0.028249
0.000000
0.005737
0.000000
0.016972
0.000000
0.000000
0.000000
0.027897
0.00000
0.00000
0.00000
Komander, D.
Deak, M.
Alessi, D.R.
Van Aalten, D.M.F.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
2
90.00
101.48
90.00
35.399
58.922
36.578
C6 H16 O18 P4
500.075
INOSITOL-(1,3,4,5)-TETRAKISPHOSPHATE
non-polymer
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
Au 1
196.967
GOLD ION
non-polymer
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C3 H8 O3
92.094
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
non-polymer
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
UK
Embo J.
EMJODG
0897
0261-4189
23
3918
10.1038/SJ.EMBOJ.7600379
15457207
Structural Insights Into the Regulation of Pdk1 by Phosphoinositides and Inositol Phosphates
2004
DK
Acta Crystallogr.,Sect.D
ABCRE6
0766
0907-4449
60
314
10.1107/S0907444903028518
14747709
Purification, Crystallisation and Preliminary X-Ray Difffraction of a Proteolytic Fragment of Pdk1, Containing the Pleckstrin Homology Domain
2004
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100.0
1
CCD
2003-05-05
ADSC CCD
MAD
M
x-ray
1
0.861
1.0
1.040
1.0
BM14
ESRF
0.861,1.040
SYNCHROTRON
ESRF BEAMLINE BM14
17816.186
3-PHOSPHOINOSITIDE DEPENDENT PROTEIN KINASE-1
2.7.1.37
PLECKSTRIN HOMOLOGY DOMAIN, RESIDUES 409-556
1
man
polymer
92.094
GLYCEROL
1
syn
non-polymer
196.967
GOLD ION
1
syn
non-polymer
500.075
INOSITOL-(1,3,4,5)-TETRAKISPHOSPHATE
1
syn
non-polymer
18.015
water
217
nat
water
HPDK1
no
no
GPLGSNIEQYIHDLDSNSFELDLQFSEDEKRLLLEKQAGGNPWHQFVENNLILKMGPVDKRKGLFARRRQLLLTEGPHLY
YVDPVNKVLKGEIPWSQELRPEAKNFKTFFVHTPNRTYYLMDPSGNAHKWCRKIQEVWRQRYQSHPDAAVQ
GPLGSNIEQYIHDLDSNSFELDLQFSEDEKRLLLEKQAGGNPWHQFVENNLILKMGPVDKRKGLFARRRQLLLTEGPHLY
YVDPVNKVLKGEIPWSQELRPEAKNFKTFFVHTPNRTYYLMDPSGNAHKWCRKIQEVWRQRYQSHPDAAVQ
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
HUMAN
sample
9606
HOMO SAPIENS
511693
ESCHERICHIA COLI
BL21
PGEX
1
2.1
0.41
0.08 M MAGNESIUM ACETATE, 0.05M SODIUM CACODYLATE PH 6.5, 30 % PEG 4000
repository
Initial release
Version format compliance
Version format compliance
1
0
2004-11-19
1
1
2011-05-08
1
2
2011-07-13
HIGH RESOLUTION CRYSTAL STRUCTURE OF THE HUMAN PDK1 CATALYTIC DOMAIN
STRUCTURE OF HUMAN PDK1 KINASE DOMAIN IN COMPLEX WITH STAUROSPORINE
STRUCTURE OF HUMAN PDK1 KINASE DOMAIN IN COMPLEX WITH UCN-01
STRUCTURE OF HUMAN PDK1 KINASE DOMAIN IN COMPLEX WITH LY333531
STRUCTURE OF HUMAN PDK1 KINASE DOMAIN IN COMPLEX WITH BIM-2
STRUCTURE OF HUMAN PDK1 KINASE DOMAIN IN COMPLEX WITH BIM-1
STRUCTURE OF HUMAN PDK1 KINASE DOMAIN IN COMPLEX WITH BIM-3
STRUCTURE OF HUMAN PDK1 KINASE DOMAIN IN COMPLEX WITH BIM-8
CRYSTAL STRUCTURE OF THE PDK1 PLECKSTRIN HOMOLOGY (PH) DOMAIN BOUND TO DIC4-PHOSPHATIDYLINOSITOL (3,4,5)-TRISPHOSPHATE
CRYSTAL STRUCTURE OF THE PDK1 PLECKSTRIN HOMOLOGY (PH) DOMAIN
SHEET
THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN
ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW,
TWO SHEETS ARE DEFINED.
