HEADER TRANSFERASE 10-SEP-13 4C59
TITLE STRUCTURE OF GAK KINASE IN COMPLEX WITH NANOBODY (NBGAK_4)
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: CYCLIN-G-ASSOCIATED KINASE;
COMPND 3 CHAIN: A;
COMPND 4 FRAGMENT: KINASE DOMAIN, RESIDUES 14-351;
COMPND 5 EC: 2.7.11.1;
COMPND 6 ENGINEERED: YES;
COMPND 7 MOL_ID: 2;
COMPND 8 MOLECULE: NANOBODY;
COMPND 9 CHAIN: B;
COMPND 10 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS;
SOURCE 3 ORGANISM_COMMON: HUMAN;
SOURCE 4 ORGANISM_TAXID: 9606;
SOURCE 5 GENE: GAK;
SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008;
SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3);
SOURCE 9 EXPRESSION_SYSTEM_VARIANT: R3;
SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4;
SOURCE 12 MOL_ID: 2;
SOURCE 13 ORGANISM_SCIENTIFIC: LAMA GLAMA;
SOURCE 14 ORGANISM_COMMON: LLAMA;
SOURCE 15 ORGANISM_TAXID: 9844;
SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562
KEYWDS TRANSFERASE, KINASE, CONFORMATIONAL PLASTICITY, ACTIVATION
EXPDTA X-RAY DIFFRACTION
AUTHOR A.CHAIKUAD,T.KEATES,C.K.ALLERSTON,O.GILEADI,F.VON DELFT,
AUTHOR 2 C.H.ARROWSMITH,A.M.EDWARDS,C.BOUNTRA,S.KNAPP,S.MULLER-KNAPP
REVDAT 6 16-OCT-24 4C59 1 REMARK
REVDAT 5 20-DEC-23 4C59 1 REMARK
REVDAT 4 10-JUL-19 4C59 1 REMARK
REVDAT 3 20-FEB-19 4C59 1 COMPND SOURCE JRNL REMARK
REVDAT 3 2 1 DBREF SEQADV
REVDAT 2 09-APR-14 4C59 1 JRNL
REVDAT 1 09-OCT-13 4C59 0
JRNL AUTH A.CHAIKUAD,T.KEATES,C.VINCKE,M.KAUFHOLZ,M.ZENN,B.ZIMMERMANN,
JRNL AUTH 2 C.GUTIERREZ,R.G.ZHANG,C.HATZOS-SKINTGES,A.JOACHIMIAK,
JRNL AUTH 3 S.MUYLDERMANS,F.W.HERBERG,S.KNAPP,S.MULLER
JRNL TITL STRUCTURE OF CYCLIN G-ASSOCIATED KINASE (GAK) TRAPPED IN
JRNL TITL 2 DIFFERENT CONFORMATIONS USING NANOBODIES.
JRNL REF BIOCHEM. J. V. 459 59 2014
JRNL REFN ESSN 1470-8728
JRNL PMID 24438162
JRNL DOI 10.1042/BJ20131399
REMARK 2
REMARK 2 RESOLUTION. 2.80 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : REFMAC 5.7.0032
REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER,
REMARK 3 : NICHOLLS,WINN,LONG,VAGIN
REMARK 3
REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD
REMARK 3
REMARK 3 DATA USED IN REFINEMENT.
REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.75
REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL
REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3
REMARK 3 NUMBER OF REFLECTIONS : 11028
REMARK 3
REMARK 3 FIT TO DATA USED IN REFINEMENT.
REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT
REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM
REMARK 3 R VALUE (WORKING + TEST SET) : 0.205
REMARK 3 R VALUE (WORKING SET) : 0.202
REMARK 3 FREE R VALUE : 0.262
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700
REMARK 3 FREE R VALUE TEST SET COUNT : 549
REMARK 3
REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN.
