HEADER SIGNALING PROTEIN 04-SEP-18 6AKX TITLE THE CRYSTAL STRUCTURE OF HUMAN CHEMOKINE RECEPTOR CCR5 IN COMPLEX WITH TITLE 2 COMPOUND 21 COMPND MOL_ID: 1; COMPND 2 MOLECULE: C-C CHEMOKINE RECEPTOR TYPE 5,RUBREDOXIN,C-C CHEMOKINE COMPND 3 RECEPTOR TYPE 5; COMPND 4 CHAIN: A, B; COMPND 5 SYNONYM: CCR5,CHEMR13,HIV-1 FUSION CORECEPTOR,RD; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 OTHER_DETAILS: CHIMERA PROTEIN OF C-C CHEMOKINE RECEPTOR TYPE 5 AND COMPND 9 RUBREDOXIN. RUBREDOXIN WAS INSERTED INTO CCR5 BETWEEN RESIDUE 223 AND COMPND 10 227. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS, CLOSTRIDIUM PASTEURIANUM; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606, 1501; SOURCE 5 GENE: CCR5, CMKBR5; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS G PROTEIN-COUPLED RECEPTOR CHEMOKINE RECEPTOR CCR5 ANTAGONIST COMPLEX KEYWDS 2 STRUCTURE, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Y.ZHU,Q.ZHAO,B.WU REVDAT 3 22-NOV-23 6AKX 1 REMARK REVDAT 2 21-NOV-18 6AKX 1 JRNL REVDAT 1 24-OCT-18 6AKX 0 JRNL AUTH P.PENG,H.CHEN,Y.ZHU,Z.WANG,J.LI,R.H.LUO,J.WANG,L.CHEN, JRNL AUTH 2 L.M.YANG,H.JIANG,X.XIE,B.WU,Y.T.ZHENG,H.LIU JRNL TITL STRUCTURE-BASED DESIGN OF 1-HETEROARYL-1,3-PROPANEDIAMINE JRNL TITL 2 DERIVATIVES AS A NOVEL SERIES OF CC-CHEMOKINE RECEPTOR 5 JRNL TITL 3 ANTAGONISTS. JRNL REF J. MED. CHEM. V. 61 9621 2018 JRNL REFN ISSN 1520-4804 JRNL PMID 30234300 JRNL DOI 10.1021/ACS.JMEDCHEM.8B01077 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.3 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.66 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 25389 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) : 0.216 REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.269 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.110 REMARK 3 FREE R VALUE TEST SET COUNT : 1297 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 13 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.91 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.14 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2708 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2108 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2569 REMARK 3 BIN R VALUE (WORKING SET) : 0.2083 REMARK 3 BIN FREE R VALUE : 0.2591 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.13 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 139 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5450 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 76 REMARK 3 SOLVENT ATOMS : 1 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 69.51 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 64.