HEADER TRANSFERASE/DNA 31-JUL-13 4LZG TITLE BINARY COMPLEX OF HUMAN DNA POLYMERASE MU WITH DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA-DIRECTED DNA/RNA POLYMERASE MU; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: POLYMERASE MU LOOP2 DELETION VARIANT, UNP RESIDUES 132-494; COMPND 5 SYNONYM: POL MU, TERMINAL TRANSFERASE; COMPND 6 EC: 2.7.7.7; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: TEMPLATE STRAND; COMPND 10 CHAIN: T; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: UPSTREAM PRIMER STRAND; COMPND 14 CHAIN: P; COMPND 15 ENGINEERED: YES; COMPND 16 MOL_ID: 4; COMPND 17 MOLECULE: DOWNSTREAM PRIMER STRAND; COMPND 18 CHAIN: D; COMPND 19 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: POLM, POLMU; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEXM; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 OTHER_DETAILS: SYNETHESIZED BY OLIGOS ETC; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES; SOURCE 15 OTHER_DETAILS: SYNTHESIZED BY OLIGOS ETC; SOURCE 16 MOL_ID: 4; SOURCE 17 SYNTHETIC: YES; SOURCE 18 OTHER_DETAILS: SYNTHESIZED BY OLIGOS ETC KEYWDS POLYMERASE, DNA BREAK REPAIR, TRANSFERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.F.MOON,J.M.PRYOR,D.A.RAMSDEN,T.A.KUNKEL,K.BEBENEK,L.C.PEDERSEN REVDAT 5 03-APR-24 4LZG 1 REMARK REVDAT 4 28-FEB-24 4LZG 1 REMARK SEQADV LINK REVDAT 3 19-MAR-14 4LZG 1 JRNL REVDAT 2 05-MAR-14 4LZG 1 JRNL REVDAT 1 05-FEB-14 4LZG 0 JRNL AUTH A.F.MOON,J.M.PRYOR,D.A.RAMSDEN,T.A.KUNKEL,K.BEBENEK, JRNL AUTH 2 L.C.PEDERSEN JRNL TITL SUSTAINED ACTIVE SITE RIGIDITY DURING SYNTHESIS BY HUMAN DNA JRNL TITL 2 POLYMERASE MU. JRNL REF NAT.STRUCT.MOL.BIOL. V. 21 253 2014 JRNL REFN ISSN 1545-9993 JRNL PMID 24487959 JRNL DOI 10.1038/NSMB.2766 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8_1069 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.93 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 59953 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.175 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.990 REMARK 3 FREE R VALUE TEST SET COUNT : 2991 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 34.9400 - 4.4085 1.00 2955 158 0.1761 0.2049 REMARK 3 2 4.4085 - 3.5002 1.00 2822 147 0.1432 0.1666 REMARK 3 3 3.5002 - 3.0581 1.00 2806 149 0.1634 0.1891 REMARK 3 4 3.0581 - 2.7786 1.00 2779 146 0.1796 0.1988 REMARK 3 5 2.7786 - 2.5795 1.00 2772 146 0.1836 0.2049 REMARK 3 6 2.5795 - 2.4275 1.00 2763 143 0.1753 0.2160 REMARK 3 7 2.4275 - 2.3059 1.00 2738 149 0.1725 0.2066 REMARK 3 8 2.3059 - 2.2056 1.00 2738 141 0.1744 0.2149 REMARK 3 9 2.2056 - 2.1207 1.00 2748 143 0.1698 0.2075 REMARK 3 10 2.1207 - 2.0475 1.00 2742 145 0.1749 0.1916 REMARK 3 11 2.0475 - 1.9835 1.00 2728 142 0.1780 0.2227 REMARK 3 12 1.9835 - 1.9268 1.00 2736 145 0.1786 0.2298 REMARK 3 13 1.9268 - 1.8761 1.00 2717 141 0.1813 0.2266 REMARK 3 14 