HEADER IMMUNE SYSTEM 10-MAY-18 6DDR TITLE CRYSTAL STRUCTURE ANALYSIS OF THE EPITOPE OF AN ANTI-MICA ANTIBODY COMPND MOL_ID: 1; COMPND 2 MOLECULE: ANTI-MICA FAB FRAGMENT LIGHT CHAIN CLONE 13A9; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: ANTI-MICA FAB FRAGMENT HEAVY CHAIN CLONE 13A9; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: MHC CLASS I POLYPEPTIDE-RELATED SEQUENCE A; COMPND 11 CHAIN: C; COMPND 12 SYNONYM: MHC CLASS I POLYPEPTIDE-RELATED SEQUENCE A,ISOFORM CRA_C, COMPND 13 MICA,STRESS INDUCIBLE CLASS I HOMOLOG,CDNA FLJ60820,HIGHLY SIMILAR TO COMPND 14 HOMO SAPIENS MHC CLASS I POLYPEPTIDE-RELATED SEQUENCE A (MICA),MRNA; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_TAXID: 10090; SOURCE 4 STRAIN: BALB/C; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: 64B4; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PBR322; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 12 ORGANISM_TAXID: 10090; SOURCE 13 STRAIN: BALB/C; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: 64B4; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PBR322; SOURCE 19 MOL_ID: 3; SOURCE 20 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 21 ORGANISM_COMMON: HUMAN; SOURCE 22 ORGANISM_TAXID: 9606; SOURCE 23 GENE: MICA, HCG_2001511; SOURCE 24 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 25 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 26 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 27 EXPRESSION_SYSTEM_PLASMID: PACGP67 KEYWDS FAB FRAGMENT-ANTIGEN COMPLEX, IMMUNOGLOBULIN DOMAIN, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR M.L.MATSUMOTO REVDAT 4 11-OCT-23 6DDR 1 LINK REVDAT 3 23-JAN-19 6DDR 1 JRNL REVDAT 2 05-DEC-18 6DDR 1 JRNL REVDAT 1 24-OCT-18 6DDR 0 JRNL AUTH T.N.LOMBANA,M.L.MATSUMOTO,A.M.BERKLEY,E.TOY,R.COOK,Y.GAN, JRNL AUTH 2 C.DU,P.SCHNIER,W.SANDOVAL,Z.YE,J.M.SCHARTNER,J.KIM,C.SPIESS JRNL TITL HIGH-RESOLUTION GLYCOSYLATION SITE-ENGINEERING METHOD JRNL TITL 2 IDENTIFIES MICA EPITOPE CRITICAL FOR SHEDDING INHIBITION JRNL TITL 3 ACTIVITY OF ANTI-MICA ANTIBODIES. JRNL REF MABS V. 11 75 2019 JRNL REFN ESSN 1942-0870 JRNL PMID 30307368 JRNL DOI 10.1080/19420862.2018.1532767 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0155 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.0 REMARK 3 NUMBER OF REFLECTIONS : 40023 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) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2050 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2295 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 75.76 REMARK 3 BIN R VALUE (WORKING SET) : 0.3140 REMARK 3 BIN FREE R VALUE SET COUNT : 124 REMARK 3 BIN FREE R VALUE : 0.3230 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3945 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 54 REMARK 3 SOLVENT ATOMS : 260 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.71 