HEADER TRANSFERASE 17-AUG-11 3ZY3 TITLE CRYSTAL STRUCTURE OF POFUT1 IN COMPLEX WITH GDP (CRYSTAL-FORM-III) COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE GDP-FUCOSE PROTEIN O-FUCOSYLTRANSFERASE 1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 26-383; COMPND 5 SYNONYM: PEPTIDE-O-FUCOSYLTRANSFERASE 1, O-FUCT-1, POFUT1; COMPND 6 EC: 2.4.1.221; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CAENORHABDITIS ELEGANS; SOURCE 3 ORGANISM_TAXID: 6239; SOURCE 4 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: X-33 KEYWDS TRANSFERASE, GLYCOSYLTRANSFERASE, GT-B, CATALYTIC MECHANISM, GT65 EXPDTA X-RAY DIFFRACTION AUTHOR E.LIRA-NAVARRETE,J.VALERO-GONZALEZ,R.VILLANUEVA,M.MARTINEZ-JULVEZ, AUTHOR 2 T.TEJERO,P.MERINO,S.PANJIKAR,R.HURTADO-GUERRERO REVDAT 3 20-DEC-23 3ZY3 1 REMARK REVDAT 2 12-OCT-11 3ZY3 1 JRNL REVDAT 1 14-SEP-11 3ZY3 0 JRNL AUTH E.LIRA-NAVARRETE,J.VALERO-GONZALEZ,R.VILLANUEVA, JRNL AUTH 2 M.MARTINEZ-JULVEZ,T.TEJERO,P.MERINO,S.PANJIKAR, JRNL AUTH 3 R.HURTADO-GUERRERO JRNL TITL STRUCTURAL INSIGHTS INTO THE MECHANISM OF PROTEIN JRNL TITL 2 O-FUCOSYLATION. JRNL REF PLOS ONE V. 6 25365 2011 JRNL REFN ESSN 1932-6203 JRNL PMID 21966509 JRNL DOI 10.1371/JOURNAL.PONE.0025365 REMARK 2 REMARK 2 RESOLUTION. 1.86 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.86 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 114.47 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 62998 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) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.245 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.700 REMARK 3 FREE R VALUE TEST SET COUNT : 1057 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) : 1.86 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.91 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4549 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.63 REMARK 3 BIN R VALUE (WORKING SET) : 0.3010 REMARK 3 BIN FREE R VALUE SET COUNT : 71 REMARK 3 BIN FREE R VALUE : 0.3030 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5589 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 71 REMARK 3 SOLVENT ATOMS : 319 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.53000 REMARK 3 B22 (A**2) : 0.53000 REMARK 3 B33 (A**2) : -0.80000 REMARK 3 B12 (A**2) : 0.27000 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): 0.150 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.142 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.111 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.706 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5828 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7904 ; 1.364 ; 1.959 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 692 ; 6.101 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 268 ;36.342 ;23.731 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 