HEADER TRANSFERASE 03-FEB-17 5N0N
TITLE CRYSTAL STRUCTURE OF OPHA-DELTAC6 MUTANT Y63F IN COMPLEX WITH SAM
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: PEPTIDE N-METHYLTRANSFERASE;
COMPND 3 CHAIN: A;
COMPND 4 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: OMPHALOTUS OLEARIUS;
SOURCE 3 ORGANISM_TAXID: 72120;
SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3);
SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008
KEYWDS METHYLTRANSFERASE, TRANSFERASE
EXPDTA X-RAY DIFFRACTION
AUTHOR H.SONG,J.H.NAISMITH
REVDAT 5 23-OCT-24 5N0N 1 REMARK
REVDAT 4 17-JAN-24 5N0N 1 LINK
REVDAT 3 12-JUN-19 5N0N 1 AUTHOR
REVDAT 2 19-SEP-18 5N0N 1 JRNL
REVDAT 1 14-FEB-18 5N0N 0
JRNL AUTH H.SONG,N.S.VAN DER VELDEN,S.L.SHIRAN,P.BLEIZIFFER,C.ZACH,
JRNL AUTH 2 R.SIEBER,A.S.IMANI,F.KRAUSBECK,M.AEBI,M.F.FREEMAN,S.RINIKER,
JRNL AUTH 3 M.KUNZLER,J.H.NAISMITH
JRNL TITL A MOLECULAR MECHANISM FOR THE ENZYMATIC METHYLATION OF
JRNL TITL 2 NITROGEN ATOMS WITHIN PEPTIDE BONDS.
JRNL REF SCI ADV V. 4 T2720 2018
JRNL REFN ESSN 2375-2548
JRNL PMID 30151425
JRNL DOI 10.1126/SCIADV.AAT2720
REMARK 2
REMARK 2 RESOLUTION. 1.76 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : REFMAC 5.8.0158
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) : 1.76
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 82.67
REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL
REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4
REMARK 3 NUMBER OF REFLECTIONS : 64025
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) : 0.189
REMARK 3 R VALUE (WORKING SET) : 0.188
REMARK 3 FREE R VALUE : 0.200
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000
REMARK 3 FREE R VALUE TEST SET COUNT : 3387
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) : 1.76
REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.80
REMARK 3 REFLECTION IN BIN (WORKING SET) : 4731
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.90
REMARK 3 BIN R VALUE (WORKING SET) : 0.2830
REMARK 3 BIN FREE R VALUE SET COUNT : 262
REMARK 3 BIN FREE R VALUE : 0.2890
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 3069
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 48
REMARK 3 SOLVENT ATOMS : 259
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : NULL
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.59
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : -0.13000
REMARK 3 B22 (A**2) : -1.51000
REMARK 3 B33 (A**2) : 1.63000
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): 0.088
REMARK 3 ESU BASED ON FREE R VALUE (A): 0.083
REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.063
REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.068
REMARK 3
REMARK 3 CORRELATION COEFFICIENTS.
REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.964
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT
REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3285 ; 0.009 ; 0.019
REMARK 3 BOND LENGTHS OTHERS (A): 3011 ; 0.001 ; 0.020
REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4482 ; 1.278 ; 1.982
REMARK 3 BOND ANGLES OTHERS (DEGREES): 7004 ; 0.934 ; 3.000
REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 415 ; 5.371 ; 5.000
REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 143 ;36.238 ;23.916
REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 521 ;12.856 ;15.000
REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;19.565 ;15.000
REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 494 ; 0.076 ; 0.200
REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3711 ; 0.005 ; 0.021
REMARK 3 GENERAL PLANES OTHERS (A): 653 ; 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): 1644 ; 0.968 ; 3.156
REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1643 ; 0.968 ; 3.157
REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2069 ; 1.739 ; 4.717
REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2070 ; 1.739 ; 4.717
REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1641 ; 0.866 ; 3.376
REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1639 ; 0.866 ; 3.361
REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2413 ; 1.506 ; 4.995
REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3448 ; 4.603 ;37.296
REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3396 ; 4.790 ;36.685
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 : 1
REMARK 3
REMARK 3 TLS GROUP : 1
REMARK 3 NUMBER OF COMPONENTS GROUP : 1
REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI
REMARK 3 RESIDUE RANGE : A 6 A 501
REMARK 3 ORIGIN FOR THE GROUP (A): -86.6069 187.7831 28.0843
REMARK 3 T TENSOR
REMARK 3 T11: 0.0546 T22: 0.0717
REMARK 3 T33: 0.0057 T12: 0.0036
REMARK 3 T13: 0.0054 T23: -0.0011
REMARK 3 L TENSOR
REMARK 3 L11: 0.4815 L22: 1.3309
REMARK 3 L33: 0.5682 L12: -0.1465
REMARK 3 L13: -0.0247 L23: -0.1162
REMARK 3 S TENSOR
REMARK 3 S11: -0.0435 S12: 0.0341 S13: 0.0147
REMARK 3 S21: -0.1661 S22: 0.0842 S23: -0.0488
REMARK 3 S31: -0.0004 S32: -0.0010 S33: -0.0407
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 5N0N COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-FEB-17.
REMARK 100 THE DEPOSITION ID IS D_1200003244.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 25-SEP-16
REMARK 200 TEMPERATURE (KELVIN) : 100
REMARK 200 PH : NULL
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : Y
REMARK 200 RADIATION SOURCE : DIAMOND
REMARK 200 BEAMLINE : I04-1
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 0.9281
REMARK 200 MONOCHROMATOR : NULL
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : PIXEL
REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2
REMARK 200 DATA SCALING SOFTWARE : XIA2
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 67412
REMARK 200 RESOLUTION RANGE HIGH (A) : 1.760
REMARK 200 RESOLUTION RANGE LOW (A) : 82.670
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5
REMARK 200 DATA REDUNDANCY : 5.500
REMARK 200 R MERGE (I) : 0.03200
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 24.0000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.76
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.79
REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5
REMARK 200 DATA REDUNDANCY IN SHELL : 5.60
REMARK 200 R MERGE FOR SHELL (I) : 0.75200
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.200
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: 5N0O
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 34.47
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.75
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 0.3-0.4 M KSCN, 1.5-1.9 M SODIUM
REMARK 280 MALONATE AND 0.1 M BICINE PH 9.0, VAPOR DIFFUSION, HANGING DROP,
REMARK 280 TEMPERATURE 289K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2
REMARK 290
REMARK 290 SYMOP SYMMETRY
REMARK 290 NNNMMM OPERATOR
REMARK 290 1555 X,Y,Z
REMARK 290 2555 -X,-Y,Z
REMARK 290 3555 -X,Y,-Z
REMARK 290 4555 X,-Y,-Z
REMARK 290 5555 X+1/2,Y+1/2,Z+1/2
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+1/2
REMARK 290
REMARK 290 WHERE NNN -> OPERATOR NUMBER
REMARK 290 MMM -> TRANSLATION VECTOR
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS
REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM
REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY
REMARK 290 RELATED MOLECULES.
REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000
REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000
REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000
REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000
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 43.65200
REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 46.83200
REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 82.66550
REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 43.65200
REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 46.83200
REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 82.66550
REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 43.65200
REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 46.83200
REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 82.66550
REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 43.65200
REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 46.83200
REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 82.66550
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 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 APPLY THE FOLLOWING TO CHAINS: A
REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 -174.60800
REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 374.65600
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 2
REMARK 465 THR A 3
REMARK 465 SER A 4
REMARK 465 THR A 5
REMARK 465 GLU A 391
REMARK 465 GLU A 392
REMARK 465 ALA A 393
REMARK 465 SER A 394
REMARK 465 ILE A 407
REMARK 465 GLY A 408
REMARK 465 VAL A 409
REMARK 465 ILE A 410
REMARK 465 GLY A 411
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 238 CD CE NZ
REMARK 470 GLN A 395 CG CD OE1 NE2
REMARK 470 ASN A 396 CG OD1 ND2
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: CLOSE CONTACTS
REMARK 500
REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC
REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15
REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A
REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375
REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE
REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS.