REMARK 3 TOTAL NUMBER OF BINS USED : 20
REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.80
REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87
REMARK 3 REFLECTION IN BIN (WORKING SET) : 805
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.41
REMARK 3 BIN R VALUE (WORKING SET) : 0.2840
REMARK 3 BIN FREE R VALUE SET COUNT : 38
REMARK 3 BIN FREE R VALUE : 0.4100
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 2957
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 27
REMARK 3 SOLVENT ATOMS : 63
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : NULL
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 60.58
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : -2.26000
REMARK 3 B22 (A**2) : -0.39000
REMARK 3 B33 (A**2) : 1.18000
REMARK 3 B12 (A**2) : 0.00000
REMARK 3 B13 (A**2) : 2.81000
REMARK 3 B23 (A**2) : 0.00000
REMARK 3
REMARK 3 ESTIMATED OVERALL COORDINATE ERROR.
REMARK 3 ESU BASED ON R VALUE (A): NULL
REMARK 3 ESU BASED ON FREE R VALUE (A): 0.394
REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.320
REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 32.781
REMARK 3
REMARK 3 CORRELATION COEFFICIENTS.
REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.935
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.877
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT
REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3065 ; 0.008 ; 0.019
REMARK 3 BOND LENGTHS OTHERS (A): 2892 ; 0.001 ; 0.020
REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4155 ; 1.048 ; 1.955
REMARK 3 BOND ANGLES OTHERS (DEGREES): 6634 ; 0.650 ; 3.001
REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 391 ; 6.191 ; 5.000
REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 132 ;37.511 ;24.015
REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 512 ;15.166 ;15.000
REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;19.830 ;15.000
REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 471 ; 0.061 ; 0.200
REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3635 ; 0.004 ; 0.020
REMARK 3 GENERAL PLANES OTHERS (A): 716 ; 0.001 ; 0.020
REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL
REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL
REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL
REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL
REMARK 3
REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT
REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1552 ; 1.256 ; 3.467
REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1551 ; 1.256 ; 3.467
REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1935 ; 2.145 ; 5.193
REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1513 ; 1.429 ; 3.650
REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3
REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT
REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL
REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3
REMARK 3 NCS RESTRAINTS STATISTICS
REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL
REMARK 3
REMARK 3 TLS DETAILS
REMARK 3 NUMBER OF TLS GROUPS : 4
REMARK 3
REMARK 3 TLS GROUP : 1
REMARK 3 NUMBER OF COMPONENTS GROUP : 1
REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI
REMARK 3 RESIDUE RANGE : A 27 A 55
REMARK 3 ORIGIN FOR THE GROUP (A): 17.5225 22.6278 -63.1537
REMARK 3 T TENSOR
REMARK 3 T11: 0.2045 T22: 0.9675
REMARK 3 T33: 0.2723 T12: 0.0811
REMARK 3 T13: 0.0544 T23: 0.0093
REMARK 3 L TENSOR
REMARK 3 L11: 7.6095 L22: 9.6867
REMARK 3 L33: 9.4381 L12: 0.6121
REMARK 3 L13: 2.6125 L23: 1.2770
REMARK 3 S TENSOR
REMARK 3 S11: 0.0178 S12: 1.1998 S13: -0.1407
REMARK 3 S21: 0.1016 S22: 0.3082 S23: 0.8206
REMARK 3 S31: 0.4936 S32: -0.6995 S33: -0.3260
REMARK 3
REMARK 3 TLS GROUP : 2
REMARK 3 NUMBER OF COMPONENTS GROUP : 1
REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI
REMARK 3 RESIDUE RANGE : A 56 A 200
REMARK 3 ORIGIN FOR THE GROUP (A): 25.5088 23.3375 -49.4380
REMARK 3 T TENSOR
REMARK 3 T11: 0.1764 T22: 0.2623
REMARK 3 T33: 0.0995 T12: 0.0434
REMARK 3 T13: -0.0052 T23: 0.0465
REMARK 3 L TENSOR
REMARK 3 L11: 7.1599 L22: 1.0963
REMARK 3 L33: 1.5962 L12: 0.0080
REMARK 3 L13: -0.5119 L23: -0.4934
REMARK 3 S TENSOR
REMARK 3 S11: 0.0739 S12: 1.0909 S13: -0.1634
REMARK 3 S21: -0.2974 S22: -0.0853 S23: -0.0196
REMARK 3 S31: 0.0746 S32: -0.1306 S33: 0.0114
REMARK 3
REMARK 3 TLS GROUP : 3
REMARK 3 NUMBER OF COMPONENTS GROUP : 1
REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI
REMARK 3 RESIDUE RANGE : A 201 A 333
REMARK 3 ORIGIN FOR THE GROUP (A): 40.1631 17.5156 -36.1982
REMARK 3 T TENSOR
REMARK 3 T11: 0.0815 T22: 0.0674
REMARK 3 T33: 0.1598 T12: 0.0262
REMARK 3 T13: -0.0282 T23: 0.0068
REMARK 3 L TENSOR
REMARK 3 L11: 6.0827 L22: 3.0148
REMARK 3 L33: 6.5350 L12: 0.7140
REMARK 3 L13: -2.0013 L23: -0.9016
REMARK 3 S TENSOR
REMARK 3 S11: -0.1499 S12: 0.3474 S13: -0.4114
REMARK 3 S21: 0.0022 S22: -0.0902 S23: -0.2068
REMARK 3 S31: 0.5754 S32: 0.1778 S33: 0.2400
REMARK 3
REMARK 3 TLS GROUP : 4
REMARK 3 NUMBER OF COMPONENTS GROUP : 1
REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI
REMARK 3 RESIDUE RANGE : B 1 B 128
REMARK 3 ORIGIN FOR THE GROUP (A): 47.2843 31.2258 -16.5329
REMARK 3 T TENSOR
REMARK 3 T11: 0.0965 T22: 0.0457
REMARK 3 T33: 0.1319 T12: -0.0497
REMARK 3 T13: -0.0094 T23: -0.0357
REMARK 3 L TENSOR
REMARK 3 L11: 4.2298 L22: 5.8024
REMARK 3 L33: 2.5661 L12: 2.6604
REMARK 3 L13: -0.6671 L23: 1.7617
REMARK 3 S TENSOR
REMARK 3 S11: 0.2774 S12: -0.3449 S13: 0.4330
REMARK 3 S21: 0.3068 S22: -0.1031 S23: 0.1409
REMARK 3 S31: -0.2394 S32: 0.2496 S33: -0.1743
REMARK 3
REMARK 3 BULK SOLVENT MODELLING.
REMARK 3 METHOD USED : MASK
REMARK 3 PARAMETERS FOR MASK CALCULATION
REMARK 3 VDW PROBE RADIUS : 1.20
REMARK 3 ION PROBE RADIUS : 0.80
REMARK 3 SHRINKAGE RADIUS : 0.80
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING
REMARK 3 POSITIONS.
REMARK 4
REMARK 4 4C59 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 10-SEP-13.
