HEADER CHAPERONE, METAL BINDING PROTEIN 08-MAY-07 2Z1C TITLE CRYSTAL STRUCTURE OF HYPC FROM THERMOCOCCUS KODAKARAENSIS KOD1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYDROGENASE EXPRESSION/FORMATION PROTEIN HYPC; COMPND 3 CHAIN: A, B, C; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOCOCCUS KODAKARENSIS; SOURCE 3 ORGANISM_TAXID: 69014; SOURCE 4 STRAIN: KOD1; SOURCE 5 GENE: HYPC; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET21A(+) KEYWDS [NIFE] HYDROGENASE MATURATION, OB-FOLD, CHAPERONE, METAL BINDING KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.WATANABE,R.MATSUMI,T.ARAI,H.ATOMI,T.IMANAKA,K.MIKI REVDAT 4 13-MAR-24 2Z1C 1 REMARK REVDAT 3 13-JUL-11 2Z1C 1 VERSN REVDAT 2 24-FEB-09 2Z1C 1 VERSN REVDAT 1 17-JUL-07 2Z1C 0 JRNL AUTH S.WATANABE,R.MATSUMI,T.ARAI,H.ATOMI,T.IMANAKA,K.MIKI JRNL TITL CRYSTAL STRUCTURES OF [NIFE] HYDROGENASE MATURATION PROTEINS JRNL TITL 2 HYPC, HYPD, AND HYPE: INSIGHTS INTO CYANATION REACTION BY JRNL TITL 3 THIOL REDOX SIGNALING JRNL REF MOL.CELL V. 27 29 2007 JRNL REFN ISSN 1097-2765 JRNL PMID 17612488 JRNL DOI 10.1016/J.MOLCEL.2007.05.039 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.18 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 3 NUMBER OF REFLECTIONS : 21030 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) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.222 REMARK 3 FREE R VALUE : 0.246 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1045 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) : 1380 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.15 REMARK 3 BIN R VALUE (WORKING SET) : 0.2340 REMARK 3 BIN FREE R VALUE SET COUNT : 74 REMARK 3 BIN FREE R VALUE : 0.2690 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1601 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 19 REMARK 3 SOLVENT ATOMS : 106 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 31.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.43 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.98000 REMARK 3 B22 (A**2) : 2.52000 REMARK 3 B33 (A**2) : -1.16000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.57000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.149 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.134 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.096 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.145 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.939 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.929 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1647 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2229 ; 1.331 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 211 ; 5.110 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 58 ;35.404 ;25.517 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 269 ;16.608 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 5 ;11.393 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 260 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1200 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 725 ; 0.210 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1110 ; 0.307 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 104 ; 0.130 ; 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): 54 ; 0.204 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 14 ; 0.183 ; 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): 1087 ; 0.749 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1706 ; 1.220 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 629 ; 2.268 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 523 ; 3.700 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 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 3 A 72 REMARK 3 ORIGIN FOR THE GROUP (A): 24.8681 8.3700 35.8536 REMARK 3 T TENSOR REMARK 3 T11: -0.1618 