10 20 30 40 50 60 70 80 1LLD - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER OXIDOREDUCTASE 08-JUN-92 1LLD
TITLE MOLECULAR BASIS OF ALLOSTERIC ACTIVATION OF BACTERIAL L-LACTATE TITLE 2 DEHYDROGENASE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: L-LACTATE DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.1.1.27; COMPND 5 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BIFIDOBACTERIUM LONGUM SUBSP. LONGUM; SOURCE 3 ORGANISM_TAXID: 1679; SOURCE 4 STRAIN: SUBSP. LONGUM; SOURCE 5 EXPRESSION_SYSTEM_VECTOR_TYPE: BACTERIAL
KEYWDS OXIDOREDUCTASE(CHOH (D)-NAD (A)), OXIDOREDUCTASE
EXPDTA X-RAY DIFFRACTION
AUTHOR S.IWATA,T.OHTA
REVDAT 5 26-FEB-14 1LLD 1 REMARK REVDAT 4 13-JUL-11 1LLD 1 VERSN REVDAT 3 24-FEB-09 1LLD 1 VERSN REVDAT 2 30-SEP-03 1LLD 1 DBREF REVDAT 1 31-JAN-94 1LLD 0
JRNL AUTH S.IWATA,T.OHTA JRNL TITL MOLECULAR BASIS OF ALLOSTERIC ACTIVATION OF BACTERIAL JRNL TITL 2 L-LACTATE DEHYDROGENASE. JRNL REF J.MOL.BIOL. V. 230 21 1993 JRNL REFN ISSN 0022-2836 JRNL PMID 8450537 JRNL DOI 10.1006/JMBI.1993.1122
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.IWATA,T.OHTA REMARK 1 TITL MECHANISM OF ALLOSTERIC TRANSITION OF BACTERIAL L-LACTATE REMARK 1 TITL 2 DEHYDROGENASE REMARK 1 REF FARADAY DISC.CHEM.SOC V. 93 153 1992 REMARK 1 REFN ISSN 1359-6640 REMARK 1 REFERENCE 2 REMARK 1 AUTH S.IWATA,T.MINOWA,H.SAKAI,T.OHTA REMARK 1 TITL AMINO ACID RESIDUES IN THE ALLOSTERIC SITE OF L-LACTATE REMARK 1 TITL 2 DEHYDROGENASE FROM BIFIDOBACTERIUM LONGUM REMARK 1 REF AGRIC.BIOL.CHEM. V. 53 3365 1989 REMARK 1 REFN ISSN 0002-1369 REMARK 1 REFERENCE 3 REMARK 1 AUTH T.MINOWA,S.IWATA,H.SAKAI,H.MASAKI,T.OHTA REMARK 1 TITL SEQUENCE AND CHARACTERISTICS OF THE BIFIDOBACTERIUM LONGUM REMARK 1 TITL 2 GENE ENCODING L-LACTATE DEHYDROGENASE AND THE PRIMARY REMARK 1 TITL 3 STRUCTURE OF THE ENZYME: A NEW FEATURE OF THE ALLOSTERIC REMARK 1 TITL 4 SITE REMARK 1 REF GENE V. 85 161 1989 REMARK 1 REFN ISSN 0378-1119 REMARK 1 REFERENCE 4 REMARK 1 AUTH S.WATA,T.MINOWA,B.MIKAMI,Y.MORITA,T.OHTA REMARK 1 TITL CRYSTALLIZATION OF AND PRELIMINARY CRYSTALLOGRAPHIC DATA FOR REMARK 1 TITL 2 ALLOSTERIC L-LACTATE DEHYDROGENASE FROM BIFIDOBACTERIUM REMARK 1 TITL 3 LONGUM REMARK 1 REF J.BIOCHEM.(TOKYO) V. 106 558 1989 REMARK 1 REFN ISSN 0021-924X
REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PROLSQ REMARK 3 AUTHORS : KONNERT,HENDRICKSON REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 47766 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.179 REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4700 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 88 REMARK 3 SOLVENT ATOMS : 222 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.016 ; 0.015 REMARK 3 ANGLE DISTANCE (A) : 0.037 ; 0.030 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.052 ; 0.040 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.014 ; 0.020 REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.183 ; 0.150 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.196 ; 1.000 REMARK 3 MULTIPLE TORSION (A) : 0.303 ; 1.000 REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : 0.201 ; 1.000 REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : 2.400 ; 3.000 REMARK 3 STAGGERED (DEGREES) : 23.100; 15.000 REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.690 ; 1.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.380 ; 1.500 REMARK 3 SIDE-CHAIN BOND (A**2) : 3.630 ; 1.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.800 ; 1.500 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: RESIDUES A 86 - A 88, B 86 - B 93, A REMARK 3 232 - A 234, AND B 232 - B 234 ARE DISORDERED. ALTHOUGH THE REMARK 3 COORDINATES OF THESE RESIDUES ARE INCLUDED IN THIS ENTRY, THEY REMARK 3 ARE LESS RELIABLE THAN THOSE OF OTHER RESIDUES.