PDBE
Y
PDBE
2004-06-21
REL
1
A
O
HOH
2029
5.91
GOL
GLYCEROL
AU
GOLD ION
4IP
INOSITOL-(1,3,4,5)-TETRAKISPHOSPHATE
HOH
water
GOL
1550
2
GOL
GOL
1550
A
AU
1551
3
AU
AU
1551
A
4IP
1552
4
4IP
4IP
1552
A
HOH
2001
5
HOH
HOH
2001
A
HOH
2002
5
HOH
HOH
2002
A
HOH
2003
5
HOH
HOH
2003
A
HOH
2004
5
HOH
HOH
2004
A
HOH
2005
5
HOH
HOH
2005
A
HOH
2006
5
HOH
HOH
2006
A
HOH
2007
5
HOH
HOH
2007
A
HOH
2008
5
HOH
HOH
2008
A
HOH
2009
5
HOH
HOH
2009
A
HOH
2010
5
HOH
HOH
2010
A
HOH
2011
5
HOH
HOH
2011
A
HOH
2012
5
HOH
HOH
2012
A
HOH
2013
5
HOH
HOH
2013
A
HOH
2014
5
HOH
HOH
2014
A
HOH
2015
5
HOH
HOH
2015
A
HOH
2016
5
HOH
HOH
2016
A
HOH
2017
5
HOH
HOH
2017
A
HOH
2018
5
HOH
HOH
2018
A
HOH
2019
5
HOH
HOH
2019
A
HOH
2020
5
HOH
HOH
2020
A
HOH
2021
5
HOH
HOH
2021
A
HOH
2022
5
HOH
HOH
2022
A
HOH
2023
5
HOH
HOH
2023
A
HOH
2024
5
HOH
HOH
2024
A
HOH
2025
5
HOH
HOH
2025
A
HOH
2026
5
HOH
HOH
2026
A
HOH
2027
5
HOH
HOH
2027
A
HOH
2028
5
HOH
HOH
2028
A
HOH
2029
5
HOH
HOH
2029
A
HOH
2030
5
HOH
HOH
2030
A
HOH
2031
5
HOH
HOH
2031
A
HOH
2032
5
HOH
HOH
2032
A
HOH
2033
5
HOH
HOH
2033
A
HOH
2034
5
HOH
HOH
2034
A
HOH
2035
5
HOH
HOH
2035
A
HOH
2036
5
HOH
HOH
2036
A
HOH
2037
5
HOH
HOH
2037
A
HOH
2038
5
HOH
HOH
2038
A
HOH
2039
5
HOH
HOH
2039
A
HOH
2040
5
HOH
HOH
2040
A
HOH
2041
5
HOH
HOH
2041
A
HOH
2042
5
HOH
HOH
2042
A
HOH
2043
5
HOH
HOH
2043
A
HOH
2044
5
HOH
HOH
2044
A
HOH
2045
5
HOH
HOH
2045
A
HOH
2046
5
HOH
HOH
2046
A
HOH
2047
5
HOH
HOH
2047
A
HOH
2048
5
HOH
HOH
2048
A
HOH
2049
5
HOH
HOH
2049
A
HOH
2050
5
HOH
HOH
2050
A
HOH
2051
5
HOH
HOH
2051
A
HOH
2052
5
HOH
HOH
2052
A
HOH
2053
5
HOH
HOH
2053
A
HOH
2054
5
HOH
HOH
2054
A
HOH
2055
5
HOH
HOH
2055
A
HOH
2056
5
HOH
HOH
2056
A
HOH
2057
5
HOH
HOH
2057
A
HOH
2058
5
HOH
HOH
2058
A
HOH
2059
5
HOH
HOH
2059
A
HOH
2060
5
HOH
HOH
2060
A
HOH
2061
5
HOH
HOH
2061
A
HOH
2062
5
HOH
HOH
2062
A
HOH
2063
5
HOH
HOH
2063
A
HOH
2064
5
HOH
HOH
2064
A
HOH
2065
5
HOH
HOH
2065
A
HOH
2066
5
HOH
HOH
2066
A
HOH
2067
5
HOH
HOH
2067
A
HOH
2068
5
HOH
HOH
2068
A
HOH
2069
5
HOH
HOH
2069
A
HOH
2070
5
HOH