REMARK 500
REMARK 500 DISTANCE CUTOFF:
REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS
REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS
REMARK 500
REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE
REMARK 500 O HOH A 609 O HOH A 609 2395 0.75
REMARK 500 O HOH A 681 O HOH A 681 2395 1.09
REMARK 500 O HOH A 832 O HOH A 832 2395 1.52
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 ILE A 22 -56.13 68.00
REMARK 500 CSO A 175 56.81 -140.28
REMARK 500 ASP A 180 -154.55 -120.74
REMARK 500 LEU A 266 46.93 -99.95
REMARK 500 PRO A 268 42.61 -105.65
REMARK 500 ALA A 277 69.54 -113.35
REMARK 500 THR A 320 -167.96 -126.45
REMARK 500 ASP A 344 87.87 -160.10
REMARK 500 ARG A 387 89.28 68.38
REMARK 500
REMARK 500 REMARK: NULL
REMARK 525
REMARK 525 SOLVENT
REMARK 525
REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT
REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST
REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT
REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE
REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER;
REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE
REMARK 525 NUMBER; I=INSERTION CODE):
REMARK 525
REMARK 525 M RES CSSEQI
REMARK 525 HOH A 859 DISTANCE = 6.28 ANGSTROMS
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 504 MG
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 GLY A 16 O
REMARK 620 2 HOH A 635 O 107.9
REMARK 620 3 HOH A 728 O 83.8 122.7
REMARK 620 N 1 2
REMARK 620
REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL
REMARK 620 MG A 503 MG
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 HOH A 650 O
REMARK 620 2 HOH A 774 O 127.1
REMARK 620 N 1
REMARK 800
REMARK 800 SITE
REMARK 800 SITE_IDENTIFIER: AC1
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue SAH A 501
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue EDT A 502
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC3
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 503
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC4
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 504
DBREF 5N0N A 2 411 PDB 5N0N 5N0N 2 411
SEQRES 1 A 410 GLY THR SER THR GLN THR LYS ALA GLY SER LEU THR ILE
SEQRES 2 A 410 VAL GLY THR GLY ILE GLU SER ILE GLY GLN MET THR LEU
SEQRES 3 A 410 GLN ALA LEU SER TYR ILE GLU ALA ALA ALA LYS VAL PHE
SEQRES 4 A 410 TYR CYS VAL ILE ASP PRO ALA THR GLU ALA PHE ILE LEU
