HEADER VIRAL PROTEIN 03-DEC-15 5F4P TITLE HIV-1 GP120 COMPLEX WITH BNM-III-170 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENVELOPE GLYCOPROTEIN GP120 OF HIV-1 CLADE C; COMPND 3 CHAIN: D, A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 3 ORGANISM_TAXID: 11676; SOURCE 4 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 6 EXPRESSION_SYSTEM_CELL_LINE: HEK 293 GNTI- CELLS KEYWDS VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.LIANG,W.A.HENDRICKSON REVDAT 4 13-NOV-24 5F4P 1 REMARK REVDAT 3 27-SEP-23 5F4P 1 HETSYN REVDAT 2 29-JUL-20 5F4P 1 COMPND REMARK HETNAM SITE REVDAT 1 30-MAR-16 5F4P 0 JRNL AUTH B.MELILLO,S.LIANG,J.PARK,A.SCHON,J.R.COURTER,J.M.LALONDE, JRNL AUTH 2 D.J.WENDLER,A.M.PRINCIOTTO,M.S.SEAMAN,E.FREIRE,J.SODROSKI, JRNL AUTH 3 N.MADANI,W.A.HENDRICKSON,A.B.SMITH JRNL TITL SMALL-MOLECULE CD4-MIMICS: STRUCTURE-BASED OPTIMIZATION OF JRNL TITL 2 HIV-1 ENTRY INHIBITION. JRNL REF ACS MED.CHEM.LETT. V. 7 330 2016 JRNL REFN ISSN 1948-5875 JRNL PMID 26985324 JRNL DOI 10.1021/ACSMEDCHEMLETT.5B00471 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.4_1496 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.24 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 25857 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.275 REMARK 3 R VALUE (WORKING SET) : 0.274 REMARK 3 FREE R VALUE : 0.311 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.850 REMARK 3 FREE R VALUE TEST SET COUNT : 1255 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 48.2445 - 5.4061 0.99 2880 150 0.2351 0.2421 REMARK 3 2 5.4061 - 4.2918 0.99 2775 119 0.2328 0.2665 REMARK 3 3 4.2918 - 3.7495 1.00 2736 139 0.2672 0.3194 REMARK 3 4 3.7495 - 3.4068 1.00 2719 166 0.2847 0.3521 REMARK 3 5 3.4068 - 3.1627 1.00 2698 162 0.3263 0.3765 REMARK 3 6 3.1627 - 2.9762 1.00 2705 150 0.3401 0.4031 REMARK 3 7 2.9762 - 2.8272 0.99 2706 133 0.3703 0.4222 REMARK 3 8 2.8272 - 2.7041 0.99 2704 108 0.3689 0.4639 REMARK 3 9 2.7041 - 2.6000 0.99 2679 128 0.3676 0.3388 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) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 36.380 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 : 0.006 5612 REMARK 3 ANGLE : 1.064 7600 REMARK 3 CHIRALITY : 0.047 866 REMARK 3 PLANARITY : 0.006 968 REMARK 3 DIHEDRAL : 15.276 2056 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 5F4P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-DEC-15. REMARK 100 THE DEPOSITION ID IS D_1000216009. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-APR-15 REMARK 200 TEMPERATURE (KELVIN) : 180 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26041 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 48.236 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 6.290 REMARK 200 R MERGE (I) : 0.09200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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) : NULL 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: 3TGR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 1500, CALCIUM MAGNESIUM CHLORIDE, REMARK 280 IMIDAZOLE, EVAPORATION, TEMPERATURE 290K 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 96.47250 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 96.47250 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 33.68900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 63.75850 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 33.68900 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 63.75850 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 96.47250 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 33.68900 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 63.75850 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 96.47250 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 33.68900 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 63.75850 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4000 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 46.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 603 LIES ON A SPECIAL POSITION. 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 ASN D 317 REMARK 465 GLY D 318 REMARK 465 GLY D 319 REMARK 465 SER D 320 REMARK 465 GLY D 321 REMARK 465 SER D 322 REMARK 465 GLY D 323 REMARK 465 GLY D 324 REMARK 465 GLY D 458 REMARK 465 GLY D 459 REMARK 465 ASN D 460 REMARK 465 ASP D 461 REMARK 465 ASP D 462 REMARK 465 ASN D 463 REMARK 465 ILE D 491 REMARK 465 ASN A 317 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 GLY A 458 REMARK 465 GLY A 459 REMARK 465 ASN A 460 REMARK 465 ASP A 461 REMARK 465 ASP A 462 REMARK 465 ASN A 463 REMARK 465 ILE A 491 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 O GLU D 268 ND2 ASN D 289 2.09 REMARK 500 OD1 ASN A 340 NZ LYS A 344 2.17 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 D 79 C - N - CA ANGL. DEV. = 9.7 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 CYS D 74 -168.45 -114.10 REMARK 500 PRO D 79 25.72 -44.18 REMARK 500 ASN D 80 70.46 -116.03 REMARK 500 MET D 84 97.82 -55.28 REMARK 500 ALA D 87 29.09 -140.53 REMARK 500 VAL D 89 -92.88 -136.50 REMARK 500 THR D 90 79.94 50.97 REMARK 500 ASN D 98 118.01 -161.86 REMARK 500 SER D 115 -77.28 -104.89 REMARK 500 CYS D 205 63.46 -119.75 REMARK 500 ASP D 211 115.98 -164.35 REMARK 500 PRO D 220 -161.99 -69.44 