HEADER TRANSPORT PROTEIN 03-APR-18 6G6U TITLE THE DYNAMIC NATURE OF THE VDAC1 CHANNELS IN BILAYERS: HUMAN VDAC1 AT TITLE 2 2.7 ANGSTROM RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: VOLTAGE-DEPENDENT ANION-SELECTIVE CHANNEL PROTEIN 1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: HVDAC1,OUTER MITOCHONDRIAL MEMBRANE PROTEIN PORIN 1, COMPND 5 PLASMALEMMAL PORIN,PORIN 31HL,PORIN 31HM; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: VDAC1, VDAC; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET21A KEYWDS ION-CHANNEL, B-BARREL, OUTER MITOCHONDRIAL MEMBRANE, CYTOCHROME C KEYWDS 2 RELEASE, APOPTOSIS, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.RAZETO,P.GRIBBON,C.LOEW REVDAT 3 06-NOV-24 6G6U 1 REMARK REVDAT 2 17-JAN-24 6G6U 1 REMARK REVDAT 1 10-APR-19 6G6U 0 JRNL AUTH A.RAZETO,P.GRIBBON,C.LOEW JRNL TITL THE DYNAMIC NATURE OF THE VDAC1 CHANNELS IN BILAYERS AS JRNL TITL 2 REVEALED BY TWO CRYSTAL STRUCTURES OF THE HUMAN ISOFORM IN JRNL TITL 3 BICELLES AT 2.7 AND 3.3 ANGSTROM RESOLUTION: IMPLICATIONS JRNL TITL 4 FOR VDAC1 VOLTAGE-DEPENDENT MECHANISM AND FOR ITS JRNL TITL 5 OLIGOMERIZATION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.74 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.74 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 122.42 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 18130 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) : 0.257 REMARK 3 R VALUE (WORKING SET) : 0.256 REMARK 3 FREE R VALUE : 0.287 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 960 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4324 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 77 REMARK 3 SOLVENT ATOMS : 10 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 60.67 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 63.37 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.97000 REMARK 3 B22 (A**2) : 0.54000 REMARK 3 B33 (A**2) : 3.49000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.69000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 1.154 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.384 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.296 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 30.934 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : NULL ; NULL REMARK 3 ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 6G6U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-APR-18. REMARK 100 THE DEPOSITION ID IS D_1200008954. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-FEB-17 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.966 REMARK 200 MONOCHROMATOR : C(110) REMARK 200 OPTICS : CRL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19091 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.740 REMARK 200 RESOLUTION RANGE LOW (A) : 122.420 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 3.195 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.1600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.74 