PDB Short entry for 4QBT HEADER LIGASE 08-MAY-14 4QBT TITLE CRYSTAL STRUCTURE OF TYROSINE BOUND HUMAN TYROSYL TRNA SYNTHETASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYROSINE--TRNA LIGASE, CYTOPLASMIC; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MINI TYRRS (UNP RESIDUES 1-364); COMPND 5 SYNONYM: TYROSYL-TRNA SYNTHETASE, TYRRS; COMPND 6 EC: 6.1.1.1; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: YARS; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TYROSINE, AMINOACYL TRNA SYNTHETASE, ROSSMAN FOLD, AMINOACID KEYWDS 2 ACTIVATION, TRNA, ESTER BOND, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR S.MATHEW,P.SCHIMMEL REVDAT 6 20-SEP-23 4QBT 1 REMARK SEQADV LINK REVDAT 5 17-JUL-19 4QBT 1 REMARK REVDAT 4 25-MAR-15 4QBT 1 JRNL REVDAT 3 14-JAN-15 4QBT 1 JRNL REVDAT 2 24-DEC-14 4QBT 1 TITLE REVDAT 1 17-DEC-14 4QBT 0 JRNL AUTH M.SAJISH,P.SCHIMMEL JRNL TITL A HUMAN TRNA SYNTHETASE IS A POTENT PARP1-ACTIVATING JRNL TITL 2 EFFECTOR TARGET FOR RESVERATROL. JRNL REF NATURE V. 519 370 2014 JRNL REFN ISSN 0028-0836 JRNL PMID 25533949 JRNL DOI 10.1038/NATURE14028 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.63 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 24513 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) : 0.216 REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1312 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1786 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.32 REMARK 3 BIN R VALUE (WORKING SET) : 0.2260 REMARK 3 BIN FREE R VALUE SET COUNT : 108 REMARK 3 BIN FREE R VALUE : 0.2760 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2630 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 47 REMARK 3 SOLVENT ATOMS : 176 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.98000 REMARK 3 B22 (A**2) : -1.66000 REMARK 3 B33 (A**2) : -1.32000 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): 0.214 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.197 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.144 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.593 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.942 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.913 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2732 ; 0.017 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2701 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3690 ; 2.008 ; 2.003 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6254 ; 0.868 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 329 ; 6.568 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 114 ;32.503 ;24.912 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 508 ;17.603 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;19.524 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 413 ; 0.104 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2957 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 564 ; 0.001 ; 0.020 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 ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4QBT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-MAY-14. REMARK 100 THE DEPOSITION ID IS D_1000085856. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUN-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 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 : SIDE SCATTERING BENT CUBE-ROOT I REMARK 200 -BEAM SINGLE CRYSTAL, ASYMMETRIC REMARK 200 CUT 4.965 DEGREES REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24513 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 34.630 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.07800 REMARK 200 R SYM (I) : 0.07800 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.14 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.20 REMARK 200 R MERGE FOR SHELL (I) : 0.44700 REMARK 200 R SYM FOR SHELL (I) : 0.44100 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1Q11 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.1 M AMMONIUM SULFATE, 0.1 M SODIUM REMARK 280 PHOSPHATE MONOBASIC, PH 6-8, 2% ACETONE, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 295K, PH 7.