REMARK 4 REMARK 4 1LLD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.12 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 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+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 52.90000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 65.70000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 52.90000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 65.70000 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 300 REMARK: THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT CONTAINS TWO SUBUNITS REMARK 300 OF THE TETRAMER. THESE SUBUNITS HAVE BEEN ASSIGNED CHAIN REMARK 300 IDENTIFIERS "A" AND "B". THE RESIDUES IN EACH CHAIN ARE REMARK 300 NUMBERED SEQUENTIALLY FROM 1 - 319. THERE IS NO REMARK 300 SIGNIFICANT DIFFERENCE BETWEEN THE TWO SUBUNIT STRUCTURES. REMARK 300 REMARK 300 THE TETRAMER CAN BE GENERATED FROM THE DIMER IN THIS ENTRY REMARK 300 BY ROTATING 180 DEGREES ABOUT THE CRYSTALLOGRAPHIC DIAD REMARK 300 PARALLEL TO Z AXIS THROUGH THE POINT (1/2,1/2,1/2). REMARK 300 REMARK 300 THE TRANSFORMATION PRESENTED ON *MTRIX* RECORDS BELOW WILL REMARK 300 YIELD APPROXIMATE COORDINATES FOR CHAIN *B* WHEN APPLIED TO REMARK 300 CHAIN *A*.
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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 16240 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 45060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -114.0 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 BIOMT1 2 -1.000000 0.000000 0.000000 105.80000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 131.40000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000
REMARK 400 REMARK 400 COMPOUND REMARK 400 THIS ENZYME IS A MUTANT WITH CYS 199 REPLACED BY SER. THIS REMARK 400 MUTATION IS FOR THE HEAVY-ATOM DERIVATIVE PREPARATION, THE REMARK 400 KINETIC PROPERTIES OF THE ENZYME ARE IDENTICAL WITH THOSE REMARK 400 OF WILD-TYPE ENZYME.
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 ALA A 1 REMARK 465 GLU A 2 REMARK 465 THR A 3 REMARK 465 THR A 4 REMARK 465 VAL A 5 REMARK 465 LYS A 6 REMARK 465 ALA B 1 REMARK 465 GLU B 2 REMARK 465 THR B 3 REMARK 465 THR B 4 REMARK 465 VAL B 5 REMARK 465 LYS B 6
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 SER B 272 NZ LYS B 311 2.05 REMARK 500 OE2 GLU A 71 NH1 ARG A 74 2.18 REMARK 500 OE2 GLU B 71 NH1 ARG B 74 2.19 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 PHE A 24 CB - CG - CD1 ANGL. DEV. = -4.5 DEGREES REMARK 500 ARG A 29 NE - CZ - NH1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ARG A 44 CD - NE - CZ ANGL. DEV. = -11.8 DEGREES REMARK 500 ARG A 44 NE - CZ - NH1 ANGL. DEV. = -6.6 DEGREES REMARK 500 ARG A 44 NE - CZ - NH2 ANGL. DEV. = 4.3 DEGREES REMARK 500 ASP A 51 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 68 CB - CG - OD1 ANGL. DEV. = 7.4 DEGREES REMARK 500 ARG A 74 NE - CZ - NH1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 74 NE - CZ - NH2 ANGL. DEV. = -4.5 