HEADER OXIDOREDUCTASE 17-MAR-16 5ITV TITLE CRYSTAL STRUCTURE OF BACILLUS SUBTILIS BACC DIHYDROANTICAPSIN 7- TITLE 2 DEHYDROGENASE IN COMPLEX WITH NADH COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROANTICAPSIN 7-DEHYDROGENASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: BACILYSIN BIOSYNTHESIS OXIDOREDUCTASE BACC; COMPND 5 EC: 1.1.1.385; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS (STRAIN 168); SOURCE 3 ORGANISM_TAXID: 224308; SOURCE 4 STRAIN: 168; SOURCE 5 GENE: BACC, YWFD, BSU37720, IPA-82D; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS OXIDOREDUCTASE, SHORT-CHAIN DEHYDROGENASES/REDUCTASES, ROSSMANN FOLD, KEYWDS 2 NAD(P) BINDING DOMAIN EXPDTA X-RAY DIFFRACTION AUTHOR K.PERINBAM,H.BALARAM,T.N.G.ROW,B.GOPAL REVDAT 3 20-MAR-24 5ITV 1 REMARK REVDAT 2 06-DEC-17 5ITV 1 JRNL REVDAT 1 22-FEB-17 5ITV 0 JRNL AUTH K.PERINBAM,H.BALARAM,T.N.GURU ROW,B.GOPAL JRNL TITL PROBING THE INFLUENCE OF NON-COVALENT CONTACT NETWORKS JRNL TITL 2 IDENTIFIED BY CHARGE DENSITY ANALYSIS ON THE OXIDOREDUCTASE JRNL TITL 3 BACC. JRNL REF PROTEIN ENG. DES. SEL. V. 30 265 2017 JRNL REFN ESSN 1741-0134 JRNL PMID 28158843 JRNL DOI 10.1093/PROTEIN/GZX006 REMARK 2 REMARK 2 RESOLUTION. 2.26 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.26 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.10 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 43846 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) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 2205 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) : 2.26 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.32 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3189 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.08 REMARK 3 BIN R VALUE (WORKING SET) : 0.2800 REMARK 3 BIN FREE R VALUE SET COUNT : 174 REMARK 3 BIN FREE R VALUE : 0.3270 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7391 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 176 REMARK 3 SOLVENT ATOMS : 131 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.39 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.28000 REMARK 3 B22 (A**2) : 0.22000 REMARK 3 B33 (A**2) : 0.85000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.10000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.366 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.213 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.160 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.622 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.927 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.925 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7708 ; 0.006 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 7400 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10480 ; 1.125 ; 1.983 REMARK 3 BOND ANGLES OTHERS (DEGREES): 17016 ; 0.771 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 987 ; 5.129 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 309 ;39.555 ;26.408 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1295 ;12.707 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;20.331 