HEADER IMMUNE SYSTEM 13-JUL-15 5CIL TITLE CRYSTAL STRUCTURE OF NON-NEUTRALIZING VERSION OF 4E10 (WDWD) WITH TITLE 2 EPITOPE BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: FAB 4E10 HEAVY CHAIN; COMPND 3 CHAIN: H; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: FAB 4E10 LIGHT CHAIN; COMPND 8 CHAIN: L; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: PEPTIDE FROM THE MPER REGION OF THE ENV PROTEIN OF HIV-1; 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 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: T7 SHUFFLE; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-DUET1; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 15 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 16 EXPRESSION_SYSTEM_VARIANT: T7 SHUFFLE; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PET-DUET1; SOURCE 19 MOL_ID: 3; SOURCE 20 SYNTHETIC: YES; SOURCE 21 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 22 ORGANISM_TAXID: 11676 KEYWDS BROADLY NEUTRALIZING ANTIBODY, RECOMBINANT FAB, ENV-PEPTIDE, HIV-1, KEYWDS 2 EPITOPE, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR J.M.M.CAAVEIRO,E.RUJAS,J.L.NIEVA,K.TSUMOTO REVDAT 5 08-NOV-23 5CIL 1 REMARK REVDAT 4 23-MAR-22 5CIL 1 REMARK REVDAT 3 18-OCT-17 5CIL 1 JRNL REMARK REVDAT 2 18-NOV-15 5CIL 1 JRNL REVDAT 1 23-SEP-15 5CIL 0 JRNL AUTH E.RUJAS,N.GULZAR,K.MORANTE,K.TSUMOTO,J.K.SCOTT,J.L.NIEVA, JRNL AUTH 2 J.M.M.CAAVEIRO JRNL TITL STRUCTURAL AND THERMODYNAMIC BASIS OF EPITOPE BINDING BY JRNL TITL 2 NEUTRALIZING AND NONNEUTRALIZING FORMS OF THE ANTI-HIV-1 JRNL TITL 3 ANTIBODY 4E10 JRNL REF J.VIROL. V. 89 11975 2015 JRNL REFN ESSN 1098-5514 JRNL PMID 26378169 JRNL DOI 10.1128/JVI.01793-15 REMARK 2 REMARK 2 RESOLUTION. 1.81 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 1.81 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 48180 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) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.188 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2007 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) : 3505 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.16 REMARK 3 BIN R VALUE (WORKING SET) : 0.2430 REMARK 3 BIN FREE R VALUE SET COUNT : 139 REMARK 3 BIN FREE R VALUE : 0.2700 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3376 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 409 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.39 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.99000 REMARK 3 B22 (A**2) : -1.30000 REMARK 3 B33 (A**2) : 1.12000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.78000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.104 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.099 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.076 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.852 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3593 ; 0.015 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 3318 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4921 ; 1.633 ; 1.951 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7686 ; 0.806 ; 3.002 