HEADER ELECTRON TRANSPORT 29-JUL-08 3DZE TITLE CRYSTAL STRUCTURE OF BOVINE COUPLING FACTOR B BOUND WITH CADMIUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: ATP SYNTHASE SUBUNIT S, MITOCHONDRIAL; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ATP SYNTHASE-COUPLING FACTOR B, MITOCHONDRIAL ATP SYNTHASE COMPND 5 REGULATORY COMPONENT FACTOR B; COMPND 6 EC: 3.6.3.14; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: BOVINE,COW,DOMESTIC CATTLE,DOMESTIC COW; SOURCE 4 ORGANISM_TAXID: 9913; SOURCE 5 GENE: ATP5S, ATPW; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET43 KEYWDS LEUCINE-RICH REPEAT, CF(0), HYDROGEN ION TRANSPORT, ION TRANSPORT, KEYWDS 2 MEMBRANE, MITOCHONDRION, MITOCHONDRION INNER MEMBRANE, TRANSIT KEYWDS 3 PEPTIDE, TRANSPORT, TRANSPORT PROTEIN, ELECTRON TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR J.K.LEE,R.M.STROUD,G.I.BELOGRUDOV REVDAT 7 21-FEB-24 3DZE 1 REMARK REVDAT 6 20-OCT-21 3DZE 1 REMARK SEQADV LINK REVDAT 5 25-OCT-17 3DZE 1 REMARK REVDAT 4 24-FEB-09 3DZE 1 VERSN REVDAT 3 23-SEP-08 3DZE 1 JRNL REVDAT 2 16-SEP-08 3DZE 1 JRNL REVDAT 1 19-AUG-08 3DZE 0 JRNL AUTH J.K.LEE,G.I.BELOGRUDOV,R.M.STROUD JRNL TITL CRYSTAL STRUCTURE OF BOVINE MITOCHONDRIAL FACTOR B AT 0.96-A JRNL TITL 2 RESOLUTION. JRNL REF PROC.NATL.ACAD.SCI.USA V. 105 13379 2008 JRNL REFN ISSN 0027-8424 JRNL PMID 18768789 JRNL DOI 10.1073/PNAS.0805689105 REMARK 2 REMARK 2 RESOLUTION. 1.15 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 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 93.3 REMARK 3 NUMBER OF REFLECTIONS : 58184 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) : 0.131 REMARK 3 R VALUE (WORKING SET) : 0.129 REMARK 3 FREE R VALUE : 0.155 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3104 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) : 1.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.18 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2217 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 48.54 REMARK 3 BIN R VALUE (WORKING SET) : 0.2610 REMARK 3 BIN FREE R VALUE SET COUNT : 111 REMARK 3 BIN FREE R VALUE : 0.2930 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1437 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 256 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 10.97 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.10000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : 0.13000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.02000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.032 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.032 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.018 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.853 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.978 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.973 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1555 ; 0.035 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1100 ; 0.005 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2105 ; 2.322 ; 1.963 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2687 ; 2.393 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 194 ; 6.763 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 77 ;37.686 ;24.156 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 303 ;11.811 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;19.905 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 224 ; 0.136 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1720 ; 0.015 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 315 ; 0.006 ; 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): 919 ; 2.548 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 370 ; 1.219 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1491 ; 3.512 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 636 ; 5.125 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 608 ; 6.928 ; 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): 2655 ; 2.772 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 258 ;13.732 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 2616 ; 5.978 ; 3.000 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 ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3DZE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JUL-08. REMARK 100 THE DEPOSITION ID IS D_1000048680. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAY-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 1.0332 REMARK 200 MONOCHROMATOR : KOHZU: DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : KOHZU: DOUBLE CRYSTAL SI(111) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 62817 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.100 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 83.5 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.03600 REMARK 200 R SYM (I) : 0.02700 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 32.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.14 REMARK 200 COMPLETENESS FOR SHELL (%) : 11.3 REMARK 200 DATA REDUNDANCY IN SHELL : 1.50 REMARK 200 R MERGE FOR SHELL (I) : 0.30400 REMARK 200 R SYM FOR SHELL (I) : 0.27900 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.840 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 (%): 46.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50% PPG 400, 100 MM TRIS, PH 7.4-8.0, REMARK 280 VAPOR DIFFUSION, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 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 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -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 54.00500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.96200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 54.00500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 24.96200 REMARK 290 SMTRY3 4 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 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 O HOH A 334 O HOH A 424 1.55 REMARK 500 CG2 ILE A 75 O HOH A 265 2.02 REMARK 500 O HOH A 391 O HOH A 400 2.03 REMARK 500 O HOH A 333 O HOH A 424 2.05 REMARK 500 O HOH A 407 O HOH A 408 2.05 REMARK 500 O HOH A 349 O HOH A 428 2.12 REMARK 500 NH1 ARG A 24 O PRO A 53 2.16 REMARK 500 OE2 GLU A 98 O HOH A 369 2.19 REMARK 500 O HOH A 383 O HOH A 434 2.19 REMARK 500 O HOH A 409 O HOH A 410 2.19 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 NE2 GLN A 42 OE2 GLU A 98 1554 1.76 REMARK 500 O HOH A 311 O HOH A 400 4445 1.92 REMARK 500 OE2 GLU A 3 N GLY A 55 1556 2.00 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 TYR A 60 CD1 TYR A 60 CE1 0.117 REMARK 500 MET A 73 CB MET A 73 CG -0.247 REMARK 500 ILE A 75 CA ILE A 75 CB 0.236 REMARK 500 ARG A 90 CD ARG A 90 NE -0.102 REMARK 500 ARG A 90 NE ARG A 90 CZ 0.114 REMARK 500 ARG A 90 NE ARG A 90 CZ 0.106 REMARK 500 ARG A 90 CZ ARG A 90 NH2 -0.080 REMARK 500 ARG A 90 CZ ARG A 90 NH2 -0.128 REMARK 500 ARG A 104 CA ARG A 104 CB 0.133 REMARK 500 LYS A 141 CD LYS A 141 CE 0.155 REMARK 500 GLU A 153 CG GLU A 153 CD 0.133 REMARK 500 GLU A 155 CG GLU A 155 CD 0.128 REMARK 500 SER A 167 CB SER A 167 OG -0.114 REMARK 500 GLU A 169 CD GLU A 169 OE2 0.072 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 ARG A 18 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 32 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 PRO A 56 C - N - CA ANGL. DEV. = 25.4 DEGREES REMARK 500 PRO A 56 C - N - CD ANGL. DEV. = -35.4 DEGREES REMARK 500 TYR A 60 CD1 - CE1 - CZ ANGL. DEV. = -8.1 DEGREES REMARK 500 TYR A 60 CE1 - CZ - CE2 ANGL. DEV. = 12.5 DEGREES REMARK 500 TYR A 60 CZ - CE2 - CD2 ANGL. DEV. = -7.5 DEGREES REMARK 500 ARG A 90 NH1 - CZ - NH2 ANGL. DEV. = 7.4 DEGREES REMARK 500 ARG A 90 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG A 90 NE - CZ - NH1 ANGL. DEV. = -10.1 DEGREES REMARK 500 ARG A 90 NE - CZ - NH2 ANGL. DEV. = -7.7 DEGREES REMARK 500 TYR A 96 CB - CG - CD1 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG A 138 NE - CZ - NH2 ANGL. DEV. = 3.5 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 A 56 149.12 -8.53 REMARK 500 MET A 73 149.60 -170.77 REMARK 500 SER A 74 -112.86 47.13 REMARK 500 ASP A 173 71.28 -119.33 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY A 55 PRO A 56 -140.