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 6.50340 REMARK 3 B22 (A**2) : -16.54790 REMARK 3 B33 (A**2) : 10.04450 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.410 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.722 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.344 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.776 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.352 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.920 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.893 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 5684 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 7756 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1840 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 102 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 825 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 5684 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 0 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 750 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 6671 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.18 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.47 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 20.64 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6AKX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-SEP-18. REMARK 100 THE DEPOSITION ID IS D_1300008969. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUL-14 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 : SPRING-8 REMARK 200 BEAMLINE : BL41XU 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 : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25389 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.18600 REMARK 200 FOR THE DATA SET : 5.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.72300 REMARK 200 FOR SHELL : NULL 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: 4MBS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 400, HEPES PH 7.5, AMMONIUM REMARK 280 ACETATE, LIPIDIC CUBIC PHASE, TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 36.32000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 68.43500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 51.37000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 68.43500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.32000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 51.37000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 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 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 TOTAL BURIED SURFACE AREA: 10 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -2.0 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 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 GLY A -1 REMARK 465 ALA A 0 REMARK 465 PRO A 1 REMARK 465 ASP A 2 REMARK 465 TYR A 3 REMARK 465 GLN A 4 REMARK 465 VAL A 5 REMARK 465 SER A 6 REMARK 465 SER A 7 REMARK 465 PRO A 8 REMARK 465 ILE A 9 REMARK 465 TYR A 10 REMARK 465 ASP A 11 REMARK 465 ILE A 12 REMARK 465 ASN A 13 REMARK 465 TYR A 14 REMARK 465 TYR A 15 REMARK 465 THR A 16 REMARK 465 SER A 17 REMARK 465 GLU A 18 REMARK 465 PRO A 19 REMARK 465 CYS A 20 REMARK 465 GLN A 21 REMARK 465 VAL A 310 REMARK 465 PHE A 311 REMARK 465 PHE A 312 REMARK 465 GLN A 313 REMARK 465 LYS A 314 REMARK 465 HIS A 315 REMARK 465 ILE A 316 REMARK 465 ALA A 317 REMARK 465 LYS A 318 REMARK 465 ARG A 319 REMARK 465 GLY A 320 REMARK 465 ARG A 321 REMARK 465 PRO A 322 REMARK 465 LEU A 323 REMARK 465 GLU A 324 REMARK 465 VAL A 