HEADER TRANSFERASE 21-NOV-12 3ZCQ TITLE RABBIT MUSCLE GLYCOGEN PHOSPHORYLASE B IN COMPLEX WITH N-(4- TITLE 2 TRIFLUOROMETHYL-BENZOYL)-N-BETA-D-GLUCOPYRANOSYL UREA DETERMINED AT TITLE 3 2. 15 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCOGEN PHOSPHORYLASE, MUSCLE FORM; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MYOPHOSPHORYLASE; COMPND 5 EC: 2.4.1.1 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ORYCTOLAGUS CUNICULUS; SOURCE 3 ORGANISM_COMMON: RABBIT; SOURCE 4 ORGANISM_TAXID: 9986; SOURCE 5 TISSUE: MUSCLE; SOURCE 6 OTHER_DETAILS: RABBIT SKELETAL MUSCLE KEYWDS TRANSFERASE, INHIBITOR, HYPOGLYCAEMIC AGENTS, STRUCTURE-BASED LIGAND KEYWDS 2 DESIGN EXPDTA X-RAY DIFFRACTION AUTHOR E.D.CHRYSINA,V.NAGY,N.FELFOLDI,B.KONYA,K.TELEPO,J.P.PRALY,T.DOCSA, AUTHOR 2 P.GERGELY,K.M.ALEXACOU,J.M.HAYES,M.KONSTANTAKAKI,R.KARDAKARIS, AUTHOR 3 D.D.LEONIDAS,S.E.ZOGRAPHOS,N.G.OIKONOMAKOS,L.SOMSAK REVDAT 2 20-DEC-23 3ZCQ 1 REMARK LINK REVDAT 1 11-DEC-13 3ZCQ 0 JRNL AUTH E.D.CHRYSINA,V.NAGY,N.FELFOLDI,B.KONYA,K.TELEPO,J.P.PRALY, JRNL AUTH 2 T.DOCSA,P.GERGELY,K.M.ALEXACOU,J.M.HAYES,M.KONSTANTAKAKI, JRNL AUTH 3 R.KARDAKARIS,D.D.LEONIDAS,S.E.ZOGRAPHOS,N.G.OIKONOMAKOS, JRNL AUTH 4 L.SOMSAK JRNL TITL SYNTHESIS, KINETIC, COMPUTATIONAL AND CRYSTALLOGRAPHIC JRNL TITL 2 EVALUATION OF N-ACYL-N-BETA-D- GLUCOPYRANOSYL)UREAS, JRNL TITL 3 NANOMOLAR GLUCOSE ANALOGUE INHIBITORS OF GLYCOGEN JRNL TITL 4 PHOSPHORYLASE, POTENTIAL ANTIDIABETIC AGENTS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH N.G.OIKONOMAKOS,M.KOSMOPOULOU,S.E.ZOGRAPHOS,D.D.LEONIDAS, REMARK 1 AUTH 2 E.D.CHRYSINA,L.SOMSAK,V.NAGY,J.PRALY,T.DOCSA,B.TOTH, REMARK 1 AUTH 3 P.GERGELY REMARK 1 TITL BINDING OF N-ACETYL-N '-BETA-D-GLUCOPYRANOSYL UREA AND REMARK 1 TITL 2 N-BENZOYL-N '-BETA-D-GLUCOPYRANOSYL UREA TO GLYCOGEN REMARK 1 TITL 3 PHOSPHORYLASE B: KINETIC AND CRYSTALLOGRAPHIC STUDIES. REMARK 1 REF EUR.J.BIOCHEM. V. 269 1684 2002 REMARK 1 REFN ISSN 0014-2956 REMARK 1 PMID 11895439 REMARK 1 DOI 10.1046/J.1432-1327.2002.02813.X REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 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) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.59 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 50377 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2699 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) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3645 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.15 REMARK 3 BIN R VALUE (WORKING SET) : 0.2130 REMARK 3 BIN FREE R VALUE SET COUNT : 225 REMARK 3 BIN FREE R VALUE : 0.2470 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6581 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 47 REMARK 3 SOLVENT ATOMS : 281 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.53 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : -0.04000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.220 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.177 