HEADER HYDROLASE 19-MAR-21 7EEV TITLE STRUCTURE OF UTP CYCLOHYDROLASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GTP CYCLOHYDROLASE II; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: UTP CYCLOHYDROLASE; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RHODOCOCCUS WRATISLAVIENSIS; SOURCE 3 ORGANISM_TAXID: 44752; SOURCE 4 GENE: C8E05_0284; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS UTP, URCA, LYASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR H.ZHANG,Y.ZHANG,Z.YUCHI REVDAT 2 21-SEP-22 7EEV 1 TITLE JRNL REVDAT 1 28-JUL-21 7EEV 0 JRNL AUTH H.ZHANG,Y.WEI,L.LIN,J.LIU,R.CHU,P.CAO,E.L.ANG,H.ZHAO, JRNL AUTH 2 Z.YUCHI,Y.ZHANG JRNL TITL STRUCTURAL AND BIOCHEMICAL INVESTIGATION OF UTP JRNL TITL 2 CYCLOHYDROLASE JRNL REF ACS CATALYSIS 8895 2021 JRNL REFN ESSN 2155-5435 JRNL DOI 10.1021/ACSCATAL.1C02252 REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.1_4122 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 23.56 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.410 REMARK 3 COMPLETENESS FOR RANGE (%) : 78.8 REMARK 3 NUMBER OF REFLECTIONS : 47642 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.136 REMARK 3 R VALUE (WORKING SET) : 0.134 REMARK 3 FREE R VALUE : 0.169 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.200 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 23.5600 - 5.1700 0.81 3662 160 0.1577 0.1659 REMARK 3 2 5.1700 - 4.1100 0.92 3905 172 0.1224 0.1336 REMARK 3 3 4.1100 - 3.5900 0.95 3982 174 0.1248 0.1483 REMARK 3 4 3.5900 - 3.2600 0.96 4000 176 0.1338 0.1665 REMARK 3 5 3.2600 - 3.0300 0.93 3847 168 0.1533 0.2030 REMARK 3 6 3.0300 - 2.8500 0.89 3675 161 0.1481 0.1845 REMARK 3 7 2.8500 - 2.7100 0.82 3386 149 0.1410 0.1991 REMARK 3 8 2.7100 - 2.5900 0.76 3117 136 0.1384 0.1910 REMARK 3 9 2.5900 - 2.4900 0.74 2991 131 0.1310 0.2003 REMARK 3 10 2.4900 - 2.4100 0.69 2840 125 0.1285 0.1849 REMARK 3 11 2.4100 - 2.3300 0.65 2609 114 0.1190 0.1736 REMARK 3 12 2.3300 - 2.2600 0.61 2491 109 0.1103 0.1677 REMARK 3 13 2.2600 - 2.2000 0.60 2438 107 0.1050 0.1444 REMARK 3 14 2.2000 - 2.1500 0.66 2699 118 0.1132 0.1819 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 13.200 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.98 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.99 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7EEV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-MAR-21. REMARK 100 THE DEPOSITION ID IS D_1300021175. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-NOV-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL18U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97915 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 60586 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 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 : 38.60 REMARK 200 R MERGE (I) : 0.11600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 3.