HEADER TRANSFERASE 04-OCT-11 3U2T TITLE CRYSTAL STRUCTURE OF HUMAN GLYCOGENIN-1 (GYG1) COMPLEXED WITH TITLE 2 MANGANESE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCOGENIN-1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: GLYCOGENIN (RESIDUES 1-262); COMPND 5 SYNONYM: GN-1, GN1; COMPND 6 EC: 2.4.1.186; COMPND 7 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: GYG, GYG1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-R3-PRARE2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4 KEYWDS STRUCTURAL GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, SGC, KEYWDS 2 TRANSFERASE, GLYCOSYLTRANSFERASE, GLYCOGEN BIOSYNTHESIS, KEYWDS 3 GLYCOSYLATION EXPDTA X-RAY DIFFRACTION AUTHOR A.CHAIKUAD,D.S.FROESE,E.KRYSZTOFINSKA,F.VON DELFT,J.WEIGELT, AUTHOR 2 C.H.ARROWSMITH,A.M.EDWARDS,C.BOUNTRA,U.OPPERMANN,W.W.YUE,STRUCTURAL AUTHOR 3 GENOMICS CONSORTIUM (SGC) REVDAT 5 13-SEP-23 3U2T 1 REMARK SEQADV LINK REVDAT 4 11-JAN-12 3U2T 1 JRNL REVDAT 3 28-DEC-11 3U2T 1 JRNL REVDAT 2 14-DEC-11 3U2T 1 REVDAT 1 02-NOV-11 3U2T 0 JRNL AUTH A.CHAIKUAD,D.S.FROESE,G.BERRIDGE,F.VON DELFT,U.OPPERMANN, JRNL AUTH 2 W.W.YUE JRNL TITL CONFORMATIONAL PLASTICITY OF GLYCOGENIN AND ITS JRNL TITL 2 MALTOSACCHARIDE SUBSTRATE DURING GLYCOGEN BIOGENESIS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 108 21028 2011 JRNL REFN ISSN 0027-8424 JRNL PMID 22160680 JRNL DOI 10.1073/PNAS.1113921108 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0110 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) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.99 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 17417 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) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 940 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) : 2.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.10 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1247 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.52 REMARK 3 BIN R VALUE (WORKING SET) : 0.3140 REMARK 3 BIN FREE R VALUE SET COUNT : 81 REMARK 3 BIN FREE R VALUE : 0.3320 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2007 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 17 REMARK 3 SOLVENT ATOMS : 140 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.64 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.22000 REMARK 3 B22 (A**2) : -2.41000 REMARK 3 B33 (A**2) : 2.62000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.186 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.135 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.006 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.906 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2093 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1383 ; 0.004 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2845 ; 1.521 ; 1.953 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3384 ; 1.058 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 259 ; 5.921 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 89 ;37.112 ;24.382 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 339 ;13.286 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;15.112 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 330 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2289 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 422 ; 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): 