HEADER LIGASE 10-FEB-09 2ZZF TITLE CRYSTAL STRUCTURE OF ALANYL-TRNA SYNTHETASE WITHOUT OLIGOMERIZATION TITLE 2 DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALANYL-TRNA SYNTHETASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ALANINE-TRNA LIGASE, ALARS; COMPND 5 EC: 6.1.1.7; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS HORIKOSHII; SOURCE 3 ORGANISM_TAXID: 53953; SOURCE 4 STRAIN: OT3; SOURCE 5 GENE: ALAS, PH0297, PH0297; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-CODONPLUS-RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET26 KEYWDS LIGASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.SOKABE,T.OSE,K.TOKUNAGA,A.NAKAMURA,O.NUREKI,M.YAO,I.TANAKA REVDAT 3 01-NOV-23 2ZZF 1 REMARK REVDAT 2 11-OCT-17 2ZZF 1 REMARK REVDAT 1 21-JUL-09 2ZZF 0 JRNL AUTH M.SOKABE,T.OSE,A.NAKAMURA,K.TOKUNAGA,O.NUREKI,M.YAO,I.TANAKA JRNL TITL THE STRUCTURE OF ALANYL-TRNA SYNTHETASE WITH EDITING DOMAIN. JRNL REF PROC.NATL.ACAD.SCI.USA V. 106 11028 2009 JRNL REFN ISSN 0027-8424 JRNL PMID 19549823 JRNL DOI 10.1073/PNAS.0904645106 REMARK 2 REMARK 2 RESOLUTION. 2.70 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.15 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 29902 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) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.263 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1506 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1807 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 85.86 REMARK 3 BIN R VALUE (WORKING SET) : 0.3360 REMARK 3 BIN FREE R VALUE SET COUNT : 87 REMARK 3 BIN FREE R VALUE : 0.4550 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5926 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 14 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 85.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 75.93 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.38000 REMARK 3 B22 (A**2) : 0.27000 REMARK 3 B33 (A**2) : -0.02000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.20000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.643 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.333 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.264 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 27.928 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.920 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6065 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8187 ; 1.454 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 725 ; 6.210 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 279 ;37.542 ;23.333 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1126 ;19.599 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 48 ;17.301 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 886 ; 0.106 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4539 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2589 ; 0.218 