REMARK 100 THE DEPOSITION ID IS D_1290058294.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 11-FEB-12
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 : DIAMOND
REMARK 200 BEAMLINE : I04
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 1.0121
REMARK 200 MONOCHROMATOR : SI (111) DOUBLE CRYSTAL
REMARK 200 MONOCHROMATOR
REMARK 200 OPTICS : MIRRORS
REMARK 200
REMARK 200 DETECTOR TYPE : CCD
REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS
REMARK 200 DATA SCALING SOFTWARE : SCALA
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11580
REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800
REMARK 200 RESOLUTION RANGE LOW (A) : 19.750
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5
REMARK 200 DATA REDUNDANCY : 3.600
REMARK 200 R MERGE (I) : 0.14000
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.3000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.95
REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8
REMARK 200 DATA REDUNDANCY IN SHELL : 3.70
REMARK 200 R MERGE FOR SHELL (I) : 0.69000
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000
REMARK 200
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT
REMARK 200 SOFTWARE USED: PHASER
REMARK 200 STARTING MODEL: PDB ENTRIES 3LL6 AND 1OP9
REMARK 200
REMARK 200 REMARK: NONE
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 54.00
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 9% PEG 3350, 0.06 M MAGNESIUM FORMATE,
REMARK 280 PH 7.5
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 87.13400
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 18.87650
REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 87.13400
REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 18.87650
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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC
REMARK 350 SOFTWARE USED: PQS
REMARK 350 TOTAL BURIED SURFACE AREA: 1370 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 22740 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.6 KCAL/MOL
REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B
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 SER A 12
REMARK 465 MET A 13
REMARK 465 PRO A 14
REMARK 465 GLY A 15
REMARK 465 SER A 16
REMARK 465 LEU A 17
REMARK 465 GLY A 18
REMARK 465 GLY A 19
REMARK 465 ALA A 20
REMARK 465 SER A 21
REMARK 465 GLY A 22
REMARK 465 ARG A 23
REMARK 465 ASP A 24
REMARK 465 GLN A 25
REMARK 465 SER A 26
REMARK 465 TYR A 204
REMARK 465 SER A 205
REMARK 465 TRP A 206
REMARK 465 SER A 207
REMARK 465 ALA A 208
REMARK 465 GLN A 209
REMARK 465 ARG A 210
REMARK 465 ARG A 211
REMARK 465 ALA A 212
REMARK 465 LEU A 213
REMARK 465 VAL A 214
