HEADER TRANSFERASE 15-NOV-15 5ERR TITLE GEPHE IN COMPLEX WITH MG(2+) - ADP COMPND MOL_ID: 1; COMPND 2 MOLECULE: GEPHYRIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 318-736; COMPND 5 SYNONYM: PUTATIVE GLYCINE RECEPTOR-TUBULIN LINKER PROTEIN; COMPND 6 EC: 2.7.7.75,2.10.1.1; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: NORWAY RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: GPHN, GPH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS MOLYBDENUM AND TUNGSTEN COFACTOR, MOCO, WCO, TERMINAL STEP, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR V.B.KASARAGOD,H.SCHINDELIN REVDAT 3 10-JAN-24 5ERR 1 LINK REVDAT 2 11-MAY-16 5ERR 1 JRNL REVDAT 1 04-MAY-16 5ERR 0 JRNL AUTH V.B.KASARAGOD,H.SCHINDELIN JRNL TITL STRUCTURAL FRAMEWORK FOR METAL INCORPORATION DURING JRNL TITL 2 MOLYBDENUM COFACTOR BIOSYNTHESIS. JRNL REF STRUCTURE V. 24 782 2016 JRNL REFN ISSN 0969-2126 JRNL PMID 27112598 JRNL DOI 10.1016/J.STR.2016.02.023 REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.84 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 59011 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.158 REMARK 3 R VALUE (WORKING SET) : 0.157 REMARK 3 FREE R VALUE : 0.183 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.890 REMARK 3 FREE R VALUE TEST SET COUNT : 2884 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 43.8560 - 4.5506 1.00 2852 170 0.1585 0.1772 REMARK 3 2 4.5506 - 3.6125 1.00 2769 125 0.1255 0.1681 REMARK 3 3 3.6125 - 3.1560 1.00 2727 147 0.1435 0.1663 REMARK 3 4 3.1560 - 2.8675 1.00 2742 120 0.1472 0.1661 REMARK 3 5 2.8675 - 2.6620 0.99 2691 140 0.1477 0.1537 REMARK 3 6 2.6620 - 2.5051 0.99 2674 156 0.1501 0.1852 REMARK 3 7 2.5051 - 2.3796 0.99 2696 137 0.1420 0.1563 REMARK 3 8 2.3796 - 2.2761 0.99 2672 147 0.1371 0.1522 REMARK 3 9 2.2761 - 2.1884 0.99 2646 142 0.1443 0.1670 REMARK 3 10 2.1884 - 2.1129 0.99 2669 134 0.1496 0.2039 REMARK 3 11 2.1129 - 2.0469 0.99 2643 136 0.1549 0.1808 REMARK 3 12 2.0469 - 1.9884 0.99 2652 136 0.1587 0.1810 REMARK 3 13 1.9884 - 1.9360 0.99 2645 129 0.1774 0.1848 REMARK 3 14 1.9360 - 1.8888 0.99 2659 132 0.1764 0.2020 REMARK 3 15 1.8888 - 1.8458 0.98 2630 132 0.1919 0.2243 REMARK 3 16 1.8458 - 1.8066 0.98 2660 125 0.1983 0.2246 REMARK 3 17 1.8066 - 1.7704 0.98 2606 131 0.2121 0.2617 REMARK 3 18 1.7704 - 1.7370 0.98 2628 140 0.2251 0.2615 REMARK 3 19 1.7370 - 1.7060 0.98 2619 131 0.2572 0.3141 REMARK 3 20 1.7060 - 1.6771 0.98 2635 126 0.2533 0.2697 REMARK 3 21 1.6771 - 1.6500 0.98 2612 148 0.2689 0.3264 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) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.860 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 3459 REMARK 3 ANGLE : 1.149 4737 REMARK 3 CHIRALITY : 0.040 548 REMARK 3 PLANARITY : 0.006 618 REMARK 3 DIHEDRAL : 14.835 1346 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 319 THROUGH 