HEADER MEMBRANE PROTEIN 28-MAR-17 5XDO TITLE CRYSTAL STRUCTURE OF HUMAN VOLTAGE-DEPENDENT ANION CHANNEL 1 (HVDAC1) TITLE 2 IN C222 SPACE GROUP 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; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MEMBRANE PROTEIN, CELL-FREE SYNTHESIS, BETA-BARREL STRUCTURE EXPDTA X-RAY DIFFRACTION AUTHOR T.HOSAKA,T.KIMURA-SOMEYA,M.SHIROUZU REVDAT 3 22-NOV-23 5XDO 1 REMARK REVDAT 2 06-SEP-17 5XDO 1 JRNL REVDAT 1 28-JUN-17 5XDO 0 JRNL AUTH T.HOSAKA,M.OKAZAKI,T.KIMURA-SOMEYA,Y.ISHIZUKA-KATSURA,K.ITO, JRNL AUTH 2 S.YOKOYAMA,K.DODO,M.SODEOKA,M.SHIROUZU JRNL TITL CRYSTAL STRUCTURAL CHARACTERIZATION REVEALS NOVEL OLIGOMERIC JRNL TITL 2 INTERACTIONS OF HUMAN VOLTAGE-DEPENDENT ANION CHANNEL 1 JRNL REF PROTEIN SCI. V. 26 1749 2017 JRNL REFN ESSN 1469-896X JRNL PMID 28608415 JRNL DOI 10.1002/PRO.3211 REMARK 2 REMARK 2 RESOLUTION. 3.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.11.1_2575 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) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.85 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 24183 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.258 REMARK 3 R VALUE (WORKING SET) : 0.255 REMARK 3 FREE R VALUE : 0.298 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.990 REMARK 3 FREE R VALUE TEST SET COUNT : 1206 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 47.8536 - 6.4438 0.99 2545 128 0.2524 0.2506 REMARK 3 2 6.4438 - 5.1165 1.00 2566 134 0.2703 0.2969 REMARK 3 3 5.1165 - 4.4703 1.00 2555 138 0.2073 0.2459 REMARK 3 4 4.4703 - 4.0618 1.00 2567 133 0.2301 0.2922 REMARK 3 5 4.0618 - 3.7708 1.00 2574 134 0.2544 0.4086 REMARK 3 6 3.7708 - 3.5485 1.00 2558 136 0.2552 0.2963 REMARK 3 7 3.5485 - 3.3709 1.00 2542 136 0.2947 0.3781 REMARK 3 8 3.3709 - 3.2242 1.00 2554 134 0.3464 0.3691 REMARK 3 9 3.2242 - 3.1001 0.98 2516 133 0.4028 0.4440 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) : 0.690 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 35.860 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 101.1 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 103.7 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 : 0.001 4093 REMARK 3 ANGLE : 0.441 5522 REMARK 3 CHIRALITY : 0.039 633 REMARK 3 PLANARITY : 0.003 703 REMARK 3 DIHEDRAL : 5.692 2372 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 80 ) REMARK 3 ORIGIN FOR THE GROUP (A): -27.0381 -4.3702 21.5504 REMARK 3 T TENSOR REMARK 3 T11: 0.8193 T22: 0.9070 REMARK 3 T33: 1.0100 T12: -0.0841 REMARK 3 T13: -0.1175 T23: -0.0121 REMARK 3 L TENSOR REMARK 3 L11: 3.4406 L22: 8.1324 REMARK 3 L33: 0.0818 L12: -2.8106 REMARK 3 L13: 0.8151 L23: -0.4458 REMARK 3 S TENSOR REMARK 3 S11: -0.4801 S12: 0.5891 S13: 0.9156 REMARK 3 S21: 0.3395 S22: 0.4861 S23: -1.7654 REMARK 3 S31: -0.4646 S32: 0.1458 S33: -0.0078 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 