HEADER SIGNALING PROTEIN 23-DEC-16 5MRH TITLE CRYSTAL STRUCTURE OF THE VPS10P DOMAIN OF HUMAN SORTILIN/NTS3 IN TITLE 2 COMPLEX WITH TRIAZOLONE 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SORTILIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 100 KDA NT RECEPTOR,GLYCOPROTEIN 95,GP95,NEUROTENSIN COMPND 5 RECEPTOR 3,NTR3; COMPND 6 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: SORT1; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: HEK293 KEYWDS RECEPTOR, VSP10P, SORTILIN, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.L.ANDERSEN,D.STRANDBYGAARD,S.THIRUP REVDAT 4 17-JAN-24 5MRH 1 HETSYN REVDAT 3 29-JUL-20 5MRH 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE ATOM REVDAT 2 09-AUG-17 5MRH 1 JRNL REMARK REVDAT 1 17-MAY-17 5MRH 0 JRNL AUTH J.L.ANDERSEN,S.LINDBERG,M.LANGGARD,P.J.MALTAS,L.C.B.RONN, JRNL AUTH 2 C.BUNDGAARD,D.STRANDBYGAARD,S.THIRUP,S.P.WATSON JRNL TITL THE IDENTIFICATION OF NOVEL ACID ISOSTERE BASED INHIBITORS JRNL TITL 2 OF THE VPS10P FAMILY SORTING RECEPTOR SORTILIN. JRNL REF BIOORG. MED. CHEM. LETT. V. 27 2629 2017 JRNL REFN ESSN 1464-3405 JRNL PMID 28462834 JRNL DOI 10.1016/J.BMCL.2017.02.028 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (DEV_2614: ???) 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.13 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 38072 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.212 REMARK 3 R VALUE (WORKING SET) : 0.211 REMARK 3 FREE R VALUE : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1903 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 40.1383 - 6.0191 0.91 2480 131 0.1999 0.1776 REMARK 3 2 6.0191 - 4.7801 0.99 2633 138 0.1715 0.1995 REMARK 3 3 4.7801 - 4.1766 0.99 2627 138 0.1597 0.1758 REMARK 3 4 4.1766 - 3.7950 0.98 2552 135 0.1942 0.2574 REMARK 3 5 3.7950 - 3.5232 0.98 2578 136 0.2114 0.2476 REMARK 3 6 3.5232 - 3.3156 0.98 2586 136 0.2393 0.2629 REMARK 3 7 3.3156 - 3.1496 0.99 2616 137 0.2486 0.2992 REMARK 3 8 3.1496 - 3.0125 0.99 2577 137 0.2644 0.2961 REMARK 3 9 3.0125 - 2.8966 0.99 2597 136 0.2664 0.2723 REMARK 3 10 2.8966 - 2.7967 0.99 2582 135 0.2857 0.3489 REMARK 3 11 2.7967 - 2.7092 0.99 2617 138 0.2950 0.3003 REMARK 3 12 2.7092 - 2.6318 0.98 2575 135 0.3228 0.3757 REMARK 3 13 2.6318 - 2.5625 0.99 2590 137 0.3310 0.4042 REMARK 3 14 2.5625 - 2.5000 0.99 2559 134 0.3693 0.3983 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.380 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.640 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 71.00 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 : 0.004 5227 REMARK 3 ANGLE : 0.936 7084 REMARK 3 CHIRALITY : 0.057 778 REMARK 3 PLANARITY : 0.008 905 REMARK 3 DIHEDRAL : 17.039 3078 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 55 THROUGH 193 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.5160 32.4886 41.8724 REMARK 3 T TENSOR REMARK 3 T11: 1.0638 T22: 1.0414 REMARK 3 T33: 0.6168 T12: -0.3130 REMARK 3 T13: -0.1922 T23: -0.0357 REMARK 3 L TENSOR REMARK 3 L11: 2.2041 L22: 5.3475 REMARK 3 L33: 3.0335 L12: -1.4526 REMARK 3 L13: -0.4355 L23: -0.4655 REMARK 3 S TENSOR REMARK 3 S11: 0.1183 S12: -0.7316 S13: -0.0601 REMARK 3 S21: 1.0358 S22: 0.0977 S23: -0.4115 REMARK 3 S31: -0.2734 S32: 0.5807 S33: -0.2809 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 194 THROUGH 352 ) REMARK 3 ORIGIN FOR THE GROUP (A): -26.6767 45.5908 15.6108 REMARK 3 T TENSOR REMARK 3 T11: 0.7696 T22: 0.5138 REMARK 3 T33: 0.6381 T12: 0.0763 REMARK 3 T13: 0.1661 T23: 0.0804 REMARK 3 L TENSOR REMARK 3 L11: 2.4747 L22: 3.2992 REMARK 3 L33: 5.1744 L12: 0.2985 REMARK 3 L13: 0.1030 L23: 0.8384 REMARK 3 S TENSOR REMARK 3 S11: 0.2503 S12: 0.4214 S13: 0.4733 REMARK 3 S21: -0.0537 S22: -0.1496 S23: 0.0188 REMARK 3 S31: -1.2970 S32: -0.3207 S33: -0.0653 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 353 THROUGH 397 ) REMARK 3 ORIGIN FOR THE GROUP (A): -29.7489 21.7990 10.5243 REMARK 3 T TENSOR REMARK 3 T11: 0.4665 T22: 0.9338 REMARK 3 T33: 0.5893 T12: -0.0579 REMARK 3 T13: 0.0707 T23: -0.0398 REMARK 3 L TENSOR REMARK 3 L11: 2.7624 L22: 8.3117 REMARK 3 L33: 5.6382 L12: -1.7998 REMARK 3 L13: -1.1662 L23: -1.9756 REMARK 3 S TENSOR REMARK 3 S11: 0.1307 S12: 