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.116 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.362 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6775 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9175 ; 1.005 ; 1.959 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 807 ; 5.141 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 346 ;33.505 ;23.555 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1175 ;13.398 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 59 ;19.656 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 992 ; 0.071 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5190 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 4032 ; 0.491 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6509 ; 0.949 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2743 ; 1.284 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2666 ; 2.251 ; 4.500 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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. THE FOLLOWING RESIDUES WERE NOT INCLUDED IN THE REMARK 3 STRUCTURE SINCE THERE WAS NOT SUFFICIENT DENSITY TO INDICATE REMARK 3 THEIR POSITION 1-11, 252-257, 315-323, 837-842 REMARK 4 REMARK 4 3ZCQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-NOV-12. REMARK 100 THE DEPOSITION ID IS D_1290054823. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-NOV-06 REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : 6.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX9.6 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 53088 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 5.300 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.19 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 5.30 REMARK 200 R MERGE FOR SHELL (I) : 0.45000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.100 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 ENTRY 2QNB REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 6.8 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 58.45150 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 64.32500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 64.32500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 87.67725 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 64.32500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 64.32500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 29.22575 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 64.32500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 64.32500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 87.67725 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 64.32500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 64.32500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 29.22575 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 58.45150 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 57440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -34.9 KCAL/MOL 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 