HEADER VIRAL PROTEIN/INHIBITOR 03-APR-13 4K0A TITLE CRYSTAL STRUCTURE OF CD4-MIMETIC MINIPROTEIN M48U7 IN COMPLEX WITH TITLE 2 HIV-1 YU2 GP120 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIV-1 YU2 GP120 GLYCOPROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: CD4-MIMETIC MINIPROTEIN M48U7; COMPND 7 CHAIN: R; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 3 ORGANISM_TAXID: 11676; SOURCE 4 STRAIN: YU2; SOURCE 5 GENE: GP120; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 OTHER_DETAILS: M48U7 IS A SYNTHETIC MINIPROTEIN DERIVED FROM SOURCE 12 SCYLLATOXIN (A SCORPION TOXIN) BY TRANSPLANTING THE GP120- SOURCE 13 INTERACTIVDERIVED FROM SCYLLATOXIN (A SCORPION TOXIN) BY SOURCE 14 TRANSPLANTING THE GP120-INTERACTIVE REGION OF CD4 ONTO THE SOURCE 15 SCYLLATOXIN SCAFFOLD,E REGION OF CD4 ONTO THE SCYLLATOXIN SCAFFOLD, KEYWDS HIV-1 ATTACHMENT GLYCOPROTEIN GP120, HIV-1 ENVELOPE, VIRAL PROTEIN- KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR P.ACHARYA,P.D.KWONG REVDAT 3 29-JUL-20 4K0A 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE REVDAT 2 10-JUL-13 4K0A 1 JRNL REVDAT 1 12-JUN-13 4K0A 0 JRNL AUTH P.ACHARYA,T.S.LUONGO,M.K.LOUDER,K.MCKEE,Y.YANG,Y.DO KWON, JRNL AUTH 2 J.R.MASCOLA,P.KESSLER,L.MARTIN,P.D.KWONG JRNL TITL STRUCTURAL BASIS FOR HIGHLY EFFECTIVE HIV-1 NEUTRALIZATION JRNL TITL 2 BY CD4-MIMETIC MINIPROTEINS REVEALED BY 1.5 A COCRYSTAL JRNL TITL 3 STRUCTURE OF GP120 AND M48U1. JRNL REF STRUCTURE V. 21 1018 2013 JRNL REFN ISSN 0969-2126 JRNL PMID 23707685 JRNL DOI 10.1016/J.STR.2013.04.015 REMARK 2 REMARK 2 RESOLUTION. 2.13 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.2_1309) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.13 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.41 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 88.4 REMARK 3 NUMBER OF REFLECTIONS : 21350 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 1072 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 36.4108 - 4.2511 1.00 3017 152 0.1633 0.1832 REMARK 3 2 4.2511 - 3.3750 1.00 2906 138 0.1575 0.1948 REMARK 3 3 3.3750 - 2.9486 1.00 2868 146 0.1822 0.2393 REMARK 3 4 2.9486 - 2.6791 0.98 2765 158 0.2011 0.2322 REMARK 3 5 2.6791 - 2.4871 0.94 2673 150 0.2246 0.2935 REMARK 3 6 2.4871 - 2.3405 0.87 2463 124 0.2316 0.2769 REMARK 3 7 2.3405 - 2.2233 0.78 2212 114 0.2341 0.2894 REMARK 3 8 2.2233 - 2.1265 0.49 1374 90 0.2398 0.2696 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.260 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.330 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.003 3151 REMARK 3 ANGLE : 0.861 4256 REMARK 3 CHIRALITY : 0.044 491 REMARK 3 PLANARITY : 0.003 537 REMARK 3 DIHEDRAL : 12.246 1172 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): -8.5636 23.3944 -0.7992 REMARK 3 T TENSOR REMARK 3 T11: 0.3183 T22: 0.2693 REMARK 3 T33: 0.2201 T12: 0.0038 REMARK 3 T13: 