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.19 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 35.40 REMARK 200 R MERGE FOR SHELL (I) : 0.35200 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: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% W/V PEG 8000, 0.5 M LITHIUM REMARK 280 SULFATE, PH 7.4, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 292.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 94.23767 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 188.47533 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 141.35650 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 235.59417 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 47.11883 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 94.23767 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 188.47533 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 235.59417 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 141.35650 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 47.11883 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: 11390 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26610 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -140.0 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 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 B 885 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 SER A -1 REMARK 465 ASN A 0 REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 ALA A 3 REMARK 465 GLU A 4 REMARK 465 SER A 5 REMARK 465 VAL A 6 REMARK 465 ALA A 7 REMARK 465 ALA A 8 REMARK 465 THR A 9 REMARK 465 PRO A 10 REMARK 465 GLU A 11 REMARK 465 SER A 12 REMARK 465 ALA A 13 REMARK 465 GLY A 14 REMARK 465 GLY A 15 REMARK 465 HIS A 16 REMARK 465 ILE A 17 REMARK 465 ARG A 18 REMARK 465 LEU A 19 REMARK 465 THR A 20 REMARK 465 SER A 21 REMARK 465 HIS A 22 REMARK 465 SER A 23 REMARK 465 GLY A 24 REMARK 465 GLY A 25 REMARK 465 GLY A 423 REMARK 465 SER B -1 REMARK 465 ASN B 0 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 ALA B 3 REMARK 465 GLU B 4 REMARK 465 SER B 5 REMARK 465 VAL B 6 REMARK 465 ALA B 7 REMARK 465 ALA B 8 REMARK 465 THR B 9 REMARK 465 PRO B 10 REMARK 465 GLU B 11 REMARK 465 SER B 12 REMARK 465 ALA B 13 REMARK 465 GLY B 14 REMARK 465 GLY B 15 REMARK 465 HIS B 16 REMARK 465 ILE B 17 REMARK 465 ARG B 18 REMARK 465 LEU B 19 REMARK 465 THR B 20 REMARK 465 SER B 21 REMARK 465 HIS B 22 REMARK 465 SER B 23 REMARK 465 GLY B 24 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 ASP B 422 CG OD1 OD2 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 