HEADER HYDROLASE 01-OCT-21 7PUX TITLE STRUCTURE OF P97 N-D1(L198W) IN COMPLEX WITH FRAGMENT TROLL2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSITIONAL ENDOPLASMIC RETICULUM ATPASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: TER ATPASE,15S MG(2+)-ATPASE P97 SUBUNIT,VALOSIN-CONTAINING COMPND 5 PROTEIN,VCP; COMPND 6 EC: 3.6.4.6; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: VCP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS HYDROLASE, P97, VCP, FRAGMENT SCREENING EXPDTA X-RAY DIFFRACTION AUTHOR S.BOTHE,H.SCHINDELIN REVDAT 2 31-JAN-24 7PUX 1 REMARK REVDAT 1 14-DEC-22 7PUX 0 JRNL AUTH S.BOTHE,P.HANZELMANN,S.BOHLER,J.KEHREIN,M.ZEHE,C.WIEDEMANN, JRNL AUTH 2 U.A.HELLMICH,R.BRENK,H.SCHINDELIN,C.SOTRIFFER JRNL TITL FRAGMENT SCREENING USING BIOLAYER INTERFEROMETRY REVEALS JRNL TITL 2 LIGANDS TARGETING THE SHP-MOTIF BINDING SITE OF THE AAA+ JRNL TITL 3 ATPASE P97 JRNL REF COMMUN CHEM V. 5 169 2022 JRNL REFN ESSN 2399-3669 JRNL DOI 10.1038/S42004-022-00782-5 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH P.V.AFONINE,R.W.GROSSE-KUNSTLEVE,N.ECHOLS,J.J.HEADD, REMARK 1 AUTH 2 N.W.MORIARTY,M.MUSTYAKIMOV,T.C.TERWILLIGER,A.URZHUMTSEV, REMARK 1 AUTH 3 P.H.ZWART,P.D.ADAMS REMARK 1 TITL TOWARDS AUTOMATED CRYSTALLOGRAPHIC STRUCTURE REFINEMENT WITH REMARK 1 TITL 2 PHENIX.REFINE. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 68 352 2012 REMARK 1 REFN ESSN 1399-0047 REMARK 1 PMID 22505256 REMARK 1 DOI 10.1107/S0907444912001308 REMARK 1 REFERENCE 2 REMARK 1 AUTH D.LIEBSCHNER,P.V.AFONINE,M.L.BAKER,G.BUNKOCZI,V.B.CHEN, REMARK 1 AUTH 2 T.I.CROLL,B.HINTZE,L.W.HUNG,S.JAIN,A.J.MCCOY,N.W.MORIARTY, REMARK 1 AUTH 3 R.D.OEFFNER,B.K.POON,M.G.PRISANT,R.J.READ,J.S.RICHARDSON, REMARK 1 AUTH 4 D.C.RICHARDSON,M.D.SAMMITO,O.V.SOBOLEV,D.H.STOCKWELL, REMARK 1 AUTH 5 T.C.TERWILLIGER,A.G.URZHUMTSEV,L.L.VIDEAU,C.J.WILLIAMS, REMARK 1 AUTH 6 P.D.ADAMS REMARK 1 TITL MACROMOLECULAR STRUCTURE DETERMINATION USING X-RAYS, REMARK 1 TITL 2 NEUTRONS AND ELECTRONS: RECENT DEVELOPMENTS IN PHENIX. REMARK 1 REF ACTA CRYSTALLOGR D STRUCT V. 75 861 2019 REMARK 1 REF 2 BIOL REMARK 1 REFN ISSN 2059-7983 REMARK 1 PMID 31588918 REMARK 1 DOI 10.1107/S2059798319011471 REMARK 2 REMARK 2 RESOLUTION. 1.73 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.73 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.87 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 77.1 REMARK 3 NUMBER OF REFLECTIONS : 42904 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.235 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 2155 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 47.8700 - 4.2700 1.00 3841 182 0.1978 0.2320 REMARK 3 2 4.2700 - 3.3900 1.00 3592 200 0.1613 0.2069 REMARK 3 3 3.3900 - 2.9600 1.00 3566 190 0.1804 0.2392 REMARK 3 4 2.9600 - 2.6900 1.00 3529 178 0.1992 0.2495 REMARK 3 5 2.6900 - 2.5000 1.00 3522 204 0.1888 0.2233 REMARK 3 6 2.5000 - 