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.81 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.34 REMARK 200 R MERGE FOR SHELL (I) : 0.64100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.010 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 3EMN REMARK 200 REMARK 200 REMARK: PLATES OF SIZES 10 X 30 X 30 MICROMETERS REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.87 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25.5% PRECIPITANT MIX 4 [25% (V/V) REMARK 280 MPD, 25% (W/V) PEG 1000, 25% (W/V) PEG 3350], 0.06 M NH4NO3, 0.1 REMARK 280 BUFFER SYSTEM 1 [IMIDAZOLE AND MES ADJUSTED TO PH 6.5], VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 29.07500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3990 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33300 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -43.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 MET A 1 REMARK 465 LEU A 284 REMARK 465 GLU A 285 REMARK 465 HIS A 286 REMARK 465 HIS A 287 REMARK 465 HIS A 288 REMARK 465 HIS A 289 REMARK 465 HIS A 290 REMARK 465 HIS A 291 REMARK 465 MET B 1 REMARK 465 LEU B 284 REMARK 465 GLU B 285 REMARK 465 HIS B 286 REMARK 465 HIS B 287 REMARK 465 HIS B 288 REMARK 465 HIS B 289 REMARK 465 HIS B 290 REMARK 465 HIS B 291 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 28 NZ REMARK 480 LYS A 32 CD CE NZ REMARK 480 LYS A 34 CB CG CD CE NZ REMARK 480 GLU A 36 CB CG CD OE1 OE2 REMARK 480 ASN A 37 CB CG OD1 ND2 REMARK 480 LYS A 53 CG CD CE NZ REMARK 480 LYS A 61 NZ REMARK 480 GLU A 66 CG CD OE1 OE2 REMARK 480 TYR A 67 CG CD1 CD2 CE1 CE2 CZ OH REMARK 480 LYS A 74 CG CD CE NZ REMARK 480 ASN A 79 CG OD1 ND2 REMARK 480 PHE A 99 CG CD1 CD2 CE1 CE2 CZ REMARK 480 ASP A 100 CG OD1 OD2 REMARK 480 LYS A 109 CG CD CE NZ REMARK 480 LYS A 113 CD CE NZ REMARK 480 ILE A 133 CB CG1 CG2 CD1 REMARK 480 LYS A 161 CG CD CE NZ REMARK 480 ARG A 163 CG CD NE CZ NH1 NH2 REMARK 480 ASP A 176 CG OD1 OD2 REMARK 480 GLU A 177 CG CD OE1 OE2 REMARK 480 LYS A 200 CG CD CE NZ REMARK 480 LYS A 201 CG CD CE NZ REMARK 480 LYS A 252 CG CD CE NZ REMARK 480 LYS A 256 CE NZ REMARK 480 HIS A 273 N CA REMARK 480 LEU A 279 CG CD1 CD2 REMARK 480 ALA A 283 CA C O CB REMARK 480 LYS B 28 CE NZ REMARK 480 LYS B 32 CD CE NZ REMARK 480 LYS B 34 CB CG CD CE NZ REMARK 480 GLU B 36 CB CG CD OE1 OE2 REMARK 480 ASN B 37 CB CG OD1 ND2 REMARK 480 GLU B 50 CG CD OE1 OE2 REMARK 480 THR B 52 OG1 CG2 REMARK 480 ARG B 63 CG CD NE CZ NH1 NH2 REMARK 480 GLU B 66 CG CD OE1 OE2 REMARK 480 TYR B 67 CG CD1 CD2 CE1 CE2 CZ OH REMARK 480 LYS B 74 CG CD CE NZ REMARK 480 LEU B 91 CG CD1 CD2 REMARK 480 ARG B 93 CG CD NE CZ NH1 NH2 REMARK 480 PHE B 99 CG CD1 CD2 CE1 CE2 CZ REMARK 480 LYS B 109 CD CE NZ REMARK 480 LYS B 110 CG CD CE NZ REMARK 480 ASP B 132 CG OD1 OD2 REMARK 480 ILE B 133 CB CG1 CG2 CD1 REMARK 480 ARG B 139 CG CD NE CZ NH1 NH2 REMARK 480 GLU B 158 CB CG CD OE1 OE2 