HEADER MEMBRANE PROTEIN 05-SEP-18 6ME5
TITLE XFEL CRYSTAL STRUCTURE OF HUMAN MELATONIN RECEPTOR MT1 IN COMPLEX WITH
TITLE 2 AGOMELATINE
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: CHIMERA PROTEIN OF MELATONIN RECEPTOR TYPE 1A AND GLGA
COMPND 3 GLYCOGEN SYNTHASE;
COMPND 4 CHAIN: A;
COMPND 5 SYNONYM: MEL1A RECEPTOR,GLYCOGEN SYNTHASE,MEL1A RECEPTOR;
COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS, PYROCOCCUS ABYSSI GE5;
SOURCE 3 ORGANISM_COMMON: HUMAN;
SOURCE 4 ORGANISM_TAXID: 9606, 272844;
SOURCE 5 STRAIN: GE5 / ORSAY;
SOURCE 6 GENE: MTNR1A, PAB2292;
SOURCE 7 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA;
SOURCE 8 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM;
SOURCE 9 EXPRESSION_SYSTEM_TAXID: 7108;
SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS
KEYWDS GPCR, MELATONIN RECEPTOR TYPE 1A (MT1), AGOMELATINE, MEMBRANE
KEYWDS 2 PROTEIN, XFEL, LCP, PGS, CIRCADIAN RHYTHM, JETLAG
EXPDTA X-RAY DIFFRACTION
AUTHOR B.STAUCH,L.C.JOHANSSON,J.D.MCCORVY,N.PATEL,G.W.HAN,C.GATI,A.BATYUK,
AUTHOR 2 A.ISHCHENKO,W.BREHM,T.A.WHITE,N.MICHAELIAN,C.MADSEN,L.ZHU,T.D.GRANT,
AUTHOR 3 J.M.GRANDNER,R.H.J.OLSEN,A.R.TRIBO,U.WEIERSTALL,B.L.ROTH,V.KATRITCH,
AUTHOR 4 W.LIU,V.CHEREZOV
REVDAT 6 11-OCT-23 6ME5 1 REMARK
REVDAT 5 03-FEB-21 6ME5 1 REMARK
REVDAT 4 01-JAN-20 6ME5 1 REMARK
REVDAT 3 22-MAY-19 6ME5 1 JRNL
REVDAT 2 08-MAY-19 6ME5 1 JRNL
REVDAT 1 24-APR-19 6ME5 0
JRNL AUTH B.STAUCH,L.C.JOHANSSON,J.D.MCCORVY,N.PATEL,G.W.HAN,
JRNL AUTH 2 X.P.HUANG,C.GATI,A.BATYUK,S.T.SLOCUM,A.ISHCHENKO,W.BREHM,
JRNL AUTH 3 T.A.WHITE,N.MICHAELIAN,C.MADSEN,L.ZHU,T.D.GRANT,
JRNL AUTH 4 J.M.GRANDNER,A.SHIRIAEVA,R.H.J.OLSEN,A.R.TRIBO,S.YOUS,
JRNL AUTH 5 R.C.STEVENS,U.WEIERSTALL,V.KATRITCH,B.L.ROTH,W.LIU,
JRNL AUTH 6 V.CHEREZOV
JRNL TITL STRUCTURAL BASIS OF LIGAND RECOGNITION AT THE HUMAN
JRNL TITL 2 MT1MELATONIN RECEPTOR.
JRNL REF NATURE V. 569 284 2019
JRNL REFN ESSN 1476-4687
JRNL PMID 31019306
JRNL DOI 10.1038/S41586-019-1141-3
REMARK 2
REMARK 2 RESOLUTION. 3.20 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : BUSTER 2.10.2
REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER,
REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN,
REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD
REMARK 3
REMARK 3 DATA USED IN REFINEMENT.
REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.20
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.87
REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000
REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7
REMARK 3 NUMBER OF REFLECTIONS : 15853
REMARK 3
REMARK 3 FIT TO DATA USED IN REFINEMENT.
REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE
REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM
REMARK 3 R VALUE (WORKING + TEST SET) : 0.234
REMARK 3 R VALUE (WORKING SET) : 0.232
REMARK 3 FREE R VALUE : 0.257
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030
REMARK 3 FREE R VALUE TEST SET COUNT : 797
REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.000
REMARK 3
REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN.
REMARK 3 TOTAL NUMBER OF BINS USED : 8
REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 3.20
REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 3.42
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.08
REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2798
REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2280
REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2653
REMARK 3 BIN R VALUE (WORKING SET) : 0.2280
REMARK 3 BIN FREE R VALUE : 0.2310
REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.18
REMARK 3 BIN FREE R VALUE TEST SET COUNT : 145
REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 3668
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 27
REMARK 3 SOLVENT ATOMS : 0
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : 64.10
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 114.6
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : -5.02910
REMARK 3 B22 (A**2) : -5.02910
REMARK 3 B33 (A**2) : 10.05820
REMARK 3 B12 (A**2) : 0.00000
REMARK 3 B13 (A**2) : 0.00000
REMARK 3 B23 (A**2) : 0.00000
REMARK 3
REMARK 3 ESTIMATED COORDINATE ERROR.
REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.580
REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 1.445
REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.391
REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 1.375
REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.396
REMARK 3
REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797
REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601
REMARK 3
REMARK 3 CORRELATION COEFFICIENTS.
REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.926
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.918
REMARK 3
REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15
REMARK 3 TERM COUNT WEIGHT FUNCTION.
REMARK 3 BOND LENGTHS : 3783 ; 2.000 ; HARMONIC
REMARK 3 BOND ANGLES : 5159 ; 2.000 ; HARMONIC
REMARK 3 TORSION ANGLES : 1667 ; 2.000 ; SINUSOIDAL
REMARK 3 TRIGONAL CARBON PLANES : 60 ; 2.000 ; HARMONIC
REMARK 3 GENERAL PLANES : 569 ; 5.000 ; HARMONIC
REMARK 3 ISOTROPIC THERMAL FACTORS : 3783 ; 20.000 ; HARMONIC
REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL
REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL
REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL
REMARK 3 CHIRAL IMPROPER TORSION : 512 ; 5.000 ; SEMIHARMONIC
REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL
REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL
REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL
REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL
REMARK 3 IDEAL-DIST CONTACT TERM : 4417 ; 4.000 ; SEMIHARMONIC
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES.
REMARK 3 BOND LENGTHS (A) : 0.009
REMARK 3 BOND ANGLES (DEGREES) : 0.93
REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.08
REMARK 3 OTHER TORSION ANGLES (DEGREES) : 2.95
REMARK 3
REMARK 3 TLS DETAILS
REMARK 3 NUMBER OF TLS GROUPS : NULL
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4
REMARK 4 6ME5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-SEP-18.
