HEADER CELL ADHESION 07-MAY-12 4F1J TITLE CRYSTAL STRUCTURE OF THE MG2+ LOADED VWA DOMAIN OF PLASMODIUM TITLE 2 FALCIPARUM TRAP PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: THROMBOSPONDIN RELATED ANONYMOUS PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: THROMBOSPONDIN-RELATED ADHESIVE PROTEIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM; SOURCE 3 ORGANISM_TAXID: 5833; SOURCE 4 GENE: THROMBOSPONDIN RELATED ANONYMOUS PROTEIN (TRAP), TRAP; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PRAT4 KEYWDS ROSSMANN FOLD, CELL ADHESION, DINUCLEOTIDE BINDING, MEMBRANE EXPDTA X-RAY DIFFRACTION AUTHOR T.PIHLAJAMAA,J.KNUUTI,T.KAJANDER,A.SHARMA,P.PERMI REVDAT 2 22-MAY-13 4F1J 1 JRNL REVDAT 1 30-JAN-13 4F1J 0 JRNL AUTH T.PIHLAJAMAA,T.KAJANDER,J.KNUUTI,K.HORKKA,A.SHARMA,P.PERMI JRNL TITL STRUCTURE OF PLASMODIUM FALCIPARUM TRAP JRNL TITL 2 (THROMBOSPONDIN-RELATED ANONYMOUS PROTEIN) A DOMAIN JRNL TITL 3 HIGHLIGHTS DISTINCT FEATURES IN APICOMPLEXAN VON WILLEBRAND JRNL TITL 4 FACTOR A HOMOLOGUES. JRNL REF BIOCHEM.J. V. 450 469 2013 JRNL REFN ISSN 0264-6021 JRNL PMID 23317521 JRNL DOI 10.1042/BJ20121058 REMARK 2 REMARK 2 RESOLUTION. 1.73 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.73 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 42440 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) : 0.177 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2235 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) : 1.73 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3020 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.1990 REMARK 3 BIN FREE R VALUE SET COUNT : 159 REMARK 3 BIN FREE R VALUE : 0.2490 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3088 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 89 REMARK 3 SOLVENT ATOMS : 391 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 11.15 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.07000 REMARK 3 B22 (A**2) : 0.07000 REMARK 3 B33 (A**2) : -0.14000 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): 0.112 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.112 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.068 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.029 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3271 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2189 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4427 ; 1.399 ; 1.967 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5366 ; 0.932 ; 3.003 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 417 ; 6.106 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 149 ;37.355 ;25.302 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 576 ;11.893 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ; 8.109 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 509 ; 0.090 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3604 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 598 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 717 ; 0.207 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2400 ; 0.193 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1563 ; 0.171 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1672 ; 0.085 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 299 ; 0.147 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.039 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 17 ; 0.269 