HEADER IMMUNE SYSTEM 04-APR-18 5ZMJ TITLE CRYSTAL STRUCTURE OF THE FAB REGION OF A NEUTRALIZING FULLY HUMAN TITLE 2 ANTIBODY AGAINST GM-CSF COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEAVY CHAIN OF A FAB FRACTION OF HUMAN IGG; COMPND 3 CHAIN: H; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: P01857 (UNIPROT) IS REFERRED.; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: LIGHT CHAIN OF A FAB FRACTION OF HUMAN IGG; COMPND 8 CHAIN: L; COMPND 9 ENGINEERED: YES; COMPND 10 OTHER_DETAILS: P0DOY2(UNIPROT) IS REFERRED. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_TAXID: 9606; SOURCE 4 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 10029; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 10029 KEYWDS FAB, FULLY HUMAN ANTIBODY, GM-CSF, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR C.ANGKAWIDJAJA,T.TORASHIMA REVDAT 3 22-NOV-23 5ZMJ 1 LINK REVDAT 2 16-OCT-19 5ZMJ 1 JRNL REVDAT 1 17-APR-19 5ZMJ 0 JRNL AUTH C.ANGKAWIDJAJA,T.TORASHIMA JRNL TITL CRYSTAL STRUCTURE OF THE FAB REGION OF A NEUTRALIZING JRNL TITL 2 ANTIBODY AGAINST GRANULOCYTE-MACROPHAGE COLONY-STIMULATING JRNL TITL 3 FACTOR. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 75 634 2019 JRNL REFN ESSN 2053-230X JRNL PMID 31584011 JRNL DOI 10.1107/S2053230X1901238X REMARK 2 REMARK 2 RESOLUTION. 1.81 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 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) : 1.81 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.37 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 43716 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) : 0.163 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.191 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2270 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) : 1.81 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.86 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3133 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.22 REMARK 3 BIN R VALUE (WORKING SET) : 0.1670 REMARK 3 BIN FREE R VALUE SET COUNT : 154 REMARK 3 BIN FREE R VALUE : 0.2000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3301 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 34 REMARK 3 SOLVENT ATOMS : 480 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.53 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.110 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.105 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.063 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.006 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.947 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3435 ; 0.005 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 3041 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4695 ; 0.796 ; 1.958 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7108 ; 0.523 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 444 ; 8.642 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 126 ;35.030 ;23.730 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 521 ;13.403 