1286 ; 0.556 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 514 ; 0.124 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2089 ; 1.011 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 807 ; 1.669 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 753 ; 2.495 ; 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 : 2 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 -2 A 233 REMARK 3 ORIGIN FOR THE GROUP (A): 18.0266 14.9153 11.2567 REMARK 3 T TENSOR REMARK 3 T11: 0.0340 T22: 0.0099 REMARK 3 T33: 0.0113 T12: 0.0098 REMARK 3 T13: 0.0023 T23: -0.0037 REMARK 3 L TENSOR REMARK 3 L11: 2.2461 L22: 2.1929 REMARK 3 L33: 1.5193 L12: -0.0767 REMARK 3 L13: 0.3233 L23: -0.4016 REMARK 3 S TENSOR REMARK 3 S11: 0.0189 S12: 0.0514 S13: -0.0106 REMARK 3 S21: -0.1257 S22: -0.0040 S23: 0.0775 REMARK 3 S31: 0.0112 S32: -0.0331 S33: -0.0149 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 240 A 262 REMARK 3 ORIGIN FOR THE GROUP (A): 4.6404 8.5414 -0.3722 REMARK 3 T TENSOR REMARK 3 T11: 0.1651 T22: 0.1633 REMARK 3 T33: 0.1168 T12: -0.0686 REMARK 3 T13: -0.0861 T23: -0.0257 REMARK 3 L TENSOR REMARK 3 L11: 13.5866 L22: 19.9093 REMARK 3 L33: 7.8923 L12: -9.0923 REMARK 3 L13: 1.0740 L23: 0.5078 REMARK 3 S TENSOR REMARK 3 S11: 0.1110 S12: 0.1760 S13: -0.8154 REMARK 3 S21: -0.7604 S22: -0.0325 S23: 1.2098 REMARK 3 S31: 0.0525 S32: -0.4543 S33: -0.0785 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 3U2T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-OCT-11. REMARK 100 THE DEPOSITION ID IS D_1000068234. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-OCT-10 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : FLAT GRAPHITE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18330 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 38.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.10400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : 0.65200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.100 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 3Q4S REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 22.5% PEG SMEARS, 0.2M LI2(SO4), 0.05M REMARK 280 ZNCL2, 0.1M BIS-TRIS, PH 7.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 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 -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 29.17500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.53000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.17500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.53000 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 300 REMARK: THE OTHER SUBUNIT IN THE DIMER PAIR IS GENERATED BY THE TWO REMARK 300 FOLD AXIS: -X,-Y,Z 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: 3340 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 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 -1.000000 0.000000 0.000000 58.35000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 A 400 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 -21 REMARK 465 HIS A -20 REMARK 465 HIS A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 SER A -14 REMARK 465 SER A -13 REMARK 465 GLY A -12 REMARK 465 VAL A -11 REMARK 465 ASP A -10 REMARK 465 LEU A -9 REMARK 465 GLY A -8 REMARK 465 THR A -7 REMARK 465 GLU A -6 REMARK 465 ASN A -5 REMARK 465 LEU A -4 REMARK 465 TYR A -3 REMARK 465 ILE A 194 REMARK 465 TYR A 195 REMARK 465 SER A 