HEADER BIOSYNTHETIC PROTEIN 26-FEB-20 6Y6I TITLE LIPOPOLYSACCHARIDE OUTER CORE GALACTOSYLTRANSFERASE WAAB AND UDP TITLE 2 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: LIPOPOLYSACCHARIDE 1,6-GALACTOSYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: UDP-D-GALACTOSE--(GLUCOSYL)LIPOPOLYSACCHARIDE-ALPHA-1,3-D- COMPND 5 GALACTOSYLTRANSFERASE; COMPND 6 EC: 2.4.1.-; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SALMONELLA TYPHIMURIUM (STRAIN LT2 / SGSC1412 / SOURCE 3 ATCC 700720); SOURCE 4 ORGANISM_TAXID: 99287; SOURCE 5 GENE: RFAB, WAAB, STM3719; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS WAAB, LIPOPOLYSACCHARIDE, GALACTOSYLTRANSFERASE, UDP, KEYWDS 2 LIPOPOLYSACCHARIDE OUTER CORE, BIOSYNTHETIC PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Z.Y.ZHANG,G.ASHWORTH,Z.S.WANG,X.F.ZHU,C.J.DONG REVDAT 2 24-JAN-24 6Y6I 1 REMARK REVDAT 1 31-MAR-21 6Y6I 0 JRNL AUTH Z.Y.ZHANG,G.ASHWORTH,Z.S.WANG,X.F.ZHU,C.J.DONG JRNL TITL STRUCTURAL INSIGHTS INTO THE LIPOPOLYSACCHARIDE OUTER CORE JRNL TITL 2 GALACTOSYLTRANSFERASE WAAB JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.92 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 1.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 73.85 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 36421 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) : 0.166 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1978 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) : 1.92 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.97 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2611 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.39 REMARK 3 BIN R VALUE (WORKING SET) : 0.2950 REMARK 3 BIN FREE R VALUE SET COUNT : 153 REMARK 3 BIN FREE R VALUE : 0.3230 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2849 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 326 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.61000 REMARK 3 B22 (A**2) : 2.61000 REMARK 3 B33 (A**2) : -5.22000 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): 0.207 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.124 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.100 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.067 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.946 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2950 ; 0.008 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 2708 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3994 ; 1.375 ; 1.646 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6291 ; 1.352 ; 1.579 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 357 ; 7.208 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 141 ;32.227 ;22.766 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 504 ;13.928 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;15.504 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 385 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3250 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 638 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 5658 ; 0.965 ; 3.000 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 : 1 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 0 A 357 REMARK 3 ORIGIN FOR THE GROUP (A): -26.5000 2.3210 -19.7490 REMARK 3 T TENSOR REMARK 3 T11: 0.0424 T22: 0.0084 REMARK 3 T33: 0.2281 T12: -0.0027 REMARK 3 T13: 0.0363 T23: -0.0065 REMARK 3 L TENSOR REMARK 3 L11: 0.0163 L22: 0.5446 REMARK 3 L33: 0.5915 L12: -0.0198 REMARK 3 L13: 0.0201 L23: 0.3891 REMARK 3 S TENSOR REMARK 3 S11: 0.0123 S12: 0.0072 S13: 0.0343 REMARK 3 S21: 0.0746 S22: -0.0430 S23: 0.0511 REMARK 3 S31: 0.0296 S32: -0.0096 S33: 0.0307 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 6Y6I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-FEB-20. REMARK 100 THE DEPOSITION ID IS D_1292106987. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-FEB-15 REMARK 200 TEMPERATURE (KELVIN) : 81 REMARK 200 PH : 7.0 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) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38400 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.920 REMARK 200 RESOLUTION RANGE LOW (A) : 73.850 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 23.40 REMARK 200 R MERGE (I) : 0.16000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.92 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.99 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 11.80 REMARK 200 R MERGE FOR SHELL (I) : 1.33000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL 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: 6Y6G REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1% TRYPTONE, 1MM SODIUM AZIDE, 0.05M REMARK 280 HEPES PH7.0 AND 20% W/V PEG 3350, VAPOR DIFFUSION, SITTING DROP, REMARK 280 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 44.82000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 52.22000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 52.22000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 67.23000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 52.22000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 52.22000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 22.41000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 52.22000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 52.22000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 67.23000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 52.22000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 52.22000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 22.41000 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 44.82000 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: 540 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15790 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 548 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 GLY A -1 REMARK 465 GLN A 358 REMARK 465 LYS A 359 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 LYS A 53 CG CD CE NZ REMARK 470 GLU A 84 CG CD OE1 OE2 REMARK 470 ARG A 177 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 188 CG CD 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 O HOH A 703 O HOH A 773 1.91 REMARK 500 SG CYS A 130 O HOH A 760 2.05 REMARK 500 O HOH A 533 O HOH A 793 2.19 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 719 O HOH A 719 7554 0.91 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 GLU A 28 34.36 -77.03 REMARK 500 ASN A 29 -53.51 -147.59 REMARK 500 SER A 30 -117.65 -7.05 REMARK 500 PRO A 32 78.50 -44.00 REMARK 500 LYS A 33 93.69 53.93 REMARK 500 TRP A 117 61.58 -153.79 REMARK 500 HIS A 127 45.76 -108.82 REMARK 500 TYR A 162 -145.60 56.80 REMARK 500 ASP A 178 -7.04 82.97 REMARK 500 GLU A 192 -123.09 -118.78 REMARK 500 LYS A 256 -45.10 78.72 REMARK 500 PHE A 270 118.78 -160.89 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 821 DISTANCE = 5.90 ANGSTROMS REMARK 525 HOH A 822 DISTANCE = 6.21 ANGSTROMS REMARK 525 HOH A 823 DISTANCE = 6.40 ANGSTROMS REMARK 525 HOH A 824 DISTANCE = 6.57 ANGSTROMS REMARK 525 HOH A 825 DISTANCE = 6.65 ANGSTROMS REMARK 525 HOH A 826 DISTANCE = 6.70 ANGSTROMS 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 401 DBREF 6Y6I A 1 359 UNP Q06994 RFAB_SALTY 1 359 SEQADV 6Y6I GLY A -1 UNP Q06994 EXPRESSION TAG SEQADV 6Y6I ALA A 0 UNP Q06994 EXPRESSION TAG SEQRES 1 A 361 GLY ALA MET LYS ILE ALA PHE ILE GLY GLU ALA VAL SER SEQRES 2 A 