HEADER TRANSFERASE 13-APR-07 2YVL TITLE CRYSTAL STRUCTURE OF TRNA (M1A58) METHYLTRANSFERASE TRMI FROM AQUIFEX TITLE 2 AEOLICUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTHETICAL PROTEIN; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: TRMI PROTEIN; COMPND 5 EC: 2.1.1.36; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AQUIFEX AEOLICUS; SOURCE 3 ORGANISM_TAXID: 224324; SOURCE 4 STRAIN: VF5; SOURCE 5 GENE: AQ_311; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21A KEYWDS TRNA, METHYLTRANSFERASE, S-ADENOSYLMETHIONINE, STRUCTURAL GENOMICS, KEYWDS 2 NPPSFA, NATIONAL PROJECT ON PROTEIN STRUCTURAL AND FUNCTIONAL KEYWDS 3 ANALYSES, RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, KEYWDS 4 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR T.YANAGISAWA,R.ISHII,S.YOKOYAMA,RIKEN STRUCTURAL GENOMICS/PROTEOMICS AUTHOR 2 INITIATIVE (RSGI) REVDAT 5 08-NOV-23 2YVL 1 REMARK REVDAT 4 26-APR-23 2YVL 1 JRNL REMARK REVDAT 3 13-JUL-11 2YVL 1 VERSN REVDAT 2 24-FEB-09 2YVL 1 VERSN REVDAT 1 01-APR-08 2YVL 0 JRNL AUTH M.KURATANI,T.YANAGISAWA,R.ISHII,M.MATSUNO,S.Y.SI,K.KATSURA, JRNL AUTH 2 R.USHIKOSHI-NAKAYAMA,R.SHIBATA,M.SHIROUZU,Y.BESSHO, JRNL AUTH 3 S.YOKOYAMA JRNL TITL CRYSTAL STRUCTURE OF TRNA M(1)A58 METHYLTRANSFERASE TRMI JRNL TITL 2 FROM AQUIFEX AEOLICUS IN COMPLEX WITH JRNL TITL 3 S-ADENOSYL-L-METHIONINE. JRNL REF J STRUCT FUNCT GENOMICS V. 15 173 2014 JRNL REFN ISSN 1570-0267 JRNL PMID 24894648 JRNL DOI 10.1007/S10969-014-9183-0 REMARK 2 REMARK 2 RESOLUTION. 2.20 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.75 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 68373 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) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3597 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3900 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 75.25 REMARK 3 BIN R VALUE (WORKING SET) : 0.2070 REMARK 3 BIN FREE R VALUE SET COUNT : 190 REMARK 3 BIN FREE R VALUE : 0.2630 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 8092 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 108 REMARK 3 SOLVENT ATOMS : 537 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.07000 REMARK 3 B22 (A**2) : 0.10000 REMARK 3 B33 (A**2) : -0.03000 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): 0.224 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.186 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.118 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.451 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.938 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.916 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 8396 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 11312 ; 1.107 ; 1.986 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 984 ; 5.947 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 384 ;36.826 ;24.062 