81 THROUGH 146 ) REMARK 3 ORIGIN FOR THE GROUP (A): -39.7662 7.4513 18.8477 REMARK 3 T TENSOR REMARK 3 T11: 0.5585 T22: 0.9341 REMARK 3 T33: 0.9882 T12: 0.1364 REMARK 3 T13: -0.1105 T23: -0.0324 REMARK 3 L TENSOR REMARK 3 L11: 7.6897 L22: 7.3844 REMARK 3 L33: 6.3329 L12: 4.9311 REMARK 3 L13: -2.6489 L23: -5.8230 REMARK 3 S TENSOR REMARK 3 S11: 0.3700 S12: -0.8957 S13: 0.6906 REMARK 3 S21: 0.2448 S22: -0.4308 S23: -0.4040 REMARK 3 S31: -0.0390 S32: 1.4817 S33: 0.0441 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 147 THROUGH 283 ) REMARK 3 ORIGIN FOR THE GROUP (A): -39.8269 -16.7329 17.4422 REMARK 3 T TENSOR REMARK 3 T11: 0.5263 T22: 0.7171 REMARK 3 T33: 0.8093 T12: 0.0020 REMARK 3 T13: 0.0822 T23: -0.0059 REMARK 3 L TENSOR REMARK 3 L11: 1.2752 L22: 1.4995 REMARK 3 L33: 1.6531 L12: -0.3922 REMARK 3 L13: 0.9147 L23: -0.5925 REMARK 3 S TENSOR REMARK 3 S11: 0.1645 S12: -0.2154 S13: -0.2093 REMARK 3 S21: -0.0791 S22: -0.0473 S23: 0.1839 REMARK 3 S31: 0.0952 S32: 0.2115 S33: -0.1501 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 52 ) REMARK 3 ORIGIN FOR THE GROUP (A): -72.1632 -40.8170 20.0373 REMARK 3 T TENSOR REMARK 3 T11: 0.9379 T22: 0.7659 REMARK 3 T33: 0.7813 T12: -0.1919 REMARK 3 T13: -0.1213 T23: 0.0234 REMARK 3 L TENSOR REMARK 3 L11: 4.5802 L22: 4.6288 REMARK 3 L33: 2.0143 L12: -2.5985 REMARK 3 L13: -2.9671 L23: 0.9338 REMARK 3 S TENSOR REMARK 3 S11: 0.3450 S12: -0.0321 S13: -1.4716 REMARK 3 S21: -0.1042 S22: -0.1283 S23: 0.1168 REMARK 3 S31: 1.3702 S32: -0.5494 S33: -0.4589 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 53 THROUGH 75 ) REMARK 3 ORIGIN FOR THE GROUP (A): -76.4383 -57.9479 24.7106 REMARK 3 T TENSOR REMARK 3 T11: 0.9753 T22: 1.1338 REMARK 3 T33: 1.7303 T12: -0.4371 REMARK 3 T13: -0.4157 T23: 0.4856 REMARK 3 L TENSOR REMARK 3 L11: 1.9204 L22: 7.6084 REMARK 3 L33: 8.1934 L12: -3.6828 REMARK 3 L13: 1.9575 L23: -5.7341 REMARK 3 S TENSOR REMARK 3 S11: 0.4245 S12: 0.5259 S13: -1.5427 REMARK 3 S21: -1.6535 S22: 1.0576 S23: -0.0998 REMARK 3 S31: 1.1366 S32: -0.4554 S33: -1.5233 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 76 THROUGH 94 ) REMARK 3 ORIGIN FOR THE GROUP (A): -69.4425 -60.0157 20.9225 REMARK 3 T TENSOR REMARK 3 T11: 0.9132 T22: 0.8052 REMARK 3 T33: 1.2446 T12: -0.2846 REMARK 3 T13: 0.0264 T23: 0.3383 REMARK 3 L TENSOR REMARK 3 L11: 2.9084 L22: 2.5825 REMARK 3 L33: 4.6490 L12: 2.6732 REMARK 3 L13: 1.6997 L23: 2.2711 REMARK 3 S TENSOR REMARK 3 S11: -0.2492 S12: 0.1453 S13: -1.4881 REMARK 3 S21: -0.1027 S22: 0.8936 S23: 0.1430 REMARK 3 S31: -0.3395 S32: -0.1260 S33: -0.4125 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 95 THROUGH 120 ) REMARK 3 ORIGIN FOR THE GROUP (A): -59.8203 -59.5063 21.7458 REMARK 3 T TENSOR REMARK 3 T11: 1.1392 T22: 0.8426 REMARK 3 T33: 1.5952 T12: -0.0762 REMARK 3 T13: -0.2625 T23: -0.0189 REMARK 3 L TENSOR REMARK 