PDB Short entry for 4I1I HEADER OXIDOREDUCTASE 21-NOV-12 4I1I TITLE CRYSTAL STRUCTURE OF A PUTATIVE CYTOSOLIC MALATE DEHYDROGENASE FROM TITLE 2 LEISHMANIA MAJOR FRIEDLIN IN COMPLEX WITH NAD COMPND MOL_ID: 1; COMPND 2 MOLECULE: MALATE DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.1.1.37; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEISHMANIA MAJOR; SOURCE 3 ORGANISM_TAXID: 347515; SOURCE 4 STRAIN: FRIEDLIN; SOURCE 5 GENE: CMDH, LMJF_28_2860; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; 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: AVA0421 KEYWDS SSGCID, LEISHMANIA MAJOR, MALATE DEHYDROGENASE, STRUCTURAL GENOMICS, KEYWDS 2 SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE, KEYWDS 3 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE,SEATTLE AUTHOR 2 STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 3 20-SEP-23 4I1I 1 REMARK SEQADV REVDAT 2 15-NOV-17 4I1I 1 REMARK REVDAT 1 19-DEC-12 4I1I 0 JRNL AUTH SSGCID,J.ABENDROTH,T.E.EDWARDS,P.MYLER JRNL TITL CRYSTAL STRUCTURE OF A PUTATIVE CYTOSOLIC MALATE JRNL TITL 2 DEHYDROGENASE FROM LEISHMANIA MAJOR FRIEDLIN IN COMPLEX WITH JRNL TITL 3 NAD JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.50 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 95920 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) : 0.146 REMARK 3 R VALUE (WORKING SET) : 0.145 REMARK 3 FREE R VALUE : 0.166 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4794 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6362 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.23 REMARK 3 BIN R VALUE (WORKING SET) : 0.2370 REMARK 3 BIN FREE R VALUE SET COUNT : 335 REMARK 3 BIN FREE R VALUE : 0.2560 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4567 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 79 REMARK 3 SOLVENT ATOMS : 623 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 25.15 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.18 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.09000 REMARK 3 B22 (A**2) : 0.10000 REMARK 3 B33 (A**2) : -0.17000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.07000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.061 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.061 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.038 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.034 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.975 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.970 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4807 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4673 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6578 ; 1.664 ; 1.984 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10705 ; 0.803 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 659 ; 6.367 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 171 ;32.382 ;23.684 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 730 ;11.232 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 33 ;14.204 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 793 ; 0.102 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5500 