HEADER IMMUNE SYSTEM 11-JAN-19 6NMT TITLE NON-BLOCKING FAB 3 ANTI-SIRP-ALPHA ANTIBODY IN COMPLEX WITH SIRP-ALPHA TITLE 2 VARIANT 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: FAB 3 ANTI-SIRP-ALPHA ANTIBODY VARIABLE LIGHT CHAIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: FAB 3 ANTI-SIRP-ALPHA ANTIBODY VARIABLE HEAVY CHAIN; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: TYROSINE-PROTEIN PHOSPHATASE NON-RECEPTOR TYPE SUBSTRATE 1; COMPND 11 CHAIN: C; COMPND 12 SYNONYM: SHPS-1,BRAIN IG-LIKE MOLECULE WITH TYROSINE-BASED ACTIVATION COMPND 13 MOTIFS,BIT,CD172 ANTIGEN-LIKE FAMILY MEMBER A,INHIBITORY RECEPTOR COMPND 14 SHPS-1,MACROPHAGE FUSION RECEPTOR,MYD-1 ANTIGEN,SIGNAL-REGULATORY COMPND 15 PROTEIN ALPHA-1,SIRP-ALPHA-1,SIGNAL-REGULATORY PROTEIN ALPHA-2,SIRP- COMPND 16 ALPHA-2,SIGNAL-REGULATORY PROTEIN ALPHA-3,SIRP-ALPHA-3,P84; COMPND 17 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: HOMO SAPIENS; SOURCE 6 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 13 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 15 MOL_ID: 3; SOURCE 16 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 17 ORGANISM_COMMON: HUMAN; SOURCE 18 ORGANISM_TAXID: 9606; SOURCE 19 GENE: SIRPA, BIT, MFR, MYD1, PTPNS1, SHPS1, SIRP; SOURCE 20 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 21 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 22 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS SIRP-ALPHA, SIGNAL REGULATORY PROTEIN ALPHA, SIGNAL-REGULATORY KEYWDS 2 PROTEIN ALPHA, TYROSINE-PROTEIN PHOSPHATASE NON-RECEPTOR TYPE KEYWDS 3 SUBSTRATE 1, CD47, CLUSTER OF DIFFERENTIATION 47, ANTI-SIRP-ALPHA KEYWDS 4 ANTIBODY, BLOCKING ANTI-SIRP-ALPHA ANTIBODY, NON-BLOCKING ANTI-SIRP- KEYWDS 5 ALPHA ANTIBODY, KICK-OFF ANTI-SIRP-ALPHA ANTIBODY, ANTI-SIRP-ALPHA KEYWDS 6 ANTIBODY IN COMPLEX WITH SIRP-ALPHA, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR A.S.WIBOWO,J.J.CARTER,J.SIM REVDAT 2 14-AUG-19 6NMT 1 JRNL REVDAT 1 07-AUG-19 6NMT 0 JRNL AUTH J.SIM,J.T.SOCKOLOSKY,E.SANGALANG,S.IZQUIERDO,D.PEDERSEN, JRNL AUTH 2 W.HARRIMAN,A.S.WIBOWO,J.CARTER,A.MADAN,L.DOYLE,O.HARRABI, JRNL AUTH 3 S.E.KAUDER,A.CHEN,T.C.KUO,H.WAN,J.PONS JRNL TITL DISCOVERY OF HIGH AFFINITY, PAN-ALLELIC, AND PAN-MAMMALIAN JRNL TITL 2 REACTIVE ANTIBODIES AGAINST THE MYELOID CHECKPOINT RECEPTOR JRNL TITL 3 SIRP ALPHA. JRNL REF MABS V. 11 1036 2019 JRNL REFN ESSN 1942-0870 JRNL PMID 31257988 JRNL DOI 10.1080/19420862.2019.1624123 REMARK 2 REMARK 2 RESOLUTION. 1.83 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) : 1.83 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 63.19 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 77537 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 4189 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) : 1.83 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.88 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5635 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.95 REMARK 3 BIN R VALUE (WORKING SET) : 0.3220 REMARK 3 BIN FREE R VALUE SET COUNT : 322 REMARK 3 BIN FREE R VALUE : 0.3330 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4019 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 655 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.30 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) : -0.01000 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): 0.094 