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 37.62550 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 81.32050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 37.62550 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 81.32050 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29370 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -72.0 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 -1.000000 0.000000 0.000000 150.50200 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 759 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 GLY A 2 REMARK 465 ASP A 3 REMARK 465 SER A 221 REMARK 465 LYS A 222 REMARK 465 MET A 223 REMARK 465 SER A 224 REMARK 465 SER A 225 REMARK 465 SER A 226 REMARK 465 GLU A 227 REMARK 465 GLU A 228 REMARK 465 GLU A 229 REMARK 465 SER A 230 REMARK 465 ASP A 343 REMARK 465 PRO A 344 REMARK 465 SER A 345 REMARK 465 LYS A 346 REMARK 465 GLN A 347 REMARK 465 LYS A 348 REMARK 465 PRO A 349 REMARK 465 MET A 350 REMARK 465 ALA A 351 REMARK 465 LYS A 352 REMARK 465 GLY A 353 REMARK 465 PRO A 354 REMARK 465 ALA A 355 REMARK 465 LYS A 356 REMARK 465 ASN A 357 REMARK 465 SER A 358 REMARK 465 GLU A 359 REMARK 465 PRO A 360 REMARK 465 GLU A 361 REMARK 465 GLU A 362 REMARK 465 VAL A 363 REMARK 465 ILE A 364 REMARK 465 LEU A 365 REMARK 465 GLU A 366 REMARK 465 HIS A 367 REMARK 465 HIS A 368 REMARK 465 HIS A 369 REMARK 465 HIS A 370 REMARK 465 HIS A 371 REMARK 465 HIS A 372 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 PRO A 86 C - N - CD ANGL. DEV. = -14.6 DEGREES REMARK 500 GLU A 88 N - CA - C ANGL. DEV. = -16.9 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 THR A 45 -118.06 -119.09 REMARK 500 LEU A 89 -8.80 104.97 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 K A 502 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 42 OG1 REMARK 620 2 ALA A 43 O 81.3 REMARK 620 3 TYR A 52 OH 80.6 130.8 REMARK 620 4 TYR A 97 OH 97.0 67.5 69.9 REMARK 620 5 HOH A 601 O 80.3 88.3 132.4 155.7 REMARK 620 6 HOH A 693 O 46.4 123.8 68.1 127.6 67.1 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TYR A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 509 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4Q93 RELATED DB: PDB DBREF 4QBT A 1 364 UNP P54577 SYYC_HUMAN 1 364 SEQADV 4QBT LEU A 365 UNP P54577 EXPRESSION TAG SEQADV 4QBT GLU A 366 UNP P54577 EXPRESSION TAG SEQADV 4QBT HIS A 367 UNP P54577 EXPRESSION TAG SEQADV 4QBT HIS A 368 UNP P54577 EXPRESSION TAG SEQADV 4QBT HIS A 369 UNP P54577 EXPRESSION TAG SEQADV 4QBT HIS A 370 UNP P54577 EXPRESSION TAG SEQADV 4QBT HIS A 371 UNP P54577 EXPRESSION TAG SEQADV 4QBT HIS A 372 UNP P54577 EXPRESSION TAG SEQRES 1 A 372 MET GLY ASP ALA PRO SER PRO GLU GLU LYS LEU HIS LEU SEQRES 2 A 372 ILE THR ARG ASN LEU GLN GLU VAL LEU GLY GLU GLU LYS SEQRES 3 A 372 LEU LYS GLU ILE LEU LYS GLU ARG GLU LEU LYS ILE TYR SEQRES 4 A 372 TRP GLY THR ALA THR THR GLY LYS PRO HIS VAL ALA TYR SEQRES 5 A 372 PHE VAL PRO MET SER LYS ILE ALA ASP PHE LEU LYS ALA SEQRES 6 A 372 GLY CYS GLU VAL THR ILE LEU PHE ALA ASP LEU HIS ALA SEQRES 7 A 372 TYR LEU ASP ASN MET LYS ALA PRO TRP GLU LEU LEU GLU SEQRES 8 A 372 LEU ARG VAL SER TYR TYR GLU ASN VAL ILE LYS ALA MET SEQRES 9 A 372 LEU GLU SER ILE GLY VAL PRO LEU GLU LYS LEU LYS PHE SEQRES 10 A 372 ILE LYS GLY THR ASP TYR GLN LEU SER LYS GLU TYR THR SEQRES 11 A 372 LEU ASP VAL TYR ARG LEU SER SER VAL VAL THR GLN HIS SEQRES 12 A 372 ASP SER LYS LYS ALA GLY ALA GLU VAL VAL LYS GLN VAL SEQRES 13 A 372 GLU HIS PRO LEU LEU SER GLY LEU LEU TYR PRO GLY LEU SEQRES 14 