HEADER OXIDOREDUCTASE 02-AUG-08 3E18 TITLE CRYSTAL STRUCTURE OF NAD-BINDING PROTEIN FROM LISTERIA INNOCUA COMPND MOL_ID: 1; COMPND 2 MOLECULE: OXIDOREDUCTASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LISTERIA INNOCUA; SOURCE 3 ORGANISM_TAXID: 1642; SOURCE 4 GENE: LIN2262; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI KEYWDS OXIDOREDUCTASE, DEHYDROGENASE, NAD-BINDING, STRUCTURAL GENOMICS, KEYWDS 2 PROTEIN STRUCTURE INITIATIVE, PSI, NEW YORK STRUCTURAL GENOMIX KEYWDS 3 RESEARCH CONSORTIUM, NYSGXRC, UNKNOWN FUNCTION, NEW YORK SGX KEYWDS 4 RESEARCH CENTER FOR STRUCTURAL GENOMICS EXPDTA X-RAY DIFFRACTION AUTHOR Y.PATSKOVSKY,U.A.RAMAGOPAL,R.TORO,M.RUTTER,S.HU,C.GROSHONG, AUTHOR 2 J.M.SAUDER,S.K.BURLEY,S.C.ALMO,NEW YORK SGX RESEARCH CENTER FOR AUTHOR 3 STRUCTURAL GENOMICS (NYSGXRC) REVDAT 6 21-FEB-24 3E18 1 REMARK REVDAT 5 10-FEB-21 3E18 1 AUTHOR JRNL REMARK LINK REVDAT 4 14-NOV-18 3E18 1 AUTHOR REVDAT 3 13-JUL-11 3E18 1 VERSN REVDAT 2 24-FEB-09 3E18 1 VERSN REVDAT 1 12-AUG-08 3E18 0 JRNL AUTH Y.PATSKOVSKY,U.A.RAMAGOPAL,R.TORO,M.RUTTER,S.HU,C.GROSHONG, JRNL AUTH 2 J.M.SAUDER,S.K.BURLEY,S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF NAD-BINDING PROTEIN FROM LISTERIA JRNL TITL 2 INNOCUA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 57400 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1814 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) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4069 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.55 REMARK 3 BIN R VALUE (WORKING SET) : 0.2650 REMARK 3 BIN FREE R VALUE SET COUNT : 115 REMARK 3 BIN FREE R VALUE : 0.2880 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5335 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 151 REMARK 3 SOLVENT ATOMS : 418 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.45 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.52000 REMARK 3 B22 (A**2) : -2.46000 REMARK 3 B33 (A**2) : -2.06000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.155 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.150 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.109 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.816 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5656 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7686 ; 1.308 ; 1.971 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 698 ; 5.954 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 253 ;35.823 ;25.296 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 940 ;15.286 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ; 9.302 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 866 ; 0.086 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4205 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2490 ; 0.160 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3859 ; 0.298 ; 0.500 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 701 ; 0.161 ; 0.500 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): 34 ; 0.133 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 39 ; 0.219 ; 0.500 