DEGREES REMARK 500 ASP A 77 CB - CG - OD1 ANGL. DEV. = -5.6 DEGREES REMARK 500 ASP A 77 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 93 CD - NE - CZ ANGL. DEV. = 15.1 DEGREES REMARK 500 ARG A 93 NE - CZ - NH1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG A 93 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ASP A 153 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 158 CD - NE - CZ ANGL. DEV. = 10.8 DEGREES REMARK 500 ARG A 158 NE - CZ - NH1 ANGL. DEV. = 5.1 DEGREES REMARK 500 ASP A 211 N - CA - CB ANGL. DEV. = -10.8 DEGREES REMARK 500 ASP A 211 CB - CG - OD1 ANGL. DEV. = -9.1 DEGREES REMARK 500 ASP A 211 C - N - CA ANGL. DEV. = 17.9 DEGREES REMARK 500 ARG A 215 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 215 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 TYR A 227 CB - CG - CD1 ANGL. DEV. = -4.7 DEGREES REMARK 500 ARG A 257 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 284 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 GLU A 308 CA - CB - CG ANGL. DEV. = 15.7 DEGREES REMARK 500 PHE A 317 CB - CG - CD1 ANGL. DEV. = -4.8 DEGREES REMARK 500 ARG B 29 NE - CZ - NH1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG B 33 NE - CZ - NH1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG B 33 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 GLU B 71 OE1 - CD - OE2 ANGL. DEV. = 11.0 DEGREES REMARK 500 ARG B 74 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG B 86 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 LEU B 137 CA - CB - CG ANGL. DEV. = 14.0 DEGREES REMARK 500 ASP B 153 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP B 153 CB - CG - OD2 ANGL. DEV. = -6.7 DEGREES REMARK 500 ARG B 156 CD - NE - CZ ANGL. DEV. = 10.1 DEGREES REMARK 500 ARG B 156 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 GLU B 179 OE1 - CD - OE2 ANGL. DEV. = 7.3 DEGREES REMARK 500 ARG B 215 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 GLU B 249 CA - CB - CG ANGL. DEV. = 13.3 DEGREES REMARK 500 GLU B 249 OE1 - CD - OE2 ANGL. DEV. = -8.2 DEGREES REMARK 500 VAL B 261 CA - CB - CG1 ANGL. DEV. = 10.0 DEGREES REMARK 500 ARG B 305 NE - CZ - NH1 ANGL. DEV. = 4.5 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 TYR A 59 68.02 -161.48 REMARK 500 LEU A 210 75.97 -102.14 REMARK 500 LYS A 233 -6.98 -55.28 REMARK 500 ASN A 237 51.47 -150.51 REMARK 500 THR A 290 31.83 -88.40 REMARK 500 ASN A 292 56.74 -63.03 REMARK 500 TYR B 59 63.16 -165.47 REMARK 500 SER B 67 -165.47 -167.02 REMARK 500 LYS B 88 -168.68 -122.01 REMARK 500 SER B 92 179.34 -50.20 REMARK 500 LYS B 233 -7.81 -57.24 REMARK 500 ASN B 237 55.95 -145.06 REMARK 500 ASN B 292 52.36 -67.06 REMARK 500 GLN B 316 -19.56 -42.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 MET A 108 23.3 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL
REMARK 650 REMARK 650 HELIX REMARK 650 THE HELIX NAMES USED IN EARLIER LDH ENTRIES BY M.G.ROSSMANN REMARK 650 ET AL. ARE GIVEN IN THE REMARK FIELD OF THE HELIX RECORDS.
