HEADER MEMBRANE PROTEIN/TRANSPORT PROTEIN 28-MAR-11 3AX2 TITLE CRYSTAL STRUCTURE OF RAT TOM20-ALDH PRESEQUENCE COMPLEX: A DISULFIDE- TITLE 2 TETHERED COMPLEX WITH A NON-OPTIMIZED, LONG LINKER COMPND MOL_ID: 1; COMPND 2 MOLECULE: MITOCHONDRIAL IMPORT RECEPTOR SUBUNIT TOM20 HOMOLOG; COMPND 3 CHAIN: A, C, E, G; COMPND 4 FRAGMENT: CYTOSOLIC DOMAIN, UNP RESIDUES 59-126; COMPND 5 SYNONYM: MITOCHONDRIAL 20 KDA OUTER MEMBRANE PROTEIN, OUTER COMPND 6 MITOCHONDRIAL MEMBRANE RECEPTOR TOM20; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: ALDEHYDE DEHYDROGENASE, MITOCHONDRIAL; COMPND 10 CHAIN: B, D, F, H; COMPND 11 FRAGMENT: UNP RESIDUES 12-20; COMPND 12 SYNONYM: ALDH CLASS 2, ALDH-E2, ALDH1; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: TOMM20; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-1; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 14 ORGANISM_COMMON: RAT; SOURCE 15 ORGANISM_TAXID: 10116; SOURCE 16 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED. KEYWDS PROTEIN-PROTEIN COMPLEX, MEMBRANE PROTEIN-TRANSPORT PROTEIN COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.SAITOH,Y.MAITA,D.KOHDA REVDAT 3 01-NOV-23 3AX2 1 REMARK SEQADV LINK REVDAT 2 11-OCT-17 3AX2 1 REMARK REVDAT 1 06-JUL-11 3AX2 0 JRNL AUTH T.SAITOH,M.IGURA,Y.MIYAZAKI,T.OSE,N.MAITA,D.KOHDA JRNL TITL CRYSTALLOGRAPHIC SNAPSHOTS OF TOM20-MITOCHONDRIAL JRNL TITL 2 PRESEQUENCE INTERACTIONS WITH DISULFIDE-STABILIZED PEPTIDES. JRNL REF BIOCHEMISTRY V. 50 5487 2011 JRNL REFN ISSN 0006-2960 JRNL PMID 21591667 JRNL DOI 10.1021/BI200470X REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.9 REMARK 3 NUMBER OF REFLECTIONS : 31052 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1574 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2070 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.56 REMARK 3 BIN R VALUE (WORKING SET) : 0.2350 REMARK 3 BIN FREE R VALUE SET COUNT : 106 REMARK 3 BIN FREE R VALUE : 0.3020 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2536 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 167 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.77 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.02000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : 0.03000 REMARK 3 B12 (A**2) : -0.01000 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): 0.131 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.072 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.295 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2599 ; 0.028 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3524 ; 2.193 ; 2.017 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 329 ; 5.125 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 115 ;35.021 ;26.522 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 465 ;15.450 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;21.821 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 407 ; 0.164 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1936 ; 0.012 ; 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): 1643 ; 1.487 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2626 ; 2.430 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 956 ; 3.915 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 894 ; 6.344 ; 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 REMARK 4 REMARK 4 3AX2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-MAY-11. REMARK 100 THE DEPOSITION ID IS D_1000029802. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-NOV-10 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NW12A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NUMERICAL LINK TYPE SI(111) REMARK 200 DOUBLE CRYSTAL MONOCHROMATOR, REMARK 200 LIQUID NITROGEN COOLING REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32732 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : 0.08100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.70 REMARK 200 R MERGE FOR SHELL (I) : 0.58700 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: PHASER 2.1.4 REMARK 200 STARTING MODEL: 1WT4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.81 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM ACETATE PH4.6, 1M AMMONIUM REMARK 280 DIHYDROGEN PHOSPJATE, 30% PEG 4000, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 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 32.78033 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 65.56067 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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: 1160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 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 350 REMARK 350 BIOMOLECULE: 2 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: 1180 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 350 REMARK 350 BIOMOLECULE: 3 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: 1150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, F 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 350 REMARK 350 BIOMOLECULE: 4 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: 1130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5150 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: G, H 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 GLY A 54 REMARK 465 PRO A 55 REMARK 465 LEU A 56 REMARK 465 GLY C 54 REMARK 465 PRO C 55 REMARK 465 LEU C 56 REMARK 465 GLY E 54 REMARK 465 PRO E 55 REMARK 465 LEU E 56 REMARK 465 GLY E 57 REMARK 465 SER E 58 REMARK 465 ASP E 59 REMARK 465 LEU E 60 REMARK 465 LYS E 61 REMARK 465 GLY G 54 REMARK 465 PRO G 55 REMARK 465 LEU G 56 REMARK 465 GLY G 57 REMARK 465 SER G 58 REMARK 465 ASP G 59 REMARK 465 LEU G 60 REMARK 465 GLY H 12 REMARK 465 PRO H 13 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 OE2 GLU A 79 NH1 ARG F 14 1.95 REMARK 500 OE1 GLN E 75 O HOH E 157 2.01 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O GLY A 84 OH TYR G 86 1565 1.98 REMARK 500 CD1 LEU D 18 CG2 THR G 113 3654 2.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 78 CB GLU A 78 CG -0.152 REMARK 500 CYS B 26 C NH2 B 27 N 0.145 REMARK 500 TYR C 86 CD1 TYR C 86 CE1 0.113 REMARK 500 CYS D 26 C NH2 D 27 N 0.153 REMARK 500 GLU E 78 CB GLU E 78 CG -0.128 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 LEU A 110 CB - CG - CD2 ANGL. DEV. = -11.5 DEGREES REMARK 500 ARG F 14 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 CYS F 26 O - C - N ANGL. DEV. = -10.6 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 G 115 127.02 -37.50 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 D 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3AWR