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.11000 REMARK 3 B22 (A**2) : 4.52000 REMARK 3 B33 (A**2) : -2.41000 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): 0.179 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.160 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.139 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.984 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4163 ; 0.006 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3691 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5684 ; 1.117 ; 1.940 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8523 ; 0.826 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 543 ; 5.878 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 164 ;35.501 ;24.756 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 596 ;11.460 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;17.905 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 645 ; 0.065 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4802 ; 0.003 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 952 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 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 : A 1 A 214 REMARK 3 ORIGIN FOR THE GROUP (A): 6.3635 -10.8440 -23.6198 REMARK 3 T TENSOR REMARK 3 T11: 0.1513 T22: 0.0148 REMARK 3 T33: 0.1577 T12: 0.0219 REMARK 3 T13: -0.0330 T23: 0.0062 REMARK 3 L TENSOR REMARK 3 L11: 1.0216 L22: 0.2384 REMARK 3 L33: 1.3019 L12: 0.2206 REMARK 3 L13: -0.8056 L23: -0.2397 REMARK 3 S TENSOR REMARK 3 S11: -0.0429 S12: -0.1053 S13: 0.0189 REMARK 3 S21: -0.0065 S22: -0.0158 S23: -0.0440 REMARK 3 S31: 0.0506 S32: 0.0736 S33: 0.0587 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 : B 1 B 217 REMARK 3 ORIGIN FOR THE GROUP (A): -1.5337 2.7669 -30.5450 REMARK 3 T TENSOR REMARK 3 T11: 0.1308 T22: 0.0348 REMARK 3 T33: 0.2130 T12: 0.0260 REMARK 3 T13: -0.0375 T23: 0.0376 REMARK 3 L TENSOR REMARK 3 L11: 0.6670 L22: 0.2721 REMARK 3 L33: 2.4379 L12: 0.0580 REMARK 3 L13: -1.0289 L23: -0.1540 REMARK 3 S TENSOR REMARK 3 S11: 0.0647 S12: 0.1353 S13: 0.1581 REMARK 3 S21: 0.0387 S22: 0.0438 S23: -0.0346 REMARK 3 S31: -0.1744 S32: -0.2434 S33: -0.1085 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 : C 204 C 297 REMARK 3 ORIGIN FOR THE GROUP (A): 19.5164 -3.3481 -66.2825 REMARK 3 T TENSOR REMARK 3 T11: 0.1249 T22: 0.0339 REMARK 3 T33: 0.0753 T12: 0.0344 REMARK 3 T13: 0.0397 T23: 0.0126 REMARK 3 L TENSOR REMARK 3 L11: 2.0313 L22: 1.6191 REMARK 3 L33: 4.1013 L12: -0.0446 REMARK 3 L13: 1.0361 L23: -0.6579 REMARK 3 S TENSOR REMARK 3 S11: 0.1210 S12: 0.1943 S13: -0.1036 REMARK 3 S21: -0.2979 S22: -0.0640 S23: -0.1388 REMARK 3 S31: 0.3575 S32: 0.2620 S33: -0.0569 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: U VALUES : WITH TLS ADDED HYDROGENS REMARK 3 HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 4 REMARK 4 6DDR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-MAY-18. REMARK 100 THE DEPOSITION ID IS D_1000234445. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-MAR-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42120 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 35.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.0 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.08500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 74.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.48600 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: PHENIX REMARK 200 STARTING MODEL: 1A2Y, 4J8R, 1NZ8, 6DDM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.44 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.01 M ZNSO4, 0.1 M MES, PH 6.5, 16% REMARK 280 PEG 550 MME, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 292K 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 25.77450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 86.18400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.91650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 86.18400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.77450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.91650 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: 7660 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22770 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -76.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLN A 3 CG CD OE1 NE2 REMARK 470 ARG A 24 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 42 CG CD CE NZ REMARK 470 GLN A 70 CG CD OE1 NE2 REMARK 470 LYS A 107 CG CD CE NZ REMARK 470 LYS A 126 CG CD CE NZ REMARK 470 LYS A 169 CG CD CE NZ REMARK 470 GLU A 213 CG CD OE1 OE2 REMARK 470 GLN B 5 CG CD OE1 NE2 REMARK 470 LYS B 23 CG CD CE NZ REMARK 470 GLU B 61 CG CD OE1 OE2 REMARK 470 LYS B 64 CG CD CE NZ REMARK 470 ARG B 68 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 199 CG OD1 ND2 REMARK 470 LYS B 201 CG CD CE NZ REMARK 470 LYS B 206 CG CD CE NZ REMARK 470 LYS B 214 CG CD CE NZ REMARK 470 ASP B 217 CG OD1 OD2 REMARK 470 GLU C 215 CG CD OE1 OE2 REMARK 470 GLU C 218 CG CD OE1 OE2 REMARK 470 ARG C 233 CG CD NE CZ NH1 NH2 REMARK 470 GLN C 252 CG CD OE1 NE2 REMARK 470 ARG C 271 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 274 CG CD NE CZ NH1 NH2 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 31 19.07 59.12 REMARK 500 ALA A 51 -40.82 69.14 REMARK 500 SER A 77 70.42 47.69 REMARK 500 ASN A 138 64.74 61.43 REMARK 500 LEU B 96 -158.48 -94.89 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 ZN C 304 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 185 OD1 REMARK 620 2 HIS A 189 NE2 121.4 REMARK 620 3 HIS C 248 NE2 66.0 108.1 REMARK 620 4 HOH C 404 O 67.1 107.9 1.1 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL C 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL C 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN C 304 DBREF 6DDR A 1 214 PDB 6DDR 6DDR 1 214 DBREF 6DDR B 1 217 PDB 6DDR 6DDR 1 217 DBREF 6DDR C 204 297 UNP Q96QC4 Q96QC4_HUMAN 204 297 SEQRES 1 A 214 ASP ILE GLN MET THR GLN SER PRO ALA SER LEU SER ALA SEQRES 2 A 214 SER VAL GLY GLU THR VAL THR ILE THR CYS ARG ALA SER SEQRES 3 A 214 GLY ASN ILE HIS SER TYR LEU ALA TRP TYR GLN GLN LYS SEQRES 4 A 214 GLN GLY LYS SER PRO GLN LEU LEU VAL TYR TYR ALA GLU SEQRES 5 A 214 THR LEU ALA ASP GLY VAL PRO SER ARG PHE SER GLY ARG SEQRES 6 A 214 GLY SER GLY THR GLN TYR SER LEU LYS ILE ASN SER LEU SEQRES 7 A 214 GLN PRO GLU ASP PHE GLY SER TYR PHE CYS GLN GLN PHE SEQRES 8 A 214 TRP THR THR PRO TYR THR PHE GLY GLY GLY THR LYS VAL SEQRES 9 A 214 GLU ILE LYS ARG THR VAL ALA ALA PRO SER VAL PHE ILE SEQRES 10 A 214 PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY THR ALA SEQRES 11 A 214 SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO ARG GLU SEQRES 12 A 214 ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU GLN SER SEQRES 13 A 214 GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SER LYS SEQRES 14 A 214 ASP SER THR TYR SER LEU SER SER THR LEU THR LEU SER SEQRES 15 A 214 LYS ALA ASP TYR GLU LYS HIS LYS VAL TYR ALA CYS GLU SEQRES 16 A 214 VAL THR HIS GLN GLY LEU SER SER PRO VAL THR LYS SER SEQRES 17 A 214 PHE ASN ARG GLY GLU CYS SEQRES 1 B 221 GLN VAL GLN LEU GLN GLN SER GLY ALA GLU LEU VAL ARG SEQRES 2 B 221 PRO GLY THR SER VAL LYS VAL SER CYS LYS ALA SER GLY SEQRES 3 B 221 TYR ALA PHE THR ASN TYR LEU ILE GLU TRP VAL LYS GLN SEQRES 4 B 221 ARG PRO GLY GLN GLY LEU GLU TRP ILE GLY ALA ILE ASN SEQRES 5 B 221 PRO GLY SER GLY ALA THR ASN TYR ASN GLU LYS PHE LYS SEQRES 6 B 221 ASP LYS ALA ARG LEU THR ALA ASP LYS SER SER ASN THR SEQRES 7 B 221 ALA TYR LEU GLN PHE SER SER LEU THR SER ASP ASP SER SEQRES 8 B 221 ALA VAL TYR PHE CYS ALA ARG PHE LEU GLY ASN TYR PHE SEQRES 9 B 221 ASP ASN TRP GLY GLN GLY ALA THR LEU THR VAL SER SER SEQRES 10 B 221 ALA SER THR LYS GLY PRO SER VAL PHE PRO LEU ALA PRO SEQRES 11 B 221 SER SER LYS SER THR SER GLY GLY THR ALA ALA LEU GLY SEQRES 12 B 221 CYS LEU VAL LYS ASP TYR PHE PRO GLU PRO VAL THR VAL SEQRES 13 B 221 SER TRP ASN SER GLY ALA LEU THR SER GLY VAL HIS THR SEQRES 14 B 221 PHE PRO ALA VAL LEU GLN SER SER GLY LEU TYR SER LEU SEQRES 15 B 221 SER SER VAL VAL THR VAL PRO SER SER SER LEU GLY THR SEQRES 16 B 221 GLN THR TYR ILE CYS ASN VAL ASN HIS LYS PRO SER ASN SEQRES 17 B 221 THR LYS VAL ASP LYS LYS VAL GLU PRO LYS SER CYS ASP SEQRES 1 C 94 THR VAL PRO PRO MET VAL ASN VAL THR ARG SER GLU ALA SEQRES 2 C 94 SER GLU GLY ASN ILE THR VAL THR CYS ARG ALA SER SER SEQRES 3 C 94 PHE TYR PRO ARG ASN ILE ILE LEU THR TRP ARG GLN ASP SEQRES 4 C 94 GLY VAL SER LEU SER HIS ASP THR GLN GLN TRP GLY ASP SEQRES 5 C 94 VAL LEU PRO ASP GLY ASN GLY THR TYR GLN THR TRP VAL SEQRES 6 C 94 ALA THR ARG ILE CYS ARG GLY GLU GLU GLN ARG PHE THR SEQRES 7 C 94 