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;14.095 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 526 ; 0.063 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3809 ; 0.019 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 690 ; 0.002 ; 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): 1758 ; 2.781 ; 1.700 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1757 ; 2.776 ; 1.699 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2196 ; 3.462 ; 2.540 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2197 ; 3.463 ; 2.541 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1677 ; 4.597 ; 2.069 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1678 ; 4.595 ; 2.069 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2496 ; 6.255 ; 2.936 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3842 ; 7.424 ;21.658 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3843 ; 7.423 ;21.665 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 5ZMJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-APR-18. REMARK 100 THE DEPOSITION ID IS D_1300007349. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-DEC-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL38B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : POINTLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 43756 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.810 REMARK 200 RESOLUTION RANGE LOW (A) : 46.370 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 200 DATA REDUNDANCY : 13.80 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 27.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.81 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.85 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.17100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: MOLREP REMARK 200 STARTING MODEL: 4EOW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M POTASSIUM SODIUM TARTRATE REMARK 280 TETRAHYDRATE, 0.1M SODIUM CITRATE TRIBASIC DIHYDRATE PH 5.6, REMARK 280 2.0M AMMONIUM SULFATE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 29.56000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 64.52000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.34500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 64.52000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.56000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.34500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: 5800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19130 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -131.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: H, L 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 H -18 REMARK 465 ASP H -17 REMARK 465 TRP H -16 REMARK 465 THR H -15 REMARK 465 TRP H -14 REMARK 465 ARG H -13 REMARK 465 ILE H -12 REMARK 465 LEU H -11 REMARK 465 PHE H -10 REMARK 465 LEU H -9 REMARK 465 VAL H -8 REMARK 465 ALA H -7 REMARK 465 ALA H -6 REMARK 465 ALA H -5 REMARK 465 THR H -4 REMARK 465 GLY H -3 REMARK 465 ALA H -2 REMARK 465 PRO H -1 REMARK 465 SER