196 REMARK 465 GLU A 234 REMARK 465 ALA A 235 REMARK 465 HIS A 236 REMARK 465 ASP A 237 REMARK 465 PRO A 238 REMARK 465 ASN A 239 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 PHE A -2 CG CD1 CD2 CE1 CE2 CZ REMARK 470 TYR A 197 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG A 216 CG CD NE CZ NH1 NH2 REMARK 470 MET A 240 CG SD CE REMARK 470 HIS A 242 CG ND1 CD2 CE1 NE2 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 NH2 ARG A 117 O HOH A 305 2.09 REMARK 500 OE1 GLU A 57 OH TYR A 95 2.13 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 PHE A 171 56.44 -99.75 REMARK 500 ASP A 178 91.89 51.79 REMARK 500 ASN A 188 69.27 -160.41 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 263 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 102 OD2 REMARK 620 2 ASP A 104 OD1 102.6 REMARK 620 3 ASP A 104 OD2 144.9 52.8 REMARK 620 4 HIS A 212 NE2 99.5 83.6 101.5 REMARK 620 5 HOH A 268 O 106.5 148.3 95.6 103.5 REMARK 620 6 HOH A 269 O 87.3 88.4 69.4 170.5 80.7 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 263 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 264 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 265 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 266 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 267 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3QVB RELATED DB: PDB REMARK 900 HGYG1 (Y195F) WITH UDP,MN IN OPEN FORM REMARK 900 RELATED ID: 3Q4S RELATED DB: PDB REMARK 900 HGYG1 (Y195F) APO FORM REMARK 900 RELATED ID: 3RMW RELATED DB: PDB REMARK 900 HGYG1 (T83M) WITH UDPG, MN REMARK 900 RELATED ID: 3RMV RELATED DB: PDB REMARK 900 HGYG1 (T83M) WITH UDP, MN REMARK 900 RELATED ID: 3T7M RELATED DB: PDB REMARK 900 HGYG1 COMPLEXED WITH MN AND UDP REMARK 900 RELATED ID: 3T7O RELATED DB: PDB REMARK 900 HGYG1 COMPLEXED WITH MN, UDPG AND GLUCOSE REMARK 900 RELATED ID: 3T7N RELATED DB: PDB REMARK 900 HGYG1 COMPLEXED WITH MN AND UDP REMARK 900 RELATED ID: 3U2U RELATED DB: PDB REMARK 900 RELATED ID: 3U2V RELATED DB: PDB REMARK 900 RELATED ID: 3U2W RELATED DB: PDB REMARK 900 RELATED ID: 3U2X RELATED DB: PDB DBREF 3U2T A 1 262 UNP P46976 GLYG_HUMAN 1 262 SEQADV 3U2T MET A -21 UNP P46976 EXPRESSION TAG SEQADV 3U2T HIS A -20 UNP P46976 EXPRESSION TAG SEQADV 3U2T HIS A -19 UNP P46976 EXPRESSION TAG SEQADV 3U2T HIS A -18 UNP P46976 EXPRESSION TAG SEQADV 3U2T HIS A -17 UNP P46976 EXPRESSION TAG SEQADV 3U2T HIS A -16 UNP P46976 EXPRESSION TAG SEQADV 3U2T HIS A -15 UNP P46976 EXPRESSION TAG SEQADV 3U2T SER A -14 UNP P46976 EXPRESSION TAG SEQADV 3U2T SER A -13 UNP P46976 EXPRESSION TAG SEQADV 3U2T GLY A -12 UNP P46976 EXPRESSION TAG SEQADV 3U2T VAL A -11 UNP P46976 EXPRESSION TAG SEQADV 3U2T ASP A -10 UNP P46976 EXPRESSION TAG SEQADV 3U2T LEU A -9 UNP P46976 EXPRESSION TAG SEQADV 3U2T GLY A -8 UNP P46976 EXPRESSION TAG SEQADV 3U2T THR A -7 UNP P46976 EXPRESSION TAG SEQADV 3U2T GLU A -6 UNP P46976 EXPRESSION TAG SEQADV 3U2T ASN A -5 UNP P46976 EXPRESSION TAG SEQADV 3U2T LEU A -4 UNP P46976 EXPRESSION TAG SEQADV 3U2T TYR A -3 UNP P46976 EXPRESSION TAG SEQADV 3U2T PHE A -2 UNP P46976 EXPRESSION TAG SEQADV 3U2T GLN A -1 UNP P46976 EXPRESSION TAG SEQADV 3U2T SER A 0 UNP P46976 EXPRESSION TAG SEQRES 1 A 284 MET HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 A 284 GLY THR GLU ASN LEU TYR PHE GLN SER MET THR ASP GLN SEQRES 3 A 284 ALA PHE VAL THR LEU THR THR ASN ASP ALA TYR ALA LYS