HEADER TRANSFERASE 16-MAY-07 2PYI TITLE CRYSTAL STRUCTURE OF GLYCOGEN PHOSPHORYLASE IN COMPLEX WITH GLUCOSYL TITLE 2 TRIAZOLEACETAMIDE 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 KEYWDS GLYCOGENOLYSIS, INHIBITION, TYPE 2 DIABETES, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR K.M.ALEXACOU,C.TIRAIDIS,S.E.ZOGRAPHOS,E.D.CHRYSINA,J.HAYES, AUTHOR 2 N.G.OIKONOMAKOS REVDAT 6 15-NOV-23 2PYI 1 REMARK REVDAT 5 30-AUG-23 2PYI 1 REMARK SEQADV LINK REVDAT 4 25-JAN-17 2PYI 1 ATOM VERSN REVDAT 3 24-FEB-09 2PYI 1 VERSN REVDAT 2 29-APR-08 2PYI 1 JRNL REVDAT 1 01-APR-08 2PYI 0 JRNL AUTH K.M.ALEXACOU,J.M.HAYES,C.TIRAIDIS,S.E.ZOGRAPHOS, JRNL AUTH 2 D.D.LEONIDAS,E.D.CHRYSINA,G.ARCHONTIS,N.G.OIKONOMAKOS, JRNL AUTH 3 J.V.PAUL,B.VARGHESE,D.LOGANATHAN JRNL TITL CRYSTALLOGRAPHIC AND COMPUTATIONAL STUDIES ON JRNL TITL 2 4-PHENYL-N-(BETA-D-GLUCOPYRANOSYL)-1H-1,2, JRNL TITL 3 3-TRIAZOLE-1-ACETAMIDE, AN INHIBITOR OF GLYCOGEN JRNL TITL 4 PHOSPHORYLASE: COMPARISON WITH ALPHA-D-GLUCOSE, JRNL TITL 5 N-ACETYL-BETA-D-GLUCOPYRANOSYLAMINE AND JRNL TITL 6 N-BENZOYL-N'-BETA-D-GLUCOPYRANOSYL UREA BINDING. JRNL REF PROTEINS V. 71 1307 2007 JRNL REFN ISSN 0887-3585 JRNL PMID 18041758 JRNL DOI 10.1002/PROT.21837 REMARK 2 REMARK 2 RESOLUTION. 1.88 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 71717 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) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3802 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) : 1.88 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.93 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5209 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.15 REMARK 3 BIN R VALUE (WORKING SET) : 0.2370 REMARK 3 BIN FREE R VALUE SET COUNT : 253 REMARK 3 BIN FREE R VALUE : 0.2820 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6586 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 66 REMARK 3 SOLVENT ATOMS : 878 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.64 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.70000 REMARK 3 B22 (A**2) : 0.70000 REMARK 3 B33 (A**2) : -1.39000 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): 0.163 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.148 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.094 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.095 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.932 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6804 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9197 ; 0.995 ; 1.962 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 804 ; 5.289 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 348 ;32.586 ;23.448 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1184 ;12.461 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 61 ;16.399 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 998 ; 0.068 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5193 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3594 ; 0.182 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4676 ; 0.303 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 827 ; 0.107 ; 0.200 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): 53 ; 0.152 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 38 ; 0.136 ; 0.200 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): 4167 ; 0.427 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6510 ; 0.726 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3016 ; 1.020 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2687 ; 1.638 ; 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 REMARK 4 REMARK 4 2PYI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-MAY-07. REMARK 100 THE DEPOSITION ID IS D_1000042925. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-JUN-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X13 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8073 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 71717 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.880 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05100 REMARK 200 FOR THE DATA SET : 24.