H 0 REMARK 465 LYS H 228 REMARK 465 SER H 229 REMARK 465 MET L -18 REMARK 465 ALA L -17 REMARK 465 GLY L -16 REMARK 465 PHE L -15 REMARK 465 PRO L -14 REMARK 465 LEU L -13 REMARK 465 LEU L -12 REMARK 465 LEU L -11 REMARK 465 THR L -10 REMARK 465 LEU L -9 REMARK 465 LEU L -8 REMARK 465 THR L -7 REMARK 465 HIS L -6 REMARK 465 CYS L -5 REMARK 465 ALA L -4 REMARK 465 GLY L -3 REMARK 465 SER L -2 REMARK 465 TRP L -1 REMARK 465 ALA L 0 REMARK 465 GLN L 1 REMARK 465 THR L 213 REMARK 465 GLU L 214 REMARK 465 CYS L 215 REMARK 465 SER L 216 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 L 404 O HOH L 599 1.90 REMARK 500 O HOH L 599 O HOH L 611 1.94 REMARK 500 O HOH L 505 O HOH L 603 2.05 REMARK 500 O HOH H 568 O HOH H 598 2.10 REMARK 500 OE1 GLU H 162 O HOH H 401 2.10 REMARK 500 O HOH L 524 O HOH L 595 2.14 REMARK 500 OD1 ASN L 132 O HOH L 401 2.18 REMARK 500 O HOH H 402 O HOH H 449 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 H 579 O HOH L 583 3755 1.96 REMARK 500 O HOH H 402 O HOH H 553 3755 2.11 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 THR H 65 -131.96 -98.61 REMARK 500 THR H 205 -4.76 -148.50 REMARK 500 ASN L 28 -82.72 -126.03 REMARK 500 ASN L 52 -49.59 77.53 REMARK 500 ASN L 53 11.30 -145.82 REMARK 500 ASP L 69 -103.95 54.57 REMARK 500 GLU L 202 -118.60 43.58 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 NA L 306 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH H 512 O REMARK 620 2 HOH H 536 O 105.4 REMARK 620 3 HOH H 591 O 150.1 78.5 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 SO4 H 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA H 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA H 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 L 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 L 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 L 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 L 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 L 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA L 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA L 307 DBREF 5ZMJ H -18 229 PDB 5ZMJ 5ZMJ -18 229 DBREF 5ZMJ L -18 216 PDB 5ZMJ 5ZMJ -18 216 SEQRES 1 H 248 MET ASP TRP THR TRP ARG ILE LEU PHE LEU VAL ALA ALA SEQRES 2 H 248 ALA THR GLY ALA PRO SER GLN VAL HIS LEU VAL GLN SER SEQRES 3 H 248 GLY SER GLU LEU LYS LYS PRO GLY ALA SER VAL LYS VAL SEQRES 4 H 248 SER CYS LYS ALA SER GLY TYR SER PHE SER ARG TYR GLY SEQRES 5 H 248 ILE LYS TRP VAL ARG GLN ALA PRO GLY GLN GLY LEU GLU SEQRES 6 H 248 TRP MET GLY TRP ILE ASN THR ARG SER GLY VAL PRO ALA SEQRES 7 H 248 TYR ALA GLN GLY PHE THR GLY ARG PHE VAL PHE SER LEU SEQRES 8 H 248 ASP THR SER VAL ASP THR ALA PHE LEU GLU ILE SER SER SEQRES 9 H 248 LEU LYS THR GLU ASP THR GLY ILE TYR TYR CYS ALA THR SEQRES 10 H 248 ARG PRO PRO ARG PHE TYR ASP LYS THR GLU TYR TRP GLU SEQRES 11 H 248 ASP GLY PHE ASP VAL TRP GLY ARG GLY THR LEU VAL THR SEQRES 12 H 248 VAL SER SER ALA SER THR LYS GLY PRO SER VAL PHE PRO SEQRES 13 H 248 LEU ALA PRO SER SER LYS SER THR SER GLY GLY THR ALA SEQRES 14 H 248 