T22: -0.2289 REMARK 3 T33: -0.2506 T12: 0.0706 REMARK 3 T13: -0.0277 T23: 0.0022 REMARK 3 L TENSOR REMARK 3 L11: 5.0510 L22: 3.0967 REMARK 3 L33: 5.8446 L12: -2.6275 REMARK 3 L13: -2.0812 L23: 0.7008 REMARK 3 S TENSOR REMARK 3 S11: -0.0437 S12: -0.0392 S13: -0.2644 REMARK 3 S21: 0.0544 S22: -0.1593 S23: 0.0096 REMARK 3 S31: 0.3890 S32: 0.4216 S33: 0.2030 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 2 B 75 REMARK 3 ORIGIN FOR THE GROUP (A): 11.4826 29.8777 30.7015 REMARK 3 T TENSOR REMARK 3 T11: -0.1776 T22: -0.2655 REMARK 3 T33: -0.1636 T12: 0.0111 REMARK 3 T13: -0.0491 T23: 0.0411 REMARK 3 L TENSOR REMARK 3 L11: 11.1879 L22: 4.9150 REMARK 3 L33: 4.3541 L12: -4.4656 REMARK 3 L13: 1.0008 L23: -1.8564 REMARK 3 S TENSOR REMARK 3 S11: -0.3554 S12: 0.0912 S13: 0.6165 REMARK 3 S21: 0.2889 S22: 0.0525 S23: -0.5431 REMARK 3 S31: -0.3755 S32: 0.2346 S33: 0.3028 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 3 C 51 REMARK 3 ORIGIN FOR THE GROUP (A): -5.3717 20.5817 51.8628 REMARK 3 T TENSOR REMARK 3 T11: 0.3779 T22: 0.7643 REMARK 3 T33: 0.1148 T12: 0.4519 REMARK 3 T13: 0.2368 T23: 0.6533 REMARK 3 L TENSOR REMARK 3 L11: 16.9249 L22: 12.2695 REMARK 3 L33: 18.1589 L12: -2.2908 REMARK 3 L13: -8.5231 L23: 7.4772 REMARK 3 S TENSOR REMARK 3 S11: -0.9975 S12: -3.0185 S13: -1.0579 REMARK 3 S21: 1.6123 S22: 0.2268 S23: 0.2281 REMARK 3 S31: 1.2010 S32: 0.7803 S33: 0.7707 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 53 C 75 REMARK 3 ORIGIN FOR THE GROUP (A): 2.4745 14.9793 35.5922 REMARK 3 T TENSOR REMARK 3 T11: -0.1066 T22: -0.0716 REMARK 3 T33: 0.3633 T12: 0.0317 REMARK 3 T13: 0.0665 T23: 0.3064 REMARK 3 L TENSOR REMARK 3 L11: 18.1931 L22: 15.8413 REMARK 3 L33: 12.5089 L12: 3.2311 REMARK 3 L13: -6.1957 L23: -9.9815 REMARK 3 S TENSOR REMARK 3 S11: -0.1617 S12: -1.6843 S13: -2.4582 REMARK 3 S21: 0.4868 S22: 0.4297 S23: 1.2608 REMARK 3 S31: 0.5240 S32: -0.1522 S33: -0.2679 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 2Z1C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-MAY-07. REMARK 100 THE DEPOSITION ID IS D_1000027396. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-OCT-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NW12A 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 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21035 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.03500 REMARK 200 FOR THE DATA SET : 31.3000 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) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.8 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.21300 REMARK 200 FOR SHELL : 4.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIRAS REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M CITRATE ACID, PH 4.3-4.5, 100 REMARK 280 -600MM NABR, 17-20% PEG4000, 20% GLYCEROL, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293K, PH 4.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z 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 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 39.11850 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.56500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 39.11850 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 29.56500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 235 LIES ON A SPECIAL POSITION. 