HEADER TRANSFERASE 26-JUL-18 6E7I TITLE HUMAN PPGALNACT2 I253A/L310A MUTANT WITH EA2 AND UDP COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: POLYPEPTIDE GALNAC TRANSFERASE 2,PP-GANTASE 2,PROTEIN-UDP COMPND 5 ACETYLGALACTOSAMINYLTRANSFERASE 2,UDP-GALNAC:POLYPEPTIDE N- COMPND 6 ACETYLGALACTOSAMINYLTRANSFERASE 2; COMPND 7 EC: 2.4.1.41; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: EA2; COMPND 12 CHAIN: P; COMPND 13 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: GALNT2; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: HEK293 - FREESTYLE 293-F; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 13 ORGANISM_COMMON: RAT; SOURCE 14 ORGANISM_TAXID: 10116 KEYWDS GLYCOSYLTRANSFERASE, GLYCOSYLATION, BUMP-HOLE, GALNAC, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR C.R.BERTOZZI,B.SCHUMANN,A.J.AGBAY REVDAT 3 11-OCT-23 6E7I 1 REMARK REVDAT 2 23-SEP-20 6E7I 1 JRNL REVDAT 1 29-JAN-20 6E7I 0 JRNL AUTH B.SCHUMANN,S.A.MALAKER,S.P.WISNOVSKY,M.F.DEBETS,A.J.AGBAY, JRNL AUTH 2 D.FERNANDEZ,L.J.S.WAGNER,L.LIN,Z.LI,J.CHOI,D.M.FOX,J.PEH, JRNL AUTH 3 M.A.GRAY,K.PEDRAM,J.J.KOHLER,M.MRKSICH,C.R.BERTOZZI JRNL TITL BUMP-AND-HOLE ENGINEERING IDENTIFIES SPECIFIC SUBSTRATES OF JRNL TITL 2 GLYCOSYLTRANSFERASES IN LIVING CELLS. JRNL REF MOL.CELL V. 78 824 2020 JRNL REFN ISSN 1097-2765 JRNL PMID 32325029 JRNL DOI 10.1016/J.MOLCEL.2020.03.030 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0230 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 56.66 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 91.7 REMARK 3 NUMBER OF REFLECTIONS : 37096 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) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.216 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1998 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2876 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.76 REMARK 3 BIN R VALUE (WORKING SET) : 0.2490 REMARK 3 BIN FREE R VALUE SET COUNT : 142 REMARK 3 BIN FREE R VALUE : 0.2950 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3955 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 327 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 11.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.45 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.17000 REMARK 3 B22 (A**2) : -0.17000 REMARK 3 B33 (A**2) : 0.56000 REMARK 3 B12 (A**2) : -0.09000 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): 0.147 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.139 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.102 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.397 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 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): 4086 ; 0.013 ; 0.014 REMARK 3 BOND LENGTHS OTHERS (A): 3551 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5549 ; 1.605 ; 1.664 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8334 ; 1.013 ; 1.641 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 503 ; 6.990 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 229 ;32.954 ;21.703 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 672 ;14.282 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 33 ;21.359 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 510 ; 0.086 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4644 