REMARK 480 LYS B 161 CG CD CE NZ REMARK 480 ARG B 163 CB CG CD NE CZ NH1 NH2 REMARK 480 ASP B 176 CA CB CG OD1 OD2 REMARK 480 GLU B 177 CG CD OE1 OE2 REMARK 480 LYS B 200 CG CD CE NZ REMARK 480 LYS B 201 CE NZ REMARK 480 LYS B 224 CE NZ REMARK 480 LYS B 252 CG CD CE NZ REMARK 480 HIS B 273 N CA CB CG ND1 CD2 CE1 REMARK 480 HIS B 273 NE2 REMARK 480 LYS B 274 CE NZ 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 ASP A 130 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 LEU A 279 CA - CB - CG ANGL. DEV. = 16.4 DEGREES REMARK 500 LEU B 58 CA - CB - CG ANGL. DEV. = 14.0 DEGREES REMARK 500 ASP B 132 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 LYS B 201 CD - CE - NZ ANGL. DEV. = 14.4 DEGREES REMARK 500 ASP B 264 CB - CA - C ANGL. DEV. = 13.2 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 HIS A 122 -7.41 77.75 REMARK 500 GLU A 147 58.02 39.60 REMARK 500 THR A 188 -47.91 -132.57 REMARK 500 ASN A 199 -168.88 -160.70 REMARK 500 SER A 241 12.26 81.45 REMARK 500 LYS A 266 -147.61 -156.74 REMARK 500 ALA A 270 -154.92 -158.46 REMARK 500 ASP B 78 21.46 -77.59 REMARK 500 ASN B 79 -9.11 72.43 REMARK 500 ARG B 120 -176.03 -171.33 REMARK 500 HIS B 122 -8.87 79.04 REMARK 500 ALA B 134 -42.15 -26.35 REMARK 500 SER B 162 51.33 38.12 REMARK 500 THR B 188 -48.96 -132.12 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 MC3 A 301 REMARK 610 MC3 B 301 REMARK 610 MC3 B 302 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MC3 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MC3 B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MC3 B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 B 303 DBREF 6G6U A 1 283 UNP P21796 VDAC1_HUMAN 1 283 DBREF 6G6U B 1 283 UNP P21796 VDAC1_HUMAN 1 283 SEQADV 6G6U LEU A 284 UNP P21796 EXPRESSION TAG SEQADV 6G6U GLU A 285 UNP P21796 EXPRESSION TAG SEQADV 6G6U HIS A 286 UNP P21796 EXPRESSION TAG SEQADV 6G6U HIS A 287 UNP P21796 EXPRESSION TAG SEQADV 6G6U HIS A 288 UNP P21796 EXPRESSION TAG SEQADV 6G6U HIS A 289 UNP P21796 EXPRESSION TAG SEQADV 6G6U HIS A 290 UNP P21796 EXPRESSION TAG SEQADV 6G6U HIS A 291 UNP P21796 EXPRESSION TAG SEQADV 6G6U LEU B 284 UNP P21796 EXPRESSION TAG SEQADV 6G6U GLU B 285 UNP P21796 EXPRESSION TAG SEQADV 6G6U HIS B 286 UNP P21796 EXPRESSION TAG SEQADV 6G6U HIS B 287 UNP P21796 EXPRESSION TAG SEQADV 6G6U HIS B 288 UNP P21796 EXPRESSION TAG SEQADV 6G6U HIS B 289 UNP P21796 EXPRESSION TAG SEQADV 6G6U HIS B 290 UNP P21796 EXPRESSION TAG SEQADV 6G6U HIS B 291 UNP P21796 EXPRESSION TAG SEQRES 1 A 291 MET ALA VAL PRO PRO THR TYR ALA ASP LEU GLY LYS SER SEQRES 2 A 291 ALA ARG ASP VAL PHE THR LYS GLY TYR GLY PHE GLY LEU SEQRES 3 A 291 ILE LYS LEU ASP LEU LYS THR LYS SER GLU ASN GLY LEU SEQRES 4 A 291 GLU PHE THR SER SER GLY SER ALA ASN THR GLU THR THR SEQRES 5 A 291 LYS VAL THR GLY SER LEU GLU THR LYS TYR ARG TRP THR SEQRES 6 A 291 GLU TYR GLY LEU THR PHE THR GLU LYS TRP ASN THR ASP SEQRES 7 A 291 ASN THR LEU GLY THR GLU ILE THR