HEADER MEMBRANE PROTEIN, SIGNALING PROTEIN 13-MAR-08 3CJJ TITLE CRYSTAL STRUCTURE OF HUMAN RAGE LIGAND-BINDING DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADVANCED GLYCOSYLATION END PRODUCT-SPECIFIC RECEPTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: V AND C1 DOMAIN, LIGAND-BINDING DOMAIN; COMPND 5 SYNONYM: RECEPTOR FOR ADVANCED GLYCOSYLATION END PRODUCTS; COMPND 6 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: AGER, RAGE; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)ORIGAMI B; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET14B KEYWDS MEMBRANE PROTEIN, SIGNALING PROTEIN, IMMUNOGLOBULIN DOMAIN, KEYWDS 2 GLYCOPROTEIN, MEMBRANE, SECRETED, TRANSMEMBRANE EXPDTA X-RAY DIFFRACTION AUTHOR M.KOCH,B.M.DATTILO,A.SCHIEFNER,J.DIEZ,W.J.CHAZIN,G.FRITZ REVDAT 3 28-DEC-11 3CJJ 1 JRNL REVDAT 2 13-JUL-11 3CJJ 1 VERSN REVDAT 1 24-MAR-09 3CJJ 0 JRNL AUTH M.KOCH,S.CHITAYAT,B.M.DATTILO,A.SCHIEFNER,J.DIEZ,W.J.CHAZIN, JRNL AUTH 2 G.FRITZ JRNL TITL STRUCTURAL BASIS FOR LIGAND RECOGNITION AND ACTIVATION OF JRNL TITL 2 RAGE. JRNL REF STRUCTURE V. 18 1342 2010 JRNL REFN ISSN 0969-2126 JRNL PMID 20947022 JRNL DOI 10.1016/J.STR.2010.05.017 REMARK 2 REMARK 2 RESOLUTION. 1.85 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 23063 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1154 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1595 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.2750 REMARK 3 BIN FREE R VALUE SET COUNT : 84 REMARK 3 BIN FREE R VALUE : 0.3010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1687 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 229 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 33.66 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.02000 REMARK 3 B22 (A**2) : -1.05000 REMARK 3 B33 (A**2) : 2.07000 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): 0.145 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.134 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.114 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.375 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1752 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2389 ; 1.988 ; 1.982 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 224 ; 8.127 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 71 ;42.082 ;23.239 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 293 ;18.168 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;24.105 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 259 ; 0.118 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1347 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 770 ; 0.239 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1133 ; 0.312 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 180 ; 0.212 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 9 ; 0.202 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 88 ; 0.225 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 26 ; 0.204 ; 0.200 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): 1139 ; 1.146 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1804 ; 1.876 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 694 ; 2.695 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 582 ; 4.466 ; 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 : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 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 22 A 123 REMARK 3 ORIGIN FOR THE GROUP (A): 48.0470 2.8250 12.2390 REMARK 3 T TENSOR REMARK 3 T11: 0.1136 T22: 0.0671 REMARK 3 T33: 0.0448 T12: -0.0058 REMARK 3 T13: -0.0174 T23: 0.0276 REMARK 3 L TENSOR REMARK 3 L11: 2.9504 L22: 4.0614 REMARK 3 L33: 0.9267 L12: -0.2360 REMARK 3 L13: 0.2978 L23: -1.1947 REMARK 3 S TENSOR REMARK 3 S11: 0.1025 S12: -0.1309 S13: -0.4383 REMARK 3 S21: -0.0310 S22: -0.1556 S23: -0.3221 REMARK 3 S31: 0.0446 S32: 0.0187 S33: 0.0531 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 124 A 240 REMARK 3 ORIGIN FOR THE GROUP (A): 34.6950 38.9630 -5.6250 REMARK 3 T TENSOR REMARK 3 T11: 0.0978 T22: 0.0575 REMARK 3 T33: -0.0030 T12: 0.0317 REMARK 3 T13: -0.0132 T23: 0.0517 REMARK 3 L TENSOR REMARK 3 L11: 2.3318 L22: 2.9834 REMARK 3 L33: 2.5100 L12: -1.9635 REMARK 3 L13: 1.8111 L23: -2.3890 REMARK 3 S TENSOR REMARK 3 S11: -0.0343 S12: 0.1695 S13: 0.3365 REMARK 3 S21: 0.1198 S22: -0.1555 S23: -0.1816 REMARK 3 S31: -0.1391 S32: 0.1083 S33: 0.1898 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 3CJJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-MAR-08. REMARK 100 THE RCSB ID CODE IS RCSB046852. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-AUG-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.008, 1.28, 1.283 REMARK 200 MONOCHROMATOR : AL FILTER REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD DETECTOR REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XSCALE REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23066 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 35.180 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.3800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.58900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M NA CACODYLATE, 0.2M ZN ACETATE, REMARK 280 11% PEG 8000, PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 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 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 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 -1.000000 0.000000 0.000000 37.42500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 59.98000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 37.42500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 59.98000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: 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 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 ZN ZN A 3 O HOH A 397 1.64 REMARK 500 O HOH A 316 O HOH A 334 2.06 REMARK 500 OD1 ASN A 25 NH2 ARG A 116 2.19 REMARK 500 O LYS A 174 O HOH A 316 2.19 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 GLN A 239 CG GLN A 239 CD 0.174 REMARK 500 GLN A 239 CD GLN A 239 OE1 0.133 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 PRO A 71 C - N - CA ANGL. DEV. = 14.5 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 GLN A 67 -61.12 160.69 REMARK 500 PRO A 71 -143.93 -52.37 REMARK 500 SER A 74 147.81 145.67 REMARK 500 VAL A 75 -133.93 -115.46 REMARK 500 ALA A 88 109.67 -160.13 REMARK 500 ARG A 104 64.16 -110.93 REMARK 500 PRO A 151 -168.30 -69.21 REMARK 500 PRO A 166 0.96 -62.01 REMARK 500 ARG A 216 90.79 -66.89 REMARK 500 ARG A 218 138.34 -34.61 REMARK 500 LEU A 235 61.01 -151.75 REMARK 500 GLU A 236 52.59 -144.89 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 2 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 158 NE2 REMARK 620 2 ACT A 1 O 97.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 3 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 217 NE2 REMARK 620 2 HOH A 394 O 100.3 REMARK 620 3 HOH A 454 O 101.9 110.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 5 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 470 O REMARK 620 2 HOH A 444 O 143.4 REMARK 620 3 ASP A 128 OD1 80.6 102.0 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: NULL REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: NULL REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 241 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: NULL REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: NULL REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: NULL REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 5 DBREF 3CJJ A 23 240 UNP Q15109 RAGE_HUMAN 23 240 SEQADV 3CJJ MET A 22 UNP Q15109 INITIATING METHIONINE SEQRES 1 A 219 MET ALA GLN ASN ILE THR ALA ARG ILE GLY GLU PRO LEU SEQRES 2 A 219 VAL LEU LYS CYS LYS GLY ALA PRO LYS LYS PRO PRO GLN SEQRES 3 A 219 ARG LEU GLU TRP LYS LEU ASN THR GLY ARG THR GLU ALA SEQRES 4 A 219 TRP LYS VAL LEU SER PRO GLN