HOH
2070
A
HOH
2071
5
HOH
HOH
2071
A
HOH
2072
5
HOH
HOH
2072
A
HOH
2073
5
HOH
HOH
2073
A
HOH
2074
5
HOH
HOH
2074
A
HOH
2075
5
HOH
HOH
2075
A
HOH
2076
5
HOH
HOH
2076
A
HOH
2077
5
HOH
HOH
2077
A
HOH
2078
5
HOH
HOH
2078
A
HOH
2079
5
HOH
HOH
2079
A
HOH
2080
5
HOH
HOH
2080
A
HOH
2081
5
HOH
HOH
2081
A
HOH
2082
5
HOH
HOH
2082
A
HOH
2083
5
HOH
HOH
2083
A
HOH
2084
5
HOH
HOH
2084
A
HOH
2085
5
HOH
HOH
2085
A
HOH
2086
5
HOH
HOH
2086
A
HOH
2087
5
HOH
HOH
2087
A
HOH
2088
5
HOH
HOH
2088
A
HOH
2089
5
HOH
HOH
2089
A
HOH
2090
5
HOH
HOH
2090
A
HOH
2091
5
HOH
HOH
2091
A
HOH
2092
5
HOH
HOH
2092
A
HOH
2093
5
HOH
HOH
2093
A
HOH
2094
5
HOH
HOH
2094
A
HOH
2095
5
HOH
HOH
2095
A
HOH
2096
5
HOH
HOH
2096
A
HOH
2097
5
HOH
HOH
2097
A
HOH
2098
5
HOH
HOH
2098
A
HOH
2099
5
HOH
HOH
2099
A
HOH
2100
5
HOH
HOH
2100
A
HOH
2101
5
HOH
HOH
2101
A
HOH
2102
5
HOH
HOH
2102
A
HOH
2103
5
HOH
HOH
2103
A
HOH
2104
5
HOH
HOH
2104
A
HOH
2105
5
HOH
HOH
2105
A
HOH
2106
5
HOH
HOH
2106
A
HOH
2107
5
HOH
HOH
2107
A
HOH
2108
5
HOH
HOH
2108
A
HOH
2109
5
HOH
HOH
2109
A
HOH
2110
5
HOH
HOH
2110
A
HOH
2111
5
HOH
HOH
2111
A
HOH
2112
5
HOH
HOH
2112
A
HOH
2113
5
HOH
HOH
2113
A
HOH
2114
5
HOH
HOH
2114
A
HOH
2115
5
HOH
HOH
2115
A
HOH
2116
5
HOH
HOH
2116
A
HOH
2117
5
HOH
HOH
2117
A
HOH
2118
5
HOH
HOH
2118
A
HOH
2119
5
HOH
HOH
2119
A
HOH
2120
5
HOH
HOH
2120
A
HOH
2121
5
HOH
HOH
2121
A
HOH
2122
5
HOH
HOH
2122
A
HOH
2123
5
HOH
HOH
2123
A
HOH
2124
5
HOH
HOH
2124
A
HOH
2125
5
HOH
HOH
2125
A
HOH
2126
5
HOH
HOH
2126
A
HOH
2127
5
HOH
HOH
2127
A
HOH
2128
5
HOH
HOH
2128
A
HOH
2129
5
HOH
HOH
2129
A
HOH
2130
5
HOH
HOH
2130
A
HOH
2131
5
HOH
HOH
2131
A
HOH
2132
5
HOH
HOH
2132
A
HOH
2133
5
HOH
HOH
2133
A
HOH
2134
5
HOH
HOH
2134
A
HOH
2135
5
HOH
HOH
2135
A
HOH
2136
5
HOH
HOH
2136
A
HOH
2137
5
HOH
HOH
2137
A
HOH
2138
5
HOH
HOH
2138
A
HOH
2139
5
HOH
HOH
2139
A
HOH
2140
5
HOH
HOH
2140
A
HOH
2141
5
HOH
HOH
2141
A
HOH
2142
5
HOH
HOH
2142
A
HOH
2143
5
HOH
HOH
2143
A
HOH
2144
5
HOH
HOH
2144
A
HOH
2145
5
HOH
HOH
2145
A
HOH
2146
5
HOH
HOH
2146
A
HOH
2147
5
HOH
HOH
2147
