HEADER HYDROLASE, BIOSYNTHETIC PROTEIN 31-MAY-16 5K9G TITLE CRYSTAL STRUCTURE OF GTP CYCLOHYDROLASE-IB WITH TRIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: GTP CYCLOHYDROLASE FOLE2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: GTP CYCLOHYDROLASE 1B; COMPND 5 EC: 3.5.4.16; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NEISSERIA GONORRHOEAE (STRAIN ATCC 700825 / FA SOURCE 3 1090); SOURCE 4 ORGANISM_TAXID: 242231; SOURCE 5 STRAIN: ATCC 700825 / FA 1090; SOURCE 6 GENE: FOLE2, NGO0387; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDROLASE, BIOSYNTHETIC PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.ALVAREZ,B.STEC,M.A.SWAIRJO REVDAT 5 25-OCT-23 5K9G 1 REMARK REVDAT 4 01-FEB-23 5K9G 1 SPRSDE REVDAT 3 27-APR-22 5K9G 1 LINK REVDAT 2 10-JUL-19 5K9G 1 SPRSDE JRNL REMARK REVDAT 1 07-SEP-16 5K9G 0 SPRSDE 07-SEP-16 5K9G 3D1T JRNL AUTH N.PARANAGAMA,S.A.BONNETT,J.ALVAREZ,A.LUTHRA,B.STEC, JRNL AUTH 2 A.GUSTAFSON,D.IWATA-REUYL,M.A.SWAIRJO JRNL TITL MECHANISM AND CATALYTIC STRATEGY OF THE PROKARYOTIC-SPECIFIC JRNL TITL 2 GTP CYCLOHYDROLASE-IB. JRNL REF BIOCHEM.J. V. 474 1017 2017 JRNL REFN ESSN 1470-8728 JRNL PMID 28126741 JRNL DOI 10.1042/BCJ20161025 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH B.SANKARAN,S.A.BONNETT,K.SHAH,S.GABRIEL,R.REDDY,P.SCHIMMEL, REMARK 1 AUTH 2 D.A.RODIONOV,V.DE CRECY-LAGARD,J.D.HELMANN,D.IWATA-REUYL, REMARK 1 AUTH 3 M.A.SWAIRJO REMARK 1 TITL ZINC-INDEPENDENT FOLATE BIOSYNTHESIS: GENETIC, BIOCHEMICAL, REMARK 1 TITL 2 AND STRUCTURAL INVESTIGATIONS REVEAL NEW METAL DEPENDENCE REMARK 1 TITL 3 FOR GTP CYCLOHYDROLASE IB. REMARK 1 REF J.BACTERIOL. V. 191 6936 2009 REMARK 1 REFN ESSN 1098-5530 REMARK 1 PMID 19767425 REMARK 1 DOI 10.1128/JB.00287-09 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0107 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 68.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 39731 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) : 0.175 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2068 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2643 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.57 REMARK 3 BIN R VALUE (WORKING SET) : 0.2650 REMARK 3 BIN FREE R VALUE SET COUNT : 158 REMARK 3 BIN FREE R VALUE : 0.2960 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3841 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 45 REMARK 3 SOLVENT ATOMS : 383 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.03 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.33000 REMARK 3 B22 (A**2) : 0.62000 REMARK 3 B33 (A**2) : 1.70000 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): 0.150 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.143 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.105 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.630 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.955 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4112 ; 0.020 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5581 ; 1.992 ; 1.971 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 533 ; 6.963 ; 5.019 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 180 ;37.559 ;23.889 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 733 ;15.484 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;23.702 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 640 ; 0.173 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3070 ; 0.009 ; 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): 2009 ; 3.698 ; 3.869 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2523 ; 4.416 ; 5.776 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2103 ; 4.786 ; 4.277 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): 6517 ; 8.019 ;33.916 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: NULL REMARK 4 REMARK 4 5K9G COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1000221883. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-JUN-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL7-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97670 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 : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41832 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 68.160 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : 0.04700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 36.1700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.35500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.050 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: 3D1T REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: (PEG 6000, 10-16%), LICL (1-1.4 M), REMARK 280 TRIS (50 MM, PH 9.0) AND TRIS-CL (50 MM, PH 7.0). ENZYM SAMPLE REMARK 280 PREPARED AT 10 MG/ML IN 50 MM TRIS-HCL, 50 MM KCL, 1 MM DTT, PH REMARK 280 8.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K 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 57.00850 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 57.00850 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 46.35350 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 50.27850 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 46.35350 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 50.27850 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 57.00850 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 46.35350 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 50.27850 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 57.00850 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 46.35350 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 50.27850 REMARK 290 SMTRY3 8 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: 20680 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 100.55700 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 MET A 1 REMARK 465 ASN A 2 REMARK 465 ALA A 3 