HEADER OXIDOREDUCTASE 24-NOV-09 3KT1 TITLE CRYSTAL STRUCTURE OF TPA1 FROM SACCHAROMYCES CEREVISIAE, A COMPONENT TITLE 2 OF THE MESSENGER RIBONUCLEOPROTEIN COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: PKHD-TYPE HYDROXYLASE TPA1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL TRUNCATED FORM (RESIDUES 21-644); COMPND 5 SYNONYM: TERMINATION AND POLYADENYLATION PROTEIN 1; COMPND 6 EC: 1.14.11.-; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: TPA1, YER049W; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSSETA2(DE3)PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21A(+) KEYWDS TPA1, DOUBLE-STRANDED BETA HELIX FOLD, DIOXYGENASE, IRON, MRNP KEYWDS 2 COMPLEX, PROLYL HYDROXYLASE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR H.S.KIM,H.L.KIM,K.H.KIM,D.J.KIM,S.J.LEE,J.Y.YOON,H.J.YOON,H.Y.LEE, AUTHOR 2 S.B.PARK,S.-J.KIM,J.Y.LEE,S.W.SUH REVDAT 4 13-NOV-24 3KT1 1 REMARK SEQADV LINK REVDAT 3 01-NOV-17 3KT1 1 REMARK REVDAT 2 26-FEB-14 3KT1 1 JRNL VERSN REVDAT 1 19-JAN-10 3KT1 0 JRNL AUTH H.S.KIM,H.L.KIM,K.H.KIM,D.J.KIM,S.J.LEE,J.Y.YOON,H.J.YOON, JRNL AUTH 2 H.Y.LEE,S.B.PARK,S.-J.KIM,J.Y.LEE,S.W.SUH JRNL TITL CRYSTAL STRUCTURE OF TPA1 FROM SACCHAROMYCES CEREVISIAE, A JRNL TITL 2 COMPONENT OF THE MESSENGER RIBONUCLEOPROTEIN COMPLEX JRNL REF NUCLEIC ACIDS RES. V. 38 2099 2010 JRNL REFN ISSN 0305-1048 JRNL PMID 20040577 JRNL DOI 10.1093/NAR/GKP1151 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 29786 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) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1505 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.56 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2024 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.89 REMARK 3 BIN R VALUE (WORKING SET) : 0.2040 REMARK 3 BIN FREE R VALUE SET COUNT : 105 REMARK 3 BIN FREE R VALUE : 0.2690 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4556 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 324 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.05000 REMARK 3 B22 (A**2) : -0.05000 REMARK 3 B33 (A**2) : 0.07000 REMARK 3 B12 (A**2) : -0.02000 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): 0.353 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.247 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.160 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.162 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.909 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4694 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6344 ; 1.209 ; 1.963 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 553 ; 6.122 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 229 ;33.610 ;24.672 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 846 ;17.757 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;16.915 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 675 ; 0.084 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3529 ; 0.004 ; 