962 ;16.365 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 33 ;18.818 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 824 ; 0.096 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4435 ; 0.007 ; 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): 3492 ; 0.569 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5657 ; 1.017 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2336 ; 1.707 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2247 ; 2.718 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 25 A 380 4 REMARK 3 1 B 25 B 380 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 2755 ; 0.54 ; 0.50 REMARK 3 MEDIUM POSITIONAL 1 B (A): 2755 ; 0.54 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 2755 ; 0.84 ; 2.00 REMARK 3 MEDIUM THERMAL 1 B (A**2): 2755 ; 0.84 ; 2.00 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 24 A 381 REMARK 3 ORIGIN FOR THE GROUP (A): -22.5780 38.6590 11.6880 REMARK 3 T TENSOR REMARK 3 T11: 0.0208 T22: 0.0981 REMARK 3 T33: 0.0299 T12: 0.0269 REMARK 3 T13: 0.0045 T23: 0.0022 REMARK 3 L TENSOR REMARK 3 L11: 0.9929 L22: 0.8563 REMARK 3 L33: 0.9288 L12: -0.6232 REMARK 3 L13: 0.3973 L23: -0.3966 REMARK 3 S TENSOR REMARK 3 S11: 0.0376 S12: 0.0822 S13: 0.0941 REMARK 3 S21: -0.0328 S22: -0.0295 S23: -0.0146 REMARK 3 S31: -0.0301 S32: -0.1465 S33: -0.0081 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 : B 26 B 380 REMARK 3 ORIGIN FOR THE GROUP (A): -9.5400 50.0710 -19.3010 REMARK 3 T TENSOR REMARK 3 T11: 0.0697 T22: 0.1185 REMARK 3 T33: 0.1092 T12: 0.0678 REMARK 3 T13: -0.0367 T23: -0.0137 REMARK 3 L TENSOR REMARK 3 L11: 1.0882 L22: 1.5935 REMARK 3 L33: 1.3453 L12: 0.2118 REMARK 3 L13: -0.1626 L23: 0.4293 REMARK 3 S TENSOR REMARK 3 S11: 0.1021 S12: 0.0949 S13: 0.0222 REMARK 3 S21: 0.1183 S22: 0.0116 S23: -0.2834 REMARK 3 S31: -0.0620 S32: 0.0178 S33: -0.1137 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 3ZY3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-AUG-11. REMARK 100 THE DEPOSITION ID IS D_1290049383. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 90 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM16 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.99 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 64057 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.860 REMARK 200 RESOLUTION RANGE LOW (A) : 24.980 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 9.400 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.86 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.96 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.4 REMARK 200 DATA REDUNDANCY IN SHELL : 6.70 REMARK 200 R MERGE FOR SHELL (I) : 0.62000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.100 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: PDB ENTRY 3ZY2 