HEADER IMMUNE SYSTEM 18-APR-10 3MLZ TITLE CRYSTAL STRUCTURE OF ANTI-HIV-1 V3 FAB 3074 IN COMPLEX WITH A VI191 V3 TITLE 2 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: HUMAN MONOCLONAL ANTI-HIV-1 GP120 V3 ANTIBODY 3074 FAB COMPND 3 LIGHT CHAIN; COMPND 4 CHAIN: L; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: HUMAN MONOCLONAL ANTI-HIV-1 GP120 V3 ANTIBODY 3074 FAB COMPND 7 HEAVY CHAIN; COMPND 8 CHAIN: H; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: HIV-1 GP120 THIRD VARIABLE REGION (V3) CROWN; COMPND 11 CHAIN: P SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_TAXID: 9606; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 6 ORGANISM_TAXID: 9606; SOURCE 7 MOL_ID: 3; SOURCE 8 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 9 ORGANISM_TAXID: 11676 KEYWDS HUMAN MONOCLONAL ANTIBODY, FAB, HIV-1, GP120, THIRD VARIABLE LOOP, KEYWDS 2 ANTIBODY-ANTIGEN INTERACTION, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR X.-P.KONG REVDAT 4 08-NOV-17 3MLZ 1 REMARK REVDAT 3 18-AUG-10 3MLZ 1 JRNL REVDAT 2 11-AUG-10 3MLZ 1 JRNL REVDAT 1 14-JUL-10 3MLZ 0 JRNL AUTH X.JIANG,V.BURKE,M.TOTROV,C.WILLIAMS,T.CARDOZO,M.K.GORNY, JRNL AUTH 2 S.ZOLLA-PAZNER,X.P.KONG JRNL TITL CONSERVED STRUCTURAL ELEMENTS IN THE V3 CROWN OF HIV-1 JRNL TITL 2 GP120. JRNL REF NAT.STRUCT.MOL.BIOL. V. 17 955 2010 JRNL REFN ISSN 1545-9993 JRNL PMID 20622876 JRNL DOI 10.1038/NSMB.1861 REMARK 2 REMARK 2 RESOLUTION. 2.99 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 2.99 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.97 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 11277 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) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.330 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 538 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) : 2.99 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.07 REMARK 3 REFLECTION IN BIN (WORKING SET) : 741 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.14 REMARK 3 BIN R VALUE (WORKING SET) : 0.2510 REMARK 3 BIN FREE R VALUE SET COUNT : 41 REMARK 3 BIN FREE R VALUE : 0.5060 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3475 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 188 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.587 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.450 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 24.304 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.933 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.797 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3567 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4865 ; 1.646 ; 1.957 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 463 ; 8.008 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 128 ;35.584 ;24.063 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 546 ;20.494 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;15.749 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 547 ; 0.100 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2696 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2315 ; 0.679 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3746 ; 1.259 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1252 ; 1.392 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1119 ; 2.525 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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. U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 3MLZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-APR-10. REMARK 100 THE DEPOSITION ID IS D_1000058711. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-JUL-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : A KOHZU DOUBLE CRYSTAL REMARK 200 MONOCHROMATOR WITH A SAGITTALLY REMARK 200 FOCUSED SECOND CRYSTAL. TWO REMARK 200 SPHERICAL MIRRORS, ONE WILL BE REMARK 200 RHODIUM COATED. USER CHOICE OF REMARK 200 EITHER MIRROR DEPENDING ON THE REMARK 200 DESIRED ENERGY REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11328 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.990 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.16200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.99 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.49400 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.49 M NH4 SULFATE, 0.1 M NACL, 0.1 M REMARK 280 HEPES, PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 296K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 118.50467 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 59.25233 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 88.87850 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 29.62617 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 148.13083 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 118.50467 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 59.25233 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 29.62617 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 88.87850 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 148.13083 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -27.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, H, P 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 SER P 300 REMARK 465 ASN P 301 REMARK 465 ASN P 302 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 CB SER H 82A O HOH H 248 2.11 REMARK 500 N GLN H 1 O HOH H 241 2.13 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 H 213 C - N - CA ANGL. DEV. = 14.7 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 PRO L 15 117.39 -36.88 REMARK 500 ASN L 27B -81.12 -135.60 REMARK 500 ASN L 30 -10.22 -142.48 REMARK 500 ASN L 51 -49.10 66.30 REMARK 500 SER L 52 -6.00 -145.87 REMARK 500 ARG L 61 -27.52 85.50 REMARK 500 THR L 69 30.04 -97.25 REMARK 500 LEU L 95 42.00 99.98 REMARK 500 LEU L 106A 94.79 -59.11 REMARK 500 ALA L 143 111.16 -162.38 REMARK 500 ASP L 151 -48.27 56.51 REMARK 500 SER L 152 24.23 -178.67 REMARK 500 SER L 190 151.01 107.57 REMARK 500 GLU L 198 5.91 52.77 REMARK 500 GLU L 210 88.89 -152.56 REMARK 500 PRO H 9 154.07 -44.15 REMARK 500 SER H 15 -26.38 75.87 REMARK 500 SER H 58 119.78 -160.91 REMARK 500 PHE H 100K 92.73 58.97 REMARK 500 ALA H 125 112.27 -30.35 REMARK 500 SER H 127 -66.26 7.87 REMARK 500 SER H 128 137.69 60.17 REMARK 500 LYS H 129 111.95 45.46 REMARK 500 SER H 130 121.60 96.29 REMARK 500 ASP H 144 80.00 61.00 REMARK 500 PHE H 146 128.14 -174.96 REMARK 500 SER H 156 -2.63 62.45 REMARK 500 SER H 161 131.19 -172.95 REMARK 500 SER H 172 4.15 -53.57 REMARK 500 PRO H 185 129.51 -33.12 REMARK 500 SER H 186 23.98 -71.25 REMARK 500 LEU H 189 -167.40 -113.19 REMARK 500 THR H 191 -166.64 -113.09 REMARK 500 GLN H 192 -146.01 -91.89 REMARK 500 THR H 193 122.13 -170.96 REMARK 500 TYR H 194 53.59 122.62 REMARK 500 ASN H 204 57.21 32.35 REMARK 500 PRO H 213 -179.80 -30.96 REMARK 500 LYS H 214 -90.36 -11.97 REMARK 500 SER H 215 30.15 81.27 REMARK 500 LYS P 305 135.65 148.05 REMARK 500 ILE P 307 96.48 73.30 REMARK 500 THR P 320 -101.66 38.52 REMARK 500 GLN P 322 51.92 -111.26 REMARK 500 ILE P 323 -25.20 47.27 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 GLU H 100I GLY H 100J -139.