HEADER CELL ADHESION 15-NOV-13 4NN0 TITLE CRYSTAL STRUCTURE OF THE C1QTNF5 GLOBULAR DOMAIN IN SPACE GROUP P63 COMPND MOL_ID: 1; COMPND 2 MOLECULE: COMPLEMENT C1Q TUMOR NECROSIS FACTOR-RELATED PROTEIN 5; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: GLOBULAR DOMAIN (UNP RESIDUES 103-243); COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: C1QTNF5, CTRP5, UNQ303/PRO344; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS L-ORMD, LATE ONSET RETINAL MACULAR DEGENERATION, S163R, 10-STRAND KEYWDS 2 JELLY-ROLL FOLD, CELLULAR ADHESION, CELL ADHESION EXPDTA X-RAY DIFFRACTION AUTHOR X.TU,K.PALCZEWSKI REVDAT 3 20-SEP-23 4NN0 1 REMARK SEQADV REVDAT 2 23-APR-14 4NN0 1 JRNL REVDAT 1 26-MAR-14 4NN0 0 JRNL AUTH X.TU,K.PALCZEWSKI JRNL TITL THE MACULAR DEGENERATION-LINKED C1QTNF5 (S163) MUTATION JRNL TITL 2 CAUSES HIGHER-ORDER STRUCTURAL REARRANGEMENTS. JRNL REF J.STRUCT.BIOL. V. 186 86 2014 JRNL REFN ISSN 1047-8477 JRNL PMID 24531000 JRNL DOI 10.1016/J.JSB.2014.02.001 REMARK 2 REMARK 2 RESOLUTION. 1.42 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 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) : 1.42 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 134.27 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 68699 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) : 0.106 REMARK 3 R VALUE (WORKING SET) : 0.104 REMARK 3 FREE R VALUE : 0.142 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3645 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) : 1.42 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4530 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.95 REMARK 3 BIN R VALUE (WORKING SET) : 0.0970 REMARK 3 BIN FREE R VALUE SET COUNT : 223 REMARK 3 BIN FREE R VALUE : 0.1470 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3241 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 95 REMARK 3 SOLVENT ATOMS : 294 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.41 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 7.05000 REMARK 3 B22 (A**2) : 7.05000 REMARK 3 B33 (A**2) : -14.10000 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): 0.010 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.010 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.022 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.173 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.983 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.972 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3476 ; 0.012 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3162 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4707 ; 1.645 ; 1.944 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7269 ; 1.384 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 425 ; 7.573 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 156 ;30.022 ;23.077 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 480 ;13.498 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;17.560 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 486 ; 0.104 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3960 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 860 ; 0.004 ; 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): 6638 ;19.770 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 51 ;38.543 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 6796 ;24.356 ; 5.000 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 : 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 REMARK 4 REMARK 4 4NN0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-JAN-14. REMARK 100 THE DEPOSITION ID IS D_1000083406. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUL-12 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DPS REMARK 200 DATA SCALING SOFTWARE : DPS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 72440 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.420 REMARK 200 RESOLUTION RANGE LOW (A) : 134.270 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 8.200 REMARK 200 R MERGE (I) : 0.04100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 30.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.42 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.12200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 8.400 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: PDB ENTRY 4F3J REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2 M AMMONIUM SULFATE, 0.1 M SODIUM REMARK 280 ACETATE, PH 5.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 134.26550 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 134.26550 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 134.26550 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: 12630 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15660 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 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: 9780 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -42.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 -25.30150 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 43.82348 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -50.60300 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 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: 7830 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15600 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 S SO4 A 313 LIES ON A SPECIAL POSITION. REMARK 375 O2 SO4 A 313 LIES ON A SPECIAL POSITION. REMARK 375 S SO4 B 306 LIES ON A SPECIAL POSITION. REMARK 375 O4 SO4 B 306 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 401 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 429 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 510 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 514 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 518 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 401 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 427 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 503 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 509 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 401 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 SER A 239 REMARK 465 PRO A 240 REMARK 465 VAL A 241 REMARK 465 PHE A 242 REMARK 465 ALA A 243 REMARK 465 HIS A 244 REMARK 465 HIS A 245 REMARK 465 HIS A 246 REMARK 465 HIS A 247 REMARK 465 HIS A 248 REMARK 465 HIS A 249 REMARK 465 ALA B 243 REMARK 465 HIS B 244 REMARK 465 HIS B 245 REMARK 465 HIS B 246 REMARK 465 HIS B 247 REMARK 465 HIS B 248 REMARK 465 HIS B 249 REMARK 465 PRO C 240 REMARK 465 VAL C 241 REMARK 465 PHE C 242 REMARK 465 ALA C 243 REMARK 465 HIS C 244 REMARK 