325 REMARK 465 LEU A 326 REMARK 465 PHE A 327 REMARK 465 GLN A 328 REMARK 465 GLY B -1 REMARK 465 ALA B 0 REMARK 465 PRO B 1 REMARK 465 ASP B 2 REMARK 465 TYR B 3 REMARK 465 GLN B 4 REMARK 465 VAL B 5 REMARK 465 SER B 6 REMARK 465 SER B 7 REMARK 465 PRO B 8 REMARK 465 ILE B 9 REMARK 465 TYR B 10 REMARK 465 ASP B 11 REMARK 465 ILE B 12 REMARK 465 ASN B 13 REMARK 465 TYR B 14 REMARK 465 TYR B 15 REMARK 465 THR B 16 REMARK 465 SER B 17 REMARK 465 GLU B 18 REMARK 465 PRO B 19 REMARK 465 CYS B 20 REMARK 465 GLN B 21 REMARK 465 HIS B 315 REMARK 465 ILE B 316 REMARK 465 ALA B 317 REMARK 465 LYS B 318 REMARK 465 ARG B 319 REMARK 465 GLY B 320 REMARK 465 ARG B 321 REMARK 465 PRO B 322 REMARK 465 LEU B 323 REMARK 465 GLU B 324 REMARK 465 VAL B 325 REMARK 465 LEU B 326 REMARK 465 PHE B 327 REMARK 465 GLN B 328 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 LYS A 22 CG CD CE NZ REMARK 470 ILE A 23 CG1 CG2 CD1 REMARK 470 LYS A 26 CG CD CE NZ REMARK 470 GLN A 27 CG CD OE1 NE2 REMARK 470 TYR A 58 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 59 CD CE NZ REMARK 470 SER A 179 OG REMARK 470 LYS A 191 CD CE NZ REMARK 470 LYS A1002 CE NZ REMARK 470 LYS A1031 CG CD CE NZ REMARK 470 LYS A 228 NZ REMARK 470 LYS A 229 CD CE NZ REMARK 470 LEU A 266 CG CD1 CD2 REMARK 470 GLN A 277 CD OE1 NE2 REMARK 470 GLN A 280 CD OE1 NE2 REMARK 470 ARG A 305 CZ NH1 NH2 REMARK 470 LEU A 308 CG CD1 CD2 REMARK 470 LEU A 309 CG CD1 CD2 REMARK 470 LYS B 22 CG CD CE NZ REMARK 470 LYS B 26 CG CD CE NZ REMARK 470 GLN B 27 CG CD OE1 NE2 REMARK 470 LYS B 59 CD CE NZ REMARK 470 LYS B 138 CD CE NZ REMARK 470 SER B 179 OG REMARK 470 TYR B 184 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS B 228 NZ REMARK 470 LEU B 266 CG CD1 CD2 REMARK 470 GLN B 277 CD OE1 NE2 REMARK 470 ARG B 305 CZ NH1 NH2 REMARK 470 LYS B 314 CG 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 ALA A 92 -101.74 -111.65 REMARK 500 HIS A 132 53.51 -115.57 REMARK 500 LEU A 203 -56.23 -133.04 REMARK 500 ASP A1019 65.79 -154.68 REMARK 500 LEU A1041 -75.07 -86.01 REMARK 500 ASN A 258 -73.87 -67.09 REMARK 500 PHE A 299 -66.68 -95.75 REMARK 500 ARG B 60 19.89 58.32 REMARK 500 ALA B 92 -103.59 -128.34 REMARK 500 ARG B 140 47.03 -82.96 REMARK 500 LEU B 203 -56.53 -135.58 REMARK 500 LEU B1041 -64.29 -93.96 REMARK 500 ASN B 258 -75.87 -68.03 REMARK 500 GLN B 261 9.94 -64.70 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 A2001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1006 SG REMARK 620 2 CYS A1009 SG 106.1 REMARK 620 3 CYS A1039 SG 113.9 96.1 REMARK 620 4 CYS A1042 SG 102.6 121.4 116.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B2001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B1006 SG REMARK 620 2 CYS B1009 SG 114.0 REMARK 620 3 CYS B1039 SG 122.2 99.1 REMARK 620 4 CYS B1042 SG 101.6 107.2 112.3 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 2002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue A4R A 2003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 B 2002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue A4R B 2003 DBREF 6AKX A 2 