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.88 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.91 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.33800 REMARK 200 FOR SHELL : 6.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PBD ENTRY 2PYD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10 MM BES BUFFER, 0.1 MM EDTA, 0.02% REMARK 280 NAN3, 3 MM DTT, PH 6.7, SMALL TUBES, TEMPERATURE 289K 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 57.64350 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 62.96700 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 62.96700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 86.46525 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 62.96700 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 62.96700 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 28.82175 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 62.96700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 62.96700 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 86.46525 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 62.96700 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 62.96700 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 28.82175 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 57.64350 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 115.28700 REMARK 350 REMARK 350 BIOMOLECULE: 2 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1283 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1862 LIES ON A SPECIAL POSITION. 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 ASP A 251 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 ASN A 258 REMARK 465 VAL A 259 REMARK 465 GLY A 260 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 THR A 324 REMARK 465 ALA A 836 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: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 1570 O HOH A 1876 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LEU A 494 CA - CB - CG ANGL. DEV. = 15.4 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 LEU A 131 39.19 -87.05 REMARK 500 TYR A 203 -135.70 62.64 REMARK 500 THR A 209 -153.53 -122.00 REMARK 500 PHE A 285 76.60 56.55 REMARK 500 ASP A 339 -171.31 68.05 REMARK 500 THR A 466 -67.26 -131.33 REMARK 500 ARG A 489 -73.46 -71.20 REMARK 500 LEU A 492 -61.07 -141.51 REMARK 500 ASP A 514 64.20 -154.30 REMARK 500 ASN A 560 39.78 -98.42 REMARK 500 LYS A 568 161.54 169.94 REMARK 500 PRO A 611 -38.73 -39.55 REMARK 500 SER A 674 -56.79 -145.89 REMARK 500 SER A 751 65.61 -159.22 REMARK 500 ILE A 824 -53.20 -121.61 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 DL8 A 998 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 931 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 936 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 937 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 938 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 939 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 940 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 942 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 945 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 946 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 972 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2PYD RELATED DB: PDB REMARK 900 SAME PROTEIN WITH GLUCOSE DBREF 2PYI A 0 842 UNP P00489 PYGM_RABIT 1 843 SEQADV 2PYI LLP A 680 UNP P00489 LYS 681 MODIFIED RESIDUE 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 LLP 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 MODRES 2PYI LLP A 680 LYS HET LLP A 680 24 HET DL8 A 998 26 HET DMS A 931 4 HET DMS A 936 4 HET DMS A 937 4 HET DMS A 938 4 HET DMS A 939 4 HET DMS A 940 4 HET DMS A 942 4 HET DMS A 945 4 HET DMS A 946 4 HET DMS A 972 4 HETNAM LLP (2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5- HETNAM 2 LLP (PHOSPHONOOXYMETHYL)PYRIDIN-4- HETNAM 3 LLP YL]METHYLIDENEAMINO]HEXANOIC ACID HETNAM DL8 N-[(4-PHENYL-1H-1,2,3-TRIAZOL-1-YL)ACETYL]-BETA-D- HETNAM 2 DL8 GLUCOPYRANOSYLAMINE HETNAM DMS DIMETHYL SULFOXIDE HETSYN LLP N'-PYRIDOXYL-LYSINE-5'-MONOPHOSPHATE FORMUL 1 LLP C14 H22 N3 O7 P FORMUL 2 DL8 C16 H20 N4 O6 FORMUL 3 DMS 10(C2 H6 O S) FORMUL 13 HOH *878(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 