CYS TYR MET GLU HIS SER GLY ASN HIS SER THR HIS PRO SEQRES 8 C 94 VAL PRO SER HET GOL A 301 6 HET GOL A 302 6 HET GOL A 303 6 HET GOL B 301 6 HET GOL B 302 6 HET SO4 B 303 5 HET GOL C 301 6 HET GOL C 302 6 HET GOL C 303 6 HET ZN C 304 1 HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETNAM ZN ZINC ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 GOL 8(C3 H8 O3) FORMUL 9 SO4 O4 S 2- FORMUL 13 ZN ZN 2+ FORMUL 14 HOH *260(H2 O) HELIX 1 AA1 GLN A 79 PHE A 83 5 5 HELIX 2 AA2 SER A 121 LYS A 126 1 6 HELIX 3 AA3 LYS A 183 GLU A 187 1 5 HELIX 4 AA4 ALA B 28 TYR B 32 5 5 HELIX 5 AA5 GLU B 61 LYS B 64 5 4 HELIX 6 AA6 THR B 83 SER B 87 5 5 HELIX 7 AA7 SER B 127 LYS B 129 5 3 HELIX 8 AA8 SER B 156 ALA B 158 5 3 HELIX 9 AA9 SER B 187 LEU B 189 5 3 HELIX 10 AB1 LYS B 201 ASN B 204 5 4 HELIX 11 AB2 SER C 247 ASP C 249 5 3 HELIX 12 AB3 GLU C 276 GLN C 278 5 3 SHEET 1 AA1 4 MET A 4 SER A 7 0 SHEET 2 AA1 4 VAL A 19 ALA A 25 -1 O ARG A 24 N THR A 5 SHEET 3 AA1 4 GLN A 70 ILE A 75 -1 O LEU A 73 N ILE A 21 SHEET 4 AA1 4 PHE A 62 SER A 67 -1 N SER A 63 O LYS A 74 SHEET 1 AA2 6 SER A 10 ALA A 13 0 SHEET 2 AA2 6 THR A 102 ILE A 106 1 O GLU A 105 N LEU A 11 SHEET 3 AA2 6 GLY A 84 GLN A 90 -1 N GLY A 84 O VAL A 104 SHEET 4 AA2 6 LEU A 33 GLN A 38 -1 N GLN A 38 O SER A 85 SHEET 5 AA2 6 GLN A 45 TYR A 49 -1 O LEU A 47 N TRP A 35 SHEET 6 AA2 6 THR A 53 LEU A 54 -1 O THR A 53 N TYR A 49 SHEET 1 AA3 4 SER A 10 ALA A 13 0 SHEET 2 AA3 4 THR A 102 ILE A 106 1 O GLU A 105 N LEU A 11 SHEET 3 AA3 4 GLY A 84 GLN A 90 -1 N GLY A 84 O VAL A 104 SHEET 4 AA3 4 THR A 97 PHE A 98 -1 O THR A 97 N GLN A 90 SHEET 1 AA4 4 SER A 114 PHE A 118 0 SHEET 2 AA4 4 THR A 129 PHE A 139 -1 O LEU A 135 N PHE A 116 SHEET 3 AA4 4 TYR A 173 SER A 182 -1 O TYR A 173 N PHE A 139 SHEET 4 AA4 4 SER A 159 VAL A 163 -1 N GLN A 160 O THR A 178 SHEET 1 AA5 4 ALA A 153 LEU A 154 0 SHEET 2 AA5 4 LYS A 145 VAL A 150 -1 N VAL A 150 O ALA A 153 SHEET 3 AA5 4 VAL A 191 THR A 197 -1 O GLU A 195 N GLN A 147 SHEET 4 AA5 4 VAL A 205 ASN A 210 -1 O VAL A 205 N VAL A 196 SHEET 1 AA6 4 GLN B 3 GLN B 6 0 SHEET 2 AA6 4 VAL B 18 SER B 25 -1 O LYS B 23 N GLN B 5 SHEET 3 AA6 4 THR B 77 PHE B 82 -1 O ALA B 78 N CYS B 22 SHEET 4 AA6 4 ALA B 67 ASP B 72 -1 N ASP B 72 O THR B 77 SHEET 1 AA7 6 GLU B 10 VAL B 12 0 SHEET 2 AA7 6 ALA B 107 VAL B 111 1 O THR B 108 N GLU B 10 SHEET 3 AA7 6 ALA B 88 PHE B 95 -1 N ALA B 88 O LEU B 109 SHEET 4 AA7 6 ILE B 34 ARG B 40 -1 N VAL B 37 O PHE B 91 SHEET 5 AA7 6 GLY B 44 ILE B 51 -1 O GLU B 46 N LYS B 38 SHEET 6 AA7 6 THR B 57 TYR B 59 -1 O ASN B 58 N ALA B 50 SHEET 1 AA8 4 GLU B 10 VAL B 12 0 SHEET 2 AA8 4 ALA B 107 VAL B 111 1 O THR B 108 N GLU B 10 SHEET 3 AA8 4 ALA B 88 PHE B 95 -1 N ALA B 88 O LEU B 109 SHEET 4 AA8 4 PHE B 100 ASP B 101 -1 O ASP B 101 N ARG B 94 SHEET 1 AA9 4 SER B 120 LEU B 124 0 SHEET 2 AA9 4 THR B 135 TYR B 145 -1 O GLY B 139 N LEU B 124 SHEET 3 AA9 