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4116 ; 0.313 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 166 ; 0.162 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.002 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 17 ; 0.152 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.124 ; 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): 3725 ; 0.674 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5881 ; 1.162 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2667 ; 1.566 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2306 ; 2.631 ; 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 : 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: USED TLS REFINEMENT REMARK 4 REMARK 4 2ZZF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 17-FEB-09. REMARK 100 THE DEPOSITION ID IS D_1000028618. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-DEC-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29921 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 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 (%) : 98.5 REMARK 200 DATA REDUNDANCY : 5.300 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 44.0590 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.28600 REMARK 200 R SYM FOR SHELL (I) : NULL 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: 1RIQ, 1V7O REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG6000, MES, SUCCINIC ACID, GLUCOSE, REMARK 280 PH 5.6, VAPOR DIFFUSION, TEMPERATURE 293K 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 82.12900 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.42000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 82.12900 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 49.42000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 ALA A 222 REMARK 465 PRO A 223 REMARK 465 GLU A 224 REMARK 465 ASN A 225 REMARK 465 ALA A 226 REMARK 465 PRO A 227 REMARK 465 GLN A 228 REMARK 465 ASP A 229 REMARK 465 GLN A 230 REMARK 465 VAL A 231 REMARK 465 VAL A 232 REMARK 465 VAL A 233 REMARK 465 ILE A 234 REMARK 465 LYS A 235 REMARK 465 GLY A 236 REMARK 465 GLU A 237 REMARK 465 LYS A 497 REMARK 465 GLU A 498 REMARK 465 GLU A 499 REMARK 465 LYS A 500 REMARK 465 GLY A 501 REMARK 465 GLU A 502 REMARK 465 GLU A 503 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 638 CA - CB - CG ANGL. DEV. = 16.6 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 ILE A 4 -84.78 -71.15 REMARK 500 VAL A 22 -62.61 -93.10 REMARK 500 LYS A 50 70.12 -152.85 REMARK 500 ALA A 99 141.55 -176.92 REMARK 500 ILE A 160 -71.38 -111.21 REMARK 500 TRP A 162 -143.84 -139.04 REMARK 500 ASN A 190 88.62 -152.97 REMARK 500 PRO A 191 146.42 -37.42 REMARK 500 GLN A 218 9.04 -157.26 REMARK 500 TYR A 239 -75.69 -36.74 REMARK 500 ILE A 240 119.40 146.96 REMARK 500 TYR A 273 -6.79 -57.30 REMARK 500 MET A 301 -14.90 -47.09 REMARK 500 ASP A 306 -100.87 69.32 REMARK 500 LEU A 307 -118.78 41.31 REMARK 500 SER A 359 -161.30 -177.05 REMARK 500 LYS A 362 -139.24 54.57 REMARK 500 THR A 426 -37.97 -32.89 REMARK 500 GLU A 448 -65.42 -123.50 REMARK 500 ILE A 449 100.35 76.43 REMARK 500 GLU A 473 91.27 -68.45 REMARK 500 LYS A 474 0.79 168.96 REMARK 500 GLU A 475 41.73 -159.56 REMARK 500 MET A 488 -76.01 -64.57 REMARK 500 VAL A 489 -39.93 -37.85 REMARK 500 VAL A 505 -26.30 64.45 REMARK 500 ASP A 506 117.73 164.44 REMARK 500 GLU A 508 -38.39 59.93 REMARK 500 LEU A 509 8.53 -65.34 REMARK 500 LYS A 511 -34.60 -34.57 REMARK 500 LYS A 538 -94.13 58.82 REMARK 500 THR A 559 -169.49 -124.03 REMARK 500 TYR A 694 58.26 -91.06 REMARK 500 TRP A 712 -52.89 -134.74 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 754 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 20 SG REMARK 620 2 CYS A 23 SG 103.0 REMARK 620 3 CYS A 37 SG 119.1 106.1 REMARK 620 4 CYS A 42 SG 109.4 118.0 102.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 753 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 613 NE2 REMARK 620 2 HIS A 617 NE2 90.3 REMARK 620 3 CYS A 717 SG 85.3 95.5 REMARK 620 N 1 2 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 753 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 754 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2ZZE RELATED DB: PDB REMARK 900 RELATED ID: 2ZZG RELATED DB: PDB DBREF 2ZZF A 1 752 UNP O58035 SYA_PYRHO 1 752 SEQRES 1 A 752 MET GLU PHE ILE MET LYS THR ARG MET PHE GLU GLU GLU SEQRES 2 A 752 GLY TRP ILE ARG LYS LYS CYS LYS VAL CYS GLY LYS PRO SEQRES 3 A 752 PHE TRP THR LEU ASP PRO ASP ARG GLU THR CYS GLY ASP SEQRES 4 A 752 PRO PRO CYS ASP GLU TYR GLN PHE ILE GLY LYS PRO GLY SEQRES 5 A 752 ILE PRO ARG LYS TYR THR LEU ASP GLU MET ARG GLU LYS SEQRES 6 A 752 PHE LEU ARG PHE PHE GLU LYS HIS GLU ILE TYR PRO HIS SEQRES 7 A 752 GLY ARG VAL LYS ARG TYR PRO VAL LEU PRO ARG TRP ARG SEQRES 8 A 752 ASP ASP VAL LEU LEU VAL GLY ALA SER ILE MET ASP PHE SEQRES 9 A 752 GLN PRO TRP VAL ILE SER GLY GLU ALA ASP PRO PRO ALA SEQRES 10 A 752 ASN PRO LEU VAL ILE SER GLN PRO SER ILE ARG PHE THR SEQRES 11 A 752 ASP ILE ASP ASN VAL GLY ILE THR GLY ARG HIS PHE THR SEQRES 12 A 752 ILE PHE GLU MET MET ALA HIS HIS ALA PHE ASN TYR PRO SEQRES 13 A 752 GLY LYS PRO ILE TYR TRP MET ASP GLU THR VAL GLU LEU SEQRES 14 A 752 ALA PHE GLU PHE PHE THR LYS GLU LEU LYS MET LYS PRO SEQRES 15 A 752 GLU ASP ILE THR PHE LYS GLU ASN PRO TRP ALA GLY GLY SEQRES 16 A 752 GLY ASN ALA GLY PRO ALA PHE GLU VAL LEU TYR ARG GLY SEQRES 17 A 752 LEU GLU VAL ALA THR LEU VAL PHE MET GLN TYR LYS LYS SEQRES 18 A 752 ALA PRO GLU ASN ALA PRO GLN ASP GLN VAL VAL VAL ILE SEQRES 19 A 752 LYS GLY GLU LYS TYR ILE PRO MET GLU THR LYS VAL VAL SEQRES 20 A 752 ASP THR GLY TYR GLY LEU GLU ARG LEU VAL TRP MET SER SEQRES 21 A 752 GLN GLY THR PRO THR ALA TYR ASP ALA VAL LEU GLY TYR SEQRES 22 A 752 VAL VAL GLU PRO LEU LYS LYS MET ALA GLY ILE GLU LYS SEQRES 23 A 752 ILE ASP GLU LYS ILE LEU MET GLU ASN SER ARG LEU ALA SEQRES 24 A 752 