RELATED DB: PDB REMARK 900 RELATED ID: 3AX3 RELATED DB: PDB REMARK 900 RELATED ID: 3AX5 RELATED DB: PDB DBREF 3AX2 A 59 126 UNP Q62760 TOM20_RAT 59 126 DBREF 3AX2 B 12 20 UNP P11884 ALDH2_RAT 12 20 DBREF 3AX2 C 59 126 UNP Q62760 TOM20_RAT 59 126 DBREF 3AX2 D 12 20 UNP P11884 ALDH2_RAT 12 20 DBREF 3AX2 E 59 126 UNP Q62760 TOM20_RAT 59 126 DBREF 3AX2 F 12 20 UNP P11884 ALDH2_RAT 12 20 DBREF 3AX2 G 59 126 UNP Q62760 TOM20_RAT 59 126 DBREF 3AX2 H 12 20 UNP P11884 ALDH2_RAT 12 20 SEQADV 3AX2 GLY A 54 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 PRO A 55 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 LEU A 56 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 GLY A 57 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 SER A 58 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 TYR B 21 UNP P11884 EXPRESSION TAG SEQADV 3AX2 ALA B 22 UNP P11884 EXPRESSION TAG SEQADV 3AX2 GLY B 23 UNP P11884 EXPRESSION TAG SEQADV 3AX2 SER B 24 UNP P11884 EXPRESSION TAG SEQADV 3AX2 GLY B 25 UNP P11884 EXPRESSION TAG SEQADV 3AX2 CYS B 26 UNP P11884 EXPRESSION TAG SEQADV 3AX2 NH2 B 27 UNP P11884 AMIDATION SEQADV 3AX2 GLY C 54 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 PRO C 55 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 LEU C 56 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 GLY C 57 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 SER C 58 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 TYR D 21 UNP P11884 EXPRESSION TAG SEQADV 3AX2 ALA D 22 UNP P11884 EXPRESSION TAG SEQADV 3AX2 GLY D 23 UNP P11884 EXPRESSION TAG SEQADV 3AX2 SER D 24 UNP P11884 EXPRESSION TAG SEQADV 3AX2 GLY D 25 UNP P11884 EXPRESSION TAG SEQADV 3AX2 CYS D 26 UNP P11884 EXPRESSION TAG SEQADV 3AX2 NH2 D 27 UNP P11884 AMIDATION SEQADV 3AX2 GLY E 54 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 PRO E 55 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 LEU E 56 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 GLY E 57 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 SER E 58 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 TYR F 21 UNP P11884 EXPRESSION TAG SEQADV 3AX2 ALA F 22 UNP P11884 EXPRESSION TAG SEQADV 3AX2 GLY F 23 UNP P11884 EXPRESSION TAG SEQADV 3AX2 SER F 24 UNP P11884 EXPRESSION TAG SEQADV 3AX2 GLY F 25 UNP P11884 EXPRESSION TAG SEQADV 3AX2 CYS F 26 UNP P11884 EXPRESSION TAG SEQADV 3AX2 NH2 F 27 UNP P11884 AMIDATION SEQADV 3AX2 GLY G 54 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 PRO G 55 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 LEU G 56 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 GLY G 57 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 SER G 58 UNP Q62760 EXPRESSION TAG SEQADV 3AX2 TYR H 21 UNP P11884 EXPRESSION TAG SEQADV 3AX2 ALA H 22 UNP P11884 EXPRESSION TAG SEQADV 3AX2 GLY H 23 UNP P11884 EXPRESSION TAG SEQADV 3AX2 SER H 24 UNP P11884 EXPRESSION TAG SEQADV 3AX2 GLY H 25 UNP P11884 EXPRESSION TAG SEQADV 3AX2 CYS H 26 UNP P11884 EXPRESSION TAG SEQADV 3AX2 NH2 H 27 UNP P11884 AMIDATION SEQRES 1 A 73 GLY PRO LEU GLY SER ASP LEU LYS ASP ALA GLU ALA VAL SEQRES 2 A 73 GLN LYS PHE PHE LEU GLU GLU ILE GLN LEU GLY GLU GLU SEQRES 3 A 73 LEU LEU ALA GLN GLY ASP TYR GLU LYS GLY VAL ASP HIS SEQRES 4 A 73 LEU THR ASN ALA ILE ALA VAL CYS GLY