223 UNP P51681 CCR5_HUMAN 2 223 DBREF 6AKX A 1001 1054 UNP P00268 RUBR_CLOPA 1 54 DBREF 6AKX A 227 319 UNP P51681 CCR5_HUMAN 227 319 DBREF 6AKX B 2 223 UNP P51681 CCR5_HUMAN 2 223 DBREF 6AKX B 1001 1054 UNP P00268 RUBR_CLOPA 1 54 DBREF 6AKX B 227 319 UNP P51681 CCR5_HUMAN 227 319 SEQADV 6AKX GLY A -1 UNP P51681 EXPRESSION TAG SEQADV 6AKX ALA A 0 UNP P51681 EXPRESSION TAG SEQADV 6AKX PRO A 1 UNP P51681 EXPRESSION TAG SEQADV 6AKX TYR A 58 UNP P51681 CYS 58 ENGINEERED MUTATION SEQADV 6AKX ASN A 163 UNP P51681 GLY 163 ENGINEERED MUTATION SEQADV 6AKX ASP A 233 UNP P51681 ALA 233 ENGINEERED MUTATION SEQADV 6AKX GLU A 303 UNP P51681 LYS 303 ENGINEERED MUTATION SEQADV 6AKX GLY A 320 UNP P51681 EXPRESSION TAG SEQADV 6AKX ARG A 321 UNP P51681 EXPRESSION TAG SEQADV 6AKX PRO A 322 UNP P51681 EXPRESSION TAG SEQADV 6AKX LEU A 323 UNP P51681 EXPRESSION TAG SEQADV 6AKX GLU A 324 UNP P51681 EXPRESSION TAG SEQADV 6AKX VAL A 325 UNP P51681 EXPRESSION TAG SEQADV 6AKX LEU A 326 UNP P51681 EXPRESSION TAG SEQADV 6AKX PHE A 327 UNP P51681 EXPRESSION TAG SEQADV 6AKX GLN A 328 UNP P51681 EXPRESSION TAG SEQADV 6AKX GLY B -1 UNP P51681 EXPRESSION TAG SEQADV 6AKX ALA B 0 UNP P51681 EXPRESSION TAG SEQADV 6AKX PRO B 1 UNP P51681 EXPRESSION TAG SEQADV 6AKX TYR B 58 UNP P51681 CYS 58 ENGINEERED MUTATION SEQADV 6AKX ASN B 163 UNP P51681 GLY 163 ENGINEERED MUTATION SEQADV 6AKX ASP B 233 UNP P51681 ALA 233 ENGINEERED MUTATION SEQADV 6AKX GLU B 303 UNP P51681 LYS 303 ENGINEERED MUTATION SEQADV 6AKX GLY B 320 UNP P51681 EXPRESSION TAG SEQADV 6AKX ARG B 321 UNP P51681 EXPRESSION TAG SEQADV 6AKX PRO B 322 UNP P51681 EXPRESSION TAG SEQADV 6AKX LEU B 323 UNP P51681 EXPRESSION TAG SEQADV 6AKX GLU B 324 UNP P51681 EXPRESSION TAG SEQADV 6AKX VAL B 325 UNP P51681 EXPRESSION TAG SEQADV 6AKX LEU B 326 UNP P51681 EXPRESSION TAG SEQADV 6AKX PHE B 327 UNP P51681 EXPRESSION TAG SEQADV 6AKX GLN B 328 UNP P51681 EXPRESSION TAG SEQRES 1 A 381 GLY ALA PRO ASP TYR GLN VAL SER SER PRO ILE TYR ASP SEQRES 2 A 381 ILE ASN TYR TYR THR SER GLU PRO CYS GLN LYS ILE ASN SEQRES 3 A 381 VAL LYS GLN ILE ALA ALA ARG LEU LEU PRO PRO LEU TYR SEQRES 4 A 381 SER LEU VAL PHE ILE PHE GLY PHE VAL GLY ASN MET LEU SEQRES 5 A 381 VAL ILE LEU ILE LEU ILE ASN TYR LYS ARG LEU LYS SER SEQRES 6 A 381 MET THR ASP ILE TYR LEU LEU ASN LEU ALA ILE SER ASP SEQRES 7 A 381 LEU PHE PHE LEU LEU THR VAL PRO PHE TRP ALA HIS TYR SEQRES 8 A 381 ALA ALA ALA GLN TRP ASP PHE GLY ASN THR MET CYS GLN SEQRES 9 A 381 LEU LEU THR GLY LEU TYR PHE ILE GLY PHE PHE SER GLY SEQRES 10 A 381 ILE PHE PHE ILE ILE LEU LEU THR ILE ASP ARG TYR LEU SEQRES 11 A 381 ALA VAL VAL HIS ALA VAL PHE ALA LEU LYS ALA ARG THR SEQRES 12 A 381 VAL THR PHE GLY VAL VAL THR SER VAL ILE THR TRP VAL SEQRES 13 A 381 VAL ALA VAL PHE ALA SER LEU PRO ASN ILE ILE PHE THR SEQRES 14 A 381 ARG SER GLN LYS GLU GLY LEU HIS TYR THR CYS SER SER SEQRES 15 A 381 HIS PHE PRO TYR SER GLN TYR GLN PHE TRP LYS ASN PHE SEQRES 16 A 381 GLN THR LEU LYS ILE VAL ILE LEU GLY LEU VAL LEU PRO SEQRES 17 A 381 LEU LEU VAL MET VAL ILE CYS TYR SER GLY ILE LEU LYS SEQRES 18 A 381 THR