HEADER UNKNOWN FUNCTION 16-NOV-09 3KPD TITLE CRYSTAL STRUCTURE OF THE CBS DOMAIN PAIR OF PROTEIN MJ0100 IN COMPLEX TITLE 2 WITH 5 -METHYLTHIOADENOSINE AND S-ADENOSYL-L-METHIONINE. COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED PROTEIN MJ0100; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOCALDOCOCCUS JANNASCHII; SOURCE 3 ORGANISM_COMMON: METHANOCOCCUS JANNASCHII; SOURCE 4 ORGANISM_TAXID: 2190; SOURCE 5 GENE: MJ0100; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET101D KEYWDS CBS DOMAIN; S-ADENOSYLMETHIONINE; CONFORMATIONAL CHANGE, CBS DOMAIN, KEYWDS 2 UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR M.LUCAS,I.OYENARTE,I.G.GARCIA,E.A.ARRIBAS,J.A.ENCINAR,D.KORTAZAR, AUTHOR 2 J.A.FERNANDEZ,J.M.MATO,M.L.MARTINEZ-CHANTAR,L.A.MARTINEZ-CRUZ REVDAT 3 21-FEB-24 3KPD 1 REMARK REVDAT 2 02-MAR-10 3KPD 1 JRNL REVDAT 1 12-JAN-10 3KPD 0 JRNL AUTH M.LUCAS,J.A.ENCINAR,E.A.ARRIBAS,I.OYENARTE,I.G.GARCIA, JRNL AUTH 2 D.KORTAZAR,J.A.FERNANDEZ,J.M.MATO,M.L.MARTINEZ-CHANTAR, JRNL AUTH 3 L.A.MARTINEZ-CRUZ JRNL TITL BINDING OF S-METHYL-5'-THIOADENOSINE AND JRNL TITL 2 S-ADENOSYL-L-METHIONINE TO PROTEIN MJ0100 TRIGGERS AN JRNL TITL 3 OPEN-TO-CLOSED CONFORMATIONAL CHANGE IN ITS CBS MOTIF PAIR. JRNL REF J.MOL.BIOL. V. 396 800 2010 JRNL REFN ISSN 0022-2836 JRNL PMID 20026078 JRNL DOI 10.1016/J.JMB.2009.12.012 REMARK 2 REMARK 2 RESOLUTION. 2.91 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 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) : 2.91 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 12845 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) : 0.239 REMARK 3 R VALUE (WORKING SET) : 0.234 REMARK 3 FREE R VALUE : 0.334 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 670 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) : 2.91 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.99 REMARK 3 REFLECTION IN BIN (WORKING SET) : 888 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.18 REMARK 3 BIN R VALUE (WORKING SET) : 0.2510 REMARK 3 BIN FREE R VALUE SET COUNT : 41 REMARK 3 BIN FREE R VALUE : 0.5220 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3721 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 154 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 58.96 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.53000 REMARK 3 B22 (A**2) : -4.08000 REMARK 3 B33 (A**2) : 2.55000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.545 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.420 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 21.163 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.922 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.827 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3965 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5400 ; 1.607 ; 2.006 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 482 ; 7.020 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 144 ;39.976 ;25.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 720 ;21.096 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;21.573 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 667 ; 0.105 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2785 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2407 ; 0.672 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3963 ; 1.265 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1558 ; 1.562 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1433 ; 2.802 ; 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 : NULL 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 3KPD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-NOV-09. REMARK 100 THE DEPOSITION ID IS D_1000056279. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-SEP-09 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 8.6 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9790 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 : 12845 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 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: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT 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 (%): 55.47 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.76 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG 6000, 0.1 M TRIS PH 8.6, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 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 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 61.49850 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 61.49850 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 SMTRY1 5 1.000000 0.000000 0.000000 29.33550 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 82.89700 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 29.33550 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 82.89700 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 61.49850 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 29.33550 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 82.89700 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 61.49850 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 29.33550 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 82.89700 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 58.67100 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -61.49850 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: 3740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11330 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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: 3 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: 4250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 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 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 GLY A 507 REMARK 465 LYS A 508 REMARK 465 LYS A 509 REMARK 465 LYS B 509 REMARK 465 GLY C 507 REMARK 465 LYS C 508 REMARK 465 LYS C 509 REMARK 465 GLY D 507 REMARK 465 LYS D 508 REMARK 465 LYS D 509 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 ILE A 393 -34.57 -132.08 REMARK 500 ASN A 404 47.70 -75.67 REMARK 500 ASN A 418 41.31 71.85 REMARK 500 THR A 456 99.09 -61.81 REMARK 500 SER A 502 42.94 -84.54 REMARK 500 SER A 502 49.82 -90.21 REMARK 500 ASP B 426 -168.00 -104.07 REMARK 500 ASN B 447 71.68 40.11 REMARK 500 ARG B 490 24.80 82.19 REMARK 500 ASN C 447 69.21 34.26 REMARK 500 PHE C 505 86.12 -66.22 REMARK 500 ASP D 392 -72.51 -70.39 REMARK 500 PRO D 397 112.30 25.48 REMARK 500 SER D 403 -8.79 -58.33 REMARK 500 ARG D 490 32.34 70.