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3MLR RELATED DB: PDB REMARK 900 RELATED ID: 3MLS RELATED DB: PDB REMARK 900 RELATED ID: 3MLT RELATED DB: PDB REMARK 900 RELATED ID: 3MLU RELATED DB: PDB REMARK 900 RELATED ID: 3MLV RELATED DB: PDB REMARK 900 RELATED ID: 3MLW RELATED DB: PDB REMARK 900 RELATED ID: 3MLX RELATED DB: PDB REMARK 900 RELATED ID: 3MLY RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 AUTHORS STATE THAT THE FAB WERE MADE BY ENZYME DIGESTION, THEREFORE REMARK 999 THE REAL ENDINGS OF THE CHAINS ARE UNKNOWN. DBREF 3MLZ P 300 326 UNP C0SMB0 C0SMB0_9HIV1 34 58 DBREF 3MLZ L 1 211 PDB 3MLZ 3MLZ 1 211 DBREF 3MLZ H 1 216 PDB 3MLZ 3MLZ 1 216 SEQRES 1 L 214 GLN SER VAL LEU THR GLN PRO PRO SER VAL SER ALA ALA SEQRES 2 L 214 PRO GLY GLN LYS VAL THR ILE SER CYS SER GLY SER SER SEQRES 3 L 214 SER ASN ILE GLY ASN ASN MET VAL SER TRP TYR GLN GLN SEQRES 4 L 214 HIS PRO GLY THR ALA PRO LYS LEU LEU ILE TYR GLU ASN SEQRES 5 L 214 SER LYS ARG PRO SER GLY ILE PRO ASP ARG PHE SER GLY SEQRES 6 L 214 SER ARG SER GLY THR SER ALA THR LEU GLY ILE ILE GLY SEQRES 7 L 214 LEU GLN THR GLY ASP GLU ALA GLU TYR TYR CYS ALA THR SEQRES 8 L 214 TRP ASP GLY SER LEU ARG THR VAL PHE GLY GLY GLY THR SEQRES 9 L 214 LYS LEU THR VAL LEU SER GLN PRO LYS ALA ALA PRO SER SEQRES 10 L 214 VAL THR LEU PHE PRO PRO SER SER GLU GLU LEU GLN ALA SEQRES 11 L 214 ASN LYS ALA THR LEU VAL CYS LEU ILE SER ASP PHE TYR SEQRES 12 L 214 PRO GLY ALA VAL THR VAL ALA TRP LYS ALA ASP SER SER SEQRES 13 L 214 PRO VAL ARG ALA GLY VAL GLU THR THR THR PRO SER LYS SEQRES 14 L 214 GLN SER ASN ASN LYS TYR ALA ALA SER SER TYR LEU SER SEQRES 15 L 214 LEU THR PRO GLU GLN TRP LYS SER HIS ARG SER TYR SER SEQRES 16 L 214 CYS GLN VAL THR HIS GLU GLY SER THR VAL GLU LYS THR SEQRES 17 L 214 VAL ALA PRO THR GLU CYS SEQRES 1 H 230 GLN VAL GLN LEU GLN GLU SER GLY PRO GLY LEU VAL LYS SEQRES 2 H 230 PRO SER GLU THR LEU SER LEU THR CYS THR VAL SER GLY SEQRES 3 H 230 GLY SER ILE SER GLY PHE HIS TRP SER TRP ILE ARG GLN SEQRES 4 H 230 PRO PRO GLY LYS GLY LEU GLU TYR ILE GLY TYR ILE TYR SEQRES 5 H 230 TYR SER GLY SER THR SER TYR ASN PRO SER LEU LYS SER SEQRES 6 H 230 ARG VAL SER MET SER VAL ASP THR SER ARG ASN GLN PHE SEQRES 7 H 230 SER LEU GLU LEU SER SER VAL THR ALA ALA ASP THR ALA SEQRES 8 H 230 VAL TYR TYR CYS ALA ARG ASP PHE GLY GLU TYR HIS TYR SEQRES 9 H 230 ASP GLY ARG GLY PHE GLN CYS GLU GLY PHE ASP LEU TRP SEQRES 10 H 230 GLY GLN GLY THR LEU VAL THR VAL SER SER ALA SER THR SEQRES 11 H 230 LYS GLY PRO SER VAL PHE PRO LEU ALA PRO SER SER LYS SEQRES 12 H 230 SER THR SER GLY GLY THR ALA ALA LEU GLY CYS LEU VAL SEQRES 13 H 230 LYS ASP TYR PHE PRO GLU PRO VAL THR VAL SER TRP ASN SEQRES 14 H 230 SER GLY ALA LEU THR SER GLY VAL HIS THR PHE PRO ALA SEQRES 15 H 230 VAL LEU GLN SER SER GLY LEU TYR SER LEU SER SER VAL SEQRES 16 H 230 VAL THR VAL PRO SER SER SER LEU GLY THR GLN THR TYR SEQRES 17 H 230 ILE CYS ASN VAL ASN HIS LYS PRO SER ASN THR LYS VAL SEQRES 18 H 230 ASP LYS LYS VAL GLU PRO LYS SER CYS SEQRES 1 P 25 SER ASN ASN THR ARG LYS GLY ILE HIS ILE GLY PRO GLY SEQRES 2 P 25 ARG ALA PHE TYR ALA THR GLY GLN ILE THR GLY ASP FORMUL 4 HOH *188(H2 O) HELIX 