3 L11: 4.4916 L22: 8.2906 REMARK 3 L33: 6.7706 L12: 1.2383 REMARK 3 L13: -4.9716 L23: 1.2753 REMARK 3 S TENSOR REMARK 3 S11: 0.6423 S12: -1.5939 S13: -2.1719 REMARK 3 S21: -1.8195 S22: 0.7671 S23: 0.1274 REMARK 3 S31: 0.5503 S32: 0.0425 S33: -1.2063 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 121 THROUGH 211 ) REMARK 3 ORIGIN FOR THE GROUP (A): -53.7533 -41.0201 18.3688 REMARK 3 T TENSOR REMARK 3 T11: 0.4748 T22: 0.8088 REMARK 3 T33: 0.8235 T12: -0.0621 REMARK 3 T13: -0.1322 T23: 0.0449 REMARK 3 L TENSOR REMARK 3 L11: 2.3109 L22: 6.3969 REMARK 3 L33: 3.8428 L12: -3.6610 REMARK 3 L13: 0.4770 L23: -2.2864 REMARK 3 S TENSOR REMARK 3 S11: -0.0792 S12: -0.2115 S13: -0.2523 REMARK 3 S21: -0.3452 S22: 0.0006 S23: 0.3227 REMARK 3 S31: -0.0115 S32: 0.3412 S33: 0.0584 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 212 THROUGH 281 ) REMARK 3 ORIGIN FOR THE GROUP (A): -74.7308 -27.9877 17.9664 REMARK 3 T TENSOR REMARK 3 T11: 0.7331 T22: 0.5093 REMARK 3 T33: 0.8440 T12: -0.0482 REMARK 3 T13: -0.0176 T23: -0.0206 REMARK 3 L TENSOR REMARK 3 L11: 8.0748 L22: 3.4522 REMARK 3 L33: 8.0997 L12: 0.6230 REMARK 3 L13: 2.3320 L23: -1.8994 REMARK 3 S TENSOR REMARK 3 S11: -0.0358 S12: -0.3853 S13: -0.4856 REMARK 3 S21: -0.0498 S22: -0.2029 S23: 0.3800 REMARK 3 S31: 0.6682 S32: -0.9369 S33: 0.2299 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 5XDO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-MAR-17. REMARK 100 THE DEPOSITION ID IS D_1300003306. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-OCT-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL32XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24183 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.100 REMARK 200 RESOLUTION RANGE LOW (A) : 47.848 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 10.37 REMARK 200 R MERGE (I) : 0.19800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.2600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 9.66 REMARK 200 R MERGE FOR SHELL (I) : 2.70700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.900 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: 3EMN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 45% PEG300, 0.1 M HEPES (PH 7.0), 0.15 REMARK 280 M NACL, 11 MM SPERMIDINE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z 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 REMARK 290 7555 -X+1/2,Y+1/2,-Z 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 0.00000 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 0.00000 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 60.81000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 73.16500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 60.81000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 73.16500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 60.81000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 