0.0240 T23: -0.0271 REMARK 3 L TENSOR REMARK 3 L11: 1.6289 L22: 1.4729 REMARK 3 L33: 1.2515 L12: -0.1126 REMARK 3 L13: 0.1385 L23: -0.3994 REMARK 3 S TENSOR REMARK 3 S11: -0.0526 S12: 0.0336 S13: -0.1234 REMARK 3 S21: -0.0367 S22: 0.0310 S23: -0.0260 REMARK 3 S31: 0.0665 S32: -0.0753 S33: 0.0214 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN R REMARK 3 ORIGIN FOR THE GROUP (A): -21.8860 31.8320 15.1615 REMARK 3 T TENSOR REMARK 3 T11: 0.6729 T22: 0.8054 REMARK 3 T33: 0.3820 T12: 0.1879 REMARK 3 T13: 0.0478 T23: -0.0305 REMARK 3 L TENSOR REMARK 3 L11: 5.8286 L22: 5.8996 REMARK 3 L33: 5.6205 L12: -1.0388 REMARK 3 L13: -3.0210 L23: 0.7746 REMARK 3 S TENSOR REMARK 3 S11: -0.1038 S12: -0.9419 S13: 0.5365 REMARK 3 S21: 1.4589 S22: 0.1859 S23: 0.3687 REMARK 3 S31: -0.9641 S32: -1.4642 S33: -0.1095 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4K0A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-APR-13. REMARK 100 THE DEPOSITION ID IS D_1000078728. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-JUN-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24108 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.780 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 58.6 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.12500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.89 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 51.1 REMARK 200 DATA REDUNDANCY IN SHELL : 1.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.54800 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.300 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 9.0% PEG 4000, 14.0% ISOPROPANOL, 100 REMARK 280 MM SODIUM CITRATE, PH 5.6, VAPOR DIFFUSION, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 39.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 39.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 32.76050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 82.32850 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 32.76050 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 82.32850 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 39.00000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 32.76050 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 82.32850 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 39.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 32.76050 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 82.32850 REMARK 290 SMTRY3 8 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, R 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 400 REMARK 400 COMPOUND REMARK 400 THE CD4-MIMETIC MINIPROTEINS INHIBIT HIV-1 ENTRY AND ARE DERIVED REMARK 400 FROM SCYLLATOXIN (A SCORPION TOXIN) BY TRANSPLANTING THE GP120- REMARK 400 INTERACTIVE REGION OF CD4 ONTO THE SCYLLATOXIN SCAFFOLD, FOLLOWED REMARK 400 BY MANY ROUNDS OF ITERATIVE OPTIMIZATION REMARK 400 REMARK 