GLY MET PHE ASP ILE GLU ASP LEU GLY ASP LEU ARG TYR SEQRES 25 A 752 LEU ARG GLU GLN VAL ALA LYS ARG VAL GLY ILE THR VAL SEQRES 26 A 752 GLU GLU LEU GLU LYS ALA ILE ARG PRO TYR GLU LEU ILE SEQRES 27 A 752 TYR ALA ILE ALA ASP HIS THR LYS ALA LEU THR PHE MET SEQRES 28 A 752 LEU ALA ASP GLY VAL VAL PRO SER ASN VAL LYS ALA GLY SEQRES 29 A 752 TYR LEU ALA ARG LEU LEU ILE ARG LYS SER ILE ARG HIS SEQRES 30 A 752 LEU ARG GLU LEU GLY LEU GLU VAL PRO LEU SER GLU ILE SEQRES 31 A 752 VAL ALA LEU HIS ILE LYS GLU LEU HIS LYS THR PHE PRO SEQRES 32 A 752 GLU PHE LYS GLU MET GLU ASP ILE ILE LEU GLU MET ILE SEQRES 33 A 752 GLU LEU GLU GLU LYS LYS TYR ALA GLU THR LEU ARG ARG SEQRES 34 A 752 GLY SER ASP LEU VAL ARG ARG GLU ILE ALA LYS LEU LYS SEQRES 35 A 752 LYS LYS GLY ILE LYS GLU ILE PRO VAL GLU LYS LEU VAL SEQRES 36 A 752 THR PHE TYR GLU SER HIS GLY LEU THR PRO GLU ILE VAL SEQRES 37 A 752 LYS GLU ILE ALA GLU LYS GLU GLY VAL LYS VAL ASN ILE SEQRES 38 A 752 PRO ASP ASN PHE TYR SER MET VAL ALA LYS GLU ALA GLU SEQRES 39 A 752 ARG THR LYS GLU GLU LYS GLY GLU GLU LEU VAL ASP PHE SEQRES 40 A 752 GLU LEU LEU LYS ASP LEU PRO ASP THR ARG ARG LEU TYR SEQRES 41 A 752 TYR GLU ASP PRO PHE MET LYS GLU PHE ASP ALA LYS VAL SEQRES 42 A 752 LEU ARG VAL ILE LYS ASP TRP VAL ILE LEU ASP ALA THR SEQRES 43 A 752 ALA PHE TYR PRO GLU GLY GLY GLY GLN PRO TYR ASP THR SEQRES 44 A 752 GLY VAL LEU ILE VAL ASN GLY ARG GLU VAL LYS VAL THR SEQRES 45 A 752 ASN VAL GLN LYS VAL GLY LYS VAL ILE ILE HIS LYS VAL SEQRES 46 A 752 GLU ASP PRO GLY ALA PHE LYS GLU GLY MET ILE VAL HIS SEQRES 47 A 752 GLY LYS ILE ASP TRP LYS ARG ARG ILE GLN HIS MET ARG SEQRES 48 A 752 HIS HIS THR GLY THR HIS VAL LEU MET GLY ALA LEU VAL SEQRES 49 A 752 ARG VAL LEU GLY ARG HIS VAL TRP GLN ALA GLY SER GLN SEQRES 50 A 752 LEU THR THR ASP TRP ALA ARG LEU ASP ILE SER HIS TYR SEQRES 51 A 752 LYS ARG ILE SER GLU GLU GLU LEU LYS GLU ILE GLU MET SEQRES 52 A 752 LEU ALA ASN ARG ILE VAL MET GLU ASP ARG LYS VAL THR SEQRES 53 A 752 TRP GLU TRP LEU PRO ARG THR THR ALA GLU GLN LYS TYR SEQRES 54 A 752 GLY PHE ARG LEU TYR GLN GLY GLY VAL VAL PRO GLY ARG SEQRES 55 A 752 GLU ILE ARG VAL VAL LYS ILE GLU ASP TRP ASP VAL GLN SEQRES 56 A 752 ALA CYS GLY GLY THR HIS LEU PRO SER THR GLY LEU VAL SEQRES 57 A 752 GLY PRO ILE LYS ILE LEU ARG THR GLU ARG ILE GLN ASP SEQRES 58 A 752 GLY VAL GLU ARG ILE ILE PHE ALA CYS GLY GLU HET ZN A 753 1 HET ZN A 754 1 HETNAM ZN ZINC ION FORMUL 2 ZN 2(ZN 2+) FORMUL 4 HOH *14(H2 O) HELIX 1 1 THR A 7 GLU A 13 1 7 HELIX 2 2 THR A 58 LYS A 72 1 15 HELIX 3 3 ALA A 99 GLN A 105 5 7 HELIX 4 4 ASP A 131 VAL A 135 5 5 HELIX 5 5 TRP A 162 GLU A 177 1 16 HELIX 6 6 LYS A 181 GLU A 183 5 3 HELIX 7 7 LEU A 253 GLY A 262 1 10 HELIX 8 8 THR A 265 LEU A 271 1 7 HELIX 9 9 LEU A 271 GLY A 283 1 13 HELIX 10 10 ASP A 288 PHE A 302 1 15 HELIX 11 11 ASP A 309 GLY A 322 1 14 HELIX 12 12 THR A 324 ASP A 354 1 31 HELIX 13 13 VAL A 361 LEU A 381 1 21 HELIX 14 14 PRO A 386 