1.8761 - 1.8303 1.00 2729 148 0.1822 0.2097 REMARK 3 15 1.8303 - 1.7887 1.00 2711 140 0.1790 0.2193 REMARK 3 16 1.7887 - 1.7506 1.00 2717 146 0.1957 0.2212 REMARK 3 17 1.7506 - 1.7156 1.00 2700 141 0.1937 0.2526 REMARK 3 18 1.7156 - 1.6832 0.99 2694 142 0.2124 0.2409 REMARK 3 19 1.6832 - 1.6532 0.96 2639 139 0.2153 0.2433 REMARK 3 20 1.6532 - 1.6252 0.94 2499 132 0.2243 0.2747 REMARK 3 21 1.6252 - 1.5989 0.81 2229 108 0.2552 0.2557 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) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.480 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.45 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.69 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 : 0.011 3122 REMARK 3 ANGLE : 1.448 4320 REMARK 3 CHIRALITY : 0.095 475 REMARK 3 PLANARITY : 0.007 511 REMARK 3 DIHEDRAL : 13.129 1039 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 4LZG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-AUG-13. REMARK 100 THE DEPOSITION ID IS D_1000081275. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-OCT-12 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 60033 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.599 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06200 REMARK 200 FOR THE DATA SET : 13.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.63 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.1 REMARK 200 DATA REDUNDANCY IN SHELL : 2.40 REMARK 200 R MERGE FOR SHELL (I) : 0.27200 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: PHASER REMARK 200 STARTING MODEL: HPOL MU LOOP2 TRUNCATION VARIANT IN TERNARY REMARK 200 COMPLEX WITH SINGLE-NUCLEOTIDE GAPPED DNA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALS WERE GROWN BY MIXING 1UL OF REMARK 280 THE PROTEIN/DNA COMPLEX WITH 1UL OF MOTHER LIQUOR (85MM MES PH REMARK 280 6.5, 85MMCACL2, 42.5MM NACL, 8.5% PEG3350, 11% GLYCEROL), USING REMARK 280 THE SITTING DROP VAPOR DIFFUSION TECHNIQUE. CRYSTALS WERE REMARK 280 TRANSFERRED TO A CRYOPROTECTANT SOLUTION CONTAINING 0.1M MES PH REMARK 280 6.5, 0.1M CACL2, 50MM NACL, 10MM MGCL2, 20% PEG3350, 15% REMARK 280 GLYCEROL IN THREE STEPS. , VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 30.00150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.15350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.25700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.15350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.00150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.25700 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, T, P, D 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 GLY A 127 REMARK 465 SER A 128 REMARK 465 ALA A 129 REMARK 465 ALA A 130 REMARK 465 ALA A 131 REMARK 465 PRO A 132 REMARK 465 LEU A 133 REMARK 465 SER A 134 REMARK 465 PRO A 135 REMARK 465 ALA A 136 REMARK 465 TRP