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1022 ; 0.001 ; 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): 2558 ; 1.189 ; 1.243 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2557 ; 1.189 ; 1.243 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3198 ; 1.840 ; 1.861 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A -1 A 324 REMARK 3 RESIDUE RANGE : A 400 A 405 REMARK 3 ORIGIN FOR THE GROUP (A): -5.2990 20.0800 62.2830 REMARK 3 T TENSOR REMARK 3 T11: 0.0541 T22: 0.0236 REMARK 3 T33: 0.0380 T12: 0.0030 REMARK 3 T13: 0.0440 T23: 0.0021 REMARK 3 L TENSOR REMARK 3 L11: 0.2762 L22: 0.5006 REMARK 3 L33: 0.8276 L12: 0.0804 REMARK 3 L13: -0.1386 L23: 0.1011 REMARK 3 S TENSOR REMARK 3 S11: -0.0135 S12: 0.0463 S13: 0.0067 REMARK 3 S21: -0.0177 S22: -0.0023 S23: 0.0045 REMARK 3 S31: 0.0294 S32: -0.0340 S33: 0.0158 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 2 B 324 REMARK 3 RESIDUE RANGE : B 401 B 403 REMARK 3 ORIGIN FOR THE GROUP (A): -13.8160 16.4670 95.0010 REMARK 3 T TENSOR REMARK 3 T11: 0.0886 T22: 0.0176 REMARK 3 T33: 0.0367 T12: -0.0147 REMARK 3 T13: 0.0550 T23: -0.0102 REMARK 3 L TENSOR REMARK 3 L11: 0.5794 L22: 0.2971 REMARK 3 L33: 0.7921 L12: -0.0327 REMARK 3 L13: -0.0659 L23: 0.1189 REMARK 3 S TENSOR REMARK 3 S11: -0.0112 S12: -0.0712 S13: -0.0011 REMARK 3 S21: 0.0659 S22: -0.0122 S23: 0.0215 REMARK 3 S31: 0.0837 S32: -0.0142 S33: 0.0233 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 4I1I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-NOV-12. REMARK 100 THE DEPOSITION ID IS D_1000076185. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-NOV-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : C(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 95941 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.05900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.2700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.2 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 0.35000 REMARK 200 R SYM FOR SHELL (I) : 0.35000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.780 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC 5.7.0032 REMARK 200 STARTING MODEL: PDB ENTRY 4H7P REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: EMERALDBIO PACT SCREEN A3: 25% PEG REMARK 280 1500, 100MM SPG BUFFER PH 6.0; LEMAA.01212.A.A1.P001468 AT 15MG/ REMARK 280 ML + 2.5MM NAD, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K 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 32.56500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A -20 REMARK 465 ALA A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 MET A -12 REMARK 465 GLY A -11 REMARK 465 THR A -10 REMARK 465 LEU A -9 REMARK 465 GLU A -8 REMARK 465 ALA A -7 REMARK 465 GLN A -6 REMARK 465 THR A -5 REMARK 465 GLN A -4 REMARK 465 GLY A -3 REMARK 465 PRO A -2 REMARK 465 ASP A 211 REMARK 465 ASP A 212 REMARK 465 ALA A 213 REMARK 465 LEU A 214 REMARK 465 ASP A 215 REMARK 465 ASP A 216 REMARK 465 MET B -20 REMARK 465 ALA B -19 REMARK 465 HIS B -18 REMARK 465 HIS B -17 REMARK 465 HIS B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 MET B -12 REMARK 465 