359 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.2631 18.3926 223.8184 REMARK 3 T TENSOR REMARK 3 T11: 0.0953 T22: 0.1162 REMARK 3 T33: 0.1273 T12: 0.0259 REMARK 3 T13: 0.0127 T23: -0.0190 REMARK 3 L TENSOR REMARK 3 L11: 0.6295 L22: 1.8155 REMARK 3 L33: 5.7192 L12: -0.2930 REMARK 3 L13: 0.9862 L23: -2.4237 REMARK 3 S TENSOR REMARK 3 S11: 0.0546 S12: -0.0254 S13: 0.0665 REMARK 3 S21: -0.0321 S22: 0.0876 S23: 0.1409 REMARK 3 S31: -0.1296 S32: -0.3213 S33: -0.1391 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 360 THROUGH 434 ) REMARK 3 ORIGIN FOR THE GROUP (A): 51.6228 19.0633 270.0471 REMARK 3 T TENSOR REMARK 3 T11: 0.2406 T22: 0.2838 REMARK 3 T33: 0.1620 T12: -0.0859 REMARK 3 T13: -0.0228 T23: -0.0126 REMARK 3 L TENSOR REMARK 3 L11: 3.8860 L22: 1.0005 REMARK 3 L33: 1.6411 L12: 1.8777 REMARK 3 L13: 2.8737 L23: 1.2828 REMARK 3 S TENSOR REMARK 3 S11: 0.3963 S12: -0.3802 S13: -0.0347 REMARK 3 S21: 0.3031 S22: -0.2816 S23: -0.0580 REMARK 3 S31: 0.2754 S32: -0.2322 S33: -0.0978 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 435 THROUGH 472 ) REMARK 3 ORIGIN FOR THE GROUP (A): 49.8194 21.6080 265.7630 REMARK 3 T TENSOR REMARK 3 T11: 0.1961 T22: 0.1959 REMARK 3 T33: 0.2149 T12: -0.0226 REMARK 3 T13: -0.0355 T23: -0.0194 REMARK 3 L TENSOR REMARK 3 L11: 4.8995 L22: 0.4484 REMARK 3 L33: 3.3420 L12: 2.0530 REMARK 3 L13: 3.8476 L23: 1.4416 REMARK 3 S TENSOR REMARK 3 S11: 0.1589 S12: -0.1648 S13: -0.0016 REMARK 3 S21: 0.0812 S22: -0.1650 S23: -0.0929 REMARK 3 S31: 0.0428 S32: -0.0315 S33: 0.0646 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 473 THROUGH 550 ) REMARK 3 ORIGIN FOR THE GROUP (A): 37.0584 10.1726 218.0167 REMARK 3 T TENSOR REMARK 3 T11: 0.0982 T22: 0.0874 REMARK 3 T33: 0.1027 T12: 0.0116 REMARK 3 T13: -0.0057 T23: -0.0015 REMARK 3 L TENSOR REMARK 3 L11: 0.2663 L22: 0.1860 REMARK 3 L33: 3.6649 L12: -0.0111 REMARK 3 L13: -0.5046 L23: 0.3284 REMARK 3 S TENSOR REMARK 3 S11: -0.0043 S12: 0.0525 S13: -0.0102 REMARK 3 S21: -0.0321 S22: -0.0283 S23: 0.0087 REMARK 3 S31: 0.0585 S32: -0.0834 S33: 0.0435 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 551 THROUGH 646 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.5313 14.6599 208.0334 REMARK 3 T TENSOR REMARK 3 T11: 0.1222 T22: 0.1504 REMARK 3 T33: 0.1232 T12: 0.0147 REMARK 3 T13: -0.0164 T23: -0.0043 REMARK 3 L TENSOR REMARK 3 L11: 1.9390 L22: 2.1827 REMARK 3 L33: 1.4922 L12: 0.2501 REMARK 3 L13: -0.1294 L23: -0.0825 REMARK 3 S TENSOR REMARK 3 S11: -0.0332 S12: 0.2473 S13: -0.0743 REMARK 3 S21: -0.2716 S22: 0.0246 S23: 0.1912 REMARK 3 S31: 0.0034 S32: -0.2382 S33: 0.0014 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 647 THROUGH 712 ) REMARK 3 ORIGIN FOR THE GROUP (A): 43.5811 33.1101 216.0934 REMARK 3 T TENSOR REMARK 3 T11: 0.2041 T22: 0.1363 REMARK 3 T33: 0.1750 T12: 0.0070 REMARK 3 T13: 0.0006 T23: -0.0106 REMARK 3 L