ALA LEU GLY CYS LEU VAL LYS ASP TYR PHE PRO GLU PRO SEQRES 15 H 248 VAL THR VAL SER TRP ASN SER GLY ALA LEU THR SER GLY SEQRES 16 H 248 VAL HIS THR PHE PRO ALA VAL LEU GLN SER SER GLY LEU SEQRES 17 H 248 TYR SER LEU SER SER VAL VAL THR VAL PRO SER SER SER SEQRES 18 H 248 LEU GLY THR GLN THR TYR ILE CYS ASN VAL ASN HIS LYS SEQRES 19 H 248 PRO SER ASN THR LYS VAL ASP LYS ARG VAL GLU PRO LYS SEQRES 20 H 248 SER SEQRES 1 L 235 MET ALA GLY PHE PRO LEU LEU LEU THR LEU LEU THR HIS SEQRES 2 L 235 CYS ALA GLY SER TRP ALA GLN SER VAL LEU THR GLN PRO SEQRES 3 L 235 PRO SER ALA SER GLY THR PRO GLY GLN SER VAL ASN ILE SEQRES 4 L 235 SER CYS SER GLY SER SER SER ASN ILE GLY ASN SER TYR SEQRES 5 L 235 VAL TYR TRP TYR GLN GLN LEU PRO GLY THR ALA PRO LYS SEQRES 6 L 235 LEU LEU ILE TYR ARG ASN ASN ARG ARG PRO SER GLY VAL SEQRES 7 L 235 PRO ASP ARG PHE SER GLY SER LYS SER ASP THR SER ALA SEQRES 8 L 235 SER LEU ALA ILE SER GLY LEU ARG SER GLU ASP GLU ALA SEQRES 9 L 235 ASP TYR TYR CYS ALA THR TRP ASP ASP SER LEU SER GLY SEQRES 10 L 235 ARG LEU PHE GLY GLY GLY THR LYS LEU THR VAL LEU GLY SEQRES 11 L 235 GLN PRO LYS ALA ALA PRO SER VAL THR LEU PHE PRO PRO SEQRES 12 L 235 SER SER GLU GLU LEU GLN ALA ASN LYS ALA THR LEU VAL SEQRES 13 L 235 CYS LEU ILE SER ASP PHE TYR PRO GLY ALA VAL THR VAL SEQRES 14 L 235 ALA TRP LYS ALA ASP SER SER PRO VAL LYS ALA GLY VAL SEQRES 15 L 235 GLU THR THR THR PRO SER LYS GLN SER ASN ASN LYS TYR SEQRES 16 L 235 ALA ALA SER SER TYR LEU SER LEU THR PRO GLU GLN TRP SEQRES 17 L 235 LYS SER HIS ARG SER TYR SER CYS GLN VAL THR HIS GLU SEQRES 18 L 235 GLY SER THR VAL GLU LYS THR VAL ALA PRO THR GLU CYS SEQRES 19 L 235 SER HET SO4 H 301 5 HET NA H 302 1 HET NA H 303 1 HET SO4 L 301 5 HET SO4 L 302 5 HET SO4 L 303 5 HET SO4 L 304 5 HET SO4 L 305 5 HET NA L 306 1 HET NA L 307 1 HETNAM SO4 SULFATE ION HETNAM NA SODIUM ION FORMUL 3 SO4 6(O4 S 2-) FORMUL 4 NA 4(NA 1+) FORMUL 13 HOH *480(H2 O) HELIX 1 AA1 SER H 28 TYR H 32 5 5 HELIX 2 AA2 THR H 74 VAL H 76 5 3 HELIX 3 AA3 LYS H 87 THR H 91 5 5 HELIX 4 AA4 GLU H 111 ASP H 115 5 5 HELIX 5 AA5 SER H 170 ALA H 172 5 3 HELIX 6 AA6 SER H 201 LEU H 203 5 3 HELIX 7 AA7 LYS H 215 ASN H 218 5 4 HELIX 8 AA8 ASN L 28 SER L 32 5 5 HELIX 9 AA9 ARG L 80 GLU L 84 5 5 HELIX 10 AB1 SER L 125 ALA L 131 1 7 HELIX 11 AB2 THR L 185 HIS L 192 1 8 SHEET 1 AA1 4 LEU H 4 GLN H 6 0 SHEET 2 AA1 4 VAL H 18 ALA H 24 -1 O LYS H 23 N VAL H 5 SHEET 3 AA1 4 THR H 78 ILE H 83 -1 O LEU H 81 N VAL H 20 SHEET 4 AA1 4 PHE H 68 ASP H 73 -1 N VAL H 69 O GLU H 82 SHEET 1 AA2 6 GLU H 10 LYS H 12 0 SHEET 2 AA2 6 THR H 121 VAL H 125 1 O THR H 124 N LYS H 12 SHEET 3 AA2 6 GLY H 92 ARG H 99 -1 N GLY H 92 O VAL H 123 SHEET 4 AA2 6 GLY H 33 GLN H 39 -1 N LYS H 35 O ALA H 97 SHEET 5 AA2 6 LEU H 45 ILE H 51 -1 O MET H 48 N TRP H 36 SHEET 6 AA2 6 PRO H 58 TYR H 60 -1 O ALA H 59 N TRP H 50 SHEET 1 AA3 4 SER H 134 SER H 141 0 SHEET 2 AA3 4 THR H 149 TYR H 159 -1 O LYS H 157 N SER H 134 SHEET 3 AA3 4 TYR H 190 PRO H 199 -1 O LEU H 192 N VAL H 156 SHEET 4 AA3 4 VAL H 177 THR H 179 -1 N HIS H 178 O VAL H 