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.70733 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 25.85367 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 38.78050 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 12.92683 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 64.63417 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: MONOMERIC 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLU A 22 REMARK 465 ALA A 23 REMARK 465 ILE A 126 REMARK 465 TYR A 127 REMARK 465 ASP A 128 REMARK 465 LYS A 129 REMARK 465 SER A 130 REMARK 465 ALA A 131 REMARK 465 ALA A 382 REMARK 465 VAL A 383 REMARK 465 GLU B 22 REMARK 465 ALA B 23 REMARK 465 GLU B 24 REMARK 465 ALA B 25 REMARK 465 HIS B 72 REMARK 465 ASP B 128 REMARK 465 LYS B 129 REMARK 465 SER B 130 REMARK 465 ALA B 131 REMARK 465 GLU B 325 REMARK 465 GLN B 370 REMARK 465 SER B 371 REMARK 465 ARG B 381 REMARK 465 ALA B 382 REMARK 465 VAL B 383 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 PRO A 73 C - N - CA ANGL. DEV. = 11.8 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 40 -159.74 -98.38 REMARK 500 ASP A 59 44.04 74.14 REMARK 500 LYS A 71 -164.34 -128.51 REMARK 500 HIS A 72 150.96 -46.47 REMARK 500 PRO A 73 -13.02 -2.26 REMARK 500 ASN A 241 18.50 -158.67 REMARK 500 PHE A 261 -115.67 49.20 REMARK 500 LYS A 310 -76.32 -147.66 REMARK 500 ASP B 59 38.04 70.13 REMARK 500 ASN B 241 13.02 -153.04 REMARK 500 PHE B 261 -121.02 44.99 REMARK 500 LYS B 310 -85.35 -144.10 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 SO4 A 1382 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1383 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP A 1384 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1385 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP B 1381 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ZY2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF POFUT1 IN COMPLEX WITH GDP (HIGH RESOLUTION REMARK 900 DATASET) REMARK 900 RELATED ID: 3ZY5 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF POFUT1 IN COMPLEX WITH GDP-FUCOSE (CRYSTAL- REMARK 900 FORM-I) REMARK 900 RELATED ID: 3ZY6 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF POFUT1 IN COMPLEX WITH GDP-FUCOSE (CRYSTAL- REMARK 900 FORM-II) REMARK 900 RELATED ID: 3ZY4 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF POFUT1 APO-FORM (CRYSTAL-FORM-I) DBREF 3ZY3 A 26 383 UNP Q18014 OFUT1_CAEEL 26 383 DBREF 3ZY3 B 26 383 UNP Q18014 OFUT1_CAEEL 26 383 SEQADV 3ZY3 GLU A 22 UNP Q18014 EXPRESSION TAG SEQADV 3ZY3 ALA A 23 UNP Q18014 EXPRESSION TAG SEQADV 3ZY3 GLU A 24 UNP Q18014 EXPRESSION TAG SEQADV 3ZY3 ALA A 25 UNP Q18014 EXPRESSION TAG SEQADV 3ZY3 GLU B 22 UNP Q18014 EXPRESSION TAG SEQADV 3ZY3 ALA B 23 UNP Q18014 EXPRESSION TAG SEQADV 3ZY3 GLU B 24 UNP Q18014 EXPRESSION TAG SEQADV 3ZY3 ALA B 25 UNP Q18014 EXPRESSION TAG SEQRES 1 A 362 