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1560 ;15.306 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 40 ;13.501 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1236 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6212 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3719 ; 0.180 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 5665 ; 0.301 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 619 ; 0.117 ; 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): 34 ; 0.202 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 19 ; 0.159 ; 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): 5102 ; 1.592 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 7972 ; 2.383 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3754 ; 1.698 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3340 ; 2.595 ; 3.000 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 : 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 2YVL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-APR-07. REMARK 100 THE DEPOSITION ID IS D_1000027189. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-JUL-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL 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 : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 72044 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07500 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 77.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.25600 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: MOLREP REMARK 200 STARTING MODEL: PDB CODE: 1O54 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS, 20% ETHANOL, PH8.4, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 34.91300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 106.34350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 48.61850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 106.34350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.91300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 48.61850 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 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 17580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 38670 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -54.9 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, 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 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 MET B 1 REMARK 465 MET C 1 REMARK 465 MET D 1 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 THR D 72 CA - CB - CG2 ANGL. DEV. = 9.2 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 LYS A 26 -2.33 73.58 REMARK 500 LYS B 26 -11.28 76.95 REMARK 500 LYS B 32 -109.91 50.62 REMARK 500 LYS C 26 -21.14 73.01 REMARK 500 LYS C 33 -43.68 80.85 REMARK 500 TYR C 206 -37.64 -130.40 REMARK 500 LYS D 32 74.40 35.71 REMARK 500 LYS D 33 -18.32 67.52 REMARK 500 LEU D 87 