TENSOR REMARK 3 L11: 0.6953 L22: 3.1093 REMARK 3 L33: 1.7681 L12: 0.9753 REMARK 3 L13: 0.1598 L23: -0.4157 REMARK 3 S TENSOR REMARK 3 S11: -0.0724 S12: 0.1294 S13: 0.0656 REMARK 3 S21: -0.2029 S22: 0.0818 S23: -0.2558 REMARK 3 S31: -0.2452 S32: 0.2139 S33: 0.0111 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 713 THROUGH 736 ) REMARK 3 ORIGIN FOR THE GROUP (A): 38.8636 38.6550 213.0580 REMARK 3 T TENSOR REMARK 3 T11: 0.2964 T22: 0.1102 REMARK 3 T33: 0.2854 T12: 0.0075 REMARK 3 T13: -0.0322 T23: 0.0042 REMARK 3 L TENSOR REMARK 3 L11: 3.5863 L22: 1.9355 REMARK 3 L33: 5.2741 L12: 2.5559 REMARK 3 L13: -1.4033 L23: 0.0439 REMARK 3 S TENSOR REMARK 3 S11: -0.0031 S12: 0.1000 S13: 0.5300 REMARK 3 S21: -0.4130 S22: -0.1015 S23: 0.2310 REMARK 3 S31: -0.4710 S32: 0.0786 S33: 0.0906 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 5ERR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-NOV-15. REMARK 100 THE DEPOSITION ID IS D_1000215420. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-APR-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9640 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 59012 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 43.841 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.09100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.68 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.1 REMARK 200 DATA REDUNDANCY IN SHELL : 6.90 REMARK 200 R MERGE FOR SHELL (I) : 0.99800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.700 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: 4PD0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM ACETATE, 20 % MPD, PH REMARK 280 4.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 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 1.000000 0.000000 0.000000 43.84050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.76700 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 56.51450 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 43.84050 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.76700 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 56.51450 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 43.84050 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 49.76700 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 56.51450 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 43.84050 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 49.76700 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 56.51450 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 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 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 87.68100 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 452.11600 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 A1050 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1256 