HEADER TRANSFERASE 13-JUL-06 2HNK TITLE CRYSTAL STRUCTURE OF SAM-DEPENDENT O-METHYLTRANSFERASE FROM PATHOGENIC TITLE 2 BACTERIUM LEPTOSPIRA INTERROGANS COMPND MOL_ID: 1; COMPND 2 MOLECULE: SAM-DEPENDENT O-METHYLTRANSFERASE; COMPND 3 CHAIN: A, B, C; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEPTOSPIRA INTERROGANS; SOURCE 3 ORGANISM_TAXID: 173; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MODIFIED ROSSMAN FOLD, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR X.HOU,Z.WEI,W.GONG REVDAT 5 13-MAR-24 2HNK 1 SEQADV REVDAT 4 18-OCT-17 2HNK 1 REMARK REVDAT 3 24-FEB-09 2HNK 1 VERSN REVDAT 2 04-NOV-08 2HNK 1 JRNL REVDAT 1 04-SEP-07 2HNK 0 JRNL AUTH X.HOU,Y.WANG,Z.ZHOU,S.BAO,Y.LIN,W.GONG JRNL TITL CRYSTAL STRUCTURE OF SAM-DEPENDENT O-METHYLTRANSFERASE FROM JRNL TITL 2 PATHOGENIC BACTERIUM LEPTOSPIRA INTERROGANS. JRNL REF J.STRUCT.BIOL. V. 159 523 2007 JRNL REFN ISSN 1047-8477 JRNL PMID 17561415 JRNL DOI 10.1016/J.JSB.2007.04.007 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 3 NUMBER OF REFLECTIONS : 57726 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2916 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3969 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.2550 REMARK 3 BIN FREE R VALUE SET COUNT : 220 REMARK 3 BIN FREE R VALUE : 0.3190 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5421 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 147 REMARK 3 SOLVENT ATOMS : 397 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.18 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.15000 REMARK 3 B22 (A**2) : -0.78000 REMARK 3 B33 (A**2) : 2.93000 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): 0.222 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.190 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.138 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.608 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.938 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.915 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5690 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7702 ; 1.173 ; 2.004 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 693 ; 5.701 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 240 ;41.224 ;25.167 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 981 ;15.465 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;20.154 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 875 ; 0.076 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4171 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2742 ; 0.188 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3850 ; 0.303 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 492 ; 0.248 ; 0.200 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): 55 ; 0.159 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 27 ; 0.119 ; 0.200 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): 3561 ; 0.511 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5591 ; 0.900 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2439 ; 1.170 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2108 ; 1.918 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 2 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 3 A 37 4 REMARK 3 1 B 3 B 37 4 REMARK 3 1 C 3 C 37 4 REMARK 3 2 A 41 A 233 4 REMARK 3 2 B 41 B 233 4 REMARK 3 2 C 41 C 233 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 1748 ; 0.290 ; 0.500 REMARK 3 MEDIUM POSITIONAL 1 B (A): 1748 ; 0.320 ; 0.500 REMARK 3 MEDIUM POSITIONAL 1 C (A): 1748 ; 0.360 ; 0.500 REMARK 3 MEDIUM THERMAL 1 A (A**2): 1748 ; 1.180 ; 2.000 REMARK 3 MEDIUM THERMAL 1 B (A**2): 1748 ; 1.590 ; 2.000 REMARK 3 MEDIUM THERMAL 1 C (A**2): 1748 ; 0.720 ; 2.000 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2HNK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-JUL-06. REMARK 100 THE DEPOSITION ID IS D_1000038549. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-APR-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.3 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 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 58638 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : 0.39400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M LITHIUM SULFATE MONOHYDRATE, 0.1M REMARK 280 MES PH 6.5, 9% W/V POLYETHYLENE GLYCOL 8000, PH 6.3, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-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 69.11600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 69.11600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 6920 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -60.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18920 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -53.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 69.11600 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 2 REMARK 465 ALA A 38 REMARK 465 GLN A 39 REMARK 465 ALA A 40 REMARK 465 HIS A 235 REMARK 465 HIS A 236 REMARK 465 HIS A 237 REMARK 465 HIS A 238 REMARK 465 HIS A 239 REMARK 465 MET B 1 REMARK 465 ALA B 40 REMARK 465 HIS B 235 REMARK 465 HIS B 236 REMARK 465 HIS B 237 REMARK 465 HIS B 238 REMARK 465 HIS B 239 REMARK 465 MET C 1 REMARK 465 SER C 2 REMARK 465 HIS C 234 REMARK 465 HIS C 235 REMARK 465 HIS C 236 REMARK 465 HIS C 237 REMARK 465 HIS C 238 REMARK 465 HIS C 239 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 ARG A 3 CG CD NE CZ NH1 NH2 REMARK 470 SER B 2 OG REMARK 470 ARG B 3 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 10 CG CD OE1 OE2 REMARK 470 ARG B 18 CG CD NE CZ NH1 NH2 REMARK 470 HIS B 234 CG ND1 CD2 CE1 NE2 REMARK 470 ARG C 3 CG CD NE CZ NH1 NH2 REMARK 470 GLU C 233 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 LEU B 150 CA - CB - CG ANGL. DEV. = 16.9 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 SER A 20 -37.73 -143.20 REMARK 500 PHE A 70 -131.91 55.86 REMARK 500 PHE A 141 -83.01 -108.46 REMARK 500 ASP A 154 41.47 -151.80 REMARK 500 ALA A 155 -145.70 -107.13 REMARK 500 PRO A 220 47.90 -76.90 REMARK 500 ALA A 222 -122.95 57.00 REMARK 500 SER B 20 -39.37 -145.09 REMARK 500 PHE B 70 -133.58 56.86 REMARK 500 PHE B 141 -89.43 -112.75 REMARK 500 ASP B 154 40.35 -155.07 REMARK 500 ALA B 155 -142.07 -103.26 REMARK 500 PRO B 220 49.31 -78.01 REMARK 500 ALA B 222 -127.30 57.26 REMARK 500 SER C 20 -25.20 -147.19 REMARK 500 GLN C 39 35.23 -86.01 REMARK 500 PHE C 70 -135.98 55.28 REMARK 500 PHE C 141 -86.33 -106.56 REMARK 500 ASP C 154 41.37 -149.23 REMARK 500 ALA C 155 -146.50 -104.45 REMARK 500 ALA C 222 -121.11 54.44 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 SO4 A1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAH A2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAH B2002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAH C2003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A3001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG C3002 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A3003 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A3004 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG C3005 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG B3006 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A3007 DBREF 2HNK A 1 231 UNP Q8F8Y3 Q8F8Y3_LEPIN 1 231 DBREF 2HNK B 1 231 UNP Q8F8Y3 Q8F8Y3_LEPIN 1 231 DBREF 2HNK C 1 231 UNP Q8F8Y3 Q8F8Y3_LEPIN 1 231 SEQADV 2HNK LEU A 232 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK GLU A 233 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS A 234 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS A 235 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS A 236 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS A 237 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS A 238 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS A 239 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK LEU B 232 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK GLU B 233 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS B 234 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS B 235 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS B 236 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS B 237 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS B 238 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS B 239 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK LEU C 232 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK GLU C 233 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS C 234 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS C 235 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS C 236 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS C 237 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS C 238 UNP Q8F8Y3 EXPRESSION TAG SEQADV 2HNK HIS C 239 UNP Q8F8Y3 EXPRESSION TAG SEQRES 1 A 239 MET SER ARG LYS ASN ILE SER LEU THR GLU SER LEU GLU SEQRES 2 A 239 GLU TYR ILE PHE ARG ASN SER VAL ARG GLU PRO ASP SER SEQRES 3 A 239 PHE LEU LYS LEU ARG LYS GLU THR GLY THR LEU ALA GLN SEQRES 4 A 239 ALA ASN MET GLN ILE SER PRO GLU GLU GLY GLN PHE LEU SEQRES 5 A 239 ASN ILE LEU THR LYS ILE SER GLY ALA LYS ARG ILE ILE SEQRES 6 A 239 GLU ILE GLY THR PHE THR GLY TYR SER SER LEU CYS PHE SEQRES 7 A 239 ALA SER ALA LEU PRO GLU ASP GLY LYS ILE LEU CYS CYS SEQRES 8 A 239 ASP VAL SER GLU GLU TRP THR ASN VAL ALA ARG LYS TYR SEQRES 9 A 239 TRP LYS GLU ASN GLY LEU GLU ASN LYS ILE PHE LEU LYS SEQRES 10 A 239 LEU GLY SER ALA LEU GLU THR LEU GLN VAL LEU ILE ASP SEQRES 11 A 239 SER LYS SER ALA PRO SER TRP ALA SER ASP PHE ALA PHE SEQRES 12 A 239 GLY PRO SER SER ILE ASP LEU PHE PHE LEU ASP ALA ASP SEQRES 13 A 239 LYS GLU ASN TYR PRO ASN TYR TYR PRO LEU ILE LEU LYS SEQRES 14 A 239 LEU LEU LYS PRO GLY GLY LEU LEU ILE ALA ASP ASN VAL SEQRES 15 A 239 LEU TRP ASP GLY SER VAL ALA ASP LEU SER HIS GLN GLU SEQRES 16 A 239 PRO SER THR VAL GLY ILE ARG LYS PHE ASN GLU LEU VAL SEQRES 17 A 239 TYR ASN ASP SER LEU VAL ASP VAL SER LEU VAL PRO ILE SEQRES 18 A 239 ALA ASP GLY VAL SER LEU VAL ARG LYS ARG LEU GLU HIS SEQRES 19 A 239 HIS HIS HIS HIS HIS SEQRES 1 B 239 MET SER ARG LYS ASN ILE SER LEU THR GLU SER