REMARK 500 LEU D 226 169.75 -48.61 REMARK 500 ARG D 240 -48.24 -130.38 REMARK 500 ASN D 241 92.79 -62.99 REMARK 500 SER D 243 -165.99 -100.95 REMARK 500 GLN D 258 -60.80 62.70 REMARK 500 GLU D 268 -87.80 -113.93 REMARK 500 ILE D 270 127.22 -28.96 REMARK 500 ASN D 289 -55.85 -129.62 REMARK 500 SER D 356 26.64 -153.32 REMARK 500 SER D 365 -75.07 -54.20 REMARK 500 LEU D 390 -75.70 -127.39 REMARK 500 ASN D 392 106.76 -162.12 REMARK 500 ASN D 397 2.18 59.11 REMARK 500 ASN D 411 10.63 55.10 REMARK 500 LYS D 485 -155.40 117.67 REMARK 500 TYR D 486 -140.00 -174.13 REMARK 500 LYS D 487 120.41 177.02 REMARK 500 PRO A 81 79.01 -116.21 REMARK 500 GLU A 83 93.12 -24.76 REMARK 500 VAL A 89 -64.84 -129.22 REMARK 500 THR A 90 94.28 32.02 REMARK 500 ASN A 94 89.06 -153.30 REMARK 500 SER A 115 -77.46 -101.20 REMARK 500 ASP A 211 106.40 -163.23 REMARK 500 PRO A 220 -160.99 -65.49 REMARK 500 THR A 232 13.35 -67.06 REMARK 500 PRO A 253 65.95 -65.40 REMARK 500 GLN A 258 -55.56 63.78 REMARK 500 GLU A 268 -86.92 -134.39 REMARK 500 ASN A 289 -56.14 -127.00 REMARK 500 PRO A 354 -87.20 -34.45 REMARK 500 SER A 365 -80.86 -5.53 REMARK 500 HIS A 374 91.65 -69.55 REMARK 500 LEU A 390 -63.22 -108.48 REMARK 500 ASN A 392 105.87 -168.37 REMARK 500 LEU A 483 44.58 -103.97 REMARK 500 LYS A 485 -145.19 120.22 REMARK 500 TYR A 486 -148.64 176.08 REMARK 500 REMARK 500 THIS ENTRY HAS 51 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 PHE D 353 PRO D 354 -147.87 REMARK 500 TYR D 484 LYS D 485 128.43 REMARK 500 LYS D 485 TYR D 486 -139.48 REMARK 500 TYR D 486 LYS D 487 135.28 REMARK 500 GLU A 275 ASN A 276 140.78 REMARK 500 TYR A 484 LYS A 485 119.61 REMARK 500 LYS A 485 TYR A 486 -146.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 NAG D 501 REMARK 610 NAG D 502 REMARK 610 NAG D 503 REMARK 610 NAG D 504 REMARK 610 NAG D 505 REMARK 610 NAG D 506 REMARK 610 NAG A 502 REMARK 610 NAG A 503 REMARK 610 NAG A 504 REMARK 610 NAG A 505 REMARK 610 NAG A 506 REMARK 610 NAG A 507 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5F4L RELATED DB: PDB REMARK 900 RELATED ID: 5F4R RELATED DB: PDB REMARK 900 RELATED ID: 5F4U RELATED DB: PDB DBREF 5F4P D 49 491 PDB 5F4P 5F4P 49 491 DBREF 5F4P A 49 491 PDB 5F4P 5F4P 49 491 SEQRES 1 D 350 LYS THR THR LEU PHE CYS ALA SER ASP ALA LYS ALA TYR SEQRES 2 D 350 GLU LYS GLU VAL HIS ASN VAL TRP ALA THR HIS ALA CYS SEQRES 3 D 350 VAL PRO THR ASP PRO ASN PRO GLN GLU MET VAL LEU ALA SEQRES 4 D 350 ASN VAL THR GLU ASN PHE ASN MET TRP LYS ASN ASP MET SEQRES 5 D 350 VAL GLU GLN MET HIS GLU ASP ILE ILE SER LEU TRP ASP SEQRES 6 D 350 GLU SER LEU LYS PRO CYS VAL LYS LEU THR GLY GLY SER SEQRES 7 D 350 