HEADER MEMBRANE PROTEIN 02-DEC-14 4RWC TITLE RACEMIC M2-TM CRYSTALLIZED FROM RACEMIC DETERGENT COMPND MOL_ID: 1; COMPND 2 MOLECULE: MATRIX PROTEIN 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: TRANSMEMBRANE DOMAIN; 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; SOURCE 4 ORGANISM_TAXID: 130763; SOURCE 5 OTHER_DETAILS: GENERATED VIA SOLID-PHASE PEPTIDE SYNTHESIS. KEYWDS TRANSMEMBRANE PEPTIDE, PROTON CHANNEL, MEMBRANE, MEMBRANE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR D.E.MORTENSON,J.D.STEINKRUGER,D.F.KREITLER,S.H.GELLMAN,K.T.FOREST REVDAT 4 06-NOV-24 4RWC 1 HETSYN REVDAT 3 29-JUL-20 4RWC 1 COMPND REMARK SEQADV HETNAM REVDAT 3 2 1 LINK SITE REVDAT 2 11-NOV-15 4RWC 1 JRNL REVDAT 1 14-OCT-15 4RWC 0 JRNL AUTH D.E.MORTENSON,J.D.STEINKRUGER,D.F.KREITLER,D.V.PERRONI, JRNL AUTH 2 G.P.SORENSON,L.HUANG,R.MITTAL,H.G.YUN,B.R.TRAVIS, JRNL AUTH 3 M.K.MAHANTHAPPA,K.T.FOREST,S.H.GELLMAN JRNL TITL HIGH-RESOLUTION STRUCTURES OF A HETEROCHIRAL COILED COIL. JRNL REF PROC.NATL.ACAD.SCI.USA V. 112 13144 2015 JRNL REFN ISSN 0027-8424 JRNL PMID 26460035 JRNL DOI 10.1073/PNAS.1507918112 REMARK 2 REMARK 2 RESOLUTION. 1.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.59 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.8 REMARK 3 NUMBER OF REFLECTIONS : 17310 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) : 0.139 REMARK 3 R VALUE (WORKING SET) : 0.138 REMARK 3 FREE R VALUE : 0.156 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 867 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) : 1.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.08 REMARK 3 REFLECTION IN BIN (WORKING SET) : 922 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 69.38 REMARK 3 BIN R VALUE (WORKING SET) : 0.2420 REMARK 3 BIN FREE R VALUE SET COUNT : 57 REMARK 3 BIN FREE R VALUE : 0.2010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 177 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 28 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 5.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.02 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.25000 REMARK 3 B22 (A**2) : 0.67000 REMARK 3 B33 (A**2) : -0.53000 REMARK 3 B12 (A**2) : 0.49000 REMARK 3 B13 (A**2) : -0.35000 REMARK 3 B23 (A**2) : 1.36000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.021 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.022 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.012 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.553 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.987 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.983 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 244 ; 0.010 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 307 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 329 ; 1.551 ; 2.143 REMARK 3 BOND ANGLES OTHERS (DEGREES): 710 ; 0.751 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 29 ; 3.961 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 4 ;16.953 ;20.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 39 ;12.270 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 1 ; 1.048 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 49 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 204 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 39 ; 0.001 ; 0.020 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 551 ; 2.090 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 4 ;29.373 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 572 ;20.614 ; 5.000 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 4RWC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-DEC-14. REMARK 100 THE DEPOSITION ID IS D_1000087876. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JUN-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : C(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XPREP 2008/2 FOR WINDOWS, XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17458 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.050 REMARK 200 RESOLUTION RANGE LOW (A) : 26.590 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.6 REMARK 200 DATA REDUNDANCY : 6.010 REMARK 200 R MERGE (I) : 0.07200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.8900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.08 REMARK 200 COMPLETENESS FOR SHELL (%) : 65.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.54 REMARK 200 R MERGE FOR SHELL (I) : 0.38100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.540 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 (%): 41.39 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: RACEMIC M2-TM DISSOLVED AT ~3 MG/ML IN REMARK 280 2% SOLUTION (W/V) RACEMIC OG. HANGING DROPS OF 1 UL PEPTIDE REMARK 280 STOCK COMBINED WITH 1 UL OF PRECIPITANT CONTAINING 0.1 M ADA PH REMARK 280 6.5, 1.0 M AMMONIUM SULFATE WERE EQUILIBRATED WITH 500 UL REMARK 280 RESERVOIR VOLUMES OF PRECIPITANT., VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K 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 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 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 102 REMARK 610 BOG A 103 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4RWB RELATED DB: PDB DBREF 4RWC A 25 46 UNP O70632 M2_I97A1 25 46 SEQADV 4RWC ACE A 24 UNP O70632 ACETYLATION SEQADV 4RWC ALA A 34 UNP O70632 GLY 34 ENGINEERED MUTATION SEQADV 4RWC 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 ILE LEU ASP ARG LEU NH2 HET ACE A 24 6 HET NH2 A 47 2 HET BOG A 101 48 HET BOG A 102 24 HET BOG A 103 23 HETNAM ACE ACETYL GROUP HETNAM NH2 AMINO GROUP HETNAM BOG OCTYL BETA-D-GLUCOPYRANOSIDE HETSYN BOG BETA-OCTYLGLUCOSIDE; OCTYL BETA-D-GLUCOSIDE; OCTYL D- HETSYN 2 BOG GLUCOSIDE; OCTYL GLUCOSIDE FORMUL 1 ACE C2 H4 O FORMUL 1 NH2 H2 N FORMUL 2 BOG 3(C14 H28 O6) FORMUL 5 HOH *28(H2 O) HELIX 1 1 PRO A 25 LEU A 46 1 22 LINK C ACE A 24 N PRO A 25 1555 1555 1.39 LINK C ALEU A 46 N ANH2 A 47 1555 1555 1.39 LINK C BLEU A 46 N BNH2 A 47 1555 1555 1.29 CRYST1 15.350 25.880 26.970 90.01 99.49 99.91 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 0.065147 0.011380 0.011234 0.00000 SCALE2 0.000000 0.039225 0.001151 0.00000 SCALE3 0.000000 0.000000 0.037609 0.00000 HETATM 1 C ACE A 24 20.319 -5.430 -4.640 1.00 7.76 C ANISOU 1 C ACE A 24 1164 679 1103 -59 359 -513 C HETATM 2 O ACE A 24 20.733 -5.965 -3.621 1.00 8.58 O ANISOU 2 O ACE A 24 1287 947 1026 -17 273 -433 O HETATM 3 CH3 ACE A 24 20.999 -4.306 -5.361 1.00 9.44 C ANISOU 3 CH3 ACE A 24 1354 828 1404 -238 396 -401 C HETATM 4 H1 ACE A 24 20.362 -3.460 -5.388 1.00 9.16 H ANISOU 4 H1 ACE A 24 1304 888 1287 -205 378 -409 H HETATM 5 H2 ACE A 24 21.891 -4.053 -4.849 1.00 9.09 H ANISOU 5 H2 ACE A 24 1321 811 1321 -163 402 -412 H HETATM 6 H3 ACE A 24 21.237 -4.604 -6.349 1.00 9.17 H ANISOU 6 H3 ACE A 24 1286 834 1364 -168 346 -369 H