400 THE CD4-MIMETIC MINIPROTEIN M48U7 IS PEPTIDE-LIKE, A MEMBER OF REMARK 400 INHIBITOR CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: CD4-MIMETIC MINIPROTEIN M48U7 REMARK 400 CHAIN: R REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: NULL 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 20 REMARK 465 PRO A 21 REMARK 465 MET A 22 REMARK 465 GLY A 23 REMARK 465 SER A 24 REMARK 465 LEU A 25 REMARK 465 GLN A 26 REMARK 465 PRO A 27 REMARK 465 LEU A 28 REMARK 465 ALA A 29 REMARK 465 THR A 30 REMARK 465 LEU A 31 REMARK 465 TYR A 32 REMARK 465 LEU A 33 REMARK 465 LEU A 34 REMARK 465 GLY A 35 REMARK 465 MET A 36 REMARK 465 LEU A 37 REMARK 465 VAL A 38 REMARK 465 ALA A 39 REMARK 465 SER A 40 REMARK 465 VAL A 41 REMARK 465 LEU A 42 REMARK 465 ALA A 43 REMARK 465 GLY A 318 REMARK 465 GLY A 319 REMARK 465 SER A 320 REMARK 465 GLY A 321 REMARK 465 SER A 322 REMARK 465 GLY A 323 REMARK 465 GLY A 324 REMARK 465 ARG A 405 REMARK 465 LYS A 406 REMARK 465 LEU A 407 REMARK 465 ASN A 408 REMARK 465 ASN A 409 REMARK 465 THR A 410 REMARK 465 ASP A 461 REMARK 465 THR A 462 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 THR A 396 CB OG1 CG2 REMARK 470 LYS A 460 CG CD CE NZ REMARK 470 ASN A 463 CG OD1 ND2 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 ND2 ASN A 234 O5 NAG A 502 1.74 REMARK 500 ND2 ASN A 241 O5 NAG A 503 1.86 REMARK 500 ND2 ASN A 386 O5 NAG A 507 1.99 REMARK 500 OG1 THR A 388 O HOH A 728 2.01 REMARK 500 NZ LYS A 485 O HOH A 724 2.14 REMARK 500 N ASP A 325 O HOH A 735 2.17 REMARK 500 CG ASN A 386 C1 NAG A 507 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 CYS A 205 65.98 -119.62 REMARK 500 GLN A 258 -61.96 68.55 REMARK 500 GLU A 268 -73.99 -82.77 REMARK 500 ASN A 276 99.77 -162.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 MPT R 1 25.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4JZW RELATED DB: PDB REMARK 900 'CRYSTAL STRUCTURE OF CD4-MIMETIC MINIPROTEIN M48U1 IN COMPLEX WITH REMARK 900 HIV-1 YU2 GP120 IN P212121 SPACE GROUP REMARK 900 RELATED ID: 4JZZ RELATED DB: PDB REMARK 900 'CRYSTAL STRUCTURE OF CD4-MIMETIC MINIPROTEIN M48U1 IN COMPLEX WITH REMARK 900 HIV-1 YU2 GP120 IN C2221 SPACE GROUP REMARK 900 RELATED ID: 4K0A RELATED DB: PDB DBREF 4K0A A 20 492 PDB 4K0A 4K0A 20 492 DBREF 4K0A R 1 28 PDB 4K0A 4K0A 1 28 SEQRES 1 A 376 MET PRO MET GLY SER LEU GLN PRO LEU ALA THR LEU TYR SEQRES 2 A 376 LEU LEU GLY MET LEU VAL ALA SER VAL LEU ALA VAL TRP SEQRES 3 A 376 LYS GLU ALA THR THR THR LEU PHE CYS ALA SER ASP ALA SEQRES 4 A 376 LYS ALA TYR ASP THR GLU VAL HIS ASN VAL TRP ALA THR SEQRES 5 A 376 HIS ALA CYS VAL PRO THR ASP PRO ASN PRO GLN GLU VAL SEQRES 6 A 376 LYS LEU GLU ASN VAL THR GLU ASN PHE ASN MET TRP LYS SEQRES 7 A 376 ASN ASN MET VAL GLU GLN MET HIS GLU ASP ILE ILE SER SEQRES 8 A 376 LEU TRP ASP GLN SER LEU LYS PRO CYS VAL LYS LEU THR SEQRES 9 A 376 GLY GLY SER VAL ILE THR