GLY B -11 REMARK 465 THR B -10 REMARK 465 LEU B -9 REMARK 465 GLU B -8 REMARK 465 ALA B -7 REMARK 465 GLN B -6 REMARK 465 THR B -5 REMARK 465 GLN B -4 REMARK 465 GLY B -3 REMARK 465 PRO B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 MET B 1 REMARK 465 ARG B 206 REMARK 465 GLU B 207 REMARK 465 ALA B 208 REMARK 465 ILE B 209 REMARK 465 LYS B 210 REMARK 465 ASP B 211 REMARK 465 ASP B 212 REMARK 465 ALA B 213 REMARK 465 LEU B 214 REMARK 465 ASP B 215 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 92 CG CD CE NZ REMARK 470 LYS A 98 CG CD CE NZ REMARK 470 ARG A 106 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 146 CG CD CE NZ REMARK 470 ARG A 179 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 206 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 210 CG CD CE NZ REMARK 470 GLN A 231 CG CD OE1 NE2 REMARK 470 ASN A 300 CG OD1 ND2 REMARK 470 ASP A 302 CG OD1 OD2 REMARK 470 LEU A 303 CG CD1 CD2 REMARK 470 LYS A 305 CG CD CE NZ REMARK 470 GLN A 306 CG CD OE1 NE2 REMARK 470 SER B 2 OG REMARK 470 ARG B 91 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 92 CG CD CE NZ REMARK 470 LYS B 98 CG CD CE NZ REMARK 470 ARG B 106 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 144 CG CD OE1 NE2 REMARK 470 LYS B 146 CG CD CE NZ REMARK 470 ASP B 216 CG OD1 OD2 REMARK 470 ASN B 300 CG OD1 ND2 REMARK 470 ASP B 302 CG OD1 OD2 REMARK 470 LYS B 305 CG CD CE NZ REMARK 470 GLN B 306 CG CD OE1 NE2 REMARK 470 GLU B 317 CG CD OE1 OE2 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 25 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG B 25 NE - CZ - NH1 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG B 25 NE - CZ - NH2 ANGL. DEV. = -4.4 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 238 -57.84 -140.84 REMARK 500 ALA B 238 -61.10 -141.70 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 NAD A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4H7P RELATED DB: PDB REMARK 900 NATIVE STRUCTURE OF LEMAA.01212.A REMARK 900 RELATED ID: SSGCID-LEMAA.01212.A RELATED DB: TARGETTRACK DBREF 4I1I A 1 324 UNP Q4Q7X6 Q4Q7X6_LEIMA 1 324 DBREF 4I1I B 1 324 UNP Q4Q7X6 Q4Q7X6_LEIMA 1 324 SEQADV 4I1I MET A -20 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I ALA A -19 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I HIS A -18 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I HIS A -17 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I HIS A -16 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I HIS A -15 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I HIS A -14 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I HIS A -13 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I MET A -12 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I GLY A -11 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I THR A -10 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I LEU A -9 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I GLU A -8 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I ALA A -7 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I GLN A -6 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I THR A -5 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I GLN A -4 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I GLY A -3 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I PRO A -2 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I GLY A -1 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I SER A 0 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I MET B -20 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I ALA B -19 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I HIS B -18 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I HIS B -17 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I HIS B -16 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I HIS B -15 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I HIS B -14 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I HIS B -13 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I MET B -12 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I GLY B -11 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I THR B -10 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I LEU B -9 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I GLU B -8 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I ALA B -7 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I GLN B -6 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I THR B -5 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I GLN B -4 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I GLY B -3 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I PRO B -2 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I GLY B -1 UNP Q4Q7X6 EXPRESSION TAG SEQADV 4I1I SER B 0 UNP Q4Q7X6 EXPRESSION TAG SEQRES 1 A 345 MET ALA HIS HIS HIS HIS HIS HIS MET GLY THR LEU GLU SEQRES 2 A 345 ALA GLN THR GLN GLY PRO GLY SER MET SER ALA VAL LYS SEQRES 3 A 345 VAL ALA VAL THR GLY ALA ALA GLY GLN ILE GLY TYR ALA SEQRES 4 A 345 LEU VAL PRO LEU ILE ALA ARG GLY ALA LEU LEU GLY PRO SEQRES 5 A 345 THR THR PRO VAL GLU LEU ARG LEU LEU ASP ILE GLU PRO SEQRES 6 A 345 ALA LEU LYS ALA LEU ALA GLY VAL GLU ALA GLU LEU GLU SEQRES 7 A 345 ASP CYS ALA PHE PRO LEU LEU ASP LYS VAL VAL VAL THR SEQRES 8 A 345 ALA ASP PRO ARG VAL ALA PHE ASP GLY VAL ALA ILE ALA SEQRES 9 A 345 ILE MET CYS GLY ALA PHE PRO ARG LYS ALA GLY MET GLU SEQRES 10 A 345 ARG LYS ASP LEU LEU GLU MET ASN ALA ARG ILE PHE LYS SEQRES 11 A 345 GLU GLN GLY GLU ALA ILE ALA ALA VAL ALA ALA SER ASP SEQRES 12 A 345 CYS ARG VAL VAL VAL VAL GLY ASN PRO ALA ASN THR ASN SEQRES 13 A 345 ALA LEU ILE LEU LEU LYS SER ALA GLN GLY LYS LEU ASN SEQRES 14 A 345 PRO ARG HIS VAL THR ALA MET THR ARG LEU ASP HIS ASN SEQRES 15 A 345 ARG ALA LEU SER LEU LEU ALA ARG LYS ALA GLY VAL PRO SEQRES 16 A 345 VAL SER GLN VAL ARG ASN VAL ILE ILE TRP GLY ASN HIS SEQRES 17 A 345 SER SER THR GLN VAL PRO ASP THR ASP SER ALA VAL ILE SEQRES 18 A 345 GLY THR THR PRO ALA ARG GLU ALA ILE LYS ASP ASP ALA SEQRES 19 A 345 LEU ASP ASP ASP PHE VAL GLN VAL VAL ARG GLY ARG GLY SEQRES 20 A 345 ALA GLU ILE ILE GLN LEU ARG GLY LEU SER SER ALA MET SEQRES 21 A 345 SER ALA ALA LYS ALA ALA VAL ASP HIS VAL HIS ASP TRP SEQRES 22 A 345 ILE HIS GLY