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.094 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.075 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.643 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4149 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3765 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5648 ; 1.875 ; 1.955 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8770 ; 1.030 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 545 ; 6.775 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 168 ;34.499 ;23.929 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 662 ;13.375 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;19.246 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 642 ; 0.129 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4681 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 837 ; 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 : 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6NMT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-JAN-19. REMARK 100 THE DEPOSITION ID IS D_1000239013. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-JUL-17 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 : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.03319 REMARK 200 MONOCHROMATOR : SI 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 : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 81726 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.830 REMARK 200 RESOLUTION RANGE LOW (A) : 63.190 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.80 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10500 REMARK 200 FOR THE DATA SET : 15.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.83 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.03100 REMARK 200 FOR SHELL : 0.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM ACETATE, 0.45 M AMMONIUM REMARK 280 SULFATE, 35% W/V PEG 4000, PH 4.6, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 285K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 2 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 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 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 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 63.18500 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 63.18500 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 114.83500 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 63.18500 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 63.18500 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 114.83500 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 63.18500 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 63.18500 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 114.83500 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 63.18500 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 63.18500 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 114.83500 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 63.18500 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 63.18500 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 114.83500 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 63.18500 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 63.18500 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 114.83500 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 63.18500 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 63.18500 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 114.83500 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 63.18500 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 63.18500 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 114.83500 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 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH C 304 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 CYS A 209 REMARK 465 SER B 134 REMARK 465 LYS B 135 REMARK 465 SER B 136 REMARK 465 THR B 137 REMARK 465 SER B 138 REMARK 465 GLY B 139 REMARK 465 SER B 221 REMARK 465 CYS B 222 REMARK 465 HIS B 223 REMARK 465 HIS B 224 REMARK 465 HIS B 225 REMARK 465 HIS B 226 REMARK 465 HIS B 227 REMARK 465 HIS B 228 REMARK 465 ALA C 116 REMARK 465 LYS C 117 REMARK 465 PRO C 118 REMARK 465 SER C 119 REMARK 465 THR C 120 REMARK 465 ARG C 121 REMARK 465 HIS C 122 REMARK 465 HIS C 123 REMARK 465 HIS C 124 REMARK 465 HIS C 125 REMARK 465 HIS C 126 REMARK 465 HIS C 127 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 C 284 O HOH C 290 1.97 REMARK 500 ND2 ASN B 111 O HOH B 301 2.07 REMARK 500 O HOH A 523 O HOH A 540 2.07 REMARK 500 O HOH A 322 O HOH B 304 2.07 REMARK 500 O HOH B 459 O HOH B 491 2.14 REMARK 500 O HOH B 470 O HOH B 489 2.15 REMARK 500 OD1 ASN A 147 O HOH A 301 2.18 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 SER A 157 CB SER A 157 OG -0.102 REMARK 500 CYS A 189 CB CYS A 189 SG -0.131 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 A 24 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 ASP A 46 CB - CG - OD1 ANGL. DEV. = -8.9 DEGREES REMARK 500 ARG B 66 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG C 59 NE - CZ - NH2 ANGL. DEV. = -3.7 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 A 46 -69.07 73.29 REMARK 500 SER A 79 174.85 169.01 REMARK 500 SER A 89 -52.19 -128.17 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 B 542 DISTANCE = 6.00 ANGSTROMS REMARK 525 HOH B 543 DISTANCE = 6.34 ANGSTROMS REMARK 525 HOH B 544 DISTANCE = 6.50 ANGSTROMS REMARK 525 HOH B 545 DISTANCE = 6.99 ANGSTROMS REMARK 525 HOH C 306 DISTANCE = 6.02 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6NMR RELATED DB: PDB REMARK 900 BLOCKING FAB 119 ANTI-SIRP-ALPHA ANTIBODY IN COMPLEX WITH SIRP- REMARK 900 ALPHA VARIANT 1 REMARK 900 RELATED ID: 6NMS RELATED DB: PDB REMARK 900 NONBLOCKING FAB 136 ANTI-SIRP-ALPHA ANTIBODY IN COMPLEX WITH SIRP- REMARK 900 ALPHA VARIANT 1 DBREF 6NMT A 1 209 PDB 6NMT 6NMT 1 209 DBREF 6NMT B 1 228 PDB 6NMT 6NMT 1 228 DBREF 6NMT C 1 119 UNP P78324 SHPS1_HUMAN 31 149 SEQADV 6NMT ALA C 80 UNP P78324 ASN 110 CONFLICT SEQADV 6NMT THR C 120 UNP P78324 EXPRESSION TAG SEQADV 6NMT ARG C 121 UNP P78324 EXPRESSION TAG SEQADV 6NMT HIS C 122 UNP P78324 EXPRESSION TAG SEQADV 6NMT HIS C 123 UNP P78324 EXPRESSION TAG SEQADV 6NMT HIS C 124 UNP P78324 EXPRESSION TAG SEQADV 6NMT HIS C 125 UNP P78324 EXPRESSION TAG SEQADV 6NMT HIS C 126 UNP P78324 EXPRESSION TAG SEQADV 6NMT HIS C 127 UNP P78324 EXPRESSION TAG SEQRES 1 A 209 ALA LEU THR GLN PRO ALA SER VAL SER ALA ASN LEU GLY SEQRES 2 A 209 GLY THR VAL LYS ILE THR CYS SER GLY SER ARG GLY ARG SEQRES 3 A 209 TYR GLY TRP TYR GLN GLN ARG SER PRO GLY SER ALA PRO SEQRES 4 A 209 VAL THR VAL ILE TYR ARG ASP ASN GLN ARG PRO SER ASN SEQRES 5 A 209 ILE PRO SER ARG PHE SER SER SER THR