A
HOH
2148
5
HOH
HOH
2148
A
HOH
2149
5
HOH
HOH
2149
A
HOH
2150
5
HOH
HOH
2150
A
HOH
2151
5
HOH
HOH
2151
A
HOH
2152
5
HOH
HOH
2152
A
HOH
2153
5
HOH
HOH
2153
A
HOH
2154
5
HOH
HOH
2154
A
HOH
2155
5
HOH
HOH
2155
A
HOH
2156
5
HOH
HOH
2156
A
HOH
2157
5
HOH
HOH
2157
A
HOH
2158
5
HOH
HOH
2158
A
HOH
2159
5
HOH
HOH
2159
A
HOH
2160
5
HOH
HOH
2160
A
HOH
2161
5
HOH
HOH
2161
A
HOH
2162
5
HOH
HOH
2162
A
HOH
2163
5
HOH
HOH
2163
A
HOH
2164
5
HOH
HOH
2164
A
HOH
2165
5
HOH
HOH
2165
A
HOH
2166
5
HOH
HOH
2166
A
HOH
2167
5
HOH
HOH
2167
A
HOH
2168
5
HOH
HOH
2168
A
HOH
2169
5
HOH
HOH
2169
A
HOH
2170
5
HOH
HOH
2170
A
HOH
2171
5
HOH
HOH
2171
A
HOH
2172
5
HOH
HOH
2172
A
HOH
2173
5
HOH
HOH
2173
A
HOH
2174
5
HOH
HOH
2174
A
HOH
2175
5
HOH
HOH
2175
A
HOH
2176
5
HOH
HOH
2176
A
HOH
2177
5
HOH
HOH
2177
A
HOH
2178
5
HOH
HOH
2178
A
HOH
2179
5
HOH
HOH
2179
A
HOH
2180
5
HOH
HOH
2180
A
HOH
2181
5
HOH
HOH
2181
A
HOH
2182
5
HOH
HOH
2182
A
HOH
2183
5
HOH
HOH
2183
A
HOH
2184
5
HOH
HOH
2184
A
HOH
2185
5
HOH
HOH
2185
A
HOH
2186
5
HOH
HOH
2186
A
HOH
2187
5
HOH
HOH
2187
A
HOH
2188
5
HOH
HOH
2188
A
HOH
2189
5
HOH
HOH
2189
A
HOH
2190
5
HOH
HOH
2190
A
HOH
2191
5
HOH
HOH
2191
A
HOH
2192
5
HOH
HOH
2192
A
HOH
2193
5
HOH
HOH
2193
A
HOH
2194
5
HOH
HOH
2194
A
HOH
2195
5
HOH
HOH
2195
A
HOH
2196
5
HOH
HOH
2196
A
HOH
2197
5
HOH
HOH
2197
A
HOH
2198
5
HOH
HOH
2198
A
HOH
2199
5
HOH
HOH
2199
A
HOH
2200
5
HOH
HOH
2200
A
HOH
2201
5
HOH
HOH
2201
A
HOH
2202
5
HOH
HOH
2202
A
HOH
2203
5
HOH
HOH
2203
A
HOH
2204
5
HOH
HOH
2204
A
HOH
2205
5
HOH
HOH
2205
A
HOH
2206
5
HOH
HOH
2206
A
HOH
2207
5
HOH
HOH
2207
A
HOH
2208
5
HOH
HOH
2208
A
HOH
2209
5
HOH
HOH
2209
A
HOH
2210
5
HOH
HOH
2210
A
HOH
2211
5
HOH
HOH
2211
A
HOH
2212
5
HOH
HOH
2212
A
HOH
2213
5
HOH
HOH
2213
A
HOH
2214
5
HOH
HOH
2214
A
HOH
2215
5
HOH
HOH
2215
A
HOH
2216
5
HOH
HOH
2216
A
HOH
2217
5
HOH
HOH
2217
A
n
1
406
A
PRO
407
n
2
PRO
407
A
LEU
408
n
3
LEU
408
A
GLY
409
n
4
GLY
409
A
SER
410
n
5
SER
410
A
ASN
411
n
6
ASN
411
A
ILE
412
n
7
ILE
412
A
GLU
413
n
8
GLU
413
A
GLN
414
n
9
GLN
414
A
