PDB Short entry for 4AK3 HEADER STRUCTURAL PROTEIN 21-FEB-12 4AK3 TITLE CRYSTAL STRUCTURE OF HUMAN FIBRILLAR PROCOLLAGEN TYPE III C- TITLE 2 PROPEPTIDE TRIMER COMPND MOL_ID: 1; COMPND 2 MOLECULE: COLLAGEN ALPHA-1(III) CHAIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CPROPEPTIDE, RESIDUES 1222-1466; COMPND 5 SYNONYM: PROCOLLAGEN III; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: 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 EXPRESSION_SYSTEM_CELL_LINE: HEK293T; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PHLSEC KEYWDS STRUCTURAL PROTEIN, FIBRILLAR COLLAGEN, EXTACELLULAR MATRIX, FIBROSIS EXPDTA X-RAY DIFFRACTION AUTHOR J.M.BOURHIS,N.MARIANO,Y.ZHAO,K.HARLOS,E.Y.JONES,C.MOALI,N.AGHAJARI, AUTHOR 2 D.J.S.HULMES REVDAT 4 20-DEC-23 4AK3 1 REMARK LINK REVDAT 3 31-OCT-12 4AK3 1 JRNL REVDAT 2 17-OCT-12 4AK3 1 JRNL REMARK REVDAT 1 12-SEP-12 4AK3 0 JRNL AUTH J.M.BOURHIS,N.MARIANO,Y.ZHAO,K.HARLOS,J.EXPOSITO,E.Y.JONES, JRNL AUTH 2 C.MOALI,N.AGHAJARI,D.J.S.HULMES JRNL TITL STRUCTURAL BASIS OF FIBRILLAR COLLAGEN TRIMERIZATION AND JRNL TITL 2 RELATED GENETIC DISORDERS. JRNL REF NAT.STRUCT.MOL.BIOL. V. 19 1031 2012 JRNL REFN ISSN 1545-9993 JRNL PMID 23001006 JRNL DOI 10.1038/NSMB.2389 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.M.BOURHIS,N.MARIANO,Y.ZHAO,T.S.WALTER,K.EL OMARI, REMARK 1 AUTH 2 F.DELOLME,C.MOALI,D.J.HULMES,N.AGHAJARI REMARK 1 TITL PRODUCTION AND CRYSTALLIZATION OF THE C-PROPEPTIDE TRIMER REMARK 1 TITL 2 FROM HUMAN PROCOLLAGEN III. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 68 1209 2012 REMARK 1 REFN ESSN 1744-3091 REMARK 1 PMID 23027749 REMARK 1 DOI 10.1107/S1744309112035294 REMARK 2 REMARK 2 RESOLUTION. 3.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0116 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) : 3.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.02 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 3954 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) : 0.285 REMARK 3 R VALUE (WORKING SET) : 0.283 REMARK 3 FREE R VALUE : 0.337 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.600 REMARK 3 FREE R VALUE TEST SET COUNT : 192 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) : 3.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.59 REMARK 3 REFLECTION IN BIN (WORKING SET) : 257 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.62 REMARK 3 BIN R VALUE (WORKING SET) : 0.3570 REMARK 3 BIN FREE R VALUE SET COUNT : 8 REMARK 3 BIN FREE R VALUE : 0.3200 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1553 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 1 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 70.73 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : -0.04000 REMARK 3 B12 (A**2) : 0.01000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.759 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.716 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 97.657 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.919 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.776 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1619 ; 0.010 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2222 ; 1.432 ; 1.926 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 223 ; 6.291 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 62 ;36.759 ;24.032 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 179 ;15.779 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;23.008 