ALA ILE THR GLN ALA CYS PRO LYS VAL SER PHE ASP PRO SEQRES 8 D 350 ILE PRO LEU HIS TYR CYS ALA PRO ALA GLY PHE ALA ILE SEQRES 9 D 350 LEU LYS CYS ASN ASN LYS THR PHE ASN GLY THR GLY PRO SEQRES 10 D 350 CYS ARG ASN VAL SER THR VAL GLN CYS THR HIS GLY ILE SEQRES 11 D 350 LYS PRO VAL VAL SER THR GLN LEU LEU LEU ASN GLY SER SEQRES 12 D 350 LEU ALA GLU GLU GLU ILE ILE ILE ARG SER GLU ASN LEU SEQRES 13 D 350 THR ASN ASN ALA LYS THR ILE ILE VAL HIS LEU ASN GLU SEQRES 14 D 350 SER VAL ASN ILE VAL CYS THR ARG PRO ASN ASN GLY GLY SEQRES 15 D 350 SER GLY SER GLY GLY ASN ILE ARG GLN ALA HIS CYS ASN SEQRES 16 D 350 ILE ASN GLU SER LYS TRP ASN ASN THR LEU GLN LYS VAL SEQRES 17 D 350 GLY GLU GLU LEU ALA LYS HIS PHE PRO SER LYS THR ILE SEQRES 18 D 350 LYS PHE GLU PRO SER SER GLY GLY ASP LEU GLU ILE THR SEQRES 19 D 350 THR HIS SER PHE ASN CYS ARG GLY GLU PHE PHE TYR CYS SEQRES 20 D 350 ASN THR SER ASP LEU PHE ASN GLY THR TYR ARG ASN GLY SEQRES 21 D 350 THR TYR ASN HIS THR GLY ARG SER SER ASN GLY THR ILE SEQRES 22 D 350 THR LEU GLN CYS LYS ILE LYS GLN ILE ILE ASN MET TRP SEQRES 23 D 350 GLN GLU VAL GLY ARG ALA ILE TYR ALA PRO PRO ILE GLU SEQRES 24 D 350 GLY GLU ILE THR CYS ASN SER ASN ILE THR GLY LEU LEU SEQRES 25 D 350 LEU LEU ARG ASP GLY GLY ASN ASP ASP ASN ASP THR GLU SEQRES 26 D 350 THR PHE ARG PRO GLY GLY GLY ASP MET ARG ASP ASN TRP SEQRES 27 D 350 ARG SER GLU LEU TYR LYS TYR LYS VAL VAL GLU ILE SEQRES 1 A 350 LYS THR THR LEU PHE CYS ALA SER ASP ALA LYS ALA TYR SEQRES 2 A 350 GLU LYS GLU VAL HIS ASN VAL TRP ALA THR HIS ALA CYS SEQRES 3 A 350 VAL PRO THR ASP PRO ASN PRO GLN GLU MET VAL LEU ALA SEQRES 4 A 350 ASN VAL THR GLU ASN PHE ASN MET TRP LYS ASN ASP MET SEQRES 5 A 350 VAL GLU GLN MET HIS GLU ASP ILE ILE SER LEU TRP ASP SEQRES 6 A 350 GLU SER LEU LYS PRO CYS VAL LYS LEU THR GLY GLY SER SEQRES 7 A 350 ALA ILE THR GLN ALA CYS PRO LYS VAL SER PHE ASP PRO SEQRES 8 A 350 ILE PRO LEU HIS TYR CYS ALA PRO ALA GLY PHE ALA ILE SEQRES 9 A 350 LEU LYS CYS ASN ASN LYS THR PHE ASN GLY THR GLY PRO SEQRES 10 A 350 CYS ARG ASN VAL SER THR VAL GLN CYS THR HIS GLY ILE SEQRES 11 A 350 LYS PRO VAL VAL SER THR GLN LEU LEU LEU ASN GLY SER SEQRES 12 A 350 LEU ALA GLU GLU GLU ILE ILE ILE ARG SER GLU ASN LEU SEQRES 13 A 350 THR ASN ASN ALA LYS THR ILE ILE VAL HIS LEU ASN GLU SEQRES 14 A 350 SER VAL ASN ILE VAL CYS THR ARG PRO ASN ASN GLY GLY SEQRES 15 A 350 SER GLY SER GLY GLY ASN ILE ARG GLN ALA HIS CYS ASN SEQRES 16 A 350 ILE ASN GLU SER LYS TRP ASN ASN THR LEU GLN LYS VAL SEQRES 17 A 350 GLY GLU GLU LEU ALA LYS HIS PHE PRO SER LYS THR ILE SEQRES 18 A 350 LYS PHE GLU PRO SER SER GLY GLY ASP LEU GLU ILE THR SEQRES 19 A 350 