SEQRES 5 A 410 THR LYS ASN LYS ASN CYS VAL ASP LEU PHE GLN TYR TYR
SEQRES 6 A 410 ASP ASN GLY LYS SER ARG LEU ASN THR TYR THR GLN MET
SEQRES 7 A 410 SER GLU LEU MET VAL ARG GLU VAL ARG LYS GLY LEU ASP
SEQRES 8 A 410 VAL VAL GLY VAL PHE TYR GLY HIS PRO GLY VAL PHE VAL
SEQRES 9 A 410 ASN PRO SER HIS ARG ALA LEU ALA ILE ALA LYS SER GLU
SEQRES 10 A 410 GLY TYR ARG ALA ARG MET LEU PRO GLY VAL SER ALA GLU
SEQRES 11 A 410 ASP CYS LEU PHE ALA ASP LEU CYS ILE ASP PRO SER ASN
SEQRES 12 A 410 PRO GLY CYS LEU THR TYR GLU ALA SER ASP PHE LEU ILE
SEQRES 13 A 410 ARG ASP ARG PRO VAL SER ILE HIS SER HIS LEU VAL LEU
SEQRES 14 A 410 PHE GLN VAL GLY CSO VAL GLY ILE ALA ASP PHE ASN PHE
SEQRES 15 A 410 THR GLY PHE ASP ASN ASN LYS PHE GLY VAL LEU VAL ASP
SEQRES 16 A 410 ARG LEU GLU GLN GLU TYR GLY ALA GLU HIS PRO VAL VAL
SEQRES 17 A 410 HIS TYR ILE ALA ALA MET MET PRO HIS GLN ASP PRO VAL
SEQRES 18 A 410 THR ASP LYS TYR THR VAL ALA GLN LEU ARG GLU PRO GLU
SEQRES 19 A 410 ILE ALA LYS ARG VAL GLY GLY VAL SER THR PHE TYR ILE
SEQRES 20 A 410 PRO PRO LYS ALA ARG LYS ALA SER ASN LEU ASP ILE ILE
SEQRES 21 A 410 ARG ARG LEU GLU LEU LEU PRO ALA GLY GLN VAL PRO ASP
SEQRES 22 A 410 LYS LYS ALA ARG ILE TYR PRO ALA ASN GLN TRP GLU PRO
SEQRES 23 A 410 ASP VAL PRO GLU VAL GLU PRO TYR ARG PRO SER ASP GLN
SEQRES 24 A 410 ALA ALA ILE ALA GLN LEU ALA ASP HIS ALA PRO PRO GLU
SEQRES 25 A 410 GLN TYR GLN PRO LEU ALA THR SER LYS ALA MET SER ASP
SEQRES 26 A 410 VAL MET THR LYS LEU ALA LEU ASP PRO LYS ALA LEU ALA
SEQRES 27 A 410 ASP TYR LYS ALA ASP HIS ARG ALA PHE ALA GLN SER VAL
SEQRES 28 A 410 PRO ASP LEU THR PRO GLN GLU ARG ALA ALA LEU GLU LEU
SEQRES 29 A 410 GLY ASP SER TRP ALA ILE ARG CYS ALA MET LYS ASN MET
SEQRES 30 A 410 PRO SER SER LEU LEU ASP ALA ALA ARG GLU SER GLY GLU
SEQRES 31 A 410 GLU ALA SER GLN ASN GLY PHE PRO TRP MVA ILE MVA VAL
SEQRES 32 A 410 GLY VAL ILE GLY VAL ILE GLY
HET CSO A 175 7
HET MVA A 401 8
HET MVA A 403 8
HET SAH A 501 26
HET EDT A 502 20
HET MG A 503 1
HET MG A 504 1
HETNAM CSO S-HYDROXYCYSTEINE
HETNAM MVA N-METHYLVALINE
HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE
HETNAM EDT {[-(BIS-CARBOXYMETHYL-AMINO)-ETHYL]-CARBOXYMETHYL-
HETNAM 2 EDT AMINO}-ACETIC ACID
HETNAM MG MAGNESIUM ION
FORMUL 1 CSO C3 H7 N O3 S
FORMUL 1 MVA 2(C6 H13 N O2)
FORMUL 2 SAH C14 H20 N6 O5 S
FORMUL 3 EDT C10 H16 N2 O8
FORMUL 4 MG 2(MG 2+)
FORMUL 6 HOH *259(H2 O)
HELIX 1 AA1 THR A 26 ALA A 36 1 11
HELIX 2 AA2 ASP A 45 ASN A 56 1 12
HELIX 3 AA3 PHE A 63 TYR A 66 5 4