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): 2780 ; 0.538 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4504 ; 1.029 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1914 ; 1.211 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1840 ; 2.097 ; 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES: REFINED INDIVIDUALLY REMARK 4 REMARK 4 3KT1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-NOV-09. REMARK 100 THE DEPOSITION ID IS D_1000056411. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-JUN-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 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 : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29916 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : 16.40 REMARK 200 R MERGE (I) : 0.12500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.70 REMARK 200 R MERGE FOR SHELL (I) : 0.41700 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: SAD 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 (%): 58.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200MM LITHIUM SULFATE, 100MM TRIS-HCL, REMARK 280 25%(W/V) PEG 3350, 0.14MM FERROUS ASCORBATE, PH 8.5, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 287K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 3 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 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: 4130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 46650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 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 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 79.92100 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 S SO4 A 655 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 20 REMARK 465 LEU A 21 REMARK 465 GLU A 22 REMARK 465 GLU A 23 REMARK 465 SER A 269 REMARK 465 THR A 270 REMARK 465 LEU A 271 REMARK 465 ALA A 272 REMARK 465 GLN A 273 REMARK 465 ILE A 274 REMARK 465 GLU A 275 REMARK 465 SER A 276 REMARK 465 GLY A 306 REMARK 465 ASP A 307 REMARK 465 ALA A 308 REMARK 465 GLY A 309 REMARK 465 ALA A 310 REMARK 465 LYS A 311 REMARK 465 THR A 312 REMARK 465 ASP A 313 REMARK 465 ASN A 314 REMARK 465 THR A 315 REMARK 465 PRO A 316 REMARK 465 LYS A 317 REMARK 465 GLU A 318 REMARK 465 SER A 319 REMARK 465 MET A 320 REMARK 465 THR A 321 REMARK 465 SER A 322 REMARK 465 VAL A 323 REMARK 465 ILE A 324 REMARK 465 SER A 325 REMARK 465 ASP A 326 REMARK 465 SER A 327 REMARK 465 ASP A 561 REMARK 465 ASP A 562 REMARK 465 GLU A 563 REMARK 465 ASP A 564 REMARK 465 ASN A 565 REMARK 465 LYS A 566 REMARK 465 GLN A 567 REMARK 465 TYR A 568 REMARK 465 LEU A 569 REMARK 465 LYS A 570 REMARK 465 GLU A 571 REMARK 465 ASP A 572 REMARK 465 VAL A 573 REMARK 465 GLU A 574 REMARK 465 ASP A 575 REMARK 465 ALA A 576 REMARK 465 SER A 577 REMARK 465 VAL A 578 REMARK 465 TYR A 579 REMARK 465 ARG A 580 REMARK 465 ALA A 581 REMARK 465 ASP A 582 REMARK 465 ASP A 583 REMARK 465 SER A 584 REMARK 465 GLY A 585 REMARK 