GLN PRO GLN GLN SEQRES 5 A 73 LEU LEU GLN VAL LEU GLN GLN THR LEU PRO PRO PRO VAL SEQRES 6 A 73 PHE GLN MET LEU LEU THR LYS LEU SEQRES 1 B 16 GLY PRO ARG LEU SER ARG LEU LEU SER TYR ALA GLY SER SEQRES 2 B 16 GLY CYS NH2 SEQRES 1 C 73 GLY PRO LEU GLY SER ASP LEU LYS ASP ALA GLU ALA VAL SEQRES 2 C 73 GLN LYS PHE PHE LEU GLU GLU ILE GLN LEU GLY GLU GLU SEQRES 3 C 73 LEU LEU ALA GLN GLY ASP TYR GLU LYS GLY VAL ASP HIS SEQRES 4 C 73 LEU THR ASN ALA ILE ALA VAL CYS GLY GLN PRO GLN GLN SEQRES 5 C 73 LEU LEU GLN VAL LEU GLN GLN THR LEU PRO PRO PRO VAL SEQRES 6 C 73 PHE GLN MET LEU LEU THR LYS LEU SEQRES 1 D 16 GLY PRO ARG LEU SER ARG LEU LEU SER TYR ALA GLY SER SEQRES 2 D 16 GLY CYS NH2 SEQRES 1 E 73 GLY PRO LEU GLY SER ASP LEU LYS ASP ALA GLU ALA VAL SEQRES 2 E 73 GLN LYS PHE PHE LEU GLU GLU ILE GLN LEU GLY GLU GLU SEQRES 3 E 73 LEU LEU ALA GLN GLY ASP TYR GLU LYS GLY VAL ASP HIS SEQRES 4 E 73 LEU THR ASN ALA ILE ALA VAL CYS GLY GLN PRO GLN GLN SEQRES 5 E 73 LEU LEU GLN VAL LEU GLN GLN THR LEU PRO PRO PRO VAL SEQRES 6 E 73 PHE GLN MET LEU LEU THR LYS LEU SEQRES 1 F 16 GLY PRO ARG LEU SER ARG LEU LEU SER TYR ALA GLY SER SEQRES 2 F 16 GLY CYS NH2 SEQRES 1 G 73 GLY PRO LEU GLY SER ASP LEU LYS ASP ALA GLU ALA VAL SEQRES 2 G 73 GLN LYS PHE PHE LEU GLU GLU ILE GLN LEU GLY GLU GLU SEQRES 3 G 73 LEU LEU ALA GLN GLY ASP TYR GLU LYS GLY VAL ASP HIS SEQRES 4 G 73 LEU THR ASN ALA ILE ALA VAL CYS GLY GLN PRO GLN GLN SEQRES 5 G 73 LEU LEU GLN VAL LEU GLN GLN THR LEU PRO PRO PRO VAL SEQRES 6 G 73 PHE GLN MET LEU LEU THR LYS LEU SEQRES 1 H 16 GLY PRO ARG LEU SER ARG LEU LEU SER TYR ALA GLY SER SEQRES 2 H 16 GLY CYS NH2 HET NH2 B 27 1 HET NH2 D 27 1 HET NH2 F 27 1 HET NH2 H 27 1 HET PO4 B 2 5 HET PO4 D 1 5 HETNAM NH2 AMINO GROUP HETNAM PO4 PHOSPHATE ION FORMUL 2 NH2 4(H2 N) FORMUL 9 PO4 2(O4 P 3-) FORMUL 11 HOH *167(H2 O) HELIX 1 1 GLY A 57 GLN A 83 1 27 HELIX 2 2 ASP A 85 VAL A 99 1 15 HELIX 3 3 PRO A 103 LEU A 114 1 12 HELIX 4 4 PRO A 115 LEU A 126 1 12 HELIX 5 5 ARG B 14 GLY B 25 1 12 HELIX 6 6 GLY C 57 GLN C 83 1 27 HELIX 7 7 ASP C 85 VAL C 99 1 15 HELIX 8 8 PRO C 103 LEU C 114 1 12 HELIX 9 9 PRO C 115 LYS C 125 1 11 HELIX 10 10 PRO D 13 GLY D 25 1 13 HELIX 11 11 ALA E 63 GLN E 83 1 21 HELIX 12 12 ASP E 85 VAL E 99 1 15 HELIX 13 13 PRO E 103 LEU E 114 1 12 HELIX 14 14 PRO E 115 LYS E 125 1 11 HELIX 15 15 ARG F 14 GLY F 25 1 12 HELIX 16 16 ALA G 63 GLN G 83 1 21 HELIX 17 17 ASP G 85 VAL G 99 1 15 HELIX 18 18 PRO G 103 GLN G 112 1 10 HELIX 19 19 PRO G 115 THR G 124 1 10 HELIX 20 20 ARG H 14 GLY H 25 1 12 SSBOND 1 CYS A 100 CYS B 26 1555 1555 2.02 SSBOND 2 CYS C 100 CYS D 26 1555 1555 2.02 SSBOND 3 CYS E 100 CYS F 26 1555 1555 2.05 SSBOND 4 CYS G 100 CYS H 26 1555 1555 2.05 LINK C CYS B 26 N NH2 B 27 1555 1555 1.48 LINK C CYS D 26 N NH2 D 27 1555 1555 1.49 LINK C CYS F 26 N NH2 F 27 1555 1555 1.37 LINK C CYS H 26 N NH2 H 27 1555 1555 1.25 CISPEP 1 GLY B 12 PRO B 13 0 -1.61 CISPEP 2 GLY F 12 PRO F 13 0 10.05 SITE 1 AC1 5 LYS A 68 GLY B 12 ARG B 14 ARG B 17 SITE 2 AC1 5 HOH B 167 SITE 1 AC2 3 LYS C 68 GLY D 12 ARG D 17 CRYST1 61.490 61.490 98.341 90.00 90.00 120.00 P 31 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 0.016263 0.009389 0.000000 0.00000 SCALE2 0.000000 0.018779 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010169 0.00000