GLN ALA CYS PRO LYS VAL SER SEQRES 10 A 376 PHE GLU PRO ILE PRO ILE HIS TYR CYS ALA PRO ALA GLY SEQRES 11 A 376 PHE ALA ILE LEU LYS CYS ASN ASP LYS LYS PHE ASN GLY SEQRES 12 A 376 THR GLY PRO CYS THR ASN VAL SER THR VAL GLN CYS THR SEQRES 13 A 376 HIS GLY ILE ARG PRO VAL VAL SER THR GLN LEU LEU LEU SEQRES 14 A 376 ASN GLY SER LEU ALA GLU GLU GLU ILE VAL ILE ARG SER SEQRES 15 A 376 GLU ASN PHE THR ASN ASN ALA LYS THR ILE ILE VAL GLN SEQRES 16 A 376 LEU ASN GLU SER VAL VAL ILE ASN CYS THR ARG PRO ASN SEQRES 17 A 376 ASN GLY GLY SER GLY SER GLY GLY ASP ILE ARG GLN ALA SEQRES 18 A 376 HIS CYS ASN LEU SER LYS THR GLN TRP GLU ASN THR LEU SEQRES 19 A 376 GLU GLN ILE ALA ILE LYS LEU LYS GLU GLN PHE GLY ASN SEQRES 20 A 376 ASN LYS THR ILE ILE PHE ASN PRO SER SER GLY GLY ASP SEQRES 21 A 376 PRO GLU ILE VAL THR HIS SER PHE ASN CYS GLY GLY GLU SEQRES 22 A 376 PHE PHE TYR CYS ASN SER THR GLN LEU PHE THR TRP ASN SEQRES 23 A 376 ASP THR ARG LYS LEU ASN ASN THR GLY ARG ASN ILE THR SEQRES 24 A 376 LEU PRO CYS ARG ILE LYS GLN ILE ILE ASN MET TRP GLN SEQRES 25 A 376 GLU VAL GLY LYS ALA MET TYR ALA PRO PRO ILE ARG GLY SEQRES 26 A 376 GLN ILE ARG CYS SER SER ASN ILE THR GLY LEU LEU LEU SEQRES 27 A 376 THR ARG ASP GLY GLY LYS ASP THR ASN GLY THR GLU ILE SEQRES 28 A 376 PHE ARG PRO GLY GLY GLY ASP MET ARG ASP ASN TRP ARG SEQRES 29 A 376 SER GLU LEU TYR LYS TYR LYS VAL VAL LYS ILE GLU SEQRES 1 R 28 MPT ASN LEU HIS PHE CYS GLN LEU ARG CYS LYS SER LEU SEQRES 2 R 28 GLY LEU LEU GLY ARG CYS ALA DPR THR 1OP CYS ALA CYS SEQRES 3 R 28 VAL NH2 MODRES 4K0A ASN A 295 ASN GLYCOSYLATION SITE MODRES 4K0A ASN A 386 ASN GLYCOSYLATION SITE MODRES 4K0A ASN A 289 ASN GLYCOSYLATION SITE MODRES 4K0A ASN A 262 ASN GLYCOSYLATION SITE MODRES 4K0A ASN A 276 ASN GLYCOSYLATION SITE MODRES 4K0A ASN A 234 ASN GLYCOSYLATION SITE MODRES 4K0A ASN A 448 ASN GLYCOSYLATION SITE MODRES 4K0A ASN A 241 ASN GLYCOSYLATION SITE MODRES 4K0A 1OP R 23 TYR O-(5-HYDROXYPENTYL)-L-TYROSINE HET MPT R 1 6 HET DPR R 21 14 HET 1OP R 23 26 HET NH2 R 28 1 HET NAG A 501 27 HET NAG A 502 27 HET NAG A 503 27 HET NAG A 504 27 HET NAG A 505 27 HET NAG A 506 27 HET NAG A 507 27 HET NAG A 508 27 HET IPA A 509 4 HET IPA A 510 4 HET IPA A 511 4 HET IPA A 512 4 HET FLC A 513 13 HETNAM MPT BETA-MERCAPTOPROPIONIC ACID HETNAM DPR D-PROLINE HETNAM 1OP O-(5-HYDROXYPENTYL)-L-TYROSINE HETNAM NH2 AMINO GROUP HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM IPA ISOPROPYL ALCOHOL HETNAM FLC CITRATE ANION HETSYN IPA 2-PROPANOL FORMUL 2 MPT C3 H6 O2 S FORMUL 2 DPR C5 H9 N O2 FORMUL 2 1OP C14 H21 N O4 FORMUL 2 NH2 H2 N FORMUL 3 NAG 8(C8 H15 N O6) FORMUL 11 IPA 4(C3 H8 O) FORMUL 15 FLC C6 H5 O7 3- FORMUL 16 HOH *151(H2 O) HELIX 1 1 GLU A 64 ALA A 73 1 10 HELIX 2 2 ASN A 98 LEU A 116 1 19 HELIX 3 3 LYS A 335 GLY A 354 1 20 HELIX 4 4 ASP A 368 THR A 373 1 6 HELIX 5 5 THR A 388 THR A 392 5 5 HELIX 6 6 MET A 475 TYR