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 764 ; 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): 2012 ; 1.579 ; 1.606 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2011 ; 1.574 ; 1.605 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2512 ; 2.443 ; 2.401 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2513 ; 2.443 ; 2.402 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2074 ; 1.988 ; 1.751 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2075 ; 1.989 ; 1.751 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3037 ; 3.041 ; 2.556 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4639 ; 4.436 ;18.585 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4576 ; 4.362 ;18.381 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 : NULL 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 THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 6E7I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-JUL-18. REMARK 100 THE DEPOSITION ID IS D_1000235801. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-AUG-17 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97741 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL, CYLINDRICALLY REMARK 200 BENT, SI(220) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42632 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 60.020 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.1 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.10700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.7 REMARK 200 DATA REDUNDANCY IN SHELL : 1.90 REMARK 200 R MERGE FOR SHELL (I) : 0.47100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.715 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: 2FFU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG8000, HEPES, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 56.59333 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 113.18667 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 84.89000 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 141.48333 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 28.29667 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, P 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 MET A 44 REMARK 465 GLY A 45 REMARK 465 ILE A 46 REMARK 465 LEU A 47 REMARK 465 PRO A 48 REMARK 465 SER A 49 REMARK 465 PRO A 50 REMARK 465 GLY A 51 REMARK 465 MET A 52 REMARK 465 PRO A 53 REMARK 465 ALA A 54 REMARK 465 LEU A 55 REMARK 465 LEU A 56 REMARK 465 SER A 57 REMARK 465 LEU A 58 REMARK 465 VAL A 59 REMARK 465 SER A 60 REMARK 465 LEU A 61 REMARK 465 LEU A 62 REMARK 465 SER A 63 REMARK 465 VAL A 64 REMARK 465 LEU A 65 REMARK 465 LEU A 66 REMARK 465 MET A 67 REMARK 465 GLY A 68 REMARK 465 CYS A 69 REMARK 465 VAL A 70 REMARK 465 ALA A 71 REMARK 465 GLU A 72 REMARK 465 THR A 73 REMARK 465 GLY A 74 REMARK 465 LEU A 569 REMARK 465 GLN A 570 REMARK 465 GLN A 571 REMARK 465 LYS A 572 REMARK 465 HIS A 573 REMARK 465 HIS A 574 REMARK 465 HIS A 575 REMARK 465 HIS A 576 REMARK 465 HIS A 577 REMARK 465 HIS A 578 REMARK 465 PRO P 1 REMARK 465 THR P 2 REMARK 465 THR P 3 REMARK 465 ASP P 4 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 ARG A 77 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 96 CG CD OE1 NE2 REMARK 470 ARG A 128 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 129 CG CD CE NZ REMARK 470 GLN A 130 CG CD OE1 NE2 REMARK 470 LYS A 189 CG CD CE NZ REMARK 470 ARG A 291 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 404 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 405 CG OD1 ND2 REMARK 470 ARG A 438 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 546 CG CD CE NZ REMARK 470 LYS A 564 CG CD CE NZ REMARK 470 ASN A 568 CG OD1 ND2 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 356 NE - CZ - NH1 ANGL. DEV. = -3.2 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 132 141.38 -28.59 REMARK 500 ASN A 296 84.77 -164.20 REMARK 500 ALA A 310 114.74 -167.86 REMARK 500 LYS A 323 -121.87 53.38 REMARK 500 VAL A 330 -80.19 63.12 REMARK 500 ASP A 390 -140.21 52.36 REMARK 500 PHE A 463 -162.82 -116.16 REMARK 500 GLU A 472 124.14 -39.47 REMARK 500 LYS A 488 32.54 70.32 REMARK 500 MET A 493 -111.70 51.89 REMARK 500 ASN A 537 40.73 -107.59 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 101 0.11 SIDE CHAIN REMARK 500 ARG A 200 0.08 SIDE CHAIN REMARK 500 ARG A 245 0.11 SIDE CHAIN 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 602 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 224 OD2 REMARK 620 2 HIS A 226 NE2 104.1 REMARK 620 3 HIS A 359 NE2 88.2 93.1 REMARK 620 4 UDP A 601 O2A 97.2 87.4 174.2 REMARK 620 5 UDP A 601 O2B 88.3 167.3 90.2 88.1 REMARK 620 6 HOH A 855 O 175.6 79.2 88.6 85.8 88.7 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 UDP A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 602 DBREF 6E7I A 74 571 UNP Q10471 GALT2_HUMAN 74 571 DBREF 6E7I P 1 13 UNP Q62605 Q62605_RAT 127 139 SEQADV 6E7I MET A 44 UNP Q10471 INITIATING METHIONINE SEQADV 6E7I GLY A 45 UNP Q10471 EXPRESSION TAG SEQADV 6E7I ILE A 46 UNP Q10471 EXPRESSION TAG SEQADV 6E7I LEU A 47 UNP Q10471 EXPRESSION TAG SEQADV 6E7I PRO A 48 UNP Q10471 EXPRESSION TAG SEQADV 6E7I SER A 49 UNP Q10471 EXPRESSION TAG SEQADV 6E7I PRO A 50 UNP Q10471 EXPRESSION TAG SEQADV 6E7I GLY A 51 UNP Q10471 EXPRESSION TAG SEQADV 6E7I MET A 52 UNP Q10471 EXPRESSION TAG SEQADV 6E7I PRO A 53 UNP Q10471 EXPRESSION TAG SEQADV 6E7I ALA A 54 UNP Q10471 EXPRESSION TAG SEQADV 6E7I LEU A 55 UNP Q10471 EXPRESSION TAG SEQADV 6E7I LEU A 56 UNP Q10471 EXPRESSION TAG SEQADV 6E7I SER A 57 UNP Q10471 EXPRESSION TAG SEQADV 6E7I LEU A 58 UNP Q10471 EXPRESSION TAG SEQADV 6E7I VAL A 59 UNP Q10471 EXPRESSION TAG SEQADV 6E7I SER A 60 UNP Q10471 EXPRESSION TAG SEQADV 6E7I LEU A 61 UNP Q10471 EXPRESSION TAG SEQADV 6E7I LEU A 62 UNP Q10471 EXPRESSION TAG SEQADV 6E7I SER A 63 UNP Q10471 EXPRESSION TAG SEQADV 6E7I VAL A 64 UNP Q10471 EXPRESSION TAG SEQADV 6E7I LEU A 65 UNP Q10471 EXPRESSION TAG SEQADV 6E7I LEU A 66 UNP Q10471 EXPRESSION TAG SEQADV 6E7I MET A 67 UNP Q10471 EXPRESSION TAG SEQADV 6E7I GLY A 68 UNP Q10471 EXPRESSION TAG SEQADV 6E7I CYS A 69 UNP Q10471 EXPRESSION TAG SEQADV 6E7I VAL A 70 UNP Q10471 EXPRESSION TAG SEQADV 6E7I ALA A 71 UNP Q10471 EXPRESSION TAG SEQADV 6E7I GLU A 72 UNP Q10471 EXPRESSION TAG SEQADV 6E7I THR A 73 UNP Q10471 EXPRESSION TAG SEQADV 6E7I ALA A 253 UNP Q10471 ILE 253 ENGINEERED MUTATION SEQADV 6E7I ALA A 310 UNP Q10471 LEU 310 ENGINEERED MUTATION SEQADV 6E7I LYS A 572 UNP Q10471 EXPRESSION TAG SEQADV 6E7I HIS A 573 UNP Q10471 EXPRESSION TAG SEQADV 6E7I HIS A 574 UNP Q10471 EXPRESSION TAG SEQADV 6E7I HIS A 575 UNP Q10471 EXPRESSION TAG SEQADV 6E7I HIS A 