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): 3513 ; 3.303 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5526 ; 4.302 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2404 ; 5.102 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2152 ; 7.370 ; 5.000 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 : 2 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 4 A 258 4 REMARK 3 1 B 4 B 258 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 1946 ; 0.37 ; 1.00 REMARK 3 MEDIUM THERMAL 1 A (A**2): 1946 ; 1.71 ; 2.50 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 293 A 357 4 REMARK 3 1 B 293 B 357 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 2 A (A): 435 ; 0.35 ; 1.00 REMARK 3 MEDIUM THERMAL 2 A (A**2): 435 ; 1.66 ; 2.50 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3E18 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-AUG-08. REMARK 100 THE DEPOSITION ID IS D_1000048746. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JUL-08 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97910 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 59448 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -5.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : 0.71000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM BIS-TRIS, PH 6.5, 25% PEG3350, REMARK 280 200MM MAGNESIUM CHLORIDE HEXAHYDRATE, 10% GLYCEROL, VAPOR DIFFUS REMARK 280 SITTING DROP, TEMPERATURE 294K, PH 6.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 45.54150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.22650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.77750 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 48.22650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 45.54150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.77750 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: AUTHORS STATE THAT THE BIOLOGICAL ASSEMBLY IS LIKELY REMARK 300 HOMODIMER, THE ASU CONTAINS ONE HOMODIMER COMPOSED OF TWO MONOMERS, REMARK 300 A AND B 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: 9670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -42.0 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 -1 REMARK 465 SER A 0 REMARK 465 ILE A 349 REMARK 465 GLU A 350 REMARK 465 GLY A 351 REMARK 465 HIS A 352 REMARK 465 HIS A 353 REMARK 465 HIS A 354 REMARK 465 HIS A 355 REMARK 465 HIS A 356 REMARK 465 HIS A 357 REMARK 465 MET B -1 REMARK 465 SER B 0 REMARK 465 LEU B 1 REMARK 465 ALA B 262 REMARK 465 LEU B 263 REMARK 465 ALA B 264 REMARK 465 LYS B 265 REMARK 465 THR B 266 REMARK 465 SER B 267 REMARK 465 GLU B 268 REMARK 465 PRO B 269 REMARK 465 THR B 270 REMARK 465 PRO B 271 REMARK 465 ILE B 272 REMARK 465 LYS B 273 REMARK 465 ALA B 274 REMARK 465 GLY B 275 REMARK 465 GLN B 276 REMARK 465 GLY B 277 REMARK 465 LEU B 278 REMARK 465 THR B 279 REMARK 465 LYS B 280 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 VAL A 119 CG1 CG2 REMARK 470 VAL B 119 CG1 CG2 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 LYS A 2 56.61 -99.16 REMARK 500 ASN A 27 57.08 -118.67 REMARK 500 ASP A 160 -159.50 123.61 REMARK 500 ASP A 174 -70.48 -91.31 REMARK 500 TYR B 11 51.89 -102.93 REMARK 500 ASP B 160 -60.90 -105.34 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 358 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 411 O REMARK 620 2 HOH A 462 O 84.6 REMARK 620 3 HOH A 534 O 163.7 86.2 REMARK 620 4 HOH A 535 O 90.6 170.6 96.4 REMARK 620 5 HOH A 537 O 110.3 91.5 83.4 97.8 REMARK 620 6 HOH A 538 O 81.5 74.0 83.0 97.3 160.