73.16500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 60.81000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 73.16500 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 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 -11 REMARK 465 ARG A -10 REMARK 465 GLY A -9 REMARK 465 SER A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET B -11 REMARK 465 ARG B -10 REMARK 465 GLY B -9 REMARK 465 SER B -8 REMARK 465 HIS B -7 REMARK 465 HIS B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 SER B 35 REMARK 465 GLU B 36 REMARK 465 ASN B 37 REMARK 465 GLY B 38 REMARK 465 LEU B 39 REMARK 465 GLU B 40 REMARK 465 SER B 102 REMARK 465 PHE B 103 REMARK 465 SER B 104 REMARK 465 PRO B 105 REMARK 465 ASN B 106 REMARK 465 THR B 107 REMARK 465 GLY B 108 REMARK 465 LYS B 109 REMARK 465 LYS B 110 REMARK 465 ASN B 111 REMARK 465 PHE B 131 REMARK 465 ASP B 132 REMARK 465 ILE B 133 REMARK 465 ALA B 134 REMARK 465 GLY B 135 REMARK 465 PRO B 136 REMARK 465 SER B 137 REMARK 465 GLN B 282 REMARK 465 ALA B 283 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 MET A 1 CG SD CE REMARK 470 LYS A 28 CG CD CE NZ REMARK 470 GLU A 50 CG CD OE1 OE2 REMARK 470 LYS A 53 CG CD CE NZ REMARK 470 LEU A 58 CG CD1 CD2 REMARK 470 TYR A 67 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 74 CG CD CE NZ REMARK 470 ASP A 78 CG OD1 OD2 REMARK 470 LYS A 119 CG CD CE NZ REMARK 470 ASP A 132 CG OD1 OD2 REMARK 470 TYR A 146 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS B 28 CG CD CE NZ REMARK 470 LEU B 31 CG CD1 CD2 REMARK 470 LYS B 32 CG CD CE NZ REMARK 470 THR B 33 OG1 CG2 REMARK 470 LYS B 34 CG CD CE NZ REMARK 470 THR B 42 OG1 CG2 REMARK 470 SER B 43 OG REMARK 470 SER B 44 OG REMARK 470 GLU B 50 CG CD OE1 OE2 REMARK 470 LYS B 53 CG CD CE NZ REMARK 470 GLU B 59 CG CD OE1 OE2 REMARK 470 THR B 60 OG1 CG2 REMARK 470 LYS B 61 CG CD CE NZ REMARK 470 TYR B 62 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 TRP B 64 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP B 64 CZ3 CH2 REMARK 470 LYS B 74 CG CD CE NZ REMARK 470 GLU B 88 CG CD OE1 OE2 REMARK 470 ARG B 93 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 100 CG OD1 OD2 REMARK 470 SER B 101 OG REMARK 470 GLU B 121 CG CD OE1 OE2 REMARK 470 ASP B 130 CG OD1 OD2 REMARK 470 ARG B 139 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 147 CG CD OE1 OE2 REMARK 470 GLU B 158 CG CD OE1 OE2 REMARK 470 ARG B 163 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 166 CG CD OE1 NE2 REMARK 470 LYS B 200 CG CD CE NZ REMARK 470 LYS B 201 CG CD CE NZ REMARK 470 ASN B 214 CG OD1 ND2 REMARK 470 ASN B 216 CG OD1 ND2 REMARK 470 GLN B 249 CG CD OE1 NE2 REMARK 470 LYS B 252 CG CD CE NZ REMARK 470 ILE B 255 CG1 CG2 CD1 REMARK 470 LYS B 256 CG CD CE NZ REMARK 470 LYS B 274 CG CD CE NZ REMARK 470 GLU B 280 CG CD OE1 OE2 REMARK 470 PHE B 281 CG CD1 CD2 CE1 