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 65 ; 0.261 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 16 ; 0.206 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): 1 ; 0.113 ; 0.200 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): 2204 ; 0.921 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 820 ; 0.221 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3271 ; 1.246 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1330 ; 2.196 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1148 ; 3.208 ; 4.500 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 43 A 238 5 REMARK 3 1 B 43 B 238 5 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 1151 ; 0.09 ; 0.50 REMARK 3 LOOSE POSITIONAL 1 A (A): 1352 ; 0.37 ; 5.00 REMARK 3 MEDIUM THERMAL 1 A (A**2): 1151 ; 0.62 ; 2.00 REMARK 3 LOOSE THERMAL 1 A (A**2): 1352 ; 1.11 ; 10.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 REMARK 4 REMARK 4 4F1J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-MAY-12. REMARK 100 THE RCSB ID CODE IS RCSB072337. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-MAY-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : BARTELS MONOCHROMATOR REMARK 200 OPTICS : THE OPTICAL ELEMENTS CONSIST OF REMARK 200 A VERTICALLY COLLIMATING MIRROR REMARK 200 (M1, FOCUS AT INFINITY) FOLLOWED REMARK 200 BY A BARTELS MONOCHROMATOR WITH REMARK 200 DUAL CHANNEL CUT CRYSTALS (DCCM) REMARK 200 IN (+--+) GEOMETRY, AND A REMARK 200 TOROIDAL MIRROR (M2) TO REMARK 200 VERTICALLY AND HORIZONTALLY FOCUS REMARK 200 THE BEAM AT THE SAMPLE POSITION REMARK 200 (WITH 2:1 HORIZONTAL REMARK 200 DEMAGNIFICATION) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : 1.730 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 10.271 REMARK 200 R MERGE (I) : 0.13000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.7200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.73 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : 10.00 REMARK 200 R MERGE FOR SHELL (I) : 0.85300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SIRAS REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG 3350, 0.1M BIS-TRIS, 0.2M REMARK 280 MAGNESIUM SULFATE, PH 5.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -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 -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 52.09600 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 44.65650 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 44.65650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 78.14400 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 44.65650 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 44.65650 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 26.04800 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 44.65650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 44.65650 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 78.14400 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 44.65650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 44.65650 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 26.04800 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 52.09600 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 MET A 40 REMARK 465 THR A 241 REMARK 465 ALA A 242 REMARK 465 MET B 40 REMARK 465 THR B 241 REMARK 465 ALA B 242 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 GLU A 112 CD OE1 OE2 REMARK 470 