2.30 -67.40 REMARK 500 THR D 222 30.53 -99.88 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 A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAM B 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAM D 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAM C 604 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: AAE001000311.1 RELATED DB: TARGETDB DBREF 2YVL A 1 248 UNP O66653 O66653_AQUAE 1 248 DBREF 2YVL B 1 248 UNP O66653 O66653_AQUAE 1 248 DBREF 2YVL C 1 248 UNP O66653 O66653_AQUAE 1 248 DBREF 2YVL D 1 248 UNP O66653 O66653_AQUAE 1 248 SEQRES 1 A 248 MET ASN SER PHE LYS GLU GLY GLU TYR VAL LEU ILE ARG SEQRES 2 A 248 PHE GLY GLU LYS LYS PHE LEU ARG LYS LEU LEU PRO LYS SEQRES 3 A 248 GLN SER LEU SER VAL LYS LYS SER VAL LEU LYS PHE ASP SEQRES 4 A 248 GLU VAL ILE GLY LYS PRO GLU GLY VAL LYS ILE ASN GLY SEQRES 5 A 248 PHE GLU VAL TYR ARG PRO THR LEU GLU GLU ILE ILE LEU SEQRES 6 A 248 LEU GLY PHE GLU ARG LYS THR GLN ILE ILE TYR PRO LYS SEQRES 7 A 248 ASP SER PHE TYR ILE ALA LEU LYS LEU ASN LEU ASN LYS SEQRES 8 A 248 GLU LYS ARG VAL LEU GLU PHE GLY THR GLY SER GLY ALA SEQRES 9 A 248 LEU LEU ALA VAL LEU SER GLU VAL ALA GLY GLU VAL TRP SEQRES 10 A 248 THR PHE GLU ALA VAL GLU GLU PHE TYR LYS THR ALA GLN SEQRES 11 A 248 LYS ASN LEU LYS LYS PHE ASN LEU GLY LYS ASN VAL LYS SEQRES 12 A 248 PHE PHE ASN VAL ASP PHE LYS ASP ALA GLU VAL PRO GLU SEQRES 13 A 248 GLY ILE PHE HIS ALA ALA PHE VAL ASP VAL ARG GLU PRO SEQRES 14 A 248 TRP HIS TYR LEU GLU LYS VAL HIS LYS SER LEU MET GLU SEQRES 15 A 248 GLY ALA PRO VAL GLY PHE LEU LEU PRO THR ALA ASN GLN SEQRES 16 A 248 VAL ILE LYS LEU LEU GLU SER ILE GLU ASN TYR PHE GLY SEQRES 17 A 248 ASN LEU GLU VAL VAL GLU ILE LEU HIS ARG HIS TYR LYS SEQRES 18 A 248 THR ILE SER GLU ARG PHE ARG PRO GLU ASP GLN MET VAL SEQRES 19 A 248 ALA HIS THR ALA TYR LEU VAL PHE GLY ARG LYS LEU LYS SEQRES 20 A 248 THR SEQRES 1 B 248 MET ASN SER PHE LYS GLU GLY GLU TYR VAL LEU ILE ARG SEQRES 2 B 248 PHE GLY GLU LYS LYS PHE LEU ARG LYS LEU LEU PRO LYS SEQRES 3 B 248 GLN SER LEU SER VAL LYS LYS SER VAL LEU LYS PHE ASP SEQRES 4 B 248 GLU VAL ILE GLY LYS PRO GLU GLY VAL LYS ILE ASN GLY SEQRES 5 B 248 PHE GLU VAL TYR ARG PRO THR LEU GLU GLU ILE ILE LEU SEQRES 6 B 248 LEU GLY PHE GLU ARG LYS THR GLN ILE ILE TYR PRO LYS SEQRES 7 B 248 ASP SER PHE TYR ILE ALA LEU LYS LEU ASN LEU ASN LYS SEQRES 8 B 248 GLU LYS ARG VAL LEU GLU PHE GLY THR GLY SER GLY ALA SEQRES 9 B 248 LEU LEU ALA VAL LEU SER GLU VAL ALA GLY GLU VAL TRP SEQRES 10 B 248 THR PHE GLU ALA VAL GLU GLU PHE TYR LYS THR ALA GLN SEQRES 11 B 248 LYS ASN LEU LYS LYS PHE ASN LEU GLY LYS ASN VAL LYS SEQRES 12 B 248 PHE PHE ASN VAL ASP PHE LYS ASP ALA GLU VAL PRO GLU SEQRES 13 B 248 GLY ILE PHE HIS ALA ALA PHE VAL ASP VAL ARG GLU PRO SEQRES 14 B 248 TRP HIS TYR LEU GLU LYS VAL HIS LYS SER LEU MET GLU SEQRES 15 B 248 GLY ALA PRO VAL GLY PHE LEU LEU PRO THR ALA ASN GLN SEQRES 