A 372 GLN ALA LEU ASP GLU GLU TYR LEU LYS VAL ASP ALA GLN SEQRES 15 A 372 PHE GLY GLY ILE ASP GLN ARG LYS ILE PHE THR PHE ALA SEQRES 16 A 372 GLU LYS TYR LEU PRO ALA LEU GLY TYR SER LYS ARG VAL SEQRES 17 A 372 HIS LEU MET ASN PRO MET VAL PRO GLY LEU THR GLY SER SEQRES 18 A 372 LYS MET SER SER SER GLU GLU GLU SER LYS ILE ASP LEU SEQRES 19 A 372 LEU ASP ARG LYS GLU ASP VAL LYS LYS LYS LEU LYS LYS SEQRES 20 A 372 ALA PHE CYS GLU PRO GLY ASN VAL GLU ASN ASN GLY VAL SEQRES 21 A 372 LEU SER PHE ILE LYS HIS VAL LEU PHE PRO LEU LYS SER SEQRES 22 A 372 GLU PHE VAL ILE LEU ARG ASP GLU LYS TRP GLY GLY ASN SEQRES 23 A 372 LYS THR TYR THR ALA TYR VAL ASP LEU GLU LYS ASP PHE SEQRES 24 A 372 ALA ALA GLU VAL VAL HIS PRO GLY ASP LEU LYS ASN SER SEQRES 25 A 372 VAL GLU VAL ALA LEU ASN LYS LEU LEU ASP PRO ILE ARG SEQRES 26 A 372 GLU LYS PHE ASN THR PRO ALA LEU LYS LYS LEU ALA SER SEQRES 27 A 372 ALA ALA TYR PRO ASP PRO SER LYS GLN LYS PRO MET ALA SEQRES 28 A 372 LYS GLY PRO ALA LYS ASN SER GLU PRO GLU GLU VAL ILE SEQRES 29 A 372 LEU GLU HIS HIS HIS HIS HIS HIS HET PO4 A 501 5 HET K A 502 1 HET GOL A 503 6 HET GOL A 504 6 HET SO4 A 505 5 HET TYR A 506 13 HET PO4 A 507 5 HET PO4 A 508 5 HET K A 509 1 HETNAM PO4 PHOSPHATE ION HETNAM K POTASSIUM ION HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETNAM TYR TYROSINE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 PO4 3(O4 P 3-) FORMUL 3 K 2(K 1+) FORMUL 4 GOL 2(C3 H8 O3) FORMUL 6 SO4 O4 S 2- FORMUL 7 TYR C9 H11 N O3 FORMUL 11 HOH *176(H2 O) HELIX 1 1 SER A 6 ARG A 16 1 11 HELIX 2 2 GLY A 23 ARG A 34 1 12 HELIX 3 3 HIS A 49 ALA A 51 5 3 HELIX 4 4 TYR A 52 ALA A 65 1 14 HELIX 5 5 ASP A 75 ASP A 81 1 7 HELIX 6 6 LEU A 90 ILE A 108 1 19 HELIX 7 7 THR A 121 TYR A 123 5 3 HELIX 8 8 SER A 126 SER A 138 1 13 HELIX 9 9 THR A 141 ALA A 150 1 10 HELIX 10 10 LEU A 160 LEU A 177 1 18 HELIX 11 11 GLN A 188 LEU A 199 1 12 HELIX 12 12 PRO A 200 GLY A 203 5 4 HELIX 13 13 ARG A 237 LYS A 247 1 11 HELIX 14 14 ASN A 258 VAL A 267 1 10 HELIX 15 15 VAL A 267 SER A 273 1 7 HELIX 16 16 ASP A 280 GLY A 284 5 5 HELIX 17 17 ALA A 291 ALA A 301 1 11 HELIX 18 18 HIS A 305 PHE A 328 1 24 HELIX 19 19 THR A 330 TYR A 341 1 12 SHEET 1 A 6 GLU A 20 LEU A 22 0 SHEET 2 A 6 VAL A 208 ASN A 212 -1 O HIS A 209 N LEU A 22 SHEET 3 A 6 ALA A 181 GLY A 185 1 N GLY A 184 O LEU A 210 SHEET 4 A 6 LYS A 37 ALA A 43 1 N TYR A 39 O PHE A 183 SHEET 5 A 6 GLU A 68 ALA A 74 1 O GLU A 68 N ILE A 38 SHEET 6 A 6 LEU A 115 LYS A 119 1 O LYS A 116 N ILE A 71 SHEET 1 B 2 PHE A 275 ILE A 277 0 SHEET 2 B 2 LYS A 287 TYR A 289 -1 O TYR A 289 N PHE A 275 LINK OG1 THR A 42 K K A 502 1555 1555 3.04 LINK O ALA A 43 K K A 502 1555 1555 2.74 LINK OH TYR A 52 K K A 502 1555 1555 2.72 LINK OH TYR A 97 K K A 502 1555 1555 3.08 LINK K K A 502 O HOH A 601 1555 1555 2.68 LINK K K A 502 O HOH A 693 1555 1555 3.30 LINK K K A 509 O HOH A 601 1555 1555 3.47 CISPEP 1 ALA A 4 PRO A 5 0 -4.11 SITE 1 AC1 6 HIS A 305 PRO A 306 GLY A 307 ASP A 308 SITE 2 AC1 6 HOH A 687 HOH A 689 SITE 1 AC2 6 THR A 42 ALA A 43 THR A 45 TYR A 52 SITE 2 AC2 6 TYR A 97 HOH A 601 SITE 1 AC3 2 HIS A 12 ARG A 16 SITE 1 AC4 4 SER A 126 LYS A 127 GLU A 128 LYS A 146 SITE 1 AC5 2 LYS A 26 ARG A 34 SITE 1 AC6 13 TYR A 39 GLY A 41 LEU A 72 ALA A 74 SITE 2 AC6 13 HIS A 77 VAL A 152 TYR A 166 GLN A 170 SITE 3 AC6 13 ASP A 173 GLN A 182 GLN A 188 HOH A 601 SITE 4 AC6 13 HOH A 622 SITE 1 AC7 3 LYS A 282 TRP A 283 HOH A 747 SITE 1 AC8 10 HIS A 49 VAL A 50 ALA A 51 GLY A 217 SITE 2 AC8 10 LEU A 218 THR A 219 LYS A 231 ILE A 232 SITE 3 AC8 10 HOH A 631 HOH A 684 SITE 1 AC9 1 THR A 45 CRYST1 75.251 162.641 35.422 90.00 90.00 90.00 P 21 21 2 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 0.013289 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006149 0.000000 0.00000 SCALE3 0.000000 0.000000 0.028231 0.00000