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1292 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1311 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1368 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 318 REMARK 465 ASN A 694 REMARK 465 GLN A 695 REMARK 465 MET A 696 REMARK 465 SER A 697 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 1035 O HOH A 1257 2.12 REMARK 500 O HOH A 1175 O HOH A 1304 2.13 REMARK 500 O HOH A 1226 O HOH A 1304 2.17 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 HIS A 682 -109.00 49.24 REMARK 500 MET A 701 42.03 -76.59 REMARK 500 SER A 702 -5.56 -141.72 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 A1368 DISTANCE = 6.23 ANGSTROMS REMARK 525 HOH A1369 DISTANCE = 6.26 ANGSTROMS REMARK 525 HOH A1370 DISTANCE = 6.76 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 MG A 803 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 580 OD1 REMARK 620 2 ASP A 580 OD2 54.6 REMARK 620 3 ADP A 801 O1B 82.1 88.2 REMARK 620 4 ADP A 801 O1A 106.3 160.9 87.3 REMARK 620 5 HOH A1115 O 152.8 99.5 107.7 99.6 REMARK 620 6 HOH A1152 O 90.5 85.4 172.2 97.3 77.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 802 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ADP A 801 O2A REMARK 620 2 HOH A 981 O 174.3 REMARK 620 3 HOH A 990 O 92.9 90.2 REMARK 620 4 HOH A1060 O 94.0 83.2 172.7 REMARK 620 5 HOH A1141 O 94.8 90.1 89.9 87.2 REMARK 620 6 HOH A1202 O 94.5 80.6 89.9 92.0 170.7 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ADP A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 805 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 806 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 807 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 808 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 809 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 810 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 811 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 812 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 813 DBREF 5ERR A 318 736 UNP Q03555 GEPH_RAT 318 736 SEQRES 1 A 419 MET SER PRO PHE PRO LEU THR SER MET ASP LYS ALA PHE SEQRES 2 A 419 ILE THR VAL LEU GLU MET THR PRO VAL LEU GLY THR GLU SEQRES 3 A 419 ILE ILE ASN TYR ARG ASP GLY MET GLY ARG VAL LEU ALA SEQRES 4 A 419 GLN ASP VAL TYR ALA LYS ASP ASN LEU PRO PRO PHE PRO SEQRES 5 A 419 ALA SER VAL LYS ASP GLY TYR ALA VAL ARG ALA ALA ASP SEQRES 6 A 419 GLY PRO GLY ASP ARG PHE ILE ILE GLY GLU SER GLN ALA SEQRES 7 A 419 GLY GLU GLN PRO THR GLN THR VAL MET PRO GLY GLN VAL SEQRES 8 A 419 MET ARG VAL THR THR GLY ALA PRO ILE PRO CYS GLY ALA SEQRES 9 A 419 ASP ALA VAL VAL GLN VAL GLU ASP THR GLU LEU ILE ARG SEQRES 10 A 419 GLU SER ASP ASP GLY THR GLU GLU LEU GLU VAL ARG ILE SEQRES 11 A 419 LEU VAL GLN ALA ARG PRO GLY GLN ASP ILE ARG PRO ILE SEQRES 12 A 419 GLY HIS ASP ILE LYS ARG GLY GLU CYS VAL LEU ALA LYS