1 1 SER L 121 GLN L 126 1 6 HELIX 2 2 THR L 181 HIS L 188 1 8 HELIX 3 3 THR H 83 THR H 87 5 5 HELIX 4 4 SER H 156 ALA H 158 5 3 HELIX 5 5 LYS H 201 ASN H 204 5 4 SHEET 1 A 5 SER L 9 ALA L 13 0 SHEET 2 A 5 THR L 102 VAL L 106 1 O LYS L 103 N VAL L 11 SHEET 3 A 5 ALA L 84 ASP L 92 -1 N TYR L 86 O THR L 102 SHEET 4 A 5 SER L 34 GLN L 38 -1 N GLN L 38 O GLU L 85 SHEET 5 A 5 LYS L 45 ILE L 48 -1 O LEU L 47 N TRP L 35 SHEET 1 B 4 SER L 9 ALA L 13 0 SHEET 2 B 4 THR L 102 VAL L 106 1 O LYS L 103 N VAL L 11 SHEET 3 B 4 ALA L 84 ASP L 92 -1 N TYR L 86 O THR L 102 SHEET 4 B 4 ARG L 95A PHE L 98 -1 O ARG L 95A N ASP L 92 SHEET 1 C 3 VAL L 19 SER L 24 0 SHEET 2 C 3 SER L 70 ILE L 75 -1 O ALA L 71 N CYS L 23 SHEET 3 C 3 PHE L 62 SER L 67 -1 N SER L 63 O GLY L 74 SHEET 1 D 4 SER L 114 PHE L 118 0 SHEET 2 D 4 ALA L 130 PHE L 139 -1 O LEU L 135 N THR L 116 SHEET 3 D 4 TYR L 172 LEU L 180 -1 O TYR L 172 N PHE L 139 SHEET 4 D 4 SER L 165 LYS L 166 -1 N SER L 165 O ALA L 173 SHEET 1 E 4 SER L 153 VAL L 155 0 SHEET 2 E 4 VAL L 144 ALA L 150 -1 O ALA L 150 N SER L 153 SHEET 3 E 4 TYR L 191 HIS L 197 -1 O GLN L 194 N ALA L 147 SHEET 4 E 4 SER L 200 VAL L 206 -1 O VAL L 206 N TYR L 191 SHEET 1 F 4 GLN H 3 SER H 7 0 SHEET 2 F 4 LEU H 18 SER H 25 -1 O SER H 25 N GLN H 3 SHEET 3 F 4 GLN H 77 LEU H 82 -1 O PHE H 78 N CYS H 22 SHEET 4 F 4 VAL H 67 ASP H 72 -1 N ASP H 72 O GLN H 77 SHEET 1 G 6 LEU H 11 VAL H 12 0 SHEET 2 G 6 THR H 107 VAL H 111 1 O THR H 110 N VAL H 12 SHEET 3 G 6 ALA H 88 ARG H 94 -1 N TYR H 90 O THR H 107 SHEET 4 G 6 HIS H 33 GLN H 39 -1 N ILE H 37 O TYR H 91 SHEET 5 G 6 GLU H 46 TYR H 52 -1 O ILE H 51 N TRP H 34 SHEET 6 G 6 THR H 57 TYR H 59 -1 O SER H 58 N TYR H 50 SHEET 1 H 4 LEU H 11 VAL H 12 0 SHEET 2 H 4 THR H 107 VAL H 111 1 O THR H 110 N VAL H 12 SHEET 3 H 4 ALA H 88 ARG H 94 -1 N TYR H 90 O THR H 107 SHEET 4 H 4 LEU H 102 TRP H 103 -1 O LEU H 102 N ARG H 94 SHEET 1 I 3 GLY H 100E CYS H 100H 0 SHEET 2 I 3 GLY H 97 HIS H 100 -1 N GLU H 98 O GLN H 100G SHEET 3 I 3 HIS P 308 ILE P 309 -1 O ILE P 309 N GLY H 97 SHEET 1 J 4 SER H 120 LEU H 124 0 SHEET 2 J 4 THR H 135 TYR H 145 -1 O LEU H 141 N PHE H 122 SHEET 3 J 4 TYR H 176 PRO H 185 -1 O VAL H 184 N ALA H 136 SHEET 4 J 4 VAL H 163 THR H 165 -1 N HIS H 164 O VAL H 181 SHEET 1 K 4 SER H 120 LEU H 124 0 SHEET 2 K 4 THR H 135 TYR H 145 -1 O LEU H 141 N PHE H 122 SHEET 3 K 4 TYR H 176 PRO H 185 -1 O VAL H 184 N ALA H 136 SHEET 4 K 4 VAL H 169 LEU H 170 -1 N VAL H 169 O SER H 177 SHEET 1 L 3 THR H 151 TRP H 154 0 SHEET 2 L 3 ILE H 195 HIS H 200 -1 O ASN H 199 N THR H 151 SHEET 3 L 3 THR H 205 LYS H 210 -1 O THR H 205 N HIS H 200 SSBOND 1 CYS L 23 CYS L 88 1555 1555 2.03 SSBOND 2 CYS L 134 CYS L 193 1555 1555 2.04 SSBOND 3 CYS H 22 CYS H 92 1555 1555 2.07 SSBOND 4 CYS H 140 CYS H 196 1555 1555 2.06 CISPEP 1 TYR L 140 PRO L 141 0 -0.71 CISPEP 2 PHE H 146 PRO H 147 0 0.81 CISPEP 3 GLU H 148 PRO H 149 0 11.79 CISPEP 4 SER H 187 SER H 188 0 -11.67 CISPEP 5 SER H 188 LEU H 189 0 -6.28 CISPEP 6 LEU H 189 GLY H 190 0 -6.50 CISPEP 7 GLY H 190 THR H 191 0 5.78 CISPEP 8 THR H 191 GLN H 192 0 6.28 CISPEP 9 THR H 193 TYR H 194 0 1.02 CISPEP 10 ARG P 304 LYS P 305 0 -14.80 CISPEP 11 GLY P 321 GLN P 322 0 -0.95 CRYST1 100.413 100.413 177.757 90.00 90.00 120.00 P 65 2 2 12 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 0.009959 0.005750 0.000000 0.00000 SCALE2 0.000000 0.011500 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005626 0.00000