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 358 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 509 O REMARK 620 2 HOH B 510 O 83.2 REMARK 620 3 HOH B 512 O 156.4 117.7 REMARK 620 4 HOH B 577 O 88.2 80.7 85.1 REMARK 620 5 HOH B 655 O 78.5 150.5 77.9 75.8 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 358 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 359 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 358 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD A 360 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD B 359 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 361 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 362 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 363 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 364 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 365 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 366 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 360 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 361 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 362 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 363 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGXRC-11138B RELATED DB: TARGETDB DBREF 3E18 A 2 349 UNP Q929L3 Q929L3_LISIN 2 349 DBREF 3E18 B 2 349 UNP Q929L3 Q929L3_LISIN 2 349 SEQADV 3E18 MET A -1 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 SER A 0 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 LEU A 1 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 GLU A 350 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 GLY A 351 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 HIS A 352 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 HIS A 353 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 HIS A 354 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 HIS A 355 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 HIS A 356 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 HIS A 357 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 MET B -1 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 SER B 0 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 LEU B 1 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 GLU B 350 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 GLY B 351 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 HIS B 352 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 HIS B 353 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 HIS B 354 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 HIS B 355 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 HIS B 356 UNP Q929L3 EXPRESSION TAG SEQADV 3E18 HIS B 357 UNP Q929L3 EXPRESSION TAG SEQRES 1 A 359 MET SER LEU LYS LYS TYR GLN LEU VAL ILE VAL GLY TYR SEQRES 2 A 359 GLY GLY MET GLY SER TYR HIS VAL THR LEU ALA SER ALA SEQRES 3 A 359 ALA ASP ASN LEU GLU VAL HIS GLY VAL PHE ASP ILE LEU SEQRES 4 A 359 ALA GLU LYS ARG GLU ALA ALA ALA GLN LYS GLY LEU LYS SEQRES 5 A 359 ILE TYR GLU SER TYR GLU ALA VAL LEU ALA ASP GLU LYS SEQRES 6 A 359 VAL ASP ALA VAL LEU ILE ALA THR PRO ASN ASP SER HIS SEQRES 7 A 359 LYS GLU LEU ALA ILE SER ALA LEU GLU ALA GLY LYS HIS SEQRES 8 A 359 VAL VAL CYS GLU LYS PRO VAL THR MET THR SER GLU ASP SEQRES 9 A 359 LEU LEU ALA ILE MET ASP VAL ALA LYS ARG VAL ASN LYS SEQRES 10 A 359 HIS PHE MET VAL HIS GLN ASN ARG ARG TRP ASP GLU ASP SEQRES 11 A 359 PHE LEU ILE ILE LYS GLU MET PHE GLU GLN LYS THR ILE SEQRES 12 A 359 GLY GLU MET PHE HIS LEU GLU SER ARG VAL HIS GLY ALA SEQRES 13 A 359 ASN GLY ILE PRO GLY ASP TRP ARG HIS LEU LYS ALA HIS SEQRES 14 A 359 GLY GLY GLY MET VAL LEU ASP TRP GLY VAL HIS LEU LEU SEQRES 15 A 359 ASP GLN LEU LEU PHE LEU VAL ASP SER ASN VAL LYS SER SEQRES 16 A 359 VAL SER ALA ASN LEU SER PHE ALA LEU GLY ASP GLU VAL SEQRES 17 A 359 ASP ASP GLY PHE VAL THR PHE ILE THR PHE GLU ASN GLY SEQRES 18 A 359 ILE THR ALA GLN ILE GLU VAL GLY THR THR ASN PHE ILE SEQRES 19 A 359 LYS LEU PRO ARG TRP TYR VAL LYS GLY THR GLU GLY THR SEQRES 20 A 359 GLY ILE ILE HIS ASP TRP ASP LEU SER GLY GLU ILE VAL SEQRES 21 A 359 LYS PRO THR ALA LEU ALA LYS THR SER GLU PRO THR PRO SEQRES 22 A 359 ILE LYS ALA GLY GLN GLY LEU THR LYS THR MET ALA PRO SEQRES 23 A 359 PRO SER GLU GLU ALA THR ASN THR LEU SER LEU PRO ALA SEQRES 24 A 359 PRO ALA LYS LEU ALA PRO SER PHE TYR ASN ASN PHE VAL SEQRES 25 A 359 ASP VAL LEU ASN ASN THR SER GLU PRO ILE VAL GLN ASN SEQRES 26 A 359 GLU GLU VAL TYR GLN VAL LEU LYS LEU ILE GLU ALA ILE SEQRES 27 A 359 PHE GLU ALA ALA GLU THR ASN ARG THR VAL HIS SER ILE SEQRES 28 A 359 GLU GLY HIS HIS HIS HIS HIS HIS SEQRES 1 B 359 MET SER LEU LYS LYS TYR GLN LEU VAL ILE VAL GLY TYR SEQRES 2 B 359 GLY GLY MET GLY SER TYR HIS VAL THR LEU ALA SER ALA SEQRES 3 B 359 ALA ASP ASN LEU GLU VAL HIS GLY VAL PHE ASP ILE LEU SEQRES 4 B 359 ALA GLU LYS ARG GLU ALA ALA ALA GLN LYS GLY LEU LYS SEQRES 5 B 359 ILE TYR GLU SER TYR GLU ALA VAL LEU ALA ASP GLU LYS SEQRES 6 B 359 VAL ASP ALA VAL LEU ILE ALA THR PRO ASN ASP SER HIS SEQRES 7 B 359 LYS GLU LEU ALA ILE SER ALA LEU GLU ALA GLY LYS HIS SEQRES 8 B 359 VAL VAL CYS GLU LYS PRO VAL THR MET THR SER GLU ASP SEQRES 9 B 359 LEU LEU ALA ILE MET ASP VAL ALA LYS ARG VAL ASN LYS SEQRES 10 B 359 HIS PHE MET VAL HIS GLN ASN ARG ARG TRP ASP GLU ASP SEQRES 11 B 359 PHE LEU ILE ILE LYS GLU MET PHE GLU GLN LYS THR ILE SEQRES 12 B 359 GLY GLU MET PHE HIS LEU GLU SER ARG VAL HIS GLY ALA SEQRES 13 B 359 ASN GLY ILE PRO GLY ASP TRP ARG HIS LEU LYS ALA HIS SEQRES 14 B 359 GLY GLY GLY MET VAL LEU ASP TRP GLY VAL HIS LEU LEU SEQRES 15 B 359 ASP GLN LEU LEU PHE LEU VAL ASP SER ASN VAL LYS SER SEQRES 16 B 359 VAL SER ALA ASN LEU SER PHE ALA LEU GLY ASP GLU VAL SEQRES 17 B 359 ASP ASP GLY PHE VAL THR PHE ILE THR PHE GLU ASN GLY