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 116.90300 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 MET A 0 REMARK 465 SER A 1 REMARK 465 ARG A 2 REMARK 465 PRO A 3 REMARK 465 LEU A 4 REMARK 465 SER A 5 REMARK 465 ASP A 6 REMARK 465 GLN A 7 REMARK 465 GLU A 8 REMARK 465 LYS A 9 REMARK 465 ARG A 10 REMARK 465 LYS A 11 REMARK 465 PHE A 252 REMARK 465 ASN A 253 REMARK 465 LEU A 254 REMARK 465 LYS A 255 REMARK 465 ASP A 256 REMARK 465 PHE A 257 REMARK 465 LYS A 315 REMARK 465 PHE A 316 REMARK 465 GLY A 317 REMARK 465 CYS A 318 REMARK 465 ARG A 319 REMARK 465 ASP A 320 REMARK 465 PRO A 321 REMARK 465 VAL A 322 REMARK 465 ARG A 323 REMARK 465 PRO A 837 REMARK 465 ASP A 838 REMARK 465 GLU A 839 REMARK 465 LYS A 840 REMARK 465 ILE A 841 REMARK 465 PRO A 842 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 ALA A 19 71.07 -113.60 REMARK 500 LEU A 131 36.62 -90.20 REMARK 500 TYR A 203 -134.22 59.15 REMARK 500 ASN A 236 17.36 59.23 REMARK 500 SER A 313 32.66 -93.66 REMARK 500 ASP A 339 -167.61 67.79 REMARK 500 THR A 466 -92.94 -119.00 REMARK 500 LEU A 492 -66.84 -142.23 REMARK 500 ASP A 514 75.33 -152.89 REMARK 500 LYS A 568 164.84 171.05 REMARK 500 SER A 674 -58.94 -136.85 REMARK 500 SER A 751 71.26 -154.78 REMARK 500 ILE A 824 -53.26 -121.11 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 PLP A 997 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 62N A 998 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 1837 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ZCP RELATED DB: PDB REMARK 900 RABBIT MUSCLE GLYCOGEN PHOSPHORYLASE B IN COMPLEX WITH N- REMARK 900 CYCLOHEXANCARBONYL-N-BETA-D-GLUCOPYRANOSYL UREA DETERMINED AT 1.83 REMARK 900 A RESOLUTION REMARK 900 RELATED ID: 3ZCR RELATED DB: PDB REMARK 900 RABBIT MUSCLE GLYCOGEN PHOSPHORYLASE B IN COMPLEX WITH N-(4-TERT- REMARK 900 BUTYL-BENZOYL)-N-BETA-D-GLUCOPYRANOSYL UREA DETERMINED AT 2.07 A REMARK 900 RESOLUTION REMARK 900 RELATED ID: 3ZCS RELATED DB: PDB REMARK 900 RABBIT MUSCLE GLYCOGEN PHOSPHORYLASE B IN COMPLEX WITH N-(1- REMARK 900 NAPHTHOYL)-N-BETA-D-GLUCOPYRANOSYL UREA DETERMINED AT 2.07 A REMARK 900 RESOLUTION REMARK 900 RELATED ID: 3ZCT RELATED DB: PDB REMARK 900 RABBIT MUSCLE GLYCOGEN PHOSPHORYLASE B IN COMPLEX WITH N-(2- REMARK 900 NAPHTHOYL)-N-BETA-D-GLUCOPYRANOSYL UREA DETERMINED AT 2.0 A REMARK 900 RESOLUTION REMARK 900 RELATED ID: 3ZCU RELATED DB: PDB REMARK 900 RABBIT MUSCLE GLYCOGEN PHOSPHORYLASE B IN COMPLEX WITH N-(PYRIDYL-2- REMARK 900 CARBONYL)-N-BETA-D-GLUCOPYRANOSYL UREA DETERMINED AT 2.05 A REMARK 900 RESOLUTION REMARK 900 RELATED ID: 3ZCV RELATED DB: PDB REMARK 900 RABBIT MUSCLE GLYCOGEN PHOSPHORYLASE B IN COMPLEX WITH N-(INDOL-2- REMARK 900 CARBONYL)-N-BETA-D-GLUCOPYRANOSYL UREA DETERMINED AT 1.8 A REMARK 900 RESOLUTION DBREF 3ZCQ A 0 842 UNP P00489 PYGM_RABIT 1 843 SEQRES 1 A 843 MET SER ARG PRO LEU SER ASP GLN GLU LYS ARG LYS GLN SEQRES 2 A 843 ILE SER VAL ARG GLY LEU ALA GLY VAL GLU ASN VAL THR SEQRES 3 A 843 GLU LEU