GLY GLY GLY PRO TRP ASP SEQRES 5 A 219 SER VAL ALA ARG VAL LEU PRO ASN GLY SER LEU PHE LEU SEQRES 6 A 219 PRO ALA VAL GLY ILE GLN ASP GLU GLY ILE PHE ARG CYS SEQRES 7 A 219 GLN ALA MET ASN ARG ASN GLY LYS GLU THR LYS SER ASN SEQRES 8 A 219 TYR ARG VAL ARG VAL TYR GLN ILE PRO GLY LYS PRO GLU SEQRES 9 A 219 ILE VAL ASP SER ALA SER GLU LEU THR ALA GLY VAL PRO SEQRES 10 A 219 ASN LYS VAL GLY THR CYS VAL SER GLU GLY SER TYR PRO SEQRES 11 A 219 ALA GLY THR LEU SER TRP HIS LEU ASP GLY LYS PRO LEU SEQRES 12 A 219 VAL PRO ASN GLU LYS GLY VAL SER VAL LYS GLU GLN THR SEQRES 13 A 219 ARG ARG HIS PRO GLU THR GLY LEU PHE THR LEU GLN SER SEQRES 14 A 219 GLU LEU MET VAL THR PRO ALA ARG GLY GLY ASP PRO ARG SEQRES 15 A 219 PRO THR PHE SER CYS SER PHE SER PRO GLY LEU PRO ARG SEQRES 16 A 219 HIS ARG ALA LEU ARG THR ALA PRO ILE GLN PRO ARG VAL SEQRES 17 A 219 TRP GLU PRO VAL PRO LEU GLU GLU VAL GLN LEU HET ACT A 1 4 HET ZN A 2 1 HET ZN A 3 1 HET ZN A 4 2 HET ZN A 5 1 HETNAM ACT ACETATE ION HETNAM ZN ZINC ION FORMUL 2 ACT C2 H3 O2 1- FORMUL 3 ZN 4(ZN 2+) FORMUL 7 HOH *229(H2 O) HELIX 1 1 GLY A 90 ASP A 93 5 4 SHEET 1 A 5 GLN A 24 ARG A 29 0 SHEET 2 A 5 GLU A 108 TYR A 118 1 O ARG A 114 N ILE A 26 SHEET 3 A 5 GLY A 95 MET A 102 -1 N PHE A 97 O TYR A 113 SHEET 4 A 5 LEU A 49 THR A 55 -1 N LYS A 52 O ARG A 98 SHEET 5 A 5 LYS A 62 LEU A 64 -1 O LEU A 64 N TRP A 51 SHEET 1 B 3 LEU A 34 LEU A 36 0 SHEET 2 B 3 LEU A 84 LEU A 86 -1 O LEU A 84 N LEU A 36 SHEET 3 B 3 ARG A 77 VAL A 78 -1 N ARG A 77 O PHE A 85 SHEET 1 C 4 GLU A 125 VAL A 127 0 SHEET 2 C 4 ASN A 139 SER A 149 -1 O THR A 143 N VAL A 127 SHEET 3 C 4 PHE A 186 VAL A 194 -1 O SER A 190 N CYS A 144 SHEET 4 C 4 VAL A 171 ARG A 179 -1 N LYS A 174 O GLU A 191 SHEET 1 D 2 GLU A 132 THR A 134 0 SHEET 2 D 2 ARG A 228 TRP A 230 1 O TRP A 230 N LEU A 133 SHEET 1 E 4 LYS A 162 PRO A 163 0 SHEET 2 E 4 THR A 154 LEU A 159 -1 N LEU A 159 O LYS A 162 SHEET 3 E 4 PHE A 206 SER A 211 -1 O SER A 207 N HIS A 158 SHEET 4 E 4 LEU A 220 ARG A 221 -1 O LEU A 220 N PHE A 210 SSBOND 1 CYS A 38 CYS A 99 1555 1555 2.07 SSBOND 2 CYS A 144 CYS A 208 1555 1555 2.05 LINK OE1 GLU A 59 ZN A ZN A 4 1555 1555 2.00 LINK NE2 HIS A 158 ZN ZN A 2 1555 1555 2.01 LINK NE2 HIS A 217 ZN ZN A 3 1555 1555 1.90 LINK O ACT A 1 ZN ZN A 2 1555 1555 1.79 LINK ZN ZN A 3 O HOH A 394 1555 1555 2.16 LINK ZN ZN A 3 O HOH A 454 1555 1555 1.98 LINK ZN ZN A 5 O HOH A 470 1555 1555 1.79 LINK ZN ZN A 5 O HOH A 444 1555 1555 1.74 LINK OD1 ASP A 128 ZN ZN A 5 1555 1555 2.55 CISPEP 1 PRO A 45 PRO A 46 0 -4.49 CISPEP 2 GLN A 67 GLY A 68 0 -4.83 CISPEP 3 GLY A 68 GLY A 69 0 -2.81 CISPEP 4 GLY A 69 GLY A 70 0 7.24 CISPEP 5 GLY A 70 PRO A 71 0 -4.97 CISPEP 6 PRO A 71 TRP A 72 0 21.59 CISPEP 7 TRP A 72 ASP A 73 0 18.51 CISPEP 8 SER A 74 VAL A 75 0 19.64 CISPEP 9 ARG A 104 ASN A 105 0 -8.94 CISPEP 10 ASN A 105 GLY A 106 0 -11.47 CISPEP 11 TYR A 150 PRO A 151 0 -4.63 CISPEP 12 GLY A 199 GLY A 200 0 20.71 CISPEP 13 LEU A 214 PRO A 215 0 0.27 SITE 1 AC1 8 SER A 156 TRP A 157 HIS A 158 PRO A 163 SITE 2 AC1 8 HIS A 180 PRO A 181 GLU A 182 HOH A 289 SITE 1 AC2 4 HIS A 158 HIS A 180 GLU A 182 HOH A 434 SITE 1 AC3 4 HIS A 217 HOH A 394 HOH A 397 HOH A 454 SITE 1 AC4 7 GLU A 59 ASP A 160 ASP A 201 HOH A 444 SITE 2 AC4 7 HOH A 446 HOH A 461 HOH A 469 SITE 1 AC5 4 ASP A 128 HOH A 444 HOH A 446 HOH A 470 SITE 1 AC6 9 ZN A 2 SER A 156 TRP A 157 HIS A 158 SITE 2 AC6 9 PRO A 163 HIS A 180 PRO A 181 GLU A 182 SITE 3 AC6 9 HOH A 289 SITE 1 AC7 5 ACT A 1 HIS A 158 HIS A 180 GLU A 182 SITE 2 AC7 5 HOH A 434 SITE 1 AC8 4 HIS A 217 HOH A 394 HOH A 397 HOH A 454 SITE 1 AC9 7 GLU A 59 ASP A 160 ASP A 201 HOH A 444 SITE 2 AC9 7 HOH A 446 HOH A 461 HOH A 469 SITE 1 AD1 4 ASP A 128 HOH A 444 HOH A 446 HOH A 470 CRYST1 74.850 119.960 28.890 90.00 90.00 90.00 P 21 21 2 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.013360 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008336 0.000000 0.00000 SCALE3 0.000000 0.000000 0.034614 0.00000