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 484 ; 8.175 ; 5.021 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 145 ;33.898 ;24.138 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 569 ;11.725 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;18.505 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 557 ; 0.102 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4130 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 819 ; 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): 1826 ; 1.384 ; 1.704 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1824 ; 1.379 ; 1.701 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2286 ; 2.145 ; 2.541 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2287 ; 2.145 ; 2.542 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1767 ; 2.049 ; 1.943 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1768 ; 2.049 ; 1.944 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2616 ; 3.228 ; 2.813 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4181 ; 6.454 ;15.253 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4001 ; 6.311 ;14.496 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 : 3 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 : H 2 H 227 REMARK 3 ORIGIN FOR THE GROUP (A): 18.7822 7.1445 -4.7387 REMARK 3 T TENSOR REMARK 3 T11: 0.0157 T22: 0.0179 REMARK 3 T33: 0.0480 T12: 0.0159 REMARK 3 T13: 0.0259 T23: 0.0270 REMARK 3 L TENSOR REMARK 3 L11: 0.9866 L22: 1.0292 REMARK 3 L33: 1.5873 L12: 0.0225 REMARK 3 L13: 0.4385 L23: 0.4884 REMARK 3 S TENSOR REMARK 3 S11: 0.0461 S12: 0.0790 S13: 0.0541 REMARK 3 S21: -0.0793 S22: -0.0557 S23: -0.0883 REMARK 3 S31: -0.0128 S32: 0.0216 S33: 0.0096 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : L 1 L 211 REMARK 3 ORIGIN FOR THE GROUP (A): 19.5163 -7.8527 5.2496 REMARK 3 T TENSOR REMARK 3 T11: 0.0216 T22: 0.0194 REMARK 3 T33: 0.0629 T12: -0.0130 REMARK 3 T13: 0.0031 T23: 0.0206 REMARK 3 L TENSOR REMARK 3 L11: 0.6846 L22: 0.8592 REMARK 3 L33: 2.0202 L12: -0.2958 REMARK 3 L13: -0.3224 L23: 0.7408 REMARK 3 S TENSOR REMARK 3 S11: 0.0415 S12: -0.0559 S13: -0.0258 REMARK 3 S21: 0.0773 S22: -0.0137 S23: -0.0030 REMARK 3 S31: 0.0766 S32: -0.0657 S33: -0.0279 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : P 671 P 683 REMARK 3 ORIGIN FOR THE GROUP (A): 20.7566 -6.8950 -34.1030 REMARK 3 T TENSOR REMARK 3 T11: 0.3744 T22: 0.1888 REMARK 3 T33: 0.1103 T12: 0.0617 REMARK 3 T13: 0.0525 T23: -0.0208 REMARK 3 L TENSOR REMARK 3 L11: 12.0841 L22: 0.7566 REMARK 3 L33: 10.6178 L12: 2.2057 REMARK 3 L13: -6.3040 L23: -0.7300 REMARK 3 S TENSOR REMARK 3 S11: -0.1383 S12: 0.8340 S13: -0.3679 REMARK 3 S21: -0.3612 S22: 0.1030 S23: -0.1515 REMARK 3 S31: 0.2051 S32: 0.0088 S33: 0.0353 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 ADDED IN THE RIDING REMARK 3 POSITIONS. SF FILE CONTAINS FRIEDEL PAIRS UNDER I/F_MINUS AND I/ REMARK 3 F_PLUS COLUMNS. REMARK 4 REMARK 4 5CIL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 21-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1000211693. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JUN-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.4 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 50189 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.810 REMARK 200 RESOLUTION RANGE LOW (A) : 44.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 5.300 REMARK 200 R MERGE (I) : 0.09900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.9000 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) : 1.91 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 5.30 REMARK 200 R MERGE FOR SHELL (I) : 0.66700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.800 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: 4WY7 REMARK 200 REMARK 200 REMARK: THE ENTRY CONTAINS FRIEDEL PAIRS IN F_PLUS/MINUS COLUMNS. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.86 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM TRIS-HCL, 200MM AMMONIUM REMARK 280 ACETATE, 34%PEG 4,000, PH 8.4, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 78.65000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 22.44500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 78.65000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 22.44500 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: 5530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -54.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: H, L, 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 SER H 130 REMARK 465 LYS H 131 REMARK 465 SER H 132 REMARK 465 THR H 133 REMARK 465 SER H 134 REMARK 465 GLY H 135 REMARK 465 LYS P 684 REMARK 465 LYS P 685 REMARK 465 LYS P 686 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 H 46 O HOH H 401 2.08 REMARK 500 NE2 GLN L 93 O HOH L 401 2.13 REMARK 500 O HOH L 498 O HOH L 577 2.14 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 ARG H 13 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG L 54 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG L 54 NE - CZ - NH2 ANGL. DEV. = -3.8 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 ASP H 146 67.15 67.56 REMARK 500 ALA L 51 -41.72 73.70 REMARK 500 ALA L 84 -174.63 -170.49 REMARK 500 TYR L 91 30.08 -140.27 REMARK 500 ASP L 151 49.31 39.26 REMARK 500 LYS L 190 -61.51 -104.05 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 H 606 DISTANCE = 6.05 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL H 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL H 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL L 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL L 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT L 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5CIN RELATED DB: PDB REMARK 900 RELATED ID: 5CIP RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE OF THIS PROTEIN WAS NOT AVAILABLE AT THE UNIPROT REMARK 999 KNOWLEDGEBASE DATABASE (UNIPROTKB) AT THE TIME OF DEPOSITION. DBREF 5CIL H 2 227 PDB 5CIL 5CIL 2 227 DBREF 5CIL L 1 211 PDB 5CIL 5CIL 1 211 DBREF 5CIL P 671 686 PDB 5CIL 5CIL 671 686 SEQRES 1 H 226 VAL GLN LEU VAL GLN SER GLY ALA GLU VAL LYS ARG PRO SEQRES 2 H 226 GLY SER SER VAL THR VAL SER CYS LYS ALA SER GLY GLY SEQRES 3 H 226 SER PHE SER THR TYR ALA LEU SER TRP VAL ARG