A 137 REMARK 465 HIS A 365 REMARK 465 GLN A 366 REMARK 465 HIS A 367 REMARK 465 SER A 368 REMARK 465 CYS A 369 REMARK 465 CYS A 370 REMARK 465 GLU A 371 REMARK 465 SER A 372 REMARK 465 PRO A 373 REMARK 465 THR A 374 REMARK 465 ARG A 375 REMARK 465 LEU A 376 REMARK 465 ALA A 377 REMARK 465 GLN A 378 REMARK 465 GLN A 379 REMARK 465 SER A 380 REMARK 465 HIS A 381 REMARK 465 MET A 382 REMARK 465 ASP A 383 REMARK 465 ALA A 384 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 LEU A 196 CD1 CD2 REMARK 470 GLN A 200 CD OE1 NE2 REMARK 470 GLU A 207 CD OE1 OE2 REMARK 470 GLU A 223 CD OE1 OE2 REMARK 470 GLU A 267 CD OE1 OE2 REMARK 470 GLN A 268 CG CD OE1 NE2 REMARK 470 GLN A 270 CG CD OE1 NE2 REMARK 470 LYS A 271 CG CD CE NZ REMARK 470 GLN A 300 CD OE1 NE2 REMARK 470 GLU A 304 OE1 OE2 REMARK 470 LYS A 339 CD CE NZ REMARK 470 GLU A 465 CD OE1 OE2 REMARK 470 LYS A 467 CE NZ REMARK 470 GLU A 485 CG CD OE1 OE2 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 NH2 ARG A 145 O HOH A 1003 1.97 REMARK 500 O HOH A 901 O HOH P 103 2.10 REMARK 500 O THR A 288 O HOH A 1000 2.13 REMARK 500 O HOH A 900 O HOH A 901 2.15 REMARK 500 O HOH A 843 O HOH A 1007 2.17 REMARK 500 O HOH A 901 O HOH A 934 2.18 REMARK 500 O HOH A 816 O HOH A 928 2.18 REMARK 500 O HOH T 125 O HOH T 141 2.19 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 DG D 1 P DG D 1 OP3 -0.120 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 DC T 1 O4' - C1' - C2' ANGL. DEV. = 3.7 DEGREES REMARK 500 DT T 6 O4' - C1' - N1 ANGL. DEV. = 4.2 DEGREES REMARK 500 DG T 9 O4' - C1' - N9 ANGL. DEV. = -5.6 DEGREES REMARK 500 DT P 3 O4' - C4' - C3' ANGL. DEV. = -2.7 DEGREES REMARK 500 DA P 4 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG D 1 O4' - C1' - N9 ANGL. DEV. = -5.7 DEGREES REMARK 500 DC D 2 C1' - O4' - C4' ANGL. DEV. = -7.0 DEGREES REMARK 500 DC D 3 O4' - C1' - N1 ANGL. DEV. = -9.5 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 318 -153.35 -123.14 REMARK 500 THR A 318 -152.52 -123.69 REMARK 500 SER A 411 -142.07 -161.93 REMARK 500 ASN A 493 49.07 -84.78 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 NA A 504 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PHE A 205 O REMARK 620 2 HOH A 778 O 82.1 REMARK 620 3 HOH A 852 O 148.0 72.7 REMARK 620 4 HOH D 104 O 82.5 79.7 111.2 REMARK 620 5 HOH D 106 O 83.9 151.8 127.0 74.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 503 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 241 O REMARK 620 2 ILE A 243 O 97.6 REMARK 620 3 VAL A 246 O 89.5 91.2 REMARK 620 4 HOH A 900 O 90.3 86.7 177.9 REMARK 620 5 HOH A 901 O 65.2 134.1 128.4 53.3 REMARK 620 6 DT P 3 OP1 172.3 89.7 92.9 87.6 107.9 REMARK 620 7 HOH P 103 O 89.2 172.4 85.4 96.7 52.2 83.7 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 505 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2IHM RELATED DB: PDB