SEQRES 18 B 359 ILE THR ALA GLN ILE GLU VAL GLY THR THR ASN PHE ILE SEQRES 19 B 359 LYS LEU PRO ARG TRP TYR VAL LYS GLY THR GLU GLY THR SEQRES 20 B 359 GLY ILE ILE HIS ASP TRP ASP LEU SER GLY GLU ILE VAL SEQRES 21 B 359 LYS PRO THR ALA LEU ALA LYS THR SER GLU PRO THR PRO SEQRES 22 B 359 ILE LYS ALA GLY GLN GLY LEU THR LYS THR MET ALA PRO SEQRES 23 B 359 PRO SER GLU GLU ALA THR ASN THR LEU SER LEU PRO ALA SEQRES 24 B 359 PRO ALA LYS LEU ALA PRO SER PHE TYR ASN ASN PHE VAL SEQRES 25 B 359 ASP VAL LEU ASN ASN THR SER GLU PRO ILE VAL GLN ASN SEQRES 26 B 359 GLU GLU VAL TYR GLN VAL LEU LYS LEU ILE GLU ALA ILE SEQRES 27 B 359 PHE GLU ALA ALA GLU THR ASN ARG THR VAL HIS SER ILE SEQRES 28 B 359 GLU GLY HIS HIS HIS HIS HIS HIS HET MG A 358 1 HET CL A 359 1 HET NAD A 360 44 HET GOL A 361 6 HET GOL A 362 6 HET GOL A 363 6 HET GOL A 364 6 HET GOL A 365 6 HET GOL A 366 6 HET MG B 358 1 HET NAD B 359 44 HET GOL B 360 6 HET GOL B 361 6 HET GOL B 362 6 HET GOL B 363 6 HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 MG 2(MG 2+) FORMUL 4 CL CL 1- FORMUL 5 NAD 2(C21 H27 N7 O14 P2) FORMUL 6 GOL 10(C3 H8 O3) FORMUL 18 HOH *418(H2 O) HELIX 1 1 GLY A 12 ALA A 24 1 13 HELIX 2 2 LEU A 37 GLN A 46 1 10 HELIX 3 3 SER A 54 ASP A 61 1 8 HELIX 4 4 PRO A 72 ASP A 74 5 3 HELIX 5 5 SER A 75 ALA A 86 1 12 HELIX 6 6 THR A 99 ASN A 114 1 16 HELIX 7 7 GLN A 121 TRP A 125 5 5 HELIX 8 8 ASP A 126 LYS A 139 1 14 HELIX 9 9 ASP A 160 GLY A 168 5 9 HELIX 10 10 GLY A 170 TRP A 175 1 6 HELIX 11 11 TRP A 175 VAL A 187 1 13 HELIX 12 12 SER A 286 GLU A 288 5 3 HELIX 13 13 SER A 304 ASN A 314 1 11 HELIX 14 14 GLN A 322 ASN A 343 1 22 HELIX 15 15 GLY B 12 ALA B 24 1 13 HELIX 16 16 LEU B 37 LYS B 47 1 11 HELIX 17 17 SER B 54 ASP B 61 1 8 HELIX 18 18 SER B 75 ALA B 86 1 12 HELIX 19 19 THR B 99 ASN B 114 1 16 HELIX 20 20 GLN B 121 TRP B 125 5 5 HELIX 21 21 ASP B 126 LYS B 139 1 14 HELIX 22 22 ASP B 160 GLY B 168 5 9 HELIX 23 23 GLY B 170 TRP B 175 1 6 HELIX 24 24 TRP B 175 VAL B 187 1 13 HELIX 25 25 SER B 304 ASN B 314 1 11 HELIX 26 26 GLN B 322 ASN B 343 1 22 SHEET 1 A 5 LEU A 28 PHE A 34 0 SHEET 2 A 5 TYR A 4 VAL A 9 1 N ILE A 8 O PHE A 34 SHEET 3 A 5 ALA A 66 ILE A 69 1 O LEU A 68 N VAL A 9 SHEET 4 A 5 HIS A 89 GLU A 93 1 O VAL A 91 N ILE A 69 SHEET 5 A 5 PHE A 117 HIS A 120 1 O HIS A 120 N CYS A 92 SHEET 1 B 9 THR A 290 LEU A 293 0 SHEET 2 B 9 GLY A 255 PRO A 260 -1 N ILE A 257 O LEU A 293 SHEET 3 B 9 GLY A 244 ILE A 248 -1 N THR A 245 O VAL A 258 SHEET 4 B 9 TRP A 237 GLY A 241 -1 N GLY A 241 O GLY A 244 SHEET 5 B 9 MET A 144 HIS A 152 -1 N HIS A 146 O LYS A 240 SHEET 6 B 9 THR A 221 GLY A 227 1 O GLY A 227 N VAL A 151 SHEET 7 B 9 GLY A 209 PHE A 216 -1 N ILE A 214 O ALA A 222 SHEET 8 B 9 VAL A 191 SER A 199 -1 N SER A 199 O GLY A 209 SHEET 9 B 9 VAL A 346 HIS A 347 -1 O VAL A 346 N VAL A 194 SHEET 1 C 2 ILE A 272 ALA A 274 0 SHEET 2 C 2 GLY A 277 THR A 279 -1 O GLY A 277 N ALA A 274 SHEET 1 D 5 LEU B 28 PHE B 34 0 SHEET 2 D 5 TYR B 4 VAL B 9 1 N LEU B 6 O GLU B 29 SHEET 3 D 5 ALA B 66 ILE B 69 1 O LEU B 68 N VAL B 9 SHEET 4 D 5 HIS B 89 GLU B 93 1 O VAL B 91 N