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER A 395 LYS A 396 -130.94 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 SAM B 1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAM C 1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTA A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTA A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTA C 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTA D 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTA D 2 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3KPB RELATED DB: PDB REMARK 900 RELATED ID: 3KPC RELATED DB: PDB DBREF 3KPD A 388 509 UNP Q57564 Y100_METJA 388 509 DBREF 3KPD B 388 509 UNP Q57564 Y100_METJA 388 509 DBREF 3KPD C 388 509 UNP Q57564 Y100_METJA 388 509 DBREF 3KPD D 388 509 UNP Q57564 Y100_METJA 388 509 SEQRES 1 A 122 THR LEU VAL LYS ASP ILE LEU SER LYS PRO PRO ILE THR SEQRES 2 A 122 ALA HIS SER ASN ILE SER ILE MET GLU ALA ALA LYS ILE SEQRES 3 A 122 LEU ILE LYS HIS ASN ILE ASN HIS LEU PRO ILE VAL ASP SEQRES 4 A 122 GLU HIS GLY LYS LEU VAL GLY ILE ILE THR SER TRP ASP SEQRES 5 A 122 ILE ALA LYS ALA LEU ALA GLN ASN LYS LYS THR ILE GLU SEQRES 6 A 122 GLU ILE MET THR ARG ASN VAL ILE THR ALA HIS GLU ASP SEQRES 7 A 122 GLU PRO VAL ASP HIS VAL ALA ILE LYS MET SER LYS TYR SEQRES 8 A 122 ASN ILE SER GLY VAL PRO VAL VAL ASP ASP TYR ARG ARG SEQRES 9 A 122 VAL VAL GLY ILE VAL THR SER GLU ASP ILE SER ARG LEU SEQRES 10 A 122 PHE GLY GLY LYS LYS SEQRES 1 B 122 THR LEU VAL LYS ASP ILE LEU SER LYS PRO PRO ILE THR SEQRES 2 B 122 ALA HIS SER ASN ILE SER ILE MET GLU ALA ALA LYS ILE SEQRES 3 B 122 LEU ILE LYS HIS ASN ILE ASN HIS LEU PRO ILE VAL ASP SEQRES 4 B 122 GLU HIS GLY LYS LEU VAL GLY ILE ILE THR SER TRP ASP SEQRES 5 B 122 ILE ALA LYS ALA LEU ALA GLN ASN LYS LYS THR ILE GLU SEQRES 6 B 122 GLU ILE MET THR ARG ASN VAL ILE THR ALA HIS GLU ASP SEQRES 7 B 122 GLU PRO VAL ASP HIS VAL ALA ILE LYS MET SER LYS TYR SEQRES 8 B 122 ASN ILE SER GLY VAL PRO VAL VAL ASP ASP TYR ARG ARG SEQRES 9 B 122 VAL VAL GLY ILE VAL THR SER GLU ASP ILE SER ARG LEU SEQRES 10 B 122 PHE GLY GLY LYS LYS SEQRES 1 C 122 THR LEU VAL LYS ASP ILE LEU SER LYS PRO PRO ILE THR SEQRES 2 C 122 ALA HIS SER ASN ILE SER ILE MET GLU ALA ALA LYS ILE SEQRES 3 C 122 LEU ILE LYS HIS ASN ILE ASN HIS LEU PRO ILE VAL ASP SEQRES 4 C 122 GLU HIS GLY LYS LEU VAL GLY ILE ILE THR SER TRP ASP SEQRES 5 C 122 ILE ALA LYS ALA LEU ALA GLN ASN LYS LYS THR ILE GLU SEQRES 6 C 122 GLU ILE MET THR ARG ASN VAL ILE THR ALA HIS GLU ASP SEQRES 7 C 122 GLU PRO VAL ASP HIS VAL ALA ILE LYS MET SER LYS TYR SEQRES 8 C 122 ASN ILE SER GLY VAL PRO VAL VAL ASP ASP TYR ARG ARG SEQRES 9 C 122 VAL VAL GLY ILE VAL THR SER GLU ASP ILE SER ARG LEU SEQRES 10 C 122 PHE GLY GLY LYS LYS SEQRES 1 D 122 THR LEU VAL LYS ASP ILE LEU SER LYS PRO PRO ILE THR SEQRES 2 D 122 ALA HIS SER ASN ILE SER ILE MET GLU ALA ALA LYS ILE SEQRES 3 D 122 LEU ILE LYS HIS ASN ILE ASN HIS LEU PRO ILE VAL ASP SEQRES 4 D 122 GLU HIS GLY LYS LEU VAL GLY ILE ILE THR SER TRP ASP SEQRES 5 D 122 ILE ALA LYS ALA LEU ALA GLN ASN LYS LYS THR ILE GLU SEQRES 6 D 122 GLU ILE MET THR ARG ASN VAL ILE THR ALA HIS GLU ASP SEQRES 7 D 122 GLU PRO VAL ASP HIS VAL ALA ILE LYS MET SER LYS TYR SEQRES 8 D 122 ASN ILE SER GLY VAL PRO VAL VAL ASP ASP TYR ARG ARG SEQRES 9 D 122 VAL VAL GLY ILE VAL THR SER GLU ASP ILE SER ARG LEU SEQRES 10 D 122 PHE GLY GLY LYS LYS HET MTA A 1 20 HET MTA A 2 20 HET SAM B1000 27 HET SAM C1000 27 HET MTA C 1 20 HET MTA D 1 20 HET MTA