HEADER TRANSFERASE/TRANSFERASE INHIBITOR 30-JAN-15 4XX9
TITLE CRYSTAL STRUCTURE OF PDK1 IN COMPLEX WITH ATP AND THE PIF-POCKET
TITLE 2 LIGAND RF4
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: 3-PHOSPHOINOSITIDE-DEPENDENT PROTEIN KINASE 1;
COMPND 3 CHAIN: A;
COMPND 4 FRAGMENT: UNP RESIDUES 50-359;
COMPND 5 SYNONYM: HPDK1;
COMPND 6 EC: 2.7.11.1;
COMPND 7 ENGINEERED: YES;
COMPND 8 MUTATION: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS;
SOURCE 3 ORGANISM_COMMON: HUMAN;
SOURCE 4 ORGANISM_TAXID: 9606;
SOURCE 5 GENE: PDPK1, PDK1;
SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA;
SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108;
SOURCE 8 EXPRESSION_SYSTEM_STRAIN: SF9;
SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS PLASMID;
SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PFASTBAC HTB
KEYWDS PROTEIN KINASE, ALLOSTERY, TRANSFERASE-TRANSFERASE INHIBITOR COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR T.J.RETTENMAIER,J.A.WELLS
REVDAT 6 23-OCT-24 4XX9 1 REMARK
REVDAT 5 27-SEP-23 4XX9 1 REMARK
REVDAT 4 04-DEC-19 4XX9 1 SEQADV
REVDAT 3 06-SEP-17 4XX9 1 JRNL REMARK
REVDAT 2 04-NOV-15 4XX9 1 JRNL
REVDAT 1 21-OCT-15 4XX9 0
JRNL AUTH T.J.RETTENMAIER,H.FAN,J.KARPIAK,A.DOAK,A.SALI,B.K.SHOICHET,
JRNL AUTH 2 J.A.WELLS
JRNL TITL SMALL-MOLECULE ALLOSTERIC MODULATORS OF THE PROTEIN KINASE
JRNL TITL 2 PDK1 FROM STRUCTURE-BASED DOCKING.
JRNL REF J.MED.CHEM. V. 58 8285 2015
JRNL REFN ISSN 0022-2623
JRNL PMID 26443011
JRNL DOI 10.1021/ACS.JMEDCHEM.5B01216
REMARK 2
REMARK 2 RESOLUTION. 1.40 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.9_1692)
REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN
REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE,
REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER,
REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY,
REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON,
REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI,
REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT
REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART
REMARK 3
REMARK 3 REFINEMENT TARGET : ML
REMARK 3
REMARK 3 DATA USED IN REFINEMENT.
REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.40
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.75
REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360
REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5
REMARK 3 NUMBER OF REFLECTIONS : 59561
REMARK 3
REMARK 3 FIT TO DATA USED IN REFINEMENT.
REMARK 3 R VALUE (WORKING + TEST SET) : 0.130
REMARK 3 R VALUE (WORKING SET) : 0.129
REMARK 3 FREE R VALUE : 0.165
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050
REMARK 3 FREE R VALUE TEST SET COUNT : 3010
REMARK 3
REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS).
REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE
REMARK 3 1 46.7723 - 3.9323 0.99 2659 144 0.1556 0.1510
REMARK 3 2 3.9323 - 3.1213 1.00 2617 135 0.1297 0.1719
REMARK 3 3 3.1213 - 2.7268 1.00 2598 136 0.1361 0.1734
REMARK 3 4 2.7268 - 2.4775 1.00 2599 119 0.1300 0.1808
REMARK 3 5 2.4775 - 2.3000 1.00 2596 140 0.1140 0.1567
REMARK 3 6 2.3000 - 2.1644 1.00 2549 148 0.1059 0.1359
REMARK 3 7 2.1644 - 2.0560 1.00 2575 140 0.1015 0.1396
REMARK 3 8 2.0560 - 1.9665 1.00 2567 140 0.0960 0.1346
REMARK 3 9 1.9665 - 1.8908 1.00 2574 137 0.0980 0.1409
REMARK 3 10 1.8908 - 1.8255 1.00 2573 146 0.1006 0.1490
REMARK 3 11 1.8255 - 1.7684 1.00 2535 134 0.1032 0.1465
REMARK 3 12 1.7684 - 1.7179 1.00 2580 141 0.1072 0.1651
REMARK 3 13 1.7179 - 1.6727 1.00 2587 141 0.1124 0.1665
REMARK 3 14 1.6727 - 1.6318 1.00 2551 140 0.1203 0.1954
REMARK 3 15 1.6318 - 1.5947 1.00 2549 153 0.1299 0.1801
REMARK 3 16 1.5947 - 1.5608 1.00 2584 137 0.1325 0.1913
REMARK 3 17 1.5608 - 1.5296 1.00 2561 124 0.1420 0.2105
REMARK 3 18 1.5296 - 1.5007 1.00 2593 130 0.1579 0.2023
REMARK 3 19 1.5007 - 1.4739 1.00 2568 131 0.1587 0.2057
REMARK 3 20 1.4739 - 1.4489 1.00 2546 131 0.1784 0.2420
REMARK 3 21 1.4489 - 1.4256 1.00 2573 123 0.2015 0.2847
REMARK 3 22 1.4256 - 1.4000 0.95 2417 140 0.2230 0.2725
REMARK 3
REMARK 3 BULK SOLVENT MODELLING.
REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL
REMARK 3 SOLVENT RADIUS : 1.11
REMARK 3 SHRINKAGE RADIUS : 0.90
REMARK 3 K_SOL : NULL
REMARK 3 B_SOL : NULL
REMARK 3
REMARK 3 ERROR ESTIMATES.
REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.130
REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.680
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : 13.63
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.28
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : NULL
REMARK 3 B22 (A**2) : NULL
REMARK 3 B33 (A**2) : NULL
REMARK 3 B12 (A**2) : NULL
REMARK 3 B13 (A**2) : NULL
REMARK 3 B23 (A**2) : NULL
REMARK 3
REMARK 3 TWINNING INFORMATION.
REMARK 3 FRACTION: NULL
REMARK 3 OPERATOR: NULL
REMARK 3
REMARK 3 DEVIATIONS FROM IDEAL VALUES.
REMARK 3 RMSD COUNT
REMARK 3 BOND : 0.012 2573
REMARK 3 ANGLE : 1.468 3498
REMARK 3 CHIRALITY : 0.088 375
REMARK 3 PLANARITY : 0.008 434
REMARK 3 DIHEDRAL : 14.975 996
REMARK 3
REMARK 3 TLS DETAILS
REMARK 3 NUMBER OF TLS GROUPS : NULL
REMARK 3
REMARK 3 NCS DETAILS
REMARK 3 NUMBER OF NCS GROUPS : NULL
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4
REMARK 4 4XX9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-MAR-15.
REMARK 100 THE DEPOSITION ID IS D_1000206452.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 18-APR-13
REMARK 200 TEMPERATURE (KELVIN) : 100
REMARK 200 PH : 7.5
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : Y
REMARK 200 RADIATION SOURCE : ALS
REMARK 200 BEAMLINE : 8.3.1
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 1.1159
REMARK 200 MONOCHROMATOR : DOUBLE FLAT CRYSTAL, SI 111
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : CCD
REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000
REMARK 200 DATA SCALING SOFTWARE : HKL-2000
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 59563
REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400
REMARK 200 RESOLUTION RANGE LOW (A) : 50.000
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7
REMARK 200 DATA REDUNDANCY : 3.800
REMARK 200 R MERGE (I) : 0.06500
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.6000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.45
REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6
REMARK 200 DATA REDUNDANCY IN SHELL : 3.60
REMARK 200 R MERGE FOR SHELL (I) : 0.82800
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL
REMARK 200
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT
REMARK 200 SOFTWARE USED: NULL
REMARK 200 STARTING MODEL: PDB ENTRY 4AW1
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 43.68
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: PRECIPITANT: 0.1M HEPES, PH 7.5, 1.2M
REMARK 280 NA CITRATE. PROTEIN (21 MG/ML): 25MM TRIS, PH 7.5, 0.5M NACL,
REMARK 280 1MM DTT, 15MM EDTA, 15MM ATP, VAPOR DIFFUSION, HANGING DROP,
REMARK 280 TEMPERATURE 291K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1
REMARK 290
REMARK 290 SYMOP SYMMETRY
REMARK 290 NNNMMM OPERATOR
REMARK 290 1555 X,Y,Z
REMARK 290 2555 -X,Y,-Z
REMARK 290 3555 X+1/2,Y+1/2,Z
REMARK 290 4555 -X+1/2,Y+1/2,-Z
REMARK 290
REMARK 290 WHERE NNN -> OPERATOR NUMBER
REMARK 290 MMM -> TRANSLATION VECTOR
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS
REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM
REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY
REMARK 290 RELATED MOLECULES.
REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000
REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000
REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 74.31300
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 22.21450
REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 74.31300
REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 22.21450
REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000
REMARK 290
REMARK 290 REMARK: NULL
REMARK 300
REMARK 300 BIOMOLECULE: 1
REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM
REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN
REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON
REMARK 300 BURIED SURFACE AREA.
REMARK 350
REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN
REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE
REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS
REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND
REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN.
REMARK 350
REMARK 350 BIOMOLECULE: 1
REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC
REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC
REMARK 350 SOFTWARE USED: PISA
REMARK 350 APPLY THE FOLLOWING TO CHAINS: A
REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000
REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000
REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000
REMARK 465
REMARK 465 MISSING RESIDUES
REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE
REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN
REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.)
REMARK 465
REMARK 465 M RES C SSSEQI
REMARK 465 ALA A 50
REMARK 465 MET A 51
REMARK 465 ASP A 52
REMARK 465 GLY A 53
REMARK 465 THR A 54
REMARK 465 ALA A 55
REMARK 465 ALA A 56
REMARK 465 GLU A 57
REMARK 465 PRO A 58
REMARK 465 ARG A 59
REMARK 465 PRO A 60
REMARK 465 GLY A 61
REMARK 465 ALA A 62
REMARK 465 GLY A 63
REMARK 465 SER A 64
REMARK 465 LEU A 65
REMARK 465 GLN A 66
REMARK 465 HIS A 67
REMARK 465 ALA A 68
REMARK 465 GLN A 69
REMARK 465 PRO A 70
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: TORSION ANGLES
REMARK 500
REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS:
REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER;
REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE).
REMARK 500
REMARK 500 STANDARD TABLE:
REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2)
REMARK 500
REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI-
REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400
REMARK 500
REMARK 500 M RES CSSEQI PSI PHI
REMARK 500 ASP A 138 75.48 -151.51
REMARK 500 ARG A 204 -9.30 73.32
REMARK 500 ASP A 223 73.76 74.83
REMARK 500
REMARK 500 REMARK: NULL
REMARK 610
REMARK 610 MISSING HETEROATOM
REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER;
REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER;
REMARK 610 I=INSERTION CODE):
REMARK 610 M RES C SSEQI
REMARK 610 RF4 A 403
REMARK 800
REMARK 800 SITE
REMARK 800 SITE_IDENTIFIER: AC1
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue ATP A 401
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue RF4 A 402
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC3
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue RF4 A 403
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC4
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 404
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC5
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 405
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC6
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 406
DBREF 4XX9 A 50 359 UNP O15530 PDPK1_HUMAN 50 359
SEQADV 4XX9 GLY A 288 UNP O15530 TYR 288 ENGINEERED MUTATION
SEQADV 4XX9 ALA A 292 UNP O15530 GLN 292 ENGINEERED MUTATION
SEQRES 1 A 310 ALA MET ASP GLY THR ALA ALA GLU PRO ARG PRO GLY ALA
SEQRES 2 A 310 GLY SER LEU GLN HIS ALA GLN PRO PRO PRO GLN PRO ARG
SEQRES 3 A 310 LYS LYS ARG PRO GLU ASP PHE LYS PHE GLY LYS ILE LEU
SEQRES 4 A 310 GLY GLU GLY SER PHE SER THR VAL VAL LEU ALA ARG GLU
SEQRES 5 A 310 LEU ALA THR SER ARG GLU TYR ALA ILE LYS ILE LEU GLU
SEQRES 6 A 310 LYS ARG HIS ILE ILE LYS GLU ASN LYS VAL PRO TYR VAL
SEQRES 7 A 310 THR ARG GLU ARG ASP VAL MET SER ARG LEU ASP HIS PRO
SEQRES 8 A 310 PHE PHE VAL LYS LEU TYR PHE THR PHE GLN ASP ASP GLU
SEQRES 9 A 310 LYS LEU TYR PHE GLY LEU SER TYR ALA LYS ASN GLY GLU
SEQRES 10 A 310 LEU LEU LYS TYR ILE ARG LYS ILE GLY SER PHE ASP GLU
SEQRES 11 A 310 THR CYS THR ARG PHE TYR THR ALA GLU ILE VAL SER ALA
SEQRES 12 A 310 LEU GLU TYR LEU HIS GLY LYS GLY ILE ILE HIS ARG ASP
SEQRES 13 A 310 LEU LYS PRO GLU ASN ILE LEU LEU ASN GLU ASP MET HIS
SEQRES 14 A 310 ILE GLN ILE THR ASP PHE GLY THR ALA LYS VAL LEU SER
SEQRES 15 A 310 PRO GLU SER LYS GLN ALA ARG ALA ASN SEP PHE VAL GLY
SEQRES 16 A 310 THR ALA GLN TYR VAL SER PRO GLU LEU LEU THR GLU LYS
SEQRES 17 A 310 SER ALA CYS LYS SER SER ASP LEU TRP ALA LEU GLY CYS
SEQRES 18 A 310 ILE ILE TYR GLN LEU VAL ALA GLY LEU PRO PRO PHE ARG
SEQRES 19 A 310 ALA GLY ASN GLU GLY LEU ILE PHE ALA LYS ILE ILE LYS
SEQRES 20 A 310 LEU GLU TYR ASP PHE PRO GLU LYS PHE PHE PRO LYS ALA
SEQRES 21 A 310 ARG ASP LEU VAL GLU LYS LEU LEU VAL LEU ASP ALA THR
SEQRES 22 A 310 LYS ARG LEU GLY CYS GLU GLU MET GLU GLY TYR GLY PRO
SEQRES 23 A 310 LEU LYS ALA HIS PRO PHE PHE GLU SER VAL THR TRP GLU
SEQRES 24 A 310 ASN LEU HIS GLN GLN THR PRO PRO LYS LEU THR
MODRES 4XX9 SEP A 241 SER MODIFIED RESIDUE
HET SEP A 241 14
HET ATP A 401 43
HET RF4 A 402 25
HET RF4 A 403 14
HET GOL A 404 14
HET GOL A 405 14
