HEADER HYDROLASE 04-MAY-12 4F0R TITLE CRYSTAL STRUCTURE OF AN ADENOSINE DEAMINASE HOMOLOG FROM TITLE 2 CHROMOBACTERIUM VIOLACEUM (TARGET NYSGRC-019589) BOUND ZN AND 5'- TITLE 3 METHYLTHIOADENOSINE (UNPRODUCTIVE COMPLEX) COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5-METHYLTHIOADENOSINE/S-ADENOSYLHOMOCYSTEINE DEAMINASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MTA/SAH DEAMINASE; COMPND 5 EC: 3.5.4.28, 3.5.4.31; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CHROMOBACTERIUM VIOLACEUM; SOURCE 3 ORGANISM_TAXID: 243365; SOURCE 4 STRAIN: ATCC 12472; SOURCE 5 GENE: CV_1032, MTAD; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS STRUCTURAL GENOMICS, PSI-BIOLOGY, PROTEIN STRUCTURE INITIATIVE, NEW KEYWDS 2 YORK STRUCTURAL GENOMICS RESEARCH CONSORTIUM, NYSGRC, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.KIM,M.W.VETTING,J.M.SAUDER,S.K.BURLEY,F.M.RAUSHEL,J.B.BONANNO, AUTHOR 2 S.C.ALMO,NEW YORK STRUCTURAL GENOMICS RESEARCH CONSORTIUM (NYSGRC) REVDAT 4 09-OCT-24 4F0R 1 REMARK REVDAT 3 10-FEB-21 4F0R 1 AUTHOR JRNL REMARK SEQADV REVDAT 3 2 1 LINK REVDAT 2 21-NOV-18 4F0R 1 AUTHOR REVDAT 1 06-JUN-12 4F0R 0 JRNL AUTH J.KIM,M.W.VETTING,J.M.SAUDER,S.K.BURLEY,F.M.RAUSHEL, JRNL AUTH 2 J.B.BONANNO,S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF AN ADENOSINE DEAMINASE HOMOLOG FROM JRNL TITL 2 CHROMOBACTERIUM VIOLACEUM (TARGET NYSGRC-019589) BOUND ZN JRNL TITL 3 AND 5'-METHYLTHIOADENOSINE (UNPRODUCTIVE COMPLEX) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 41034 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) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2177 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2752 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1900 REMARK 3 BIN FREE R VALUE SET COUNT : 140 REMARK 3 BIN FREE R VALUE : 0.2220 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3294 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 325 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.15 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.02000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : 0.05000 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): 0.111 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.109 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.066 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.059 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3405 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4625 ; 1.338 ; 1.983 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 441 ; 5.394 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 142 ;31.021 ;23.873 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 519 ;11.075 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;13.886 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 538 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2550 ; 0.012 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4F0R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-MAY-12. REMARK 100 THE DEPOSITION ID IS D_1000072309. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-SEP-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97880 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 81597 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 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 (%) : NULL REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10200 REMARK 200 FOR THE DATA SET : 23.