SEQRES 13 A 419 GLY THR HIS MET GLY PRO SER GLU ILE GLY LEU LEU ALA SEQRES 14 A 419 THR VAL GLY VAL THR GLU VAL GLU VAL ASN LYS PHE PRO SEQRES 15 A 419 VAL VAL ALA VAL MET SER THR GLY ASN GLU LEU LEU ASN SEQRES 16 A 419 PRO GLU ASP ASP LEU LEU PRO GLY LYS ILE ARG ASP SER SEQRES 17 A 419 ASN ARG SER THR LEU LEU ALA THR ILE GLN GLU HIS GLY SEQRES 18 A 419 TYR PRO THR ILE ASN LEU GLY ILE VAL GLY ASP ASN PRO SEQRES 19 A 419 ASP ASP LEU LEU ASN ALA LEU ASN GLU GLY ILE SER ARG SEQRES 20 A 419 ALA ASP VAL ILE ILE THR SER GLY GLY VAL SER MET GLY SEQRES 21 A 419 GLU LYS ASP TYR LEU LYS GLN VAL LEU ASP ILE ASP LEU SEQRES 22 A 419 HIS ALA GLN ILE HIS PHE GLY ARG VAL PHE MET LYS PRO SEQRES 23 A 419 GLY LEU PRO THR THR PHE ALA THR LEU ASP ILE ASP GLY SEQRES 24 A 419 VAL ARG LYS ILE ILE PHE ALA LEU PRO GLY ASN PRO VAL SEQRES 25 A 419 SER ALA VAL VAL THR CYS ASN LEU PHE VAL VAL PRO ALA SEQRES 26 A 419 LEU ARG LYS MET GLN GLY ILE LEU ASP PRO ARG PRO THR SEQRES 27 A 419 ILE ILE LYS ALA ARG LEU SER CYS ASP VAL LYS LEU ASP SEQRES 28 A 419 PRO ARG PRO GLU TYR HIS ARG CYS ILE LEU THR TRP HIS SEQRES 29 A 419 HIS GLN GLU PRO LEU PRO TRP ALA GLN SER THR GLY ASN SEQRES 30 A 419 GLN MET SER SER ARG LEU MET SER MET ARG SER ALA ASN SEQRES 31 A 419 GLY LEU LEU MET LEU PRO PRO LYS THR GLU GLN TYR VAL SEQRES 32 A 419 GLU LEU HIS LYS GLY GLU VAL VAL ASP VAL MET VAL ILE SEQRES 33 A 419 GLY ARG LEU HET ADP A 801 39 HET MG A 802 1 HET MG A 803 1 HET ACT A 804 7 HET ACT A 805 7 HET ACT A 806 7 HET ACT A 807 7 HET MPD A 808 22 HET MPD A 809 22 HET MPD A 810 22 HET MPD A 811 22 HET MPD A 812 22 HET PO4 A 813 5 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM ACT ACETATE ION HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM PO4 PHOSPHATE ION FORMUL 2 ADP C10 H15 N5 O10 P2 FORMUL 3 MG 2(MG 2+) FORMUL 5 ACT 4(C2 H3 O2 1-) FORMUL 9 MPD 5(C6 H14 O2) FORMUL 14 PO4 O4 P 3- FORMUL 15 HOH *470(H2 O) HELIX 1 AA1 SER A 325 THR A 337 1 13 HELIX 2 AA2 ARG A 348 GLY A 350 5 3 HELIX 3 AA3 ARG A 379 GLY A 383 5 5 HELIX 4 AA4 GLY A 478 GLY A 489 1 12 HELIX 5 AA5 SER A 525 HIS A 537 1 13 HELIX 6 AA6 ASN A 550 ALA A 565 1 16 HELIX 7 AA7 TYR A 581 ASP A 589 1 9 HELIX 8 AA8 ASN A 627 GLN A 647 1 21 SHEET 1 AA1 2 LEU A 323 THR A 324 0 SHEET 2 AA1 2 ARG A 598 VAL A 599 1 O ARG A 598 N THR A 324 SHEET 1 AA2 2 THR A 342 ASN A 346 0 SHEET 2 AA2 2 GLU A 492 ASN A 496 -1 O VAL A 495 N GLU A 343 SHEET 1 AA3 2 VAL A 359 TYR A 360 0 SHEET 2 AA3 2 CYS A 469 LEU A 471 -1 O LEU A 471 N VAL A 359 SHEET 1 AA4 2 ALA A 370 SER A 371 0 SHEET 2 AA4 2 ILE A 457 ARG A 458 -1 O ARG A 458 N ALA A 370 SHEET 1 AA5 6 ALA A 423 GLN A 426 0 SHEET 2 AA5 6 GLY A 375 VAL A 378 -1 N VAL A 378 O ALA A 423 SHEET 3 AA5 6 GLN A 407 VAL A 411 -1 O MET A 409 N ALA A 377 SHEET 4 AA5 6 GLY A 385 SER A 393 1 N SER A 393 O ARG A 410 SHEET 5 AA5 6 GLU A 442 ILE A 447 -1 O ILE A 447 N GLY A 385 SHEET 6 