CE2 CZ 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 ARG A 93 68.10 64.08 REMARK 500 ASN A 106 -22.48 67.50 REMARK 500 THR A 175 -158.53 -130.91 REMARK 500 ASN A 199 -159.92 -139.16 REMARK 500 ASP B 78 24.37 -75.52 REMARK 500 GLN B 90 -67.13 -122.84 REMARK 500 TYR B 146 115.17 -161.27 REMARK 500 ASP B 186 18.81 59.91 REMARK 500 ASN B 216 93.06 -64.87 REMARK 500 REMARK 500 REMARK: NULL 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 411 DISTANCE = 6.08 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SPD A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OCT A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OCT A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LNK A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEX A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SPD B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OCT B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OCT B 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5XDN RELATED DB: PDB DBREF 5XDO A 1 283 UNP P21796 VDAC1_HUMAN 1 283 DBREF 5XDO B 1 283 UNP P21796 VDAC1_HUMAN 1 283 SEQADV 5XDO MET A -11 UNP P21796 EXPRESSION TAG SEQADV 5XDO ARG A -10 UNP P21796 EXPRESSION TAG SEQADV 5XDO GLY A -9 UNP P21796 EXPRESSION TAG SEQADV 5XDO SER A -8 UNP P21796 EXPRESSION TAG SEQADV 5XDO HIS A -7 UNP P21796 EXPRESSION TAG SEQADV 5XDO HIS A -6 UNP P21796 EXPRESSION TAG SEQADV 5XDO HIS A -5 UNP P21796 EXPRESSION TAG SEQADV 5XDO HIS A -4 UNP P21796 EXPRESSION TAG SEQADV 5XDO HIS A -3 UNP P21796 EXPRESSION TAG SEQADV 5XDO HIS A -2 UNP P21796 EXPRESSION TAG SEQADV 5XDO GLY A -1 UNP P21796 EXPRESSION TAG SEQADV 5XDO SER A 0 UNP P21796 EXPRESSION TAG SEQADV 5XDO MET B -11 UNP P21796 EXPRESSION TAG SEQADV 5XDO ARG B -10 UNP P21796 EXPRESSION TAG SEQADV 5XDO GLY B -9 UNP P21796 EXPRESSION TAG SEQADV 5XDO SER B -8 UNP P21796 EXPRESSION TAG SEQADV 5XDO HIS B -7 UNP P21796 EXPRESSION TAG SEQADV 5XDO HIS B -6 UNP P21796 EXPRESSION TAG SEQADV 5XDO HIS B -5 UNP P21796 EXPRESSION TAG SEQADV 5XDO HIS B -4 UNP P21796 EXPRESSION TAG SEQADV 5XDO HIS B -3 UNP P21796 EXPRESSION TAG SEQADV 5XDO HIS B -2 UNP P21796 EXPRESSION TAG SEQADV 5XDO GLY B -1 UNP P21796 EXPRESSION TAG SEQADV 5XDO SER B 0 UNP P21796 EXPRESSION TAG SEQRES 1 A 295 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY SER MET SEQRES 2 A 295 ALA VAL PRO PRO THR TYR ALA ASP LEU GLY LYS SER ALA SEQRES 3 A 295 ARG ASP VAL PHE THR LYS GLY TYR GLY PHE GLY LEU ILE SEQRES 4 A 295 LYS LEU ASP LEU LYS THR LYS SER GLU ASN GLY LEU GLU SEQRES 5 A 295 PHE THR SER SER GLY SER ALA ASN THR GLU THR THR LYS SEQRES 6 A 295 VAL THR GLY SER LEU GLU THR LYS TYR ARG TRP THR GLU SEQRES 7 A 295 TYR GLY LEU THR PHE THR GLU LYS TRP ASN THR ASP ASN SEQRES 8 A 295 THR LEU GLY THR GLU ILE THR VAL GLU ASP GLN LEU ALA SEQRES 9 A 295 ARG GLY LEU LYS LEU THR PHE ASP SER SER PHE SER PRO SEQRES 10 A 