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 5.80 REMARK 200 R MERGE FOR SHELL (I) : 0.79900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2% DIOXANE, 0.1M BICINE PH 9.0, 10% REMARK 280 PEG 20000., VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 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 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 44.31150 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 50.57600 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 50.57600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 22.15575 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 50.57600 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 50.57600 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 66.46725 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 50.57600 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 50.57600 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 22.15575 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 50.57600 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 50.57600 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 66.46725 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 44.31150 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -109.0 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 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 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 MSE A 1 REMARK 465 PRO A 2 REMARK 465 GLN A 3 REMARK 465 SER A 4 REMARK 465 GLY A 441 REMARK 465 HIS A 442 REMARK 465 HIS A 443 REMARK 465 HIS A 444 REMARK 465 HIS A 445 REMARK 465 HIS A 446 REMARK 465 HIS A 447 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 5 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 50 CG CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 256 CG HIS A 256 CD2 0.057 REMARK 500 REMARK 500 REMARK: NULL 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 ASP A 106 CB - CG - OD1 ANGL. DEV. = 5.8 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 HIS A 70 104.73 -161.00 REMARK 500 TYR A 94 -58.85 -121.14 REMARK 500 TYR A 131 -153.92 -156.98 REMARK 500 TYR A 131 -153.92 -159.26 REMARK 500 HIS A 256 -78.11 78.75 REMARK 500 ASP A 307 -161.59 62.63 REMARK 500 ASN A 312 -63.00 -144.70 REMARK 500 THR A 348 -86.06 -128.67 REMARK 500 ALA A 395 -43.46 -131.88 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 70 NE2 REMARK 620 2 HIS A 72 NE2 103.7 REMARK 620 3 HIS A 219 NE2 90.0 102.3 REMARK 620 4 ASP A 307 OD1 90.2 91.0 166.2 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTA A 503 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGRC-019589 RELATED DB: TARGETTRACK DBREF 4F0R A 1 439 UNP Q7NZ90 Q7NZ90_CHRVO 1 439 SEQADV 4F0R GLU A 440 UNP Q7NZ90 EXPRESSION TAG SEQADV 4F0R GLY A 441 UNP Q7NZ90 EXPRESSION TAG SEQADV 4F0R HIS A 442 UNP Q7NZ90 EXPRESSION TAG SEQADV 4F0R HIS A 443 UNP Q7NZ90 EXPRESSION TAG SEQADV 4F0R HIS A 444 UNP Q7NZ90 EXPRESSION TAG SEQADV 4F0R HIS A 445 UNP Q7NZ90 EXPRESSION TAG SEQADV 4F0R HIS A 446 UNP Q7NZ90 EXPRESSION TAG SEQADV 4F0R HIS A 447 UNP Q7NZ90 EXPRESSION TAG SEQRES 1 A 447 MSE PRO GLN SER ARG TYR GLU LYS ILE ILE SER ALA ARG SEQRES 2 A 447 TRP ILE ILE THR VAL GLU THR ASP GLY GLU VAL LEU GLU SEQRES 3 A 447 ASN HIS ALA ILE ALA ILE ARG ASP GLY LYS ILE ALA ALA SEQRES 4 A 447 ILE ILE PRO ALA ALA ASP ALA ALA GLY LEU GLU ALA ASP SEQRES 5 A 447 GLU ARG LEU GLU LEU PRO ASP HIS VAL LEU MSE PRO GLY SEQRES 6 A 447 LEU ILE ASN LEU HIS GLY HIS SER ALA MSE SER LEU LEU SEQRES 7 A 447 ARG