GLU ALA GLU ALA THR ASP PRO ASN GLY TYR ILE VAL PHE SEQRES 2 A 362 CYS PRO CYS MET GLY ARG PHE GLY ASN GLN VAL ASP GLN SEQRES 3 A 362 PHE LEU GLY VAL LEU ALA PHE ALA LYS ALA LEU ASP ARG SEQRES 4 A 362 THR LEU VAL LEU PRO ASN PHE ILE GLU PHE LYS HIS PRO SEQRES 5 A 362 GLU THR LYS MET ILE PRO PHE GLU PHE LEU PHE GLN VAL SEQRES 6 A 362 GLY THR VAL ALA LYS TYR THR ARG VAL VAL THR MET GLN SEQRES 7 A 362 GLU PHE THR LYS LYS ILE MET PRO THR VAL TRP PRO PRO SEQRES 8 A 362 GLU LYS ARG LYS ALA PHE CYS TRP THR PRO ARG GLN ALA SEQRES 9 A 362 ILE TYR ASP LYS SER ALA GLU PRO GLY CYS HIS SER LYS SEQRES 10 A 362 GLU GLY ASN PRO PHE GLY PRO TYR TRP ASP GLN ILE ASP SEQRES 11 A 362 VAL SER PHE VAL GLY ASP GLU TYR PHE GLY ASP ILE PRO SEQRES 12 A 362 GLY GLY PHE ASP LEU ASN GLN MET GLY SER ARG LYS LYS SEQRES 13 A 362 TRP LEU GLU LYS PHE PRO SER GLU GLU TYR PRO VAL LEU SEQRES 14 A 362 ALA PHE SER SER ALA PRO ALA PRO PHE PRO SER LYS GLY SEQRES 15 A 362 LYS VAL TRP SER ILE GLN LYS TYR LEU ARG TRP SER SER SEQRES 16 A 362 ARG ILE THR GLU GLN ALA LYS LYS PHE ILE SER ALA ASN SEQRES 17 A 362 LEU ALA LYS PRO PHE VAL ALA VAL HIS LEU ARG ASN ASP SEQRES 18 A 362 ALA ASP TRP VAL ARG VAL CYS GLU HIS ILE ASP THR THR SEQRES 19 A 362 THR ASN ARG PRO LEU PHE ALA SER GLU GLN CYS LEU GLY SEQRES 20 A 362 GLU GLY HIS HIS LEU GLY THR LEU THR LYS GLU ILE CYS SEQRES 21 A 362 SER PRO SER LYS GLN GLN ILE LEU GLU GLN ILE VAL GLU SEQRES 22 A 362 LYS VAL GLY SER ILE GLY ALA LYS SER VAL PHE VAL ALA SEQRES 23 A 362 SER ASP LYS ASP HIS MET ILE ASP GLU ILE ASN GLU ALA SEQRES 24 A 362 LEU LYS PRO TYR GLU ILE GLU ALA HIS ARG GLN GLU PRO SEQRES 25 A 362 ASP ASP MET TYR THR SER LEU ALA ILE MET GLY ARG ALA SEQRES 26 A 362 ASP LEU PHE VAL GLY ASN CYS VAL SER THR PHE SER HIS SEQRES 27 A 362 ILE VAL LYS ARG GLU ARG ASP HIS ALA GLY GLN SER PRO SEQRES 28 A 362 ARG PRO SER ALA PHE PHE GLY ILE ARG ALA VAL SEQRES 1 B 362 GLU ALA GLU ALA THR ASP PRO ASN GLY TYR ILE VAL PHE SEQRES 2 B 362 CYS PRO CYS MET GLY ARG PHE GLY ASN GLN VAL ASP GLN SEQRES 3 B 362 PHE LEU GLY VAL LEU ALA PHE ALA LYS ALA LEU ASP ARG SEQRES 4 B 362 THR LEU VAL LEU PRO ASN PHE ILE GLU PHE LYS HIS PRO SEQRES 5 B 362 GLU THR LYS MET ILE PRO PHE GLU PHE LEU PHE GLN VAL SEQRES 6 B 362 GLY THR VAL ALA LYS TYR THR ARG VAL VAL THR MET GLN SEQRES 7 B 362 GLU PHE THR LYS LYS ILE MET PRO THR VAL TRP PRO PRO SEQRES 8 B 362 GLU LYS ARG LYS ALA PHE CYS TRP THR PRO ARG GLN ALA SEQRES 9 B 362 ILE TYR ASP LYS SER ALA GLU PRO GLY CYS HIS SER LYS SEQRES 10 B 362 GLU GLY ASN PRO PHE GLY PRO TYR TRP ASP GLN ILE ASP SEQRES 11 B 362 VAL SER PHE VAL GLY ASP GLU TYR PHE GLY ASP ILE PRO SEQRES 12 B 362 GLY GLY PHE ASP LEU ASN GLN MET GLY SER ARG LYS LYS SEQRES 13 B 362 TRP LEU GLU LYS PHE PRO SER GLU GLU TYR PRO VAL LEU SEQRES 14 B 362 ALA PHE SER SER ALA PRO ALA PRO PHE PRO SER LYS GLY SEQRES 15 B 362 