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1238 ; 0.060 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 8756 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1644 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3962 ; 1.125 ; 2.404 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4945 ; 1.976 ; 3.599 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 4946 ; 1.976 ; 3.599 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3745 ; 1.303 ; 2.719 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3746 ; 1.303 ; 2.719 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 5536 ; 2.270 ; 3.998 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 32374 ; 4.812 ;22.866 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 32328 ; 4.807 ;22.871 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 6 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 1 255 B 1 255 15706 0.03 0.05 REMARK 3 2 A 1 255 C 1 255 15726 0.02 0.05 REMARK 3 3 A 1 255 D 1 255 13715 0.02 0.05 REMARK 3 4 B 1 255 C 1 255 15707 0.03 0.05 REMARK 3 5 B 1 255 D 1 255 13679 0.03 0.05 REMARK 3 6 C 1 255 D 1 255 13709 0.02 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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: NULL REMARK 4 REMARK 4 5ITV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 23-MAR-16. REMARK 100 THE DEPOSITION ID IS D_1000219415. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-OCT-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54180 REMARK 200 MONOCHROMATOR : VARIMAX HF REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM 7.2.0 REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.21 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46073 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.260 REMARK 200 RESOLUTION RANGE LOW (A) : 38.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08000 REMARK 200 FOR THE DATA SET : 12.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.26 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.32500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.7 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.51 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M AMMONIUM SULFATE, 0.1M BIS-TRIS, REMARK 280 PH 6.5, 25% W/V POLYETHYLENE GLYCOL 3350, 10% V/V GLYCEROL, REMARK 280 MICROBATCH, TEMPERATURE 291.15K 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 44.04000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 17660 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -117.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 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 PRO D 190 REMARK 465 LEU D 191 REMARK 465 ASN D 192 REMARK 465 GLU D 193 REMARK 465 LYS D 194 REMARK 465 SER D 195 REMARK 465 PHE D 196 REMARK 465 LEU D 197 REMARK 465 GLU D 198 REMARK 465 ASN D 199 REMARK 465 ASN D 200 REMARK 465 GLU D 201 REMARK 465 GLY D 202 REMARK 465 THR D 203 REMARK 465 LEU D 204 REMARK 465 GLU D 205 REMARK 465 GLU D 206 REMARK 465 ILE D 207 REMARK 465 LYS D 208 REMARK 465 LYS D 209 REMARK 465 GLU