HEADER IMMUNE SYSTEM 09-JUL-13 4LKX TITLE HUMANIZED ANTIBODY 4B12 FAB COMPLEXED WITH A CEMX SEGMENT COMPND MOL_ID: 1; COMPND 2 MOLECULE: FAB FRAGMENT HEAVY CHAIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: FAB FRAGMENT LIGHT CHAIN; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: CEMX SEGMENT; COMPND 11 CHAIN: R; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 9 ORGANISM_COMMON: HUMAN; SOURCE 10 ORGANISM_TAXID: 9606; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES; SOURCE 15 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 16 ORGANISM_COMMON: HUMAN; SOURCE 17 ORGANISM_TAXID: 9606; SOURCE 18 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED. KEYWDS IMMUNOGLOBULIN, ANTIBODY, FAB-PEPTIDE COMPLEX, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR H.M.CHU,J.WRIGHT,Y.H.CHAN,C.J.LIN,T.W.CHANG,C.LIM REVDAT 4 20-NOV-24 4LKX 1 REMARK REVDAT 3 08-NOV-23 4LKX 1 REMARK REVDAT 2 17-JUN-15 4LKX 1 JRNL REVDAT 1 29-JAN-14 4LKX 0 JRNL AUTH H.M.CHU,J.WRIGHT,Y.H.CHAN,C.J.LIN,T.W.CHANG,C.LIM JRNL TITL TWO POTENTIAL THERAPEUTIC ANTIBODIES BIND TO A PEPTIDE JRNL TITL 2 SEGMENT OF MEMBRANE-BOUND IGE IN DIFFERENT CONFORMATIONS. JRNL REF NAT COMMUN V. 5 3139 2014 JRNL REFN ESSN 2041-1723 JRNL PMID 24457896 JRNL DOI 10.1038/NCOMMS4139 REMARK 2 REMARK 2 RESOLUTION. 1.92 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.36 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 36692 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) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1934 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) : 2365 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.81 REMARK 3 BIN R VALUE (WORKING SET) : 0.2440 REMARK 3 BIN FREE R VALUE SET COUNT : 119 REMARK 3 BIN FREE R VALUE : 0.3140 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3368 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 261 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.44 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.41000 REMARK 3 B22 (A**2) : 3.65000 REMARK 3 B33 (A**2) : -2.24000 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): 0.142 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.141 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.105 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.696 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3440 ; 0.011 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4669 ; 1.301 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 434 ; 8.497 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 129 ;34.282 ;24.419 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 548 ;18.358 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;22.893 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 532 ; 0.126 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2550 ; 0.021 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 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): 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 : MASK 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 USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4LKX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-JUL-13. REMARK 100 THE DEPOSITION ID IS D_1000080758. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-OCT-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSRRC REMARK 200 BEAMLINE : BL13C1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97622 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38689 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.920 REMARK 200 RESOLUTION RANGE LOW (A) : 28.360 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.09400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 29.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: 2JIX, 3AAZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM ACETATE TRIHYDRATE, 25% REMARK 280 PEG 4000, 0.2M AMMONIUM SULFATE, PH 4.6, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 289K 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 21.02250 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.10750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 53.57800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.10750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.02250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 53.57800 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, R 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 SER A 127 REMARK 465 SER A 128 REMARK 465 LYS A 129 REMARK 465 SER A 130 REMARK 465 THR A 131 REMARK 465 CYS A 216 REMARK 465 ASP A 217 REMARK 465 LYS A 218 REMARK 465 THR A 219 REMARK 465 HIS A 220 REMARK 465 THR A 221 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 OE2 GLU A 16 O HOH A 371 1.84 REMARK 500 O LEU R 2 O HOH R 116 2.00 REMARK 500 O GLY B 200 O HOH B 350 2.02 REMARK 500 NH2 ARG B 108 O HOH B 423 2.04 REMARK 500 O HOH B 415 O HOH B 440 2.19 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 TRP A 35 C ASN A 35A N 0.179 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 TRP A 35 CA - C - N ANGL. DEV. = -14.3 DEGREES REMARK 500 ARG A 66 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 66 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 VAL B 27C CA - C - N ANGL. DEV. = 13.6 DEGREES REMARK 500 VAL B 27C O - C - N ANGL. DEV. = -15.2 DEGREES REMARK 500 HIS B 27D O - C - N ANGL. DEV. = -9.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 SER A 15 -17.17 79.71 REMARK 500 TYR A 27 140.85 -170.14 REMARK 500 ASP A 32 168.88 173.80 REMARK 500 TYR A 33 169.98 81.95 REMARK 500 VAL B 51 -48.56 74.45 REMARK 500 ASN B 138 61.12 67.97 REMARK 500 LYS B 169 -64.22 -98.82 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LEU A 189 GLY A 190 34.63 REMARK 500 GLY B 200 LEU B 201 -144.69 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 66 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 TRP A 35 11.84 REMARK 500 SER B 27A -11.83 REMARK 500 ILE B 27B -10.73 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN R OF CEMX SEGMENT DBREF 4LKX A 1 221 PDB 4LKX 4LKX 1 221 DBREF 4LKX B 1 214 PDB 4LKX 4LKX 1 214 DBREF 4LKX R 2 15 PDB 4LKX 4LKX 2 15 SEQRES 1 A 225 GLN VAL GLN LEU GLN GLU SER GLY PRO GLY LEU VAL LYS SEQRES 2 A 225 PRO SER GLU THR LEU SER LEU THR CYS