REMARK 465 GLU A 215
REMARK 465 GLU A 216
REMARK 465 GLU A 217
REMARK 465 ILE A 218
REMARK 465 THR A 219
REMARK 465 ARG A 220
REMARK 465 ASN A 221
REMARK 465 THR A 222
REMARK 465 THR A 223
REMARK 465 PRO A 224
REMARK 465 MET A 225
REMARK 465 TYR A 226
REMARK 465 ARG A 227
REMARK 465 THR A 228
REMARK 465 PRO A 229
REMARK 465 GLU A 230
REMARK 465 ILE A 231
REMARK 465 ILE A 232
REMARK 465 ASP A 233
REMARK 465 LEU A 234
REMARK 465 ASP A 265
REMARK 465 GLY A 266
REMARK 465 ALA A 267
REMARK 465 LYS A 268
REMARK 465 LEU A 269
REMARK 465 ARG A 270
REMARK 465 ILE A 271
REMARK 465 VAL A 272
REMARK 465 ASN A 273
REMARK 465 GLY A 274
REMARK 465 GLN A 334
REMARK 465 ASN A 335
REMARK 465 GLY A 336
REMARK 465 GLY A 337
REMARK 465 TYR A 338
REMARK 465 GLY A 339
REMARK 465 SER A 340
REMARK 465 ALA A 341
REMARK 465 THR A 342
REMARK 465 LEU A 343
REMARK 465 SER A 344
REMARK 465 ARG A 345
REMARK 465 GLY A 346
REMARK 465 PRO A 347
REMARK 465 PRO A 348
REMARK 465 PRO A 349
REMARK 465 PRO A 350
REMARK 465 VAL A 351
REMARK 465 ALA B 129
REMARK 465 ALA B 130
REMARK 465 ALA B 131
REMARK 465 TYR B 132
REMARK 465 PRO B 133
REMARK 465 TYR B 134
REMARK 465 ASP B 135
REMARK 465 VAL B 136
REMARK 465 PRO B 137
REMARK 465 ASP B 138
REMARK 465 TYR B 139
REMARK 465 GLY B 140
REMARK 465 SER B 141
REMARK 465 HIS B 142
REMARK 465 HIS B 143
REMARK 465 HIS B 144
REMARK 465 HIS B 145
REMARK 465 HIS B 146
REMARK 465 HIS B 147
REMARK 470
REMARK 470 MISSING ATOM
REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER;
REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER;
REMARK 470 I=INSERTION CODE):
REMARK 470 M RES CSSEQI ATOMS
REMARK 470 ASP A 27 CG OD1 OD2
REMARK 470 GLU A 34 CG CD OE1 OE2
REMARK 470 GLU A 37 CG CD OE1 OE2
REMARK 470 ARG A 39 CG CD NE CZ NH1 NH2
REMARK 470 ARG A 41 CD NE CZ NH1 NH2
REMARK 470 ARG A 43 NE CZ NH1 NH2
REMARK 470 ARG A 64 NE CZ NH1 NH2
REMARK 470 LYS A 78 CD CE NZ
REMARK 470 ILE A 107 CG1 CG2 CD1
REMARK 470 GLU A 111 CG CD OE1 OE2
REMARK 470 ASP A 113 CG OD1 OD2
REMARK 470 ASP A 203 CG OD1 OD2
REMARK 470 TYR A 235 CG CD1 CD2 CE1 CE2 CZ OH
REMARK 470 GLU A 264 CG CD OE1 OE2
REMARK 470 LYS A 275 CG CD CE NZ
REMARK 470 GLU A 333 CG CD OE1 OE2
REMARK 470 GLN B 1 CG CD OE1 NE2
REMARK 470 SER B 128 OG
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 GLU A 48 -130.00 -127.24
REMARK 500 ARG A 140 18.37 -141.97
REMARK 500 ARG A 172 -15.13 82.63
REMARK 500
REMARK 500 REMARK: NULL
REMARK 800
REMARK 800 SITE
REMARK 800 SITE_IDENTIFIER: AC1
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FEF A 1334
REMARK 900
REMARK 900 RELATED ENTRIES
REMARK 900 RELATED ID: 4C57 RELATED DB: PDB