295 ASN THR GLY LYS LYS ASN ALA LYS ILE LYS THR GLY TYR SEQRES 11 A 295 LYS ARG GLU HIS ILE ASN LEU GLY CYS ASP MET ASP PHE SEQRES 12 A 295 ASP ILE ALA GLY PRO SER ILE ARG GLY ALA LEU VAL LEU SEQRES 13 A 295 GLY TYR GLU GLY TRP LEU ALA GLY TYR GLN MET ASN PHE SEQRES 14 A 295 GLU THR ALA LYS SER ARG VAL THR GLN SER ASN PHE ALA SEQRES 15 A 295 VAL GLY TYR LYS THR ASP GLU PHE GLN LEU HIS THR ASN SEQRES 16 A 295 VAL ASN ASP GLY THR GLU PHE GLY GLY SER ILE TYR GLN SEQRES 17 A 295 LYS VAL ASN LYS LYS LEU GLU THR ALA VAL ASN LEU ALA SEQRES 18 A 295 TRP THR ALA GLY ASN SER ASN THR ARG PHE GLY ILE ALA SEQRES 19 A 295 ALA LYS TYR GLN ILE ASP PRO ASP ALA CYS PHE SER ALA SEQRES 20 A 295 LYS VAL ASN ASN SER SER LEU ILE GLY LEU GLY TYR THR SEQRES 21 A 295 GLN THR LEU LYS PRO GLY ILE LYS LEU THR LEU SER ALA SEQRES 22 A 295 LEU LEU ASP GLY LYS ASN VAL ASN ALA GLY GLY HIS LYS SEQRES 23 A 295 LEU GLY LEU GLY LEU GLU PHE GLN ALA SEQRES 1 B 295 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY SER MET SEQRES 2 B 295 ALA VAL PRO PRO THR TYR ALA ASP LEU GLY LYS SER ALA SEQRES 3 B 295 ARG ASP VAL PHE THR LYS GLY TYR GLY PHE GLY LEU ILE SEQRES 4 B 295 LYS LEU ASP LEU LYS THR LYS SER GLU ASN GLY LEU GLU SEQRES 5 B 295 PHE THR SER SER GLY SER ALA ASN THR GLU THR THR LYS SEQRES 6 B 295 VAL THR GLY SER LEU GLU THR LYS TYR ARG TRP THR GLU SEQRES 7 B 295 TYR GLY LEU THR PHE THR GLU LYS TRP ASN THR ASP ASN SEQRES 8 B 295 THR LEU GLY THR GLU ILE THR VAL GLU ASP GLN LEU ALA SEQRES 9 B 295 ARG GLY LEU LYS LEU THR PHE ASP SER SER PHE SER PRO SEQRES 10 B 295 ASN THR GLY LYS LYS ASN ALA LYS ILE LYS THR GLY TYR SEQRES 11 B 295 LYS ARG GLU HIS ILE ASN LEU GLY CYS ASP MET ASP PHE SEQRES 12 B 295 ASP ILE ALA GLY PRO SER ILE ARG GLY ALA LEU VAL LEU SEQRES 13 B 295 GLY TYR GLU GLY TRP LEU ALA GLY TYR GLN MET ASN PHE SEQRES 14 B 295 GLU THR ALA LYS SER ARG VAL THR GLN SER ASN PHE ALA SEQRES 15 B 295 VAL GLY TYR LYS THR ASP GLU PHE GLN LEU HIS THR ASN SEQRES 16 B 295 VAL ASN ASP GLY THR GLU PHE GLY GLY SER ILE TYR GLN SEQRES 17 B 295 LYS VAL ASN LYS LYS LEU GLU THR ALA VAL ASN LEU ALA SEQRES 18 B 295 TRP THR ALA GLY ASN SER ASN THR ARG PHE GLY ILE ALA SEQRES 19 B 295 ALA LYS TYR GLN ILE ASP PRO ASP ALA CYS PHE SER ALA SEQRES 20 B 295 LYS VAL ASN ASN SER SER LEU ILE GLY LEU GLY TYR THR SEQRES 21 B 295 GLN THR LEU LYS PRO GLY ILE LYS LEU THR LEU SER ALA SEQRES 22 B 295 LEU LEU ASP GLY LYS ASN VAL ASN ALA GLY GLY HIS LYS SEQRES 23 B 295 LEU GLY LEU GLY LEU GLU PHE GLN ALA HET SPD A 301 10 HET OCT A 302 8 HET OCT A 303 8 HET LNK A 304 5 HET LNK A 305 5 HET HEX A 306 6 HET SPD B 301 10 HET OCT B 302 8 HET OCT B 303 8 HETNAM SPD SPERMIDINE HETNAM OCT N-OCTANE HETNAM LNK PENTANE HETNAM HEX HEXANE HETSYN SPD N-(2-AMINO-PROPYL)-1,4-DIAMINOBUTANE; PA(34) FORMUL 3 SPD 2(C7 H19 N3) FORMUL 4 OCT 4(C8 H18) FORMUL 6 LNK 2(C5 H12) FORMUL 8 HEX C6 H14 FORMUL 12 HOH *18(H2 O) HELIX 1 AA1 GLY A 11 LYS A 20 1 10 HELIX 2 AA2 GLY B 11 LYS B 20 1 10 SHEET 1 AA120 LEU A 26 THR A 33 0 SHEET 2 AA120 GLU A 40 ASN A 48 -1 O PHE A 41 N THR A 33 SHEET 3 AA120 VAL A 54 ARG A 63 -1 O THR A 55 N SER A 46 SHEET 4 AA120 LEU A 69 ASN A 76 -1 O TRP A 75 N LEU A 58 SHEET 5 AA120 LEU A 81 GLU A 88 -1 O GLU A 84 N THR A 72 SHEET 6 AA120 LEU A 95 PHE A 103 -1 O PHE A 103 N LEU A 81 SHEET 7 AA120 ALA A 112 LYS A 119 -1 O LYS A 115 N THR A 98 SHEET 8 AA120 ILE A 123 ASP A 130 -1 O LEU A 125 N TYR A 118 SHEET 9 AA120 SER A 137 TYR A 146 -1 O ALA A 141 N GLY A 126 SHEET 10 AA120 TRP A 149 GLU A 158 -1 O ALA A 151 N LEU A 144 SHEET 11 AA120 VAL A 164 LYS A 174 -1 O ALA A 170 N GLY A 152 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 THR A 204 N GLN A 196 SHEET 15 AA120 SER A 215 ASP A 228 -1 O ARG A 218 N ALA A 209 SHEET 16 AA120 ALA A 231 ASN A 238 -1 O VAL A 237 N ILE A 221 SHEET 17 AA120 LEU A 242 LYS A 252 -1 O THR A 248 N CYS A 232 SHEET 18 AA120 ILE A 255 ASP A 264 -1 O LEU A 259 N TYR A 247 SHEET 19 AA120 LYS A 274 GLN A 282 -1 O LYS A 274 N LEU A 262 SHEET 20 AA120 LEU A 26 THR A 33 1 N LYS A 28 O LEU A 279 SHEET 1 AA220 ILE B 27 LYS B 32 0 SHEET 2 AA220 THR B 42 ALA B 47 -1 O GLY B 45 N LEU B 29 SHEET 3 AA220 VAL B 54 TRP B 64 -1 O SER B 57 N SER B 44 SHEET 4 AA220 LEU B 69 TRP B 75 -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 ASP B 100 -1 O PHE B 99 N ILE B 85 SHEET 7 AA220 LYS B 113 LYS B 119 -1 O LYS B 113 N ASP B 100 SHEET 8 AA220 ILE B 123 MET B 129 -1 O LEU B 125 N TYR B 118 SHEET 9 AA220 ARG B 139 TYR B 146 -1 O ARG B 139 N ASP B 128 SHEET 10 AA220 TRP B 149 PHE B 157 -1 O ALA B 151 N LEU B 144 SHEET 11 AA220 VAL B 164 LYS B 174 -1 O ASN B 168 N GLN B 154 SHEET 12 AA220 PHE B 178 ASN B 185 -1 O VAL B 184 N PHE B 169 SHEET 13 AA220 GLU B 189 GLN B 196 -1 O TYR B 195 N GLN B 179 SHEET 14 AA220 LEU B 202 THR B 211 -1 O LEU B 208 N GLY B 192 SHEET 15 AA220 THR B 217 TYR B 225 -1 O GLY B 220 N ASN B 207 SHEET 16 AA220 ALA B 231 ASN B 238 -1 O PHE B 233 N TYR B 225 SHEET 17 AA220 LEU B 242 LYS B 252 -1 O GLY B 246 N SER B 234 SHEET 18 AA220 ILE B 255 ASP B 264 -1 O LEU B 259 N TYR B 247 SHEET 19 AA220 LYS B 274 LEU B 279 -1 O LYS B 274 N LEU B 262 SHEET 20 AA220 ILE B 27 LYS B 32 1 N ASP B 30 O LEU B 279 SITE 1 AC1 4 TYR A 7 LEU A 10 GLN A 154 ASN A 183 SITE 1 AC2 3 ASN A 214 PHE B 219 OCT B 302 SITE 1 AC3 2 SER A 167 PHE A 169 SITE 1 AC4 1 TYR A 153 SITE 1 AC5 1 ARG A 120 SITE 1 AC6 6 TYR B 7 LEU B 10 ARG B 15 HIS B 181 SITE 2 AC6 6 THR B 182 ASN B 183 SITE 1 AC7 2 LEU A 208 OCT A 302 SITE 1 AC8 3 PHE B 190 TRP B 210 GLY B 213 CRYST1 121.620 146.330 77.530 90.00 90.00 90.00 C 2 2 2 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 0.008222 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006834 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012898 0.00000