THR PRO GLU GLY VAL TYR VAL SER MET GLY SEQRES 23 A 345 VAL TYR SER ASP GLU ASN PRO TYR GLY VAL PRO SER GLY SEQRES 24 A 345 LEU ILE PHE SER PHE PRO CYS THR CYS HIS ALA GLY GLU SEQRES 25 A 345 TRP THR VAL VAL SER GLY LYS LEU ASN GLY ASP LEU GLY SEQRES 26 A 345 LYS GLN ARG LEU ALA SER THR ILE ALA GLU LEU GLN GLU SEQRES 27 A 345 GLU ARG ALA GLN ALA GLY LEU SEQRES 1 B 345 MET ALA HIS HIS HIS HIS HIS HIS MET GLY THR LEU GLU SEQRES 2 B 345 ALA GLN THR GLN GLY PRO GLY SER MET SER ALA VAL LYS SEQRES 3 B 345 VAL ALA VAL THR GLY ALA ALA GLY GLN ILE GLY TYR ALA SEQRES 4 B 345 LEU VAL PRO LEU ILE ALA ARG GLY ALA LEU LEU GLY PRO SEQRES 5 B 345 THR THR PRO VAL GLU LEU ARG LEU LEU ASP ILE GLU PRO SEQRES 6 B 345 ALA LEU LYS ALA LEU ALA GLY VAL GLU ALA GLU LEU GLU SEQRES 7 B 345 ASP CYS ALA PHE PRO LEU LEU ASP LYS VAL VAL VAL THR SEQRES 8 B 345 ALA ASP PRO ARG VAL ALA PHE ASP GLY VAL ALA ILE ALA SEQRES 9 B 345 ILE MET CYS GLY ALA PHE PRO ARG LYS ALA GLY MET GLU SEQRES 10 B 345 ARG LYS ASP LEU LEU GLU MET ASN ALA ARG ILE PHE LYS SEQRES 11 B 345 GLU GLN GLY GLU ALA ILE ALA ALA VAL ALA ALA SER ASP SEQRES 12 B 345 CYS ARG VAL VAL VAL VAL GLY ASN PRO ALA ASN THR ASN SEQRES 13 B 345 ALA LEU ILE LEU LEU LYS SER ALA GLN GLY LYS LEU ASN SEQRES 14 B 345 PRO ARG HIS VAL THR ALA MET THR ARG LEU ASP HIS ASN SEQRES 15 B 345 ARG ALA LEU SER LEU LEU ALA ARG LYS ALA GLY VAL PRO SEQRES 16 B 345 VAL SER GLN VAL ARG ASN VAL ILE ILE TRP GLY ASN HIS SEQRES 17 B 345 SER SER THR GLN VAL PRO ASP THR ASP SER ALA VAL ILE SEQRES 18 B 345 GLY THR THR PRO ALA ARG GLU ALA ILE LYS ASP ASP ALA SEQRES 19 B 345 LEU ASP ASP ASP PHE VAL GLN VAL VAL ARG GLY ARG GLY SEQRES 20 B 345 ALA GLU ILE ILE GLN LEU ARG GLY LEU SER SER ALA MET SEQRES 21 B 345 SER ALA ALA LYS ALA ALA VAL ASP HIS VAL HIS ASP TRP SEQRES 22 B 345 ILE HIS GLY THR PRO GLU GLY VAL TYR VAL SER MET GLY SEQRES 23 B 345 VAL TYR SER ASP GLU ASN PRO TYR GLY VAL PRO SER GLY SEQRES 24 B 345 LEU ILE PHE SER PHE PRO CYS THR CYS HIS ALA GLY GLU SEQRES 25 B 345 TRP THR VAL VAL SER GLY LYS LEU ASN GLY ASP LEU GLY SEQRES 26 B 345 LYS GLN ARG LEU ALA SER THR ILE ALA GLU LEU GLN GLU SEQRES 27 B 345 GLU ARG ALA GLN ALA GLY LEU HET NAD A 400 44 HET PO4 A 401 5 HET EDO A 402 4 HET EDO A 403 4 HET EDO A 404 4 HET EDO A 405 4 HET PO4 B 401 5 HET PO4 B 402 5 HET EDO B 403 4 HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM PO4 PHOSPHATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 NAD C21 H27 N7 O14 P2 FORMUL 4 PO4 3(O4 P 3-) FORMUL 5 EDO 5(C2 H6 O2) FORMUL 12 HOH *623(H2 O) HELIX 1 1 GLY A 13 GLY A 26 1 14 HELIX 2 2 ILE A 42 PRO A 44 5 3 HELIX 3 3 ALA A 45 CYS A 59 1 15 HELIX 4 4 ASP A 72 PHE A 77 1 6 HELIX 5 5 GLU A 96 ALA A 119 1 24 HELIX 6 6 PRO A 131 ALA A 143 1 13 HELIX 7 7 ASN A 148 ARG A 150 5 3 HELIX 8 8 THR A 156 GLY A 172 1 17 HELIX 9 9 PRO A 174 SER A 176 5 3 HELIX 10 10 ARG A 206 ILE A 209 5 4 HELIX 11 11 PHE A 218 GLY A 234 1 17 HELIX 12 12 ALA A 238 GLY A 255 1 18 HELIX 13 13 ASN A 300 ARG A 307 1 8 HELIX 14 14 LEU A 308 ALA A 322 1 15 HELIX 15 15 GLY B 13 ARG B 25 1 13 HELIX 16 16 ILE B 42 PRO B 44 5 3 HELIX 17 17 ALA B 45 CYS B 59 1 15 HELIX 18 18 ASP B 72 