REMARK 465 ILE A 4 REMARK 465 ALA A 5 REMARK 465 ASP A 6 REMARK 465 VAL A 7 REMARK 465 GLN A 8 REMARK 465 SER A 9 REMARK 465 SER A 10 REMARK 465 ARG A 11 REMARK 465 ASP A 12 REMARK 465 MET B 1 REMARK 465 ASN B 2 REMARK 465 ALA B 3 REMARK 465 ILE B 4 REMARK 465 ALA B 5 REMARK 465 ASP B 6 REMARK 465 VAL B 7 REMARK 465 GLN B 8 REMARK 465 SER B 9 REMARK 465 SER B 10 REMARK 465 ARG B 11 REMARK 465 ASP B 12 REMARK 465 LEU B 13 REMARK 465 ARG B 14 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH B 565 O HOH B 593 1.79 REMARK 500 O HOH A 466 O HOH B 583 2.19 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 LEU A 90 CA - CB - CG ANGL. DEV. = -21.3 DEGREES REMARK 500 ARG B 62 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 LEU B 90 CA - CB - CG ANGL. DEV. = -17.1 DEGREES REMARK 500 VAL B 204 CG1 - CB - CG2 ANGL. DEV. = 12.1 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 GLU A 243 120.96 -34.96 REMARK 500 GLU B 243 122.96 -39.89 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 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 147 SG REMARK 620 2 HIS A 159 NE2 105.8 REMARK 620 3 GLU A 201 OE2 77.9 30.5 REMARK 620 4 HOH A 474 O 127.9 101.8 129.9 REMARK 620 5 HOH A 530 O 83.5 166.6 161.2 64.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 147 SG REMARK 620 2 HIS B 159 NE2 108.2 REMARK 620 3 GLU B 201 OE2 80.2 29.2 REMARK 620 4 TRS B 302 N 130.9 92.6 118.0 REMARK 620 5 TRS B 302 O3 87.8 163.7 167.0 73.7 REMARK 620 N 1 2 3 4 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 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TRS B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT B 309 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5K95 RELATED DB: PDB DBREF 5K9G A 1 257 UNP Q5F9K6 GCH4_NEIG1 1 257 DBREF 5K9G B 1 257 UNP Q5F9K6 GCH4_NEIG1 1 257 SEQRES 1 A 257 MET ASN ALA ILE ALA ASP VAL GLN SER SER ARG ASP LEU SEQRES 2 A 257 ARG ASN LEU PRO ILE ASN GLN VAL GLY ILE LYS ASP LEU SEQRES 3 A 257 ARG PHE PRO ILE THR LEU LYS THR ALA GLU GLY THR GLN SEQRES 4 A 257 SER THR VAL ALA ARG LEU THR MET THR VAL TYR LEU PRO SEQRES 5 A 257 ALA GLU GLN LYS GLY THR HIS MET SER ARG PHE VAL ALA SEQRES 6 A 257 LEU MET GLU GLN HIS THR GLU VAL LEU ASP PHE ALA GLN SEQRES 7 A 257 LEU HIS ARG LEU THR ALA GLU MET VAL ALA LEU LEU ASP SEQRES 8 A 257 SER ARG ALA GLY LYS ILE SER VAL SER PHE PRO PHE PHE SEQRES 9 A 257 ARG LYS LYS THR ALA PRO VAL SER GLY ILE ARG SER LEU SEQRES 10 A 257 LEU ASP TYR ASP VAL SER LEU THR GLY GLU MET LYS ASP SEQRES 11 A 257 GLY ALA TYR GLY HIS SER MET LYS VAL MET ILE PRO VAL SEQRES 12 A 257 THR SER LEU CYS PRO SNC SER LYS GLU ILE SER GLN TYR SEQRES 13 A 257 GLY ALA HIS ASN GLN ARG SER HIS VAL THR VAL SER LEU SEQRES 14 A 257 THR SER ASP ALA GLU VAL GLY ILE GLU GLU VAL ILE ASP SEQRES 15 A 257 TYR VAL GLU THR GLN ALA SER CYS GLN LEU TYR GLY LEU SEQRES 16 A 257 LEU LYS ARG PRO ASP GLU LYS TYR VAL THR GLU LYS ALA SEQRES 17 A 257 TYR GLU ASN