SER GLY SER THR SEQRES 6 A 209 SER THR LEU THR ILE THR GLY VAL GLN ALA ASP ASP GLU SEQRES 7 A 209 SER VAL TYR PHE CYS GLY SER TYR ASP GLY SER ILE ASP SEQRES 8 A 209 ILE PHE GLY ALA GLY THR THR LEU THR VAL LEU ARG THR SEQRES 9 A 209 VAL ALA ALA PRO SER VAL PHE ILE PHE PRO PRO SER ASP SEQRES 10 A 209 GLU GLN LEU LYS SER GLY THR ALA SER VAL VAL CYS LEU SEQRES 11 A 209 LEU ASN ASN PHE TYR PRO ARG GLU ALA LYS VAL GLN TRP SEQRES 12 A 209 LYS VAL ASP ASN ALA LEU GLN SER GLY ASN SER GLN GLU SEQRES 13 A 209 SER VAL THR GLU GLN ASP SER LYS ASP SER THR TYR SER SEQRES 14 A 209 LEU SER SER THR LEU THR LEU SER LYS ALA ASP TYR GLU SEQRES 15 A 209 LYS HIS LYS VAL TYR ALA CYS GLU VAL THR HIS GLN GLY SEQRES 16 A 209 LEU SER SER PRO VAL THR LYS SER PHE ASN ARG GLY GLU SEQRES 17 A 209 CYS SEQRES 1 B 228 ALA VAL THR LEU ASP GLU SER GLY GLY GLY LEU GLN THR SEQRES 2 B 228 PRO GLY GLY ALA LEU SER LEU VAL CYS LYS ALA SER GLY SEQRES 3 B 228 PHE ILE PHE SER ASP TYR GLY MET ASN TRP VAL ARG GLN SEQRES 4 B 228 ALA PRO GLY LYS GLY LEU GLU PHE VAL ALA GLN ILE THR SEQRES 5 B 228 SER GLY SER ARG THR TYR TYR GLY ALA ALA VAL LYS GLY SEQRES 6 B 228 ARG ALA THR ILE SER ARG ASP ASN ARG GLN SER THR VAL SEQRES 7 B 228 LYS LEU GLN LEU ASN ASN LEU ARG ALA GLU ASP THR GLY SEQRES 8 B 228 ILE TYR PHE CYS ALA ARG ASP PHE GLY SER GLY VAL GLY SEQRES 9 B 228 SER ILE ASP ALA TRP GLY ASN GLY THR GLU VAL ILE VAL SEQRES 10 B 228 SER SER ALA SER THR LYS GLY PRO SER VAL PHE PRO LEU SEQRES 11 B 228 ALA PRO SER SER LYS SER THR SER GLY GLY THR ALA ALA SEQRES 12 B 228 LEU GLY CYS LEU VAL LYS ASP TYR PHE PRO GLU PRO VAL SEQRES 13 B 228 THR VAL SER TRP ASN SER GLY ALA LEU THR SER GLY VAL SEQRES 14 B 228 HIS THR PHE PRO ALA VAL LEU GLN SER SER GLY LEU TYR SEQRES 15 B 228 SER LEU SER SER VAL VAL THR VAL PRO SER SER SER LEU SEQRES 16 B 228 GLY THR GLN THR TYR ILE CYS ASN VAL ASN HIS LYS PRO SEQRES 17 B 228 SER ASN THR LYS VAL ASP LYS LYS VAL GLU PRO LYS SER SEQRES 18 B 228 CYS HIS HIS HIS HIS HIS HIS SEQRES 1 C 127 GLU GLU GLU LEU GLN VAL ILE GLN PRO ASP LYS SER VAL SEQRES 2 C 127 LEU VAL ALA ALA GLY GLU THR ALA THR LEU ARG CYS THR SEQRES 3 C 127 ALA THR SER LEU ILE PRO VAL GLY PRO ILE GLN TRP PHE SEQRES 4 C 127 ARG GLY ALA GLY PRO GLY ARG GLU LEU ILE TYR ASN GLN SEQRES 5 C 127 LYS GLU GLY HIS PHE PRO ARG VAL THR THR VAL SER ASP SEQRES 6 C 127 LEU THR LYS ARG ASN ASN MET ASP PHE SER ILE ARG ILE SEQRES 7 C 127 GLY ALA ILE THR PRO ALA ASP ALA GLY THR TYR TYR CYS SEQRES 8 C 127 VAL LYS PHE ARG LYS GLY SER PRO ASP ASP VAL GLU PHE SEQRES 9 C 127 LYS SER GLY ALA GLY THR GLU LEU SER VAL ARG ALA LYS SEQRES 10 C 127 PRO SER THR ARG HIS HIS HIS HIS HIS HIS FORMUL 4 HOH *655(H2 O) HELIX 1 AA1 GLN A 74 GLU A 78 5 5 HELIX 2 AA2 SER A 116 SER A 122 1 7 HELIX 3 AA3 LYS A 178 GLU A 182 1 5 HELIX 4 AA4 ILE B 28 TYR B 32 5 5 HELIX 5 AA5 ALA B 61 LYS B 64 5 4 HELIX 6 AA6 ARG B 86 THR B 90 5 5 HELIX 7 AA7 SER B 101 GLY B 104 5 4 HELIX 8 AA8 SER B 162 ALA B 164 5 3 HELIX 9 AA9 SER B 193 LEU B 195 5 3 HELIX 10 AB1 LYS B 207 ASN B 210 5 4 HELIX 11 AB2 THR C 82 ALA C 86 5 5 SHEET 1 AA1 5 SER A 7 ASN A 11 0 SHEET 2 AA1 5 THR A 97 LEU A 102 1 O LEU A 102 N ALA A 10 SHEET 3 AA1 5 SER A 79 TYR A 86 -1 N TYR A 81 O THR A 97 SHEET 4 AA1 5 TYR A 27 GLN A 32 -1 N TYR A 30 O PHE A 82 SHEET 5 AA1 5 VAL A 40 ILE A 43 -1 O ILE A 43 N TRP A 29 SHEET 1 AA2 4 SER A 7 ASN A 11 0 SHEET 2 AA2 4 THR A 97 LEU A 102 1 O LEU A 102 N ALA