D 210 REMARK 465 LYS D 211 REMARK 465 ALA D 212 REMARK 465 LYS D 213 REMARK 465 VAL D 214 REMARK 465 ASN D 215 REMARK 465 PRO D 216 REMARK 465 LEU D 217 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 LYS A 50 CD CE NZ REMARK 470 LEU A 191 CG CD1 CD2 REMARK 470 LYS B 50 CE NZ REMARK 470 ASP B 54 CG OD1 OD2 REMARK 470 LEU B 191 CG CD1 CD2 REMARK 470 LYS B 213 CE NZ REMARK 470 LYS C 50 CE NZ REMARK 470 LEU C 191 CG CD1 CD2 REMARK 470 GLU C 205 CD OE1 OE2 REMARK 470 LYS D 50 CG CD CE NZ 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 O1N NAI C 301 O HOH C 401 2.18 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 OE1 GLN B 31 NE2 GLN C 31 1556 1.93 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 178 NE - CZ - NH2 ANGL. DEV. = -3.4 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 ALA A 96 137.45 -170.02 REMARK 500 LEU A 114 -56.84 -120.28 REMARK 500 CYS A 140 -134.44 -89.92 REMARK 500 ALA B 96 136.97 -170.03 REMARK 500 CYS B 140 -134.24 -89.70 REMARK 500 SER B 238 30.69 -95.18 REMARK 500 LEU C 114 -56.59 -120.04 REMARK 500 CYS C 140 -134.28 -90.97 REMARK 500 SER C 238 30.53 -95.25 REMARK 500 CYS D 140 -133.60 -89.97 REMARK 500 SER D 238 30.59 -95.24 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 NAI A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAI B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAI C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAI D 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5ITW RELATED DB: PDB DBREF 5ITV A 3 255 UNP P39640 BACC_BACSU 1 253 DBREF 5ITV B 3 255 UNP P39640 BACC_BACSU 1 253 DBREF 5ITV C 3 255 UNP P39640 BACC_BACSU 1 253 DBREF 5ITV D 3 255 UNP P39640 BACC_BACSU 1 253 SEQADV 5ITV MET A 1 UNP P39640 EXPRESSION TAG SEQADV 5ITV ILE A 2 UNP P39640 EXPRESSION TAG SEQADV 5ITV MET B 1 UNP P39640 EXPRESSION TAG SEQADV 5ITV ILE B 2 UNP P39640 EXPRESSION TAG SEQADV 5ITV MET C 1 UNP P39640 EXPRESSION TAG SEQADV 5ITV ILE C 2 UNP P39640 EXPRESSION TAG SEQADV 5ITV MET D 1 UNP P39640 EXPRESSION TAG SEQADV 5ITV ILE D 2 UNP P39640 EXPRESSION TAG SEQRES 1 A 255 MET ILE MET ASN LEU THR ASP LYS THR VAL LEU ILE THR SEQRES 2 A 255 GLY GLY ALA SER GLY ILE GLY TYR ALA ALA VAL GLN ALA SEQRES 3 A 255 PHE LEU GLY GLN GLN ALA ASN VAL VAL VAL ALA ASP ILE SEQRES 4 A 255 ASP GLU ALA GLN GLY GLU ALA MET VAL ARG LYS GLU ASN SEQRES 5 A 255 ASN ASP ARG LEU HIS PHE VAL GLN THR ASP ILE THR ASP SEQRES 6 A 255 GLU ALA ALA CYS GLN HIS ALA VAL GLU SER ALA VAL HIS SEQRES 7 A 255 THR PHE GLY GLY LEU ASP VAL LEU ILE ASN ASN ALA GLY SEQRES 8 A 255 ILE GLU ILE VAL ALA PRO ILE HIS GLU MET GLU LEU SER SEQRES 9 A 255 ASP TRP ASN LYS VAL LEU GLN VAL ASN LEU THR GLY MET SEQRES 10 A 255 PHE LEU MET SER LYS HIS ALA LEU LYS HIS MET LEU ALA SEQRES 11 A 255 ALA GLY LYS GLY ASN ILE ILE ASN THR CYS SER VAL GLY SEQRES 12 A 255 GLY LEU VAL ALA TRP PRO ASP ILE PRO ALA TYR ASN ALA SEQRES 13 A 255 SER LYS GLY GLY VAL LEU GLN LEU THR LYS SER MET ALA SEQRES 14 A 255 VAL ASP TYR ALA LYS HIS GLN ILE ARG VAL ASN CYS VAL SEQRES 15 A 255 CYS PRO GLY ILE ILE ASP THR PRO LEU ASN GLU LYS SER SEQRES 