REMARK 100 THE DEPOSITION ID IS D_1000236727.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 07-DEC-17
REMARK 200 TEMPERATURE (KELVIN) : 293
REMARK 200 PH : NULL
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : N
REMARK 200 RADIATION SOURCE : FREE ELECTRON LASER
REMARK 200 BEAMLINE : CXI
REMARK 200 X-RAY GENERATOR MODEL : SLAC LCLS BEAMLINE CXI
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 1.30
REMARK 200 MONOCHROMATOR : NULL
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : PIXEL
REMARK 200 DETECTOR MANUFACTURER : CS-PAD CXI-1
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTFEL 0.6.2
REMARK 200 DATA SCALING SOFTWARE : CRYSTFEL 0.6.2
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15917
REMARK 200 RESOLUTION RANGE HIGH (A) : 3.200
REMARK 200 RESOLUTION RANGE LOW (A) : 28.900
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0
REMARK 200 DATA REDUNDANCY : 15917
REMARK 200 R MERGE (I) : NULL
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.7000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.20
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.42
REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0
REMARK 200 DATA REDUNDANCY IN SHELL : 151.6
REMARK 200 R MERGE FOR SHELL (I) : NULL
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR SHELL : 0.700
REMARK 200
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT
REMARK 200 SOFTWARE USED: PHASER 2.1
REMARK 200 STARTING MODEL: 4S0V
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 69.63
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.05
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 60-100 MM POTASSIUM PHOSPHATE
REMARK 280 MONOBASIC, 32-35% (VOL/VOL) PEG 400, 100 MM HEPES PH 7.0, 1 MM
REMARK 280 LIGAND, 2.5% (VOL/VOL) DMSO, 1.5% (VOL/VOL) PROPAN-2-OL, LIPIDIC
REMARK 280 CUBIC PHASE, TEMPERATURE 293K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 4 21 2
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 -Y+1/2,X+1/2,Z
REMARK 290 4555 Y+1/2,-X+1/2,Z
REMARK 290 5555 -X+1/2,Y+1/2,-Z
REMARK 290 6555 X+1/2,-Y+1/2,-Z
REMARK 290 7555 Y,X,-Z
REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 61.10000
REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 61.10000
REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 61.10000
REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 61.10000
REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 61.10000
REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 61.10000
REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 61.10000
REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 61.10000
REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000
REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000
REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY3 8 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 300 REMARK: AUTHORS STATE BIOLOGICAL UNIT IS UNKNOWN
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: 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 GLY A 10
REMARK 465 THR A 11
REMARK 465 SER A 12
REMARK 465 GLN A 13
REMARK 465 PRO A 14
REMARK 465 VAL A 15
REMARK 465 LEU A 16
REMARK 465 ARG A 17
REMARK 465 GLY A 18
REMARK 465 ASP A 19
REMARK 465 GLY A 20
REMARK 465 ALA A 21
REMARK 465 ARG A 22
REMARK 465 VAL A 321
REMARK 465 ASP A 322
REMARK 465 SER A 323
REMARK 465 SER A 324
REMARK 465 ASN A 325
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 SER A 24 OG
REMARK 470 LEU A 26 CG CD1 CD2
REMARK 470 VAL A 39 CG1 CG2
REMARK 470 LEU A 46 CG CD1 CD2
REMARK 470 TYR A 53 CG CD1 CD2 CE1 CE2 CZ OH
REMARK 470 ARG A 54 CZ NH1 NH2
REMARK 470 LYS A 56 CG CD CE NZ
REMARK 470 LYS A 57 CG CD CE NZ
REMARK 470 ASP A 136 CG OD1 OD2
REMARK 470 LYS A 137 CG CD CE NZ
REMARK 470 LEU A 138 CD1 CD2
REMARK 470 LYS A 142 CG CD CE NZ
REMARK 470 SER A 144 OG
REMARK 470 LEU A 145 CG CD1 CD2
REMARK 470 VAL A 191 CG1 CG2
REMARK 470 GLU A1018 CG CD OE1 OE2
REMARK 470 LYS A1021 CG CD CE NZ
REMARK 470 LEU A1023 CG CD1 CD2
REMARK 470 SER A1025 OG
REMARK 470 LYS A1026 CG CD CE NZ
REMARK 470 GLU A1031 CG CD OE1 OE2
REMARK 470 ARG A1043 CG CD NE CZ NH1 NH2
REMARK 470 GLN A1045 OE1 NE2
REMARK 470 LYS A1053 CG CD CE NZ
REMARK 470 LYS A1062 CG CD CE NZ
REMARK 470 GLU A1066 CG CD OE1 OE2
REMARK 470 LYS A1074 CG CD CE NZ
REMARK 470 ARG A1084 CD NE CZ NH1 NH2
REMARK 470 LYS A1089 CD CE NZ
REMARK 470 LYS A1094 CG CD CE NZ
REMARK 470 MET A1099 CG SD CE
REMARK 470 LEU A1100 CG CD1 CD2
REMARK 470 PHE A1121 CG CD1 CD2 CE1 CE2 CZ
REMARK 470 ARG A1147 CG CD NE CZ NH1 NH2
REMARK 470 LYS A1159 CG CD CE NZ
REMARK 470 LYS A1172 CG CD CE NZ
REMARK 470 GLU A1175 CG CD OE1 OE2
REMARK 470 ARG A1178 CG CD NE CZ NH1 NH2
REMARK 470 SER A1179 OG
REMARK 470 LYS A1189 CE NZ
REMARK 470 LYS A1190 CG CD CE NZ
REMARK 470 MET A1193 CE
REMARK 470 LYS A 228 CD CE NZ
REMARK 470 VAL A 269 CG1 CG2
REMARK 470 SER A 280 OG
REMARK 470 GLN A 300 CG CD OE1 NE2
REMARK 470 LYS A 304 CG CD CE NZ
REMARK 470 ARG A 307 CG CD NE CZ NH1 NH2
REMARK 470 ILE A 310 CG1 CG2 CD1
REMARK 470 VAL A 311 CG1 CG2
REMARK 470 ARG A 317 CG CD NE CZ NH1 NH2
REMARK 470 VAL A 318 CG1 CG2
REMARK 470 PHE A 319 CG CD1 CD2 CE1 CE2 CZ
REMARK 470 PHE A 320 CG CD1 CD2 CE1 CE2 CZ
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 TYR A 79 -52.46 -129.66
REMARK 500 PHE A 196 -61.28 -142.96
REMARK 500 PHE A1006 -61.14 -94.06
REMARK 500 THR A1013 -96.95 -89.84
REMARK 500 GLN A1045 -66.41 -127.98
REMARK 500 PHE A1124 -60.14 -104.97
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 OLA A 1202
REMARK 800
REMARK 800 SITE
REMARK 800 SITE_IDENTIFIER: AC1
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue AWY A 1201