HELIX 4 AA4 SER A 71 LYS A 89 1 19
HELIX 5 AA5 ASN A 106 GLU A 118 1 13
HELIX 6 AA6 SER A 129 CYS A 139 1 11
HELIX 7 AA7 ALA A 152 ARG A 158 1 7
HELIX 8 AA8 LYS A 190 GLY A 203 1 14
HELIX 9 AA9 ALA A 229 ARG A 232 5 4
HELIX 10 AB1 GLU A 233 LYS A 238 1 6
HELIX 11 AB2 ASN A 257 LEU A 264 1 8
HELIX 12 AB3 ARG A 296 GLN A 305 1 10
HELIX 13 AB4 SER A 321 ASP A 334 1 14
HELIX 14 AB5 ASP A 334 ASP A 344 1 11
HELIX 15 AB6 ASP A 344 VAL A 352 1 9
HELIX 16 AB7 THR A 356 GLY A 366 1 11
HELIX 17 AB8 ASP A 367 LYS A 376 1 10
HELIX 18 AB9 PRO A 379 ARG A 387 1 9
SHEET 1 AA1 5 CYS A 59 ASP A 61 0
SHEET 2 AA1 5 LYS A 38 CYS A 42 1 N TYR A 41 O VAL A 60
SHEET 3 AA1 5 ASP A 92 PHE A 97 1 O VAL A 96 N PHE A 40
SHEET 4 AA1 5 SER A 11 GLY A 16 1 N SER A 11 O VAL A 93
SHEET 5 AA1 5 ARG A 121 MET A 124 1 O ARG A 123 N ILE A 14
SHEET 1 AA2 5 CYS A 147 GLU A 151 0
SHEET 2 AA2 5 HIS A 167 PHE A 171 1 O VAL A 169 N LEU A 148
SHEET 3 AA2 5 THR A 245 ILE A 248 -1 O ILE A 248 N LEU A 168
SHEET 4 AA2 5 PRO A 207 ILE A 212 -1 N VAL A 209 O TYR A 247
SHEET 5 AA2 5 VAL A 222 THR A 227 -1 O ASP A 224 N HIS A 210
LINK C GLY A 174 N CSO A 175 1555 1555 1.34
LINK C CSO A 175 N VAL A 176 1555 1555 1.33
LINK C TRP A 400 N MVA A 401 1555 1555 1.34
LINK C MVA A 401 N ILE A 402 1555 1555 1.33
LINK C ILE A 402 N MVA A 403 1555 1555 1.34
LINK C MVA A 403 N VAL A 404 1555 1555 1.34
LINK O GLY A 16 MG MG A 504 1555 1555 2.70
LINK MG MG A 503 O HOH A 650 1555 1555 2.66
LINK MG MG A 503 O HOH A 774 1555 1555 2.75
LINK MG MG A 504 O HOH A 635 1555 1555 2.81
LINK MG MG A 504 O HOH A 728 1555 1555 2.97
CISPEP 1 ASN A 144 PRO A 145 0 15.87
CISPEP 2 TYR A 280 PRO A 281 0 1.27
SITE 1 AC1 21 ILE A 19 TYR A 98 GLY A 99 HIS A 100
SITE 2 AC1 21 VAL A 103 PHE A 104 VAL A 105 SER A 129
SITE 3 AC1 21 ALA A 130 PHE A 171 GLN A 172 TYR A 211
SITE 4 AC1 21 ILE A 212 ALA A 213 GLY A 242 VAL A 243
SITE 5 AC1 21 SER A 244 THR A 245 HOH A 648 HOH A 678
SITE 6 AC1 21 HOH A 716
SITE 1 AC2 3 VAL A 162 MG A 503 HOH A 670
SITE 1 AC3 3 EDT A 502 HOH A 650 HOH A 774
SITE 1 AC4 5 GLY A 16 THR A 26 ALA A 29 HOH A 635
SITE 2 AC4 5 HOH A 728
CRYST1 87.304 93.664 165.331 90.00 90.00 90.00 I 2 2 2 8
ORIGX1 1.000000 0.000000 0.000000 0.00000
ORIGX2 0.000000 1.000000 0.000000 0.00000
ORIGX3 0.000000 0.000000 1.000000 0.00000
SCALE1 0.011454 0.000000 0.000000 0.00000
SCALE2 0.000000 0.010676 0.000000 0.00000
SCALE3 0.000000 0.000000 0.006048 0.00000