A 484 1 10 HELIX 7 7 ASN R 2 LYS R 11 1 10 HELIX 8 8 SER R 12 GLY R 14 5 3 SHEET 1 A 3 CYS A 74 PRO A 76 0 SHEET 2 A 3 PHE A 53 SER A 56 1 N CYS A 54 O VAL A 75 SHEET 3 A 3 HIS A 216 CYS A 218 -1 O HIS A 216 N ALA A 55 SHEET 1 B 4 VAL A 84 LEU A 86 0 SHEET 2 B 4 VAL A 242 VAL A 245 -1 O THR A 244 N VAL A 84 SHEET 3 B 4 PHE A 223 CYS A 228 -1 N LYS A 227 O SER A 243 SHEET 4 B 4 TYR A 486 LYS A 490 -1 O LYS A 487 N LEU A 226 SHEET 1 C 2 GLU A 91 ASN A 94 0 SHEET 2 C 2 THR A 236 CYS A 239 -1 O GLY A 237 N PHE A 93 SHEET 1 D 4 SER A 199 THR A 202 0 SHEET 2 D 4 VAL A 120 THR A 123 -1 N THR A 123 O SER A 199 SHEET 3 D 4 LYS A 432 MET A 434 -1 O LYS A 432 N LEU A 122 SHEET 4 D 4 ILE A 423 ASN A 425 -1 N ILE A 424 O ALA A 433 SHEET 1 E 7 LEU A 259 LEU A 261 0 SHEET 2 E 7 ILE A 443 ARG A 456 -1 O GLY A 451 N LEU A 260 SHEET 3 E 7 ILE A 284 ARG A 298 -1 N ILE A 284 O LEU A 454 SHEET 4 E 7 GLN A 328 SER A 334 -1 O ASN A 332 N ASN A 295 SHEET 5 E 7 ASN A 413 LYS A 421 -1 O ILE A 414 N LEU A 333 SHEET 6 E 7 GLU A 381 CYS A 385 -1 N TYR A 384 O ARG A 419 SHEET 7 E 7 HIS A 374 CYS A 378 -1 N PHE A 376 O PHE A 383 SHEET 1 F 6 VAL A 271 ARG A 273 0 SHEET 2 F 6 ILE A 284 ARG A 298 -1 O ILE A 285 N ARG A 273 SHEET 3 F 6 ILE A 443 ARG A 456 -1 O LEU A 454 N ILE A 284 SHEET 4 F 6 THR A 465 PRO A 470 -1 O ARG A 469 N THR A 455 SHEET 5 F 6 THR A 358 PHE A 361 1 N ILE A 360 O PHE A 468 SHEET 6 F 6 TRP A 393 ASN A 394 -1 O TRP A 393 N PHE A 361 SHEET 1 G 2 LEU R 16 ALA R 20 0 SHEET 2 G 2 1OP R 23 VAL R 27 -1 O VAL R 27 N LEU R 16 SSBOND 1 CYS A 54 CYS A 74 1555 1555 2.04 SSBOND 2 CYS A 119 CYS A 205 1555 1555 2.03 SSBOND 3 CYS A 218 CYS A 247 1555 1555 2.04 SSBOND 4 CYS A 228 CYS A 239 1555 1555 2.04 SSBOND 5 CYS A 296 CYS A 331 1555 1555 2.03 SSBOND 6 CYS A 378 CYS A 445 1555 1555 2.03 SSBOND 7 CYS A 385 CYS A 418 1555 1555 2.04 SSBOND 8 MPT R 1 CYS R 19 1555 1555 2.08 SSBOND 9 CYS R 6 CYS R 24 1555 1555 2.04 SSBOND 10 CYS R 10 CYS R 26 1555 1555 2.04 LINK ND2 ASN A 234 C1 NAG A 502 1555 1555 1.45 LINK ND2 ASN A 241 C1 NAG A 503 1555 1555 1.46 LINK ND2 ASN A 262 C1 NAG A 504 1555 1555 1.44 LINK ND2 ASN A 276 C1 NAG A 501 1555 1555 1.45 LINK ND2 ASN A 289 C1 NAG A 505 1555 1555 1.44 LINK ND2 ASN A 295 C1 NAG A 506 1555 1555 1.43 LINK ND2 ASN A 386 C1 NAG A 507 1555 1555 1.44 LINK ND2 ASN A 448 C1 NAG A 508 1555 1555 1.46 LINK C MPT R 1 N ASN R 2 1555 1555 1.33 LINK SG MPT R 1 SG CYS R 19 1555 1555 2.08 LINK C ALA R 20 N DPR R 21 1555 1555 1.35 LINK C DPR R 21 N THR R 22 1555 1555 1.31 LINK C THR R 22 N 1OP R 23 1555 1555 1.36 LINK C 1OP R 23 N CYS R 24 1555 1555 1.34 LINK C VAL R 27 N NH2 R 28 1555 1555 1.38 CRYST1 65.521 164.657 78.000 90.00 90.00 90.00 C 2 2 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 0.015262 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006073 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012821 0.00000