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 178 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 34 O REMARK 620 2 THR A 68 O 92.1 REMARK 620 3 HOH A 209 O 178.6 88.4 REMARK 620 4 HOH A 229 O 86.4 169.4 92.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A 177 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 213 O REMARK 620 2 HOH A 232 O 103.5 REMARK 620 3 HOH A 368 O 105.3 94.6 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 176 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 177 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 178 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3E2J RELATED DB: PDB REMARK 900 RELATED ID: 3E3Z RELATED DB: PDB REMARK 900 RELATED ID: 3E4G RELATED DB: PDB DBREF 3DZE A 1 175 UNP P22027 ATP5S_BOVIN 26 200 SEQADV 3DZE SER A 0 UNP P22027 EXPRESSION TAG SEQADV 3DZE GLU A 3 UNP P22027 GLY 28 ENGINEERED MUTATION SEQRES 1 A 176 SER PHE TRP GLU TRP LEU ASN ALA VAL PHE ASN LYS VAL SEQRES 2 A 176 ASP HIS ASP ARG ILE ARG ASP VAL GLY PRO ASP ARG ALA SEQRES 3 A 176 ALA SER GLU TRP LEU LEU ARG CYS GLY ALA MET VAL ARG SEQRES 4 A 176 TYR HIS GLY GLN GLN ARG TRP GLN LYS ASP TYR ASN HIS SEQRES 5 A 176 LEU PRO THR GLY PRO LEU ASP LYS TYR LYS ILE GLN ALA SEQRES 6 A 176 ILE ASP ALA THR ASP SER CYS ILE MET SER ILE GLY PHE SEQRES 7 A 176 ASP HIS MET GLU GLY LEU GLN TYR VAL GLU LYS ILE ARG SEQRES 8 A 176 LEU CYS LYS CYS HIS TYR ILE GLU ASP GLY CYS LEU GLU SEQRES 9 A 176 ARG LEU SER GLN LEU GLU ASN LEU GLN LYS SER MET LEU SEQRES 10 A 176 GLU MET GLU ILE ILE SER CYS GLY ASN VAL THR ASP LYS SEQRES 11 A 176 GLY ILE ILE ALA LEU HIS HIS PHE ARG ASN LEU LYS TYR SEQRES 12 A 176 LEU PHE LEU SER ASP LEU PRO GLY VAL LYS GLU LYS GLU SEQRES 13 A 176 LYS ILE VAL GLN ALA PHE LYS THR SER LEU PRO SER LEU SEQRES 14 A 176 GLU LEU LYS LEU ASP LEU LYS HET TRS A 176 8 HET CD A 177 1 HET MG A 178 1 HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM CD CADMIUM ION HETNAM MG MAGNESIUM ION HETSYN TRS TRIS BUFFER FORMUL 2 TRS C4 H12 N O3 1+ FORMUL 3 CD CD 2+ FORMUL 4 MG MG 2+ FORMUL 5 HOH *256(H2 O) HELIX 1 1 SER A 0 LYS A 11 1 12 HELIX 2 2 ASP A 13 GLY A 21 1 9 HELIX 3 3 GLY A 21 CYS A 33 1 13 HELIX 4 4 ASP A 48 LEU A 52 5 5 HELIX 5 5 MET A 73 GLU A 81 5 9 HELIX 6 6 GLU A 98 GLN A 107 1 10 HELIX 7 7 LEU A 108 MET A 115 1 8 HELIX 8 8 THR A 127 LEU A 134 1 8 HELIX 9 9 HIS A 135 PHE A 137 5 3 HELIX 10 10 GLU A 153 LEU A 165 1 13 SHEET 1 A 6 MET A 36 TYR A 39 0 SHEET 2 A 6 ILE A 62 THR A 68 -1 O GLN A 63 N ARG A 38 SHEET 3 A 6 LYS A 88 CYS A 92 1 O ARG A 90 N ALA A 67 SHEET 4 A 6 GLU A 117 ILE A 121 1 O GLU A 119 N LEU A 91 SHEET 5 A 6 TYR A 142 SER A 146 1 O PHE A 144 N ILE A 120 SHEET 6 A 6 GLU A 169 ASP A 173 1 O ASP A 173 N LEU A 145 LINK O GLY A 34 MG MG A 178 1555 1555 2.23 LINK O THR A 68 MG MG A 178 1555 1555 2.31 LINK CD CD A 177 O HOH A 213 1555 1555 2.39 LINK CD CD A 177 O HOH A 232 1555 1555 2.52 LINK CD CD A 177 O HOH A 368 1555 1555 2.12 LINK MG MG A 178 O HOH A 209 1555 1555 2.40 LINK MG MG A 178 O HOH A 229 1555 1555 2.39 SITE 1 AC1 9 LYS A 88 GLU A 109 GLU A 117 HOH A 189 SITE 2 AC1 9 HOH A 300 HOH A 321 HOH A 352 HOH A 395 SITE 3 AC1 9 HOH A 423 SITE 1 AC2 5 GLY A 100 CYS A 101 HOH A 213 HOH A 232 SITE 2 AC2 5 HOH A 368 SITE 1 AC3 6 GLY A 34 THR A 68 HOH A 198 HOH A 209 SITE 2 AC3 6 HOH A 229 HOH A 230 CRYST1 108.010 49.924 36.942 90.00 109.58 90.00 C 1 2 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 0.009258 0.000000 0.003293 0.00000 SCALE2 0.000000 0.020030 0.000000 0.00000 SCALE3 0.000000 0.000000 0.028731 0.00000