GLN ALA SEQRES 4 H 226 PRO GLY ARG GLY LEU GLU TRP MET GLY GLY VAL ILE PRO SEQRES 5 H 226 LEU LEU THR ILE THR ASN TYR ALA PRO ARG PHE GLN GLY SEQRES 6 H 226 ARG ILE THR ILE THR ALA ASP ARG SER THR SER THR ALA SEQRES 7 H 226 TYR LEU GLU LEU ASN SER LEU ARG PRO GLU ASP THR ALA SEQRES 8 H 226 VAL TYR TYR CYS ALA ARG GLU GLY THR THR GLY ASP GLY SEQRES 9 H 226 ASP LEU GLY LYS PRO ILE GLY ALA PHE ALA HIS TRP GLY SEQRES 10 H 226 GLN GLY THR LEU VAL THR VAL SER SER ALA SER THR LYS SEQRES 11 H 226 GLY PRO SER VAL PHE PRO LEU ALA PRO SER SER LYS SER SEQRES 12 H 226 THR SER GLY GLY THR ALA ALA LEU GLY CYS LEU VAL LYS SEQRES 13 H 226 ASP TYR PHE PRO GLU PRO VAL THR VAL SER TRP ASN SER SEQRES 14 H 226 GLY ALA LEU THR SER GLY VAL HIS THR PHE PRO ALA VAL SEQRES 15 H 226 LEU GLN SER SER GLY LEU TYR SER LEU SER SER VAL VAL SEQRES 16 H 226 THR VAL PRO SER SER SER LEU GLY THR GLN THR TYR ILE SEQRES 17 H 226 CYS ASN VAL ASN HIS LYS PRO SER ASN THR LYS VAL ASP SEQRES 18 H 226 LYS LYS VAL GLU PRO SEQRES 1 L 212 GLU ILE VAL LEU THR GLN SER PRO GLY THR GLN SER LEU SEQRES 2 L 212 SER PRO GLY GLU ARG ALA THR LEU SER CYS ARG ALA SER SEQRES 3 L 212 GLN SER VAL GLY ASN ASN LYS LEU ALA TRP TYR GLN GLN SEQRES 4 L 212 ARG PRO GLY GLN ALA PRO ARG LEU LEU ILE TYR GLY ALA SEQRES 5 L 212 SER SER ARG PRO SER GLY VAL ALA ASP ARG PHE SER GLY SEQRES 6 L 212 SER GLY SER GLY THR ASP PHE THR LEU THR ILE SER ARG SEQRES 7 L 212 LEU GLU PRO GLU ASP PHE ALA VAL TYR TYR CYS GLN GLN SEQRES 8 L 212 TYR GLY GLN SER LEU SER THR PHE GLY GLN GLY THR LYS SEQRES 9 L 212 VAL GLU VAL LYS ARG THR VAL ALA ALA PRO SER VAL PHE SEQRES 10 L 212 ILE PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY THR SEQRES 11 L 212 ALA SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO ARG SEQRES 12 L 212 GLU ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU GLN SEQRES 13 L 212 SER GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SER SEQRES 14 L 212 LYS ASP SER THR TYR SER LEU SER SER THR LEU THR LEU SEQRES 15 L 212 SER LYS ALA ASP TYR GLU LYS HIS LYS VAL TYR ALA CYS SEQRES 16 L 212 GLU VAL THR HIS GLN GLY LEU SER SER PRO VAL THR LYS SEQRES 17 L 212 SER PHE ASN ARG SEQRES 1 P 16 ASN TRP PHE ASP ILE THR ASN TRP LEU TRP TYR ILE LYS SEQRES 2 P 16 LYS LYS LYS HET GOL H 301 6 HET CL H 302 1 HET GOL L 301 6 HET CL L 302 1 HET ACT L 303 4 HETNAM GOL GLYCEROL HETNAM CL CHLORIDE ION HETNAM ACT ACETATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 GOL 2(C3 H8 O3) FORMUL 5 CL 2(CL 1-) FORMUL 8 ACT C2 H3 O2 1- FORMUL 9 HOH *409(H2 O) HELIX 1 AA1 PRO H 61 GLN H 64 5 4 HELIX 2 AA2 ARG H 83 THR H 87 5 5 HELIX 3 AA3 SER H 163 ALA H 165 5 3 HELIX 4 AA4 SER H 196 LEU H 198 5 3 HELIX 5 AA5 VAL L 28 ASN L 31 5 4 HELIX 6 AA6 GLU L 79 PHE L 83 5 5 HELIX 7 AA7 SER L 121 SER L 127 1 7 HELIX 8 AA8 LYS L 183 GLU L 187 1 5 HELIX 9 AA9 ASN P 671 PHE P 673 5 3 HELIX 10 AB1 ASP P 674 LYS P 683 1 10 SHEET 1 AA1 4 GLN H 3 GLN H 6 0 SHEET 2 AA1 4 VAL H 18 SER H 25 -1 O LYS H 23 N VAL H 5 SHEET 3 AA1 4 THR H 77 LEU H 82 -1 O ALA H 78 N CYS H 22 SHEET 4 AA1 4 ILE H 67 ASP H 72 -1 N ASP H 72 O THR H 77 SHEET 1 AA2 6 GLU H 10 LYS H 12 0 SHEET 2 AA2 