THR VAL SER GLY SEQRES 3 A 225 TYR SER ILE THR SER ASP TYR ALA TRP ASN TRP ILE ARG SEQRES 4 A 225 GLN PRO PRO GLY LYS GLY LEU GLU TRP ILE GLY SER ILE SEQRES 5 A 225 SER TYR SER GLY ILE THR GLY TYR ASN PRO SER LEU LYS SEQRES 6 A 225 SER ARG VAL THR ILE SER ARG ASP THR SER LYS ASN GLN SEQRES 7 A 225 PHE SER LEU LYS LEU SER SER VAL THR ALA ALA ASP THR SEQRES 8 A 225 ALA VAL TYR TYR CYS ALA ARG MET GLY TYR ASP GLY LEU SEQRES 9 A 225 ALA TYR TRP GLY GLN GLY THR LEU VAL THR VAL SER SER SEQRES 10 A 225 ALA SER THR LYS GLY PRO SER VAL PHE PRO LEU ALA PRO SEQRES 11 A 225 SER SER LYS SER THR SER GLY GLY THR ALA ALA LEU GLY SEQRES 12 A 225 CYS LEU VAL LYS ASP TYR PHE PRO GLU PRO VAL THR VAL SEQRES 13 A 225 SER TRP ASN SER GLY ALA LEU THR SER GLY VAL HIS THR SEQRES 14 A 225 PHE PRO ALA VAL LEU GLN SER SER GLY LEU TYR SER LEU SEQRES 15 A 225 SER SER VAL VAL THR VAL PRO SER SER SER LEU GLY THR SEQRES 16 A 225 GLN THR TYR ILE CYS ASN VAL ASN HIS LYS PRO SER ASN SEQRES 17 A 225 THR LYS VAL ASP LYS LYS ALA GLU PRO LYS SER CYS ASP SEQRES 18 A 225 LYS THR HIS THR SEQRES 1 B 219 ASP ILE VAL MET THR GLN THR PRO LEU SER LEU SER VAL SEQRES 2 B 219 THR PRO GLY GLN PRO ALA SER ILE SER CYS ARG SER SER SEQRES 3 B 219 GLN SER ILE VAL HIS SER ASN GLY ASN THR TYR LEU GLU SEQRES 4 B 219 TRP TYR LEU GLN LYS PRO GLY GLN SER PRO GLN LEU LEU SEQRES 5 B 219 ILE TYR LYS VAL SER ASN ARG PHE SER GLY VAL PRO ASP SEQRES 6 B 219 ARG PHE SER GLY SER GLY SER GLY THR ASP PHE THR LEU SEQRES 7 B 219 LYS ILE SER ARG VAL GLU ALA GLU ASP VAL GLY VAL TYR SEQRES 8 B 219 TYR CYS PHE GLN GLY SER HIS VAL PRO PRO THR PHE GLY SEQRES 9 B 219 GLY GLY THR LYS VAL GLU ILE LYS ARG THR VAL ALA ALA SEQRES 10 B 219 PRO SER VAL PHE ILE PHE PRO PRO SER ASP GLU GLN LEU SEQRES 11 B 219 LYS SER GLY THR ALA SER VAL VAL CYS LEU LEU ASN ASN SEQRES 12 B 219 PHE TYR PRO ARG GLU ALA LYS VAL GLN TRP LYS VAL ASP SEQRES 13 B 219 ASN ALA LEU GLN SER GLY ASN SER GLN GLU SER VAL THR SEQRES 14 B 219 GLU GLN ASP SER LYS ASP SER THR TYR SER LEU SER SER SEQRES 15 B 219 THR LEU THR LEU SER LYS ALA ASP TYR GLU LYS HIS LYS SEQRES 16 B 219 VAL TYR ALA CYS GLU VAL THR HIS GLN GLY LEU SER SER SEQRES 17 B 219 PRO VAL THR LYS SER PHE ASN ARG GLY GLU CYS SEQRES 1 R 14 LEU ALA GLY GLY SER ALA GLN SER GLN ARG ALA PRO ASP SEQRES 2 R 14 ARG FORMUL 4 HOH *261(H2 O) HELIX 1 1 LEU A 63 SER A 65 5 3 HELIX 2 2 THR A 73 LYS A 75 5 3 HELIX 3 3 THR A 83 THR A 87 5 5 HELIX 4 4 SER A 156 ALA A 158 5 3 HELIX 5 5 SER A 187 GLY A 190 5 4 HELIX 6 6 LYS A 201 ASN A 204 5 4 HELIX 7 7 GLU B 79 VAL B 83 5 5 HELIX 8 8 SER B 121 SER B 127 1 7 HELIX 9 9 LYS B 183 HIS B 189 1 7 HELIX 10 10 GLY R 5 SER R 9 5 5 SHEET 1 A 4 GLN A 3 GLU A 6 0 SHEET 2 A 4 LEU A 18 SER A 25 -1 O THR A 23 N GLN A 5 SHEET 3 A 4 GLN A 77 LEU A 82 -1 O PHE A 78 N CYS A 22 SHEET 4 A 4 VAL A 67 ASP A 72 -1 N ASP A 72 O GLN A 77 SHEET 1 B 6 GLY A 10 VAL A 12 0 SHEET 2 B 6 THR A 107 VAL A 111 1 O THR A 110 N GLY A 10 SHEET 3 B 6 ALA A 88 GLY A 96 -1 N TYR A 90 O THR A 107 SHEET 4 B 6 ALA A 34 GLN A 39 -1 N ASN A 35A O ALA A 93 SHEET 5 B 6 GLU A 46 SER A 52 -1 O ILE A 51 N TRP A 35 SHEET 6 B 6 THR A 57 TYR A 59 -1 O GLY