THR HIS SER PHE ASN CYS ARG GLY GLU PHE PHE TYR CYS SEQRES 20 A 350 ASN THR SER ASP LEU PHE ASN GLY THR TYR ARG ASN GLY SEQRES 21 A 350 THR TYR ASN HIS THR GLY ARG SER SER ASN GLY THR ILE SEQRES 22 A 350 THR LEU GLN CYS LYS ILE LYS GLN ILE ILE ASN MET TRP SEQRES 23 A 350 GLN GLU VAL GLY ARG ALA ILE TYR ALA PRO PRO ILE GLU SEQRES 24 A 350 GLY GLU ILE THR CYS ASN SER ASN ILE THR GLY LEU LEU SEQRES 25 A 350 LEU LEU ARG ASP GLY GLY ASN ASP ASP ASN ASP THR GLU SEQRES 26 A 350 THR PHE ARG PRO GLY GLY GLY ASP MET ARG ASP ASN TRP SEQRES 27 A 350 ARG SER GLU LEU TYR LYS TYR LYS VAL VAL GLU ILE HET NAG D 501 14 HET NAG D 502 14 HET NAG D 503 14 HET NAG D 504 14 HET NAG D 505 14 HET NAG D 506 14 HET 5VG D 507 31 HET 5VG A 501 31 HET NAG A 502 14 HET NAG A 503 14 HET NAG A 504 14 HET NAG A 505 14 HET NAG A 506 14 HET NAG A 507 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM 5VG ~{N}'-[(1~{R},2~{R})-2-(CARBAMIMIDAMIDOMETHYL)-5- HETNAM 2 5VG (METHYLAMINOMETHYL)-2,3-DIHYDRO-1~{H}-INDEN-1-YL]- HETNAM 3 5VG ~{N}-(4-CHLORANYL-3-FLUORANYL-PHENYL)ETHANEDIAMIDE HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 3 NAG 12(C8 H15 N O6) FORMUL 9 5VG 2(C21 H24 CL F N6 O2) FORMUL 17 HOH *13(H2 O) HELIX 1 AA1 GLU D 64 CYS D 74 1 11 HELIX 2 AA2 ASN D 98 LEU D 116 1 19 HELIX 3 AA3 GLU D 335 HIS D 352 1 18 HELIX 4 AA4 ASP D 368 THR D 373 1 6 HELIX 5 AA5 ASP D 474 SER D 481 1 8 HELIX 6 AA6 GLU A 64 CYS A 74 1 11 HELIX 7 AA7 ASN A 98 LEU A 116 1 19 HELIX 8 AA8 GLU A 335 PHE A 353 1 19 HELIX 9 AA9 ASP A 368 THR A 373 1 6 HELIX 10 AB1 MET A 475 SER A 481 1 7 SHEET 1 AA1 3 VAL D 75 PRO D 76 0 SHEET 2 AA1 3 PHE D 53 SER D 56 1 N SER D 56 O VAL D 75 SHEET 3 AA1 3 HIS D 216 CYS D 218 -1 O HIS D 216 N ALA D 55 SHEET 1 AA2 2 GLU D 91 ASN D 94 0 SHEET 2 AA2 2 THR D 236 CYS D 239 -1 O CYS D 239 N GLU D 91 SHEET 1 AA3 4 SER D 199 THR D 202 0 SHEET 2 AA3 4 VAL D 120 THR D 123 -1 N THR D 123 O SER D 199 SHEET 3 AA3 4 ARG D 432 ILE D 434 -1 O ARG D 432 N LEU D 122 SHEET 4 AA3 4 ILE D 423 ASN D 425 -1 N ILE D 424 O ALA D 433 SHEET 1 AA4 3 VAL D 242 VAL D 245 0 SHEET 2 AA4 3 ALA D 224 CYS D 228 -1 N ILE D 225 O VAL D 245 SHEET 3 AA4 3 LYS D 487 VAL D 489 -1 O VAL D 489 N ALA D 224 SHEET 1 AA5 7 LEU D 259 LEU D 261 0 SHEET 2 AA5 7 ILE D 443 ARG D 456 -1 O THR D 450 N LEU D 260 SHEET 3 AA5 7 ILE D 284 ARG D 298 -1 N ILE D 284 O LEU D 454 SHEET 4 AA5 7 GLN D 328 ASN D 334 -1 O HIS D 330 N THR D 297 SHEET 5 AA5 7 THR D 413 LYS D 421 -1 O ILE D 414 N ILE D 333 SHEET 6 AA5 7 GLU D 381 CYS D 385 -1 N TYR D 384 O LYS D 419 SHEET 7 AA5 7 HIS D 374 CYS D 378 -1 N CYS D 378 O GLU D 381 SHEET 1 AA6 7 ILE D 271 ARG D 273 0 SHEET 2 AA6 7 ILE