4 TYR B 176 PRO B 185 -1 O VAL B 184 N ALA B 136 SHEET 4 AA9 4 VAL B 163 THR B 165 -1 N HIS B 164 O VAL B 181 SHEET 1 AB1 4 THR B 131 SER B 132 0 SHEET 2 AB1 4 THR B 135 TYR B 145 -1 O THR B 135 N SER B 132 SHEET 3 AB1 4 TYR B 176 PRO B 185 -1 O VAL B 184 N ALA B 136 SHEET 4 AB1 4 VAL B 169 LEU B 170 -1 N VAL B 169 O SER B 177 SHEET 1 AB2 3 THR B 151 TRP B 154 0 SHEET 2 AB2 3 ILE B 195 HIS B 200 -1 O ASN B 197 N SER B 153 SHEET 3 AB2 3 THR B 205 LYS B 210 -1 O VAL B 207 N VAL B 198 SHEET 1 AB3 4 MET C 208 ARG C 213 0 SHEET 2 AB3 4 ASN C 220 PHE C 230 -1 O ARG C 226 N ASN C 210 SHEET 3 AB3 4 TYR C 264 CYS C 273 -1 O ILE C 272 N ILE C 221 SHEET 4 AB3 4 GLN C 251 TRP C 253 -1 N GLN C 252 O ALA C 269 SHEET 1 AB4 4 MET C 208 ARG C 213 0 SHEET 2 AB4 4 ASN C 220 PHE C 230 -1 O ARG C 226 N ASN C 210 SHEET 3 AB4 4 TYR C 264 CYS C 273 -1 O ILE C 272 N ILE C 221 SHEET 4 AB4 4 LEU C 257 PRO C 258 -1 N LEU C 257 O GLN C 265 SHEET 1 AB5 4 VAL C 244 SER C 245 0 SHEET 2 AB5 4 ILE C 236 GLN C 241 -1 N GLN C 241 O VAL C 244 SHEET 3 AB5 4 PHE C 280 HIS C 286 -1 O TYR C 283 N THR C 238 SHEET 4 AB5 4 ASN C 289 PRO C 294 -1 O HIS C 293 N CYS C 282 SSBOND 1 CYS A 23 CYS A 88 1555 1555 2.03 SSBOND 2 CYS A 134 CYS A 194 1555 1555 2.02 SSBOND 3 CYS A 214 CYS B 216 1555 1555 2.04 SSBOND 4 CYS B 22 CYS B 92 1555 1555 2.05 SSBOND 5 CYS B 140 CYS B 196 1555 1555 2.03 SSBOND 6 CYS C 225 CYS C 282 1555 1555 2.03 LINK OD1 ASP A 185 ZN ZN C 304 1555 3544 1.95 LINK NE2 HIS A 189 ZN ZN C 304 1555 3544 2.18 LINK NE2 HIS C 248 ZN ZN C 304 1555 1555 2.55 LINK ZN ZN C 304 O HOH C 404 1555 1555 1.99 CISPEP 1 SER A 7 PRO A 8 0 -4.18 CISPEP 2 THR A 94 PRO A 95 0 0.27 CISPEP 3 TYR A 140 PRO A 141 0 1.97 CISPEP 4 PHE B 146 PRO B 147 0 -2.18 CISPEP 5 GLU B 148 PRO B 149 0 2.47 CISPEP 6 TYR C 231 PRO C 232 0 3.86 SITE 1 AC1 11 GLN A 160 SER A 162 SER A 176 SER A 177 SITE 2 AC1 11 THR A 178 HOH A 408 PHE B 166 PRO B 167 SITE 3 AC1 11 SER B 177 LEU B 178 SER B 179 SITE 1 AC2 6 GLN A 37 GLN A 45 PRO A 59 HOH A 410 SITE 2 AC2 6 HOH A 434 HOH A 482 SITE 1 AC3 6 VAL A 115 LYS A 190 LYS A 207 ARG A 211 SITE 2 AC3 6 HOH A 425 SER B 132 SITE 1 AC4 9 SER A 156 GLY A 157 THR B 30 ASN B 52 SITE 2 AC4 9 GLY B 53 SER B 54 HOH B 442 ARG C 240 SITE 3 AC4 9 SER C 245 SITE 1 AC5 7 GLY A 99 GLY A 100 GLY A 101 GLN B 39 SITE 2 AC5 7 GLY B 44 LEU B 45 HOH B 424 SITE 1 AC6 3 LEU B 189 ASP B 217 HOH B 439 SITE 1 AC7 7 LYS A 149 ASN A 152 LEU A 154 ARG C 233 SITE 2 AC7 7 ASN C 234 ILE C 235 VAL C 256 SITE 1 AC8 5 ASP C 249 THR C 250 GLN C 251 GLN C 252 SITE 2 AC8 5 ALA C 269 SITE 1 AC9 4 THR B 191 THR C 224 ARG C 226 TRP C 267 SITE 1 AD1 4 ASP A 185 HIS A 189 HIS C 248 HOH C 404 CRYST1 51.549 61.833 172.368 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 0.019399 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016173 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005802 0.00000