LYS A 142 CE NZ REMARK 470 ARG A 176 CD NE CZ NH1 NH2 REMARK 470 GLN A 192 OE1 NE2 REMARK 470 LYS A 211 CG CD CE NZ REMARK 470 GLU A 237 CG CD OE1 OE2 REMARK 470 GLU A 239 CG CD OE1 OE2 REMARK 470 LYS A 240 CG CD CE NZ REMARK 470 LYS B 66 CD CE NZ REMARK 470 GLU B 112 CD OE1 OE2 REMARK 470 ASN B 152 CG OD1 ND2 REMARK 470 ARG B 176 CD NE CZ NH1 NH2 REMARK 470 GLN B 192 CD OE1 NE2 REMARK 470 LYS B 211 CG CD CE NZ REMARK 470 GLU B 221 CG CD OE1 OE2 REMARK 470 LYS B 224 CG CD CE NZ REMARK 470 LYS B 240 CD CE NZ 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 ARG A 60 135.97 73.56 REMARK 500 HIS A 67 -52.50 -130.56 REMARK 500 ASN A 82 146.39 -172.26 REMARK 500 ALA A 85 -125.26 -135.12 REMARK 500 SER A 94 -87.75 -144.49 REMARK 500 ARG A 130 -150.47 -93.75 REMARK 500 ARG B 60 153.00 71.03 REMARK 500 HIS B 67 -53.43 -123.46 REMARK 500 ALA B 85 -122.69 -135.23 REMARK 500 SER B 94 -85.97 -146.31 REMARK 500 SER B 123 56.93 -96.00 REMARK 500 ARG B 130 -150.87 -92.04 REMARK 500 SER B 208 -33.18 -137.51 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 MG B 305 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 595 O REMARK 620 2 HOH B 509 O 99.2 REMARK 620 3 HOH B 479 O 93.5 95.8 REMARK 620 4 HOH B 594 O 95.1 84.5 171.2 REMARK 620 5 ASP B 170 OD2 86.3 173.8 81.0 97.9 REMARK 620 6 SER B 134 OG 175.6 82.1 90.5 80.8 92.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 412 O REMARK 620 2 HOH A 409 O 84.8 REMARK 620 3 ASP A 162 OD1 176.4 91.7 REMARK 620 4 SER A 58 OG 91.7 87.0 88.9 REMARK 620 5 HOH A 415 O 95.4 100.6 84.4 170.1 REMARK 620 6 SER A 56 OG 94.7 173.4 88.9 86.5 86.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 306 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 588 O REMARK 620 2 HOH A 423 O 176.1 REMARK 620 3 ASP A 170 OD2 101.3 81.4 REMARK 620 4 HOH A 587 O 96.5 86.4 89.1 REMARK 620 5 SER A 134 OG 85.1 91.7 98.2 172.1 REMARK 620 6 HOH A 458 O 85.0 92.3 173.4 92.3 80.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 425 O REMARK 620 2 SER B 58 OG 96.1 REMARK 620 3 ASP B 162 OD1 174.5 88.4 REMARK 620 4 HOH B 426 O 91.6 171.7 84.1 REMARK 620 5 HOH B 435 O 88.0 89.6 88.8 93.8 REMARK 620 6 SER B 56 OG 95.1 91.0 88.0 85.2 176.8 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG 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 EDO A 313 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 314 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 311 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4F1K RELATED DB: PDB DBREF 4F1J A 41 242 UNP Q01502 Q01502_PLAFA 41 242 DBREF 4F1J B 41 242 UNP Q01502 Q01502_PLAFA 41 242 SEQADV 4F1J MET A 40 UNP Q01502 EXPRESSION TAG SEQADV 4F1J MET B 40 UNP Q01502 EXPRESSION TAG SEQRES 1 A 203 MET GLU VAL CYS ASN ASP GLU VAL ASP LEU TYR LEU LEU SEQRES 2 A 203 MET ASP CYS SER GLY SER ILE ARG ARG HIS ASN TRP VAL SEQRES 3 A 203 LYS HIS ALA VAL PRO LEU ALA MET LYS LEU ILE GLN GLN SEQRES 4 A 203 LEU ASN LEU ASN GLU ASN ALA ILE HIS LEU TYR ALA ASN SEQRES 5 A 203 ILE PHE SER ASN ASN ALA LYS GLU ILE ILE ARG LEU HIS SEQRES 6 A 203 SER ASP ALA SER LYS ASN LYS GLU LYS ALA LEU ILE ILE SEQRES 7 A 203 ILE LYS SER LEU LEU SER THR ASN LEU PRO TYR GLY ARG SEQRES 8 A 203 THR ASN LEU SER ASP ALA LEU LEU GLN VAL ARG LYS HIS SEQRES 9 A 203 LEU ASN ASP ARG ILE ASN ARG GLU ASN ALA ASN GLN LEU SEQRES 10 A 203 VAL VAL ILE LEU THR ASP GLY ILE PRO ASP SER ILE GLN SEQRES 11 A 203 ASP SER LEU LYS GLU