LYS LYS ASN PHE ASN ARG HIS LEU HIS PHE THR SEQRES 4 A 843 LEU VAL LYS ASP ARG ASN VAL ALA THR PRO ARG ASP TYR SEQRES 5 A 843 TYR PHE ALA LEU ALA HIS THR VAL ARG ASP HIS LEU VAL SEQRES 6 A 843 GLY ARG TRP ILE ARG THR GLN GLN HIS TYR TYR GLU LYS SEQRES 7 A 843 ASP PRO LYS ARG ILE TYR TYR LEU SER LEU GLU PHE TYR SEQRES 8 A 843 MET GLY ARG THR LEU GLN ASN THR MET VAL ASN LEU ALA SEQRES 9 A 843 LEU GLU ASN ALA CYS ASP GLU ALA THR TYR GLN LEU GLY SEQRES 10 A 843 LEU ASP MET GLU GLU LEU GLU GLU ILE GLU GLU ASP ALA SEQRES 11 A 843 GLY LEU GLY ASN GLY GLY LEU GLY ARG LEU ALA ALA CYS SEQRES 12 A 843 PHE LEU ASP SER MET ALA THR LEU GLY LEU ALA ALA TYR SEQRES 13 A 843 GLY TYR GLY ILE ARG TYR GLU PHE GLY ILE PHE ASN GLN SEQRES 14 A 843 LYS ILE CYS GLY GLY TRP GLN MET GLU GLU ALA ASP ASP SEQRES 15 A 843 TRP LEU ARG TYR GLY ASN PRO TRP GLU LYS ALA ARG PRO SEQRES 16 A 843 GLU PHE THR LEU PRO VAL HIS PHE TYR GLY ARG VAL GLU SEQRES 17 A 843 HIS THR SER GLN GLY ALA LYS TRP VAL ASP THR GLN VAL SEQRES 18 A 843 VAL LEU ALA MET PRO TYR ASP THR PRO VAL PRO GLY TYR SEQRES 19 A 843 ARG ASN ASN VAL VAL ASN THR MET ARG LEU TRP SER ALA SEQRES 20 A 843 LYS ALA PRO ASN ASP PHE ASN LEU LYS ASP PHE ASN VAL SEQRES 21 A 843 GLY GLY TYR ILE GLN ALA VAL LEU ASP ARG ASN LEU ALA SEQRES 22 A 843 GLU ASN ILE SER ARG VAL LEU TYR PRO ASN ASP ASN PHE SEQRES 23 A 843 PHE GLU GLY LYS GLU LEU ARG LEU LYS GLN GLU TYR PHE SEQRES 24 A 843 VAL VAL ALA ALA THR LEU GLN ASP ILE ILE ARG ARG PHE SEQRES 25 A 843 LYS SER SER LYS PHE GLY CYS ARG ASP PRO VAL ARG THR SEQRES 26 A 843 ASN PHE ASP ALA PHE PRO ASP LYS VAL ALA ILE GLN LEU SEQRES 27 A 843 ASN ASP THR HIS PRO SER LEU ALA ILE PRO GLU LEU MET SEQRES 28 A 843 ARG VAL LEU VAL ASP LEU GLU ARG LEU ASP TRP ASP LYS SEQRES 29 A 843 ALA TRP GLU VAL THR VAL LYS THR CYS ALA TYR THR ASN SEQRES 30 A 843 HIS THR VAL LEU PRO GLU ALA LEU GLU ARG TRP PRO VAL SEQRES 31 A 843 HIS LEU LEU GLU THR LEU LEU PRO ARG HIS LEU GLN ILE SEQRES 32 A 843 ILE TYR GLU ILE ASN GLN ARG PHE LEU ASN ARG VAL ALA SEQRES 33 A 843 ALA ALA PHE PRO GLY ASP VAL ASP ARG LEU ARG ARG MET SEQRES 34 A 843 SER LEU VAL GLU GLU GLY ALA VAL LYS ARG ILE ASN MET SEQRES 35 A 843 ALA HIS LEU CYS ILE ALA GLY SER HIS ALA VAL ASN GLY SEQRES 36 A 843 VAL ALA ARG ILE HIS SER GLU ILE LEU LYS LYS THR ILE SEQRES 37 A 843 PHE LYS ASP PHE TYR GLU LEU GLU PRO HIS LYS PHE GLN SEQRES 38 A 843 ASN LYS THR ASN GLY ILE THR PRO ARG ARG TRP LEU VAL SEQRES 39 A 843 LEU CYS ASN PRO GLY LEU ALA GLU ILE ILE ALA GLU ARG SEQRES 40 A 843 ILE GLY GLU GLU TYR ILE SER ASP LEU ASP GLN LEU ARG SEQRES 41 A 843 LYS LEU LEU SER TYR VAL ASP ASP GLU ALA PHE ILE ARG SEQRES 42 A 843 ASP VAL ALA LYS VAL LYS GLN GLU ASN LYS LEU LYS PHE SEQRES 43 A 843 ALA ALA TYR LEU GLU ARG GLU TYR LYS VAL HIS ILE ASN SEQRES 44 A 843 PRO ASN SER LEU PHE ASP VAL GLN VAL LYS ARG ILE HIS SEQRES 45 A 843 GLU TYR LYS ARG GLN LEU LEU ASN CYS LEU HIS VAL ILE SEQRES 46 A 843 THR LEU TYR ASN ARG ILE LYS LYS GLU PRO ASN LYS PHE SEQRES 47 A 843 VAL VAL PRO