A 10 SHEET 3 AA2 4 SER A 79 TYR A 86 -1 N TYR A 81 O THR A 97 SHEET 4 AA2 4 ASP A 91 PHE A 93 -1 O ILE A 92 N SER A 85 SHEET 1 AA3 3 THR A 15 SER A 21 0 SHEET 2 AA3 3 THR A 65 THR A 71 -1 O SER A 66 N CYS A 20 SHEET 3 AA3 3 PHE A 57 SER A 62 -1 N SER A 58 O THR A 69 SHEET 1 AA4 4 SER A 109 PHE A 113 0 SHEET 2 AA4 4 THR A 124 PHE A 134 -1 O ASN A 132 N SER A 109 SHEET 3 AA4 4 TYR A 168 SER A 177 -1 O LEU A 176 N ALA A 125 SHEET 4 AA4 4 SER A 154 VAL A 158 -1 N GLN A 155 O THR A 173 SHEET 1 AA5 4 ALA A 148 LEU A 149 0 SHEET 2 AA5 4 LYS A 140 VAL A 145 -1 N VAL A 145 O ALA A 148 SHEET 3 AA5 4 VAL A 186 THR A 192 -1 O GLU A 190 N GLN A 142 SHEET 4 AA5 4 VAL A 200 ASN A 205 -1 O VAL A 200 N VAL A 191 SHEET 1 AA6 4 THR B 3 SER B 7 0 SHEET 2 AA6 4 LEU B 18 SER B 25 -1 O VAL B 21 N SER B 7 SHEET 3 AA6 4 THR B 77 LEU B 82 -1 O LEU B 80 N LEU B 20 SHEET 4 AA6 4 ALA B 67 ASP B 72 -1 N THR B 68 O GLN B 81 SHEET 1 AA7 6 GLY B 10 GLN B 12 0 SHEET 2 AA7 6 THR B 113 VAL B 117 1 O GLU B 114 N GLY B 10 SHEET 3 AA7 6 GLY B 91 ASP B 98 -1 N TYR B 93 O THR B 113 SHEET 4 AA7 6 GLY B 33 GLN B 39 -1 N VAL B 37 O PHE B 94 SHEET 5 AA7 6 LEU B 45 ILE B 51 -1 O GLU B 46 N ARG B 38 SHEET 6 AA7 6 THR B 57 TYR B 59 -1 O TYR B 58 N GLN B 50 SHEET 1 AA8 4 GLY B 10 GLN B 12 0 SHEET 2 AA8 4 THR B 113 VAL B 117 1 O GLU B 114 N GLY B 10 SHEET 3 AA8 4 GLY B 91 ASP B 98 -1 N TYR B 93 O THR B 113 SHEET 4 AA8 4 ILE B 106 TRP B 109 -1 O ALA B 108 N ARG B 97 SHEET 1 AA9 4 SER B 126 LEU B 130 0 SHEET 2 AA9 4 THR B 141 TYR B 151 -1 O LEU B 147 N PHE B 128 SHEET 3 AA9 4 TYR B 182 PRO B 191 -1 O LEU B 184 N VAL B 148 SHEET 4 AA9 4 VAL B 169 THR B 171 -1 N HIS B 170 O VAL B 187 SHEET 1 AB1 4 SER B 126 LEU B 130 0 SHEET 2 AB1 4 THR B 141 TYR B 151 -1 O LEU B 147 N PHE B 128 SHEET 3 AB1 4 TYR B 182 PRO B 191 -1 O LEU B 184 N VAL B 148 SHEET 4 AB1 4 VAL B 175 LEU B 176 -1 N VAL B 175 O SER B 183 SHEET 1 AB2 3 THR B 157 TRP B 160 0 SHEET 2 AB2 3 ILE B 201 HIS B 206 -1 O ASN B 203 N SER B 159 SHEET 3 AB2 3 THR B 211 LYS B 216 -1 O VAL B 213 N VAL B 204 SHEET 1 AB3 2 VAL C 6 ILE C 7 0 SHEET 2 AB3 2 THR C 26 ALA C 27 -1 O THR C 26 N ILE C 7 SHEET 1 AB4 5 SER C 12 ALA C 16 0 SHEET 2 AB4 5 THR C 110 ARG C 115 1 O GLU C 111 N VAL C 13 SHEET 3 AB4 5 GLY C 87 ARG C 95 -1 N GLY C 87 O LEU C 112 SHEET 4 AB4 5 ILE C 36 ARG C 40 -1 N GLN C 37 O VAL C 92 SHEET 5 AB4 5 GLU C 47 ASN C 51 -1 O ILE C 49 N TRP C 38 SHEET 1 AB5 4 SER C 12 ALA C 16 0 SHEET 2 AB5 4 THR C 110 ARG C 115 1 O GLU C 111 N VAL C 13 SHEET 3 AB5 4 GLY C 87 ARG C 95 -1 N GLY C 87 O LEU C 112 SHEET 4 AB5 4 VAL C 102 SER C 106 -1 O PHE C 104 N LYS C 93 SHEET 1 AB6 3 ALA C 21 LEU C 23 0 SHEET 2 AB6 3 ILE C 76 ILE C 78 -1 O ILE C 76 N LEU C 23 SHEET 3 AB6 3 VAL C 60 THR C 62 -1 N THR C 61 O ARG C 77 SSBOND 1 CYS A 20 CYS A 83 1555 1555 2.22 SSBOND 2 CYS A 129 CYS A 189 1555 1555 1.97 SSBOND 3 CYS B 22 CYS B 95 1555 1555 2.20 SSBOND 4 CYS B 146 CYS B 202 1555 1555 2.09 SSBOND 5 CYS C 25 CYS C 91 1555 1555 2.17 CISPEP 1 TYR A 135 PRO A 136 0 2.06 CISPEP 2 PHE B 152 PRO B 153 0 -13.70 CISPEP 3 GLU B 154 PRO B 155 0 -3.98 CISPEP 4 ILE C 31 PRO C 32 0 -2.43 CISPEP 5 SER C 98 PRO C 99 0 8.66 CRYST1 126.370 126.370 229.670 90.00 90.00 90.00 I 4 2 2 16 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 0.007913 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007913 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004354 0.00000