16 A 255 PHE LEU GLU ASN ASN GLU GLY THR LEU GLU GLU ILE LYS SEQRES 17 A 255 LYS GLU LYS ALA LYS VAL ASN PRO LEU LEU ARG LEU GLY SEQRES 18 A 255 LYS PRO GLU GLU ILE ALA ASN VAL MET LEU PHE LEU ALA SEQRES 19 A 255 SER ASP LEU SER SER TYR MET THR GLY SER ALA ILE THR SEQRES 20 A 255 ALA ASP GLY GLY TYR THR ALA GLN SEQRES 1 B 255 MET ILE MET ASN LEU THR ASP LYS THR VAL LEU ILE THR SEQRES 2 B 255 GLY GLY ALA SER GLY ILE GLY TYR ALA ALA VAL GLN ALA SEQRES 3 B 255 PHE LEU GLY GLN GLN ALA ASN VAL VAL VAL ALA ASP ILE SEQRES 4 B 255 ASP GLU ALA GLN GLY GLU ALA MET VAL ARG LYS GLU ASN SEQRES 5 B 255 ASN ASP ARG LEU HIS PHE VAL GLN THR ASP ILE THR ASP SEQRES 6 B 255 GLU ALA ALA CYS GLN HIS ALA VAL GLU SER ALA VAL HIS SEQRES 7 B 255 THR PHE GLY GLY LEU ASP VAL LEU ILE ASN ASN ALA GLY SEQRES 8 B 255 ILE GLU ILE VAL ALA PRO ILE HIS GLU MET GLU LEU SER SEQRES 9 B 255 ASP TRP ASN LYS VAL LEU GLN VAL ASN LEU THR GLY MET SEQRES 10 B 255 PHE LEU MET SER LYS HIS ALA LEU LYS HIS MET LEU ALA SEQRES 11 B 255 ALA GLY LYS GLY ASN ILE ILE ASN THR CYS SER VAL GLY SEQRES 12 B 255 GLY LEU VAL ALA TRP PRO ASP ILE PRO ALA TYR ASN ALA SEQRES 13 B 255 SER LYS GLY GLY VAL LEU GLN LEU THR LYS SER MET ALA SEQRES 14 B 255 VAL ASP TYR ALA LYS HIS GLN ILE ARG VAL ASN CYS VAL SEQRES 15 B 255 CYS PRO GLY ILE ILE ASP THR PRO LEU ASN GLU LYS SER SEQRES 16 B 255 PHE LEU GLU ASN ASN GLU GLY THR LEU GLU GLU ILE LYS SEQRES 17 B 255 LYS GLU LYS ALA LYS VAL ASN PRO LEU LEU ARG LEU GLY SEQRES 18 B 255 LYS PRO GLU GLU ILE ALA ASN VAL MET LEU PHE LEU ALA SEQRES 19 B 255 SER ASP LEU SER SER TYR MET THR GLY SER ALA ILE THR SEQRES 20 B 255 ALA ASP GLY GLY TYR THR ALA GLN SEQRES 1 C 255 MET ILE MET ASN LEU THR ASP LYS THR VAL LEU ILE THR SEQRES 2 C 255 GLY GLY ALA SER GLY ILE GLY TYR ALA ALA VAL GLN ALA SEQRES 3 C 255 PHE LEU GLY GLN GLN ALA ASN VAL VAL VAL ALA ASP ILE SEQRES 4 C 255 ASP GLU ALA GLN GLY GLU ALA MET VAL ARG LYS GLU ASN SEQRES 5 C 255 ASN ASP ARG LEU HIS PHE VAL GLN THR ASP ILE THR ASP SEQRES 6 C 255 GLU ALA ALA CYS GLN HIS ALA VAL GLU SER ALA VAL HIS SEQRES 7 C 255 THR PHE GLY GLY LEU ASP VAL LEU ILE ASN ASN ALA GLY SEQRES 8 C 255 ILE GLU ILE VAL ALA PRO ILE HIS GLU MET GLU LEU SER SEQRES 9 C 255 ASP TRP ASN LYS VAL LEU GLN VAL ASN LEU THR GLY MET SEQRES 10 C 255 PHE LEU MET SER LYS HIS ALA LEU LYS HIS MET LEU ALA SEQRES 11 C 255 ALA GLY LYS GLY ASN ILE ILE ASN THR CYS SER VAL GLY SEQRES 12 C 255 GLY LEU VAL ALA TRP PRO ASP ILE PRO ALA TYR ASN ALA SEQRES 13 C 255 SER LYS GLY GLY VAL LEU GLN LEU THR LYS SER MET ALA SEQRES 14 C 255 VAL ASP TYR ALA LYS HIS GLN ILE ARG VAL ASN CYS VAL SEQRES 15 C 255 CYS PRO GLY ILE ILE ASP THR PRO LEU ASN GLU LYS SER SEQRES 16 C 255 PHE LEU GLU ASN ASN GLU GLY THR LEU GLU GLU ILE LYS SEQRES 17 C 255 LYS GLU LYS ALA LYS VAL ASN PRO LEU LEU ARG LEU GLY SEQRES 18 C 255 LYS PRO GLU GLU ILE ALA ASN VAL MET LEU PHE LEU ALA SEQRES 19 C 255 SER ASP LEU SER SER TYR MET THR GLY SER ALA ILE THR SEQRES 20 C 255 ALA ASP GLY GLY TYR THR ALA GLN SEQRES 1 D 255 MET ILE MET ASN LEU THR ASP LYS THR VAL LEU ILE THR SEQRES 2 D 255 GLY GLY ALA