LEU LEU ARG MET LYS LYS TYR THR CYS THR VAL CYS SEQRES 19 A 381 GLY TYR ILE TYR ASN PRO GLU ASP GLY ASP PRO ASP ASN SEQRES 20 A 381 GLY VAL ASN PRO GLY THR ASP PHE LYS ASP ILE PRO ASP SEQRES 21 A 381 ASP TRP VAL CYS PRO LEU CYS GLY VAL GLY LYS ASP GLN SEQRES 22 A 381 PHE GLU GLU VAL GLU GLU GLU LYS LYS ARG HIS ARG ASP SEQRES 23 A 381 VAL ARG LEU ILE PHE THR ILE MET ILE VAL TYR PHE LEU SEQRES 24 A 381 PHE TRP ALA PRO TYR ASN ILE VAL LEU LEU LEU ASN THR SEQRES 25 A 381 PHE GLN GLU PHE PHE GLY LEU ASN ASN CYS SER SER SER SEQRES 26 A 381 ASN ARG LEU ASP GLN ALA MET GLN VAL THR GLU THR LEU SEQRES 27 A 381 GLY MET THR HIS CYS CYS ILE ASN PRO ILE ILE TYR ALA SEQRES 28 A 381 PHE VAL GLY GLU GLU PHE ARG ASN TYR LEU LEU VAL PHE SEQRES 29 A 381 PHE GLN LYS HIS ILE ALA LYS ARG GLY ARG PRO LEU GLU SEQRES 30 A 381 VAL LEU PHE GLN SEQRES 1 B 381 GLY ALA PRO ASP TYR GLN VAL SER SER PRO ILE TYR ASP SEQRES 2 B 381 ILE ASN TYR TYR THR SER GLU PRO CYS GLN LYS ILE ASN SEQRES 3 B 381 VAL LYS GLN ILE ALA ALA ARG LEU LEU PRO PRO LEU TYR SEQRES 4 B 381 SER LEU VAL PHE ILE PHE GLY PHE VAL GLY ASN MET LEU SEQRES 5 B 381 VAL ILE LEU ILE LEU ILE ASN TYR LYS ARG LEU LYS SER SEQRES 6 B 381 MET THR ASP ILE TYR LEU LEU ASN LEU ALA ILE SER ASP SEQRES 7 B 381 LEU PHE PHE LEU LEU THR VAL PRO PHE TRP ALA HIS TYR SEQRES 8 B 381 ALA ALA ALA GLN TRP ASP PHE GLY ASN THR MET CYS GLN SEQRES 9 B 381 LEU LEU THR GLY LEU TYR PHE ILE GLY PHE PHE SER GLY SEQRES 10 B 381 ILE PHE PHE ILE ILE LEU LEU THR ILE ASP ARG TYR LEU SEQRES 11 B 381 ALA VAL VAL HIS ALA VAL PHE ALA LEU LYS ALA ARG THR SEQRES 12 B 381 VAL THR PHE GLY VAL VAL THR SER VAL ILE THR TRP VAL SEQRES 13 B 381 VAL ALA VAL PHE ALA SER LEU PRO ASN ILE ILE PHE THR SEQRES 14 B 381 ARG SER GLN LYS GLU GLY LEU HIS TYR THR CYS SER SER SEQRES 15 B 381 HIS PHE PRO TYR SER GLN TYR GLN PHE TRP LYS ASN PHE SEQRES 16 B 381 GLN THR LEU LYS ILE VAL ILE LEU GLY LEU VAL LEU PRO SEQRES 17 B 381 LEU LEU VAL MET VAL ILE CYS TYR SER GLY ILE LEU LYS SEQRES 18 B 381 THR LEU LEU ARG MET LYS LYS TYR THR CYS THR VAL CYS SEQRES 19 B 381 GLY TYR ILE TYR ASN PRO GLU ASP GLY ASP PRO ASP ASN SEQRES 20 B 381 GLY VAL ASN PRO GLY THR ASP PHE LYS ASP ILE PRO ASP SEQRES 21 B 381 ASP TRP VAL CYS PRO LEU CYS GLY VAL GLY LYS ASP GLN SEQRES 22 B 381 PHE GLU GLU VAL GLU GLU GLU LYS LYS ARG HIS ARG ASP SEQRES 23 B 381 VAL ARG LEU ILE PHE THR ILE MET ILE VAL TYR PHE LEU SEQRES 24 B 381 PHE TRP ALA PRO TYR ASN ILE VAL LEU LEU LEU ASN THR SEQRES 25 B 381 PHE GLN GLU PHE PHE GLY LEU ASN ASN CYS SER SER SER SEQRES 26 B 381 ASN ARG LEU ASP GLN ALA MET GLN VAL THR GLU THR LEU SEQRES 27 B 381 GLY MET THR HIS CYS CYS ILE ASN PRO ILE ILE TYR ALA SEQRES 28 B 381 PHE VAL GLY GLU GLU PHE ARG ASN TYR LEU LEU VAL PHE SEQRES 29 B 381 PHE GLN LYS HIS ILE ALA LYS ARG GLY ARG PRO LEU GLU SEQRES 30 B 381 VAL LEU PHE GLN HET ZN A2001 1 HET NO3 A2002 4 HET A4R A2003 33 HET ZN B2001 1 HET NO3 B2002 4 HET A4R B2003 33 HETNAM ZN ZINC ION HETNAM NO3 NITRATE ION HETNAM A4R N-[(1S)-3-{(3-EXO)-3-[3-METHYL-5-(PROPAN-2-YL)-4H-1,2, HETNAM 2 A4R 4-TRIAZOL-4-YL]-8-AZABICYCLO[3.2.1]OCTAN-8-YL}-1- HETNAM 