SEQRES 4 A 284 GLY ALA LEU VAL LEU GLY SER SER LEU LYS GLN HIS ARG SEQRES 5 A 284 THR THR ARG ARG LEU VAL VAL LEU ALA THR PRO GLN VAL SEQRES 6 A 284 SER ASP SER MET ARG LYS VAL LEU GLU THR VAL PHE ASP SEQRES 7 A 284 GLU VAL ILE MET VAL ASP VAL LEU ASP SER GLY ASP SER SEQRES 8 A 284 ALA HIS LEU THR LEU MET LYS ARG PRO GLU LEU GLY VAL SEQRES 9 A 284 THR LEU THR LYS LEU HIS CYS TRP SER LEU THR GLN TYR SEQRES 10 A 284 SER LYS CYS VAL PHE MET ASP ALA ASP THR LEU VAL LEU SEQRES 11 A 284 ALA ASN ILE ASP ASP LEU PHE ASP ARG GLU GLU LEU SER SEQRES 12 A 284 ALA ALA PRO ASP PRO GLY TRP PRO ASP CYS PHE ASN SER SEQRES 13 A 284 GLY VAL PHE VAL TYR GLN PRO SER VAL GLU THR TYR ASN SEQRES 14 A 284 GLN LEU LEU HIS LEU ALA SER GLU GLN GLY SER PHE ASP SEQRES 15 A 284 GLY GLY ASP GLN GLY ILE LEU ASN THR PHE PHE SER SER SEQRES 16 A 284 TRP ALA THR THR ASP ILE ARG LYS HIS LEU PRO PHE ILE SEQRES 17 A 284 TYR ASN LEU SER SER ILE SER ILE TYR SER TYR LEU PRO SEQRES 18 A 284 ALA PHE LYS VAL PHE GLY ALA SER ALA LYS VAL VAL HIS SEQRES 19 A 284 PHE LEU GLY ARG VAL LYS PRO TRP ASN TYR THR TYR ASP SEQRES 20 A 284 PRO LYS THR LYS SER VAL LYS SER GLU ALA HIS ASP PRO SEQRES 21 A 284 ASN MET THR HIS PRO GLU PHE LEU ILE LEU TRP TRP ASN SEQRES 22 A 284 ILE PHE THR THR ASN VAL LEU PRO LEU LEU GLN HET MN A 263 1 HET EDO A 264 4 HET EDO A 265 4 HET EDO A 266 4 HET EDO A 267 4 HETNAM MN MANGANESE (II) ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 MN MN 2+ FORMUL 3 EDO 4(C2 H6 O2) FORMUL 7 HOH *140(H2 O) HELIX 1 1 ASN A 12 HIS A 29 1 18 HELIX 2 2 SER A 44 THR A 53 1 10 HELIX 3 3 ALA A 70 ARG A 77 1 8 HELIX 4 4 LEU A 80 HIS A 88 1 9 HELIX 5 5 CYS A 89 LEU A 92 5 4 HELIX 6 6 ILE A 111 ARG A 117 5 7 HELIX 7 7 SER A 142 GLY A 157 1 16 HELIX 8 8 GLY A 162 PHE A 171 1 10 HELIX 9 9 ASP A 178 HIS A 182 5 5 HELIX 10 10 PRO A 184 ASN A 188 5 5 HELIX 11 11 LEU A 198 GLY A 205 1 8 HELIX 12 12 ALA A 206 ALA A 208 5 3 HELIX 13 13 LYS A 218 TYR A 222 5 5 HELIX 14 14 PRO A 243 VAL A 257 1 15 HELIX 15 15 LEU A 258 LEU A 261 5 4 SHEET 1 A 6 GLU A 57 MET A 60 0 SHEET 2 A 6 ARG A 33 ALA A 39 1 N ALA A 39 O ILE A 59 SHEET 3 A 6 MET A 1 THR A 10 1 N PHE A 6 O ARG A 34 SHEET 4 A 6 LYS A 97 MET A 101 1 O MET A 101 N VAL A 7 SHEET 5 A 6 PHE A 132 TYR A 139 -1 O TYR A 139 N CYS A 98 SHEET 6 A 6 SER A 121 PRO A 124 -1 N ALA A 123 O ASN A 133 SHEET 1 B 3 THR A 105 VAL A 107 0 SHEET 2 B 3 VAL A 210 HIS A 212 -1 O VAL A 211 N LEU A 106 SHEET 3 B 3 LEU A 189 SER A 190 1 N LEU A 189 O HIS A 212 SHEET 1 C 2 TYR A 224 ASP A 225 0 SHEET 2 C 2 SER A 230 VAL A 231 -1 O SER A 230 N ASP A 225 LINK OD2 ASP A 102 MN MN A 263 1555 1555 1.99 LINK OD1 ASP A 104 MN MN A 263 1555 1555 2.30 LINK OD2 ASP A 104 MN MN A 263 1555 1555 2.54 LINK NE2 HIS A 212 MN MN A 263 1555 1555 2.13 LINK MN MN A 263 O HOH A 268 1555 1555 2.35 LINK MN MN A 263 O HOH A 269 1555 1555 2.51 CISPEP 1 GLU A 119 LEU A 120 0 -8.29 SITE 1 AC1 5 ASP A 102 ASP A 104 HIS A 212 HOH A 268 SITE 2 AC1 5 HOH A 269 SITE 1 AC2 2 ARG A 33 HOH A 349 SITE 1 AC3 5 GLU A 119 LEU A 120 SER A 173 LYS A 181 SITE 2 AC3 5 HOH A 325 SITE 1 AC4 4 THR A 93 SER A 142 VAL A 143 GLU A 144 SITE 1 AC5 2 HIS A 29 ASN A 110 CRYST1 58.350 101.060 47.830 90.00 90.00 90.00 P 21 21 2 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 0.017138 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009895 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020907 0.00000