SER GLY ILE GLY TYR ALA ALA VAL GLN ALA SEQRES 3 D 255 PHE LEU GLY GLN GLN ALA ASN VAL VAL VAL ALA ASP ILE SEQRES 4 D 255 ASP GLU ALA GLN GLY GLU ALA MET VAL ARG LYS GLU ASN SEQRES 5 D 255 ASN ASP ARG LEU HIS PHE VAL GLN THR ASP ILE THR ASP SEQRES 6 D 255 GLU ALA ALA CYS GLN HIS ALA VAL GLU SER ALA VAL HIS SEQRES 7 D 255 THR PHE GLY GLY LEU ASP VAL LEU ILE ASN ASN ALA GLY SEQRES 8 D 255 ILE GLU ILE VAL ALA PRO ILE HIS GLU MET GLU LEU SER SEQRES 9 D 255 ASP TRP ASN LYS VAL LEU GLN VAL ASN LEU THR GLY MET SEQRES 10 D 255 PHE LEU MET SER LYS HIS ALA LEU LYS HIS MET LEU ALA SEQRES 11 D 255 ALA GLY LYS GLY ASN ILE ILE ASN THR CYS SER VAL GLY SEQRES 12 D 255 GLY LEU VAL ALA TRP PRO ASP ILE PRO ALA TYR ASN ALA SEQRES 13 D 255 SER LYS GLY GLY VAL LEU GLN LEU THR LYS SER MET ALA SEQRES 14 D 255 VAL ASP TYR ALA LYS HIS GLN ILE ARG VAL ASN CYS VAL SEQRES 15 D 255 CYS PRO GLY ILE ILE ASP THR PRO LEU ASN GLU LYS SER SEQRES 16 D 255 PHE LEU GLU ASN ASN GLU GLY THR LEU GLU GLU ILE LYS SEQRES 17 D 255 LYS GLU LYS ALA LYS VAL ASN PRO LEU LEU ARG LEU GLY SEQRES 18 D 255 LYS PRO GLU GLU ILE ALA ASN VAL MET LEU PHE LEU ALA SEQRES 19 D 255 SER ASP LEU SER SER TYR MET THR GLY SER ALA ILE THR SEQRES 20 D 255 ALA ASP GLY GLY TYR THR ALA GLN HET NAI A 301 44 HET NAI B 301 44 HET NAI C 301 44 HET NAI D 301 44 HETNAM NAI 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE HETSYN NAI NADH FORMUL 5 NAI 4(C21 H29 N7 O14 P2) FORMUL 9 HOH *131(H2 O) HELIX 1 AA1 SER A 17 GLN A 30 1 14 HELIX 2 AA2 ASP A 40 ASN A 52 1 13 HELIX 3 AA3 ASP A 65 GLY A 81 1 17 HELIX 4 AA4 GLU A 102 LEU A 114 1 13 HELIX 5 AA5 LEU A 114 GLY A 132 1 19 HELIX 6 AA6 SER A 141 LEU A 145 5 5 HELIX 7 AA7 ILE A 151 ALA A 173 1 23 HELIX 8 AA8 THR A 189 ASN A 200 1 12 HELIX 9 AA9 THR A 203 VAL A 214 1 12 HELIX 10 AB1 LYS A 222 SER A 235 1 14 HELIX 11 AB2 ASP A 236 SER A 239 5 4 HELIX 12 AB3 GLY A 251 GLN A 255 5 5 HELIX 13 AB4 SER B 17 GLN B 30 1 14 HELIX 14 AB5 ASP B 40 ASN B 52 1 13 HELIX 15 AB6 ASP B 65 GLY B 81 1 17 HELIX 16 AB7 GLU B 102 LEU B 114 1 13 HELIX 17 AB8 LEU B 114 GLY B 132 1 19 HELIX 18 AB9 SER B 141 LEU B 145 5 5 HELIX 19 AC1 ILE B 151 ALA B 173 1 23 HELIX 20 AC2 THR B 189 ASN B 200 1 12 HELIX 21 AC3 THR B 203 ALA B 212 1 10 HELIX 22 AC4 LYS B 222 SER B 235 1 14 HELIX 23 AC5 ASP B 236 SER B 239 5 4 HELIX 24 AC6 GLY B 251 GLN B 255 5 5 HELIX 25 AC7 SER C 17 GLN C 30 1 14 HELIX 26 AC8 ASP C 40 ASN C 52 1 13 HELIX 27 AC9 ASP C 65 GLY C 81 1 17 HELIX 28 AD1 GLU C 102 LEU C 114 1 13 HELIX 29 AD2 LEU C 114 GLY C 132 1 19 HELIX 30 AD3 SER C 141 LEU C 145 5 5 HELIX 31 AD4 ILE C 151 ALA C 173 1 23 HELIX 32 AD5 THR C 189 ASN C 200 1 12 HELIX 33 AD6 THR C 203 VAL C 214 1 12 HELIX 34 AD7 LYS C 222 SER C 235 1 14 HELIX 35 AD8 ASP C 236 SER C 239 5 4 HELIX 36 AD9 GLY C 251 GLN C 255 5 5 HELIX 37 AE1 SER D 17 GLN D 30 1 14 HELIX 38 AE2 ASP D 40 ASN D 52 1 13 HELIX 39 AE3 ASP D 65 GLY D 81 1 17 HELIX 40 AE4 GLU D 102 LEU D 114 1 13 HELIX 41 AE5 LEU D 114 GLY D 132 1 19 HELIX 42 AE6 SER D 141 LEU D 145 5 5 HELIX 43 AE7 ILE D 151 ALA D 173 1 23 HELIX 44 AE8 LYS D 222 SER D 235 1 