REMARK 900 STRUCTURE OF GAK KINASE IN COMPLEX WITH A NANOBODY
REMARK 900 RELATED ID: 4C58 RELATED DB: PDB
REMARK 900 STRUCTURE OF GAK KINASE IN COMPLEX WITH NANOBODY (NBGAK_4)
REMARK 999
REMARK 999 SEQUENCE
REMARK 999 SYNTHETIC, NON-BIOLOGICAL SEQUENCE
DBREF 4C59 A 14 351 UNP O14976 GAK_HUMAN 14 351
DBREF 4C59 B 1 147 PDB 4C59 4C59 1 147
SEQADV 4C59 SER A 12 UNP O14976 EXPRESSION TAG
SEQADV 4C59 MET A 13 UNP O14976 EXPRESSION TAG
SEQRES 1 A 340 SER MET PRO GLY SER LEU GLY GLY ALA SER GLY ARG ASP
SEQRES 2 A 340 GLN SER ASP PHE VAL GLY GLN THR VAL GLU LEU GLY GLU
SEQRES 3 A 340 LEU ARG LEU ARG VAL ARG ARG VAL LEU ALA GLU GLY GLY
SEQRES 4 A 340 PHE ALA PHE VAL TYR GLU ALA GLN ASP VAL GLY SER GLY
SEQRES 5 A 340 ARG GLU TYR ALA LEU LYS ARG LEU LEU SER ASN GLU GLU
SEQRES 6 A 340 GLU LYS ASN ARG ALA ILE ILE GLN GLU VAL CYS PHE MET
SEQRES 7 A 340 LYS LYS LEU SER GLY HIS PRO ASN ILE VAL GLN PHE CYS
SEQRES 8 A 340 SER ALA ALA SER ILE GLY LYS GLU GLU SER ASP THR GLY
SEQRES 9 A 340 GLN ALA GLU PHE LEU LEU LEU THR GLU LEU CYS LYS GLY
SEQRES 10 A 340 GLN LEU VAL GLU PHE LEU LYS LYS MET GLU SER ARG GLY
SEQRES 11 A 340 PRO LEU SER CYS ASP THR VAL LEU LYS ILE PHE TYR GLN
SEQRES 12 A 340 THR CYS ARG ALA VAL GLN HIS MET HIS ARG GLN LYS PRO
SEQRES 13 A 340 PRO ILE ILE HIS ARG ASP LEU LYS VAL GLU ASN LEU LEU
SEQRES 14 A 340 LEU SER ASN GLN GLY THR ILE LYS LEU CYS ASP PHE GLY
SEQRES 15 A 340 SER ALA THR THR ILE SER HIS TYR PRO ASP TYR SER TRP
SEQRES 16 A 340 SER ALA GLN ARG ARG ALA LEU VAL GLU GLU GLU ILE THR
SEQRES 17 A 340 ARG ASN THR THR PRO MET TYR ARG THR PRO GLU ILE ILE
SEQRES 18 A 340 ASP LEU TYR SER ASN PHE PRO ILE GLY GLU LYS GLN ASP
SEQRES 19 A 340 ILE TRP ALA LEU GLY CYS ILE LEU TYR LEU LEU CYS PHE
SEQRES 20 A 340 ARG GLN HIS PRO PHE GLU ASP GLY ALA LYS LEU ARG ILE
SEQRES 21 A 340 VAL ASN GLY LYS TYR SER ILE PRO PRO HIS ASP THR GLN
SEQRES 22 A 340 TYR THR VAL PHE HIS SER LEU ILE ARG ALA MET LEU GLN
SEQRES 23 A 340 VAL ASN PRO GLU GLU ARG LEU SER ILE ALA GLU VAL VAL
SEQRES 24 A 340 HIS GLN LEU GLN GLU ILE ALA ALA ALA ARG ASN VAL ASN
SEQRES 25 A 340 PRO LYS SER PRO ILE THR GLU LEU LEU GLU GLN ASN GLY
SEQRES 26 A 340 GLY TYR GLY SER ALA THR LEU SER ARG GLY PRO PRO PRO
SEQRES 27 A 340 PRO VAL
SEQRES 1 B 140 GLN VAL GLN LEU GLN GLU SER GLY GLY GLY SER VAL GLN
SEQRES 2 B 140 ALA GLY GLY SER LEU ARG LEU SER CYS GLY ALA SER GLU
SEQRES 3 B 140 TYR THR SER ARG MET GLY TRP PHE ARG GLN ALA PRO GLY
SEQRES 4 B 140 ALA GLU ARG GLU GLY VAL ALA CYS ILE HIS ARG GLN SER
SEQRES 5 B 140 ASN LEU SER TYR TYR SER ASP SER VAL ARG GLY ARG PHE
SEQRES 6 B 140 THR ILE SER GLN ASP ASN ALA LYS THR THR ALA PHE LEU
SEQRES 7 B 140 LEU MET SER SER LEU LYS PRO GLU ASP THR ALA ILE TYR