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue OLA A 1202
DBREF 6ME5 A 12 218 UNP P48039 MTR1A_HUMAN 12 218
DBREF 6ME5 A 1001 1196 UNP Q9V2J8 Q9V2J8_PYRAB 218 413
DBREF 6ME5 A 228 325 UNP P48039 MTR1A_HUMAN 228 325
SEQADV 6ME5 GLY A 10 UNP P48039 EXPRESSION TAG
SEQADV 6ME5 THR A 11 UNP P48039 EXPRESSION TAG
SEQADV 6ME5 ASN A 73 UNP P48039 ASP 73 ENGINEERED MUTATION
SEQADV 6ME5 PHE A 95 UNP P48039 LEU 95 ENGINEERED MUTATION
SEQADV 6ME5 ALA A 104 UNP P48039 GLY 104 ENGINEERED MUTATION
SEQADV 6ME5 TRP A 116 UNP P48039 PHE 116 ENGINEERED MUTATION
SEQADV 6ME5 ASP A 124 UNP P48039 ASN 124 ENGINEERED MUTATION
SEQADV 6ME5 LEU A 127 UNP P48039 CYS 127 ENGINEERED MUTATION
SEQADV 6ME5 PHE A 251 UNP P48039 TRP 251 ENGINEERED MUTATION
SEQADV 6ME5 PRO A 292 UNP P48039 ALA 292 ENGINEERED MUTATION
SEQADV 6ME5 ASP A 299 UNP P48039 ASN 299 ENGINEERED MUTATION
SEQRES 1 A 503 GLY THR SER GLN PRO VAL LEU ARG GLY ASP GLY ALA ARG
SEQRES 2 A 503 PRO SER TRP LEU ALA SER ALA LEU ALA CYS VAL LEU ILE
SEQRES 3 A 503 PHE THR ILE VAL VAL ASP ILE LEU GLY ASN LEU LEU VAL
SEQRES 4 A 503 ILE LEU SER VAL TYR ARG ASN LYS LYS LEU ARG ASN ALA
SEQRES 5 A 503 GLY ASN ILE PHE VAL VAL SER LEU ALA VAL ALA ASN LEU
SEQRES 6 A 503 VAL VAL ALA ILE TYR PRO TYR PRO LEU VAL LEU MET SER
SEQRES 7 A 503 ILE PHE ASN ASN GLY TRP ASN PHE GLY TYR LEU HIS CYS
SEQRES 8 A 503 GLN VAL SER ALA PHE LEU MET GLY LEU SER VAL ILE GLY
SEQRES 9 A 503 SER ILE TRP ASN ILE THR GLY ILE ALA ILE ASP ARG TYR
SEQRES 10 A 503 LEU TYR ILE CYS HIS SER LEU LYS TYR ASP LYS LEU TYR
SEQRES 11 A 503 SER SER LYS ASN SER LEU CYS TYR VAL LEU LEU ILE TRP
SEQRES 12 A 503 LEU LEU THR LEU ALA ALA VAL LEU PRO ASN LEU ARG ALA
SEQRES 13 A 503 GLY THR LEU GLN TYR ASP PRO ARG ILE TYR SER CYS THR
SEQRES 14 A 503 PHE ALA GLN SER VAL SER SER ALA TYR THR ILE ALA VAL
SEQRES 15 A 503 VAL VAL PHE HIS PHE LEU VAL PRO MET ILE ILE VAL ILE
SEQRES 16 A 503 PHE CYS TYR LEU ARG ILE TRP ILE LEU VAL LEU GLN VAL
SEQRES 17 A 503 ARG GLY ILE ASP YCM SER PHE TRP ASN GLU SER TYR LEU
SEQRES 18 A 503 THR GLY SER ARG ASP GLU ARG LYS LYS SER LEU LEU SER
SEQRES 19 A 503 LYS PHE GLY MET ASP GLU GLY VAL THR PHE MET PHE ILE
SEQRES 20 A 503 GLY ARG PHE ASP ARG GLY GLN LYS GLY VAL ASP VAL LEU
SEQRES 21 A 503 LEU LYS ALA ILE GLU ILE LEU SER SER LYS LYS GLU PHE
SEQRES 22 A 503 GLN GLU MET ARG PHE ILE ILE ILE GLY LYS GLY ASP PRO
SEQRES 23 A 503 GLU LEU GLU GLY TRP ALA ARG SER LEU GLU GLU LYS HIS
SEQRES 24 A 503 GLY ASN VAL LYS VAL ILE THR GLU MET LEU SER ARG GLU
SEQRES 25 A 503 PHE VAL ARG GLU LEU TYR GLY SER VAL ASP PHE VAL ILE
SEQRES 26 A 503 ILE PRO SER TYR PHE GLU PRO PHE GLY LEU VAL ALA LEU
SEQRES 27 A 503 GLU ALA MET CYS LEU GLY ALA ILE PRO ILE ALA SER ALA
SEQRES 28 A 503 VAL GLY GLY LEU ARG ASP ILE ILE THR ASN GLU THR GLY
SEQRES 29 A 503 ILE LEU VAL LYS ALA GLY ASP PRO GLY GLU LEU ALA ASN