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AND REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: RESIDUES FORMING THE NADH BINDING SITES OF A REMARK 800 SUBUNIT REMARK 800 REMARK 800 SITE_IDENTIFIER: BND REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: RESIDUES FORMING THE NADH BINDING SITES OF B REMARK 800 SUBUNIT REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD A 320 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD B 320
DBREF 1LLD A 1 319 UNP P19869 LDH2_BIFLO 1 319 DBREF 1LLD B 1 319 UNP P19869 LDH2_BIFLO 1 319
SEQADV 1LLD SER A 199 UNP P19869 CYS 199 CONFLICT SEQADV 1LLD SER B 199 UNP P19869 CYS 199 CONFLICT
SEQRES 1 A 319 ALA GLU THR THR VAL LYS PRO THR LYS LEU ALA VAL ILE SEQRES 2 A 319 GLY ALA GLY ALA VAL GLY SER THR LEU ALA PHE ALA ALA SEQRES 3 A 319 ALA GLN ARG GLY ILE ALA ARG GLU ILE VAL LEU GLU ASP SEQRES 4 A 319 ILE ALA LYS GLU ARG VAL GLU ALA GLU VAL LEU ASP MET SEQRES 5 A 319 GLN HIS GLY SER SER PHE TYR PRO THR VAL SER ILE ASP SEQRES 6 A 319 GLY SER ASP ASP PRO GLU ILE CYS ARG ASP ALA ASP MET SEQRES 7 A 319 VAL VAL ILE THR ALA GLY PRO ARG GLN LYS PRO GLY GLN SEQRES 8 A 319 SER ARG LEU GLU LEU VAL GLY ALA THR VAL ASN ILE LEU SEQRES 9 A 319 LYS ALA ILE MET PRO ASN LEU VAL LYS VAL ALA PRO ASN SEQRES 10 A 319 ALA ILE TYR MET LEU ILE THR ASN PRO VAL ASP ILE ALA SEQRES 11 A 319 THR HIS VAL ALA GLN LYS LEU THR GLY LEU PRO GLU ASN SEQRES 12 A 319 GLN ILE PHE GLY SER GLY THR ASN LEU ASP SER ALA ARG SEQRES 13 A 319 LEU ARG PHE LEU ILE ALA GLN GLN THR GLY VAL ASN VAL SEQRES 14 A 319 LYS ASN VAL HIS ALA TYR ILE ALA GLY GLU HIS GLY ASP SEQRES 15 A 319 SER GLU VAL PRO LEU TRP GLU SER ALA THR ILE GLY GLY SEQRES 16 A 319 VAL PRO MET SER ASP TRP THR PRO LEU PRO GLY HIS ASP SEQRES 17 A 319 PRO LEU ASP ALA ASP LYS ARG GLU GLU ILE HIS GLN GLU SEQRES 18 A 319 VAL LYS ASN ALA ALA TYR LYS ILE ILE ASN GLY LYS GLY SEQRES 19 A 319 ALA THR ASN TYR ALA ILE GLY MET SER GLY VAL ASP ILE SEQRES 20 A 319 ILE GLU ALA VAL LEU HIS ASP THR ASN ARG ILE LEU PRO SEQRES 21 A 319 VAL SER SER MET LEU LYS ASP PHE HIS GLY ILE SER ASP SEQRES 22 A 319 ILE CYS MET SER VAL PRO THR LEU LEU ASN ARG GLN GLY SEQRES 23 A 319 VAL ASN ASN THR ILE ASN THR PRO VAL SER ASP LYS GLU SEQRES 24 A 319 LEU ALA ALA LEU LYS ARG SER ALA GLU THR LEU LYS GLU SEQRES 25 A 319 THR ALA ALA GLN PHE GLY PHE SEQRES 1 B 319 ALA GLU THR THR VAL LYS PRO THR LYS LEU ALA VAL ILE SEQRES 2 B 319 GLY ALA GLY ALA VAL GLY SER THR LEU ALA PHE ALA ALA SEQRES 3 B 319 ALA GLN ARG GLY ILE ALA ARG GLU ILE VAL LEU GLU ASP SEQRES 4 B 319 ILE ALA LYS GLU ARG VAL GLU ALA GLU VAL LEU ASP MET SEQRES 5 B 319 GLN HIS GLY SER SER PHE TYR PRO THR VAL SER ILE ASP SEQRES 