6 THR H 107 VAL H 111 1 O THR H 110 N LYS H 12 SHEET 3 AA2 6 ALA H 88 THR H 97 -1 N ALA H 88 O VAL H 109 SHEET 4 AA2 6 LEU H 34 GLN H 39 -1 N SER H 35 O ALA H 93 SHEET 5 AA2 6 LEU H 45 ILE H 52 -1 O GLY H 49 N TRP H 36 SHEET 6 AA2 6 ILE H 56 TYR H 59 -1 O ASN H 58 N GLY H 50 SHEET 1 AA3 4 GLU H 10 LYS H 12 0 SHEET 2 AA3 4 THR H 107 VAL H 111 1 O THR H 110 N LYS H 12 SHEET 3 AA3 4 ALA H 88 THR H 97 -1 N ALA H 88 O VAL H 109 SHEET 4 AA3 4 PRO H 100F TRP H 103 -1 O HIS H 102 N ARG H 94 SHEET 1 AA4 4 SER H 120 LEU H 124 0 SHEET 2 AA4 4 THR H 137 TYR H 147 -1 O LEU H 143 N PHE H 122 SHEET 3 AA4 4 TYR H 185 PRO H 194 -1 O LEU H 187 N VAL H 144 SHEET 4 AA4 4 VAL H 171 THR H 173 -1 N HIS H 172 O VAL H 190 SHEET 1 AA5 4 SER H 120 LEU H 124 0 SHEET 2 AA5 4 THR H 137 TYR H 147 -1 O LEU H 143 N PHE H 122 SHEET 3 AA5 4 TYR H 185 PRO H 194 -1 O LEU H 187 N VAL H 144 SHEET 4 AA5 4 VAL H 177 LEU H 178 -1 N VAL H 177 O SER H 186 SHEET 1 AA6 3 THR H 153 TRP H 157 0 SHEET 2 AA6 3 ILE H 207 HIS H 212 -1 O ASN H 209 N SER H 156 SHEET 3 AA6 3 THR H 217 LYS H 222 -1 O VAL H 219 N VAL H 210 SHEET 1 AA7 4 LEU L 4 THR L 5 0 SHEET 2 AA7 4 ALA L 19 ALA L 25 -1 O ARG L 24 N THR L 5 SHEET 3 AA7 4 ASP L 70 ILE L 75 -1 O ILE L 75 N ALA L 19 SHEET 4 AA7 4 PHE L 62 SER L 67 -1 N SER L 63 O THR L 74 SHEET 1 AA8 5 THR L 10 LEU L 13 0 SHEET 2 AA8 5 THR L 102 VAL L 106 1 O GLU L 105 N GLN L 11 SHEET 3 AA8 5 VAL L 85 GLN L 90 -1 N TYR L 86 O THR L 102 SHEET 4 AA8 5 LEU L 33 GLN L 38 -1 N ALA L 34 O GLN L 89 SHEET 5 AA8 5 ARG L 45 ILE L 48 -1 O LEU L 47 N TRP L 35 SHEET 1 AA9 4 THR L 10 LEU L 13 0 SHEET 2 AA9 4 THR L 102 VAL L 106 1 O GLU L 105 N GLN L 11 SHEET 3 AA9 4 VAL L 85 GLN L 90 -1 N TYR L 86 O THR L 102 SHEET 4 AA9 4 THR L 97 PHE L 98 -1 O THR L 97 N GLN L 90 SHEET 1 AB1 4 SER L 114 PHE L 118 0 SHEET 2 AB1 4 THR L 129 PHE L 139 -1 O LEU L 135 N PHE L 116 SHEET 3 AB1 4 TYR L 173 SER L 182 -1 O LEU L 175 N LEU L 136 SHEET 4 AB1 4 SER L 159 VAL L 163 -1 N GLN L 160 O THR L 178 SHEET 1 AB2 4 ALA L 153 LEU L 154 0 SHEET 2 AB2 4 LYS L 145 VAL L 150 -1 N VAL L 150 O ALA L 153 SHEET 3 AB2 4 VAL L 191 THR L 197 -1 O GLU L 195 N GLN L 147 SHEET 4 AB2 4 VAL L 205 ASN L 210 -1 O VAL L 205 N VAL L 196 SSBOND 1 CYS H 22 CYS H 92 1555 1555 2.16 SSBOND 2 CYS H 142 CYS H 208 1555 1555 2.08 SSBOND 3 CYS L 23 CYS L 88 1555 1555 2.24 SSBOND 4 CYS L 134 CYS L 194 1555 1555 2.10 CISPEP 1 PHE H 148 PRO H 149 0 -5.52 CISPEP 2 GLU H 150 PRO H 151 0 1.10 CISPEP 3 SER L 7 PRO L 8 0 -0.28 CISPEP 4 SER L 7 PRO L 8 0 -0.66 CISPEP 5 TYR L 140 PRO L 141 0 4.56 SITE 1 AC1 11 PHE H 174 PRO H 175 SER H 186 LEU H 187 SITE 2 AC1 11 SER H 188 HOH H 402 GLN L 160 SER L 162 SITE 3 AC1 11 SER L 176 SER L 177 THR L 178 SITE 1 AC2 3 SER H 82B ARG H 83 GLY L 157 SITE 1 AC3 5 LYS H 213 GLN L 11 ARG L 18 ALA L 19 SITE 2 AC3 5 THR L 20 SITE 1 AC4 3 ARG L 45 ALA L 59 HOH L 574 SITE 1 AC5 2 GLY L 9 GLY L 101 CRYST1 157.300 44.890 86.160 90.00 114.53 90.00 C 1 2 1 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 0.006357 0.000000 0.002901 0.00000 SCALE2 0.000000 0.022277 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012758 0.00000