GLY LEU ALA ASP ASP LYS ALA LEU MSE ASP TRP LEU SEQRES 8 A 447 THR ASN TYR ILE TRP PRO THR GLU GLY LYS HIS VAL HIS SEQRES 9 A 447 ASP ASP PHE VAL PHE ASP GLY SER LEU LEU ALA MSE GLY SEQRES 10 A 447 GLU MSE ILE ARG GLY GLY THR THR THR ILE ASN ASP MSE SEQRES 11 A 447 TYR PHE TYR ASN ALA ALA VAL ALA ARG ALA GLY LEU ALA SEQRES 12 A 447 SER GLY MSE ARG THR PHE VAL GLY CYS SER ILE LEU GLU SEQRES 13 A 447 PHE PRO THR ASN TYR ALA SER ASN ALA ASP ASP TYR ILE SEQRES 14 A 447 ALA LYS GLY MSE ALA GLU ARG SER GLN PHE LEU GLY GLU SEQRES 15 A 447 ASP LEU LEU THR PHE THR LEU ALA PRO HIS ALA PRO TYR SEQRES 16 A 447 THR VAL SER ASP ASP THR PHE ARG LYS VAL VAL THR LEU SEQRES 17 A 447 ALA GLU GLN GLU ASP MSE LEU ILE HIS CYS HIS ILE HIS SEQRES 18 A 447 GLU THR ALA ASP GLU VAL ASN ASN SER VAL LYS GLU HIS SEQRES 19 A 447 GLY GLN ARG PRO LEU ALA ARG LEU GLN ARG LEU GLY LEU SEQRES 20 A 447 LEU SER PRO ARG LEU VAL ALA ALA HIS MSE VAL HIS LEU SEQRES 21 A 447 ASN ASP ALA GLU VAL GLU LEU ALA ALA ARG HIS GLY LEU SEQRES 22 A 447 SER THR ALA HIS ASN PRO ALA SER ASN MSE LYS LEU ALA SEQRES 23 A 447 SER GLY ILE SER PRO VAL SER LYS LEU MSE ASP ALA GLY SEQRES 24 A 447 VAL ALA VAL GLY ILE GLY THR ASP GLY ALA ALA SER ASN SEQRES 25 A 447 ASN LYS LEU ASP MSE LEU ALA GLU THR ARG LEU ALA ALA SEQRES 26 A 447 LEU LEU ALA LYS VAL GLY THR LEU ASP PRO THR SER VAL SEQRES 27 A 447 PRO ALA ALA ALA ALA ILE ARG MSE ALA THR LEU ASN GLY SEQRES 28 A 447 ALA ARG ALA LEU GLY ILE ALA ASP LYS VAL GLY SER VAL SEQRES 29 A 447 LYS VAL GLY LYS GLN ALA ASP LEU ILE ALA LEU ASP LEU SEQRES 30 A 447 ALA GLN LEU GLU THR ALA PRO ALA PHE ASP PRO ILE SER SEQRES 31 A 447 HIS VAL VAL TYR ALA ALA GLY ARG GLU GLN VAL SER HIS SEQRES 32 A 447 VAL TRP VAL LYS GLY ARG ALA LEU MSE ARG GLU ARG LYS SEQRES 33 A 447 LEU THR THR LEU ASP GLU SER ASP LEU LYS ALA ARG ALA SEQRES 34 A 447 GLY ASP TRP ARG ASN ARG ILE LEU ALA LYS GLU GLY HIS SEQRES 35 A 447 HIS HIS HIS HIS HIS MODRES 4F0R MSE A 63 MET SELENOMETHIONINE MODRES 4F0R MSE A 75 MET SELENOMETHIONINE MODRES 4F0R MSE A 88 MET SELENOMETHIONINE MODRES 4F0R MSE A 116 MET SELENOMETHIONINE MODRES 4F0R MSE A 119 MET SELENOMETHIONINE MODRES 4F0R MSE A 130 MET SELENOMETHIONINE MODRES 4F0R MSE A 146 MET SELENOMETHIONINE MODRES 4F0R MSE A 173 MET SELENOMETHIONINE MODRES 4F0R MSE A 214 MET SELENOMETHIONINE MODRES 4F0R MSE A 257 MET SELENOMETHIONINE MODRES 4F0R MSE A 283 MET SELENOMETHIONINE MODRES 4F0R MSE A 296 MET SELENOMETHIONINE MODRES 4F0R MSE A 317 MET SELENOMETHIONINE MODRES 4F0R MSE A 346 MET SELENOMETHIONINE MODRES 4F0R MSE A 412 MET SELENOMETHIONINE HET MSE A 63 8 HET MSE A 75 8 HET MSE A 88 8 HET MSE A 116 8 HET MSE A 119 8 HET MSE A 130 16 HET MSE A 146 8 HET MSE A 173 8 HET MSE A 214 8 HET MSE A 257 8 HET MSE A 283 8 HET MSE A 296 8 HET MSE A 317 8 HET MSE A 346 8 HET MSE A 412 8 HET ZN A 501 1 HET GOL A 502 6 HET MTA A 503 20 HETNAM MSE SELENOMETHIONINE HETNAM ZN ZINC ION HETNAM GOL GLYCEROL HETNAM MTA 5'-DEOXY-5'-METHYLTHIOADENOSINE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 15(C5 H11 N O2 SE) FORMUL 2 ZN ZN 2+ FORMUL 3 GOL C3 H8 O3 FORMUL 4 MTA C11 H15 N5 O3 S FORMUL 5 HOH *325(H2 O) HELIX 1 1 ALA A 43 ALA A 47 1 5 HELIX 2 2 HIS A 72 ARG A 79 5 8 HELIX 3 3 ALA A 86 TYR A 94 1 9 HELIX 4 4 TYR A 94 VAL A 103 1 10 HELIX 5 5 HIS A 104 GLY A 122 1 19 HELIX 6 6 TYR A 133 GLY A 145 1 13 HELIX 7 7 ASN A 164 GLN A 178 1 15 HELIX 8 8 ALA A 193 VAL A 197 5 5 HELIX 9 9 SER A 198 ASP A 213 1 16 HELIX 10 10 THR A 223 GLY A 235 1 13 HELIX 