465 ASP A 636 REMARK 465 GLU A 637 REMARK 465 ASP A 638 REMARK 465 GLY A 639 REMARK 465 GLN A 640 REMARK 465 GLU A 641 REMARK 465 ASP A 642 REMARK 465 GLU A 643 REMARK 465 ALA A 644 REMARK 465 LEU A 645 REMARK 465 GLU A 646 REMARK 465 HIS A 647 REMARK 465 HIS A 648 REMARK 465 HIS A 649 REMARK 465 HIS A 650 REMARK 465 HIS A 651 REMARK 465 HIS A 652 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 A 855 O HOH A 856 1.68 REMARK 500 O HOH A 885 O HOH A 974 2.05 REMARK 500 CD2 HIS A 201 O HOH A 946 2.17 REMARK 500 NH1 ARG A 238 O HOH A 827 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 856 O HOH A 863 3455 1.96 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 ASP A 106 86.66 -151.16 REMARK 500 LEU A 107 39.95 -93.95 REMARK 500 ASN A 198 9.26 59.54 REMARK 500 PHE A 224 -38.85 -135.89 REMARK 500 SER A 369 62.69 37.21 REMARK 500 ALA A 456 88.26 -175.14 REMARK 500 SER A 457 -128.55 36.39 REMARK 500 MET A 509 -47.11 -132.57 REMARK 500 TYR A 614 131.60 -34.76 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 FE A 653 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 159 NE2 REMARK 620 2 ASP A 161 OD2 111.5 REMARK 620 3 HIS A 227 NE2 92.9 78.8 REMARK 620 4 HOH A 797 O 174.4 63.1 84.5 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 FE A 653 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 654 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 655 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 656 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 657 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 658 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3KT4 RELATED DB: PDB REMARK 900 RELATED ID: 3KT7 RELATED DB: PDB DBREF 3KT1 A 21 644 UNP P40032 TPA1_YEAST 21 644 SEQADV 3KT1 MET A 20 UNP P40032 EXPRESSION TAG SEQADV 3KT1 LEU A 645 UNP P40032 EXPRESSION TAG SEQADV 3KT1 GLU A 646 UNP P40032 EXPRESSION TAG SEQADV 3KT1 HIS A 647 UNP P40032 EXPRESSION TAG SEQADV 3KT1 HIS A 648 UNP P40032 EXPRESSION TAG SEQADV 3KT1 HIS A 649 UNP P40032 EXPRESSION TAG SEQADV 3KT1 HIS A 650 UNP P40032 EXPRESSION TAG SEQADV 3KT1 HIS A 651 UNP P40032 EXPRESSION TAG SEQADV 3KT1 HIS A 652 UNP P40032 EXPRESSION TAG SEQRES 1 A 633 MET LEU GLU GLU ASP LYS ILE LYS GLY MET PHE ASN PRO SEQRES 2 A 633 LYS ILE TRP ASP LYS THR PHE GLN ASP GLY LEU LYS LYS SEQRES 3 A 633 GLU ILE GLU ASP SER GLN PRO TYR ASN TRP GLY THR ILE SEQRES 4 A 633 HIS GLU LEU VAL ASN ASP ASP LEU LEU ARG ALA VAL ARG SEQRES 5 A 633 LYS GLU ILE GLU THR GLU ILE HIS PHE THR LYS LYS GLU SEQRES 6 A 633 THR ASP ILE TYR ARG VAL ASN GLN SER GLY ASP LEU ALA SEQRES 7 A 633 ASN LEU SER GLY LEU ASP TRP ASP ASP LEU SER ARG LEU SEQRES 8 A 633 PRO ASN LEU PHE LYS LEU ARG GLN ILE LEU TYR SER LYS SEQRES 9 A 633 GLN TYR ARG ASP PHE PHE GLY TYR VAL THR LYS ALA GLY SEQRES 10 A 633 LYS LEU SER GLY SER LYS THR ASP MET SER ILE ASN THR SEQRES 11 A 633 TYR THR LYS GLY CYS HIS LEU LEU THR HIS ASP ASP VAL SEQRES 12 A 633 ILE GLY SER ARG ARG ILE SER PHE ILE