ARG THR VAL MET ILE GLY GLY LYS ALA ALA SEQRES 48 A 843 PRO GLY TYR HIS MET ALA LYS MET ILE ILE LYS LEU ILE SEQRES 49 A 843 THR ALA ILE GLY ASP VAL VAL ASN HIS ASP PRO VAL VAL SEQRES 50 A 843 GLY ASP ARG LEU ARG VAL ILE PHE LEU GLU ASN TYR ARG SEQRES 51 A 843 VAL SER LEU ALA GLU LYS VAL ILE PRO ALA ALA ASP LEU SEQRES 52 A 843 SER GLU GLN ILE SER THR ALA GLY THR GLU ALA SER GLY SEQRES 53 A 843 THR GLY ASN MET LYS PHE MET LEU ASN GLY ALA LEU THR SEQRES 54 A 843 ILE GLY THR MET ASP GLY ALA ASN VAL GLU MET ALA GLU SEQRES 55 A 843 GLU ALA GLY GLU GLU ASN PHE PHE ILE PHE GLY MET ARG SEQRES 56 A 843 VAL GLU ASP VAL ASP ARG LEU ASP GLN ARG GLY TYR ASN SEQRES 57 A 843 ALA GLN GLU TYR TYR ASP ARG ILE PRO GLU LEU ARG GLN SEQRES 58 A 843 ILE ILE GLU GLN LEU SER SER GLY PHE PHE SER PRO LYS SEQRES 59 A 843 GLN PRO ASP LEU PHE LYS ASP ILE VAL ASN MET LEU MET SEQRES 60 A 843 HIS HIS ASP ARG PHE LYS VAL PHE ALA ASP TYR GLU GLU SEQRES 61 A 843 TYR VAL LYS CYS GLN GLU ARG VAL SER ALA LEU TYR LYS SEQRES 62 A 843 ASN PRO ARG GLU TRP THR ARG MET VAL ILE ARG ASN ILE SEQRES 63 A 843 ALA THR SER GLY LYS PHE SER SER ASP ARG THR ILE ALA SEQRES 64 A 843 GLN TYR ALA ARG GLU ILE TRP GLY VAL GLU PRO SER ARG SEQRES 65 A 843 GLN ARG LEU PRO ALA PRO ASP GLU LYS ILE PRO HET PLP A 997 15 HET 62N A 998 27 HET PO4 A1837 5 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETNAM 62N N-{[4-(TRIFLUOROMETHYL)BENZOYL]CARBAMOYL}-BETA-D- HETNAM 2 62N GLUCOPYRANOSYLAMINE HETNAM PO4 PHOSPHATE ION HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 2 PLP C8 H10 N O6 P FORMUL 3 62N C15 H17 F3 N2 O7 FORMUL 4 PO4 O4 P 3- FORMUL 5 HOH *281(H2 O) HELIX 1 1 ILE A 13 GLY A 17 5 5 HELIX 2 2 GLY A 20 THR A 38 1 19 HELIX 3 3 THR A 47 ASP A 78 1 32 HELIX 4 4 THR A 94 ALA A 103 1 10 HELIX 5 5 LEU A 104 LEU A 115 1 12 HELIX 6 6 ASP A 118 GLU A 124 1 7 HELIX 7 7 GLY A 134 LEU A 150 1 17 HELIX 8 8 PRO A 194 THR A 197 5 4 HELIX 9 9 ASN A 258 ASP A 268 1 11 HELIX 10 10 ASP A 268 ASN A 274 1 7 HELIX 11 11 ILE A 275 ARG A 277 5 3 HELIX 12 12 LYS A 289 SER A 313 1 25 HELIX 13 13 ASN A 325 ASP A 327 5 3 HELIX 14 14 ALA A 328 LYS A 332 1 5 HELIX 15 15 LEU A 344 LEU A 356 1 13 HELIX 16 16 ASP A 360 THR A 371 1 12 HELIX 17 17 LEU A 380 LEU A 384 5 5 HELIX 18 18 VAL A 389 LEU A 396 1 8 HELIX 19 19 LEU A 396 PHE A 418 1 23 HELIX 20 20 ASP A 421 SER A 429 1 9 HELIX 21 21 MET A 441 GLY A 448 1 8 HELIX 22 22 ALA A 456 THR A 466 1 11 HELIX 23 23 PHE A 468 GLU A 475 1 8 HELIX 24 24 THR A 487 LEU A 492 1 6 HELIX 25 25 ASN A 496 GLY A 508 1 13 HELIX 26 26 GLU A 509 ASP A 514 5 6 HELIX 27 27 ASP A 514 VAL A 525 5 12 HELIX 28 28 ASP A 527 LYS A 554 1 28 HELIX 29 29 ARG A 575 GLU A 593 1 19 HELIX 30 30 TYR A 613 ASN A 631 1 19 HELIX 31 31 ARG A 649 ALA A 660 1 12 HELIX 32 32 THR A 676 ASN A 684 1 9 HELIX 33 33 ALA A 695 GLY A 704 1 10 HELIX 34 34 GLU A 705 PHE A 708 5 4 HELIX 35 35 ARG A 714 GLY A 725 1 12 HELIX 36 36 ASN A 727 ILE A 735 1 9 HELIX 37 37 ILE A 735 GLY A 748 1 14 HELIX 38 38 PHE A 758 HIS A 768 1 