16 B 248 VAL ILE LYS LEU LEU GLU SER ILE GLU ASN TYR PHE GLY SEQRES 17 B 248 ASN LEU GLU VAL VAL GLU ILE LEU HIS ARG HIS TYR LYS SEQRES 18 B 248 THR ILE SER GLU ARG PHE ARG PRO GLU ASP GLN MET VAL SEQRES 19 B 248 ALA HIS THR ALA TYR LEU VAL PHE GLY ARG LYS LEU LYS SEQRES 20 B 248 THR SEQRES 1 C 248 MET ASN SER PHE LYS GLU GLY GLU TYR VAL LEU ILE ARG SEQRES 2 C 248 PHE GLY GLU LYS LYS PHE LEU ARG LYS LEU LEU PRO LYS SEQRES 3 C 248 GLN SER LEU SER VAL LYS LYS SER VAL LEU LYS PHE ASP SEQRES 4 C 248 GLU VAL ILE GLY LYS PRO GLU GLY VAL LYS ILE ASN GLY SEQRES 5 C 248 PHE GLU VAL TYR ARG PRO THR LEU GLU GLU ILE ILE LEU SEQRES 6 C 248 LEU GLY PHE GLU ARG LYS THR GLN ILE ILE TYR PRO LYS SEQRES 7 C 248 ASP SER PHE TYR ILE ALA LEU LYS LEU ASN LEU ASN LYS SEQRES 8 C 248 GLU LYS ARG VAL LEU GLU PHE GLY THR GLY SER GLY ALA SEQRES 9 C 248 LEU LEU ALA VAL LEU SER GLU VAL ALA GLY GLU VAL TRP SEQRES 10 C 248 THR PHE GLU ALA VAL GLU GLU PHE TYR LYS THR ALA GLN SEQRES 11 C 248 LYS ASN LEU LYS LYS PHE ASN LEU GLY LYS ASN VAL LYS SEQRES 12 C 248 PHE PHE ASN VAL ASP PHE LYS ASP ALA GLU VAL PRO GLU SEQRES 13 C 248 GLY ILE PHE HIS ALA ALA PHE VAL ASP VAL ARG GLU PRO SEQRES 14 C 248 TRP HIS TYR LEU GLU LYS VAL HIS LYS SER LEU MET GLU SEQRES 15 C 248 GLY ALA PRO VAL GLY PHE LEU LEU PRO THR ALA ASN GLN SEQRES 16 C 248 VAL ILE LYS LEU LEU GLU SER ILE GLU ASN TYR PHE GLY SEQRES 17 C 248 ASN LEU GLU VAL VAL GLU ILE LEU HIS ARG HIS TYR LYS SEQRES 18 C 248 THR ILE SER GLU ARG PHE ARG PRO GLU ASP GLN MET VAL SEQRES 19 C 248 ALA HIS THR ALA TYR LEU VAL PHE GLY ARG LYS LEU LYS SEQRES 20 C 248 THR SEQRES 1 D 248 MET ASN SER PHE LYS GLU GLY GLU TYR VAL LEU ILE ARG SEQRES 2 D 248 PHE GLY GLU LYS LYS PHE LEU ARG LYS LEU LEU PRO LYS SEQRES 3 D 248 GLN SER LEU SER VAL LYS LYS SER VAL LEU LYS PHE ASP SEQRES 4 D 248 GLU VAL ILE GLY LYS PRO GLU GLY VAL LYS ILE ASN GLY SEQRES 5 D 248 PHE GLU VAL TYR ARG PRO THR LEU GLU GLU ILE ILE LEU SEQRES 6 D 248 LEU GLY PHE GLU ARG LYS THR GLN ILE ILE TYR PRO LYS SEQRES 7 D 248 ASP SER PHE TYR ILE ALA LEU LYS LEU ASN LEU ASN LYS SEQRES 8 D 248 GLU LYS ARG VAL LEU GLU PHE GLY THR GLY SER GLY ALA SEQRES 9 D 248 LEU LEU ALA VAL LEU SER GLU VAL ALA GLY GLU VAL TRP SEQRES 10 D 248 THR PHE GLU ALA VAL GLU GLU PHE TYR LYS THR ALA GLN SEQRES 11 D 248 LYS ASN LEU LYS LYS PHE ASN LEU GLY LYS ASN VAL LYS SEQRES 12 D 248 PHE PHE ASN VAL ASP PHE LYS ASP ALA GLU VAL PRO GLU SEQRES 13 D 248 GLY ILE PHE HIS ALA ALA PHE VAL ASP VAL ARG GLU PRO SEQRES 14 D 248 TRP HIS TYR LEU GLU LYS VAL HIS LYS SER LEU MET GLU SEQRES 15 D 248 GLY ALA PRO VAL GLY PHE LEU LEU PRO THR ALA ASN GLN SEQRES 16 D 248 VAL ILE LYS LEU LEU GLU SER ILE GLU ASN TYR PHE GLY SEQRES 17 D 248 ASN LEU GLU VAL VAL GLU ILE LEU HIS ARG HIS TYR LYS SEQRES 18 D 248 THR ILE SER GLU ARG PHE ARG PRO GLU ASP GLN MET VAL SEQRES 19 D 248 ALA HIS THR ALA TYR LEU VAL PHE GLY ARG LYS LEU LYS SEQRES 20 D 