465 HIS C 245 REMARK 465 HIS C 246 REMARK 465 HIS C 247 REMARK 465 HIS C 248 REMARK 465 HIS C 249 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 PHE B 242 CG CD1 CD2 CE1 CE2 CZ 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 ASN A 131 61.23 -159.71 REMARK 500 ARG A 161 -13.74 76.31 REMARK 500 ALA A 189 -164.97 -101.52 REMARK 500 GLU A 202 -11.70 83.34 REMARK 500 ASN B 131 68.12 -162.45 REMARK 500 ARG B 161 -13.66 76.08 REMARK 500 ALA B 189 -164.19 -102.12 REMARK 500 GLU B 202 -11.86 82.34 REMARK 500 SER C 104 119.49 -162.51 REMARK 500 ASN C 131 59.50 -157.45 REMARK 500 ARG C 161 -7.75 66.14 REMARK 500 ALA C 189 -162.87 -103.30 REMARK 500 GLU C 202 -10.86 82.58 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 RESIDUE EDO A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 311 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 312 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 313 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 314 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO C 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4F3J RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF C1QTNF5 GLOBULAR DOMAIN IN SPACE GROUP OF H3 DBREF 4NN0 A 103 243 UNP Q9BXJ0 C1QT5_HUMAN 103 243 DBREF 4NN0 B 103 243 UNP Q9BXJ0 C1QT5_HUMAN 103 243 DBREF 4NN0 C 103 243 UNP Q9BXJ0 C1QT5_HUMAN 103 243 SEQADV 4NN0 ALA A 102 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS A 244 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS A 245 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS A 246 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS A 247 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS A 248 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS A 249 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 ALA B 102 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS B 244 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS B 245 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS B 246 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS B 247 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS B 248 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS B 249 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 ALA C 102 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS C 244 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS C 245 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS C 246 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS C 247 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS C 248 UNP Q9BXJ0 EXPRESSION TAG SEQADV 4NN0 HIS C 249 UNP Q9BXJ0 EXPRESSION TAG SEQRES 1 A 148 ALA ARG SER ALA PHE SER ALA LYS ARG SER GLU SER ARG SEQRES 2 A 148 VAL PRO PRO PRO SER ASP ALA PRO LEU PRO PHE ASP ARG SEQRES 3 A 148 VAL LEU VAL ASN GLU GLN GLY HIS TYR ASP ALA VAL THR SEQRES 4 A 148 GLY LYS PHE THR CYS GLN VAL PRO GLY VAL TYR TYR PHE SEQRES 5 A 148 ALA VAL HIS ALA THR VAL TYR ARG ALA SER LEU GLN PHE SEQRES 6 A 148 ASP LEU VAL LYS ASN GLY GLU SER ILE ALA SER PHE PHE SEQRES 7 A 148 GLN PHE PHE GLY GLY TRP PRO LYS PRO ALA SER LEU SER SEQRES 8 A 148 GLY GLY ALA MET VAL ARG LEU GLU PRO GLU ASP GLN VAL SEQRES 9 A 148 TRP VAL GLN VAL GLY VAL GLY ASP TYR ILE GLY ILE TYR SEQRES 10 A 148 ALA SER ILE LYS THR ASP SER THR PHE SER GLY PHE LEU SEQRES 11 A 148 