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 GLU A 73 REMARK 465 GLY A 74 REMARK 465 PHE A 75 REMARK 465 MET B 1 REMARK 465 MET C 1 REMARK 465 CYS C 2 REMARK 465 PRO C 38 REMARK 465 LYS C 52 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 26 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 70 CG CD CE NZ REMARK 470 GLU B 55 CG CD OE1 OE2 REMARK 470 GLU B 63 CG CD OE1 OE2 REMARK 470 LYS C 8 CG CD CE NZ REMARK 470 GLU C 11 CG CD OE1 OE2 REMARK 470 LEU C 32 CG CD1 CD2 REMARK 470 MET C 33 CG SD CE REMARK 470 ASP C 35 CG OD1 OD2 REMARK 470 LYS C 37 CG CD CE NZ REMARK 470 ASP C 40 CG OD1 OD2 REMARK 470 PHE C 48 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LEU C 53 CG CD1 CD2 REMARK 470 ASP C 54 CG OD1 OD2 REMARK 470 GLU C 55 CG CD OE1 OE2 REMARK 470 LYS C 56 CG CD CE NZ 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 GLU C 60 CD GLU C 60 OE1 0.071 REMARK 500 GLU C 60 CD GLU C 60 OE2 0.069 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 ASN C 13 60.85 -118.78 REMARK 500 THR C 46 26.34 47.79 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 PG4 B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 901 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2Z1D RELATED DB: PDB REMARK 900 RELATED ID: 2Z1E RELATED DB: PDB REMARK 900 RELATED ID: 2Z1F RELATED DB: PDB DBREF 2Z1C A 1 75 UNP Q5JII0 Q5JII0_PYRKO 1 75 DBREF 2Z1C B 1 75 UNP Q5JII0 Q5JII0_PYRKO 1 75 DBREF 2Z1C C 1 75 UNP Q5JII0 Q5JII0_PYRKO 1 75 SEQRES 1 A 75 MET CYS LEU ALA VAL PRO GLY LYS VAL ILE GLU VAL ASN SEQRES 2 A 75 GLY PRO VAL ALA VAL VAL ASP PHE GLY GLY VAL LYS ARG SEQRES 3 A 75 GLU VAL ARG LEU ASP LEU MET PRO ASP THR LYS PRO GLY SEQRES 4 A 75 ASP TRP VAL ILE VAL HIS THR GLY PHE ALA ILE GLU LYS SEQRES 5 A 75 LEU ASP GLU LYS LYS ALA MET GLU ILE LEU GLU ALA TRP SEQRES 6 A 75 ALA GLU VAL GLU LYS ALA MET GLU GLY PHE SEQRES 1 B 75 MET CYS LEU ALA VAL PRO GLY LYS VAL ILE GLU VAL ASN SEQRES 2 B 75 GLY PRO VAL ALA VAL VAL ASP PHE GLY GLY VAL LYS ARG SEQRES 3 B 75 GLU VAL ARG LEU ASP LEU MET PRO ASP THR LYS PRO GLY SEQRES 4 B 75 ASP TRP VAL ILE VAL HIS THR GLY PHE ALA ILE GLU LYS SEQRES 5 B 75 LEU ASP GLU LYS LYS ALA MET GLU ILE LEU GLU ALA TRP SEQRES 6 B 75 ALA GLU VAL GLU LYS ALA MET GLU GLY PHE SEQRES 1 C 75 MET CYS LEU ALA VAL PRO GLY LYS VAL ILE GLU VAL ASN SEQRES 2 C 75 GLY PRO VAL ALA VAL VAL ASP PHE GLY GLY VAL LYS ARG SEQRES 3 C 75 GLU VAL ARG LEU ASP LEU MET PRO ASP THR LYS PRO GLY SEQRES 4 C 75 ASP TRP VAL ILE VAL HIS THR GLY PHE ALA ILE GLU LYS SEQRES 5 C 75 LEU ASP GLU LYS LYS ALA MET GLU ILE LEU GLU ALA TRP SEQRES 6 C 75 ALA GLU VAL GLU LYS ALA MET GLU GLY PHE HET GOL A 901 6 HET PG4 B 502 13 HETNAM GOL GLYCEROL HETNAM PG4 TETRAETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 GOL C3 H8 O3 FORMUL 5 PG4 C8 H18 O5 FORMUL 6 HOH *106(H2 O) HELIX 1 1 ASP A 54 MET A 72 1 19 HELIX 2 2 ASP B 54 GLY B 74 1 21 HELIX 3 3 ASP C 54 GLU C 73 1 20 SHEET 1 A12 GLY A 7 ASN A 13 0 SHEET 2 A12 VAL A 16 PHE A 21 -1 O VAL A 16 N ASN A 13 SHEET 3 A12 VAL A 24 ARG A 29 -1 O VAL A 28 N ALA A 17 SHEET 4 A12 PHE A 48 LEU A 53 1 O ALA A 49 N ARG A 29 SHEET 5 A12 TRP A 41 HIS A 45 -1 N TRP A 41 O LEU A 53 SHEET 6 A12 GLY A 7 ASN A 13 -1 N GLY A 7 O VAL A 42 SHEET 7 A12 VAL B 24 ARG B 29 -1 O LYS B 25 N VAL A 12 SHEET 8 A12 PHE B 48 LEU B 53 1 O ALA B 49 N ARG B 29 SHEET 9 A12 TRP B 41 HIS B 45 -1 N ILE B 43 O ILE B 50 SHEET 10 A12 GLY B 7 ASN B 13 -1 N GLY B 7 O VAL B 42 SHEET 11 A12 VAL B 16 PHE B 21 -1 O ASP B 20 N LYS B 8 SHEET 12 A12 VAL B 24 ARG B 29 -1 O VAL B 24 N PHE B 21 SHEET 1 B 4 VAL C 24 ARG C 29 0 SHEET 2 B 4 VAL C 16 PHE C 21 -1 N ALA C 17 O VAL C 28 SHEET 3 B 4 GLY C 7 ASN C 13 -1 N ASN C 13 O VAL C 16 SHEET 4 B 4 TRP C 41 VAL C 42 -1 O VAL C 42 N GLY C 7 SHEET 1 C 2 VAL C 44 HIS C 45 0 SHEET 2 C 2 PHE C 48 ALA C 49 -1 O PHE C 48 N HIS C 45 SITE 1 AC1 9 GLY B 22 GLU B 69 MET B 72 GLU B 73 SITE 2 AC1 9 HOH B 293 TRP C 65 GLU C 69 MET C 72 SITE 3 AC1 9 GLU C 73 SITE 1 AC2 9 GLU A 11 ASN A 13 VAL A 16 ALA A 17 SITE 2 AC2 9 VAL A 18 GLU A 27 HOH A 213 HOH A 263 SITE 3 AC2 9 GLU C 63 CRYST1 78.237 59.130 53.973 90.00 109.01 90.00 C 1 2 1 12 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 0.012782 0.000000 0.004405 0.00000 SCALE2 0.000000 0.016912 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019597 0.00000