248 THR HET SAM A 601 27 HET SAM B 602 27 HET SAM C 604 27 HET SAM D 603 27 HETNAM SAM S-ADENOSYLMETHIONINE FORMUL 5 SAM 4(C15 H22 N6 O5 S) FORMUL 9 HOH *537(H2 O) HELIX 1 1 ASP A 39 VAL A 41 5 3 HELIX 2 2 THR A 59 GLY A 67 1 9 HELIX 3 3 TYR A 76 LEU A 87 1 12 HELIX 4 4 GLY A 103 ALA A 113 1 11 HELIX 5 5 VAL A 122 PHE A 136 1 15 HELIX 6 6 GLU A 168 HIS A 171 5 4 HELIX 7 7 TYR A 172 LEU A 180 1 9 HELIX 8 8 THR A 192 ILE A 203 1 12 HELIX 9 9 ILE A 223 PHE A 227 5 5 HELIX 10 10 ASP B 39 VAL B 41 5 3 HELIX 11 11 THR B 59 PHE B 68 1 10 HELIX 12 12 TYR B 76 LEU B 87 1 12 HELIX 13 13 GLY B 103 ALA B 113 1 11 HELIX 14 14 VAL B 122 PHE B 136 1 15 HELIX 15 15 GLU B 168 HIS B 171 5 4 HELIX 16 16 TYR B 172 LEU B 180 1 9 HELIX 17 17 THR B 192 GLU B 204 1 13 HELIX 18 18 ILE B 223 PHE B 227 5 5 HELIX 19 19 ASP C 39 VAL C 41 5 3 HELIX 20 20 THR C 59 GLY C 67 1 9 HELIX 21 21 TYR C 76 LEU C 87 1 12 HELIX 22 22 GLY C 103 ALA C 113 1 11 HELIX 23 23 VAL C 122 PHE C 136 1 15 HELIX 24 24 ASP C 148 ALA C 152 5 5 HELIX 25 25 GLU C 168 HIS C 171 5 4 HELIX 26 26 TYR C 172 LEU C 180 1 9 HELIX 27 27 THR C 192 ILE C 203 1 12 HELIX 28 28 ILE C 223 PHE C 227 5 5 HELIX 29 29 PHE D 38 ILE D 42 1 5 HELIX 30 30 THR D 59 GLY D 67 1 9 HELIX 31 31 TYR D 76 LEU D 87 1 12 HELIX 32 32 GLY D 103 ALA D 113 1 11 HELIX 33 33 VAL D 122 PHE D 136 1 15 HELIX 34 34 GLU D 168 HIS D 171 5 4 HELIX 35 35 TYR D 172 LEU D 180 1 9 HELIX 36 36 THR D 192 ILE D 203 1 12 HELIX 37 37 ILE D 223 PHE D 227 5 5 SHEET 1 A 4 LYS A 17 LYS A 22 0 SHEET 2 A 4 TYR A 9 PHE A 14 -1 N ILE A 12 O PHE A 19 SHEET 3 A 4 PHE A 53 TYR A 56 -1 O GLU A 54 N ARG A 13 SHEET 4 A 4 VAL A 48 ILE A 50 -1 N ILE A 50 O PHE A 53 SHEET 1 B 2 SER A 28 VAL A 31 0 SHEET 2 B 2 SER A 34 LYS A 37 -1 O LEU A 36 N LEU A 29 SHEET 1 C14 VAL A 142 PHE A 145 0 SHEET 2 C14 GLU A 115 PHE A 119 1 N VAL A 116 O LYS A 143 SHEET 3 C14 ARG A 94 PHE A 98 1 N VAL A 95 O TRP A 117 SHEET 4 C14 ALA A 161 VAL A 164 1 O ALA A 161 N LEU A 96 SHEET 5 C14 PRO A 185 LEU A 190 1 O GLY A 187 N VAL A 164 SHEET 6 C14 TYR A 239 LYS A 245 -1 O TYR A 239 N LEU A 190 SHEET 7 C14 PHE A 207 TYR A 220 -1 N GLU A 211 O PHE A 242 SHEET 8 C14 PHE B 207 TYR B 220 -1 O LEU B 216 N LEU A 216 SHEET 9 C14 TYR B 239 LYS B 245 -1 O ARG B 244 N GLY B 208 SHEET 10 C14 PRO B 185 LEU B 190 -1 N LEU B 190 O TYR B 239 SHEET 11 C14 ALA B 161 VAL B 164 1 N VAL B 164 O GLY B 187 SHEET 12 C14 ARG B 94 PHE B 98 1 N LEU B 96 O PHE B 163 SHEET 13 C14 GLU B 115 PHE B 119 1 O GLU B 115 N VAL B 95 SHEET 14 C14 VAL B 142 PHE B 145 1 O LYS B 143 N VAL B 116 SHEET 1 D 2 GLN A 232 VAL A 234 0 SHEET 2 D 2 GLN C 232 VAL C 234 -1 O MET C 233 N MET A 233 SHEET 1 E 4 LYS B 17 LYS B 22 0 SHEET 2 E 4 TYR B 9 PHE B 14 -1 N ILE B 12 O PHE B 19 SHEET 3 E 4 PHE B 53 TYR B 56 -1 O GLU B 54 N ARG B 13 SHEET 4 E 4 VAL B 48 ILE B 50 -1 N ILE B 50 O PHE B 53 SHEET 1 F 2 SER B 28 VAL B 31 0 SHEET 2 F 2 SER B 34 