VAL TYR SER ASP TRP HIS SER SER PRO VAL PHE ALA HIS SEQRES 12 A 148 HIS HIS HIS HIS HIS SEQRES 1 B 148 ALA ARG SER ALA PHE SER ALA LYS ARG SER GLU SER ARG SEQRES 2 B 148 VAL PRO PRO PRO SER ASP ALA PRO LEU PRO PHE ASP ARG SEQRES 3 B 148 VAL LEU VAL ASN GLU GLN GLY HIS TYR ASP ALA VAL THR SEQRES 4 B 148 GLY LYS PHE THR CYS GLN VAL PRO GLY VAL TYR TYR PHE SEQRES 5 B 148 ALA VAL HIS ALA THR VAL TYR ARG ALA SER LEU GLN PHE SEQRES 6 B 148 ASP LEU VAL LYS ASN GLY GLU SER ILE ALA SER PHE PHE SEQRES 7 B 148 GLN PHE PHE GLY GLY TRP PRO LYS PRO ALA SER LEU SER SEQRES 8 B 148 GLY GLY ALA MET VAL ARG LEU GLU PRO GLU ASP GLN VAL SEQRES 9 B 148 TRP VAL GLN VAL GLY VAL GLY ASP TYR ILE GLY ILE TYR SEQRES 10 B 148 ALA SER ILE LYS THR ASP SER THR PHE SER GLY PHE LEU SEQRES 11 B 148 VAL TYR SER ASP TRP HIS SER SER PRO VAL PHE ALA HIS SEQRES 12 B 148 HIS HIS HIS HIS HIS SEQRES 1 C 148 ALA ARG SER ALA PHE SER ALA LYS ARG SER GLU SER ARG SEQRES 2 C 148 VAL PRO PRO PRO SER ASP ALA PRO LEU PRO PHE ASP ARG SEQRES 3 C 148 VAL LEU VAL ASN GLU GLN GLY HIS TYR ASP ALA VAL THR SEQRES 4 C 148 GLY LYS PHE THR CYS GLN VAL PRO GLY VAL TYR TYR PHE SEQRES 5 C 148 ALA VAL HIS ALA THR VAL TYR ARG ALA SER LEU GLN PHE SEQRES 6 C 148 ASP LEU VAL LYS ASN GLY GLU SER ILE ALA SER PHE PHE SEQRES 7 C 148 GLN PHE PHE GLY GLY TRP PRO LYS PRO ALA SER LEU SER SEQRES 8 C 148 GLY GLY ALA MET VAL ARG LEU GLU PRO GLU ASP GLN VAL SEQRES 9 C 148 TRP VAL GLN VAL GLY VAL GLY ASP TYR ILE GLY ILE TYR SEQRES 10 C 148 ALA SER ILE LYS THR ASP SER THR PHE SER GLY PHE LEU SEQRES 11 C 148 VAL TYR SER ASP TRP HIS SER SER PRO VAL PHE ALA HIS SEQRES 12 C 148 HIS HIS HIS HIS HIS HET EDO A 301 4 HET EDO A 302 4 HET EDO A 303 4 HET EDO A 304 4 HET EDO A 305 4 HET EDO A 306 4 HET EDO A 307 4 HET EDO A 308 4 HET EDO A 309 4 HET EDO A 310 4 HET EDO A 311 4 HET EDO A 312 4 HET SO4 A 313 5 HET ACT A 314 4 HET EDO B 301 4 HET EDO B 302 4 HET EDO B 303 4 HET EDO B 304 4 HET EDO B 305 4 HET SO4 B 306 5 HET SO4 B 307 5 HET ACT B 308 4 HET EDO C 301 4 HETNAM EDO 1,2-ETHANEDIOL HETNAM SO4 SULFATE ION HETNAM ACT ACETATE ION HETSYN EDO ETHYLENE GLYCOL FORMUL 4 EDO 18(C2 H6 O2) FORMUL 16 SO4 3(O4 S 2-) FORMUL 17 ACT 2(C2 H3 O2 1-) FORMUL 27 HOH *294(H2 O) SHEET 1 A 5 ARG A 127 VAL A 130 0 SHEET 2 A 5 ALA A 105 LYS A 109 -1 N SER A 107 O LEU A 129 SHEET 3 A 5 THR A 226 SER A 234 -1 O PHE A 227 N ALA A 108 SHEET 4 A 5 GLY A 149 LYS A 170 -1 N VAL A 150 O VAL A 232 SHEET 5 A 5 ALA A 189 LEU A 199 -1 O LEU A 191 N ALA A 157 SHEET 1 B 5 GLU A 173 GLN A 180 0 SHEET 2 B 5 GLY A 149 LYS A 170 -1 N LEU A 168 O ILE A 175 SHEET 3 B 5 GLN A 204 GLN A 208 -1 O GLN A 208 N ASP A 167 SHEET 4 B 5 LYS A 142 THR A 144 -1 N PHE A 143 O VAL A 205 SHEET 5 B 5 TYR A 136 ASP A 137 -1 N ASP A 137 O LYS A 142 SHEET 1 C 5 ARG A 127 VAL A 130 0 SHEET 2 C 5 ALA A 105 LYS A 109 -1 N SER A 107 O LEU A 129 SHEET 3 C 5 THR A 226 SER A 234 -1 O PHE A 227 N ALA A 108 SHEET 4 C 5 GLY A 149 LYS A 170 -1 N VAL A 150 O VAL A 232 SHEET 5 C 5 ILE A 215 TYR A 218 -1 O GLY A 216 N TYR A 160 SHEET 1 D 5 ARG B 127 VAL B 130 0 SHEET 2 D 5 ALA B 105 LYS B 109 -1 N SER B 107 O LEU B 129 SHEET 3 D 5 THR B 226 SER B 234 -1 O PHE B 227 N ALA B 108 SHEET 4 D 5 GLY B 149 LYS B 170 -1 N VAL B 150 O VAL B 232 SHEET 5 D 5 ALA B 189 LEU B 199 -1 O LEU B 191 N ALA B 157 SHEET 1 E 