750 O HOH A 965 1.89 REMARK 500 O HOH B 895 O HOH B 998 2.00 REMARK 500 O HOH B 1009 O HOH B 1015 2.08 REMARK 500 O HOH A 771 O HOH A 790 2.12 REMARK 500 NE ARG A 351 O HOH A 601 2.17 REMARK 500 O HOH B 968 O HOH B 973 2.17 REMARK 500 OD1 ASP B 409 O ASP B 411 2.19 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 NH2 ARG A 51 NH2 ARG B 213 12566 1.92 REMARK 500 NH1 ARG A 51 NE ARG B 213 12566 2.14 REMARK 500 NH1 ARG A 351 OE1 GLU B 376 8566 2.16 REMARK 500 REMARK 500 REMARK: NULL 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 A 202 CD GLU A 202 OE1 -0.083 REMARK 500 GLU A 202 CD GLU A 202 OE2 -0.069 REMARK 500 GLU B 376 CD GLU B 376 OE2 0.088 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 ARG A 51 CA - CB - CG ANGL. DEV. = -13.5 DEGREES REMARK 500 ARG A 51 CG - CD - NE ANGL. DEV. = -14.1 DEGREES REMARK 500 ARG A 351 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 351 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 GLU B 376 CA - CB - CG ANGL. DEV. = -13.6 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 SER A 61 22.34 90.02 REMARK 500 ARG A 160 -63.95 -107.28 REMARK 500 TYR A 207 80.46 51.11 REMARK 500 PHE A 337 71.76 43.15 REMARK 500 SER A 358 155.08 178.92 REMARK 500 VAL A 416 80.10 -68.21 REMARK 500 SER B 61 17.11 86.36 REMARK 500 ALA B 126 0.56 -66.88 REMARK 500 PHE B 337 73.45 43.67 REMARK 500 SER B 360 122.78 -37.38 REMARK 500 VAL B 375 -76.74 -100.81 REMARK 500 GLU B 412 -56.15 86.64 REMARK 500 VAL B 416 78.65 -69.09 REMARK 500 ASP B 422 -74.17 75.31 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B1024 DISTANCE = 6.08 ANGSTROMS 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 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 252 SG REMARK 620 2 CYS A 263 SG 115.0 REMARK 620 3 CYS A 265 SG 115.1 113.4 REMARK 620 4 HOH A 813 O 103.2 109.2 98.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 252 SG REMARK 620 2 CYS B 263 SG 112.1 REMARK 620 3 CYS B 265 SG 114.8 115.6 REMARK 620 4 HOH B 902 O 109.2 106.4 97.2 REMARK 620 N 1 2 3 DBREF1 7EEV A 1 423 UNP A0A3D9R4E8_9NOCA DBREF2 7EEV A A0A3D9R4E8 1 423 DBREF1 7EEV B 1 423 UNP A0A3D9R4E8_9NOCA DBREF2 7EEV B A0A3D9R4E8 1 423 SEQADV 7EEV SER A -1 UNP A0A3D9R4E EXPRESSION TAG SEQADV 7EEV ASN A 0 UNP A0A3D9R4E EXPRESSION TAG SEQADV 7EEV ASP A 87 UNP A0A3D9R4E ASN 87 CONFLICT SEQADV 7EEV GLN A 102 UNP A0A3D9R4E GLU 102 CONFLICT SEQADV 7EEV SER B -1 UNP A0A3D9R4E EXPRESSION TAG SEQADV 7EEV ASN B 0 UNP A0A3D9R4E EXPRESSION TAG SEQADV 7EEV ASP B 87 UNP A0A3D9R4E ASN 87 CONFLICT SEQADV 7EEV GLN B 102 UNP A0A3D9R4E GLU 102 CONFLICT SEQRES 1 A 425 SER ASN MET SER ALA GLU SER VAL ALA ALA THR PRO GLU SEQRES 2 A 425 SER ALA GLY GLY HIS ILE ARG LEU THR SER HIS SER GLY SEQRES 