A 58 N SER A 50 SHEET 1 C 4 GLY A 10 VAL A 12 0 SHEET 2 C 4 THR A 107 VAL A 111 1 O THR A 110 N GLY A 10 SHEET 3 C 4 ALA A 88 GLY A 96 -1 N TYR A 90 O THR A 107 SHEET 4 C 4 GLY A 99 TRP A 103 -1 O TYR A 102 N ARG A 94 SHEET 1 D 4 SER A 120 LEU A 124 0 SHEET 2 D 4 THR A 135 TYR A 145 -1 O LYS A 143 N SER A 120 SHEET 3 D 4 TYR A 176 PRO A 185 -1 O LEU A 178 N VAL A 142 SHEET 4 D 4 VAL A 163 THR A 165 -1 N HIS A 164 O VAL A 181 SHEET 1 E 4 SER A 120 LEU A 124 0 SHEET 2 E 4 THR A 135 TYR A 145 -1 O LYS A 143 N SER A 120 SHEET 3 E 4 TYR A 176 PRO A 185 -1 O LEU A 178 N VAL A 142 SHEET 4 E 4 VAL A 169 LEU A 170 -1 N VAL A 169 O SER A 177 SHEET 1 F 3 THR A 151 TRP A 154 0 SHEET 2 F 3 ILE A 195 HIS A 200 -1 O ASN A 197 N SER A 153 SHEET 3 F 3 THR A 205 LYS A 210 -1 O THR A 205 N HIS A 200 SHEET 1 G 4 MET B 4 THR B 7 0 SHEET 2 G 4 ALA B 19 SER B 25 -1 O SER B 22 N THR B 7 SHEET 3 G 4 ASP B 70 ILE B 75 -1 O LEU B 73 N ILE B 21 SHEET 4 G 4 PHE B 62 SER B 67 -1 N SER B 63 O LYS B 74 SHEET 1 H 6 SER B 10 VAL B 13 0 SHEET 2 H 6 THR B 102 ILE B 106 1 O GLU B 105 N LEU B 11 SHEET 3 H 6 GLY B 84 GLN B 90 -1 N GLY B 84 O VAL B 104 SHEET 4 H 6 LEU B 33 GLN B 38 -1 N GLN B 38 O VAL B 85 SHEET 5 H 6 GLN B 45 TYR B 49 -1 O LEU B 47 N TRP B 35 SHEET 6 H 6 ASN B 53 ARG B 54 -1 O ASN B 53 N TYR B 49 SHEET 1 I 4 SER B 10 VAL B 13 0 SHEET 2 I 4 THR B 102 ILE B 106 1 O GLU B 105 N LEU B 11 SHEET 3 I 4 GLY B 84 GLN B 90 -1 N GLY B 84 O VAL B 104 SHEET 4 I 4 THR B 97 PHE B 98 -1 O THR B 97 N GLN B 90 SHEET 1 J 4 SER B 114 PHE B 118 0 SHEET 2 J 4 THR B 129 PHE B 139 -1 O VAL B 133 N PHE B 118 SHEET 3 J 4 TYR B 173 SER B 182 -1 O LEU B 175 N LEU B 136 SHEET 4 J 4 SER B 159 VAL B 163 -1 N GLN B 160 O THR B 178 SHEET 1 K 4 ALA B 153 LEU B 154 0 SHEET 2 K 4 LYS B 145 VAL B 150 -1 N VAL B 150 O ALA B 153 SHEET 3 K 4 VAL B 191 THR B 197 -1 O ALA B 193 N LYS B 149 SHEET 4 K 4 VAL B 205 ASN B 210 -1 O VAL B 205 N VAL B 196 SSBOND 1 CYS A 22 CYS A 92 1555 1555 2.21 SSBOND 2 CYS A 140 CYS A 196 1555 1555 2.05 SSBOND 3 CYS B 23 CYS B 88 1555 1555 2.13 SSBOND 4 CYS B 134 CYS B 194 1555 1555 2.05 CISPEP 1 SER A 132 GLY A 133 0 7.28 CISPEP 2 GLY A 133 GLY A 134 0 24.36 CISPEP 3 PHE A 146 PRO A 147 0 2.93 CISPEP 4 GLU A 148 PRO A 149 0 3.52 CISPEP 5 THR B 7 PRO B 8 0 -1.22 CISPEP 6 VAL B 94 PRO B 95 0 4.07 CISPEP 7 TYR B 140 PRO B 141 0 1.42 SITE 1 AC1 43 SER A 15 THR A 30 SER A 31 ASP A 32 SITE 2 AC1 43 TYR A 33 ALA A 34 TYR A 53 ILE A 56 SITE 3 AC1 43 THR A 57 GLY A 58 SER A 65 SER A 82B SITE 4 AC1 43 MET A 95 GLY A 96 TYR A 97 HOH A 303 SITE 5 AC1 43 HIS B 27D ASN B 30 TYR B 32 LYS B 50 SITE 6 AC1 43 GLY B 91 VAL B 94 PRO B 96 GLY B 200 SITE 7 AC1 43 SER B 203 HOH B 307 HOH B 350 HOH B 406 SITE 8 AC1 43 HOH R 101 HOH R 102 HOH R 103 HOH R 104 SITE 9 AC1 43 HOH R 105 HOH R 106 HOH R 107 HOH R 108 SITE 10 AC1 43 HOH R 109 HOH R 111 HOH R 112 HOH R 113 SITE 11 AC1 43 HOH R 114 HOH R 116 HOH R 118 CRYST1 42.045 107.156 110.215 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 0.023784 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009332 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009073 0.00000