HEADER TRANSFERASE 13-APR-25 9QVY TITLE NOSTOC SP. 3335MG GT108 FAMILY ENZYME COMPLEX WITH MANNOSE-1-PHOSPHATE TITLE 2 (M1P) COMPND MOL_ID: 1; COMPND 2 MOLECULE: GT108 FAMILY ENZYME; COMPND 3 CHAIN: A; COMPND 4 EC: 2.4.1.374; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NOSTOC; SOURCE 3 ORGANISM_TAXID: 1177; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS GT108, CARBOHYDRATE-ACTIVE ENZYME, GLYCOBIOLOGY, 3-D STRUCTURE, KEYWDS 2 PHOSPHORYLASE, ENZYME MECHANISM, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.MALES,J.E.RALTON,A.KAUR,K.BUTRISS,L.F.SOBALA,M.SHARMA,O.V.MOROZ, AUTHOR 2 S.J.WILLIAMS,M.J.MCCONVILLE,G.J.DAVIES REVDAT 1 28-OCT-26 9QVY 0 JRNL AUTH A.MALES,J.E.RALTON,A.KAUR,K.BUTRISS,L.F.SOBALA,M.SHARMA, JRNL AUTH 2 O.V.MOROZ,S.J.WILLIAMS,M.J.MCCONVILLE,G.J.DAVIES JRNL TITL STRUCTURAL AND FUNCTIONAL INSIGHTS INTO GT108 ENZYMES REVEAL JRNL TITL 2 A CONSERVED PHOSPHORYLASE MECHANISM FOR BETA-1,2-MANNOGEN JRNL TITL 3 METABOLISM JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.41 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0430 (REFMACAT 0.4.100) REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.41 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 93.23 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 80496 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 : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.041 REMARK 3 FREE R VALUE TEST SET COUNT : 4058 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) : 1.41 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.45 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5567 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.68 REMARK 3 BIN R VALUE (WORKING SET) : 0.4880 REMARK 3 BIN FREE R VALUE SET COUNT : 313 REMARK 3 BIN FREE R VALUE : 0.5040 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2384 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 16 REMARK 3 SOLVENT ATOMS : 271 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.68 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.27300 REMARK 3 B22 (A**2) : 1.27300 REMARK 3 B33 (A**2) : -2.54600 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): 0.059 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.062 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.084 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.641 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.973 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.964 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2495 ; 0.012 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 2276 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3401 ; 1.897 ; 1.808 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5219 ; 0.671 ; 1.751 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 315 ; 7.383 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 25 ;11.567 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 355 ;12.922 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 358 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3066 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 626 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 422 ; 0.218 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 18 ; 0.233 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1207 ; 0.185 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 223 ; 0.153 ; 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): 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): 1242 ; 3.043 ; 2.890 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1242 ; 3.043 ; 2.890 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1554 ; 4.235 ; 5.176 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1555 ; 4.234 ; 5.178 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1253 ; 3.838 ; 3.155 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1254 ; 3.837 ; 3.155 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1844 ; 5.549 ; 5.638 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1845 ; 5.547 ; 5.637 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 BULK SOLVENT REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 9QVY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-APR-25. REMARK 100 THE DEPOSITION ID IS D_1292147128. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-SEP-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.976 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DIALS 5.8.0430 (REFMACAT REMARK 200 0.4.100) REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 80581 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.410 REMARK 200 RESOLUTION RANGE LOW (A) : 93.230 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 24.40 REMARK 200 R MERGE (I) : 0.14700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 7.72 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 93.23 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.5 REMARK 200 DATA REDUNDANCY IN SHELL : 17.70 REMARK 200 R MERGE FOR SHELL (I) : 0.03900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 39.50 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M NACL, 0.1 M BIS-TRIS PH 6.9 AND REMARK 280 31% (W/V) PEG 3350; SOAKING WITH 5 MM MAN1P, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293K 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 23.62500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 65.92550 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 65.92550 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 35.43750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 65.92550 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 65.92550 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 11.81250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 65.92550 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 65.92550 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 35.43750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 65.92550 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 65.92550 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 11.81250 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 23.62500 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 490 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.0 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 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 723 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 728 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 -15 REMARK 465 ASN A -14 REMARK 465 HIS A -13 REMARK 465 LYS A -12 REMARK 465 VAL A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 ILE A -4 REMARK 465 GLU A -3 REMARK 465 GLY A -2 REMARK 465 ARG A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 HIS A 2 REMARK 465 HIS A 3 REMARK 465 GLU A 312 REMARK 465 ASN A 313 REMARK 465 ALA A 314 REMARK 465 PRO A 315 REMARK 465 VAL A 316 REMARK 465 ASP A 317 REMARK 465 VAL A 318 REMARK 465 SER A 319 REMARK 465 GLN A 320 REMARK 465 LEU A 321 REMARK 465 ILE A 322 REMARK 465 GLY A 323 REMARK 465 GLU A 324 REMARK 465 PRO A 325 REMARK 465 GLN A 326 REMARK 465 ARG A 327 REMARK 465 LEU A 328 REMARK 465 GLN A 329 REMARK 465 ALA A 330 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 22 CD CE NZ REMARK 480 ARG A 311 NE CZ NH1 NH2 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 OD1 ASP A 141 O HOH A 501 2.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 510 O HOH A 651 8555 1.78 REMARK 500 O HOH A 743 O HOH A 743 8555 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG A 311 CD ARG A 311 NE 1.954 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 ARG A 8 NE - CZ - NH2 ANGL. DEV. = 4.0 DEGREES REMARK 500 LYS A 22 CB - CG - CD ANGL. DEV. = 31.1 DEGREES REMARK 500 LYS A 22 CG - CD - CE ANGL. DEV. = 26.5 DEGREES REMARK 500 ARG A 24 CG - CD - NE ANGL. DEV. = -18.8 DEGREES REMARK 500 ARG A 85 CG - CD - NE ANGL. DEV. = -14.5 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 ARG A 157 66.73 -152.67 REMARK 500 ALA A 294 -23.49 -149.58 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 159 0.10 SIDE CHAIN REMARK 500 ARG A 231 0.20 SIDE CHAIN REMARK 500 ARG A 280 0.14 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 