2.3500 1.00 3535 163 0.1920 0.2488 REMARK 3 7 2.3500 - 2.2300 1.00 3501 179 0.1900 0.2572 REMARK 3 8 2.2300 - 2.1300 0.96 3346 193 0.2059 0.2421 REMARK 3 9 2.1300 - 2.0500 0.89 3079 173 0.2172 0.2327 REMARK 3 10 2.0500 - 1.9800 0.72 2515 129 0.2293 0.2780 REMARK 3 11 1.9800 - 1.9200 0.60 2056 113 0.2322 0.2384 REMARK 3 12 1.9200 - 1.8600 0.49 1698 102 0.2550 0.3064 REMARK 3 13 1.8600 - 1.8200 0.37 1298 59 0.2523 0.3072 REMARK 3 14 1.8200 - 1.7700 0.29 1009 56 0.2740 0.3230 REMARK 3 15 1.7700 - 1.7300 0.19 662 34 0.2867 0.3187 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) : 0.188 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.069 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.19 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.26 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 : 0.006 3755 REMARK 3 ANGLE : 0.885 5074 REMARK 3 CHIRALITY : 0.051 571 REMARK 3 PLANARITY : 0.005 667 REMARK 3 DIHEDRAL : 14.549 1484 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 7PUX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-OCT-21. REMARK 100 THE DEPOSITION ID IS D_1292118189. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-OCT-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID30B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9184 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 : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42850 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.730 REMARK 200 RESOLUTION RANGE LOW (A) : 47.870 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 200 DATA REDUNDANCY : 26.47 REMARK 200 R MERGE (I) : 0.13700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.6840 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.73 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 25.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 2.49800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.630 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: 5DYG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NATRIUMFORMIAT (PH 6.0) 4.0 M GLYCEROL REMARK 280 (V/V) 10 % PEG 600 (V/V) 5 %, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 6 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 REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z REMARK 290 6555 X-Y,X,Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 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 -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 0.00000 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 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 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 0.00000 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 0.00000 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 0.00000 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 0.00000 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 