- PDB-3ggy: Crystal Structure of S.cerevisiae Ist1 N-terminal domain -
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Basic information
Entry
Database: PDB / ID: 3ggy
Title
Crystal Structure of S.cerevisiae Ist1 N-terminal domain
Components
Increased sodium tolerance protein 1
Keywords
PROTEIN TRANSPORT / ENDOCYTOSIS / ESCRT-III like / Phosphoprotein
Function / homology
Function and homology information
Sealing of the nuclear envelope (NE) by ESCRT-III / late endosome to vacuole transport via multivesicular body sorting pathway / Neutrophil degranulation / protein localization / protein transport / endosome / cytoplasm Similarity search - Function
Vacuolar protein sorting-associated protein Ist1 / Vacuolar protein sorting-associated protein Ist1 / Regulator of Vps4 activity in the MVB pathway / Vacuolar protein sorting-associated protein IST1-like / Ferritin / Up-down Bundle / Mainly Alpha Similarity search - Domain/homology
Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray
Radiation wavelength
Wavelength: 0.9793 Å / Relative weight: 1
Reflection
Redundancy: 6.3 % / Av σ(I) over netI: 30.26 / Number: 121168 / Rmerge(I) obs: 0.061 / Χ2: 1.09 / D res high: 2.85 Å / D res low: 50 Å / Num. obs: 19282 / % possible obs: 96.9
Diffraction reflection shell
Highest resolution (Å)
Lowest resolution (Å)
% possible obs (%)
ID
Rmerge(I) obs
Chi squared
Redundancy
7.73
50
91.8
1
0.034
3.056
6
6.14
7.73
94.7
1
0.047
1.277
6.4
5.36
6.14
95.4
1
0.051
1.23
6.4
4.87
5.36
95.7
1
0.043
1.206
6.4
4.52
4.87
95.9
1
0.042
1.202
6.3
4.26
4.52
95.8
1
0.044
1.373
6.3
4.04
4.26
96.8
1
0.05
1.113
6.4
3.87
4.04
96.9
1
0.055
1.109
6.4
3.72
3.87
97.4
1
0.062
1.046
6.3
3.59
3.72
97
1
0.073
1.02
6.3
3.48
3.59
97.7
1
0.08
1.028
6.3
3.38
3.48
97.5
1
0.09
0.954
6.3
3.29
3.38
98
1
0.097
0.866
6.3
3.21
3.29
98
1
0.107
0.806
6.3
3.14
3.21
98.3
1
0.119
0.808
6.2
3.07
3.14
98.1
1
0.132
0.777
6.3
3.01
3.07
98.4
1
0.133
0.743
6.2
2.95
3.01
98.2
1
0.154
0.743
6.3
2.9
2.95
98.6
1
0.157
0.742
6.1
2.85
2.9
98.9
1
0.177
0.686
6.2
Reflection
Resolution: 1.7→50 Å / Num. obs: 43548 / % possible obs: 98.9 % / Redundancy: 3.7 % / Rmerge(I) obs: 0.043 / Χ2: 1.014 / Net I/σ(I): 30.261
Reflection shell
Resolution (Å)
Redundancy (%)
Rmerge(I) obs
Num. unique all
Χ2
% possible all
1.7-1.73
3.4
0.204
2076
0.671
95.1
1.73-1.76
3.5
0.195
2105
0.682
95.8
1.76-1.79
3.6
0.178
2113
0.704
98.2
1.79-1.83
3.7
0.161
2180
0.752
98.6
1.83-1.87
3.8
0.145
2140
0.757
98.8
1.87-1.91
3.8
0.131
2203
0.763
98.9
1.91-1.96
3.8
0.117
2140
0.795
99.4
1.96-2.02
3.8
0.101
2185
0.912
98.7
2.02-2.07
3.8
0.087
2148
1.002
100
2.07-2.14
3.8
0.077
2173
1.042
99
2.14-2.22
3.8
0.066
2195
1.057
99.3
2.22-2.31
3.8
0.06
2201
1.072
100
2.31-2.41
3.8
0.053
2182
1.062
99.5
2.41-2.54
3.8
0.047
2182
0.997
99.7
2.54-2.7
3.8
0.047
2206
1.156
99.8
2.7-2.91
3.8
0.049
2213
1.444
99.9
2.91-3.2
3.8
0.04
2203
1.377
99.7
3.2-3.66
3.7
0.032
2218
1.429
99.8
3.66-4.61
3.7
0.024
2211
1.384
99
4.61-50
3.6
0.026
2274
1.074
98.1
-
Processing
Software
Name
Version
Classification
NB
DENZO
datareduction
SCALEPACK
datascaling
CNS
refinement
PDB_EXTRACT
3.006
dataextraction
SHARP
phasing
Refinement
Resolution: 1.7→50 Å / Occupancy max: 1 / Occupancy min: 1 / FOM work R set: 0.822 / σ(F): 0
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