HET GOL A 406 14
HETNAM SEP PHOSPHOSERINE
HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE
HETNAM RF4 (2-{[2-(2,6-DIMETHYLPHENOXY)ETHYL]SULFANYL}-1H-
HETNAM 2 RF4 BENZIMIDAZOL-1-YL)ACETIC ACID
HETNAM GOL GLYCEROL
HETSYN SEP PHOSPHONOSERINE
HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL
FORMUL 1 SEP C3 H8 N O6 P
FORMUL 2 ATP C10 H16 N5 O13 P3
FORMUL 3 RF4 2(C19 H20 N2 O3 S)
FORMUL 5 GOL 3(C3 H8 O3)
FORMUL 8 HOH *269(H2 O)
HELIX 1 AA1 ARG A 78 GLU A 80 5 3
HELIX 2 AA2 LYS A 115 GLU A 121 1 7
HELIX 3 AA3 LYS A 123 ARG A 136 1 14
HELIX 4 AA4 LEU A 167 GLY A 175 1 9
HELIX 5 AA5 ASP A 178 LYS A 199 1 22
HELIX 6 AA6 LYS A 207 GLU A 209 5 3
HELIX 7 AA7 THR A 245 VAL A 249 5 5
HELIX 8 AA8 SER A 250 LYS A 257 1 8
HELIX 9 AA9 CYS A 260 GLY A 278 1 19
HELIX 10 AB1 ASN A 286 LEU A 297 1 12
HELIX 11 AB2 PHE A 306 LEU A 317 1 12
HELIX 12 AB3 ASP A 320 ARG A 324 5 5
HELIX 13 AB4 CYS A 327 GLU A 331 5 5
HELIX 14 AB5 GLY A 332 ALA A 338 1 7
HELIX 15 AB6 HIS A 339 GLU A 343 5 5
HELIX 16 AB7 ASN A 349 GLN A 353 5 5
SHEET 1 AA1 5 PHE A 82 GLU A 90 0
SHEET 2 AA1 5 THR A 95 GLU A 101 -1 O LEU A 98 N GLY A 85
SHEET 3 AA1 5 GLU A 107 GLU A 114 -1 O ILE A 110 N VAL A 97
SHEET 4 AA1 5 LYS A 154 LEU A 159 -1 O LEU A 159 N ALA A 109
SHEET 5 AA1 5 LEU A 145 GLN A 150 -1 N PHE A 147 O GLY A 158
SHEET 1 AA2 3 GLY A 165 GLU A 166 0
SHEET 2 AA2 3 ILE A 211 LEU A 213 -1 O LEU A 213 N GLY A 165
SHEET 3 AA2 3 ILE A 219 ILE A 221 -1 O GLN A 220 N LEU A 212
SHEET 1 AA3 2 ILE A 201 ILE A 202 0
SHEET 2 AA3 2 LYS A 228 VAL A 229 -1 O LYS A 228 N ILE A 202
LINK C ASN A 240 N SEP A 241 1555 1555 1.32
LINK C SEP A 241 N PHE A 242 1555 1555 1.33
SITE 1 AC1 20 GLY A 89 GLY A 91 SER A 92 SER A 94
SITE 2 AC1 20 VAL A 96 ALA A 109 LYS A 111 SER A 160
SITE 3 AC1 20 ALA A 162 GLU A 166 LEU A 212 HOH A 662
SITE 4 AC1 20 HOH A 677 HOH A 680 HOH A 720 HOH A 724
SITE 5 AC1 20 HOH A 730 HOH A 734 HOH A 760 HOH A 761
SITE 1 AC2 9 LYS A 76 LYS A 115 ILE A 118 VAL A 127
SITE 2 AC2 9 ARG A 131 THR A 148 PHE A 149 PHE A 157
SITE 3 AC2 9 HOH A 665
SITE 1 AC3 9 ARG A 172 LEU A 254 LYS A 257 GLY A 278
SITE 2 AC3 9 LEU A 279 PHE A 291 ILE A 295 HOH A 526
SITE 3 AC3 9 HOH A 660
SITE 1 AC4 11 ALA A 103 THR A 104 SER A 105 HIS A 139
SITE 2 AC4 11 SER A 191 TRP A 347 GLU A 348 ASN A 349
SITE 3 AC4 11 LEU A 350 HIS A 351 HOH A 515
SITE 1 AC5 9 PHE A 82 LYS A 83 PHE A 84 GLU A 194
SITE 2 AC5 9 GLY A 334 LYS A 337 HOH A 505 HOH A 547
SITE 3 AC5 9 HOH A 567
SITE 1 AC6 2 PRO A 307 LYS A 308
CRYST1 148.626 44.429 47.639 90.00 101.11 90.00 C 1 2 1 4
ORIGX1 1.000000 0.000000 0.000000 0.00000
ORIGX2 0.000000 1.000000 0.000000 0.00000
ORIGX3 0.000000 0.000000 1.000000 0.00000
SCALE1 0.006728 0.000000 0.001321 0.00000
SCALE2 0.000000 0.022508 0.000000 0.00000
SCALE3 0.000000 0.000000 0.021392 0.00000