LEU GLU SEQRES 2 B 239 GLU TYR ILE PHE ARG ASN SER VAL ARG GLU PRO ASP SER SEQRES 3 B 239 PHE LEU LYS LEU ARG LYS GLU THR GLY THR LEU ALA GLN SEQRES 4 B 239 ALA ASN MET GLN ILE SER PRO GLU GLU GLY GLN PHE LEU SEQRES 5 B 239 ASN ILE LEU THR LYS ILE SER GLY ALA LYS ARG ILE ILE SEQRES 6 B 239 GLU ILE GLY THR PHE THR GLY TYR SER SER LEU CYS PHE SEQRES 7 B 239 ALA SER ALA LEU PRO GLU ASP GLY LYS ILE LEU CYS CYS SEQRES 8 B 239 ASP VAL SER GLU GLU TRP THR ASN VAL ALA ARG LYS TYR SEQRES 9 B 239 TRP LYS GLU ASN GLY LEU GLU ASN LYS ILE PHE LEU LYS SEQRES 10 B 239 LEU GLY SER ALA LEU GLU THR LEU GLN VAL LEU ILE ASP SEQRES 11 B 239 SER LYS SER ALA PRO SER TRP ALA SER ASP PHE ALA PHE SEQRES 12 B 239 GLY PRO SER SER ILE ASP LEU PHE PHE LEU ASP ALA ASP SEQRES 13 B 239 LYS GLU ASN TYR PRO ASN TYR TYR PRO LEU ILE LEU LYS SEQRES 14 B 239 LEU LEU LYS PRO GLY GLY LEU LEU ILE ALA ASP ASN VAL SEQRES 15 B 239 LEU TRP ASP GLY SER VAL ALA ASP LEU SER HIS GLN GLU SEQRES 16 B 239 PRO SER THR VAL GLY ILE ARG LYS PHE ASN GLU LEU VAL SEQRES 17 B 239 TYR ASN ASP SER LEU VAL ASP VAL SER LEU VAL PRO ILE SEQRES 18 B 239 ALA ASP GLY VAL SER LEU VAL ARG LYS ARG LEU GLU HIS SEQRES 19 B 239 HIS HIS HIS HIS HIS SEQRES 1 C 239 MET SER ARG LYS ASN ILE SER LEU THR GLU SER LEU GLU SEQRES 2 C 239 GLU TYR ILE PHE ARG ASN SER VAL ARG GLU PRO ASP SER SEQRES 3 C 239 PHE LEU LYS LEU ARG LYS GLU THR GLY THR LEU ALA GLN SEQRES 4 C 239 ALA ASN MET GLN ILE SER PRO GLU GLU GLY GLN PHE LEU SEQRES 5 C 239 ASN ILE LEU THR LYS ILE SER GLY ALA LYS ARG ILE ILE SEQRES 6 C 239 GLU ILE GLY THR PHE THR GLY TYR SER SER LEU CYS PHE SEQRES 7 C 239 ALA SER ALA LEU PRO GLU ASP GLY LYS ILE LEU CYS CYS SEQRES 8 C 239 ASP VAL SER GLU GLU TRP THR ASN VAL ALA ARG LYS TYR SEQRES 9 C 239 TRP LYS GLU ASN GLY LEU GLU ASN LYS ILE PHE LEU LYS SEQRES 10 C 239 LEU GLY SER ALA LEU GLU THR LEU GLN VAL LEU ILE ASP SEQRES 11 C 239 SER LYS SER ALA PRO SER TRP ALA SER ASP PHE ALA PHE SEQRES 12 C 239 GLY PRO SER SER ILE ASP LEU PHE PHE LEU ASP ALA ASP SEQRES 13 C 239 LYS GLU ASN TYR PRO ASN TYR TYR PRO LEU ILE LEU LYS SEQRES 14 C 239 LEU LEU LYS PRO GLY GLY LEU LEU ILE ALA ASP ASN VAL SEQRES 15 C 239 LEU TRP ASP GLY SER VAL ALA ASP LEU SER HIS GLN GLU SEQRES 16 C 239 PRO SER THR VAL GLY ILE ARG LYS PHE ASN GLU LEU VAL SEQRES 17 C 239 TYR ASN ASP SER LEU VAL ASP VAL SER LEU VAL PRO ILE SEQRES 18 C 239 ALA ASP GLY VAL SER LEU VAL ARG LYS ARG LEU GLU HIS SEQRES 19 C 239 HIS HIS HIS HIS HIS HET SO4 A1001 5 HET SAH A2001 26 HET PEG A3001 7 HET PEG A3003 7 HET PEG A3004 7 HET PEG A3007 7 HET SO4 B1002 5 HET SAH B2002 26 HET PEG B3006 7 HET SO4 C1003 5 HET SO4 C1004 5 HET SAH C2003 26 HET PEG C3002 7 HET PEG C3005 7 HETNAM SO4 SULFATE ION HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE HETNAM PEG DI(HYDROXYETHYL)ETHER FORMUL 4 SO4 4(O4 S 2-) FORMUL 5 SAH 3(C14 H20 N6 O5 S) FORMUL 6 PEG 7(C4 H10 O3) FORMUL 18 HOH *397(H2 O) HELIX 1 1 THR A 9 ASN A 19 1 11 HELIX 2 2 PRO A 24 THR A 36 1 13 HELIX 3 3 SER A 45 GLY A 60 1 16 HELIX 4 4 GLY A 72 LEU A 82 1 11 HELIX 5 5 SER A 94 ASN A 108 1 15 HELIX 6 6 LEU A 110 ASN A 112 5 3 HELIX 7 7 SER A 120 SER A 131 1 12 HELIX 8 8 PRO A 135 SER A 139 5 5 HELIX 9 9 ASP A 156 GLU A 158 5 3 HELIX 10 10 ASN A 159 LEU A 170 1 12 HELIX 11 11 LEU A 183 ASP A 190 5 8 HELIX 12 12 GLU A 195 ASP A 211 1 17 HELIX 13 13 THR B 9 ASN B 19 1 11 HELIX 14 14 PRO B 24 THR