576 UNP Q10471 EXPRESSION TAG SEQADV 6E7I HIS A 577 UNP Q10471 EXPRESSION TAG SEQADV 6E7I HIS A 578 UNP Q10471 EXPRESSION TAG SEQRES 1 A 535 MET GLY ILE LEU PRO SER PRO GLY MET PRO ALA LEU LEU SEQRES 2 A 535 SER LEU VAL SER LEU LEU SER VAL LEU LEU MET GLY CYS SEQRES 3 A 535 VAL ALA GLU THR GLY LYS VAL ARG TRP PRO ASP PHE ASN SEQRES 4 A 535 GLN GLU ALA TYR VAL GLY GLY THR MET VAL ARG SER GLY SEQRES 5 A 535 GLN ASP PRO TYR ALA ARG ASN LYS PHE ASN GLN VAL GLU SEQRES 6 A 535 SER ASP LYS LEU ARG MET ASP ARG ALA ILE PRO ASP THR SEQRES 7 A 535 ARG HIS ASP GLN CYS GLN ARG LYS GLN TRP ARG VAL ASP SEQRES 8 A 535 LEU PRO ALA THR SER VAL VAL ILE THR PHE HIS ASN GLU SEQRES 9 A 535 ALA ARG SER ALA LEU LEU ARG THR VAL VAL SER VAL LEU SEQRES 10 A 535 LYS LYS SER PRO PRO HIS LEU ILE LYS GLU ILE ILE LEU SEQRES 11 A 535 VAL ASP ASP TYR SER ASN ASP PRO GLU ASP GLY ALA LEU SEQRES 12 A 535 LEU GLY LYS ILE GLU LYS VAL ARG VAL LEU ARG ASN ASP SEQRES 13 A 535 ARG ARG GLU GLY LEU MET ARG SER ARG VAL ARG GLY ALA SEQRES 14 A 535 ASP ALA ALA GLN ALA LYS VAL LEU THR PHE LEU ASP SER SEQRES 15 A 535 HIS CYS GLU CYS ASN GLU HIS TRP LEU GLU PRO LEU LEU SEQRES 16 A 535 GLU ARG VAL ALA GLU ASP ARG THR ARG VAL VAL SER PRO SEQRES 17 A 535 ILE ALA ASP VAL ILE ASN MET ASP ASN PHE GLN TYR VAL SEQRES 18 A 535 GLY ALA SER ALA ASP LEU LYS GLY GLY PHE ASP TRP ASN SEQRES 19 A 535 LEU VAL PHE LYS TRP ASP TYR MET THR PRO GLU GLN ARG SEQRES 20 A 535 ARG SER ARG GLN GLY ASN PRO VAL ALA PRO ILE LYS THR SEQRES 21 A 535 PRO MET ILE ALA GLY GLY ALA PHE VAL MET ASP LYS PHE SEQRES 22 A 535 TYR PHE GLU GLU LEU GLY LYS TYR ASP MET MET MET ASP SEQRES 23 A 535 VAL TRP GLY GLY GLU ASN LEU GLU ILE SER PHE ARG VAL SEQRES 24 A 535 TRP GLN CYS GLY GLY SER LEU GLU ILE ILE PRO CYS SER SEQRES 25 A 535 ARG VAL GLY HIS VAL PHE ARG LYS GLN HIS PRO TYR THR SEQRES 26 A 535 PHE PRO GLY GLY SER GLY THR VAL PHE ALA ARG ASN THR SEQRES 27 A 535 ARG ARG ALA ALA GLU VAL TRP MET ASP GLU TYR LYS ASN SEQRES 28 A 535 PHE TYR TYR ALA ALA VAL PRO SER ALA ARG ASN VAL PRO SEQRES 29 A 535 TYR GLY ASN ILE GLN SER ARG LEU GLU LEU ARG LYS LYS SEQRES 30 A 535 LEU SER CYS LYS PRO PHE LYS TRP TYR LEU GLU ASN VAL SEQRES 31 A 535 TYR PRO GLU LEU ARG VAL PRO ASP HIS GLN ASP ILE ALA SEQRES 32 A 535 PHE GLY ALA LEU GLN GLN GLY THR ASN CYS LEU ASP THR SEQRES 33 A 535 LEU GLY HIS PHE ALA ASP GLY VAL VAL GLY VAL TYR GLU SEQRES 34 A 535 CYS HIS ASN ALA GLY GLY ASN GLN GLU TRP ALA LEU THR SEQRES 35 A 535 LYS GLU LYS SER VAL LYS HIS MET ASP LEU CYS LEU THR SEQRES 36 A 535 VAL VAL ASP ARG ALA PRO GLY SER LEU ILE LYS LEU GLN SEQRES 37 A 535 GLY CYS ARG GLU ASN ASP SER ARG GLN LYS TRP GLU GLN SEQRES 38 A 535 ILE GLU GLY ASN SER LYS LEU ARG HIS VAL GLY SER ASN SEQRES 39 A 535 LEU CYS LEU ASP SER ARG THR ALA LYS SER GLY GLY LEU SEQRES 40 A 535 SER VAL GLU VAL CYS GLY PRO ALA LEU SER GLN GLN TRP SEQRES 41 A 535 LYS PHE THR LEU ASN LEU GLN GLN LYS HIS HIS HIS HIS SEQRES 42 A 535 HIS HIS SEQRES 1 P 13 PRO THR THR ASP SER THR THR PRO ALA PRO THR THR LYS HET UDP A 601 25 HET MN A 602 1 HETNAM UDP URIDINE-5'-DIPHOSPHATE HETNAM MN MANGANESE (II) ION FORMUL 3 UDP C9 H14 N2 O12 P2 FORMUL 4 MN MN 2+ FORMUL 5 HOH *327(H2 O) HELIX 1 AA1 ARG A 77 PHE A 81 5 5 HELIX 2 AA2 ASN A 82 GLY A 89 1 8 HELIX 3 AA3 ASN A 105 LEU A 112 1 8 HELIX 4 AA4 HIS A 123 ARG A 128 1 6 HELIX 5 AA5 ALA A 148 