQMTDDIDEVRWERGSTLVAEFKRK__PFLKSGAFEILANGDLKIKNLTRDDSGTYNVTVYSTNGTRILDKALDLRILE
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LATE residues
16: L;
30: V;
57: I;
88: I;
95: L;
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STRONG
Method: Native exchange NMR
Conditions: pH 5.5; 25.0 Celsius; Probes: 35
Related publication:
PMID 11152615
Experiment details: "Freeze-dried 15N-labeled CD2.D1 was dissolved to a concentration of 0.5 mM in D2O, containing 25 mM KH2PO4 (pH* 5.5), 0.2 M Na2SO4, 0.02% sodium azide and the appropriate concentration of Gu2HCl. For each concentration of Gu2HCl, a series of 1H-15N heteronuclear single quantum coherence (HSQC) spectra were acquired at appropriate time intervals in a 500 MHz spectrometer at 25 °C."
Protection threshold: ΔG1 > 6.5
Sequence:
RDSGTVWGALGHGINLNIPNFQMTDDIDEVRWERGSTLVAEFKRK__PFLKSGAFEILANGDLKIKNLTRDDSGTYNVTVYSTNGTRILDKALDLRILE
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STRONG residues
14: I;
16: L;
30: V;
31: R;
32: W;
33: E;
62: D;
63: L;
64: K;
65: I;
76: Y;
77: N;
78: V;
79: T;
80: V;
81: Y;
93: L;
95: L;
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MEDIUM
Method: Native exchange NMR
Conditions: pH 5.5; 25.0 Celsius; Probes: 35
Related publication:
PMID 11152615
Experiment details: "Freeze-dried 15N-labeled CD2.D1 was dissolved to a concentration of 0.5 mM in D2O, containing 25 mM KH2PO4 (pH* 5.5), 0.2 M Na2SO4, 0.02% sodium azide and the appropriate concentration of Gu2HCl. For each concentration of Gu2HCl, a series of 1H-15N heteronuclear single quantum coherence (HSQC) spectra were acquired at appropriate time intervals in a 500 MHz spectrometer at 25 °C."
Protection threshold: 4 < ΔG1 < 6.5
Sequence:
RDSGTVWGALGHGINLNIPNFQMTDDIDEVRWERGSTLVAEFKRK__PFLKSGAFEILANGDLKIKNLTRDDSGTYNVTVYSTNGTRILDKALDLRILE
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MEDIUM residues
8: G;
29: E;
34: R;
37: T;
40: A;
42: F;
56: E;
58: L;
61: G;
74: G;
94: D;
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