6 B 319 GLY SER ASP ASP PRO GLU ILE CYS ARG ASP ALA ASP MET SEQRES 7 B 319 VAL VAL ILE THR ALA GLY PRO ARG GLN LYS PRO GLY GLN SEQRES 8 B 319 SER ARG LEU GLU LEU VAL GLY ALA THR VAL ASN ILE LEU SEQRES 9 B 319 LYS ALA ILE MET PRO ASN LEU VAL LYS VAL ALA PRO ASN SEQRES 10 B 319 ALA ILE TYR MET LEU ILE THR ASN PRO VAL ASP ILE ALA SEQRES 11 B 319 THR HIS VAL ALA GLN LYS LEU THR GLY LEU PRO GLU ASN SEQRES 12 B 319 GLN ILE PHE GLY SER GLY THR ASN LEU ASP SER ALA ARG SEQRES 13 B 319 LEU ARG PHE LEU ILE ALA GLN GLN THR GLY VAL ASN VAL SEQRES 14 B 319 LYS ASN VAL HIS ALA TYR ILE ALA GLY GLU HIS GLY ASP SEQRES 15 B 319 SER GLU VAL PRO LEU TRP GLU SER ALA THR ILE GLY GLY SEQRES 16 B 319 VAL PRO MET SER ASP TRP THR PRO LEU PRO GLY HIS ASP SEQRES 17 B 319 PRO LEU ASP ALA ASP LYS ARG GLU GLU ILE HIS GLN GLU SEQRES 18 B 319 VAL LYS ASN ALA ALA TYR LYS ILE ILE ASN GLY LYS GLY SEQRES 19 B 319 ALA THR ASN TYR ALA ILE GLY MET SER GLY VAL ASP ILE SEQRES 20 B 319 ILE GLU ALA VAL LEU HIS ASP THR ASN ARG ILE LEU PRO SEQRES 21 B 319 VAL SER SER MET LEU LYS ASP PHE HIS GLY ILE SER ASP SEQRES 22 B 319 ILE CYS MET SER VAL PRO THR LEU LEU ASN ARG GLN GLY SEQRES 23 B 319 VAL ASN ASN THR ILE ASN THR PRO VAL SER ASP LYS GLU SEQRES 24 B 319 LEU ALA ALA LEU LYS ARG SER ALA GLU THR LEU LYS GLU SEQRES 25 B 319 THR ALA ALA GLN PHE GLY PHE
HET NAD A 320 44 HET NAD B 320 44
HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE
FORMUL 3 NAD 2(C21 H27 N7 O14 P2) FORMUL 5 HOH *222(H2 O)
HELIX 1 AHA GLY A 16 GLY A 30 1RES, ALPHA B, 27-30 3/10 15 HELIX 2 AHB ALA A 41 SER A 56 1RES, ALPHA C, 53-56 3/10 16 HELIX 3 AHC GLY A 55 TYR A 59 5 5 HELIX 4 AHD ASP A 69 ARG A 74 5 6 HELIX 5 AHE SER A 92 MET A 108 1ALPHA D 17 HELIX 6 AHF MET A 108 ALA A 115 1ALPHA E 8 HELIX 7 AHG PRO A 126 GLY A 139 1ALPHA 1F 14 HELIX 8 AHH THR A 150 GLY A 166 1ALPHA 2F 17 HELIX 9 AHI ASN A 168 VAL A 172 5 5 HELIX 10 AHJ LEU A 187 ALA A 191 5 5 HELIX 11 AHK ASP A 211 ASN A 231 1ALPHA 1G/2G 21 HELIX 12 AHL ASN A 237 ASP A 254 1RES, ALPHA 3G, 251-254 3/10 18 HELIX 13 AHM SER A 296 GLY A 318 1RES, ALPHA H, 314-318 3/10 23 HELIX 14 BHA GLY B 16 GLY B 30 1RES, ALPHA B, 27-30 3/10 15 HELIX 15 BHB ALA B 41 SER B 56 1RES, ALPHA C, 52-56 3/10 16 HELIX 16 BHC GLY B 55 TYR B 59 5 5 HELIX 17 BHD ASP B 68 ARG B 74 5 7 HELIX 18 BHE ARG B 93 MET B 108 1ALPHA D 16 HELIX 19 BHF MET B 108 ALA B 115 1ALPHA E 8 HELIX 20 BHG PRO B 126 GLY B 139 1ALPHA 1F 14 HELIX 21 BHH THR B 150 GLY B 166 1ALPHA 2F 17 HELIX 22 BHI ASN B 168 VAL B 172 5 5 HELIX 23 BHJ LEU B 187 ALA B 191 5 5 HELIX 24 BHK ASP B 211 ASN B 231 1ALPHA 1G/2G 21 HELIX 25 BHL ASN B 237 ASP B 254 1RES, ALPHA 3G, 251-254 3/10 18 HELIX 26 BHM SER B 296 GLY B 318 1RES, ALPHA H, 314-318 3/10 23