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 244 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1289 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 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 14 A 247 REMARK 3 ORIGIN FOR THE GROUP (A): 24.1330 17.6626 0.1744 REMARK 3 T TENSOR REMARK 3 T11: 0.2483 T22: 0.2227 REMARK 3 T33: 0.4328 T12: 0.0373 REMARK 3 T13: 0.0450 T23: -0.0228 REMARK 3 L TENSOR REMARK 3 L11: 5.2604 L22: 2.5658 REMARK 3 L33: 6.8709 L12: -1.0753 REMARK 3 L13: -2.7492 L23: 1.3016 REMARK 3 S TENSOR REMARK 3 S11: -0.4975 S12: -0.1981 S13: -0.7822 REMARK 3 S21: 0.4534 S22: 0.2466 S23: 0.4391 REMARK 3 S31: 0.5723 S32: -0.2731 S33: 0.2509 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. HYDROGENS HAVE BEEN USED IF PRESENT IN THE INPUT REMARK 4 REMARK 4 4AK3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-FEB-12. REMARK 100 THE DEPOSITION ID IS D_1290050918. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-MAY-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.976 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 4149 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.500 REMARK 200 RESOLUTION RANGE LOW (A) : 43.030 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.200 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 7.900 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.63 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 8.20 REMARK 200 R MERGE FOR SHELL (I) : 0.64000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 4AE2 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 3 2 1 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-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 -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 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 -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 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: 3310 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30290 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -72.3 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 43.02350 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 74.51889 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 -0.866025 0.000000 86.04700 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 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 GLU A -10 REMARK 465 THR A -9 REMARK 465 GLY A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 SER A -1 REMARK 465 ALA A 0 REMARK 465 ASP A 1 REMARK 465 GLU A 2 REMARK 465 PRO A 3 REMARK 465 MET A 4 REMARK 465 ASP A 5 REMARK 465 PHE A 6 REMARK 465 LYS A 7 REMARK 465 ILE A 8 REMARK 465 ASN A 9 REMARK 465 THR A 10 REMARK 465 ASP A 11 REMARK 465 GLU A 12 REMARK 465 ILE A 13 REMARK 465 ASP A 112 REMARK 465 GLY A 113 REMARK 465 ASN A 175 REMARK 465 GLU A 176 REMARK 465 GLU A 202 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 MET A 14 CG SD CE REMARK 470 THR A 15 OG1 CG2 REMARK 470 SER A 16 OG REMARK 470 LEU A 17 CG CD1 CD2 REMARK 470 LYS A 18 CD CE NZ REMARK 470 SER A 19 OG REMARK 470 VAL A 20 CG1 CG2 REMARK 470 LYS A 35 CG CD CE NZ REMARK 470 ARG A 39 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 40 CG OD1 ND2 REMARK 470 ARG A 42 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 44 CG CD1 CD2 REMARK 470 LYS A 45 CG CD CE NZ REMARK 470 PHE A 46 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LEU A 51 CG CD1 CD2 REMARK 470 LYS A 52 CG CD CE NZ REMARK 470 GLU A 55 CG CD OE1 OE2 