REMARK 900 RELATED ID: 4LZD RELATED DB: PDB REMARK 900 RELATED ID: 4M04 RELATED DB: PDB REMARK 900 RELATED ID: 4M0A RELATED DB: PDB DBREF 4LZG A 132 494 UNP Q9NP87 DPOLM_HUMAN 132 494 DBREF 4LZG T 1 9 PDB 4LZG 4LZG 1 9 DBREF 4LZG P 1 4 PDB 4LZG 4LZG 1 4 DBREF 4LZG D 1 4 PDB 4LZG 4LZG 1 4 SEQADV 4LZG GLY A 127 UNP Q9NP87 EXPRESSION TAG SEQADV 4LZG SER A 128 UNP Q9NP87 EXPRESSION TAG SEQADV 4LZG ALA A 129 UNP Q9NP87 EXPRESSION TAG SEQADV 4LZG ALA A 130 UNP Q9NP87 EXPRESSION TAG SEQADV 4LZG ALA A 131 UNP Q9NP87 EXPRESSION TAG SEQADV 4LZG A UNP Q9NP87 PRO 398 DELETION SEQADV 4LZG A UNP Q9NP87 GLY 399 DELETION SEQADV 4LZG A UNP Q9NP87 ALA 400 DELETION SEQADV 4LZG A UNP Q9NP87 ALA 401 DELETION SEQADV 4LZG A UNP Q9NP87 VAL 402 DELETION SEQADV 4LZG A UNP Q9NP87 GLY 403 DELETION SEQADV 4LZG A UNP Q9NP87 GLY 404 DELETION SEQADV 4LZG A UNP Q9NP87 SER 405 DELETION SEQADV 4LZG A UNP Q9NP87 THR 406 DELETION SEQADV 4LZG A UNP Q9NP87 ARG 407 DELETION SEQADV 4LZG A UNP Q9NP87 PRO 408 DELETION SEQADV 4LZG A UNP Q9NP87 CYS 409 DELETION SEQADV 4LZG A UNP Q9NP87 PRO 410 DELETION SEQADV 4LZG GLY A 410 UNP Q9NP87 INSERTION SEQRES 1 A 356 GLY SER ALA ALA ALA PRO LEU SER PRO ALA TRP MET PRO SEQRES 2 A 356 ALA TYR ALA CYS GLN ARG PRO THR PRO LEU THR HIS HIS SEQRES 3 A 356 ASN THR GLY LEU SER GLU ALA LEU GLU ILE LEU ALA GLU SEQRES 4 A 356 ALA ALA GLY PHE GLU GLY SER GLU GLY ARG LEU LEU THR SEQRES 5 A 356 PHE CYS ARG ALA ALA SER VAL LEU LYS ALA LEU PRO SER SEQRES 6 A 356 PRO VAL THR THR LEU SER GLN LEU GLN GLY LEU PRO HIS SEQRES 7 A 356 PHE GLY GLU HIS SER SER ARG VAL VAL GLN GLU LEU LEU SEQRES 8 A 356 GLU HIS GLY VAL CYS GLU GLU VAL GLU ARG VAL ARG ARG SEQRES 9 A 356 SER GLU ARG TYR GLN THR MET LYS LEU PHE THR GLN ILE SEQRES 10 A 356 PHE GLY VAL GLY VAL LYS THR ALA ASP ARG TRP TYR ARG SEQRES 11 A 356 GLU GLY LEU ARG THR LEU ASP ASP LEU ARG GLU GLN PRO SEQRES 12 A 356 GLN LYS LEU THR GLN GLN GLN LYS ALA GLY LEU GLN HIS SEQRES 13 A 356 HIS GLN ASP LEU SER THR PRO VAL LEU ARG SER ASP VAL SEQRES 14 A 356 ASP ALA LEU GLN GLN VAL VAL GLU GLU ALA VAL GLY GLN SEQRES 15 A 356 ALA LEU PRO GLY ALA THR VAL THR LEU THR GLY GLY PHE SEQRES 16 A 356 ARG ARG GLY LYS LEU GLN GLY HIS ASP VAL ASP PHE LEU SEQRES 17 A 356 ILE THR HIS PRO LYS GLU GLY GLN GLU ALA GLY LEU LEU SEQRES 18 A 356 PRO ARG VAL MET CYS ARG LEU GLN ASP GLN GLY LEU ILE SEQRES 19 A 356 LEU TYR HIS GLN HIS GLN HIS SER CYS CYS GLU SER PRO SEQRES 20 A 356 THR ARG LEU ALA GLN GLN SER HIS MET ASP ALA PHE GLU SEQRES 21 A 356 ARG SER PHE CYS ILE PHE ARG LEU PRO GLN PRO GLY SER SEQRES 22 A 356 TRP LYS ALA VAL ARG VAL ASP LEU VAL VAL ALA PRO VAL SEQRES 23 A 356 SER GLN PHE PRO PHE ALA LEU LEU GLY TRP THR GLY SER SEQRES 24 A 356 LYS LEU PHE GLN ARG GLU LEU ARG ARG PHE SER ARG LYS SEQRES 25 A 356 GLU LYS GLY LEU TRP LEU ASN SER HIS GLY LEU PHE ASP SEQRES 26 A 356 PRO GLU GLN LYS THR