11 11 ARG A 237 GLY A 246 1 10 HELIX 12 12 ASN A 261 GLY A 272 1 12 HELIX 13 13 ASN A 278 LEU A 285 1 8 HELIX 14 14 PRO A 291 ALA A 298 1 8 HELIX 15 15 GLY A 308 ASN A 312 5 5 HELIX 16 16 ASP A 316 LEU A 333 1 18 HELIX 17 17 PRO A 339 THR A 348 1 10 HELIX 18 18 THR A 348 LEU A 355 1 8 HELIX 19 19 GLN A 379 ALA A 383 5 5 HELIX 20 20 ASP A 387 ALA A 395 1 9 HELIX 21 21 GLY A 397 GLU A 399 5 3 HELIX 22 22 ASP A 421 ALA A 438 1 18 SHEET 1 A 8 LYS A 36 PRO A 42 0 SHEET 2 A 8 VAL A 24 ARG A 33 -1 N ALA A 31 O ALA A 38 SHEET 3 A 8 TYR A 6 ILE A 16 -1 N ILE A 10 O ILE A 30 SHEET 4 A 8 ALA A 51 PRO A 64 1 O LEU A 55 N SER A 11 SHEET 5 A 8 LEU A 372 ASP A 376 -1 O ILE A 373 N MSE A 63 SHEET 6 A 8 VAL A 401 VAL A 406 -1 O SER A 402 N ALA A 374 SHEET 7 A 8 ARG A 409 ARG A 413 -1 O LEU A 411 N VAL A 404 SHEET 8 A 8 LYS A 416 LEU A 417 -1 O LYS A 416 N ARG A 413 SHEET 1 B 4 LEU A 66 GLY A 71 0 SHEET 2 B 4 THR A 124 ASP A 129 1 O ASN A 128 N ASN A 68 SHEET 3 B 4 ARG A 147 ILE A 154 1 O PHE A 149 N ILE A 127 SHEET 4 B 4 LEU A 185 PRO A 191 1 O THR A 188 N VAL A 150 SHEET 1 C 4 ILE A 216 ILE A 220 0 SHEET 2 C 4 LEU A 252 HIS A 256 1 O VAL A 253 N ILE A 216 SHEET 3 C 4 SER A 274 HIS A 277 1 O SER A 274 N ALA A 254 SHEET 4 C 4 ALA A 301 ILE A 304 1 O GLY A 303 N THR A 275 LINK C LEU A 62 N MSE A 63 1555 1555 1.33 LINK C MSE A 63 N PRO A 64 1555 1555 1.35 LINK C ALA A 74 N MSE A 75 1555 1555 1.35 LINK C MSE A 75 N SER A 76 1555 1555 1.33 LINK C LEU A 87 N MSE A 88 1555 1555 1.33 LINK C MSE A 88 N ASP A 89 1555 1555 1.34 LINK C ALA A 115 N MSE A 116 1555 1555 1.33 LINK C MSE A 116 N GLY A 117 1555 1555 1.34 LINK C GLU A 118 N MSE A 119 1555 1555 1.32 LINK C MSE A 119 N ILE A 120 1555 1555 1.33 LINK C ASP A 129 N AMSE A 130 1555 1555 1.32 LINK C ASP A 129 N BMSE A 130 1555 1555 1.34 LINK C AMSE A 130 N TYR A 131 1555 1555 1.33 LINK C BMSE A 130 N TYR A 131 1555 1555 1.35 LINK C GLY A 145 N MSE A 146 1555 1555 1.35 LINK C MSE A 146 N ARG A 147 1555 1555 1.31 LINK C GLY A 172 N MSE A 173 1555 1555 1.34 LINK C MSE A 173 N ALA A 174 1555 1555 1.33 LINK C ASP A 213 N MSE A 214 1555 1555 1.33 LINK C MSE A 214 N LEU A 215 1555 1555 1.34 LINK C HIS A 256 N MSE A 257 1555 1555 1.33 LINK C MSE A 257 N VAL A 258 1555 1555 1.33 LINK C ASN A 282 N MSE A 283 1555 1555 1.33 LINK C MSE A 283 N LYS A 284 1555 1555 1.33 LINK C LEU A 295 N MSE A 296 1555 1555 1.34 LINK C MSE A 296 N ASP A 297 1555 1555 1.33 LINK C ASP A 316 N MSE A 317 1555 1555 1.34 LINK C MSE A 317 N LEU A 318 1555 1555 1.34 LINK C ARG A 345 N MSE A 346 1555 1555 1.33 LINK C MSE A 346 N ALA A 347 1555 1555 1.36 LINK C LEU A 411 N MSE A 412 1555 1555 1.32 LINK C MSE A 412 N ARG A 413 1555 1555 1.33 LINK NE2 HIS A 70 ZN ZN A 501 1555 1555 2.01 LINK NE2 HIS A 72 ZN ZN A 501 1555 1555 2.02 LINK NE2 HIS A 219 ZN ZN A 501 1555 1555 2.17 LINK OD1 ASP A 307 ZN ZN A 501 1555 1555 2.09 CISPEP 1 ASN A 312 ASN A 313 0 0.63 CISPEP 2 ALA A 383 PRO A 384 0 -6.16 SITE 1 AC1 4 HIS A 70 HIS A 72 HIS A 219 ASP A 307 SITE 1 AC2 8 ASP A 84 LYS A 85 TRP A 90 LYS A 284 SITE 2 AC2 8 LEU A 285 ALA A 310 SER A 311 HOH A 605 SITE 1 AC3 10 HIS A 72 TRP A 96 GLU A 99 MSE A 130 SITE 2 AC3 10 TYR A 131 PHE A 132 SER A 153 PHE A 157 SITE 3 AC3 10 HIS A 192 LYS A 232 CRYST1 101.152 101.152 88.623 90.00 90.00 90.00 P 41 21 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 0.009886 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009886 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011284 0.00000