VAL B 67 SHEET 5 D 5 PHE B 117 HIS B 120 1 O HIS B 120 N CYS B 92 SHEET 1 E 8 VAL B 191 SER B 199 0 SHEET 2 E 8 GLY B 209 PHE B 216 -1 O GLY B 209 N SER B 199 SHEET 3 E 8 THR B 221 GLY B 227 -1 O ALA B 222 N ILE B 214 SHEET 4 E 8 MET B 144 HIS B 152 1 N SER B 149 O GLN B 223 SHEET 5 E 8 TRP B 237 GLY B 241 -1 O LYS B 240 N HIS B 146 SHEET 6 E 8 GLY B 244 ILE B 248 -1 O GLY B 246 N VAL B 239 SHEET 7 E 8 GLY B 255 PRO B 260 -1 O VAL B 258 N THR B 245 SHEET 8 E 8 THR B 290 LEU B 293 -1 O LEU B 293 N ILE B 257 LINK MG MG A 358 O HOH A 411 1555 1555 2.17 LINK MG MG A 358 O HOH A 462 1555 1555 2.47 LINK MG MG A 358 O HOH A 534 1555 1555 2.24 LINK MG MG A 358 O HOH A 535 1555 1555 2.06 LINK MG MG A 358 O HOH A 537 1555 1555 2.37 LINK MG MG A 358 O HOH A 538 1555 1555 2.07 LINK MG MG B 358 O HOH B 509 1555 1555 2.21 LINK MG MG B 358 O HOH B 510 1555 1555 2.47 LINK MG MG B 358 O HOH B 512 1555 1555 2.45 LINK MG MG B 358 O HOH B 577 1555 1555 2.10 LINK MG MG B 358 O HOH B 655 1555 1555 2.19 CISPEP 1 LYS A 94 PRO A 95 0 -16.93 CISPEP 2 LYS A 94 PRO A 95 0 -14.21 CISPEP 3 GLY A 159 ASP A 160 0 -0.07 CISPEP 4 ALA A 302 PRO A 303 0 -1.55 CISPEP 5 LYS B 94 PRO B 95 0 -15.22 CISPEP 6 ALA B 302 PRO B 303 0 -4.72 SITE 1 AC1 6 HOH A 411 HOH A 462 HOH A 534 HOH A 535 SITE 2 AC1 6 HOH A 537 HOH A 538 SITE 1 AC2 3 ARG A 344 THR A 345 THR B 345 SITE 1 AC3 6 HOH B 508 HOH B 509 HOH B 510 HOH B 512 SITE 2 AC3 6 HOH B 577 HOH B 655 SITE 1 AC4 26 GLY A 10 GLY A 12 GLY A 13 MET A 14 SITE 2 AC4 26 PHE A 34 ASP A 35 ILE A 36 LYS A 40 SITE 3 AC4 26 ALA A 70 THR A 71 PRO A 72 ASN A 73 SITE 4 AC4 26 HIS A 76 GLU A 93 LYS A 94 ASN A 122 SITE 5 AC4 26 TRP A 161 ARG A 162 HIS A 178 GOL A 362 SITE 6 AC4 26 HOH A 420 HOH A 523 HOH A 559 HOH A 560 SITE 7 AC4 26 HOH A 561 HIS B 356 SITE 1 AC5 27 GLY B 10 GLY B 12 GLY B 13 MET B 14 SITE 2 AC5 27 ASP B 35 ILE B 36 LEU B 37 LYS B 40 SITE 3 AC5 27 ALA B 70 THR B 71 PRO B 72 ASN B 73 SITE 4 AC5 27 HIS B 76 GLU B 93 LYS B 94 ASN B 122 SITE 5 AC5 27 TRP B 161 ARG B 162 HIS B 178 HOH B 477 SITE 6 AC5 27 HOH B 482 HOH B 483 HOH B 518 HOH B 523 SITE 7 AC5 27 HOH B 536 HOH B 596 HOH B 634 SITE 1 AC6 7 PHE A 145 LYS A 240 HOH A 585 SER B 199 SITE 2 AC6 7 VAL B 211 HOH B 468 HOH B 619 SITE 1 AC7 6 LYS A 94 ARG A 123 ARG A 162 ASP A 174 SITE 2 AC7 6 HIS A 178 NAD A 360 SITE 1 AC8 4 HIS A 249 GLY A 255 GLU A 256 GOL A 364 SITE 1 AC9 5 GLU A 256 THR A 292 LEU A 293 SER A 294 SITE 2 AC9 5 GOL A 363 SITE 1 BC1 7 ARG A 150 VAL A 151 HIS A 152 LYS A 233 SITE 2 BC1 7 LEU A 234 ASP A 250 TRP A 251 SITE 1 BC2 6 ALA A 110 LYS A 111 ASN A 114 LYS A 115 SITE 2 BC2 6 HIS A 116 HOH A 371 SITE 1 BC3 4 GLY A 241 THR A 242 ALA B 201 PHE B 231 SITE 1 BC4 5 THR A 292 LEU A 293 SER A 294 ARG B 41 SITE 2 BC4 5 GLU B 42 SITE 1 BC5 3 LYS B 233 PRO B 235 HIS B 249 SITE 1 BC6 3 MET B 144 ASN B 218 GLY B 219 CRYST1 91.083 91.555 96.453 90.00 90.00 90.00 P 21 21 21 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 0.010979 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010922 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010368 0.00000