D 284 ARG D 298 -1 O HIS D 287 N ILE D 271 SHEET 3 AA6 7 ILE D 443 ARG D 456 -1 O LEU D 454 N ILE D 284 SHEET 4 AA6 7 THR D 465 PRO D 470 -1 O ARG D 469 N LEU D 455 SHEET 5 AA6 7 THR D 358 PHE D 361 1 N THR D 358 O GLU D 466 SHEET 6 AA6 7 GLY D 393 ARG D 396 -1 O GLY D 393 N PHE D 361 SHEET 7 AA6 7 THR D 399 HIS D 405 -1 O ASN D 404 N THR D 394 SHEET 1 AA7 3 VAL A 75 PRO A 76 0 SHEET 2 AA7 3 PHE A 53 SER A 56 1 N SER A 56 O VAL A 75 SHEET 3 AA7 3 HIS A 216 CYS A 218 -1 O CYS A 218 N PHE A 53 SHEET 1 AA8 2 GLU A 91 ASN A 94 0 SHEET 2 AA8 2 THR A 236 CYS A 239 -1 O GLY A 237 N PHE A 93 SHEET 1 AA9 4 SER A 199 THR A 202 0 SHEET 2 AA9 4 VAL A 120 THR A 123 -1 N THR A 123 O SER A 199 SHEET 3 AA9 4 ARG A 432 ILE A 434 -1 O ILE A 434 N VAL A 120 SHEET 4 AA9 4 ILE A 423 ASN A 425 -1 N ILE A 424 O ALA A 433 SHEET 1 AB1 3 VAL A 242 VAL A 245 0 SHEET 2 AB1 3 ALA A 224 CYS A 228 -1 N ILE A 225 O VAL A 245 SHEET 3 AB1 3 TYR A 486 VAL A 489 -1 O VAL A 489 N ALA A 224 SHEET 1 AB2 7 LEU A 259 LEU A 261 0 SHEET 2 AB2 7 ILE A 443 ARG A 456 -1 O THR A 450 N LEU A 260 SHEET 3 AB2 7 ILE A 284 ARG A 298 -1 N CYS A 296 O CYS A 445 SHEET 4 AB2 7 GLN A 328 ASN A 334 -1 O HIS A 330 N THR A 297 SHEET 5 AB2 7 THR A 413 ILE A 420 -1 O ILE A 414 N ILE A 333 SHEET 6 AB2 7 GLU A 381 CYS A 385 -1 N TYR A 384 O LYS A 419 SHEET 7 AB2 7 HIS A 374 CYS A 378 -1 N CYS A 378 O GLU A 381 SHEET 1 AB3 7 ILE A 271 SER A 274 0 SHEET 2 AB3 7 ILE A 284 ARG A 298 -1 O ILE A 285 N ARG A 273 SHEET 3 AB3 7 ILE A 443 ARG A 456 -1 O CYS A 445 N CYS A 296 SHEET 4 AB3 7 THR A 465 PRO A 470 -1 O ARG A 469 N LEU A 455 SHEET 5 AB3 7 THR A 358 PHE A 361 1 N LYS A 360 O PHE A 468 SHEET 6 AB3 7 GLY A 393 ARG A 396 -1 O TYR A 395 N ILE A 359 SHEET 7 AB3 7 THR A 399 HIS A 405 -1 O THR A 399 N ARG A 396 SSBOND 1 CYS D 54 CYS D 74 1555 1555 2.03 SSBOND 2 CYS D 119 CYS D 205 1555 1555 2.03 SSBOND 3 CYS D 218 CYS D 247 1555 1555 2.03 SSBOND 4 CYS D 228 CYS D 239 1555 1555 2.03 SSBOND 5 CYS D 296 CYS D 331 1555 1555 2.03 SSBOND 6 CYS D 378 CYS D 445 1555 1555 2.03 SSBOND 7 CYS D 385 CYS D 418 1555 1555 2.03 SSBOND 8 CYS A 54 CYS A 74 1555 1555 2.03 SSBOND 9 CYS A 119 CYS A 205 1555 1555 2.03 SSBOND 10 CYS A 218 CYS A 247 1555 1555 2.03 SSBOND 11 CYS A 228 CYS A 239 1555 1555 2.04 SSBOND 12 CYS A 296 CYS A 331 1555 1555 2.03 SSBOND 13 CYS A 378 CYS A 445 1555 1555 2.03 SSBOND 14 CYS A 385 CYS A 418 1555 1555 2.03 CRYST1 67.378 127.517 192.945 90.00 90.00 90.00 C 2 2 21 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 0.014842 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007842 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005183 0.00000