PRO LYS PHE VAL GLU ASP MET VAL ARG ASP SEQRES 18 A 257 VAL ALA THR SER LEU ILE ALA ASP LYS ARG ILE LYS SER SEQRES 19 A 257 PHE VAL VAL GLU SER GLU ASN PHE GLU SER ILE HIS ASN SEQRES 20 A 257 HIS SER ALA TYR ALA TYR ILE ALA TYR PRO SEQRES 1 B 257 MET ASN ALA ILE ALA ASP VAL GLN SER SER ARG ASP LEU SEQRES 2 B 257 ARG ASN LEU PRO ILE ASN GLN VAL GLY ILE LYS ASP LEU SEQRES 3 B 257 ARG PHE PRO ILE THR LEU LYS THR ALA GLU GLY THR GLN SEQRES 4 B 257 SER THR VAL ALA ARG LEU THR MET THR VAL TYR LEU PRO SEQRES 5 B 257 ALA GLU GLN LYS GLY THR HIS MET SER ARG PHE VAL ALA SEQRES 6 B 257 LEU MET GLU GLN HIS THR GLU VAL LEU ASP PHE ALA GLN SEQRES 7 B 257 LEU HIS ARG LEU THR ALA GLU MET VAL ALA LEU LEU ASP SEQRES 8 B 257 SER ARG ALA GLY LYS ILE SER VAL SER PHE PRO PHE PHE SEQRES 9 B 257 ARG LYS LYS THR ALA PRO VAL SER GLY ILE ARG SER LEU SEQRES 10 B 257 LEU ASP TYR ASP VAL SER LEU THR GLY GLU MET LYS ASP SEQRES 11 B 257 GLY ALA TYR GLY HIS SER MET LYS VAL MET ILE PRO VAL SEQRES 12 B 257 THR SER LEU CYS PRO SNC SER LYS GLU ILE SER GLN TYR SEQRES 13 B 257 GLY ALA HIS ASN GLN ARG SER HIS VAL THR VAL SER LEU SEQRES 14 B 257 THR SER ASP ALA GLU VAL GLY ILE GLU GLU VAL ILE ASP SEQRES 15 B 257 TYR VAL GLU THR GLN ALA SER CYS GLN LEU TYR GLY LEU SEQRES 16 B 257 LEU LYS ARG PRO ASP GLU LYS TYR VAL THR GLU LYS ALA SEQRES 17 B 257 TYR GLU ASN PRO LYS PHE VAL GLU ASP MET VAL ARG ASP SEQRES 18 B 257 VAL ALA THR SER LEU ILE ALA ASP LYS ARG ILE LYS SER SEQRES 19 B 257 PHE VAL VAL GLU SER GLU ASN PHE GLU SER ILE HIS ASN SEQRES 20 B 257 HIS SER ALA TYR ALA TYR ILE ALA TYR PRO MODRES 5K9G SNC A 149 CYS MODIFIED RESIDUE MODRES 5K9G SNC B 149 CYS MODIFIED RESIDUE HET SNC A 149 8 HET SNC B 149 8 HET ZN A 301 1 HET EDO A 302 4 HET EDO A 303 4 HET ZN B 301 1 HET TRS B 302 8 HET EDO B 303 4 HET EDO B 304 4 HET EDO B 305 4 HET EDO B 306 4 HET EDO B 307 4 HET EDO B 308 4 HET FMT B 309 3 HETNAM SNC S-NITROSO-CYSTEINE HETNAM ZN ZINC ION HETNAM EDO 1,2-ETHANEDIOL HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM FMT FORMIC ACID HETSYN EDO ETHYLENE GLYCOL HETSYN TRS TRIS BUFFER FORMUL 1 SNC 2(C3 H6 N2 O3 S) FORMUL 3 ZN 2(ZN 2+) FORMUL 4 EDO 8(C2 H6 O2) FORMUL 7 TRS C4 H12 N O3 1+ FORMUL 14 FMT C H2 O2 FORMUL 15 HOH *383(H2 O) HELIX 1 AA1 MET A 60 HIS A 70 1 11 HELIX 2 AA2 ASP A 75 ASP A 91 1 17 HELIX 3 AA3 CYS A 147 SER A 154 1 8 HELIX 4 AA4 GLY A 176 THR A 186 1 11 HELIX 5 AA5 LYS A 197 ASN A 211 1 15 HELIX 6 AA6 PHE A 214 ASP A 229 1 16 HELIX 7 AA7 MET B 60 HIS B 70 1 11 HELIX 8 AA8 ASP B 75 LEU B 90 1 16 HELIX 9 AA9 CYS B 147 SER B 154 1 8 HELIX 10 AB1 GLY B 176 ALA B 188 1 13 HELIX 11 AB2 LYS B 197 ASN B 211 1 15 HELIX 12 AB3 PHE B 214 ALA B 228 1 15 SHEET 1 AA111 CYS A 190 GLN A 191 0 SHEET 2 AA111 ALA A 132 LEU A 146 -1 N THR A 144 O CYS A 190 SHEET 3 AA111 ARG A 115 LYS A 129 -1 N ASP A 121 O MET A 140 SHEET 4 AA111 ALA A 94 THR A 108 -1 N LYS A 107 O SER A 116 SHEET 5 AA111 GLY A 37 LEU A 51 -1 