TYR
415
n
10
TYR
415
A
ILE
416
n
11
ILE
416
A
HIS
417
n
12
HIS
417
A
ASP
418
n
13
ASP
418
A
LEU
419
n
14
LEU
419
A
ASP
420
n
15
ASP
420
A
SER
421
n
16
SER
421
A
ASN
422
n
17
ASN
422
A
SER
423
n
18
SER
423
A
PHE
424
n
19
PHE
424
A
GLU
425
n
20
GLU
425
A
LEU
426
n
21
LEU
426
A
ASP
427
n
22
ASP
427
A
LEU
428
n
23
LEU
428
A
GLN
429
n
24
GLN
429
A
PHE
430
n
25
PHE
430
A
SER
431
n
26
SER
431
A
GLU
432
n
27
GLU
432
A
ASP
433
n
28
ASP
433
A
GLU
434
n
29
GLU
434
A
LYS
435
n
30
LYS
435
A
ARG
436
n
31
ARG
436
A
LEU
437
n
32
LEU
437
A
LEU
438
n
33
LEU
438
A
LEU
439
n
34
LEU
439
A
GLU
440
n
35
GLU
440
A
LYS
441
n
36
LYS
441
A
GLN
442
n
37
GLN
442
A
ALA
443
n
38
ALA
443
A
GLY
444
n
39
GLY
444
A
GLY
445
n
40
GLY
445
A
ASN
446
n
41
ASN
446
A
PRO
447
n
42
PRO
447
A
TRP
448
n
43
TRP
448
A
HIS
449
n
44
HIS
449
A
GLN
450
n
45
GLN
450
A
PHE
451
n
46
PHE
451
A
VAL
452
n
47
VAL
452
A
GLU
453
n
48
GLU
453
A
ASN
454
n
49
ASN
454
A
ASN
455
n
50
ASN
455
A
LEU
456
n
51
LEU
456
A
ILE
457
n
52
ILE
457
A
LEU
458
n
53
LEU
458
A
LYS
459
n
54
LYS
459
A
MET
460
n
55
MET
460
A
GLY
461
n
56
GLY
461
A
PRO
462
n
57
PRO
462
A
VAL
463
n
58
VAL
463
A
ASP
464
n
59
ASP
464
A
LYS
465
n
60
LYS
465
A
ARG
466
n
61
ARG
466
A
LYS
467
n
62
LYS
467
A
GLY
468
n
63
GLY
468
A
LEU
469
n
64
LEU
469
A
PHE
470
n
65
PHE
470
A
ALA
471
n
66
ALA
471
A
ARG
472
n
67
ARG
472
A
ARG
473
n
68
ARG
473
A
ARG
474
n
69
ARG
474
A
GLN
475
n
70
GLN
475
A
LEU
476
n
71
LEU
476
A
LEU
477
n
72
LEU
477
A
LEU
478
n
73
LEU
478
A
THR
479
n
74
THR
479
A
GLU
480
n
75
GLU
480
A
GLY
481
n
76
GLY
481
A
PRO
482
n
77
PRO
482
A
HIS
483
n
78
HIS
483
A
LEU
484
n
79
LEU
484
A
TYR
485
n
80
TYR
485
A
TYR
486
n
81
TYR
486
A
VAL
487
n
82
VAL
487
A
ASP
488
n
83
ASP
488
A
PRO
489
n
84
PRO
489
A
VAL
490
n
85
VAL
490
A
ASN
491
n
86
ASN
491
A
LYS
492
n
87
LYS
492
A
VAL
493
n
88
VAL
493
A
LEU
494
n
89
LEU
494
A
LYS
495
n
90
LYS
495
A
GLY
496
n
91
GLY
496
A
GLU
497
n
92
GLU
497
A
ILE
498
n
93
ILE
498
A
PRO
499
n
94
PRO
499
A
TRP
500
n
95
TRP
500
A
SER
501
n
96
SER
501
A
GLN
502