PHE PHE GLN ALA ALA SER GLU GLU SEQRES 27 A 356 ASP ILE PHE ARG HIS LEU GLY LEU GLU TYR LEU PRO PRO SEQRES 28 A 356 GLU GLN ARG ASN ALA SEQRES 1 T 9 DC DG DG DC DA DT DA DC DG SEQRES 1 P 4 DC DG DT DA SEQRES 1 D 4 DG DC DC DG HET GOL A 501 6 HET CL A 502 1 HET NA A 503 1 HET NA A 504 1 HET CL A 505 1 HETNAM GOL GLYCEROL HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 GOL C3 H8 O3 FORMUL 6 CL 2(CL 1-) FORMUL 7 NA 2(NA 1+) FORMUL 10 HOH *513(H2 O) HELIX 1 1 TYR A 141 ARG A 145 5 5 HELIX 2 2 ASN A 153 GLU A 170 1 18 HELIX 3 3 SER A 172 LEU A 189 1 18 HELIX 4 4 THR A 195 GLN A 200 5 6 HELIX 5 5 GLY A 206 GLY A 220 1 15 HELIX 6 6 CYS A 222 SER A 231 1 10 HELIX 7 7 SER A 231 GLN A 242 1 12 HELIX 8 8 GLY A 247 GLU A 257 1 11 HELIX 9 9 THR A 261 GLU A 267 1 7 HELIX 10 10 GLN A 268 LEU A 272 5 5 HELIX 11 11 THR A 273 HIS A 282 1 10 HELIX 12 12 HIS A 282 SER A 287 1 6 HELIX 13 13 ARG A 292 LEU A 310 1 19 HELIX 14 14 THR A 318 ARG A 323 1 6 HELIX 15 15 GLY A 345 GLN A 357 1 13 HELIX 16 16 PRO A 423 SER A 425 5 3 HELIX 17 17 GLN A 426 GLY A 436 1 11 HELIX 18 18 SER A 437 GLY A 453 1 17 HELIX 19 19 SER A 474 LEU A 482 1 9 HELIX 20 20 PRO A 488 ARG A 492 5 5 SHEET 1 A 2 VAL A 290 LEU A 291 0 SHEET 2 A 2 GLN A 327 GLY A 328 -1 O GLY A 328 N VAL A 290 SHEET 1 B 5 THR A 314 LEU A 317 0 SHEET 2 B 5 VAL A 331 THR A 336 -1 O LEU A 334 N THR A 316 SHEET 3 B 5 SER A 411 VAL A 421 1 O VAL A 420 N ILE A 335 SHEET 4 B 5 ARG A 387 GLN A 396 -1 N PHE A 392 O VAL A 415 SHEET 5 B 5 ILE A 360 TYR A 362 -1 N TYR A 362 O ILE A 391 SHEET 1 C 3 TRP A 455 LEU A 456 0 SHEET 2 C 3 LEU A 461 ASP A 463 -1 O PHE A 462 N TRP A 455 SHEET 3 C 3 THR A 468 PHE A 469 -1 O THR A 468 N ASP A 463 LINK O PHE A 205 NA NA A 504 1555 1555 2.29 LINK O THR A 241 NA NA A 503 1555 1555 2.36 LINK O ILE A 243 NA NA A 503 1555 1555 2.45 LINK O VAL A 246 NA NA A 503 1555 1555 2.31 LINK NA NA A 503 O HOH A 900 1555 1555 2.33 LINK NA NA A 503 O HOH A 901 1555 1555 2.45 LINK NA NA A 503 OP1 DT P 3 1555 1555 2.81 LINK NA NA A 503 O HOH P 103 1555 1555 2.31 LINK NA NA A 504 O HOH A 778 1555 1555 2.32 LINK NA NA A 504 O HOH A 852 1555 1555 2.64 LINK NA NA A 504 O HOH D 104 1555 1555 2.44 LINK NA NA A 504 O HOH D 106 1555 1555 2.37 CISPEP 1 GLY A 436 SER A 437 0 -6.21 SITE 1 AC1 7 ARG A 387 GLY A 433 ARG A 445 SER A 458 SITE 2 AC1 7 CL A 505 DA P 4 DT T 6 SITE 1 AC2 3 SER A 172 GLY A 174 ARG A 175 SITE 1 AC3 7 THR A 241 ILE A 243 VAL A 246 HOH A 900 SITE 2 AC3 7 HOH A 901 DT P 3 HOH P 103 SITE 1 AC4 5 PHE A 205 HOH A 778 HOH A 852 HOH D 104 SITE 2 AC4 5 HOH D 106 SITE 1 AC5 4 ARG A 387 SER A 458 GOL A 501 DA T 7 CRYST1 60.003 68.514 110.307 90.00 90.00 90.00 P 21 21 21 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 0.016666 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014596 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009066 0.00000