SER A 163 1 16 HELIX 6 AA6 PRO A 164 HIS A 166 5 3 HELIX 7 AA7 PRO A 181 LEU A 186 1 6 HELIX 8 AA8 LEU A 187 ILE A 190 5 4 HELIX 9 AA9 GLU A 202 ALA A 215 1 14 HELIX 10 AB1 TRP A 233 ASP A 244 1 12 HELIX 11 AB2 THR A 286 SER A 292 1 7 HELIX 12 AB3 LYS A 315 LEU A 321 1 7 HELIX 13 AB4 GLY A 333 CYS A 345 1 13 HELIX 14 AB5 GLY A 372 MET A 389 1 18 HELIX 15 AB6 TYR A 392 VAL A 400 1 9 HELIX 16 AB7 PRO A 401 VAL A 406 5 6 HELIX 17 AB8 ILE A 411 LEU A 421 1 11 HELIX 18 AB9 PRO A 425 VAL A 433 1 9 HELIX 19 AC1 GLY A 477 GLU A 481 5 5 HELIX 20 AC2 ASP A 517 GLN A 520 5 4 HELIX 21 AC3 THR A 544 GLY A 548 5 5 HELIX 22 AC4 ALA A 558 GLN A 562 5 5 SHEET 1 AA1 5 VAL A 193 ARG A 197 0 SHEET 2 AA1 5 ILE A 168 ASP A 175 1 N LEU A 173 O LEU A 196 SHEET 3 AA1 5 THR A 138 PHE A 144 1 N VAL A 140 O ILE A 172 SHEET 4 AA1 5 VAL A 219 LEU A 223 1 O THR A 221 N VAL A 141 SHEET 5 AA1 5 ALA A 310 ASP A 314 -1 O MET A 313 N LEU A 220 SHEET 1 AA2 4 CYS A 227 CYS A 229 0 SHEET 2 AA2 4 SER A 348 HIS A 359 -1 O GLY A 358 N GLU A 228 SHEET 3 AA2 4 ARG A 247 ILE A 256 1 N VAL A 248 O SER A 348 SHEET 4 AA2 4 TYR A 263 VAL A 264 -1 O VAL A 264 N VAL A 255 SHEET 1 AA3 3 CYS A 227 CYS A 229 0 SHEET 2 AA3 3 SER A 348 HIS A 359 -1 O GLY A 358 N GLU A 228 SHEET 3 AA3 3 ILE A 301 LYS A 302 -1 N ILE A 301 O ILE A 351 SHEET 1 AA4 2 LEU A 270 PHE A 274 0 SHEET 2 AA4 2 PHE A 280 TYR A 284 -1 O ASP A 283 N LYS A 271 SHEET 1 AA5 7 GLY A 469 GLU A 472 0 SHEET 2 AA5 7 ASN A 455 ASP A 458 -1 N CYS A 456 O TYR A 471 SHEET 3 AA5 7 ALA A 446 GLN A 452 -1 N GLN A 452 O ASN A 455 SHEET 4 AA5 7 TRP A 482 LEU A 484 -1 O TRP A 482 N GLY A 448 SHEET 5 AA5 7 VAL A 490 HIS A 492 -1 O LYS A 491 N ALA A 483 SHEET 6 AA5 7 LEU A 495 THR A 498 -1 O LEU A 495 N HIS A 492 SHEET 7 AA5 7 LYS A 509 GLY A 512 -1 O GLN A 511 N CYS A 496 SHEET 1 AA6 4 GLY A 469 GLU A 472 0 SHEET 2 AA6 4 ASN A 455 ASP A 458 -1 N CYS A 456 O TYR A 471 SHEET 3 AA6 4 ALA A 446 GLN A 452 -1 N GLN A 452 O ASN A 455 SHEET 4 AA6 4 LYS A 564 LEU A 567 -1 O THR A 566 N ALA A 449 SHEET 1 AA7 2 TRP A 522 ILE A 525 0 SHEET 2 AA7 2 LYS A 530 HIS A 533 -1 O ARG A 532 N GLU A 523 SHEET 1 AA8 2 LEU A 538 ASP A 541 0 SHEET 2 AA8 2 SER A 551 VAL A 554 -1 O GLU A 553 N CYS A 539 SSBOND 1 CYS A 126 CYS A 354 1555 1555 2.13 SSBOND 2 CYS A 345 CYS A 423 1555 1555 2.05 SSBOND 3 CYS A 456 CYS A 473 1555 1555 2.07 SSBOND 4 CYS A 496 CYS A 513 1555 1555 2.06 SSBOND 5 CYS A 539 CYS A 555 1555 1555 2.09 LINK OD2 ASP A 224 MN MN A 602 1555 1555 2.26 LINK NE2 HIS A 226 MN MN A 602 1555 1555 2.24 LINK NE2 HIS A 359 MN MN A 602 1555 1555 2.25 LINK O2A UDP A 601 MN MN A 602 1555 1555 2.15 LINK O2B UDP A 601 MN MN A 602 1555 1555 2.19 LINK MN MN A 602 O HOH A 855 1555 1555 2.50 SITE 1 AC1 23 THR A 143 PHE A 144 HIS A 145 ASP A 176 SITE 2 AC1 23 ARG A 201 GLY A 203 LEU A 204 ASP A 224 SITE 3 AC1 23 SER A 225 HIS A 226 VAL A 330 TRP A 331 SITE 4 AC1 23 HIS A 359 ARG A 362 HIS A 365 TYR A 367 SITE 5 AC1 23 MN A 602 HOH A 705 HOH A 746 HOH A 803 SITE 6 AC1 23 HOH A 855 HOH A 889 THR P 7 SITE 1 AC2 5 ASP A 224 HIS A 226 HIS A 359 UDP A 601 SITE 2 AC2 5 HOH A 855 CRYST1 69.310 69.310 169.780 90.00 90.00 120.00 P 61 6 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 0.014428 0.008330 0.000000 0.00000 SCALE2 0.000000 0.016660 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005890 0.00000