361 GLY PHE GLY GLY MET GLU THR VAL ILE SER ASN VAL ILE SEQRES 3 A 361 HIS THR PHE GLU ASN SER SER PRO LYS ILE ASN CYS GLU SEQRES 4 A 361 MET PHE PHE PHE CYS ARG ASN ASP LYS MET ASP LYS ALA SEQRES 5 A 361 TRP LEU LYS GLU ILE LYS TYR ALA GLN SER PHE SER ASN SEQRES 6 A 361 ILE LYS LEU SER PHE LEU ARG ARG ALA LYS HIS VAL TYR SEQRES 7 A 361 ASN PHE SER GLN TRP LEU LYS GLU THR SER PRO ASP ILE SEQRES 8 A 361 VAL ILE CYS ILE ASP VAL ILE SER CYS LEU TYR ALA ASN SEQRES 9 A 361 LYS ALA ARG LYS LYS SER GLY LYS HIS PHE THR ILE PHE SEQRES 10 A 361 SER TRP PRO HIS PHE SER LEU ASP HIS LYS LYS HIS ALA SEQRES 11 A 361 GLU CYS ILE THR TYR ALA ASP TYR HIS LEU ALA ILE SER SEQRES 12 A 361 SER GLY ILE LYS GLU GLN ILE MET ALA ARG GLY ILE SER SEQRES 13 A 361 ALA GLN ASP ILE SER VAL VAL TYR ASN PRO VAL SER ILE SEQRES 14 A 361 LYS THR VAL ILE VAL PRO PRO PRO GLU ARG ASP LYS PRO SEQRES 15 A 361 ALA VAL PHE LEU TYR VAL GLY ARG LEU LYS PHE GLU GLY SEQRES 16 A 361 GLN LYS ARG VAL LYS ASP LEU PHE ASP GLY LEU ALA ARG SEQRES 17 A 361 THR THR GLY GLU TRP GLN LEU HIS ILE ILE GLY ASP GLY SEQRES 18 A 361 SER ASP PHE GLU LYS CYS GLN ALA TYR SER ARG GLU LEU SEQRES 19 A 361 GLY ILE GLU GLN ARG VAL ILE TRP TYR GLY TRP GLN SER SEQRES 20 A 361 ALA PRO TRP GLN VAL VAL GLN GLN LYS ILE LYS ASN VAL SEQRES 21 A 361 THR ALA LEU LEU LEU THR SER ALA PHE GLU GLY PHE PRO SEQRES 22 A 361 MET THR LEU LEU GLU ALA MET SER TYR GLY ILE PRO CYS SEQRES 23 A 361 ILE SER SER ASP CYS MET SER GLY PRO ARG ASP MET ILE SEQRES 24 A 361 LYS PRO GLY LEU ASN GLY GLU LEU TYR THR PRO GLY ALA SEQRES 25 A 361 ILE ASP ASP PHE VAL GLY HIS LEU ASN ARG VAL ILE SER SEQRES 26 A 361 GLY GLU VAL LYS TYR GLN HIS ASP ILE ILE PRO GLY THR SEQRES 27 A 361 ILE GLU ARG PHE TYR ASP VAL LEU TYR PHE LYS ASN PHE SEQRES 28 A 361 ASN ASN ALA ILE PHE SER LYS LEU GLN LYS HET UDP A 401 25 HETNAM UDP URIDINE-5'-DIPHOSPHATE FORMUL 2 UDP C9 H14 N2 O12 P2 FORMUL 3 HOH *326(H2 O) HELIX 1 AA1 GLY A 14 GLU A 28 1 15 HELIX 2 AA2 LYS A 49 LYS A 53 5 5 HELIX 3 AA3 LEU A 66 SER A 86 1 21 HELIX 4 AA4 VAL A 95 GLY A 109 1 15 HELIX 5 AA5 SER A 121 LYS A 125 5 5 HELIX 6 AA6 HIS A 127 ALA A 134 5 8 HELIX 7 AA7 SER A 141 ALA A 150 1 10 HELIX 8 AA8 SER A 154 GLN A 156 5 3 HELIX 9 AA9 ARG A 196 ARG A 206 1 11 HELIX 10 AB1 ASP A 221 LEU A 232 1 12 HELIX 11 AB2 ILE A 234 GLN A 236 5 3 HELIX 12 AB3 ALA A 246 ILE A 255 1 10 HELIX 13 AB4 PRO A 271 TYR A 280 1 10 HELIX 14 AB5 GLY A 292 ILE A 297 1 6 HELIX 15 AB6 ALA A 310 GLY A 324 1 15 HELIX 16 AB7 ILE A 332 PHE A 340 5 9 HELIX 17 AB8 TYR A 341 SER A 355 1 15 SHEET 1 AA1 7 TYR A 57 PHE A 61 0 SHEET 2 AA1 7 ASN A 35 CYS A 42 1 N CYS A 42 O SER A 60 SHEET 3 AA1 7 LYS A 2 GLU A 8 1 N ILE A 3 O ASN A 35 SHEET 4 AA1 7 ILE A 89 CYS A 92 1 O ILE A 91 N ALA A 4 SHEET 5 AA1 7 THR A 113 SER A 116 1 O PHE A 115 N CYS A 92 SHEET 6 AA1 7 TYR A 136 ALA A 139 1 O TYR A 136 N SER A 116 SHEET 7 AA1 7 ILE A 158 VAL A 160 1 O SER A 159 N ALA A 139 SHEET 1 AA2 6 VAL A 238 TRP A 240 0 SHEET 2 AA2 6 TRP A 211 ILE A 216 1 N ILE A 215 O ILE A 239 SHEET 3 AA2 6 ALA A 181 VAL A 186 1 N PHE A 183 O GLN A 212 SHEET 4 AA2 6 ALA A 260 LEU A 263 1 O LEU A 262 N LEU A 184 SHEET 5 AA2 6 CYS A 284 SER A 287 1 O ILE A 285 N LEU A 261 SHEET 6 AA2 6 GLY A 303 TYR A 306 1 O GLU A 304 N SER A 286 CISPEP 1 MET A 290 SER A 291 0 -7.14 SITE 1 AC1 14 VAL A 186 GLY A 187 ARG A 188 LYS A 195 SITE 2 AC1 14 ILE A 216 GLY A 217 TRP A 243 GLN A 244 SITE 3 AC1 14 PRO A 247 THR A 273 GLU A 276 HOH A 543 SITE 4 AC1 14 HOH A 568 HOH A 706 CRYST1 104.440 104.440 89.640 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 0.009575 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009575 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011156 0.00000