HEADER HYDROLASE/HYDROLASE INHIBITOR 13-JUL-20 6XRO TITLE CRYSTAL STRUCTURE OF GLPG IN COMPLEX WITH PEPTIDE BORONATE INHIBITOR, TITLE 2 AC-KRFRSMQYSA-B(OH)2 CAVEAT 6XRO RESIDUES LEU A 200 AND SER A 201 THAT ARE NEXT TO EACH OTHER CAVEAT 2 6XRO IN THE SAMPLE SEQUENCE ARE NOT PROPERLY LINKED. COMPND MOL_ID: 1; COMPND 2 MOLECULE: RHOMBOID PROTEASE GLPG; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: INTRAMEMBRANE SERINE PROTEASE; COMPND 5 EC: 3.4.21.105; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: PEPTIDE BORONATE INHIBITOR; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: GLPG, SK83_00858; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: DROSOPHILA MELANOGASTER; SOURCE 10 ORGANISM_COMMON: FRUIT FLY; SOURCE 11 ORGANISM_TAXID: 7227 KEYWDS GLPG, RHOMBOID PROTEASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX, KEYWDS 2 MEMBRANE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.URBAN,S.CHO REVDAT 5 24-APR-24 6XRO 1 COMPND REMARK SEQRES SHEET REVDAT 5 2 1 LINK SITE ATOM REVDAT 4 15-NOV-23 6XRO 1 REMARK REVDAT 3 18-OCT-23 6XRO 1 REMARK REVDAT 2 02-DEC-20 6XRO 1 JRNL REVDAT 1 16-SEP-20 6XRO 0 JRNL AUTH S.GANDHI,R.P.BAKER,S.CHO,S.STANCHEV,K.STRISOVSKY,S.URBAN JRNL TITL DESIGNED PARASITE-SELECTIVE RHOMBOID INHIBITORS BLOCK JRNL TITL 2 INVASION AND CLEAR BLOOD-STAGE MALARIA. JRNL REF CELL CHEM BIOL V. 27 1410 2020 JRNL REFN ESSN 2451-9456 JRNL PMID 32888502 JRNL DOI 10.1016/J.CHEMBIOL.2020.08.011 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 1.10.1_2155 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.08 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.0 REMARK 3 NUMBER OF REFLECTIONS : 12665 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.810 REMARK 3 FREE R VALUE TEST SET COUNT : 609 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1484 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 48 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.04 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.230 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : NULL ; NULL REMARK 3 ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6XRO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-JUL-20. REMARK 100 THE DEPOSITION ID IS D_1000250632. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUL-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : F1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9718 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18403 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.030 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.03 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 67.8 REMARK 200 DATA REDUNDANCY IN SHELL : 1.90 REMARK 200 R MERGE FOR SHELL (I) : 0.71400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.840 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 2IC8 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: 0.1 M TRIS, PH 8.5, 3 M SODIUM REMARK 280 NITRATE, 15% GLYCEROL, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 55.85500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 32.24790 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 41.46000 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 55.85500 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 32.24790 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 41.46000 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 55.85500 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 32.24790 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 41.46000 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 55.85500 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 32.24790 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 41.46000 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 55.85500 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 32.24790 