SER ARG LYS LEU ASN ASP ARG GLY SEQRES 12 A 203 VAL LYS ILE ALA VAL PHE GLY ILE GLY GLN GLY ILE ASN SEQRES 13 A 203 VAL ALA PHE ASN ARG PHE LEU VAL GLY CYS HIS PRO SER SEQRES 14 A 203 ASP GLY LYS CYS ASN LEU TYR ALA ASP SER ALA TRP GLU SEQRES 15 A 203 ASN VAL LYS ASN VAL ILE GLY PRO PHE MET LYS ALA VAL SEQRES 16 A 203 CYS VAL GLU VAL GLU LYS THR ALA SEQRES 1 B 203 MET GLU VAL CYS ASN ASP GLU VAL ASP LEU TYR LEU LEU SEQRES 2 B 203 MET ASP CYS SER GLY SER ILE ARG ARG HIS ASN TRP VAL SEQRES 3 B 203 LYS HIS ALA VAL PRO LEU ALA MET LYS LEU ILE GLN GLN SEQRES 4 B 203 LEU ASN LEU ASN GLU ASN ALA ILE HIS LEU TYR ALA ASN SEQRES 5 B 203 ILE PHE SER ASN ASN ALA LYS GLU ILE ILE ARG LEU HIS SEQRES 6 B 203 SER ASP ALA SER LYS ASN LYS GLU LYS ALA LEU ILE ILE SEQRES 7 B 203 ILE LYS SER LEU LEU SER THR ASN LEU PRO TYR GLY ARG SEQRES 8 B 203 THR ASN LEU SER ASP ALA LEU LEU GLN VAL ARG LYS HIS SEQRES 9 B 203 LEU ASN ASP ARG ILE ASN ARG GLU ASN ALA ASN GLN LEU SEQRES 10 B 203 VAL VAL ILE LEU THR ASP GLY ILE PRO ASP SER ILE GLN SEQRES 11 B 203 ASP SER LEU LYS GLU SER ARG LYS LEU ASN ASP ARG GLY SEQRES 12 B 203 VAL LYS ILE ALA VAL PHE GLY ILE GLY GLN GLY ILE ASN SEQRES 13 B 203 VAL ALA PHE ASN ARG PHE LEU VAL GLY CYS HIS PRO SER SEQRES 14 B 203 ASP GLY LYS CYS ASN LEU TYR ALA ASP SER ALA TRP GLU SEQRES 15 B 203 ASN VAL LYS ASN VAL ILE GLY PRO PHE MET LYS ALA VAL SEQRES 16 B 203 CYS VAL GLU VAL GLU LYS THR ALA HET MG A 301 1 HET SO4 A 302 5 HET SO4 A 303 5 HET SO4 A 304 5 HET SO4 A 305 5 HET MG A 306 1 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 EDO A 313 4 HET CL A 314 1 HET MG B 301 1 HET SO4 B 302 5 HET SO4 B 303 5 HET SO4 B 304 5 HET MG B 305 1 HET EDO B 306 4 HET EDO B 307 4 HET EDO B 308 4 HET EDO B 309 4 HET EDO B 310 4 HET CL B 311 1 HETNAM MG MAGNESIUM ION HETNAM SO4 SULFATE ION HETNAM EDO 1,2-ETHANEDIOL HETNAM CL CHLORIDE ION HETSYN EDO ETHYLENE GLYCOL FORMUL 3 MG 4(MG 2+) FORMUL 4 SO4 7(O4 S 2-) FORMUL 9 EDO 12(C2 H6 O2) FORMUL 16 CL 2(CL 1-) FORMUL 28 HOH *391(H2 O) HELIX 1 1 SER A 56 ILE A 59 5 4 HELIX 2 2 ARG A 60 HIS A 67 1 8 HELIX 3 3 HIS A 67 GLN A 78 1 12 HELIX 4 4 ASN A 110 SER A 120 1 11 HELIX 5 5 ASN A 132 ASP A 146 1 15 HELIX 6 6 SER A 167 ARG A 181 1 15 HELIX 7 7 ASN A 195 VAL A 203 1 9 HELIX 8 8 ALA A 219 GLU A 221 5 3 HELIX 9 9 ASN A 222 LYS A 240 1 19 HELIX 10 10 SER B 56 SER B 58 5 3 HELIX 11 11 ILE B 59 HIS B 67 1 9 HELIX 12 12 HIS B 67 GLN B 78 1 12 HELIX 13 13 ASP B 106 LYS B 109 5 4 HELIX 14 14 ASN B 110 SER B 120 1 11 HELIX 15 15 LEU B 121 SER B 123 5 3 HELIX 16 16 ASN B 132 ASP B 146 1 15 HELIX 17 17 SER B 167 ARG B 181 1 15 HELIX 18 18 ASN B 195 VAL B 203 1 9 HELIX 19 19 ALA B 219 GLU B 221 5 3 HELIX 20 20 ASN B 222 LYS B 240 1 19 SHEET 1 A 6 ALA A 97 ILE A 101 0 SHEET 2 A 6 ILE A 86 PHE A 93 -1 N ALA A 90 O ILE A 100 SHEET 3 A 6 VAL A 47 ASP A 54 1 N LEU A 51 O TYR A 89 SHEET 4 A 6 ASN A 154 THR A 161 1 O LEU A 156 N TYR A 50 SHEET 5 A 6 LYS A 184 ILE A 190 1 O PHE A 188 N ILE A 159 SHEET 6 A 6 TYR A 215 SER A 218 1 O ALA A 216 N GLY A 189 SHEET 1 B 6 ALA B 97 ILE B 101 0 SHEET 2 B 6 ILE B 86 PHE B 93 -1 N ILE B 92 O LYS B 98 SHEET 3 B 6 VAL B 47 ASP B 54 1 N LEU B 51 O TYR B 89 SHEET 4 B 6 ASN B 154 THR B 161 1 O LEU B 156 N TYR B 50 SHEET 5 B 6 LYS B 184 ILE B 190 1 O PHE B 188 N ILE B 159 SHEET 6 B 6 TYR B 215 SER B 218 1 O ALA B 216 N GLY B 189 SSBOND 1 CYS A 43 CYS A 235 1555 1555 2.05 SSBOND 2 CYS A 205 CYS A 