3 A 425 GLY VAL GLY ALA LEU PRO ILE HIS TRP GLY ALA PRO THR SEQRES 4 A 425 ALA SER GLU ARG GLY PRO VAL VAL GLY THR THR THR ASN SEQRES 5 A 425 ARG ALA HIS ARG ASN VAL ILE GLY THR HIS SER GLY SER SEQRES 6 A 425 TYR SER ILE TYR ARG ALA LEU ALA VAL ALA SER GLY ALA SEQRES 7 A 425 LEU SER ARG HIS HIS LYS ALA ASP LEU THR ASP THR ALA SEQRES 8 A 425 PRO THR ASN ILE ILE GLY PRO TYR PRO GLN TRP SER GLN SEQRES 9 A 425 PRO GLY LYS ILE VAL SER LEU ASP PRO TRP GLY ALA THR SEQRES 10 A 425 VAL ALA GLU VAL PHE ALA ALA GLU LEU ALA ALA GLY HIS SEQRES 11 A 425 ASP ILE ARG PRO SER ILE ALA VAL THR LYS ALA HIS VAL SEQRES 12 A 425 ILE LEU PRO GLU VAL MET GLU ALA ILE GLN LYS GLY ARG SEQRES 13 A 425 LEU HIS PRO ASP GLY ARG PHE LEU LEU PRO SER GLY ALA SEQRES 14 A 425 ALA LEU VAL THR LYS ALA ALA ILE GLU PRO VAL TRP HIS SEQRES 15 A 425 LEU PRO GLY VAL ALA GLU ARG PHE HIS CYS SER GLU THR SEQRES 16 A 425 ASP LEU ARG ARG VAL LEU PHE GLU GLU THR GLY GLY MET SEQRES 17 A 425 TYR PRO GLU LEU VAL THR ARG SER ASP LEU GLU VAL PHE SEQRES 18 A 425 LEU PRO PRO ILE GLY GLY GLN THR VAL TYR ILE PHE GLY SEQRES 19 A 425 ASP ALA ARG ASP LEU ALA ASP PRO GLY VAL GLU LEU THR SEQRES 20 A 425 ALA ARG VAL HIS ASP GLU CYS ASN GLY SER ASP VAL PHE SEQRES 21 A 425 GLY SER ASP ILE CYS THR CYS ARG PRO TYR LEU THR HIS SEQRES 22 A 425 ALA ILE GLU GLU CYS ILE GLN GLY ALA GLN ARG GLY GLY SEQRES 23 A 425 VAL GLY LEU VAL ALA TYR SER ARG LYS GLU GLY ARG ALA SEQRES 24 A 425 LEU GLY GLU VAL THR LYS PHE LEU VAL TYR ASN ALA ARG SEQRES 25 A 425 LYS ARG GLN VAL GLY GLY ASP THR ALA ASP GLN TYR PHE SEQRES 26 A 425 ALA ARG THR GLU CYS VAL ALA GLY VAL GLN ASP MET ARG SEQRES 27 A 425 PHE GLN GLU MET MET PRO ASP VAL LEU HIS TRP LEU GLY SEQRES 28 A 425 VAL ARG LYS ILE HIS ARG LEU VAL SER MET SER ASN MET SEQRES 29 A 425 LYS TYR ASP ALA ILE THR GLY SER GLY ILE GLU VAL VAL SEQRES 30 A 425 GLU ARG VAL ASP LEU PRO ALA ASP LEU ILE PRO ALA ASP SEQRES 31 A 425 ALA ARG VAL GLU ILE ASP ALA LYS MET ALA ALA GLY TYR SEQRES 32 A 425 PHE THR PRO GLY ALA VAL PRO ASP ALA ASP GLU LEU ALA SEQRES 33 A 425 LYS VAL LYS GLY ARG GLU LEU ASP GLY SEQRES 1 B 425 SER ASN MET SER ALA GLU SER VAL ALA ALA THR PRO GLU SEQRES 2 B 425 SER ALA GLY GLY HIS ILE ARG LEU THR SER HIS SER GLY SEQRES 3 B 425 GLY VAL GLY ALA LEU PRO ILE HIS TRP GLY ALA PRO THR SEQRES 4 B 425 ALA SER GLU ARG GLY PRO VAL VAL GLY THR THR THR ASN SEQRES 5 B 425 ARG ALA HIS ARG ASN VAL ILE GLY THR HIS SER GLY SER SEQRES 6 B 425 TYR SER ILE TYR ARG ALA LEU ALA VAL ALA SER GLY ALA SEQRES 7 B 425 LEU SER ARG HIS HIS LYS ALA ASP LEU THR ASP THR ALA SEQRES 8 B 425 PRO THR ASN ILE ILE GLY PRO TYR PRO GLN TRP SER GLN SEQRES 9 B 425 PRO GLY LYS ILE VAL SER LEU ASP PRO TRP GLY ALA THR SEQRES 10 B 425 VAL ALA GLU VAL