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 42010 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 110810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -130.0 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 5 0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 6 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 6 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 MET A 1 REMARK 465 ALA A 2 REMARK 465 SER A 3 REMARK 465 GLY A 4 REMARK 465 ALA A 5 REMARK 465 ASP A 6 REMARK 465 SER A 7 REMARK 465 LYS A 8 REMARK 465 GLY A 9 REMARK 465 ASP A 10 REMARK 465 ASP A 11 REMARK 465 LEU A 12 REMARK 465 SER A 13 REMARK 465 THR A 14 REMARK 465 LEU A 432 REMARK 465 GLU A 433 REMARK 465 ASP A 434 REMARK 465 SER A 462 REMARK 465 HIS A 463 REMARK 465 HIS A 464 REMARK 465 HIS A 465 REMARK 465 HIS A 466 REMARK 465 HIS A 467 REMARK 465 HIS A 468 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 MET A 427 H ASP A 431 1.54 REMARK 500 HZ3 LYS A 386 O HOH A 611 1.57 REMARK 500 OE2 GLU A 379 O HOH A 601 1.93 REMARK 500 O HOH A 609 O HOH A 654 2.03 REMARK 500 OD1 ASP A 107 O HOH A 602 2.04 REMARK 500 O HOH A 782 O HOH A 787 2.05 REMARK 500 O HOH A 748 O HOH A 841 2.05 REMARK 500 OE1 GLU A 417 O HOH A 603 2.05 REMARK 500 OG SER A 197 O HOH A 604 2.09 REMARK 500 O HOH A 627 O HOH A 769 2.10 REMARK 500 O TYR A 203 O HOH A 605 2.11 REMARK 500 OD1 ASN A 460 O HOH A 606 2.11 REMARK 500 O HOH A 735 O HOH A 799 2.14 REMARK 500 O HOH A 783 O HOH A 838 2.14 REMARK 500 O HOH A 652 O HOH A 831 2.17 REMARK 500 O2 FMT A 506 O HOH A 607 2.17 REMARK 500 O HOH A 616 O HOH A 673 2.17 REMARK 500 OE1 GLU A 218 O HOH A 608 2.18 REMARK 500 O HOH A 627 O HOH A 745 2.18 REMARK 500 O HOH A 613 O HOH A 646 2.19 REMARK 500 OE2 GLU A 221 O HOH A 609 2.19 REMARK 500 O HOH A 605 O HOH A 780 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 O HOH A 840 O HOH A 840 11456 1.95 REMARK 500 O HOH A 745 O HOH A 789 5555 2.06 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 LYS A 18 169.55 173.20 REMARK 500 GLU A 141 27.81 49.88 REMARK 500 CYS A 209 55.63 -151.40 REMARK 500 HIS A 340 31.15 72.77 REMARK 500 ARG A 362 -112.82 -107.18 REMARK 500 THR A 403 45.00 -101.62 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 520 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 191 O REMARK 620 2 GLU A 194 O 81.0 REMARK 620 3 GLU A 196 OE2 101.3 110.3 REMARK 620 4 HOH A 616 O 138.1 131.7 48.3 REMARK 620 5 HOH A 747 O 170.3 89.5 80.1 49.0 REMARK 620 6 HOH A 779 O 88.9 75.7 168.8 120.6 90.7 REMARK 620 7 HOH A 820 O 104.0 158.9 89.1 56.2 85.6 83.9 REMARK 620 N 1 2 3 4 5 6 DBREF 7PUX A 1 460 UNP P55072 TERA_HUMAN 1 460 SEQADV 7PUX TRP A 198 UNP P55072 LEU 198 ENGINEERED MUTATION SEQADV 7PUX ARG A 461 UNP P55072 EXPRESSION TAG SEQADV 7PUX SER A 462 UNP P55072 EXPRESSION TAG SEQADV 7PUX HIS A 463 UNP P55072 EXPRESSION TAG SEQADV 7PUX HIS A 464 UNP P55072 EXPRESSION