LEU TYR LEU PRO SEQRES 13 A 633 ASP PRO ASP ARG LYS TRP LYS SER HIS TYR GLY GLY GLY SEQRES 14 A 633 LEU ARG LEU PHE PRO SER ILE LEU PRO ASN VAL PRO HIS SEQRES 15 A 633 SER ASP PRO SER ALA LYS LEU VAL PRO GLN PHE ASN GLN SEQRES 16 A 633 ILE ALA PHE PHE LYS VAL LEU PRO GLY PHE SER PHE HIS SEQRES 17 A 633 ASP VAL GLU GLU VAL LYS VAL ASP LYS HIS ARG LEU SER SEQRES 18 A 633 ILE GLN GLY TRP TYR HIS ILE PRO GLN VAL GLY GLU GLU SEQRES 19 A 633 GLY TYR ILE PRO GLY GLU GLU GLU ALA TRP VAL ARG ASN SEQRES 20 A 633 ASN THR SER THR LEU ALA GLN ILE GLU SER ASN VAL LEU SEQRES 21 A 633 GLU ASP PHE GLU PHE PRO LYS ASP GLU ARG ASN ILE LEU SEQRES 22 A 633 SER PHE HIS GLU VAL LYS HIS PHE GLU LYS MET LEU LYS SEQRES 23 A 633 GLY ASP ALA GLY ALA LYS THR ASP ASN THR PRO LYS GLU SEQRES 24 A 633 SER MET THR SER VAL ILE SER ASP SER VAL LYS LEU SER SEQRES 25 A 633 GLU ALA GLU PHE THR TYR LEU SER GLN TYR ILE SER PRO SEQRES 26 A 633 GLU HIS LEU SER SER LYS GLY ILE GLU LYS LEU GLN LYS SEQRES 27 A 633 GLN PHE VAL GLU ASN SER SER LEU GLN ILE GLU SER PHE SEQRES 28 A 633 LEU ASN ASP ASP LYS SER GLU LEU LEU LYS LYS VAL ILE SEQRES 29 A 633 LYS GLN LYS GLU LEU GLU GLN GLU CYS PRO TYR HIS SER SEQRES 30 A 633 LYS ASP VAL LYS ALA PRO TRP LYS THR ALA ILE PRO PRO SEQRES 31 A 633 HIS LYS ALA ARG TYR LEU TYR ILE ASP GLY LYS GLU TYR SEQRES 32 A 633 ARG ASN PHE GLN THR GLU ALA ASP ILE LEU GLU ALA LEU SEQRES 33 A 633 ASN ASN ASN ASP LEU PRO ASN PHE GLN PHE THR LYS ASP SEQRES 34 A 633 ALA ILE LYS ILE ILE SER ASP ALA SER GLY ASN SER ARG SEQRES 35 A 633 GLU ASN ASN PHE ASP ALA GLU LEU ALA LEU ILE ASP LEU SEQRES 36 A 633 ALA VAL PHE HIS LYS SER THR ILE PHE LYS LYS TYR LEU SEQRES 37 A 633 ALA LEU LEU THR SER LEU CYS PRO VAL SER GLU GLN ILE SEQRES 38 A 633 LEU ILE ARG ARG PHE ARG PRO GLY MET ASP PHE THR LEU SEQRES 39 A 633 ALA THR LYS CYS ARG PHE ASN GLU LEU LEU LYS SER ASN SEQRES 40 A 633 PRO ASP ILE ILE ASP ALA VAL LEU GLU GLY THR LEU CYS SEQRES 41 A 633 LEU THR PRO SER ALA GLY TRP GLU SER GLY GLU LEU GLY SEQRES 42 A 633 GLY TYR GLU LEU TYR MET MET ASP ASP ASP GLU ASP ASN SEQRES 43 A 633 LYS GLN TYR LEU LYS GLU ASP VAL GLU ASP ALA SER VAL SEQRES 44 A 633 TYR ARG ALA ASP ASP SER GLY ASP SER VAL LEU ILE ASN SEQRES 45 A 633 ASP PRO PRO ALA TRP ASN THR PHE ASN LEU VAL LEU ARG SEQRES 46 A 633 ASP GLU SER VAL LEU GLU PHE VAL LYS TYR VAL SER TRP SEQRES 47 A 633 SER ALA LYS SER SER ARG TRP ASP VAL LYS MET LYS TRP SEQRES 48 A 633 ASP VAL LYS SER CYS ASP GLU ASP GLY GLN GLU ASP GLU SEQRES 49 A 633 ALA LEU GLU HIS HIS HIS HIS HIS HIS HET FE A 653 1 HET SO4 A 654 5 HET SO4 A 655 5 HET SO4 A 656 5 HET SO4 A 657 5 HET GOL A 658 6 HETNAM FE FE (III) ION HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 FE FE 3+ FORMUL 3 SO4 4(O4 S 2-) FORMUL 7 GOL C3 H8 O3 FORMUL 8 HOH *324(H2 O) HELIX 1 1 ILE A 26 PHE A 30 5 5 HELIX 2 2 ASN A 31 TRP A 35 5 5 HELIX 3 3 ASP A 36 ASP A 49 1 14 HELIX 4 4 ASN A 63 ILE A 78 1 16 HELIX 5 5 LEU A 110 TYR A 121 1 12 HELIX 6 6 SER A 122 THR A 