212 1555 1555 2.07 SSBOND 3 CYS B 43 CYS B 235 1555 1555 2.04 SSBOND 4 CYS B 205 CYS B 212 1555 1555 2.05 LINK MG MG B 305 O HOH B 595 1555 1555 1.94 LINK MG MG A 301 O HOH A 412 1555 1555 1.98 LINK MG MG B 305 O HOH B 509 1555 1555 2.00 LINK MG MG A 306 O HOH A 588 1555 1555 2.01 LINK MG MG A 306 O HOH A 423 1555 1555 2.01 LINK MG MG B 301 O HOH B 425 1555 1555 2.01 LINK MG MG A 301 O HOH A 409 1555 1555 2.03 LINK OG SER B 58 MG MG B 301 1555 1555 2.03 LINK OD1 ASP A 162 MG MG A 301 1555 1555 2.06 LINK MG MG B 305 O HOH B 479 1555 1555 2.06 LINK OD1 ASP B 162 MG MG B 301 1555 1555 2.08 LINK OD2AASP A 170 MG MG A 306 1555 1555 2.08 LINK OG SER A 58 MG MG A 301 1555 1555 2.09 LINK MG MG A 306 O HOH A 587 1555 1555 2.09 LINK MG MG B 305 O HOH B 594 1555 1555 2.10 LINK OD2AASP B 170 MG MG B 305 1555 1555 2.13 LINK MG MG B 301 O HOH B 426 1555 1555 2.13 LINK MG MG B 301 O HOH B 435 1555 1555 2.13 LINK MG MG A 301 O HOH A 415 1555 1555 2.14 LINK OG SER A 134 MG MG A 306 1555 1555 2.15 LINK MG MG A 306 O HOH A 458 1555 1555 2.15 LINK OG SER B 56 MG MG B 301 1555 1555 2.16 LINK OG SER A 56 MG MG A 301 1555 1555 2.20 LINK OG SER B 134 MG MG B 305 1555 1555 2.23 CISPEP 1 LEU A 126 PRO A 127 0 -1.11 CISPEP 2 LEU B 126 PRO B 127 0 -0.94 SITE 1 AC1 6 SER A 56 SER A 58 ASP A 162 HOH A 409 SITE 2 AC1 6 HOH A 412 HOH A 415 SITE 1 AC2 5 ARG A 102 SER A 105 ASP A 106 HOH A 401 SITE 2 AC2 5 HOH A 403 SITE 1 AC3 6 GLY A 191 ALA A 219 TRP A 220 GLU A 221 SITE 2 AC3 6 HOH A 406 HOH A 579 SITE 1 AC4 6 TYR A 128 ARG A 141 ARG A 181 EDO A 311 SITE 2 AC4 6 HOH A 465 HOH A 573 SITE 1 AC5 7 ARG A 61 HOH A 535 ASN B 44 ASN B 80 SITE 2 AC5 7 HOH B 513 HOH B 572 HOH B 600 SITE 1 AC6 6 SER A 134 ASP A 170 HOH A 423 HOH A 458 SITE 2 AC6 6 HOH A 587 HOH A 588 SITE 1 AC7 2 ARG A 102 SER A 105 SITE 1 AC8 6 MET A 53 ASP A 54 ILE A 59 THR A 161 SITE 2 AC8 6 ASP A 162 ILE A 190 SITE 1 AC9 7 CYS A 55 SER A 94 ASN A 95 ASN A 96 SITE 2 AC9 7 LYS A 98 TYR A 128 EDO A 311 SITE 1 BC1 6 CYS A 205 LYS A 211 CYS A 212 ASN A 213 SITE 2 BC1 6 LEU A 214 HOH A 473 SITE 1 BC2 5 ASN A 95 ASN A 96 TYR A 128 SO4 A 304 SITE 2 BC2 5 EDO A 309 SITE 1 BC3 2 HOH A 411 HOH A 519 SITE 1 BC4 3 SER A 167 ILE A 168 GLN A 169 SITE 1 BC5 4 LEU A 133 SER A 134 SER A 167 SER A 171 SITE 1 BC6 6 SER B 56 SER B 58 ASP B 162 HOH B 425 SITE 2 BC6 6 HOH B 426 HOH B 435 SITE 1 BC7 5 GLY B 191 ALA B 219 TRP B 220 HOH B 473 SITE 2 BC7 5 HOH B 592 SITE 1 BC8 6 TYR B 128 ARG B 141 ASN B 145 ARG B 181 SITE 2 BC8 6 HOH B 432 HOH B 503 SITE 1 BC9 7 ARG B 102 SER B 105 ASP B 106 EDO B 310 SITE 2 BC9 7 HOH B 409 HOH B 591 HOH B 598 SITE 1 CC1 6 SER B 134 ASP B 170 HOH B 479 HOH B 509 SITE 2 CC1 6 HOH B 594 HOH B 595 SITE 1 CC2 6 ASP B 54 ILE B 59 THR B 161 ASP B 162 SITE 2 CC2 6 ILE B 190 TRP B 220 SITE 1 CC3 7 CYS B 205 LYS B 211 CYS B 212 ASN B 213 SITE 2 CC3 7 LEU B 214 GLU B 237 HOH B 498 SITE 1 CC4 6 CYS B 55 SER B 94 ASN B 95 ASN B 96 SITE 2 CC4 6 LYS B 98 HOH B 541 SITE 1 CC5 4 LYS B 142 HIS B 143 HOH B 434 HOH B 581 SITE 1 CC6 6 ILE B 100 ARG B 102 SER B 105 SO4 B 304 SITE 2 CC6 6 HOH B 590 HOH B 598 SITE 1 CC7 5 THR B 131 LEU B 133 SER B 134 SER B 167 SITE 2 CC7 5 SER B 171 CRYST1 89.313 89.313 104.192 90.00 90.00 90.00 P 43 21 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 0.011197 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011197 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009598 0.00000