n
97
GLN
502
A
GLU
503
n
98
GLU
503
A
LEU
504
n
99
LEU
504
A
ARG
505
n
100
ARG
505
A
PRO
506
n
101
PRO
506
A
GLU
507
n
102
GLU
507
A
ALA
508
n
103
ALA
508
A
LYS
509
n
104
LYS
509
A
ASN
510
n
105
ASN
510
A
PHE
511
n
106
PHE
511
A
LYS
512
n
107
LYS
512
A
THR
513
n
108
THR
513
A
PHE
514
n
109
PHE
514
A
PHE
515
n
110
PHE
515
A
VAL
516
n
111
VAL
516
A
HIS
517
n
112
HIS
517
A
THR
518
n
113
THR
518
A
PRO
519
n
114
PRO
519
A
ASN
520
n
115
ASN
520
A
ARG
521
n
116
ARG
521
A
THR
522
n
117
THR
522
A
TYR
523
n
118
TYR
523
A
TYR
524
n
119
TYR
524
A
LEU
525
n
120
LEU
525
A
MET
526
n
121
MET
526
A
ASP
527
n
122
ASP
527
A
PRO
528
n
123
PRO
528
A
SER
529
n
124
SER
529
A
GLY
530
n
125
GLY
530
A
ASN
531
n
126
ASN
531
A
ALA
532
n
127
ALA
532
A
HIS
533
n
128
HIS
533
A
LYS
534
n
129
LYS
534
A
TRP
535
n
130
TRP
535
A
CYS
536
n
131
CYS
536
A
ARG
537
n
132
ARG
537
A
LYS
538
n
133
LYS
538
A
ILE
539
n
134
ILE
539
A
GLN
540
n
135
GLN
540
A
GLU
541
n
136
GLU
541
A
VAL
542
n
137
VAL
542
A
TRP
543
n
138
TRP
543
A
ARG
544
n
139
ARG
544
A
GLN
545
n
140
GLN
545
A
ARG
546
n
141
ARG
546
A
TYR
547
n
142
TYR
547
A
GLN
548
n
143
GLN
548
A
SER
549
n
144
SER
549
A
HIS
550
n
145
HIS
550
A
n
146
551
A
n
147
552
A
n
148
553
A
n
149
554
A
n
150
555
A
n
151
556
A
author_and_software_defined_assembly
PQS
1
monomeric
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
A
N
LEU
419
A
N
LEU
14
A
O
SER
423
A
O
SER
18
A
N
LEU
426
A
N
LEU
21
A
O
LEU
458
A
O
LEU
53
A
N
LYS
467
A
N
LYS
62
A
O
PHE
470
A
O
PHE
65
A
N
THR
479
A
N
THR
74
A
O
HIS
483
A
O
HIS
78
A
N
ASP
488
A
N
ASP
83
A
O
VAL
493
A
O
VAL
88
A
N
LEU
419
A
N
LEU
14
A
O
SER
423
A
O
SER
18
A
N
LEU
426
A
N
LEU
21
A
O
LEU
458
A
O
LEU
53
A
N
ARG
466
A
N
ARG
61
A
O
TYR
524
A
O
TYR
119
A
N
LEU
525
A
N
LEU
120
A
O
PHE
514
A
O
PHE
109
A
N
HIS
517
A
N
HIS
112
A
O
ARG
505
A
O
ARG
100
1
A
CG
LEU
408
A
CG
LEU
3
1
Y
1
A
CD1
LEU
408
A
CD1
LEU
3
1
Y
1
A
CD2
LEU
408
A
CD2
LEU
3
1
Y
1
A
CG
ASP
420
A
CG
ASP
15
1
Y
1
A
OD1
ASP
420
A
OD1
ASP
15
1
Y
1
A
OD2
ASP
420
A
OD2
ASP
15
1
Y
1
A
CG
LYS