9QVY A -15 330 PDB 9QVY 9QVY -15 330 SEQRES 1 A 346 MET ASN HIS LYS VAL HIS HIS HIS HIS HIS HIS ILE GLU SEQRES 2 A 346 GLY ARG HIS MET HIS HIS ASP HIS ILE PRO ARG VAL LYS SEQRES 3 A 346 THR ARG HIS ALA ALA PHE ALA ALA ASP PRO PRO LYS GLY SEQRES 4 A 346 ARG THR GLY LYS LEU THR PHE ALA GLY VAL ASP GLY LEU SEQRES 5 A 346 ASP VAL TYR ASN ILE SER ALA PRO PHE ARG VAL GLY GLY SEQRES 6 A 346 ARG THR VAL ILE ALA GLY ARG VAL GLU ALA ARG ASP SER SEQRES 7 A 346 GLU HIS ALA THR ALA ILE PHE PHE GLU GLU ALA GLY GLY SEQRES 8 A 346 VAL TRP HIS PRO VAL ASP GLY ALA PRO ARG TYR ALA LEU SEQRES 9 A 346 GLN ASP PRO PHE VAL THR PHE ILE GLY GLY GLU LEU VAL SEQRES 10 A 346 PHE GLY GLY VAL GLU VAL ARG PHE GLY GLU GLY GLU PRO SEQRES 11 A 346 GLU TRP TRP THR VAL PHE TYR ARG GLY SER ASP LEU PHE SEQRES 12 A 346 ASP LEU LYS PRO PHE PHE ALA GLY PRO LEU GLY MET LYS SEQRES 13 A 346 ASP ILE ARG LEU CYS GLU LEU ALA ASP GLY ARG VAL ALA SEQRES 14 A 346 VAL PHE THR ARG PRO ARG GLY SER LYS GLY GLY ARG GLY SEQRES 15 A 346 THR ILE GLY TYR THR GLU VAL ALA SER LEU ASP ALA LEU SEQRES 16 A 346 THR VAL GLU ALA ILE ASP ALA ALA PRO MET LEU GLU GLY SEQRES 17 A 346 MET PHE HIS PRO LEU ASP TRP GLY GLY VAL ASN GLU ALA SEQRES 18 A 346 HIS LEU LEU ALA ASN GLY GLU ILE GLY LEU ILE ALA HIS SEQRES 19 A 346 VAL ALA TYR PHE GLU ASP ASP THR ILE HIS SER ALA ARG SEQRES 20 A 346 HIS TYR TYR ALA VAL SER PHE VAL PHE ASP PRO ALA SER SEQRES 21 A 346 ARG ALA TRP ARG ASP LEU ARG ILE LEU ALA GLY ARG ASP SEQRES 22 A 346 GLN PHE GLY PRO GLY GLU ALA LYS ARG PRO ASP LEU VAL SEQRES 23 A 346 ASP VAL VAL PHE SER SER GLY ILE GLU ARG ILE GLY ASP SEQRES 24 A 346 VAL THR ARG LEU TYR ALA GLY THR SER ASP ALA GLU ALA SEQRES 25 A 346 HIS TRP VAL GLU ILE GLY TYR PRO PHE ASP VAL PRO LEU SEQRES 26 A 346 ALA ARG GLU ASN ALA PRO VAL ASP VAL SER GLN LEU ILE SEQRES 27 A 346 GLY GLU PRO GLN ARG LEU GLN ALA HET M1P A 401 16 HETNAM M1P 1-O-PHOSPHONO-ALPHA-D-MANNOPYRANOSE HETSYN M1P ALPHA-D-MANNOSE 1-PHOSPHATE; 1-O-PHOSPHONO-ALPHA-D- HETSYN 2 M1P MANNOSE; 1-O-PHOSPHONO-D-MANNOSE; 1-O-PHOSPHONO- HETSYN 3 M1P MANNOSE FORMUL 2 M1P C6 H13 O9 P FORMUL 3 HOH *271(H2 O) HELIX 1 AA1 ARG A 8 ASP A 19 1 12 HELIX 2 AA2 SER A 175 LEU A 179 5 5 HELIX 3 AA3 THR A 180 ALA A 187 1 8 HELIX 4 AA4 GLY A 255 PHE A 259 5 5 HELIX 5 AA5 ARG A 266 VAL A 270 5 5 SHEET 1 AA1 4 THR A 25 LYS A 27 0 SHEET 2 AA1 4 GLU A 295 ILE A 301 -1 O TRP A 298 N GLY A 26 SHEET 3 AA1 4 VAL A 284 THR A 291 -1 N LEU A 287 O VAL A 299 SHEET 4 AA1 4 VAL A 273 ILE A 281 -1 N ILE A 281 O VAL A 284 SHEET 1 AA2 3 ASP A 37 TYR A 39 0 SHEET 2 AA2 3 ARG A 50 GLU A 58 -1 O ARG A 56 N TYR A 39 SHEET 3 AA2 3 PHE A 45 VAL A 47 -1 N PHE A 45 O VAL A 52 SHEET 1 AA3 4 ASP A 37 TYR A 39 0 SHEET 2 AA3 4 ARG A 50 GLU A 58 -1 O ARG A 56 N TYR A 39 SHEET 3 AA3 4 THR A 66 ALA A 73 -1 O PHE A 70 N ILE A 53 SHEET 4 AA3 4 VAL A 76 PRO A 79 -1 O HIS A 78 N GLU A 71 SHEET 1 AA4 4 GLN A 89 ILE A 96 0 SHEET 2 AA4 4 GLU A 99 ARG A 108 -1 O VAL A 101 N THR A 94 SHEET 3 AA4 4 GLU A 115 GLY A 123 -1 O GLU A 115 N ARG A 108 SHEET 4 AA4 4 LYS A 130 ALA A 134 -1 O PHE A 132 N PHE A 120 SHEET 1 AA5 3 ARG A 143 GLU A 146 0 SHEET 2 AA5 3 VAL A 152 THR A 156 -1 O ALA A 153 N CYS A 145 SHEET 3 AA5 3 GLY A 169 VAL A 173 -1 O VAL A 173 N VAL A 152 SHEET 1 AA6 4 TRP A 199 LEU A 207 0 SHEET 2 AA6 4 ILE A 213 PHE A 222 -1 O GLY A 214 N HIS A 206 SHEET 3 AA6 4 ARG A 231 ASP A 241 -1 O PHE A 238 N LEU A 215 SHEET 4 AA6 4 ALA A 246 ALA A 254 -1 O LEU A 253 N ALA A 235 CRYST1 131.851 131.851 47.250 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 0.007584 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007584 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021164 0.00000 CONECT 2415 2416 CONECT 2416 2415 2417 CONECT 2417 2416 2418 2429 CONECT 2418 2417 2419 CONECT 2419 2418 2420 2425 CONECT 2420 2419 2421 CONECT 2421 2420 2422 2423 2424 CONECT 2422 2421 CONECT 2423 2421 CONECT 2424 2421 CONECT 2425 2419 2426 2427 CONECT 2426 2425 CONECT 2427 2425 2428 2429 CONECT 2428 2427 CONECT 2429 2417 2427 2430 CONECT 2430 2429 MASTER 428 0 1 5 22 0 0 6 2671 1 16 27 END