11 HELIX 39 39 VAL A 773 ALA A 775 5 3 HELIX 40 40 ASP A 776 LYS A 792 1 17 HELIX 41 41 ASN A 793 THR A 807 1 15 HELIX 42 42 SER A 808 PHE A 811 5 4 HELIX 43 43 SER A 812 ILE A 824 1 13 SHEET 1 AA 2 LYS A 191 ALA A 192 0 SHEET 2 AA 2 GLN A 219 PRO A 231 -1 O ASP A 227 N LYS A 191 SHEET 1 AB 2 LEU A 198 PHE A 202 0 SHEET 2 AB 2 GLN A 219 PRO A 231 -1 O GLN A 219 N PHE A 202 SHEET 1 AC 9 PHE A 479 ASN A 481 0 SHEET 2 AC 9 ALA A 451 GLY A 454 1 O VAL A 452 N GLN A 480 SHEET 3 AC 9 CYS A 372 THR A 375 1 O TYR A 374 N ASN A 453 SHEET 4 AC 9 VAL A 333 ASN A 338 1 O ILE A 335 N ALA A 373 SHEET 5 AC 9 ARG A 81 LEU A 85 1 O ARG A 81 N ALA A 334 SHEET 6 AC 9 ALA A 154 ILE A 159 1 O TYR A 155 N TYR A 84 SHEET 7 AC 9 VAL A 238 LYS A 247 1 O THR A 240 N GLY A 156 SHEET 8 AC 9 GLN A 219 PRO A 231 -1 O LEU A 222 N LYS A 247 SHEET 9 AC 9 LEU A 198 PHE A 202 -1 O LEU A 198 N ALA A 223 SHEET 1 AD 9 PHE A 479 ASN A 481 0 SHEET 2 AD 9 ALA A 451 GLY A 454 1 O VAL A 452 N GLN A 480 SHEET 3 AD 9 CYS A 372 THR A 375 1 O TYR A 374 N ASN A 453 SHEET 4 AD 9 VAL A 333 ASN A 338 1 O ILE A 335 N ALA A 373 SHEET 5 AD 9 ARG A 81 LEU A 85 1 O ARG A 81 N ALA A 334 SHEET 6 AD 9 ALA A 154 ILE A 159 1 O TYR A 155 N TYR A 84 SHEET 7 AD 9 VAL A 238 LYS A 247 1 O THR A 240 N GLY A 156 SHEET 8 AD 9 GLN A 219 PRO A 231 -1 O LEU A 222 N LYS A 247 SHEET 9 AD 9 LYS A 191 ALA A 192 -1 O LYS A 191 N ASP A 227 SHEET 1 AE 2 PHE A 89 GLY A 92 0 SHEET 2 AE 2 ALA A 129 LEU A 131 -1 O ALA A 129 N GLY A 92 SHEET 1 AF 2 ASN A 167 CYS A 171 0 SHEET 2 AF 2 TRP A 174 GLU A 178 -1 O TRP A 174 N CYS A 171 SHEET 1 AG 2 ARG A 205 THR A 209 0 SHEET 2 AG 2 GLY A 212 VAL A 216 -1 O GLY A 212 N THR A 209 SHEET 1 AH 3 ARG A 386 PRO A 388 0 SHEET 2 AH 3 ARG A 438 ASN A 440 -1 O ILE A 439 N TRP A 387 SHEET 3 AH 3 VAL A 431 GLU A 432 -1 O GLU A 432 N ARG A 438 SHEET 1 AI 6 LEU A 640 LEU A 645 0 SHEET 2 AI 6 ARG A 601 GLY A 606 1 O ARG A 601 N ARG A 641 SHEET 3 AI 6 LEU A 562 VAL A 567 1 O LEU A 562 N THR A 602 SHEET 4 AI 6 LEU A 662 GLN A 665 1 O LEU A 662 N VAL A 565 SHEET 5 AI 6 LEU A 687 GLY A 690 1 O LEU A 687 N SER A 663 SHEET 6 AI 6 PHE A 709 ILE A 710 1 O PHE A 709 N GLY A 690 LINK NZ LYS A 680 C4A PLP A 997 1555 1555 1.34 SITE 1 AC1 15 GLY A 134 LYS A 568 LYS A 574 TYR A 648 SITE 2 AC1 15 ARG A 649 VAL A 650 GLY A 675 THR A 676 SITE 3 AC1 15 GLY A 677 LYS A 680 HOH A2029 HOH A2202 SITE 4 AC1 15 HOH A2203 HOH A2205 HOH A2240 SITE 1 AC2 21 GLY A 135 LEU A 136 ASN A 282 ASP A 283 SITE 2 AC2 21 PHE A 285 PHE A 286 HIS A 377 ALA A 383 SITE 3 AC2 21 ASN A 484 TYR A 573 GLU A 672 ALA A 673 SITE 4 AC2 21 SER A 674 GLY A 675 HOH A2027 HOH A2058 SITE 5 AC2 21 HOH A2131 HOH A2142 HOH A2211 HOH A2240 SITE 6 AC2 21 HOH A2280 SITE 1 AC3 3 ARG A 309 ARG A 310 HOH A2018 CRYST1 128.650 128.650 116.903 90.00 90.00 90.00 P 43 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 0.007773 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007773 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008554 0.00000