VAL GLU ASP GLN LEU SEQRES 8 A 291 ALA ARG GLY LEU LYS LEU THR PHE ASP SER SER PHE SER SEQRES 9 A 291 PRO ASN THR GLY LYS LYS ASN ALA LYS ILE LYS THR GLY SEQRES 10 A 291 TYR LYS ARG GLU HIS ILE ASN LEU GLY CYS ASP MET ASP SEQRES 11 A 291 PHE ASP ILE ALA GLY PRO SER ILE ARG GLY ALA LEU VAL SEQRES 12 A 291 LEU GLY TYR GLU GLY TRP LEU ALA GLY TYR GLN MET ASN SEQRES 13 A 291 PHE GLU THR ALA LYS SER ARG VAL THR GLN SER ASN PHE SEQRES 14 A 291 ALA VAL GLY TYR LYS THR ASP GLU PHE GLN LEU HIS THR SEQRES 15 A 291 ASN VAL ASN ASP GLY THR GLU PHE GLY GLY SER ILE TYR SEQRES 16 A 291 GLN LYS VAL ASN LYS LYS LEU GLU THR ALA VAL ASN LEU SEQRES 17 A 291 ALA TRP THR ALA GLY ASN SER ASN THR ARG PHE GLY ILE SEQRES 18 A 291 ALA ALA LYS TYR GLN ILE ASP PRO ASP ALA CYS PHE SER SEQRES 19 A 291 ALA LYS VAL ASN ASN SER SER LEU ILE GLY LEU GLY TYR SEQRES 20 A 291 THR GLN THR LEU LYS PRO GLY ILE LYS LEU THR LEU SER SEQRES 21 A 291 ALA LEU LEU ASP GLY LYS ASN VAL ASN ALA GLY GLY HIS SEQRES 22 A 291 LYS LEU GLY LEU GLY LEU GLU PHE GLN ALA LEU GLU HIS SEQRES 23 A 291 HIS HIS HIS HIS HIS SEQRES 1 B 291 MET ALA VAL PRO PRO THR TYR ALA ASP LEU GLY LYS SER SEQRES 2 B 291 ALA ARG ASP VAL PHE THR LYS GLY TYR GLY PHE GLY LEU SEQRES 3 B 291 ILE LYS LEU ASP LEU LYS THR LYS SER GLU ASN GLY LEU SEQRES 4 B 291 GLU PHE THR SER SER GLY SER ALA ASN THR GLU THR THR SEQRES 5 B 291 LYS VAL THR GLY SER LEU GLU THR LYS TYR ARG TRP THR SEQRES 6 B 291 GLU TYR GLY LEU THR PHE THR GLU LYS TRP ASN THR ASP SEQRES 7 B 291 ASN THR LEU GLY THR GLU ILE THR VAL GLU ASP GLN LEU SEQRES 8 B 291 ALA ARG GLY LEU LYS LEU THR PHE ASP SER SER PHE SER SEQRES 9 B 291 PRO ASN THR GLY LYS LYS ASN ALA LYS ILE LYS THR GLY SEQRES 10 B 291 TYR LYS ARG GLU HIS ILE ASN LEU GLY CYS ASP MET ASP SEQRES 11 B 291 PHE ASP ILE ALA GLY PRO SER ILE ARG GLY ALA LEU VAL SEQRES 12 B 291 LEU GLY TYR GLU GLY TRP LEU ALA GLY TYR GLN MET ASN SEQRES 13 B 291 PHE GLU THR ALA LYS SER ARG VAL THR GLN SER ASN PHE SEQRES 14 B 291 ALA VAL GLY TYR LYS THR ASP GLU PHE GLN LEU HIS THR SEQRES 15 B 291 ASN VAL ASN ASP GLY THR GLU PHE GLY GLY SER ILE TYR SEQRES 16 B 291 GLN LYS VAL ASN LYS LYS LEU GLU THR ALA VAL ASN LEU SEQRES 17 B 291 ALA TRP THR ALA GLY ASN SER ASN THR ARG PHE GLY ILE SEQRES 18 B 291 ALA ALA LYS TYR GLN ILE ASP PRO ASP ALA CYS PHE SER SEQRES 19 B 291 ALA LYS VAL ASN ASN SER SER LEU ILE GLY LEU GLY TYR SEQRES 20 B 291 THR GLN THR LEU LYS PRO GLY ILE LYS LEU THR LEU SER SEQRES 21 B 291 ALA LEU LEU ASP GLY LYS ASN VAL ASN ALA GLY GLY HIS SEQRES 22 B 291 LYS LEU GLY LEU GLY LEU GLU PHE GLN ALA LEU GLU HIS SEQRES 23 B 291 HIS HIS HIS HIS HIS HET MC3 A 301 23 HET NO3 A 302 4 HET MC3 B 301 23 HET MC3 B 302 23 HET NO3 B 303 4 HETNAM MC3 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE HETNAM NO3 NITRATE ION FORMUL 3 MC3 3(C36 H72 N O8 P) FORMUL 4 NO3 2(N O3 1-) FORMUL 8 HOH *10(H2 O) HELIX 1 AA1 THR A 6 LEU A 10 5 5 HELIX 2 AA2 GLY A 11 LYS A 20 1 10 HELIX 3 AA3 THR B 6 LEU B 10 5 