LYS B 37 -1 O LEU B 36 N LEU B 29 SHEET 1 G 2 GLN B 232 VAL B 234 0 SHEET 2 G 2 GLN D 232 VAL D 234 -1 O MET D 233 N MET B 233 SHEET 1 H 4 LYS C 17 LYS C 22 0 SHEET 2 H 4 TYR C 9 PHE C 14 -1 N ILE C 12 O PHE C 19 SHEET 3 H 4 PHE C 53 TYR C 56 -1 O TYR C 56 N LEU C 11 SHEET 4 H 4 VAL C 48 ILE C 50 -1 N ILE C 50 O PHE C 53 SHEET 1 I 2 SER C 28 VAL C 31 0 SHEET 2 I 2 SER C 34 LYS C 37 -1 O LEU C 36 N LEU C 29 SHEET 1 J14 VAL C 142 PHE C 145 0 SHEET 2 J14 GLU C 115 PHE C 119 1 N VAL C 116 O LYS C 143 SHEET 3 J14 ARG C 94 PHE C 98 1 N VAL C 95 O GLU C 115 SHEET 4 J14 ALA C 161 VAL C 164 1 O PHE C 163 N LEU C 96 SHEET 5 J14 PRO C 185 LEU C 190 1 O GLY C 187 N VAL C 164 SHEET 6 J14 TYR C 239 LYS C 245 -1 O TYR C 239 N LEU C 190 SHEET 7 J14 PHE C 207 TYR C 220 -1 N GLU C 211 O PHE C 242 SHEET 8 J14 PHE D 207 TYR D 220 -1 O LEU D 216 N LEU C 216 SHEET 9 J14 TYR D 239 LYS D 245 -1 O PHE D 242 N GLU D 211 SHEET 10 J14 PRO D 185 LEU D 190 -1 N LEU D 190 O TYR D 239 SHEET 11 J14 ALA D 161 VAL D 164 1 N VAL D 164 O GLY D 187 SHEET 12 J14 ARG D 94 PHE D 98 1 N LEU D 96 O PHE D 163 SHEET 13 J14 GLU D 115 PHE D 119 1 O GLU D 115 N VAL D 95 SHEET 14 J14 VAL D 142 PHE D 145 1 O LYS D 143 N VAL D 116 SHEET 1 K 4 LYS D 17 LYS D 22 0 SHEET 2 K 4 TYR D 9 PHE D 14 -1 N ILE D 12 O PHE D 19 SHEET 3 K 4 PHE D 53 TYR D 56 -1 O TYR D 56 N LEU D 11 SHEET 4 K 4 VAL D 48 ILE D 50 -1 N ILE D 50 O PHE D 53 SHEET 1 L 2 SER D 28 VAL D 31 0 SHEET 2 L 2 SER D 34 LYS D 37 -1 O LEU D 36 N LEU D 29 CISPEP 1 PHE A 98 GLY A 99 0 -4.65 CISPEP 2 PHE B 98 GLY B 99 0 -6.94 CISPEP 3 PHE C 98 GLY C 99 0 -5.88 CISPEP 4 PHE D 98 GLY D 99 0 -6.27 SITE 1 AC1 21 THR A 72 GLN A 73 ILE A 75 GLY A 99 SITE 2 AC1 21 THR A 100 GLY A 101 SER A 102 GLY A 103 SITE 3 AC1 21 ALA A 104 LEU A 105 PHE A 119 GLU A 120 SITE 4 AC1 21 ALA A 121 PHE A 125 ASP A 148 PHE A 149 SITE 5 AC1 21 ASP A 165 TYR A 172 HOH A 625 HOH A 711 SITE 6 AC1 21 HOH A 723 SITE 1 AC2 17 GLN B 73 ILE B 75 GLY B 99 THR B 100 SITE 2 AC2 17 GLY B 101 SER B 102 GLY B 103 ALA B 104 SITE 3 AC2 17 LEU B 105 GLU B 120 ALA B 121 PHE B 125 SITE 4 AC2 17 ASP B 148 PHE B 149 ASP B 165 TYR B 172 SITE 5 AC2 17 HOH B 622 SITE 1 AC3 17 THR D 72 GLN D 73 ILE D 75 GLY D 99 SITE 2 AC3 17 THR D 100 SER D 102 GLY D 103 ALA D 104 SITE 3 AC3 17 LEU D 105 GLU D 120 ALA D 121 PHE D 125 SITE 4 AC3 17 ASP D 148 PHE D 149 ASP D 165 TYR D 172 SITE 5 AC3 17 HOH D 632 SITE 1 AC4 18 THR C 72 GLN C 73 ILE C 75 GLY C 99 SITE 2 AC4 18 THR C 100 SER C 102 GLY C 103 ALA C 104 SITE 3 AC4 18 LEU C 105 PHE C 119 GLU C 120 ALA C 121 SITE 4 AC4 18 PHE C 125 ASP C 148 PHE C 149 ASP C 165 SITE 5 AC4 18 TYR C 172 HOH C 659 CRYST1 69.826 97.237 212.687 90.00 90.00 90.00 P 21 21 21 16 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 0.014321 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010284 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004702 0.00000