SHEET 1 AS1 6 SER A 63 SER A 67 0 SHEET 2 AS1 6 ARG A 33 ASP A 39 1 O ARG A 33 N SER A 63 SHEET 3 AS1 6 THR A 8 GLY A 14 1 O THR A 8 N GLU A 34 SHEET 4 AS1 6 ASP A 77 THR A 82 1 N MET A 78 O LYS A 9 SHEET 5 AS1 6 ILE A 119 ILE A 123 1 N ILE A 119 O ASP A 77 SHEET 6 AS1 6 GLN A 144 SER A 148 1 O GLN A 144 N TYR A 120 SHEET 1 AS2 3 ASN A 171 ALA A 177 0 SHEET 2 AS2 3 VAL A 185 GLY A 194 -1 N VAL A 185 O ALA A 177 SHEET 3 AS2 3 VAL A 196 MET A 198 -1 N VAL A 196 O ILE A 193 SHEET 1 AS3 3 ARG A 257 LEU A 265 0 SHEET 2 AS3 3 ILE A 274 ASN A 283 -1 O ILE A 274 N LEU A 265 SHEET 3 AS3 3 GLY A 286 ASN A 288 -1 N GLY A 286 O ASN A 283 SHEET 1 BS1 6 SER B 63 SER B 67 0 SHEET 2 BS1 6 ARG B 33 ASP B 39 1 O ARG B 33 N SER B 63 SHEET 3 BS1 6 THR B 8 GLY B 14 1 O THR B 8 N GLU B 34 SHEET 4 BS1 6 ASP B 77 THR B 82 1 N MET B 78 O LYS B 9 SHEET 5 BS1 6 ILE B 119 ILE B 123 1 N ILE B 119 O ASP B 77 SHEET 6 BS1 6 GLN B 144 SER B 148 1 O GLN B 144 N TYR B 120 SHEET 1 BS2 3 ASN B 171 ALA B 177 0 SHEET 2 BS2 3 VAL B 185 GLY B 194 -1 N VAL B 185 O ALA B 177 SHEET 3 BS2 3 VAL B 196 MET B 198 -1 N VAL B 196 O ILE B 193 SHEET 1 BS3 3 ARG B 257 LEU B 265 0 SHEET 2 BS3 3 ILE B 274 ASN B 283 -1 O ILE B 274 N LEU B 265 SHEET 3 BS3 3 GLY B 286 ASN B 288 -1 N GLY B 286 O ASN B 283
CISPEP 1 ASN A 125 PRO A 126 0 -1.88 CISPEP 2 ASN B 125 PRO B 126 0 -1.70
SITE 1 AND 15 ILE A 13 GLY A 14 ALA A 17 VAL A 18 SITE 2 AND 15 ASP A 39 ILE A 40 ARG A 44 ALA A 83 SITE 3 AND 15 ILE A 103 ILE A 107 ILE A 123 ASN A 125 SITE 4 AND 15 ILE A 229 ILE A 230 ILE A 240 SITE 1 BND 15 ILE B 13 GLY B 14 ALA B 17 VAL B 18 SITE 2 BND 15 ASP B 39 ILE B 40 ALA B 83 ARG B 86 SITE 3 BND 15 ILE A 103 ILE A 107 ILE A 123 ASN A 125 SITE 4 BND 15 ILE A 229 ILE A 230 ILE A 240 SITE 1 AC1 20 GLY A 16 ALA A 17 VAL A 18 ASP A 39 SITE 2 AC1 20 ILE A 40 ARG A 44 THR A 82 ALA A 83 SITE 3 AC1 20 GLY A 84 ILE A 107 ASN A 125 HIS A 180 SITE 4 AC1 20 ASN A 237 ILE A 240 HOH A 324 HOH A 340 SITE 5 AC1 20 HOH A 356 HOH A 360 HOH A 386 HOH A 396 SITE 1 AC2 19 GLY B 16 ALA B 17 VAL B 18 ASP B 39 SITE 2 AC2 19 ILE B 40 THR B 82 ALA B 83 GLY B 84 SITE 3 AC2 19 ARG B 86 ILE B 107 ILE B 123 THR B 124 SITE 4 AC2 19 ASN B 125 HIS B 180 ASN B 237 ILE B 240 SITE 5 AC2 19 HOH B 338 HOH B 339 HOH B 347
CRYST1 105.800 131.400 63.800 90.00 90.00 90.00 P 21 21 2 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 0.009452 0.000000 0.000000 0.00000
SCALE2 0.000000 0.007610 0.000000 0.00000
SCALE3 0.000000 0.000000 0.015674 0.00000
MTRIX1 1 -0.309000 0.951000 -0.003000 6.83500 1
MTRIX2 1 0.951000 0.309000 -0.003000 -4.92000 1
MTRIX3 1 -0.002000 -0.004000 -1.000000 46.53400 1