HIS A 62 1 16 HELIX 4 4 LEU A 63 ASP A 78 1 16 HELIX 5 5 THR A 94 LEU A 102 1 9 HELIX 6 6 LEU A 104 LEU A 115 1 12 HELIX 7 7 ASP A 118 GLU A 124 1 7 HELIX 8 8 GLY A 134 LEU A 150 1 17 HELIX 9 9 PRO A 194 THR A 197 5 4 HELIX 10 10 GLY A 261 ASP A 268 1 8 HELIX 11 11 ASP A 268 ASN A 274 1 7 HELIX 12 12 ILE A 275 ARG A 277 5 3 HELIX 13 13 LYS A 289 SER A 313 1 25 HELIX 14 14 ASN A 325 ASP A 327 5 3 HELIX 15 15 ALA A 328 LYS A 332 1 5 HELIX 16 16 LEU A 344 LEU A 356 1 13 HELIX 17 17 ASP A 360 THR A 371 1 12 HELIX 18 18 LEU A 380 LEU A 384 5 5 HELIX 19 19 VAL A 389 LEU A 396 1 8 HELIX 20 20 LEU A 396 PHE A 418 1 23 HELIX 21 21 ASP A 421 SER A 429 1 9 HELIX 22 22 MET A 441 GLY A 448 1 8 HELIX 23 23 ALA A 456 THR A 466 1 11 HELIX 24 24 PHE A 468 GLU A 475 1 8 HELIX 25 25 ASN A 496 GLY A 508 1 13 HELIX 26 26 GLU A 509 VAL A 525 5 17 HELIX 27 27 ASP A 527 LYS A 554 1 28 HELIX 28 28 ARG A 575 GLU A 593 1 19 HELIX 29 29 TYR A 613 ASN A 631 1 19 HELIX 30 30 VAL A 636 ASP A 638 5 3 HELIX 31 31 ARG A 649 ILE A 657 1 9 HELIX 32 32 PRO A 658 ALA A 660 5 3 HELIX 33 33 THR A 676 ASN A 684 1 9 HELIX 34 34 ALA A 695 GLY A 704 1 10 HELIX 35 35 GLU A 705 PHE A 708 5 4 HELIX 36 36 ARG A 714 GLY A 725 1 12 HELIX 37 37 ASN A 727 ILE A 735 1 9 HELIX 38 38 ILE A 735 GLY A 748 1 14 HELIX 39 39 PHE A 758 HIS A 768 1 11 HELIX 40 40 VAL A 773 ALA A 775 5 3 HELIX 41 41 ASP A 776 LYS A 792 1 17 HELIX 42 42 ASN A 793 ALA A 806 1 14 HELIX 43 43 THR A 807 PHE A 811 5 5 HELIX 44 44 SER A 812 ILE A 824 1 13 SHEET 1 A 3 LYS A 191 ALA A 192 0 SHEET 2 A 3 GLN A 219 PRO A 231 -1 O ASP A 227 N LYS A 191 SHEET 3 A 3 LEU A 198 PHE A 202 -1 N LEU A 198 O ALA A 223 SHEET 1 B 9 LYS A 191 ALA A 192 0 SHEET 2 B 9 GLN A 219 PRO A 231 -1 O ASP A 227 N LYS A 191 SHEET 3 B 9 VAL A 238 LYS A 247 -1 O SER A 245 N MET A 224 SHEET 4 B 9 ALA A 154 ILE A 159 1 N GLY A 156 O ARG A 242 SHEET 5 B 9 ARG A 81 LEU A 85 1 N ILE A 82 O TYR A 155 SHEET 6 B 9 VAL A 333 ASN A 338 1 O ALA A 334 N TYR A 83 SHEET 7 B 9 CYS A 372 THR A 375 1 O ALA A 373 N LEU A 337 SHEET 8 B 9 ALA A 451 GLY A 454 1 O ALA A 451 N TYR A 374 SHEET 9 B 9 PHE A 479 ASN A 481 1 O GLN A 480 N VAL A 452 SHEET 1 C 2 PHE A 89 GLY A 92 0 SHEET 2 C 2 ALA A 129 LEU A 131 -1 O LEU A 131 N PHE A 89 SHEET 1 D 2 ASN A 167 CYS A 171 0 SHEET 2 D 2 TRP A 174 GLU A 178 -1 O MET A 176 N LYS A 169 SHEET 1 E 2 ARG A 205 HIS A 208 0 SHEET 2 E 2 ALA A 213 VAL A 216 -1 O LYS A 214 N GLU A 207 SHEET 1 F 3 ARG A 386 PRO A 388 0 SHEET 2 F 3 ARG A 438 ASN A 440 -1 O ILE A 439 N TRP A 387 SHEET 3 F 3 VAL A 431 GLU A 432 -1 N GLU A 432 O ARG A 438 SHEET 1 G 6 LEU A 640 LEU A 645 0 SHEET 2 G 6 ARG A 601 GLY A 606 1 N VAL A 603 O ARG A 641 SHEET 3 G 6 LEU A 562 VAL A 567 1 N ASP A 564 O MET A 604 SHEET 4 G 6 LEU A 662 GLN A 665 1 O LEU A 662 N VAL A 565 SHEET 5 G 6 LEU A 687 GLY A 690 1 O LEU A 687 N SER A 663 SHEET 6 G 6 PHE A 709 ILE A 710 1 O PHE A 709 N THR A 688 LINK C MET A 679 N LLP A 680 1555 1555 1.34 LINK C LLP A 680 N PHE A 681 1555 1555 1.33 SITE 1 AC1 20 LEU A 136 ASN A 282 ASP A 283 ASN A 284 SITE 2 AC1 20 PHE A 286 ASP A 339 HIS A 341 HIS A 377 SITE 3 AC1 20 ALA A 383 ASN A 484 TYR A 573 GLU A 672 SITE 4 AC1 20 ALA A 673 SER A 674 GLY A 675 HOH A1042 SITE 5 AC1 20 HOH A1166 HOH A1266 HOH A1413 HOH A1685 SITE 1 AC2 3 TRP A 67 ILE A 68 ARG A 193 SITE 1 AC3 2 GLN A 219 LYS A 294 SITE 1 AC4 5 HIS A 201 TRP A 215 ARG A 351 LEU A 356 SITE 2 AC4 5 HOH A1067 SITE 1 AC5 6 ARG A 519 GLU A 701 GLU A 702 ALA A 703 SITE 2 AC5 6 GLY A 704 HOH A1153 SITE 1 AC6 5 GLU A 706 PHE A 708 PHE A 709 ARG A 786 SITE 2 AC6 5 HOH A1743 SITE 1 AC7 6 ARG A 66 LEU A 102 ARG A 234 ASN A 236 SITE 2 AC7 6 ARG A 833 HOH A1104 SITE 1 AC8 6 TYR A 548 GLU A 552 TYR A 553 ARG A 649 SITE 2 AC8 6 HOH A1321 HOH A1700 SITE 1 AC9 6 GLN A 264 LEU A 267 ASP A 268 ASN A 270 SITE 2 AC9 6 LEU A 271 ASN A 274 SITE 1 BC1 5 TYR A 553 PHE A 644 LEU A 645 GLU A 646 SITE 2 BC1 5 HOH A1120 SITE 1 BC2 3 LEU A 271 ASN A 274 HOH A1605 CRYST1 125.934 125.934 115.287 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 0.007941 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007941 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008674 0.00000