195 SHEET 1 AA4 4 SER H 134 SER H 141 0 SHEET 2 AA4 4 THR H 149 TYR H 159 -1 O LYS H 157 N SER H 134 SHEET 3 AA4 4 TYR H 190 PRO H 199 -1 O LEU H 192 N VAL H 156 SHEET 4 AA4 4 VAL H 183 LEU H 184 -1 N VAL H 183 O SER H 191 SHEET 1 AA5 3 THR H 165 TRP H 168 0 SHEET 2 AA5 3 ILE H 209 HIS H 214 -1 O ASN H 211 N SER H 167 SHEET 3 AA5 3 THR H 219 ARG H 224 -1 O VAL H 221 N VAL H 212 SHEET 1 AA6 5 SER L 9 GLY L 12 0 SHEET 2 AA6 5 THR L 105 VAL L 109 1 O LYS L 106 N ALA L 10 SHEET 3 AA6 5 ASP L 86 ASP L 93 -1 N TYR L 87 O THR L 105 SHEET 4 AA6 5 TYR L 35 GLN L 39 -1 N GLN L 39 O ASP L 86 SHEET 5 AA6 5 LYS L 46 ILE L 49 -1 O LEU L 48 N TRP L 36 SHEET 1 AA7 4 SER L 9 GLY L 12 0 SHEET 2 AA7 4 THR L 105 VAL L 109 1 O LYS L 106 N ALA L 10 SHEET 3 AA7 4 ASP L 86 ASP L 93 -1 N TYR L 87 O THR L 105 SHEET 4 AA7 4 GLY L 98 PHE L 101 -1 O GLY L 98 N ASP L 93 SHEET 1 AA8 3 VAL L 18 SER L 23 0 SHEET 2 AA8 3 SER L 71 ILE L 76 -1 O LEU L 74 N ILE L 20 SHEET 3 AA8 3 PHE L 63 SER L 68 -1 N SER L 64 O ALA L 75 SHEET 1 AA9 4 SER L 118 PHE L 122 0 SHEET 2 AA9 4 ALA L 134 PHE L 143 -1 O LEU L 139 N THR L 120 SHEET 3 AA9 4 TYR L 176 LEU L 184 -1 O SER L 180 N CYS L 138 SHEET 4 AA9 4 VAL L 163 THR L 165 -1 N GLU L 164 O TYR L 181 SHEET 1 AB1 4 SER L 118 PHE L 122 0 SHEET 2 AB1 4 ALA L 134 PHE L 143 -1 O LEU L 139 N THR L 120 SHEET 3 AB1 4 TYR L 176 LEU L 184 -1 O SER L 180 N CYS L 138 SHEET 4 AB1 4 SER L 169 LYS L 170 -1 N SER L 169 O ALA L 177 SHEET 1 AB2 4 SER L 157 VAL L 159 0 SHEET 2 AB2 4 THR L 149 ALA L 154 -1 N ALA L 154 O SER L 157 SHEET 3 AB2 4 TYR L 195 HIS L 201 -1 O GLN L 198 N ALA L 151 SHEET 4 AB2 4 SER L 204 VAL L 210 -1 O SER L 204 N HIS L 201 SSBOND 1 CYS H 22 CYS H 96 1555 1555 2.04 SSBOND 2 CYS H 154 CYS H 210 1555 1555 2.04 SSBOND 3 CYS L 22 CYS L 89 1555 1555 2.05 SSBOND 4 CYS L 138 CYS L 197 1555 1555 2.03 LINK NA NA H 302 O HOH H 523 1555 1555 3.18 LINK NA NA H 303 O HOH H 499 1555 1555 3.11 LINK O HOH H 512 NA NA L 306 1555 1555 3.08 LINK O HOH H 536 NA NA L 306 1555 1555 2.95 LINK O HOH H 591 NA NA L 306 1555 1555 2.94 LINK NA NA L 307 O HOH L 484 1555 1555 3.12 CISPEP 1 PHE H 160 PRO H 161 0 -13.02 CISPEP 2 GLU H 162 PRO H 163 0 4.20 CISPEP 3 TYR L 144 PRO L 145 0 13.94 SITE 1 AC1 3 ARG H 67 LYS H 87 HOH H 403 SITE 1 AC2 3 TRP H 47 ARG H 99 ARG L 99 SITE 1 AC3 2 THR H 74 LYS L 170 SITE 1 AC4 4 VAL L 159 LYS L 160 ALA L 161 HOH L 406 SITE 1 AC5 8 THR L 108 TYR L 144 LYS L 170 TYR L 176 SITE 2 AC5 8 HOH L 426 HOH L 437 HOH L 443 HOH L 513 SITE 1 AC6 4 ALA L 161 GLY L 162 HOH L 427 HOH L 483 SITE 1 AC7 8 HIS H 178 HOH H 494 HOH H 526 GLN L 171 SITE 2 AC7 8 SER L 172 HOH L 436 HOH L 455 HOH L 462 SITE 1 AC8 3 ARG L 55 SER L 64 HOH L 452 SITE 1 AC9 6 ARG H 54 HOH H 512 HOH H 536 HOH H 591 SITE 2 AC9 6 THR L 166 THR L 167 SITE 1 AD1 2 PHE H 103 TYR L 33 CRYST1 59.120 66.690 129.040 90.00 90.00 90.00 P 21 21 21 4 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 0.016915 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014995 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007750 0.00000