HIS A 399 1 14 HELIX 15 15 PRO A 403 LYS A 443 1 41 HELIX 16 16 PRO A 450 GLY A 462 1 13 HELIX 17 17 THR A 464 GLU A 473 1 10 HELIX 18 18 ASN A 484 GLU A 492 1 9 HELIX 19 19 LEU A 519 ASP A 523 1 5 HELIX 20 20 ASP A 587 PHE A 591 5 5 HELIX 21 21 ASP A 602 GLY A 628 1 27 HELIX 22 22 SER A 654 ASP A 672 1 19 HELIX 23 23 ARG A 682 GLY A 690 1 9 HELIX 24 24 PHE A 691 TYR A 694 5 4 HELIX 25 25 THR A 725 GLY A 729 5 5 SHEET 1 A 9 ILE A 16 LYS A 19 0 SHEET 2 A 9 PRO A 26 THR A 29 -1 O THR A 29 N ILE A 16 SHEET 3 A 9 ILE A 185 GLU A 189 -1 O GLU A 189 N PRO A 26 SHEET 4 A 9 ALA A 201 TYR A 206 -1 O GLU A 203 N LYS A 188 SHEET 5 A 9 LEU A 209 LYS A 220 -1 O ALA A 212 N VAL A 204 SHEET 6 A 9 PRO A 241 GLY A 252 -1 O ASP A 248 N VAL A 215 SHEET 7 A 9 ILE A 144 ASN A 154 -1 N MET A 148 O TYR A 251 SHEET 8 A 9 LEU A 120 ILE A 127 -1 N GLN A 124 O MET A 147 SHEET 9 A 9 GLY A 79 ARG A 80 1 N GLY A 79 O VAL A 121 SHEET 1 B 7 ILE A 16 LYS A 19 0 SHEET 2 B 7 PRO A 26 THR A 29 -1 O THR A 29 N ILE A 16 SHEET 3 B 7 ILE A 185 GLU A 189 -1 O GLU A 189 N PRO A 26 SHEET 4 B 7 ALA A 201 TYR A 206 -1 O GLU A 203 N LYS A 188 SHEET 5 B 7 LEU A 209 LYS A 220 -1 O ALA A 212 N VAL A 204 SHEET 6 B 7 ASN A 197 GLY A 199 -1 N ALA A 198 O TYR A 219 SHEET 7 B 7 TRP A 192 ALA A 193 -1 N TRP A 192 O GLY A 199 SHEET 1 C 2 ARG A 517 ARG A 518 0 SHEET 2 C 2 ALA A 545 THR A 546 1 O THR A 546 N ARG A 517 SHEET 1 D 7 GLU A 528 ILE A 537 0 SHEET 2 D 7 TRP A 540 LEU A 543 -1 O ILE A 542 N LEU A 534 SHEET 3 D 7 VAL A 580 VAL A 585 -1 O HIS A 583 N VAL A 541 SHEET 4 D 7 GLU A 568 VAL A 577 -1 N GLN A 575 O ILE A 582 SHEET 5 D 7 GLY A 560 ILE A 563 -1 N GLY A 560 O VAL A 571 SHEET 6 D 7 ILE A 596 ILE A 601 -1 O LYS A 600 N VAL A 561 SHEET 7 D 7 GLU A 528 ILE A 537 -1 N ALA A 531 O VAL A 597 SHEET 1 E 4 GLN A 633 LEU A 638 0 SHEET 2 E 4 ALA A 643 SER A 648 -1 O ASP A 646 N GLY A 635 SHEET 3 E 4 VAL A 743 CYS A 750 -1 O GLU A 744 N ILE A 647 SHEET 4 E 4 ILE A 731 GLN A 740 -1 N GLU A 737 O ARG A 745 SHEET 1 F 3 VAL A 675 PRO A 681 0 SHEET 2 F 3 GLU A 703 ILE A 709 -1 O ILE A 704 N LEU A 680 SHEET 3 F 3 ASP A 713 ALA A 716 -1 O ASP A 713 N ILE A 709 LINK SG CYS A 20 ZN ZN A 754 1555 1555 2.36 LINK SG CYS A 23 ZN ZN A 754 1555 1555 2.27 LINK SG CYS A 37 ZN ZN A 754 1555 1555 2.62 LINK SG CYS A 42 ZN ZN A 754 1555 1555 2.10 LINK NE2 HIS A 613 ZN ZN A 753 1555 1555 2.06 LINK NE2 HIS A 617 ZN ZN A 753 1555 1555 2.23 LINK SG CYS A 717 ZN ZN A 753 1555 1555 2.77 CISPEP 1 PRO A 40 PRO A 41 0 2.64 CISPEP 2 GLN A 105 PRO A 106 0 -9.48 CISPEP 3 ASN A 118 PRO A 119 0 3.45 SITE 1 AC1 5 HIS A 613 HIS A 617 GLN A 715 CYS A 717 SITE 2 AC1 5 HOH A 759 SITE 1 AC2 4 CYS A 20 CYS A 23 CYS A 37 CYS A 42 CRYST1 164.258 98.840 72.927 90.00 108.64 90.00 C 1 2 1 4 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 0.006088 0.000000 0.002054 0.00000 SCALE2 0.000000 0.010117 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014472 0.00000