AA5 6 THR A 430 GLU A 435 -1 N GLU A 431 O ARG A 446 SHEET 1 AA6 6 THR A 541 VAL A 547 0 SHEET 2 AA6 6 VAL A 501 THR A 506 1 N VAL A 503 O LEU A 544 SHEET 3 AA6 6 VAL A 567 SER A 571 1 O ILE A 569 N ALA A 502 SHEET 4 AA6 6 VAL A 617 LEU A 624 1 O LEU A 624 N THR A 570 SHEET 5 AA6 6 THR A 608 ILE A 614 -1 N LEU A 612 O LYS A 619 SHEET 6 AA6 6 GLN A 593 PHE A 596 -1 N GLN A 593 O THR A 611 SHEET 1 AA7 2 LEU A 510 LEU A 511 0 SHEET 2 AA7 2 ILE A 522 ARG A 523 1 O ILE A 522 N LEU A 511 SHEET 1 AA8 6 ILE A 656 LEU A 661 0 SHEET 2 AA8 6 TRP A 688 SER A 691 1 O ALA A 689 N ARG A 660 SHEET 3 AA8 6 GLU A 672 THR A 679 -1 N THR A 679 O TRP A 688 SHEET 4 AA8 6 GLY A 708 LEU A 712 -1 O LEU A 710 N HIS A 674 SHEET 5 AA8 6 VAL A 727 VAL A 732 -1 O MET A 731 N LEU A 709 SHEET 6 AA8 6 ILE A 656 LEU A 661 -1 N ALA A 659 O VAL A 728 SHEET 1 AA9 2 VAL A 665 LYS A 666 0 SHEET 2 AA9 2 GLU A 721 LEU A 722 -1 O LEU A 722 N VAL A 665 LINK OD1 ASP A 580 MG MG A 803 1555 1555 2.44 LINK OD2 ASP A 580 MG MG A 803 1555 1555 2.32 LINK O2A ADP A 801 MG MG A 802 1555 1555 2.01 LINK O1B ADP A 801 MG MG A 803 1555 1555 2.06 LINK O1A ADP A 801 MG MG A 803 1555 1555 2.00 LINK MG MG A 802 O HOH A 981 1555 1555 2.13 LINK MG MG A 802 O HOH A 990 1555 1555 2.01 LINK MG MG A 802 O HOH A1060 1555 1555 2.15 LINK MG MG A 802 O HOH A1141 1555 1555 2.04 LINK MG MG A 802 O HOH A1202 1555 1555 2.11 LINK MG MG A 803 O HOH A1115 1555 3659 2.06 LINK MG MG A 803 O HOH A1152 1555 3659 2.23 CISPEP 1 SER A 319 PRO A 320 0 -1.53 CISPEP 2 LEU A 365 PRO A 366 0 -7.25 CISPEP 3 LYS A 602 PRO A 603 0 -8.09 SITE 1 AC1 28 SER A 505 GLU A 509 LEU A 510 ILE A 522 SITE 2 AC1 28 ASP A 524 SER A 525 ASN A 526 GLY A 572 SITE 3 AC1 28 GLY A 573 VAL A 574 SER A 575 ASP A 580 SITE 4 AC1 28 PRO A 625 GLY A 626 ASN A 627 PRO A 628 SITE 5 AC1 28 MG A 802 MG A 803 HOH A 927 HOH A 990 SITE 6 AC1 28 HOH A1060 HOH A1096 HOH A1104 HOH A1105 SITE 7 AC1 28 HOH A1131 HOH A1141 HOH A1196 HOH A1202 SITE 1 AC2 6 ADP A 801 HOH A 981 HOH A 990 HOH A1060 SITE 2 AC2 6 HOH A1141 HOH A1202 SITE 1 AC3 3 SER A 575 ASP A 580 ADP A 801 SITE 1 AC4 4 MET A 326 MET A 711 HOH A 982 HOH A1345 SITE 1 AC5 1 LEU A 323 SITE 1 AC6 4 SER A 662 CYS A 663 ALA A 689 SER A 691 SITE 1 AC7 3 MET A 336 THR A 337 HOH A1116 SITE 1 AC8 5 HIS A 476 ARG A 644 THR A 655 HOH A 913 SITE 2 AC8 5 HOH A1181 SITE 1 AC9 4 CYS A 469 VAL A 470 LEU A 471 ALA A 472 SITE 1 AD1 2 GLU A 514 HOH A 911 SITE 1 AD2 5 SER A 525 ARG A 675 HOH A 942 HOH A1242 SITE 2 AD2 5 HOH A1361 SITE 1 AD3 5 GLY A 604 LEU A 605 ARG A 670 HOH A1268 SITE 2 AD3 5 HOH A1290 SITE 1 AD4 4 VAL A 500 ASP A 566 LYS A 619 HOH A 906 CRYST1 87.681 99.534 113.029 90.00 90.00 90.00 I 2 2 2 8 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 0.011405 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010047 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008847 0.00000