509
A
CG
LYS
104
1
Y
1
A
CD
LYS
509
A
CD
LYS
104
1
Y
1
A
CE
LYS
509
A
CE
LYS
104
1
Y
1
A
NZ
LYS
509
A
NZ
LYS
104
1
Y
1
A
CA
HIS
550
A
CA
HIS
145
1
Y
1
A
C
HIS
550
A
C
HIS
145
1
Y
1
A
O
HIS
550
A
O
HIS
145
1
Y
1
A
CB
HIS
550
A
CB
HIS
145
1
Y
1
A
CG
HIS
550
A
CG
HIS
145
1
Y
1
A
ND1
HIS
550
A
ND1
HIS
145
1
Y
1
A
CD2
HIS
550
A
CD2
HIS
145
1
Y
1
A
CE1
HIS
550
A
CE1
HIS
145
1
Y
1
A
NE2
HIS
550
A
NE2
HIS
145
1
Y
1
A
GLY
406
A
GLY
1
1
Y
1
A
PRO
551
A
PRO
146
1
Y
1
A
ASP
552
A
ASP
147
1
Y
1
A
ALA
553
A
ALA
148
1
Y
1
A
ALA
554
A
ALA
149
1
Y
1
A
VAL
555
A
VAL
150
1
Y
1
A
GLN
556
A
GLN
151
1
Y
1
A
A
O
O
HOH
HOH
2112
2113
2.05
1
A
A
CE1
O
HIS
HOH
533
2174
2.10
1
5.72
0.90
118.30
124.02
A
A
A
CB
CG
OD2
ASP
ASP
ASP
433
433
433
N
1
6.22
0.90
118.30
124.52
A
A
A
CB
CG
OD2
ASP
ASP
ASP
464
464
464
N
1
A
ASN
411
32.66
69.89
1
A
PHE
470
-127.46
-134.91
1
A
ASN
510
-160.02
-160.73
13.01
0.57000
0.00000
-0.44000
-0.64000
0.00000
-0.10000
0.972
0.947
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. THE SIDE CHAINS OF SOME DISORDERED RESIDUES WERE REFINED EITHER WITH THE OCCUPANCY SET TO 0.02, OR THE RESIDUE WAS MUTATED TO ALA.
0.200
0.145
0.147
1.50
25.00
617
22641
2.700
98.2
1.332
0.050
RANDOM
1
THROUGHOUT
MAD
0.088
0.078
0.80
0.80
1.40
MAXIMUM LIKELIHOOD
BABINET MODEL WITH MASK
1.50
25.00
217
1447
35
0
1195
0.020
0.021
1287
0.002
0.020
1113
1.785
1.965
1746
0.958
3.000
2604
6.717
5.000
142
0.131
0.200
184
0.010
0.020
1376
0.009
0.020
267
0.217
0.200
241
0.264
0.200
1308
0.091
0.200
707
0.162
0.200
142
0.148
0.200
5
0.273
0.200
57
0.202
0.200
36
1.657
1.500
721
2.383
2.000
1169
3.225
3.000
566
4.620
4.500
577
0.2380
0.2060
1.54
43
1673
20
1.500
25.000
1W1D
23341
2.000
0.08000
1
17.7000
3.700
98.6
0.44000
1.50
1.58
3.200
1
3.30
99.5
refinement
REFMAC
5.1.24
data reduction
DENZO
data scaling
SCALEPACK
phasing
RSPS
phasing
MLPHARE
phasing
DM
3-PHOSPHOINOSITIDE DEPENDENT PROTEIN KINASE-1 (E.C.2.7.1.37)
Crystal Structure of the PDK1 Pleckstrin Homology (PH) domain bound to Inositol (1,3,4,5)-tetrakisphosphate