N THR A 46 O SER A 98 SHEET 6 AA111 ILE A 18 THR A 34 -1 N ILE A 30 O THR A 41 SHEET 7 AA111 SER B 249 TYR B 256 -1 O TYR B 251 N GLY A 22 SHEET 8 AA111 ILE B 232 ASN B 241 -1 N ASN B 241 O ALA B 250 SHEET 9 AA111 ASN B 160 SER B 171 -1 N HIS B 164 O GLU B 240 SHEET 10 AA111 ALA B 132 LEU B 146 -1 N ILE B 141 O VAL B 165 SHEET 11 AA111 CYS B 190 GLN B 191 -1 O CYS B 190 N THR B 144 SHEET 1 AA211 CYS A 190 GLN A 191 0 SHEET 2 AA211 ALA A 132 LEU A 146 -1 N THR A 144 O CYS A 190 SHEET 3 AA211 ASN A 160 SER A 171 -1 O VAL A 165 N ILE A 141 SHEET 4 AA211 ILE A 232 ASN A 241 -1 O VAL A 236 N SER A 168 SHEET 5 AA211 SER A 249 TYR A 256 -1 O ILE A 254 N VAL A 237 SHEET 6 AA211 ILE B 18 THR B 34 -1 O GLY B 22 N TYR A 251 SHEET 7 AA211 GLY B 37 LEU B 51 -1 O ALA B 43 N PHE B 28 SHEET 8 AA211 ALA B 94 THR B 108 -1 O SER B 98 N THR B 46 SHEET 9 AA211 ARG B 115 LYS B 129 -1 O SER B 116 N LYS B 107 SHEET 10 AA211 ALA B 132 LEU B 146 -1 O SER B 136 N THR B 125 SHEET 11 AA211 CYS B 190 GLN B 191 -1 O CYS B 190 N THR B 144 LINK C PRO A 148 N SNC A 149 1555 1555 1.35 LINK C SNC A 149 N SER A 150 1555 1555 1.36 LINK C PRO B 148 N SNC B 149 1555 1555 1.35 LINK C SNC B 149 N SER B 150 1555 1555 1.36 LINK SG CYS A 147 ZN ZN A 301 1555 1555 2.44 LINK NE2 HIS A 159 ZN ZN A 301 1555 1555 2.31 LINK OE2 GLU A 201 ZN ZN A 301 1555 4565 2.23 LINK ZN ZN A 301 O HOH A 474 1555 1555 2.66 LINK ZN ZN A 301 O HOH A 530 1555 4565 2.59 LINK SG CYS B 147 ZN ZN B 301 1555 1555 2.37 LINK NE2 HIS B 159 ZN ZN B 301 1555 1555 2.20 LINK OE2 GLU B 201 ZN ZN B 301 1555 4565 2.02 LINK ZN ZN B 301 N TRS B 302 1555 1555 2.02 LINK ZN ZN B 301 O3 TRS B 302 1555 1555 2.50 CISPEP 1 TYR A 256 PRO A 257 0 0.71 CISPEP 2 TYR B 256 PRO B 257 0 9.13 SITE 1 AC1 5 CYS A 147 HIS A 159 GLU A 201 HOH A 474 SITE 2 AC1 5 HOH A 530 SITE 1 AC2 7 PHE A 76 HIS A 135 SER A 136 LEU A 169 SITE 2 AC2 7 SER A 171 GLU A 174 VAL A 175 SITE 1 AC3 2 PHE A 76 HIS A 80 SITE 1 AC4 4 CYS B 147 HIS B 159 GLU B 201 TRS B 302 SITE 1 AC5 10 MET A 60 CYS B 147 HIS B 159 GLU B 201 SITE 2 AC5 10 GLU B 243 HIS B 246 ZN B 301 HOH B 405 SITE 3 AC5 10 HOH B 433 HOH B 535 SITE 1 AC6 7 PHE B 76 HIS B 135 SER B 136 MET B 137 SITE 2 AC6 7 LEU B 169 SER B 171 VAL B 175 SITE 1 AC7 7 SER B 168 LEU B 169 THR B 170 SER B 234 SITE 2 AC7 7 PHE B 235 HOH B 541 HOH B 589 SITE 1 AC8 5 LYS B 107 THR B 108 GLN B 191 TYR B 193 SITE 2 AC8 5 HOH B 517 SITE 1 AC9 5 THR B 125 GLU B 127 GLY B 134 SER B 136 SITE 2 AC9 5 THR B 170 SITE 1 AD1 3 LYS B 151 TYR B 156 TYR B 209 SITE 1 AD2 7 LYS B 33 THR B 34 PHE B 76 GLY B 176 SITE 2 AD2 7 ILE B 177 HOH B 417 HOH B 459 SITE 1 AD3 5 CYS B 147 HIS B 159 GLN B 161 ASN B 241 SITE 2 AD3 5 GLU B 243 CRYST1 92.707 100.557 114.017 90.00 90.00 90.00 C 2 2 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 0.010787 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009945 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008771 0.00000