HEADER TRANSFERASE/DNA 01-AUG-13 4M0A TITLE HUMAN DNA POLYMERASE MU POST-CATALYTIC COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA-DIRECTED DNA/RNA POLYMERASE MU; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: 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: SYNTHESIZED 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 6 03-APR-24 4M0A 1 REMARK REVDAT 5 28-FEB-24 4M0A 1 REMARK SEQADV LINK REVDAT 4 15-NOV-17 4M0A 1 REMARK REVDAT 3 19-MAR-14 4M0A 1 JRNL REVDAT 2 05-MAR-14 4M0A 1 JRNL REVDAT 1 05-FEB-14 4M0A 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. 1.85 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.38 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 38959 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.990 REMARK 3 FREE R VALUE TEST SET COUNT : 1945 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 31.3859 - 4.4551 1.00 2878 149 0.1544 0.1749 REMARK 3 2 4.4551 - 3.5377 1.00 2740 146 0.1307 0.1521 REMARK 3 3 3.5377 - 3.0910 0.99 2711 142 0.1538 0.1920 REMARK 3 4 3.0910 - 2.8086 0.99 2684 140 0.1799 0.2101 REMARK 3 5 2.8086 - 2.6074 0.99 2649 137 0.1803 0.2145 REMARK 3 6 2.6074 - 2.4537 0.99 2664 143 0.1716 0.2191 REMARK 3 7 2.4537 - 2.3309 0.98 2634 140 0.1666 0.2063 REMARK 3 8 2.3309 - 2.2294 0.99 2628 134 0.1671 0.2212 REMARK 3 9 2.2294 - 2.1436 0.99 2643 140 0.1747 0.2370 REMARK 3 10 2.1436 - 2.0697 0.98 2579 136 0.1670 0.2457 REMARK 3 11 2.0697 - 2.0050 0.98 2611 137 0.1767 0.2477 REMARK 3 12 2.0050 - 1.9477 0.98 2610 139 0.1952 0.2431 REMARK 3 13 1.9477 - 1.8964 0.97 2570 135 0.1975 0.2468 REMARK 3 14 1.8964 - 1.8501 0.91 2413 127 0.2080 0.2439 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) : 19.050 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.48 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.38 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 : 0.013 3115 REMARK 3 ANGLE : 1.522 4313 REMARK 3 CHIRALITY : 0.101 473 REMARK 3 PLANARITY : 0.008 504 REMARK 3 DIHEDRAL : 12.922 1004 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 4M0A 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_1000081303. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-OCT-12 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 7.5 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 : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39012 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 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 (%) : 98.2 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07100 REMARK 200 FOR THE DATA SET : 9.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.88 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.44200 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: TERNARY COMPLEX OF HUMAN POLYMERASE MU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALS WERE GROWN BY MIXING 1UL REMARK 280 PROTEIN/DNA MIXTURE WITH 1UL MOTHER LIQUOR (85-90MM HEPES PH 7.5, REMARK 280 17-18% PEG4000), USING THE SITTING DROP VAPOR DIFFUSION REMARK 280 TECHNIQUE. CRYSTALS WERE TRANSFERRED IN TWO STEPS TO A REMARK 280 CRYOPROTECTANT SOLUTION CONTAINING 0.1M HEPES PH 7.5, 10MM MGCL2, REMARK 280 50MM NACL, 20% PEG4000, 5% GLYCEROL, 15% ETHYLENE GLYCOL, 10MM REMARK 280 DTTP FOR 16 HOURS. THE CRYSTALS WERE THEN BACKSOAKED IN REMARK 280 CRYOPROTECTANT CONTAINING 2MM PYROPHOSPHATE. , VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 295K 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 30.00900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.22200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.33500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.22200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.00900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.33500 