LYS VAL TRP SER ILE GLN LYS TYR LEU ARG TRP SER SER SEQRES 16 B 362 ARG ILE THR GLU GLN ALA LYS LYS PHE ILE SER ALA ASN SEQRES 17 B 362 LEU ALA LYS PRO PHE VAL ALA VAL HIS LEU ARG ASN ASP SEQRES 18 B 362 ALA ASP TRP VAL ARG VAL CYS GLU HIS ILE ASP THR THR SEQRES 19 B 362 THR ASN ARG PRO LEU PHE ALA SER GLU GLN CYS LEU GLY SEQRES 20 B 362 GLU GLY HIS HIS LEU GLY THR LEU THR LYS GLU ILE CYS SEQRES 21 B 362 SER PRO SER LYS GLN GLN ILE LEU GLU GLN ILE VAL GLU SEQRES 22 B 362 LYS VAL GLY SER ILE GLY ALA LYS SER VAL PHE VAL ALA SEQRES 23 B 362 SER ASP LYS ASP HIS MET ILE ASP GLU ILE ASN GLU ALA SEQRES 24 B 362 LEU LYS PRO TYR GLU ILE GLU ALA HIS ARG GLN GLU PRO SEQRES 25 B 362 ASP ASP MET TYR THR SER LEU ALA ILE MET GLY ARG ALA SEQRES 26 B 362 ASP LEU PHE VAL GLY ASN CYS VAL SER THR PHE SER HIS SEQRES 27 B 362 ILE VAL LYS ARG GLU ARG ASP HIS ALA GLY GLN SER PRO SEQRES 28 B 362 ARG PRO SER ALA PHE PHE GLY ILE ARG ALA VAL HET SO4 A1382 5 HET SO4 A1383 5 HET GDP A1384 28 HET SO4 A1385 5 HET GDP B1381 28 HETNAM SO4 SULFATE ION HETNAM GDP GUANOSINE-5'-DIPHOSPHATE FORMUL 3 SO4 3(O4 S 2-) FORMUL 5 GDP 2(C10 H15 N5 O11 P2) FORMUL 8 HOH *319(H2 O) HELIX 1 1 ARG A 40 ASP A 59 1 20 HELIX 2 2 PHE A 80 PHE A 84 1 5 HELIX 3 3 GLN A 85 ALA A 90 1 6 HELIX 4 4 THR A 97 LYS A 104 1 8 HELIX 5 5 ILE A 105 TRP A 110 1 6 HELIX 6 6 PRO A 111 LYS A 114 5 4 HELIX 7 7 PRO A 142 ILE A 150 1 9 HELIX 8 8 GLY A 173 PHE A 182 1 10 HELIX 9 9 LYS A 202 LEU A 212 5 11 HELIX 10 10 SER A 215 LEU A 230 1 16 HELIX 11 11 ASP A 244 HIS A 251 1 8 HELIX 12 12 SER A 263 GLY A 268 1 6 HELIX 13 13 GLU A 269 HIS A 272 5 4 HELIX 14 14 THR A 277 SER A 282 1 6 HELIX 15 15 SER A 284 GLY A 300 1 17 HELIX 16 16 MET A 313 LYS A 322 1 10 HELIX 17 17 PRO A 323 GLU A 325 5 3 HELIX 18 18 ASP A 335 ALA A 346 1 12 HELIX 19 19 SER A 355 ALA A 368 1 14 HELIX 20 20 ARG B 40 ASP B 59 1 20 HELIX 21 21 PHE B 80 PHE B 84 1 5 HELIX 22 22 GLN B 85 ALA B 90 1 6 HELIX 23 23 THR B 97 ILE B 105 1 9 HELIX 24 24 ILE B 105 TRP B 110 1 6 HELIX 25 25 PRO B 111 LYS B 114 5 4 HELIX 26 26 PRO B 142 ILE B 150 1 9 HELIX 27 27 GLY B 173 PHE B 182 1 10 HELIX 28 28 LYS B 202 LEU B 212 5 11 HELIX 29 29 SER B 215 LEU B 230 1 16 HELIX 30 30 ASP B 244 GLU B 250 1 7 HELIX 31 31 SER B 263 GLY B 268 1 6 HELIX 32 32 GLU B 269 HIS B 272 5 4 HELIX 33 33 THR B 277 SER B 282 1 6 HELIX 34 34 SER B 284 GLY B 300 1 17 HELIX 35 35 MET B 313 LEU B 321 1 9 HELIX 36 36 ASP B 335 ARG B 345 1 11 HELIX 37 37 SER B 355 ALA B 368 1 14 SHEET 1 AA 6 VAL A 95 VAL A 96 0 SHEET 2 AA 6 THR A 61 VAL A 63 1 O LEU A 62 N VAL A 96 SHEET 3 AA 6 TYR A 31 PHE A 34 1 O ILE A 32 N VAL A 63 SHEET 4 AA 6 VAL A 189 PHE A 192 1 O LEU A 190 N VAL A 33 SHEET 5 AA 6 LYS A 116 CYS A 119 1 O LYS A 116 N ALA A 191 SHEET 6 AA 6 GLY A 156 TYR A 159 1 O GLY A 156 N ALA A 117 SHEET 1 AB 2 ASN A 66 PHE A 70 0 SHEET 2 AB 2 THR