3 A4R (THIOPHEN-2-YL)PROPYL]CYCLOPENTANECARBOXAMIDE FORMUL 3 ZN 2(ZN 2+) FORMUL 4 NO3 2(N O3 1-) FORMUL 5 A4R 2(C26 H39 N5 O S) FORMUL 9 HOH *(H2 O) HELIX 1 AA1 VAL A 25 TYR A 58 1 34 HELIX 2 AA2 SER A 63 THR A 82 1 20 HELIX 3 AA3 THR A 82 ALA A 92 1 11 HELIX 4 AA4 GLY A 97 HIS A 132 1 36 HELIX 5 AA5 HIS A 132 ARG A 140 1 9 HELIX 6 AA6 THR A 141 PHE A 166 1 26 HELIX 7 AA7 GLN A 186 LEU A 203 1 18 HELIX 8 AA8 LEU A 203 MET A 1001 1 22 HELIX 9 AA9 ASP A 1019 GLY A 1023 5 5 HELIX 10 AB1 ASP A 1029 ILE A 1033 5 5 HELIX 11 AB2 GLY A 1045 ASP A 1047 5 3 HELIX 12 AB3 LYS A 228 ASP A 233 1 6 HELIX 13 AB4 ASP A 233 PHE A 260 1 28 HELIX 14 AB5 ASN A 268 HIS A 289 1 22 HELIX 15 AB6 ILE A 292 VAL A 300 1 9 HELIX 16 AB7 GLY A 301 LEU A 309 1 9 HELIX 17 AB8 VAL B 25 TYR B 58 1 34 HELIX 18 AB9 SER B 63 LEU B 81 1 19 HELIX 19 AC1 THR B 82 ALA B 92 1 11 HELIX 20 AC2 GLY B 97 HIS B 132 1 36 HELIX 21 AC3 PHE B 135 ARG B 140 1 6 HELIX 22 AC4 THR B 141 PHE B 166 1 26 HELIX 23 AC5 GLN B 186 LEU B 203 1 18 HELIX 24 AC6 LEU B 203 ARG B 223 1 21 HELIX 25 AC7 ASP B 1019 GLY B 1023 5 5 HELIX 26 AC8 ASP B 1029 ILE B 1033 5 5 HELIX 27 AC9 GLY B 1045 ASP B 1047 5 3 HELIX 28 AD1 LYS B 228 ASP B 233 1 6 HELIX 29 AD2 ASP B 233 PHE B 260 1 28 HELIX 30 AD3 PHE B 260 GLY B 265 1 6 HELIX 31 AD4 ASN B 268 HIS B 289 1 22 HELIX 32 AD5 ILE B 292 VAL B 300 1 9 HELIX 33 AD6 GLY B 301 GLN B 313 1 13 SHEET 1 AA1 2 THR A 167 GLU A 172 0 SHEET 2 AA1 2 HIS A 175 SER A 180 -1 O HIS A 175 N GLU A 172 SHEET 1 AA2 3 ILE A1012 TYR A1013 0 SHEET 2 AA2 3 TYR A1004 CYS A1006 -1 N TYR A1004 O TYR A1013 SHEET 3 AA2 3 PHE A1049 GLU A1051 -1 O GLU A1050 N THR A1005 SHEET 1 AA3 2 THR B 167 GLU B 172 0 SHEET 2 AA3 2 HIS B 175 SER B 180 -1 O HIS B 175 N GLU B 172 SHEET 1 AA4 3 ILE B1012 TYR B1013 0 SHEET 2 AA4 3 TYR B1004 CYS B1006 -1 N TYR B1004 O TYR B1013 SHEET 3 AA4 3 PHE B1049 GLU B1051 -1 O GLU B1050 N THR B1005 SSBOND 1 CYS A 101 CYS A 178 1555 1555 2.05 SSBOND 2 CYS B 101 CYS B 178 1555 1555 2.05 LINK SG CYS A1006 ZN ZN A2001 1555 1555 2.42 LINK SG CYS A1009 ZN ZN A2001 1555 1555 2.23 LINK SG CYS A1039 ZN ZN A2001 1555 1555 2.27 LINK SG CYS A1042 ZN ZN A2001 1555 1555 2.20 LINK SG CYS B1006 ZN ZN B2001 1555 1555 2.25 LINK SG CYS B1009 ZN ZN B2001 1555 1555 2.33 LINK SG CYS B1039 ZN ZN B2001 1555 1555 2.24 LINK SG CYS B1042 ZN ZN B2001 1555 1555 2.30 SITE 1 AC1 4 CYS A1006 CYS A1009 CYS A1039 CYS A1042 SITE 1 AC2 3 ASP A 76 GLY A 111 HIS A 289 SITE 1 AC3 9 TYR A 37 TRP A 86 TYR A 108 PHE A 109 SITE 2 AC3 9 PHE A 112 THR A 195 TYR A 251 LEU A 255 SITE 3 AC3 9 GLU A 283 SITE 1 AC4 4 CYS B1006 CYS B1009 CYS B1039 CYS B1042 SITE 1 AC5 3 ASP B 76 TRP B 248 HIS B 289 SITE 1 AC6 11 TYR B 37 TRP B 86 TYR B 89 PHE B 109 SITE 2 AC6 11 PHE B 112 THR B 195 ILE B 198 TYR B 251 SITE 3 AC6 11 LEU B 255 GLU B 283 MET B 287 CRYST1 72.640 102.740 136.870 90.00 90.00 90.00 P 21 21 21 8 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 0.013767 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009733 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007306 0.00000