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 GLN A 200 CG CD OE1 NE2 REMARK 470 GLU A 207 CD OE1 OE2 REMARK 470 LYS A 249 CE NZ REMARK 470 GLU A 267 CG 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 274 CD OE1 NE2 REMARK 470 GLU A 304 CD OE1 OE2 REMARK 470 LYS A 339 CE NZ REMARK 470 GLN A 355 CG CD OE1 NE2 REMARK 470 GLN A 357 OE1 NE2 REMARK 470 GLN A 364 CG CD OE1 NE2 REMARK 470 GLU A 465 OE1 OE2 REMARK 470 LYS A 467 CE NZ REMARK 470 GLN A 471 CD OE1 NE2 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 OE1 GLN A 242 O HOH A 906 2.02 REMARK 500 OE1 GLN A 327 O HOH A 901 2.09 REMARK 500 O HOH A 684 O HOH A 895 2.13 REMARK 500 OG SER A 172 O HOH A 837 2.15 REMARK 500 O HOH A 776 O HOH A 863 2.17 REMARK 500 O HOH A 839 O HOH A 889 2.17 REMARK 500 ND1 HIS A 481 O HOH A 776 2.17 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 -0.116 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 393 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 DG T 2 O4' - C1' - N9 ANGL. DEV. = -4.2 DEGREES REMARK 500 DC T 4 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 DT T 6 C1' - O4' - C4' ANGL. DEV. = -7.2 DEGREES REMARK 500 DT T 6 O4' - C1' - N1 ANGL. DEV. = 4.8 DEGREES REMARK 500 DG T 9 O4' - C1' - N9 ANGL. DEV. = -5.8 DEGREES REMARK 500 DC P 1 O4' - C4' - C3' ANGL. DEV. = -3.7 DEGREES REMARK 500 DG D 1 O4' - C1' - N9 ANGL. DEV. = -7.5 DEGREES REMARK 500 DC D 3 N1 - C1' - C2' ANGL. DEV. = 9.2 DEGREES REMARK 500 DC D 3 O4' - C1' - N1 ANGL. DEV. = -8.1 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 ASN A 153 40.16 -140.73 REMARK 500 GLU A 267 38.34 -81.13 REMARK 500 GLN A 268 52.58 -174.12 REMARK 500 LEU A 310 92.27 -161.11 REMARK 500 THR A 318 -151.03 -122.18 REMARK 500 THR A 318 -155.28 -126.24 REMARK 500 SER A 411 -147.38 -163.73 REMARK 500 ASN A 493 47.97 -87.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 EPE A 508 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 MG A 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 241 O REMARK 620 2 ILE A 243 O 96.4 REMARK 620 3 VAL A 246 O 90.1 93.4 REMARK 620 4 HOH A 737 O 83.1 89.8 172.8 REMARK 620 5 DT P 3 OP1 171.2 92.1 91.6 94.7 REMARK 620 6 HOH P 202 O 85.9 176.5 89.2 87.9 85.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 330 OD1 REMARK 620 2 ASP A 330 OD2 9.3 REMARK 620 3 ASP A 332 OD2 98.0 91.6 REMARK 620 4 PPV A 503 O12 164.5 169.2 97.4 REMARK 620 5 HOH A 601 O 89.8 82.8 87.3 91.8 REMARK 620 6 HOH A 900 O 84.4 90.4 175.7 80.2 89.2 REMARK 620 7 DT P 5 OP1 81.6 88.7 93.3 96.5 171.4 90.5 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 505 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 330 OD1 REMARK 620 2 ASP A 330 OD1 57.3 REMARK 620 3 ASP A 330 OD2 52.1 8.3 REMARK 620 4 ASP A 332 OD1 105.8 98.0 93.3 REMARK 620 5 ASP A 418 OD1 87.6 143.9 139.6 100.0 REMARK 620 6 DT P 5 OP1 120.7 66.6 73.9 99.0 139.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 506 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PPV A 503 O22 REMARK 620 2 PPV A 503 O11 86.2 REMARK 620 3 HOH A 843 O 96.5 89.5 REMARK 620 4 HOH A 900 O 72.8 90.1 169.4 REMARK 620 5 HOH P 218 O 98.6 174.4 87.3 93.9 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PPV A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EPE A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO P 101 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: 4LZG RELATED DB: PDB REMARK 900 RELATED ID: 4M04 RELATED DB: PDB DBREF 4M0A A 132 494 UNP Q9NP87 DPOLM_HUMAN 132 494 DBREF 4M0A T 1 9 PDB 4M0A 4M0A 1 9 DBREF 4M0A P 1 5 PDB 4M0A 4M0A 