133 1 12 HELIX 7 7 LYS A 182 GLY A 186 5 5 HELIX 8 8 GLY A 258 ASN A 266 1 9 HELIX 9 9 ASN A 267 THR A 268 5 2 HELIX 10 10 ASN A 277 GLU A 283 5 7 HELIX 11 11 SER A 293 LEU A 304 1 12 HELIX 12 12 SER A 331 SER A 339 1 9 HELIX 13 13 SER A 343 LEU A 347 5 5 HELIX 14 14 SER A 348 SER A 363 1 16 HELIX 15 15 ASN A 372 GLN A 390 1 19 HELIX 16 16 HIS A 395 VAL A 399 5 5 HELIX 17 17 THR A 427 ASN A 437 1 11 HELIX 18 18 ASN A 442 ASP A 455 1 14 HELIX 19 19 PHE A 465 SER A 480 1 16 HELIX 20 20 SER A 480 SER A 492 1 13 SHEET 1 A 5 GLY A 56 ILE A 58 0 SHEET 2 A 5 GLN A 214 LYS A 219 -1 O PHE A 217 N GLY A 56 SHEET 3 A 5 ARG A 166 TYR A 173 -1 N TYR A 173 O GLN A 214 SHEET 4 A 5 ARG A 238 HIS A 246 -1 O TYR A 245 N ARG A 167 SHEET 5 A 5 MET A 145 TYR A 150 -1 N SER A 146 O GLN A 242 SHEET 1 B 6 THR A 81 GLU A 84 0 SHEET 2 B 6 TYR A 88 GLN A 92 -1 O GLN A 92 N THR A 81 SHEET 3 B 6 HIS A 155 HIS A 159 -1 O HIS A 155 N ARG A 89 SHEET 4 B 6 HIS A 227 VAL A 229 -1 O HIS A 227 N HIS A 159 SHEET 5 B 6 LEU A 189 LEU A 191 -1 N ARG A 190 O ASP A 228 SHEET 6 B 6 ALA A 206 LEU A 208 -1 O LEU A 208 N LEU A 189 SHEET 1 C 2 SER A 194 LEU A 196 0 SHEET 2 C 2 VAL A 199 PRO A 200 -1 O VAL A 199 N LEU A 196 SHEET 1 D 5 ASN A 290 ILE A 291 0 SHEET 2 D 5 SER A 497 PHE A 505 -1 O GLU A 498 N ASN A 290 SHEET 3 D 5 ARG A 623 LYS A 633 -1 O ASP A 625 N ARG A 503 SHEET 4 D 5 LEU A 415 ILE A 417 0 SHEET 5 D 5 LYS A 404 THR A 405 -1 N LYS A 404 O TYR A 416 SHEET 1 E 6 SER A 364 ILE A 367 0 SHEET 2 E 6 TRP A 596 ARG A 604 -1 O PHE A 599 N ILE A 367 SHEET 3 E 6 ILE A 529 LEU A 540 -1 N VAL A 533 O ARG A 604 SHEET 4 E 6 ARG A 623 LYS A 633 -1 O TRP A 624 N LEU A 540 SHEET 5 E 6 SER A 497 PHE A 505 -1 N ARG A 503 O ASP A 625 SHEET 6 E 6 CYS A 494 PRO A 495 0 SHEET 1 F 2 ALA A 412 ARG A 413 0 SHEET 2 F 2 PHE A 511 THR A 512 -1 O PHE A 511 N ARG A 413 SHEET 1 G 3 VAL A 588 ASP A 592 0 SHEET 2 G 3 GLU A 555 MET A 559 -1 N GLU A 555 O ASP A 592 SHEET 3 G 3 VAL A 608 VAL A 612 -1 O LEU A 609 N MET A 558 SSBOND 1 CYS A 494 CYS A 635 1555 1555 2.04 LINK NE2 HIS A 159 FE FE A 653 1555 1555 2.16 LINK OD2 ASP A 161 FE FE A 653 1555 1555 2.60 LINK NE2 HIS A 227 FE FE A 653 1555 1555 2.05 LINK FE FE A 653 O HOH A 797 1555 1555 2.29 CISPEP 1 GLN A 51 PRO A 52 0 5.56 CISPEP 2 PHE A 284 PRO A 285 0 3.85 CISPEP 3 ALA A 401 PRO A 402 0 5.17 CISPEP 4 ILE A 407 PRO A 408 0 -0.82 CISPEP 5 ALA A 456 SER A 457 0 -15.08 SITE 1 AC1 4 HIS A 159 ASP A 161 HIS A 227 HOH A 797 SITE 1 AC2 3 ARG A 179 LYS A 180 LYS A 182 SITE 1 AC3 5 GLY A 545 TRP A 546 GLU A 547 SER A 548 SITE 2 AC3 5 HOH A 764 SITE 1 AC4 3 LYS A 152 VAL A 234 ASP A 235 SITE 1 AC5 5 LYS A 180 LYS A 182 SER A 183 HOH A 663 SITE 2 AC5 5 HOH A 855 SITE 1 AC6 2 GLN A 444 LYS A 447 CRYST1 136.320 136.320 79.921 90.00 90.00 120.00 P 3 2 1 6 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 0.007336 0.004235 0.000000 0.00000 SCALE2 0.000000 0.008471 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012512 0.00000