14 HELIX 45 AE9 ASP D 236 SER D 239 5 4 HELIX 46 AF1 GLY D 251 GLN D 255 5 5 SHEET 1 AA1 7 LEU A 56 GLN A 60 0 SHEET 2 AA1 7 ASN A 33 ASP A 38 1 N VAL A 36 O HIS A 57 SHEET 3 AA1 7 THR A 9 THR A 13 1 N VAL A 10 O ASN A 33 SHEET 4 AA1 7 VAL A 85 ASN A 88 1 O ILE A 87 N LEU A 11 SHEET 5 AA1 7 GLY A 134 THR A 139 1 O ILE A 137 N LEU A 86 SHEET 6 AA1 7 ILE A 177 PRO A 184 1 O ARG A 178 N ILE A 136 SHEET 7 AA1 7 ALA A 245 ALA A 248 1 O ILE A 246 N CYS A 183 SHEET 1 AA2 7 LEU B 56 GLN B 60 0 SHEET 2 AA2 7 ASN B 33 ASP B 38 1 N VAL B 36 O HIS B 57 SHEET 3 AA2 7 THR B 9 THR B 13 1 N VAL B 10 O ASN B 33 SHEET 4 AA2 7 VAL B 85 ASN B 88 1 O ILE B 87 N LEU B 11 SHEET 5 AA2 7 GLY B 134 THR B 139 1 O ILE B 137 N LEU B 86 SHEET 6 AA2 7 ILE B 177 PRO B 184 1 O ARG B 178 N ILE B 136 SHEET 7 AA2 7 ALA B 245 ALA B 248 1 O ILE B 246 N CYS B 183 SHEET 1 AA3 7 LEU C 56 GLN C 60 0 SHEET 2 AA3 7 ASN C 33 ASP C 38 1 N VAL C 36 O HIS C 57 SHEET 3 AA3 7 THR C 9 THR C 13 1 N VAL C 10 O ASN C 33 SHEET 4 AA3 7 VAL C 85 ASN C 88 1 O ILE C 87 N LEU C 11 SHEET 5 AA3 7 GLY C 134 THR C 139 1 O ILE C 137 N LEU C 86 SHEET 6 AA3 7 ILE C 177 PRO C 184 1 O ARG C 178 N ILE C 136 SHEET 7 AA3 7 ALA C 245 ALA C 248 1 O ILE C 246 N CYS C 183 SHEET 1 AA4 7 LEU D 56 GLN D 60 0 SHEET 2 AA4 7 ASN D 33 ASP D 38 1 N VAL D 36 O HIS D 57 SHEET 3 AA4 7 THR D 9 THR D 13 1 N VAL D 10 O ASN D 33 SHEET 4 AA4 7 VAL D 85 ASN D 88 1 O ILE D 87 N LEU D 11 SHEET 5 AA4 7 GLY D 134 THR D 139 1 O ILE D 137 N LEU D 86 SHEET 6 AA4 7 ILE D 177 PRO D 184 1 O ARG D 178 N ILE D 136 SHEET 7 AA4 7 ALA D 245 ALA D 248 1 O ILE D 246 N CYS D 183 SITE 1 AC1 25 GLY A 14 SER A 17 GLY A 18 ILE A 19 SITE 2 AC1 25 ASP A 38 ILE A 39 THR A 61 ASP A 62 SITE 3 AC1 25 ILE A 63 ASN A 89 ALA A 90 GLY A 91 SITE 4 AC1 25 THR A 139 CYS A 140 SER A 141 TYR A 154 SITE 5 AC1 25 LYS A 158 PRO A 184 GLY A 185 ILE A 186 SITE 6 AC1 25 ILE A 187 THR A 189 LEU A 191 ASN A 192 SITE 7 AC1 25 HOH A 410 SITE 1 AC2 24 GLY B 14 SER B 17 GLY B 18 ILE B 19 SITE 2 AC2 24 ASP B 38 ILE B 39 THR B 61 ASP B 62 SITE 3 AC2 24 ILE B 63 ASN B 89 GLY B 91 THR B 139 SITE 4 AC2 24 CYS B 140 SER B 141 TYR B 154 LYS B 158 SITE 5 AC2 24 PRO B 184 GLY B 185 ILE B 186 ILE B 187 SITE 6 AC2 24 THR B 189 LEU B 191 ASN B 192 HOH B 426 SITE 1 AC3 25 GLY C 14 SER C 17 GLY C 18 ILE C 19 SITE 2 AC3 25 ASP C 38 ILE C 39 THR C 61 ASP C 62 SITE 3 AC3 25 ILE C 63 ASN C 89 ALA C 90 GLY C 91 SITE 4 AC3 25 THR C 139 CYS C 140 SER C 141 TYR C 154 SITE 5 AC3 25 LYS C 158 PRO C 184 GLY C 185 ILE C 186 SITE 6 AC3 25 ILE C 187 THR C 189 LEU C 191 ASN C 192 SITE 7 AC3 25 HOH C 401 SITE 1 AC4 19 GLY D 14 SER D 17 GLY D 18 ILE D 19 SITE 2 AC4 19 ASP D 38 ILE D 39 THR D 61 ASP D 62 SITE 3 AC4 19 ILE D 63 ASN D 89 THR D 139 CYS D 140 SITE 4 AC4 19 SER D 141 TYR D 154 LYS D 158 PRO D 184 SITE 5 AC4 19 GLY D 185 ILE D 187 HOH D 409 CRYST1 74.750 88.080 78.610 90.00 106.44 90.00 P 1 21 1 8 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 0.013378 0.000000 0.003947 0.00000 SCALE2 0.000000 0.011353 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013263 0.00000