TAG SEQADV 7PUX HIS A 465 UNP P55072 EXPRESSION TAG SEQADV 7PUX HIS A 466 UNP P55072 EXPRESSION TAG SEQADV 7PUX HIS A 467 UNP P55072 EXPRESSION TAG SEQADV 7PUX HIS A 468 UNP P55072 EXPRESSION TAG SEQRES 1 A 468 MET ALA SER GLY ALA ASP SER LYS GLY ASP ASP LEU SER SEQRES 2 A 468 THR ALA ILE LEU LYS GLN LYS ASN ARG PRO ASN ARG LEU SEQRES 3 A 468 ILE VAL ASP GLU ALA ILE ASN GLU ASP ASN SER VAL VAL SEQRES 4 A 468 SER LEU SER GLN PRO LYS MET ASP GLU LEU GLN LEU PHE SEQRES 5 A 468 ARG GLY ASP THR VAL LEU LEU LYS GLY LYS LYS ARG ARG SEQRES 6 A 468 GLU ALA VAL CYS ILE VAL LEU SER ASP ASP THR CYS SER SEQRES 7 A 468 ASP GLU LYS ILE ARG MET ASN ARG VAL VAL ARG ASN ASN SEQRES 8 A 468 LEU ARG VAL ARG LEU GLY ASP VAL ILE SER ILE GLN PRO SEQRES 9 A 468 CYS PRO ASP VAL LYS TYR GLY LYS ARG ILE HIS VAL LEU SEQRES 10 A 468 PRO ILE ASP ASP THR VAL GLU GLY ILE THR GLY ASN LEU SEQRES 11 A 468 PHE GLU VAL TYR LEU LYS PRO TYR PHE LEU GLU ALA TYR SEQRES 12 A 468 ARG PRO ILE ARG LYS GLY ASP ILE PHE LEU VAL ARG GLY SEQRES 13 A 468 GLY MET ARG ALA VAL GLU PHE LYS VAL VAL GLU THR ASP SEQRES 14 A 468 PRO SER PRO TYR CYS ILE VAL ALA PRO ASP THR VAL ILE SEQRES 15 A 468 HIS CYS GLU GLY GLU PRO ILE LYS ARG GLU ASP GLU GLU SEQRES 16 A 468 GLU SER TRP ASN GLU VAL GLY TYR ASP ASP ILE GLY GLY SEQRES 17 A 468 CYS ARG LYS GLN LEU ALA GLN ILE LYS GLU MET VAL GLU SEQRES 18 A 468 LEU PRO LEU ARG HIS PRO ALA LEU PHE LYS ALA ILE GLY SEQRES 19 A 468 VAL LYS PRO PRO ARG GLY ILE LEU LEU TYR GLY PRO PRO SEQRES 20 A 468 GLY THR GLY LYS THR LEU ILE ALA ARG ALA VAL ALA ASN SEQRES 21 A 468 GLU THR GLY ALA PHE PHE PHE LEU ILE ASN GLY PRO GLU SEQRES 22 A 468 ILE MET SER LYS LEU ALA GLY GLU SER GLU SER ASN LEU SEQRES 23 A 468 ARG LYS ALA PHE GLU GLU ALA GLU LYS ASN ALA PRO ALA SEQRES 24 A 468 ILE ILE PHE ILE ASP GLU LEU ASP ALA ILE ALA PRO LYS SEQRES 25 A 468 ARG GLU LYS THR HIS GLY GLU VAL GLU ARG ARG ILE VAL SEQRES 26 A 468 SER GLN LEU LEU THR LEU MET ASP GLY LEU LYS GLN ARG SEQRES 27 A 468 ALA HIS VAL ILE VAL MET ALA ALA THR ASN ARG PRO ASN SEQRES 28 A 468 SER ILE ASP PRO ALA LEU ARG ARG PHE GLY ARG PHE ASP SEQRES 29 A 468 ARG GLU VAL ASP ILE GLY ILE PRO ASP ALA THR GLY ARG SEQRES 30 A 468 LEU GLU ILE LEU GLN ILE HIS THR LYS ASN MET LYS LEU SEQRES 31 A 468 ALA ASP ASP VAL ASP LEU GLU GLN VAL ALA ASN GLU THR SEQRES 32 A 468 HIS GLY HIS VAL GLY ALA ASP LEU ALA ALA LEU CYS SER SEQRES 33 A 468 GLU ALA ALA LEU GLN ALA ILE ARG LYS LYS MET ASP LEU SEQRES 34 A 468 ILE ASP LEU GLU ASP GLU THR ILE ASP ALA GLU VAL MET SEQRES 35 A 468 ASN SER LEU ALA VAL THR MET ASP ASP PHE ARG TRP ALA SEQRES 36 A 468 LEU SER GLN SER ASN ARG SER HIS HIS HIS HIS HIS HIS HET ADP A 501 38 HET FMT A 502 4 HET FMT A 503 4 HET FMT A 504 4 HET FMT A 505 4 HET FMT A 506 4 HET FMT A 507 4 HET 6LY A 508 22 HET FMT A 509 4 HET FMT A 510 4 HET FMT A 511 4 HET FMT A 512 4 HET FMT A 513 4 HET FMT A 514 4 HET FMT A 515 4 HET FMT