B 36 1 13 HELIX 15 15 SER B 45 GLY B 60 1 16 HELIX 16 16 GLY B 72 LEU B 82 1 11 HELIX 17 17 SER B 94 ASN B 108 1 15 HELIX 18 18 LEU B 110 ASN B 112 5 3 HELIX 19 19 SER B 120 SER B 131 1 12 HELIX 20 20 PRO B 135 SER B 139 5 5 HELIX 21 21 ASP B 156 GLU B 158 5 3 HELIX 22 22 ASN B 159 LEU B 170 1 12 HELIX 23 23 LEU B 183 SER B 187 5 5 HELIX 24 24 GLU B 195 ASP B 211 1 17 HELIX 25 25 THR C 9 ASN C 19 1 11 HELIX 26 26 PRO C 24 THR C 36 1 13 HELIX 27 27 LEU C 37 GLN C 43 5 7 HELIX 28 28 SER C 45 GLY C 60 1 16 HELIX 29 29 GLY C 72 LEU C 82 1 11 HELIX 30 30 SER C 94 ASN C 108 1 15 HELIX 31 31 LEU C 110 ASN C 112 5 3 HELIX 32 32 SER C 120 SER C 131 1 12 HELIX 33 33 ASP C 156 GLU C 158 5 3 HELIX 34 34 ASN C 159 LEU C 170 1 12 HELIX 35 35 LEU C 183 ASP C 190 5 8 HELIX 36 36 GLU C 195 ASP C 211 1 17 SHEET 1 A 7 ILE A 114 LEU A 118 0 SHEET 2 A 7 LYS A 87 ASP A 92 1 N CYS A 90 O PHE A 115 SHEET 3 A 7 ARG A 63 ILE A 67 1 N GLU A 66 O LEU A 89 SHEET 4 A 7 ILE A 148 LEU A 153 1 O PHE A 152 N ILE A 67 SHEET 5 A 7 LEU A 171 ASP A 180 1 O ILE A 178 N PHE A 151 SHEET 6 A 7 VAL A 225 LYS A 230 -1 O VAL A 228 N LEU A 177 SHEET 7 A 7 VAL A 214 VAL A 219 -1 N SER A 217 O LEU A 227 SHEET 1 B 7 ILE B 114 LEU B 118 0 SHEET 2 B 7 LYS B 87 ASP B 92 1 N CYS B 90 O PHE B 115 SHEET 3 B 7 ARG B 63 ILE B 67 1 N ILE B 64 O LEU B 89 SHEET 4 B 7 ILE B 148 LEU B 153 1 O PHE B 152 N ILE B 67 SHEET 5 B 7 LEU B 171 ASP B 180 1 O ASP B 180 N LEU B 153 SHEET 6 B 7 VAL B 225 LYS B 230 -1 O VAL B 228 N LEU B 177 SHEET 7 B 7 VAL B 214 VAL B 219 -1 N VAL B 219 O VAL B 225 SHEET 1 C 7 ILE C 114 LEU C 118 0 SHEET 2 C 7 LYS C 87 ASP C 92 1 N CYS C 90 O PHE C 115 SHEET 3 C 7 ARG C 63 ILE C 67 1 N ILE C 64 O LEU C 89 SHEET 4 C 7 ILE C 148 LEU C 153 1 O PHE C 152 N ILE C 67 SHEET 5 C 7 LEU C 171 ASP C 180 1 O ILE C 178 N PHE C 151 SHEET 6 C 7 VAL C 225 LYS C 230 -1 O VAL C 228 N LEU C 177 SHEET 7 C 7 VAL C 214 VAL C 219 -1 N SER C 217 O LEU C 227 SITE 1 AC1 6 ARG A 229 ARG A 231 LEU A 232 HIS A 234 SITE 2 AC1 6 HOH A3133 LYS C 57 SITE 1 AC2 4 LYS B 57 ARG B 229 ARG B 231 LEU B 232 SITE 1 AC3 4 LYS A 57 ARG C 229 ARG C 231 LEU C 232 SITE 1 AC4 4 ARG A 22 TYR C 209 ASN C 210 HOH C3124 SITE 1 AC5 14 MET A 42 GLN A 43 GLY A 68 THR A 69 SITE 2 AC5 14 PHE A 70 SER A 74 ASP A 92 VAL A 93 SITE 3 AC5 14 ALA A 121 ASP A 154 ASP A 156 TYR A 163 SITE 4 AC5 14 HOH A3106 HOH A3116 SITE 1 AC6 15 MET B 42 GLN B 43 GLY B 68 THR B 69 SITE 2 AC6 15 PHE B 70 SER B 74 CYS B 91 ASP B 92 SITE 3 AC6 15 VAL B 93 ALA B 121 PHE B 152 ASP B 154 SITE 4 AC6 15 ASP B 156 TYR B 163 HOH B3041 SITE 1 AC7 15 MET C 42 GLN C 43 GLY C 68 THR C 69 SITE 2 AC7 15 PHE C 70 SER C 74 ASP C 92 VAL C 93 SITE 3 AC7 15 TRP C 97 ALA C 121 ASP C 154 ASP C 156 SITE 4 AC7 15 TYR C 163 HOH C3017 HOH C3114 SITE 1 AC8 5 GLY A 60 ASP A 149 LYS A 172 PEG A3003 SITE 2 AC8 5 HOH A3148 SITE 1 AC9 3 PEG A3003 GLY C 60 LYS C 172 SITE 1 BC1 7 ILE A 58 SER A 59 PEG A3001 ILE C 58 SITE 2 BC1 7 SER C 59 GLY C 60 PEG C3002 SITE 1 BC2 2 TRP A 184 ASP A 185 SITE 1 BC3 2 TRP C 184 GLU C 195 SITE 1 BC4 3 LEU B 122 ASN B 162 HOH B3093 SITE 1 BC5 3 LYS A 106 GLU A 107 HOH A3165 CRYST1 157.810 60.331 138.232 90.00 90.00 90.00 P 2 2 21 12 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 0.006337 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016575 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007234 0.00000