5 HELIX 4 AA4 GLY B 11 LYS B 20 1 10 SHEET 1 AA120 LEU A 26 LYS A 34 0 SHEET 2 AA120 GLU A 40 ASN A 48 -1 O ALA A 47 N ILE A 27 SHEET 3 AA120 VAL A 54 TRP A 64 -1 O THR A 55 N SER A 46 SHEET 4 AA120 LEU A 69 ASN A 76 -1 O PHE A 71 N TYR A 62 SHEET 5 AA120 LEU A 81 GLU A 88 -1 O GLU A 84 N THR A 72 SHEET 6 AA120 LEU A 95 SER A 104 -1 O PHE A 99 N ILE A 85 SHEET 7 AA120 LYS A 109 ARG A 120 -1 O ASN A 111 N SER A 102 SHEET 8 AA120 ILE A 123 PHE A 131 -1 O MET A 129 N ILE A 114 SHEET 9 AA120 SER A 137 TYR A 146 -1 O SER A 137 N ASP A 130 SHEET 10 AA120 TRP A 149 GLU A 158 -1 O TRP A 149 N TYR A 146 SHEET 11 AA120 ARG A 163 LYS A 174 -1 O ASN A 168 N GLN A 154 SHEET 12 AA120 PHE A 178 ASN A 185 -1 O LEU A 180 N TYR A 173 SHEET 13 AA120 GLU A 189 ASN A 199 -1 O GLU A 189 N ASN A 185 SHEET 14 AA120 LEU A 202 THR A 211 -1 O LEU A 208 N GLY A 192 SHEET 15 AA120 ARG A 218 ASP A 228 -1 O ARG A 218 N ALA A 209 SHEET 16 AA120 ALA A 231 ASN A 238 -1 O PHE A 233 N TYR A 225 SHEET 17 AA120 ILE A 243 LYS A 252 -1 O GLY A 246 N SER A 234 SHEET 18 AA120 ILE A 255 LEU A 263 -1 O ILE A 255 N LYS A 252 SHEET 19 AA120 LYS A 274 GLN A 282 -1 O GLY A 278 N THR A 258 SHEET 20 AA120 LEU A 26 LYS A 34 1 N ASP A 30 O PHE A 281 SHEET 1 AA220 LEU B 26 LYS B 34 0 SHEET 2 AA220 LEU B 39 ASN B 48 -1 O ALA B 47 N ILE B 27 SHEET 3 AA220 VAL B 54 TRP B 64 -1 O THR B 55 N SER B 46 SHEET 4 AA220 LEU B 69 ASN B 76 -1 O PHE B 71 N TYR B 62 SHEET 5 AA220 LEU B 81 GLU B 88 -1 O GLU B 84 N THR B 72 SHEET 6 AA220 LEU B 95 PHE B 103 -1 O PHE B 99 N ILE B 85 SHEET 7 AA220 ASN B 111 ARG B 120 -1 O ASN B 111 N SER B 102 SHEET 8 AA220 ILE B 123 PHE B 131 -1 O MET B 129 N ILE B 114 SHEET 9 AA220 SER B 137 TYR B 146 -1 O SER B 137 N ASP B 130 SHEET 10 AA220 TRP B 149 GLU B 158 -1 O PHE B 157 N ILE B 138 SHEET 11 AA220 ARG B 163 LYS B 174 -1 O ASN B 168 N GLN B 154 SHEET 12 AA220 PHE B 178 ASN B 185 -1 O LEU B 180 N TYR B 173 SHEET 13 AA220 GLU B 189 LYS B 197 -1 O GLU B 189 N ASN B 185 SHEET 14 AA220 LEU B 202 THR B 211 -1 O LEU B 208 N GLY B 192 SHEET 15 AA220 ARG B 218 GLN B 226 -1 O ARG B 218 N ALA B 209 SHEET 16 AA220 ALA B 231 ASN B 238 -1 O PHE B 233 N TYR B 225 SHEET 17 AA220 ILE B 243 LYS B 252 -1 O GLY B 246 N SER B 234 SHEET 18 AA220 ILE B 255 LEU B 263 -1 O LEU B 263 N ILE B 243 SHEET 19 AA220 LYS B 274 GLN B 282 -1 O GLY B 278 N THR B 258 SHEET 20 AA220 LEU B 26 LYS B 34 1 N ASP B 30 O PHE B 281 SITE 1 AC1 3 PHE A 190 GLY A 192 TRP A 210 SITE 1 AC2 5 ALA A 2 HIS A 122 GLY A 145 GLU A 147 SITE 2 AC2 5 GLY A 148 SITE 1 AC3 6 LEU B 180 PHE B 190 GLY B 192 SER B 193 SITE 2 AC3 6 LEU B 208 TRP B 210 SITE 1 AC4 2 TYR B 153 PHE B 169 SITE 1 AC5 5 ALA B 2 HIS B 122 GLY B 145 GLU B 147 SITE 2 AC5 5 GLY B 148 CRYST1 51.400 58.150 122.720 90.00 94.03 90.00 P 1 21 1 4 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 0.019455 0.000000 0.001371 0.00000 SCALE2 0.000000 0.017197 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008169 0.00000