SEQRES 8 B 140 TYR CYS ALA THR THR THR ASP CYS ALA ALA PHE VAL GLU
SEQRES 9 B 140 ARG ALA THR ALA ILE THR ALA GLY GLN GLY THR GLN VAL
SEQRES 10 B 140 THR VAL SER SER ALA ALA ALA TYR PRO TYR ASP VAL PRO
SEQRES 11 B 140 ASP TYR GLY SER HIS HIS HIS HIS HIS HIS
HET FEF A1334 27
HETNAM FEF (2Z,3E)-2,3'-BIINDOLE-2',3(1H,1'H)-DIONE 3-{O-[(3R)-3,
HETNAM 2 FEF 4-DIHYDROXYBUTYL]OXIME}
FORMUL 3 FEF C20 H19 N3 O4
FORMUL 4 HOH *63(H2 O)
HELIX 1 1 GLU A 75 SER A 93 1 19
HELIX 2 2 GLY A 108 SER A 112 5 5
HELIX 3 3 LEU A 130 SER A 139 1 10
HELIX 4 4 SER A 144 ARG A 164 1 21
HELIX 5 5 LYS A 175 GLU A 177 5 3
HELIX 6 6 GLY A 241 ARG A 259 1 19
HELIX 7 7 TYR A 285 VAL A 287 5 3
HELIX 8 8 PHE A 288 LEU A 296 1 9
HELIX 9 9 SER A 305 ARG A 320 1 16
HELIX 10 10 ILE A 328 LEU A 332 5 5
HELIX 11 11 LYS B 95 THR B 99 5 5
HELIX 12 12 ASP B 109 ALA B 113 1 9
SHEET 1 AA 6 THR A 32 LEU A 35 0
SHEET 2 AA 6 LEU A 38 ALA A 47 -1 O LEU A 38 N LEU A 35
SHEET 3 AA 6 ALA A 52 ASP A 59 -1 O VAL A 54 N LEU A 46
SHEET 4 AA 6 GLU A 65 SER A 73 -1 O TYR A 66 N ALA A 57
SHEET 5 AA 6 ALA A 117 THR A 123 -1 O ALA A 117 N SER A 73
SHEET 6 AA 6 PHE A 101 ILE A 107 -1 N CYS A 102 O LEU A 122
SHEET 1 AB 3 GLY A 128 GLN A 129 0
SHEET 2 AB 3 LEU A 179 LEU A 181 -1 O LEU A 181 N GLY A 128
SHEET 3 AB 3 ILE A 187 LEU A 189 -1 O LYS A 188 N LEU A 180
SHEET 1 BA 4 LEU B 4 GLY B 8 0
SHEET 2 BA 4 LEU B 19 ALA B 25 -1 O SER B 22 N SER B 7
SHEET 3 BA 4 THR B 86 MET B 91 -1 O ALA B 87 N CYS B 23
SHEET 4 BA 4 PHE B 76 GLN B 80 -1 O THR B 77 N LEU B 90
SHEET 1 BB 4 GLY B 11 GLN B 14 0
SHEET 2 BB 4 THR B 122 SER B 127 1 O GLN B 123 N GLY B 11
SHEET 3 BB 4 ALA B 100 THR B 106 -1 O ALA B 100 N VAL B 124
SHEET 4 BB 4 THR B 117 ALA B 118 -1 O THR B 117 N THR B 106
SHEET 1 BC 6 GLY B 11 GLN B 14 0
SHEET 2 BC 6 THR B 122 SER B 127 1 O GLN B 123 N GLY B 11
SHEET 3 BC 6 ALA B 100 THR B 106 -1 O ALA B 100 N VAL B 124
SHEET 4 BC 6 ARG B 34 GLN B 44 -1 O GLY B 40 N ALA B 105
SHEET 5 BC 6 GLU B 51 HIS B 57 -1 O GLU B 51 N ARG B 43
SHEET 6 BC 6 LEU B 62 TYR B 67 -1 O LEU B 62 N HIS B 57
SHEET 1 BD 2 THR B 117 ALA B 118 0
SHEET 2 BD 2 ALA B 100 THR B 106 -1 N THR B 106 O THR B 117
SSBOND 1 CYS B 23 CYS B 104 1555 1555 2.01
SSBOND 2 CYS B 55 CYS B 110 1555 1555 2.08
CISPEP 1 LYS A 166 PRO A 167 0 3.98
SITE 1 AC1 11 ALA A 47 ALA A 67 THR A 123 GLU A 124
SITE 2 AC1 11 LEU A 125 CYS A 126 GLY A 128 GLN A 129
SITE 3 AC1 11 GLU A 177 ASN A 178 LEU A 180
CRYST1 174.268 37.753 75.546 90.00 111.46 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 0.005738 0.000000 0.002256 0.00000
SCALE2 0.000000 0.026488 0.000000 0.00000
SCALE3 0.000000 0.000000 0.014223 0.00000