5 GLU B 173 GLN B 180 0 SHEET 2 E 5 GLY B 149 LYS B 170 -1 N LEU B 168 O ILE B 175 SHEET 3 E 5 GLN B 204 GLN B 208 -1 O GLN B 208 N ASP B 167 SHEET 4 E 5 LYS B 142 THR B 144 -1 N PHE B 143 O VAL B 205 SHEET 5 E 5 TYR B 136 ASP B 137 -1 N ASP B 137 O LYS B 142 SHEET 1 F 5 ARG B 127 VAL B 130 0 SHEET 2 F 5 ALA B 105 LYS B 109 -1 N SER B 107 O LEU B 129 SHEET 3 F 5 THR B 226 SER B 234 -1 O PHE B 227 N ALA B 108 SHEET 4 F 5 GLY B 149 LYS B 170 -1 N VAL B 150 O VAL B 232 SHEET 5 F 5 ILE B 215 TYR B 218 -1 O GLY B 216 N TYR B 160 SHEET 1 G 5 ARG C 127 VAL C 130 0 SHEET 2 G 5 ALA C 105 LYS C 109 -1 N SER C 107 O LEU C 129 SHEET 3 G 5 THR C 226 SER C 234 -1 O PHE C 227 N ALA C 108 SHEET 4 G 5 GLY C 149 LYS C 170 -1 N VAL C 150 O VAL C 232 SHEET 5 G 5 GLU C 173 GLN C 180 -1 O ILE C 175 N LEU C 168 SHEET 1 H 4 ALA C 189 LEU C 199 0 SHEET 2 H 4 GLY C 149 LYS C 170 -1 N ALA C 157 O LEU C 191 SHEET 3 H 4 GLN C 204 GLN C 208 -1 O GLN C 208 N ASP C 167 SHEET 4 H 4 PHE C 143 THR C 144 -1 N PHE C 143 O VAL C 205 SHEET 1 I 5 ARG C 127 VAL C 130 0 SHEET 2 I 5 ALA C 105 LYS C 109 -1 N SER C 107 O LEU C 129 SHEET 3 I 5 THR C 226 SER C 234 -1 O PHE C 227 N ALA C 108 SHEET 4 I 5 GLY C 149 LYS C 170 -1 N VAL C 150 O VAL C 232 SHEET 5 I 5 ILE C 215 TYR C 218 -1 O GLY C 216 N TYR C 160 SITE 1 AC1 5 ALA A 157 SER A 190 LEU A 191 SER A 192 SITE 2 AC1 5 HOH A 514 SITE 1 AC2 5 PHE A 179 PRO A 188 EDO A 305 EDO A 309 SITE 2 AC2 5 HOH A 416 SITE 1 AC3 6 LYS A 187 EDO A 305 HOH A 459 HOH A 520 SITE 2 AC3 6 TYR B 214 EDO B 301 SITE 1 AC4 5 PRO A 118 SER A 119 ASP A 120 HOH A 460 SITE 2 AC4 5 HOH A 470 SITE 1 AC5 5 TYR A 214 EDO A 302 EDO A 303 HOH A 517 SITE 2 AC5 5 LYS B 187 SITE 1 AC6 3 LYS A 142 GLN A 204 HOH A 458 SITE 1 AC7 5 ALA A 102 TRP A 236 SER C 234 ASP C 235 SITE 2 AC7 5 TRP C 236 SITE 1 AC8 4 ALA A 102 ARG A 103 HOH A 489 EDO C 301 SITE 1 AC9 5 TYR A 160 PRO A 186 PRO A 188 TYR A 218 SITE 2 AC9 5 EDO A 302 SITE 1 BC1 2 LYS A 109 VAL A 128 SITE 1 BC2 5 SER A 234 ASP A 235 TRP A 236 ALA C 102 SITE 2 BC2 5 TRP C 236 SITE 1 BC3 5 ARG A 161 HOH A 421 ARG B 161 TYR B 218 SITE 2 BC3 5 HOH B 512 SITE 1 BC4 4 TRP A 185 HOH A 427 HOH A 429 HOH A 432 SITE 1 BC5 6 SER A 113 ARG A 161 TYR A 218 HOH A 526 SITE 2 BC5 6 HOH A 533 ARG B 114 SITE 1 BC6 3 EDO A 303 HOH B 420 HOH B 516 SITE 1 BC7 2 ALA B 102 ARG B 103 SITE 1 BC8 5 ALA B 157 SER B 190 LEU B 191 SER B 192 SITE 2 BC8 5 HOH B 503 SITE 1 BC9 8 PRO B 118 ALA B 121 PRO B 122 LEU B 123 SITE 2 BC9 8 PRO B 124 HOH B 414 HOH B 470 HOH B 493 SITE 1 CC1 3 LYS B 142 GLN B 204 HOH B 457 SITE 1 CC2 4 TRP B 185 HOH B 427 HOH B 429 HOH B 435 SITE 1 CC3 3 ALA B 102 ARG B 103 ARG C 114 SITE 1 CC4 6 ARG A 114 SER B 113 ARG B 161 TYR B 218 SITE 2 CC4 6 HOH B 525 HOH B 526 SITE 1 CC5 4 EDO A 308 ALA C 102 ARG C 103 HOH C 410 CRYST1 50.603 50.603 268.531 90.00 90.00 120.00 P 63 18 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 0.019762 0.011409 0.000000 0.00000 SCALE2 0.000000 0.022819 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003724 0.00000 MTRIX1 1 1.000000 0.000000 0.000000 0.00000 1 MTRIX2 1 0.000000 1.000000 0.000000 0.00000 1 MTRIX3 1 0.000000 0.000000 1.000000 0.00000 1 MTRIX1 2 -0.496073 0.868275 -0.003155 -25.29180 1 MTRIX2 2 0.868273 0.496081 0.002471 14.73086 1 MTRIX3 2 0.003710 -0.001514 -0.999992 -11.95059 1