D 2 20 HETNAM MTA 5'-DEOXY-5'-METHYLTHIOADENOSINE HETNAM SAM S-ADENOSYLMETHIONINE FORMUL 5 MTA 5(C11 H15 N5 O3 S) FORMUL 7 SAM 2(C15 H22 N6 O5 S) HELIX 1 1 LEU A 389 ILE A 393 5 5 HELIX 2 2 SER A 406 ASN A 418 1 13 HELIX 3 3 SER A 437 GLN A 446 1 10 HELIX 4 4 PRO A 467 TYR A 478 1 12 HELIX 5 5 SER A 498 SER A 502 1 5 HELIX 6 6 SER B 406 HIS B 417 1 12 HELIX 7 7 SER B 437 GLN B 446 1 10 HELIX 8 8 THR B 450 MET B 455 1 6 HELIX 9 9 PRO B 467 ASN B 479 1 13 HELIX 10 10 SER B 498 LYS B 508 1 11 HELIX 11 11 LEU C 389 LEU C 394 1 6 HELIX 12 12 SER C 406 HIS C 417 1 12 HELIX 13 13 SER C 437 GLN C 446 1 10 HELIX 14 14 PRO C 467 ASN C 479 1 13 HELIX 15 15 SER C 498 PHE C 505 1 8 HELIX 16 16 SER D 406 HIS D 417 1 12 HELIX 17 17 SER D 437 GLN D 446 1 10 HELIX 18 18 THR D 450 MET D 455 1 6 HELIX 19 19 PRO D 467 ASN D 479 1 13 HELIX 20 20 SER D 498 ARG D 503 1 6 SHEET 1 A 2 HIS A 421 VAL A 425 0 SHEET 2 A 2 LEU A 431 THR A 436 -1 O ILE A 435 N LEU A 422 SHEET 1 B 3 ALA A 462 HIS A 463 0 SHEET 2 B 3 GLY A 482 VAL A 486 1 O PRO A 484 N ALA A 462 SHEET 3 B 3 VAL A 492 THR A 497 -1 O GLY A 494 N VAL A 485 SHEET 1 C 2 HIS B 421 VAL B 425 0 SHEET 2 C 2 LEU B 431 THR B 436 -1 O GLY B 433 N ILE B 424 SHEET 1 D 3 ALA B 462 HIS B 463 0 SHEET 2 D 3 GLY B 482 VAL B 486 1 O VAL B 486 N ALA B 462 SHEET 3 D 3 VAL B 492 THR B 497 -1 O VAL B 493 N VAL B 485 SHEET 1 E 2 HIS C 421 VAL C 425 0 SHEET 2 E 2 LEU C 431 THR C 436 -1 O ILE C 435 N LEU C 422 SHEET 1 F 2 GLY C 482 VAL C 486 0 SHEET 2 F 2 VAL C 492 THR C 497 -1 O GLY C 494 N VAL C 485 SHEET 1 G 3 ALA D 401 HIS D 402 0 SHEET 2 G 3 HIS D 421 VAL D 425 1 O VAL D 425 N ALA D 401 SHEET 3 G 3 LEU D 431 THR D 436 -1 O ILE D 435 N LEU D 422 SHEET 1 H 3 ALA D 462 HIS D 463 0 SHEET 2 H 3 GLY D 482 VAL D 486 1 O VAL D 486 N ALA D 462 SHEET 3 H 3 VAL D 492 THR D 497 -1 O GLY D 494 N VAL D 485 SITE 1 AC1 17 THR B 436 TRP B 438 ASP B 439 LYS B 442 SITE 2 AC1 17 THR B 456 ASN B 458 VAL B 459 ILE B 460 SITE 3 AC1 17 ASN B 479 ILE B 480 SER B 481 GLY B 482 SITE 4 AC1 17 PRO B 484 MTA C 1 ASN C 418 ASN C 420 SITE 5 AC1 17 GLU C 499 SITE 1 AC2 15 ASN B 418 ASN B 420 GLU B 499 TRP C 438 SITE 2 AC2 15 ASP C 439 THR C 456 ASN C 458 VAL C 459 SITE 3 AC2 15 ILE C 460 ASN C 479 ILE C 480 SER C 481 SITE 4 AC2 15 GLY C 482 VAL C 483 PRO C 484 SITE 1 AC3 10 SER A 395 ILE A 399 ASN A 418 ILE A 419 SITE 2 AC3 10 HIS A 421 PRO A 423 ILE A 495 THR A 497 SITE 3 AC3 10 GLU A 499 ASP A 500 SITE 1 AC4 10 ILE A 434 TRP A 438 ASP A 439 THR A 456 SITE 2 AC4 10 ASN A 458 VAL A 459 ILE A 460 ASN A 479 SITE 3 AC4 10 ILE A 480 GLY A 482 SITE 1 AC5 14 SAM B1000 SER C 395 PRO C 397 PRO C 398 SITE 2 AC5 14 ILE C 399 ASN C 418 ILE C 419 ASN C 420 SITE 3 AC5 14 HIS C 421 PRO C 423 ILE C 495 THR C 497 SITE 4 AC5 14 GLU C 499 ASP C 500 SITE 1 AC6 11 SER D 395 PRO D 397 ILE D 399 ASN D 418 SITE 2 AC6 11 ILE D 419 HIS D 421 PRO D 423 ASN D 479 SITE 3 AC6 11 ILE D 495 THR D 497 ASP D 500 SITE 1 AC7 12 ILE D 434 THR D 436 TRP D 438 ASP D 439 SITE 2 AC7 12 THR D 456 ASN D 458 ILE D 460 TYR D 478 SITE 3 AC7 12 ASN D 479 ILE D 480 GLY D 482 PRO D 484 CRYST1 58.671 165.794 122.997 90.00 90.00 90.00 C 2 2 21 32 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 0.017044 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006032 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008130 0.00000