A 75 PRO A 79 -1 O LYS A 76 N GLU A 69 SHEET 1 AC 5 ALA A 328 HIS A 329 0 SHEET 2 AC 5 SER A 303 SER A 308 1 O VAL A 304 N HIS A 329 SHEET 3 AC 5 PHE A 234 LEU A 239 1 O VAL A 235 N PHE A 305 SHEET 4 AC 5 LEU A 348 GLY A 351 1 O LEU A 348 N ALA A 236 SHEET 5 AC 5 SER A 375 PHE A 377 1 O ALA A 376 N GLY A 351 SHEET 1 BA 6 VAL B 95 VAL B 96 0 SHEET 2 BA 6 THR B 61 VAL B 63 1 O LEU B 62 N VAL B 96 SHEET 3 BA 6 TYR B 31 PHE B 34 1 O ILE B 32 N VAL B 63 SHEET 4 BA 6 VAL B 189 PHE B 192 1 O LEU B 190 N VAL B 33 SHEET 5 BA 6 LYS B 116 CYS B 119 1 O LYS B 116 N ALA B 191 SHEET 6 BA 6 GLY B 156 TYR B 159 1 O GLY B 156 N ALA B 117 SHEET 1 BB 2 ASN B 66 GLU B 69 0 SHEET 2 BB 2 LYS B 76 PRO B 79 -1 O LYS B 76 N GLU B 69 SHEET 1 BC 5 ALA B 328 HIS B 329 0 SHEET 2 BC 5 SER B 303 SER B 308 1 O VAL B 304 N HIS B 329 SHEET 3 BC 5 PHE B 234 LEU B 239 1 O VAL B 235 N PHE B 305 SHEET 4 BC 5 LEU B 348 GLY B 351 1 O LEU B 348 N ALA B 236 SHEET 5 BC 5 SER B 375 PHE B 377 1 O ALA B 376 N GLY B 351 SSBOND 1 CYS A 35 CYS A 37 1555 1555 2.03 SSBOND 2 CYS A 119 CYS A 135 1555 1555 2.05 SSBOND 3 CYS A 249 CYS A 281 1555 1555 2.00 SSBOND 4 CYS A 266 CYS A 353 1555 1555 2.02 SSBOND 5 CYS B 35 CYS B 37 1555 1555 2.02 SSBOND 6 CYS B 119 CYS B 135 1555 1555 2.06 SSBOND 7 CYS B 249 CYS B 281 1555 1555 2.03 SSBOND 8 CYS B 266 CYS B 353 1555 1555 2.02 CISPEP 1 ASN A 141 PRO A 142 0 5.78 CISPEP 2 PHE A 199 PRO A 200 0 0.46 CISPEP 3 LYS A 232 PRO A 233 0 -1.19 CISPEP 4 GLU A 332 PRO A 333 0 -5.17 CISPEP 5 ASN B 141 PRO B 142 0 1.63 CISPEP 6 PHE B 199 PRO B 200 0 -1.19 CISPEP 7 LYS B 232 PRO B 233 0 -7.43 CISPEP 8 GLU B 332 PRO B 333 0 -8.16 SITE 1 AC1 5 MET A 172 GLY A 173 SER A 174 ARG A 175 SITE 2 AC1 5 LYS A 176 SITE 1 AC2 4 SER A 284 LYS A 285 HOH A2141 HOH A2142 SITE 1 AC3 19 ARG A 40 PHE A 41 GLY A 42 ASN A 43 SITE 2 AC3 19 HIS A 238 ARG A 240 ALA A 307 SER A 308 SITE 3 AC3 19 ASP A 309 ASP A 334 MET A 336 SER A 355 SITE 4 AC3 19 THR A 356 PHE A 357 HOH A2014 HOH A2017 SITE 5 AC3 19 HOH A2018 HOH A2183 HOH A2189 SITE 1 AC4 9 LYS A 310 ASP A 311 HIS A 312 MET A 313 SITE 2 AC4 9 ILE A 314 ARG A 330 HOH A2162 HOH A2172 SITE 3 AC4 9 HOH A2190 SITE 1 AC5 23 ARG B 40 PHE B 41 GLY B 42 ASN B 43 SITE 2 AC5 23 HIS B 238 ARG B 240 TRP B 245 ALA B 307 SITE 3 AC5 23 SER B 308 ASP B 309 ASP B 334 MET B 336 SITE 4 AC5 23 SER B 355 THR B 356 PHE B 357 HOH B2007 SITE 5 AC5 23 HOH B2008 HOH B2009 HOH B2010 HOH B2121 SITE 6 AC5 23 HOH B2122 HOH B2128 HOH B2129 CRYST1 132.180 132.180 77.561 90.00 90.00 120.00 P 65 12 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 0.007565 0.004368 0.000000 0.00000 SCALE2 0.000000 0.008736 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012893 0.00000 MTRIX1 1 0.447000 0.447600 0.774500 0.00000 1 MTRIX2 1 0.473700 -0.852900 0.219500 0.00000 1 MTRIX3 1 0.758800 0.268800 -0.593200 0.00000 1