1 5 DBREF 4M0A D 1 4 PDB 4M0A 4M0A 1 4 SEQADV 4M0A GLY A 127 UNP Q9NP87 EXPRESSION TAG SEQADV 4M0A SER A 128 UNP Q9NP87 EXPRESSION TAG SEQADV 4M0A ALA A 129 UNP Q9NP87 EXPRESSION TAG SEQADV 4M0A ALA A 130 UNP Q9NP87 EXPRESSION TAG SEQADV 4M0A ALA A 131 UNP Q9NP87 EXPRESSION TAG SEQADV 4M0A A UNP Q9NP87 PRO 398 DELETION SEQADV 4M0A A UNP Q9NP87 GLY 399 DELETION SEQADV 4M0A A UNP Q9NP87 ALA 400 DELETION SEQADV 4M0A A UNP Q9NP87 ALA 401 DELETION SEQADV 4M0A A UNP Q9NP87 VAL 402 DELETION SEQADV 4M0A A UNP Q9NP87 GLY 403 DELETION SEQADV 4M0A A UNP Q9NP87 GLY 404 DELETION SEQADV 4M0A A UNP Q9NP87 SER 405 DELETION SEQADV 4M0A A UNP Q9NP87 THR 406 DELETION SEQADV 4M0A A UNP Q9NP87 ARG 407 DELETION SEQADV 4M0A A UNP Q9NP87 PRO 408 DELETION SEQADV 4M0A A UNP Q9NP87 CYS 409 DELETION SEQADV 4M0A A UNP Q9NP87 PRO 410 DELETION SEQADV 4M0A 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 5 DC DG DT DA DT SEQRES 1 D 4 DG DC DC DG HET MG A 501 1 HET MG A 502 1 HET PPV A 503 9 HET EDO A 504 4 HET MN A 505 1 HET MG A 506 1 HET EDO A 507 4 HET EPE A 508 5 HET EDO P 101 4 HETNAM MG MAGNESIUM ION HETNAM PPV PYROPHOSPHATE HETNAM EDO 1,2-ETHANEDIOL HETNAM MN MANGANESE (II) ION HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETSYN EDO ETHYLENE GLYCOL HETSYN EPE HEPES FORMUL 5 MG 3(MG 2+) FORMUL 7 PPV H4 O7 P2 FORMUL 8 EDO 3(C2 H6 O2) FORMUL 9 MN MN 2+ FORMUL 12 EPE C8 H18 N2 O4 S FORMUL 14 HOH *398(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 ALA A 188 1 17 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 THR A 241 MG MG A 502 1555 1555 2.38 LINK O ILE A 243 MG MG A 502 1555 1555 2.36 LINK O VAL A 246 MG MG A 502 1555 1555 2.36 LINK OD1AASP A 330 MG MG A 501 1555 1555 2.07 LINK OD2BASP A 330 MG MG A 501 1555 1555 2.28 LINK OD1BASP A 330 MN MN A 505 1555 1555 2.03 LINK OD1AASP A 330 MN MN A 505 1555 1555 2.66 LINK OD2BASP A 330 MN MN A 505 1555 1555 2.77 LINK OD2 ASP A 332 MG MG A 501 1555 1555 2.11 LINK OD1 ASP A 332 MN MN A 505 1555 1555 1.97 LINK OD1 ASP A 418 MN MN A 505 1555 1555 2.24 LINK MG MG A 501 O12 PPV A 503 1555 1555 2.10 LINK MG MG A 501 O HOH A 601 1555 1555 2.08 LINK MG MG A 501 O HOH A 900 1555 1555 2.43 LINK MG MG A 501 OP1 DT P 5 1555 1555 2.12 LINK MG MG A 502 O HOH A 737 1555 1555 2.46 LINK MG MG A 502 OP1 DT P 3 1555 1555 2.62 LINK MG MG A 502 O HOH P 202 1555 1555 2.37 LINK O22 PPV A 503 MG MG A 506 1555 1555 1.91 LINK O11 PPV A 503 MG MG A 506 1555 1555 1.93 LINK MN MN A 505 OP1 DT P 5 1555 1555 2.31 LINK MG MG A 506 O HOH A 843 1555 1555 2.21 LINK MG MG A 506 O HOH A 900 1555 1555 2.06 LINK MG MG A 506 O HOH P 218 1555 1555 2.22 CISPEP 1 GLY A 436 SER A 437 0 -1.90 SITE 1 AC1 7 ASP A 330 ASP A 332 PPV A 503 MN A 505 SITE 2 AC1 7 HOH A 601 HOH A 900 DT P 5 SITE 1 AC2 6 THR A 241 ILE A 243 VAL A 246 HOH A 737 SITE 2 AC2 6 DT P 3 HOH P 202 SITE 1 AC3 15 GLY A 319 GLY A 320 ARG A 323 LYS A 325 SITE 2 AC3 15 ASP A 332 MG A 501 MG A 506 HOH A 601 SITE 3 AC3 15 HOH A 609 HOH A 665 HOH A 683 HOH A 730 SITE 4 AC3 15 HOH A 843 HOH A 900 DT P 5 SITE 1 AC4 5 PRO A 190 SER A 191 PRO A 192 GLN A 198 SITE 2 AC4 5 HOH A 870 SITE 1 AC5 7 ASP A 330 ASP A 332 ASP A 418 MG A 501 SITE 2 AC5 7 DA P 4 DT P 5 HOH P 208 SITE 1 AC6 4 PPV A 503 HOH A 843 HOH A 900 HOH P 218 SITE 1 AC7 5 THR A 194 THR A 314 THR A 336 PHE A 427 SITE 2 AC7 5 HOH A 706 SITE 1 AC8 4 LYS A 325 LEU A 326 GLN A 327 HOH A 862 SITE 1 AC9 6 ARG A 387 GLY A 433 TRP A 434 ARG A 445 SITE 2 AC9 6 DA P 4 DT P 5 CRYST1 60.018 68.670 110.444 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 0.016662 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014562 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009054 0.00000