REMARK 470 LYS A 65 CG CD CE NZ REMARK 470 LEU A 66 CG CD1 CD2 REMARK 470 LYS A 70 CG CD CE NZ REMARK 470 LEU A 87 CG CD1 CD2 REMARK 470 LYS A 92 CG CD CE NZ REMARK 470 HIS A 93 CG ND1 CD2 CE1 NE2 REMARK 470 ASP A 97 CG OD1 OD2 REMARK 470 GLU A 101 CG CD OE1 OE2 REMARK 470 LYS A 102 CG CD CE NZ REMARK 470 LYS A 103 CG CD CE NZ REMARK 470 VAL A 105 CG1 CG2 REMARK 470 GLU A 109 CG CD OE1 OE2 REMARK 470 MET A 111 CG SD CE REMARK 470 GLU A 123 CG CD OE1 OE2 REMARK 470 GLU A 126 CG CD OE1 OE2 REMARK 470 LEU A 129 CG CD1 CD2 REMARK 470 GLN A 132 CG CD OE1 NE2 REMARK 470 LEU A 133 CG CD1 CD2 REMARK 470 PHE A 135 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LEU A 136 CG CD1 CD2 REMARK 470 LEU A 138 CG CD1 CD2 REMARK 470 SER A 141 OG REMARK 470 ARG A 142 CG CD NE CZ NH1 NH2 REMARK 470 TYR A 149 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 152 CB CG CD CE NZ REMARK 470 ASN A 153 CB CG OD1 ND2 REMARK 470 ALA A 156 CB REMARK 470 MET A 158 CG SD CE REMARK 470 GLN A 160 CG CD OE1 NE2 REMARK 470 ASN A 164 CG OD1 ND2 REMARK 470 LYS A 166 CG CD CE NZ REMARK 470 LYS A 167 CG CD CE NZ REMARK 470 MET A 172 CG SD CE REMARK 470 ASN A 184 CG OD1 ND2 REMARK 470 SER A 185 OG REMARK 470 LYS A 186 CG CD CE NZ REMARK 470 LYS A 198 CG CD CE NZ REMARK 470 THR A 200 OG1 CG2 REMARK 470 LYS A 205 CG CD CE NZ REMARK 470 ARG A 213 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 214 CG CD CE NZ REMARK 470 TYR A 226 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ILE A 228 CG1 CG2 CD1 REMARK 470 ASP A 232 CG OD1 OD2 REMARK 470 GLN A 233 CG CD OE1 NE2 REMARK 470 GLU A 234 CG CD OE1 OE2 REMARK 470 ASP A 238 CG OD1 OD2 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 CH2 TRP A 203 CB GLU A 234 1.96 REMARK 500 OG SER A 99 O GLU A 101 2.05 REMARK 500 O CYS A 151 CA TRP A 203 2.08 REMARK 500 O CYS A 151 N SER A 204 2.15 REMARK 500 O GLN A 23 OG SER A 26 2.16 REMARK 500 CB ASP A 97 O GLY A 229 2.18 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 GLN A 62 -128.14 51.55 REMARK 500 TYR A 157 -70.41 -135.84 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 CA A 246 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 59 OD1 REMARK 620 2 ASP A 59 OD2 50.2 REMARK 620 3 ASN A 61 OD1 77.8 101.3 REMARK 620 4 GLN A 62 O 96.3 61.0 74.7 REMARK 620 5 CYS A 64 O 114.2 67.8 140.8 67.1 REMARK 620 6 ASP A 67 OD1 99.7 125.4 116.5 162.1 98.8 REMARK 620 7 HOH A2001 O 151.3 145.7 75.1 85.6 93.1 84.2 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 246 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2V53 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A SPARC-COLLAGEN COMPLEX REMARK 900 RELATED ID: 4AE2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN FIBRILLAR PROCOLLAGEN TYPE III C- REMARK 900 PROPEPTIDE TRIMER REMARK 900 RELATED ID: 4AEJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN FIBRILLAR PROCOLLAGEN TYPE III C- REMARK 900 PROPEPTIDE TRIMER DBREF 4AK3 A 1 245 UNP P02461 CO3A1_HUMAN 1222 1466 SEQADV 4AK3 GLU A -10 UNP P02461 EXPRESSION TAG SEQADV 4AK3 THR A -9 UNP P02461 EXPRESSION TAG SEQADV 4AK3 GLY A -8 UNP P02461 EXPRESSION TAG SEQADV 4AK3 HIS A -7 UNP P02461 EXPRESSION TAG SEQADV 4AK3 HIS A -6 UNP P02461 EXPRESSION TAG SEQADV 4AK3 HIS A -5 UNP P02461 EXPRESSION TAG SEQADV 4AK3 HIS A -4 UNP P02461 EXPRESSION TAG SEQADV 4AK3 HIS A -3 UNP P02461 EXPRESSION TAG SEQADV 4AK3 HIS A -2 UNP P02461 EXPRESSION TAG SEQADV 4AK3 SER A -1 UNP P02461 EXPRESSION TAG SEQADV 4AK3 ALA A 0 UNP P02461 EXPRESSION