A 516 4 HET FMT A 517 4 HET PEG A 518 17 HET FMT A 519 5 HET NA A 520 1 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM FMT FORMIC ACID HETNAM 6LY (1S)-2-AMINO-1-(4-BROMOPHENYL)ETHAN-1-OL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM NA SODIUM ION FORMUL 2 ADP C10 H15 N5 O10 P2 FORMUL 3 FMT 16(C H2 O2) FORMUL 9 6LY C8 H10 BR N O FORMUL 19 PEG C4 H10 O3 FORMUL 21 NA NA 1+ FORMUL 22 HOH *255(H2 O) HELIX 1 AA1 SER A 42 GLN A 50 1 9 HELIX 2 AA2 ASN A 85 ARG A 93 1 9 HELIX 3 AA3 ASP A 120 GLU A 124 5 5 HELIX 4 AA4 ASN A 129 TYR A 134 1 6 HELIX 5 AA5 TYR A 134 LEU A 140 1 7 HELIX 6 AA6 LYS A 190 GLU A 194 5 5 HELIX 7 AA7 GLY A 202 ILE A 206 5 5 HELIX 8 AA8 CYS A 209 HIS A 226 1 18 HELIX 9 AA9 ALA A 228 ILE A 233 1 6 HELIX 10 AB1 GLY A 250 GLY A 263 1 14 HELIX 11 AB2 GLY A 271 SER A 276 1 6 HELIX 12 AB3 GLY A 280 ASN A 296 1 17 HELIX 13 AB4 GLU A 305 ILE A 309 5 5 HELIX 14 AB5 LYS A 312 THR A 316 5 5 HELIX 15 AB6 GLY A 318 LEU A 335 1 18 HELIX 16 AB7 LYS A 336 ARG A 338 5 3 HELIX 17 AB8 ARG A 349 ILE A 353 5 5 HELIX 18 AB9 ASP A 354 ARG A 359 5 6 HELIX 19 AC1 ASP A 373 THR A 385 1 13 HELIX 20 AC2 ASP A 395 THR A 403 1 9 HELIX 21 AC3 VAL A 407 ASP A 428 1 22 HELIX 22 AC4 ASP A 438 LEU A 445 1 8 HELIX 23 AC5 THR A 448 SER A 457 1 10 SHEET 1 AA1 7 ARG A 25 ASP A 29 0 SHEET 2 AA1 7 LYS A 81 MET A 84 1 O ILE A 82 N ASP A 29 SHEET 3 AA1 7 VAL A 38 LEU A 41 -1 N SER A 40 O ARG A 83 SHEET 4 AA1 7 GLU A 66 SER A 73 1 O LEU A 72 N VAL A 39 SHEET 5 AA1 7 THR A 56 LYS A 60 -1 N LEU A 59 O ALA A 67 SHEET 6 AA1 7 VAL A 99 PRO A 104 -1 O GLN A 103 N LEU A 58 SHEET 7 AA1 7 ARG A 25 ASP A 29 -1 N LEU A 26 O ILE A 100 SHEET 1 AA2 4 ILE A 151 GLY A 156 0 SHEET 2 AA2 4 ARG A 159 ASP A 169 -1 O VAL A 161 N VAL A 154 SHEET 3 AA2 4 ARG A 113 PRO A 118 -1 N LEU A 117 O LYS A 164 SHEET 4 AA2 4 VAL A 181 HIS A 183 1 O HIS A 183 N ILE A 114 SHEET 1 AA3 2 ARG A 144 ARG A 147 0 SHEET 2 AA3 2 TYR A 173 VAL A 176 -1 O VAL A 176 N ARG A 144 SHEET 1 AA4 5 PHE A 265 ASN A 270 0 SHEET 2 AA4 5 ALA A 299 ASP A 304 1 O PHE A 302 N ILE A 269 SHEET 3 AA4 5 VAL A 341 THR A 347 1 O MET A 344 N ILE A 301 SHEET 4 AA4 5 GLY A 240 TYR A 244 1 N LEU A 243 O ALA A 345 SHEET 5 AA4 5 ARG A 365 ASP A 368 1 O ARG A 365 N LEU A 242 LINK O ARG A 191 NA NA A 520 1555 1555 2.49 LINK O GLU A 194 NA NA A 520 1555 1555 2.39 LINK OE2 GLU A 196 NA NA A 520 1555 1555 2.40 LINK NA NA A 520 O HOH A 616 1555 1555 3.17 LINK NA NA A 520 O HOH A 747 1555 1555 2.71 LINK NA NA A 520 O HOH A 779 1555 1555 2.55 LINK NA NA A 520 O HOH A 820 1555 1555 2.44 CISPEP 1 ASP A 169 PRO A 170 0 5.09 CISPEP 2 SER A 171 PRO A 172 0 1.18 CISPEP 3 ALA A 297 PRO A 298 0 0.30 CRYST1 146.234 146.234 84.397 90.00 90.00 120.00 P 6 2 2 12 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 0.006838 0.003948 0.000000 0.00000 SCALE2 0.000000 0.007896 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011849 0.00000