PHE ALA ALA GLU LEU ALA ALA GLY HIS SEQRES 11 B 425 ASP ILE ARG PRO SER ILE ALA VAL THR LYS ALA HIS VAL SEQRES 12 B 425 ILE LEU PRO GLU VAL MET GLU ALA ILE GLN LYS GLY ARG SEQRES 13 B 425 LEU HIS PRO ASP GLY ARG PHE LEU LEU PRO SER GLY ALA SEQRES 14 B 425 ALA LEU VAL THR LYS ALA ALA ILE GLU PRO VAL TRP HIS SEQRES 15 B 425 LEU PRO GLY VAL ALA GLU ARG PHE HIS CYS SER GLU THR SEQRES 16 B 425 ASP LEU ARG ARG VAL LEU PHE GLU GLU THR GLY GLY MET SEQRES 17 B 425 TYR PRO GLU LEU VAL THR ARG SER ASP LEU GLU VAL PHE SEQRES 18 B 425 LEU PRO PRO ILE GLY GLY GLN THR VAL TYR ILE PHE GLY SEQRES 19 B 425 ASP ALA ARG ASP LEU ALA ASP PRO GLY VAL GLU LEU THR SEQRES 20 B 425 ALA ARG VAL HIS ASP GLU CYS ASN GLY SER ASP VAL PHE SEQRES 21 B 425 GLY SER ASP ILE CYS THR CYS ARG PRO TYR LEU THR HIS SEQRES 22 B 425 ALA ILE GLU GLU CYS ILE GLN GLY ALA GLN ARG GLY GLY SEQRES 23 B 425 VAL GLY LEU VAL ALA TYR SER ARG LYS GLU GLY ARG ALA SEQRES 24 B 425 LEU GLY GLU VAL THR LYS PHE LEU VAL TYR ASN ALA ARG SEQRES 25 B 425 LYS ARG GLN VAL GLY GLY ASP THR ALA ASP GLN TYR PHE SEQRES 26 B 425 ALA ARG THR GLU CYS VAL ALA GLY VAL GLN ASP MET ARG SEQRES 27 B 425 PHE GLN GLU MET MET PRO ASP VAL LEU HIS TRP LEU GLY SEQRES 28 B 425 VAL ARG LYS ILE HIS ARG LEU VAL SER MET SER ASN MET SEQRES 29 B 425 LYS TYR ASP ALA ILE THR GLY SER GLY ILE GLU VAL VAL SEQRES 30 B 425 GLU ARG VAL ASP LEU PRO ALA ASP LEU ILE PRO ALA ASP SEQRES 31 B 425 ALA ARG VAL GLU ILE ASP ALA LYS MET ALA ALA GLY TYR SEQRES 32 B 425 PHE THR PRO GLY ALA VAL PRO ASP ALA ASP GLU LEU ALA SEQRES 33 B 425 LYS VAL LYS GLY ARG GLU LEU ASP GLY HET DUT A 501 39 HET ZN A 502 1 HET DUT B 501 39 HET ZN B 502 1 HETNAM DUT DEOXYURIDINE-5'-TRIPHOSPHATE HETNAM ZN ZINC ION FORMUL 3 DUT 2(C9 H15 N2 O14 P3) FORMUL 4 ZN 2(ZN 2+) FORMUL 7 HOH *852(H2 O) HELIX 1 AA1 THR A 37 GLY A 42 1 6 HELIX 2 AA2 ASN A 50 ARG A 54 5 5 HELIX 3 AA3 SER A 61 SER A 63 5 3 HELIX 4 AA4 TYR A 64 SER A 74 1 11 HELIX 5 AA5 TYR A 97 GLN A 102 5 6 HELIX 6 AA6 THR A 115 PHE A 120 1 6 HELIX 7 AA7 PHE A 120 GLY A 127 1 8 HELIX 8 AA8 LEU A 143 LYS A 152 1 10 HELIX 9 AA9 LEU A 181 PHE A 188 1 8 HELIX 10 AB1 SER A 191 THR A 203 1 13 HELIX 11 AB2 PRO A 208 ARG A 213 1 6 HELIX 12 AB3 ASP A 233 ASP A 239 5 7 HELIX 13 AB4 CYS A 252 VAL A 257 1 6 HELIX 14 AB5 THR A 264 ARG A 282 1 19 HELIX 15 AB6 LYS A 293 LEU A 298 1 6 HELIX 16 AB7 GLY A 299 GLN A 313 1 15 HELIX 17 AB8 THR A 318 ASP A 320 5 3 HELIX 18 AB9 GLN A 321 GLY A 331 1 11 HELIX 19 AC1 PHE A 337 MET A 341 5 5 HELIX 20 AC2 PRO A 342 LEU A 348 1 7 HELIX 21 AC3 SER A 360 SER A 370 1 11 HELIX 22 AC4 PRO A 381 ILE A 385 5 5 HELIX 23 AC5 ALA A 389 ALA A 399 1 11 HELIX 24 AC6 ASP A 409 ALA A 414 1 6 HELIX 25 AC7 THR B 37 GLY B 42 1 6 HELIX 26 AC8 ASN