SEQRES 30 A 503 ALA ILE LEU LYS ALA LEU GLU LEU SER ARG SER ASP LEU
SEQRES 31 A 503 SER LYS PHE ARG GLU ASN CYS LYS LYS ARG ALA MET SER
SEQRES 32 A 503 PHE SER LYS LEU LYS PRO GLN ASP PHE ARG ASN PHE VAL
SEQRES 33 A 503 THR MET PHE VAL VAL PHE VAL LEU PHE ALA ILE CYS PHE
SEQRES 34 A 503 ALA PRO LEU ASN PHE ILE GLY LEU ALA VAL ALA SER ASP
SEQRES 35 A 503 PRO ALA SER MET VAL PRO ARG ILE PRO GLU TRP LEU PHE
SEQRES 36 A 503 VAL ALA SER TYR TYR MET ALA TYR PHE ASN SER CYS LEU
SEQRES 37 A 503 ASN PRO ILE ILE TYR GLY LEU LEU ASP GLN ASN PHE ARG
SEQRES 38 A 503 LYS GLU TYR ARG ARG ILE ILE VAL SER LEU CYS THR ALA
SEQRES 39 A 503 ARG VAL PHE PHE VAL ASP SER SER ASN
MODRES 6ME5 YCM A 1004 CYS MODIFIED RESIDUE
HET YCM A1004 10
HET AWY A1201 18
HET OLA A1202 9
HETNAM YCM S-(2-AMINO-2-OXOETHYL)-L-CYSTEINE
HETNAM AWY ~{N}-[2-(7-METHOXYNAPHTHALEN-1-YL)ETHYL]ETHANAMIDE
HETNAM OLA OLEIC ACID
HETSYN YCM CYSTEINE-S-ACETAMIDE
FORMUL 1 YCM C5 H10 N2 O3 S
FORMUL 2 AWY C15 H17 N O2
FORMUL 3 OLA C18 H34 O2
HELIX 1 AA1 PRO A 23 ASN A 55 1 33
HELIX 2 AA2 ASN A 60 GLY A 62 5 3
HELIX 3 AA3 ASN A 63 TYR A 79 1 17
HELIX 4 AA4 TYR A 79 ASN A 91 1 13
HELIX 5 AA5 TYR A 97 TYR A 135 1 39
HELIX 6 AA6 ASN A 143 LEU A 160 1 18
HELIX 7 AA7 LEU A 160 ALA A 165 1 6
HELIX 8 AA8 SER A 184 PHE A 196 1 13
HELIX 9 AA9 PHE A 196 ILE A 1002 1 25
HELIX 10 AB1 ASN A 1008 LEU A 1012 5 5
HELIX 11 AB2 SER A 1015 PHE A 1027 1 13
HELIX 12 AB3 GLY A 1047 SER A 1060 1 14
HELIX 13 AB4 LYS A 1061 GLN A 1065 5 5
HELIX 14 AB5 ASP A 1076 HIS A 1090 1 15
HELIX 15 AB6 SER A 1101 VAL A 1112 1 12
HELIX 16 AB7 GLY A 1125 CYS A 1133 1 9
HELIX 17 AB8 GLY A 1145 ILE A 1150 1 6
HELIX 18 AB9 ASP A 1162 GLU A 1175 1 14
HELIX 19 AC1 SER A 1177 LEU A 229 1 22
HELIX 20 AC2 PHE A 234 ASP A 264 1 31
HELIX 21 AC3 ASP A 264 ILE A 272 1 9
HELIX 22 AC4 PRO A 273 ASP A 299 1 27
HELIX 23 AC5 ASP A 299 THR A 315 1 17
SHEET 1 AA1 2 LEU A 168 ASP A 171 0
SHEET 2 AA1 2 SER A 176 PHE A 179 -1 O SER A 176 N ASP A 171
SHEET 1 AA2 6 VAL A1093 ILE A1096 0
SHEET 2 AA2 6 MET A1067 ILE A1072 1 N PHE A1069 O LYS A1094
SHEET 3 AA2 6 VAL A1033 ILE A1038 1 N PHE A1035 O ARG A1068
SHEET 4 AA2 6 PHE A1114 ILE A1117 1 O ILE A1116 N MET A1036
SHEET 5 AA2 6 ILE A1137 SER A1141 1 O ILE A1139 N VAL A1115
SHEET 6 AA2 6 ILE A1156 VAL A1158 1 O ILE A1156 N PRO A1138
SSBOND 1 CYS A 100 CYS A 177 1555 1555 2.03
LINK C ASP A1003 N YCM A1004 1555 1555 1.34
LINK C YCM A1004 N SER A1005 1555 1555 1.35
SITE 1 AC1 8 ALA A 104 MET A 107 GLY A 108 ASN A 162
SITE 2 AC1 8 THR A 178 PHE A 179 GLN A 181 LEU A 254
SITE 1 AC2 3 TYR A 207 TRP A 211 PHE A 241
CRYST1 122.200 122.200 122.800 90.00 90.00 90.00 P 4 21 2 8
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 0.008183 0.000000 0.000000 0.00000
SCALE2 0.000000 0.008183 0.000000 0.00000
SCALE3 0.000000 0.000000 0.008143 0.00000