ASP B 78 1 7 HELIX 19 19 GLU B 96 ALA B 119 1 24 HELIX 20 20 PRO B 131 ALA B 143 1 13 HELIX 21 21 ASN B 148 ARG B 150 5 3 HELIX 22 22 THR B 156 GLY B 172 1 17 HELIX 23 23 PRO B 174 SER B 176 5 3 HELIX 24 24 ASP B 217 GLY B 234 1 18 HELIX 25 25 ALA B 238 GLY B 255 1 18 HELIX 26 26 ASN B 300 ARG B 307 1 8 HELIX 27 27 LEU B 308 ALA B 322 1 15 SHEET 1 A 6 LEU A 64 THR A 70 0 SHEET 2 A 6 VAL A 35 LEU A 40 1 N LEU A 39 O VAL A 68 SHEET 3 A 6 VAL A 4 THR A 9 1 N VAL A 6 O GLU A 36 SHEET 4 A 6 ILE A 82 MET A 85 1 O ILE A 82 N ALA A 7 SHEET 5 A 6 ARG A 124 VAL A 127 1 O VAL A 126 N MET A 85 SHEET 6 A 6 VAL A 152 ALA A 154 1 O THR A 153 N VAL A 127 SHEET 1 B 3 VAL A 178 ARG A 179 0 SHEET 2 B 3 VAL A 199 ILE A 200 -1 O VAL A 199 N ARG A 179 SHEET 3 B 3 THR A 203 PRO A 204 -1 O THR A 203 N ILE A 200 SHEET 1 C 2 ILE A 182 TRP A 184 0 SHEET 2 C 2 VAL A 192 ASP A 194 -1 O ASP A 194 N ILE A 182 SHEET 1 D 3 VAL A 262 TYR A 267 0 SHEET 2 D 3 ILE A 280 HIS A 288 -1 O PHE A 281 N VAL A 266 SHEET 3 D 3 GLU A 291 VAL A 294 -1 O THR A 293 N THR A 286 SHEET 1 E 6 LEU B 64 THR B 70 0 SHEET 2 E 6 VAL B 35 LEU B 40 1 N LEU B 39 O VAL B 68 SHEET 3 E 6 VAL B 4 THR B 9 1 N VAL B 6 O GLU B 36 SHEET 4 E 6 ILE B 82 MET B 85 1 O ILE B 84 N ALA B 7 SHEET 5 E 6 ARG B 124 VAL B 127 1 O VAL B 126 N MET B 85 SHEET 6 E 6 VAL B 152 ALA B 154 1 O THR B 153 N VAL B 127 SHEET 1 F 3 VAL B 178 ARG B 179 0 SHEET 2 F 3 VAL B 199 ILE B 200 -1 O VAL B 199 N ARG B 179 SHEET 3 F 3 THR B 203 PRO B 204 -1 O THR B 203 N ILE B 200 SHEET 1 G 2 ILE B 182 TRP B 184 0 SHEET 2 G 2 VAL B 192 ASP B 194 -1 O VAL B 192 N TRP B 184 SHEET 1 H 3 VAL B 262 TYR B 267 0 SHEET 2 H 3 ILE B 280 HIS B 288 -1 O CYS B 285 N VAL B 262 SHEET 3 H 3 GLU B 291 VAL B 294 -1 O THR B 293 N THR B 286 CISPEP 1 ASN A 130 PRO A 131 0 -4.67 CISPEP 2 ASN B 130 PRO B 131 0 -5.11 SITE 1 AC1 31 GLY A 10 GLY A 13 GLN A 14 ILE A 15 SITE 2 AC1 31 ASP A 41 ILE A 42 CYS A 86 GLY A 87 SITE 3 AC1 31 ALA A 88 PHE A 89 ILE A 107 GLN A 111 SITE 4 AC1 31 VAL A 128 GLY A 129 ASN A 130 MET A 155 SITE 5 AC1 31 HIS A 187 SER A 237 EDO A 404 HOH A 514 SITE 6 AC1 31 HOH A 534 HOH A 545 HOH A 605 HOH A 623 SITE 7 AC1 31 HOH A 625 HOH A 632 HOH A 641 HOH A 667 SITE 8 AC1 31 HOH A 697 HOH A 726 HOH A 727 SITE 1 AC2 7 ARG A 25 ALA A 27 HOH A 525 HOH A 613 SITE 2 AC2 7 HOH A 647 HOH A 749 ARG B 25 SITE 1 AC3 4 LEU A 46 ALA A 50 VAL A 69 HOH A 746 SITE 1 AC4 8 ASP A 269 GLU A 270 ASN A 271 VAL A 275 SITE 2 AC4 8 SER A 277 HOH A 596 ARG B 319 LEU B 324 SITE 1 AC5 7 ASN A 130 ARG A 162 HIS A 187 NAD A 400 SITE 2 AC5 7 HOH A 564 HOH A 650 HOH A 740 SITE 1 AC6 4 PRO A 193 ASP A 194 THR A 195 ASP A 196 SITE 1 AC7 6 GLY B 13 GLN B 14 HOH B 786 HOH B 789 SITE 2 AC7 6 HOH B 795 HOH B 805 SITE 1 AC8 8 ARG B 162 GLY B 226 SER B 237 HOH B 529 SITE 2 AC8 8 HOH B 634 HOH B 649 HOH B 754 HOH B 806 SITE 1 AC9 5 PRO B 193 ASP B 194 THR B 195 ASP B 196 SITE 2 AC9 5 ARG B 307 CRYST1 64.820 65.130 77.490 90.00 110.67 90.00 P 1 21 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 0.015427 0.000000 0.005821 0.00000 SCALE2 0.000000 0.015354 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013793 0.00000