HEADER MEMBRANE PROTEIN 07-OCT-18 6MPM TITLE RACEMIC M2-TM I42A CRYSTALLIZED FROM RACEMIC DETERGENT COMPND MOL_ID: 1; COMPND 2 MOLECULE: MATRIX PROTEIN 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 25-46; COMPND 5 SYNONYM: PROTON CHANNEL PROTEIN M2; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: INFLUENZA A VIRUS (STRAIN A/HONG KONG/156/1997 SOURCE 4 H5N1 GENOTYPE GS/GD); SOURCE 5 ORGANISM_TAXID: 130763 KEYWDS TRANSMEMBRANE, RACEMIC, COILED-COIL, MEMBRANE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR D.F.KREITLER,Z.YAO,D.E.MORTENSON,K.T.FOREST,S.H.GELLMAN REVDAT 4 29-JUL-20 6MPM 1 COMPND REMARK HETNAM SITE REVDAT 3 01-JAN-20 6MPM 1 REMARK REVDAT 2 13-FEB-19 6MPM 1 JRNL REVDAT 1 30-JAN-19 6MPM 0 JRNL AUTH D.F.KREITLER,Z.YAO,J.D.STEINKRUGER,D.E.MORTENSON,L.HUANG, JRNL AUTH 2 R.MITTAL,B.R.TRAVIS,K.T.FOREST,S.H.GELLMAN JRNL TITL A HENDECAD MOTIF IS PREFERRED FOR HETEROCHIRAL COILED-COIL JRNL TITL 2 FORMATION. JRNL REF J. AM. CHEM. SOC. V. 141 1583 2019 JRNL REFN ESSN 1520-5126 JRNL PMID 30645104 JRNL DOI 10.1021/JACS.8B11246 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 17.11 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 3 NUMBER OF REFLECTIONS : 8605 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.222 REMARK 3 R VALUE (WORKING SET) : 0.221 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.920 REMARK 3 FREE R VALUE TEST SET COUNT : 854 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 17.1105 - 2.5416 0.92 1255 139 0.2155 0.2272 REMARK 3 2 2.5416 - 2.0184 0.97 1311 144 0.1977 0.2101 REMARK 3 3 2.0184 - 1.7635 0.96 1327 153 0.2173 0.1822 REMARK 3 4 1.7635 - 1.6024 0.95 1295 132 0.2424 0.2776 REMARK 3 5 1.6024 - 1.4876 0.94 1288 139 0.2536 0.2540 REMARK 3 6 1.4876 - 1.4000 0.94 1275 147 0.3226 0.3114 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.080 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.330 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 48.44 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.77 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 25 THROUGH 46 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.7631 13.7265 25.2652 REMARK 3 T TENSOR REMARK 3 T11: 0.1139 T22: 0.1513 REMARK 3 T33: 0.1489 T12: -0.0088 REMARK 3 T13: 0.0116 T23: -0.0504 REMARK 3 L TENSOR REMARK 3 L11: 2.5232 L22: 7.4396 REMARK 3 L33: 9.2966 L12: -1.5207 REMARK 3 L13: 1.7027 L23: -7.1530 REMARK 3 S TENSOR REMARK 3 S11: -0.1322 S12: -0.2384 S13: 0.1240 REMARK 3 S21: 0.3962 S22: -0.0465 S23: -0.1880 REMARK 3 S31: -0.2750 S32: -0.0023 S33: 0.1960 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 6MPM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-OCT-18. REMARK 100 THE DEPOSITION ID IS D_1000237363. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-AUG-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : .97856 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8606 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 17.109 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05007 REMARK 200 FOR THE DATA SET : 10.9300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.62380 REMARK 200 FOR SHELL : 2.270 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: PLATE-LIKE SHARDS REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS-HCL PH 8.5 0.1 M SODIUM REMARK 280 CITRATE TRIBASIC 5% V/V PEG400, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P -1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 209 DISTANCE = 6.76 ANGSTROMS 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 BOG A 101 REMARK 610 BOG A 103 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6MPL RELATED DB: PDB DBREF 6MPM A 25 46 UNP O70632 M2_I97A1 25 46 SEQADV 6MPM ACE A 24 UNP O70632 ACETYLATION SEQADV 6MPM ALA A 34 UNP O70632 GLY 34 ENGINEERED MUTATION SEQADV 6MPM ALA A 42 UNP O70632 ILE 42 ENGINEERED MUTATION SEQADV 6MPM NH2 A 47 UNP O70632 AMIDATION SEQRES 1 A 24 ACE PRO LEU VAL VAL ALA ALA SER ILE ILE ALA ILE LEU SEQRES 2 A 24 HIS LEU ILE LEU TRP ALA LEU ASP ARG LEU NH2 HET ACE A 24 3 HET NH2 A 47 3 HET BOG A 101 44 HET BOG A 102 48 HET BOG A 103 8 HETNAM ACE ACETYL GROUP HETNAM NH2 AMINO GROUP HETNAM BOG OCTYL BETA-D-GLUCOPYRANOSIDE FORMUL 1 ACE C2 H4 O FORMUL 1 NH2 H2 N FORMUL 2 BOG 3(C14 H28 O6) FORMUL 5 HOH *9(H2 O) HELIX 1 AA1 PRO A 25 LEU A 46 1 22 LINK C ACE A 24 N PRO A 25 1555 1555 1.33 LINK C LEU A 46 N NH2 A 47 1555 1555 1.33 CRYST1 17.290 18.530 40.240 81.16 87.97 69.07 P -1 2 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 0.057837 -0.022117 0.001306 0.00000 SCALE2 0.000000 0.057778 -0.008826 0.00000 SCALE3 0.000000 0.000000 0.025155 0.00000 HETATM 1 C ACE A 24 9.752 22.722 10.666 1.00 16.30 C ANISOU 1 C ACE A 24 1783 1930 2479 -69 280 2 C HETATM 2 O ACE A 24 9.749 21.840 11.519 1.00 16.86 O ANISOU 2 O ACE A 24 1846 2157 2401 -2 307 -127 O HETATM 3 CH3 ACE A 24 8.639 22.895 9.677 1.00 19.76 C ANISOU 3 CH3 ACE A 24 2074 2944 2489 66 -77 -13 C