TAG SEQADV 4AK3 GLN A 132 UNP P02461 HIS 1353 CONFLICT SEQADV 4AK3 GLN A 146 UNP P02461 ASN 1367 ENGINEERED MUTATION SEQRES 1 A 256 GLU THR GLY HIS HIS HIS HIS HIS HIS SER ALA ASP GLU SEQRES 2 A 256 PRO MET ASP PHE LYS ILE ASN THR ASP GLU ILE MET THR SEQRES 3 A 256 SER LEU LYS SER VAL ASN GLY GLN ILE GLU SER LEU ILE SEQRES 4 A 256 SER PRO ASP GLY SER ARG LYS ASN PRO ALA ARG ASN CYS SEQRES 5 A 256 ARG ASP LEU LYS PHE CYS HIS PRO GLU LEU LYS SER GLY SEQRES 6 A 256 GLU TYR TRP VAL ASP PRO ASN GLN GLY CYS LYS LEU ASP SEQRES 7 A 256 ALA ILE LYS VAL PHE CYS ASN MET GLU THR GLY GLU THR SEQRES 8 A 256 CYS ILE SER ALA ASN PRO LEU ASN VAL PRO ARG LYS HIS SEQRES 9 A 256 TRP TRP THR ASP SER SER ALA GLU LYS LYS HIS VAL TRP SEQRES 10 A 256 PHE GLY GLU SER MET ASP GLY GLY PHE GLN PHE SER TYR SEQRES 11 A 256 GLY ASN PRO GLU LEU PRO GLU ASP VAL LEU ASP VAL GLN SEQRES 12 A 256 LEU ALA PHE LEU ARG LEU LEU SER SER ARG ALA SER GLN SEQRES 13 A 256 GLN ILE THR TYR HIS CYS LYS ASN SER ILE ALA TYR MET SEQRES 14 A 256 ASP GLN ALA SER GLY ASN VAL LYS LYS ALA LEU LYS LEU SEQRES 15 A 256 MET GLY SER ASN GLU GLY GLU PHE LYS ALA GLU GLY ASN SEQRES 16 A 256 SER LYS PHE THR TYR THR VAL LEU GLU ASP GLY CYS THR SEQRES 17 A 256 LYS HIS THR GLY GLU TRP SER LYS THR VAL PHE GLU TYR SEQRES 18 A 256 ARG THR ARG LYS ALA VAL ARG LEU PRO ILE VAL ASP ILE SEQRES 19 A 256 ALA PRO TYR ASP ILE GLY GLY PRO ASP GLN GLU PHE GLY SEQRES 20 A 256 VAL ASP VAL GLY PRO VAL CYS PHE LEU HET CA A 246 1 HETNAM CA CALCIUM ION FORMUL 2 CA CA 2+ FORMUL 3 HOH *(H2 O) HELIX 1 1 MET A 14 SER A 29 1 16 HELIX 2 2 ASN A 40 HIS A 48 1 9 HELIX 3 3 PRO A 125 SER A 140 1 16 HELIX 4 4 ASN A 184 PHE A 187 5 4 HELIX 5 5 LYS A 214 LEU A 218 5 5 SHEET 1 AA 7 GLY A 54 VAL A 58 0 SHEET 2 AA 7 ILE A 69 CYS A 73 -1 O ILE A 69 N VAL A 58 SHEET 3 AA 7 THR A 80 ILE A 82 -1 O CYS A 81 N PHE A 72 SHEET 4 AA 7 GLU A 234 LEU A 245 -1 O VAL A 242 N ILE A 82 SHEET 5 AA 7 ARG A 142 LYS A 152 -1 O ARG A 142 N LEU A 245 SHEET 6 AA 7 SER A 204 THR A 212 -1 O SER A 204 N CYS A 151 SHEET 7 AA 7 THR A 190 ASP A 194 -1 O THR A 190 N GLU A 209 SHEET 1 AB 5 GLY A 54 VAL A 58 0 SHEET 2 AB 5 ILE A 69 CYS A 73 -1 O ILE A 69 N VAL A 58 SHEET 3 AB 5 THR A 80 ILE A 82 -1 O CYS A 81 N PHE A 72 SHEET 4 AB 5 GLU A 234 LEU A 245 -1 O VAL A 242 N ILE A 82 SHEET 5 AB 5 ASN A 88 LYS A 92 -1 O VAL A 89 N VAL A 237 SHEET 1 AC 2 ALA A 84 ASN A 85 0 SHEET 2 AC 2 SER A 118 TYR A 119 -1 O SER A 118 N ASN A 85 SHEET 1 AD 3 GLU A 178 LYS A 180 0 SHEET 2 AD 3 LYS A 170 MET A 172 -1 O LEU A 171 N PHE A 179 SHEET 3 AD 3 ASP A 222 ALA A 224 -1 O ASP A 222 N MET A 172 SSBOND 1 CYS A 41 CYS A 73 1555 1555 2.02 SSBOND 2 CYS A 47 CYS A 64 1555 3665 2.04 SSBOND 3 CYS A 81 CYS A 243 1555 1555 2.05 SSBOND 4 CYS A 151 CYS A 196 1555 1555 1.84 LINK OD1 ASP A 59 CA CA A 246 1555 1555 2.33 LINK OD2 ASP A 59 CA CA A 246 1555 1555 2.78 LINK OD1 ASN A 61 CA CA A 246 1555 1555 2.47 LINK O GLN A 62 CA CA A 246 1555 1555 2.52 LINK O CYS A 64 CA CA A 246 1555 1555 2.43 LINK OD1 ASP A 67 CA CA A 246 1555 1555 1.90 LINK CA CA A 246 O HOH A2001 1555 1555 2.38 CISPEP 1 ASN A 85 PRO A 86 0 -2.02 CISPEP 2 LEU A 218 PRO A 219 0 9.27 SITE 1 AC1 6 ASP A 59 ASN A 61 GLN A 62 CYS A 64 SITE 2 AC1 6 ASP A 67 HOH A2001 CRYST1 86.047 86.047 72.952 90.00 90.00 120.00 P 3 2 1 6 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 0.011622 0.006710 0.000000 0.00000 SCALE2 0.000000 0.013419 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013708 0.00000