B 50 ARG B 54 5 5 HELIX 27 AC9 SER B 61 SER B 63 5 3 HELIX 28 AD1 TYR B 64 SER B 74 1 11 HELIX 29 AD2 TYR B 97 GLN B 102 5 6 HELIX 30 AD3 THR B 115 PHE B 120 1 6 HELIX 31 AD4 PHE B 120 ALA B 126 1 7 HELIX 32 AD5 LEU B 143 LYS B 152 1 10 HELIX 33 AD6 LEU B 181 PHE B 188 1 8 HELIX 34 AD7 SER B 191 THR B 203 1 13 HELIX 35 AD8 PRO B 208 ARG B 213 1 6 HELIX 36 AD9 ASP B 233 ASP B 239 5 7 HELIX 37 AE1 CYS B 252 VAL B 257 1 6 HELIX 38 AE2 THR B 264 ARG B 282 1 19 HELIX 39 AE3 GLY B 299 GLN B 313 1 15 HELIX 40 AE4 THR B 318 ASP B 320 5 3 HELIX 41 AE5 GLN B 321 GLY B 331 1 11 HELIX 42 AE6 PHE B 337 MET B 341 5 5 HELIX 43 AE7 PRO B 342 LEU B 348 1 7 HELIX 44 AE8 SER B 360 SER B 370 1 11 HELIX 45 AE9 PRO B 381 ILE B 385 5 5 HELIX 46 AF1 ALA B 389 ALA B 399 1 11 HELIX 47 AF2 ASP B 409 ALA B 414 1 6 SHEET 1 AA1 3 ILE A 57 GLY A 58 0 SHEET 2 AA1 3 VAL A 218 LEU A 220 1 O VAL A 218 N ILE A 57 SHEET 3 AA1 3 TRP A 179 HIS A 180 -1 N TRP A 179 O PHE A 219 SHEET 1 AA2 7 ILE A 134 ILE A 142 0 SHEET 2 AA2 7 ALA A 167 ILE A 175 -1 O ALA A 168 N VAL A 141 SHEET 3 AA2 7 GLN A 226 PHE A 231 -1 O ILE A 230 N THR A 171 SHEET 4 AA2 7 VAL A 285 SER A 291 -1 O VAL A 288 N TYR A 229 SHEET 5 AA2 7 LEU A 244 ASP A 250 1 N HIS A 249 O ALA A 289 SHEET 6 AA2 7 LYS A 352 LEU A 356 1 O ARG A 355 N ALA A 246 SHEET 7 AA2 7 GLU A 373 ARG A 377 1 O GLU A 373 N ILE A 353 SHEET 1 AA3 3 ILE B 57 GLY B 58 0 SHEET 2 AA3 3 VAL B 218 LEU B 220 1 O LEU B 220 N ILE B 57 SHEET 3 AA3 3 TRP B 179 HIS B 180 -1 N TRP B 179 O PHE B 219 SHEET 1 AA4 7 ILE B 134 VAL B 141 0 SHEET 2 AA4 7 ALA B 168 ILE B 175 -1 O LYS B 172 N THR B 137 SHEET 3 AA4 7 GLN B 226 PHE B 231 -1 O ILE B 230 N THR B 171 SHEET 4 AA4 7 VAL B 285 SER B 291 -1 O VAL B 288 N TYR B 229 SHEET 5 AA4 7 LEU B 244 ASP B 250 1 N HIS B 249 O ALA B 289 SHEET 6 AA4 7 LYS B 352 LEU B 356 1 O ARG B 355 N ALA B 246 SHEET 7 AA4 7 GLU B 373 ARG B 377 1 O GLU B 373 N ILE B 353 LINK NH2 ARG A 247 O1A DUT A 501 1555 1555 1.32 LINK NH2 ARG B 247 O1A DUT B 501 1555 1555 1.33 LINK N ASP B 250 O2A DUT B 501 1555 1555 1.33 LINK SG CYS A 252 ZN ZN A 502 1555 1555 2.32 LINK SG CYS A 263 ZN ZN A 502 1555 1555 2.29 LINK SG CYS A 265 ZN ZN A 502 1555 1555 2.27 LINK ZN ZN A 502 O HOH A 813 1555 1555 2.00 LINK SG CYS B 252 ZN ZN B 502 1555 1555 2.31 LINK SG CYS B 263 ZN ZN B 502 1555 1555 2.31 LINK SG CYS B 265 ZN ZN B 502 1555 1555 2.29 LINK ZN ZN B 502 O HOH B 902 1555 1555 1.90 CISPEP 1 GLY A 95 PRO A 96 0 2.32 CISPEP 2 GLY B 95 PRO B 96 0 -1.10 CRYST1 114.646 114.646 282.713 90.00 90.00 120.00 P 61 2 2 24 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 0.008723 0.005036 0.000000 0.00000 SCALE2 0.000000 0.010072 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003537 0.00000