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 41.46000 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 55.85500 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 32.24790 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 41.46000 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 64.49580 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 82.92000 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 64.49580 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 82.92000 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 64.49580 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 82.92000 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 64.49580 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 82.92000 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 64.49580 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 82.92000 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 64.49580 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 82.92000 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: 1620 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -48.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 647 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 66 REMARK 465 GLY A 67 REMARK 465 SER A 68 REMARK 465 SER A 69 REMARK 465 HIS A 70 REMARK 465 HIS A 71 REMARK 465 HIS A 72 REMARK 465 HIS A 73 REMARK 465 HIS A 74 REMARK 465 HIS A 75 REMARK 465 SER A 76 REMARK 465 SER A 77 REMARK 465 GLY A 78 REMARK 465 LEU A 79 REMARK 465 VAL A 80 REMARK 465 PRO A 81 REMARK 465 ARG A 82 REMARK 465 GLY A 83 REMARK 465 SER A 84 REMARK 465 HIS A 85 REMARK 465 MET A 86 REMARK 465 ALA A 87 REMARK 465 ALA A 88 REMARK 465 LEU A 89 REMARK 465 ARG A 90 REMARK 465 ARG A 273 REMARK 465 LYS A 274 REMARK 465 ARG A 275 REMARK 465 LYS A 276 REMARK 465 LYS B 492 REMARK 465 ARG B 493 REMARK 465 PHE B 494 REMARK 465 ARG B 495 REMARK 465 SER B 496 REMARK 465 MET B 497 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 NE2 GLN A 190 O HOH A 601 1.99 REMARK 500 OG SER A 221 O HOH A 602 2.06 REMARK 500 OD1 ASP A 128 OG1 THR A 130 2.08 REMARK 500 OG SER A 201 O2 B2A B 501 2.12 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 LEU A 200 C SER A 201 N -0.197 REMARK 500 SER A 201 CB SER A 201 OG 0.207 REMARK 500 SER A 201 C GLY A 202 N 0.185 REMARK 500 HIS A 254 C ILE A 255 N 0.221 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 LEU A 200 CA - C - N ANGL. DEV. = 18.5 DEGREES REMARK 500 LEU A 200 O - C - N ANGL. DEV. = -17.8 DEGREES REMARK 500 SER A 201 C - N - CA ANGL. DEV. = 15.6 DEGREES REMARK 500 GLY A 202 C - N - CA ANGL. DEV. = -15.8 DEGREES REMARK 500 HIS A 254 O - C - N ANGL. DEV. = -13.5 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 92 -45.02 178.86 REMARK 500 ASP A 218 64.38 -118.20 REMARK 500 ARG A 227 -58.28 -26.93 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 647 DISTANCE = 7.95 ANGSTROMS 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 NA A 304 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 154 OD1 REMARK 620 2 HOH A 636 O 127.1 REMARK 620 3 B2A B 501 O1 80.9 131.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 303 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 607 O REMARK 620 2 HOH A 622 O 134.6 REMARK 620 3 HOH A 630 O 111.3 65.2 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue B2A B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 304 DBREF1 6XRO A 87 276 UNP A0A0J2E248_ECOLX DBREF2 6XRO A A0A0J2E248 87 276 DBREF 6XRO B 492 501 PDB 6XRO 6XRO 492 501 SEQADV 6XRO MET A 66 UNP A0A0J2E24 INITIATING METHIONINE SEQADV 6XRO GLY A 67 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO SER A 68 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO SER A 69 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO HIS A 70 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO HIS A 71 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO HIS A 72 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO HIS A 73 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO HIS A 74 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO HIS A 75 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO SER A 76 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO SER A 77 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO GLY A 78 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO LEU A 79 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO VAL A 80 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO PRO A 81 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO ARG A 82 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO GLY A 83 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO SER A 84 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO HIS A 85 UNP A0A0J2E24 EXPRESSION TAG SEQADV 6XRO MET A 86 UNP A0A0J2E24 EXPRESSION TAG SEQRES 1 A 211 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 211 LEU VAL PRO ARG GLY SER HIS MET ALA ALA LEU ARG GLU SEQRES 3 A 211 ARG ALA GLY PRO VAL THR TRP VAL MET MET ILE ALA CYS SEQRES 4 A 211 VAL VAL VAL PHE ILE ALA MET GLN ILE LEU GLY ASP GLN SEQRES 5 A 211 GLU VAL MET LEU TRP LEU ALA TRP PRO PHE ASP PRO THR SEQRES 6 A 211 LEU LYS PHE GLU PHE TRP ARG TYR PHE THR HIS ALA LEU SEQRES 7 A 211 MET HIS PHE SER LEU MET HIS ILE LEU PHE ASN LEU LEU SEQRES 8 A 211 TRP TRP TRP TYR LEU GLY GLY ALA VAL GLU LYS ARG LEU SEQRES 9 A 211 GLY SER GLY LYS LEU ILE VAL ILE THR LEU ILE SER ALA SEQRES 10 A 211 LEU LEU SER GLY TYR VAL GLN GLN LYS PHE SER GLY PRO SEQRES 11 A 211 TRP PHE GLY GLY LEU SER GLY VAL VAL TYR ALA LEU MET SEQRES 12 A 211 GLY TYR VAL TRP LEU ARG GLY GLU ARG ASP PRO GLN SER SEQRES 13 A 211 GLY ILE TYR LEU GLN ARG GLY LEU ILE ILE PHE ALA LEU SEQRES 14 A 211 ILE TRP ILE VAL ALA GLY TRP PHE ASP LEU PHE GLY MET SEQRES 15 A 211 SER MET ALA ASN GLY ALA HIS ILE ALA GLY LEU ALA VAL SEQRES 16 A 211 GLY LEU ALA MET ALA PHE VAL ASP SER LEU ASN ALA ARG SEQRES 17 A 211 LYS ARG LYS SEQRES 1 B 10 LYS ARG PHE ARG SER MET GLN TYR SER B2A HET B2A B 501 6 HET CL A 301 1 HET CL A 302 1 HET NA A 303 1 HET NA A 304 1 HETNAM B2A ALANINE BORONIC ACID HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION FORMUL 2 B2A C2 H8 B N O2 FORMUL 3 CL 2(CL 1-) FORMUL 5 NA 2(NA 1+) FORMUL 7 HOH *48(H2 O) HELIX 1 AA1 GLY A 94 GLY A 115 1 22 HELIX 2 AA2 GLY A 115 ALA A 124 1 10 HELIX 3 AA3 ASP A 128 LYS A 132 5 5 HELIX 4 AA4 TRP A 136 HIS A 141 1 6 HELIX 5 AA5 ALA A 142 MET A 144 5 3 HELIX 6 AA6 SER A 147 GLY A 170 1 24 HELIX 7 AA7 GLY A 170 GLY A 194 1 25 HELIX 8 AA8 LEU A 200 ASP A 218 1 19 HELIX 9 AA9 PRO A 219 GLY A 222 5 4 HELIX 10 AB1 GLN A 226 PHE A 242 1 17 HELIX 11 AB2 ALA A 250 ASN A 271 1 22 SHEET 1 AA1 2 PHE A 197 GLY A 198 0 SHEET 2 AA1 2 TYR B 499 SER B 500 1 O TYR B 499 N GLY A 198 LINK OG SER A 201 B B2A B 501 1555 1555 1.41 LINK C SER B 500 N B2A B 501 1555 1555 1.91 LINK OD1 ASN A 154 NA NA A 304 1555 1555 3.13 LINK NA NA A 303 O HOH A 607 1555 1555 3.10 LINK NA NA A 303 O HOH A 622 1555 1555 2.44 LINK NA NA A 303 O HOH A 630 1555 1555 3.05 LINK NA NA A 304 O HOH A 636 1555 1555 2.88 LINK NA NA A 304 O1 B2A B 501 1555 1555 3.11 SITE 1 AC1 12 GLY A 198 GLY A 199 LEU A 200 SER A 201 SITE 2 AC1 12 GLY A 202 ALA A 250 ALA A 253 HIS A 254 SITE 3 AC1 12 NA A 303 NA A 304 HOH A 623 SER B 500 SITE 1 AC2 3 GLN A 189 SER A 193 ASN A 251 SITE 1 AC3 5 ARG A 92 ALA A 93 TRP A 159 GLN A 226 SITE 2 AC3 5 GLY A 228 SITE 1 AC4 6 SER A 201 MET A 249 HIS A 254 B2A B 501 SITE 2 AC4 6 HOH A 622 HOH A 630 SITE 1 AC5 4 HIS A 150 ASN A 154 B2A B 501 HOH A 636 CRYST1 111.710 111.710 124.380 90.00 90.00 120.00 H 3 2 18 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 0.008952 0.005168 0.000000 0.00000 SCALE2 0.000000 0.010337 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008040 0.00000