1
N
N
2
N
N
3
N
N
4
N
N
5
N
N
A
ASN
411
A
ASN
6
HELX_P
A
GLN
414
A
GLN
9
5
1
4
A
SER
431
A
SER
26
HELX_P
A
ASN
446
A
ASN
41
1
2
16
A
TRP
448
A
TRP
43
HELX_P
A
VAL
452
A
VAL
47
5
3
5
A
ASN
531
A
ASN
126
HELX_P
A
GLN
548
A
GLN
143
1
4
18
TRANSFERASE
TRANSFERASE, PDK1, PHOSPHOINOSITIDE DEPENDENT PROTEIN KINASE 1, PKB, PLECKSTRIN HOMOLOGY DOMAIN, INOSITOL PHOSPHATE, PHOSPHOINOSITIDE, SIGNAL TRANSDUCTION, PI3-KINASE, SERINE/THREONINE PROTEIN KINASE
A
GLY
481
A
GLY
76
1
A
PRO
482
A
PRO
77
1.03
1W1D
PDB
1
1W1D
PDPK_HUMAN
UNP
1
O15530
406
408
1W1D
406
408
1W1D
A
1
1
3
409
556
1W1D
409
556
O15530
A
2
4
151
6
6
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
ILE
416
A
ILE
11
A
ASP
420
A
ASP
15
A
SER
423
A
SER
18
A
LEU
426
A
LEU
21
A
ILE
457
A
ILE
52
A
LYS
467
A
LYS
62
A
PHE
470
A
PHE
65
A
THR
479
A
THR
74
A
HIS
483
A
HIS
78
A
ASP
488
A
ASP
83
A
VAL
493
A
VAL
88
A
ILE
498
A
ILE
93
A
ILE
416
A
ILE
11
A
ASP
420
A
ASP
15
A
SER
423
A
SER
18
A
LEU
426
A
LEU
21
A
ILE
457
A
ILE
52
A
LYS
467
A
LYS
62
A
ARG
521
A
ARG
116
A
MET
526
A
MET
121
A
THR
513
A
THR
108
A
THR
518
A
THR
113
A
ARG
505
A
ARG
100
A
ASN
510
A
ASN
105
BINDING SITE FOR RESIDUE AU A1551
Software
5
BINDING SITE FOR RESIDUE 4IP A1552
Software
16
BINDING SITE FOR RESIDUE GOL A1550
Software
6
A
ALA
508
A
ALA
103
5
1_555
A
CYS
536
A
CYS
131
5
1_555
A
ARG
537
A
ARG
132
5
1_555
A
HOH
2025
E
HOH
5
1_555
A
HOH
2149
E
HOH
5
1_555
A
HIS
417
A
HIS
12
16
1_555
A
LYS
465
A
LYS
60
16
1_555
A
LYS
467
A
LYS
62
16
1_555
A
ARG
472
A
ARG
67
16
1_555
A
ARG
474
A
ARG
69
16
1_555
A
TYR
486
A
TYR
81
16
1_555
A
LYS
495
A
LYS
90
16
1_555
A
ARG
521
A
ARG
116
16
1_555
A
HOH
2100
E
HOH
16
1_555
A
HOH
2103
E
HOH
16
1_555
A
HOH
2205
E
HOH
16
1_555
A
HOH
2206
E
HOH
16
1_555
A
HOH
2207
E
HOH
16
1_555
A
HOH
2208
E
HOH
16
1_555
A
HOH
2209
E
HOH
16
1_555
A
HOH
2211
E
HOH
16
1_555
A
ARG
466
A
ARG
61
6
1_555
A
LYS
467
A
LYS
62
6
1_555
A
GLY
468
A
GLY
63
6
1_555
A
HOH
2159
E
HOH
6
1_555
A
HOH
2203
E
HOH
6
1_555
A
HOH
2204
E
HOH
6
1_555
4
P 1 21 1