0.3280 S13: -0.0295 REMARK 3 S21: 0.1934 S22: -0.2158 S23: 0.4350 REMARK 3 S31: -0.2125 S32: -0.9041 S33: 0.0375 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 398 THROUGH 470 ) REMARK 3 ORIGIN FOR THE GROUP (A): -27.8380 10.5882 15.1058 REMARK 3 T TENSOR REMARK 3 T11: 0.5251 T22: 0.7092 REMARK 3 T33: 0.5995 T12: -0.1780 REMARK 3 T13: 0.0515 T23: -0.0379 REMARK 3 L TENSOR REMARK 3 L11: 5.3037 L22: 4.9399 REMARK 3 L33: 4.3640 L12: 0.7717 REMARK 3 L13: -1.0057 L23: -0.4394 REMARK 3 S TENSOR REMARK 3 S11: -0.0639 S12: 0.3870 S13: -0.7447 REMARK 3 S21: 0.1080 S22: -0.0943 S23: 0.0038 REMARK 3 S31: 0.8576 S32: -0.7145 S33: 0.0946 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 471 THROUGH 627 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.8296 10.6323 25.0061 REMARK 3 T TENSOR REMARK 3 T11: 0.7476 T22: 0.7408 REMARK 3 T33: 0.8284 T12: 0.0113 REMARK 3 T13: -0.1422 T23: 0.2044 REMARK 3 L TENSOR REMARK 3 L11: 2.3619 L22: 1.8203 REMARK 3 L33: 5.1968 L12: -0.1491 REMARK 3 L13: -1.1364 L23: 0.0683 REMARK 3 S TENSOR REMARK 3 S11: 0.1115 S12: -0.2845 S13: -0.3278 REMARK 3 S21: 0.6038 S22: -0.1535 S23: -0.7185 REMARK 3 S31: 0.6972 S32: 0.7810 S33: 0.1020 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 628 THROUGH 662 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.8392 27.4395 -9.4898 REMARK 3 T TENSOR REMARK 3 T11: 0.8313 T22: 1.6712 REMARK 3 T33: 1.1123 T12: 0.4075 REMARK 3 T13: 0.1878 T23: 0.0727 REMARK 3 L TENSOR REMARK 3 L11: 4.1894 L22: 6.4741 REMARK 3 L33: 2.8238 L12: -5.1463 REMARK 3 L13: 1.0877 L23: -0.8742 REMARK 3 S TENSOR REMARK 3 S11: 0.7924 S12: 0.2325 S13: -0.6705 REMARK 3 S21: -1.1731 S22: -0.9869 S23: 0.3190 REMARK 3 S31: -0.3593 S32: -0.6839 S33: 0.1100 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 663 THROUGH 715 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.0401 39.7647 -10.9397 REMARK 3 T TENSOR REMARK 3 T11: 0.7510 T22: 1.4631 REMARK 3 T33: 1.1454 T12: 0.2860 REMARK 3 T13: 0.3071 T23: 0.3477 REMARK 3 L TENSOR REMARK 3 L11: 1.9631 L22: 0.7604 REMARK 3 L33: 0.5739 L12: -1.2039 REMARK 3 L13: 1.0762 L23: -0.6724 REMARK 3 S TENSOR REMARK 3 S11: 0.6996 S12: 1.3046 S13: 0.5285 REMARK 3 S21: -0.4704 S22: -1.1694 S23: -0.8711 REMARK 3 S31: 0.0007 S32: 0.3663 S33: 0.1995 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 5MRH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-DEC-16. REMARK 100 THE DEPOSITION ID IS D_1200002892. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-FEB-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX II REMARK 200 BEAMLINE : I911-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38075 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 66.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.95600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.200 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: 3F6K REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES-TRIS PH=7.3 0.4 M SODIUM REMARK 280 MALONATE 22 % (W/V) PEG 3350 8 (V/V) GLYCEROL, PH 7.3, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z 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 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 81.19750 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.11500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 81.19750 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 39.11500 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1630 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 22.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 SER A 45 REMARK 465 ALA A 46 REMARK 465 PRO A 47 REMARK 465 GLY A 48 REMARK 465 GLU A 49 REMARK 465 ASP A 50 REMARK 465 GLU A 51 REMARK 465 GLU A 52 REMARK 465 CYS A 53 REMARK 465 GLY A 54 REMARK 465 ASP A 73 REMARK 465 ASP A 74 REMARK 465 LEU A 75 REMARK 465 ARG A 76 REMARK 465 LEU A 101 REMARK 465 VAL A 102 REMARK 465 ILE A 103 REMARK 465 MET A 104 REMARK 465 THR A 105 REMARK 465 PHE A 106 REMARK 465 GLU A 557 REMARK 465 SER A 558 REMARK 465 PHE A 559 REMARK 465 LEU A 560 REMARK 465 THR A 561 REMARK 465 SER A 562 REMARK 465 GLN A 563 REMARK 465 TYR A 671 REMARK 465 GLY A 672 REMARK 465 ARG A 673 REMARK 465 GLU A 674 REMARK 465 GLU A 675 REMARK 465 LYS A 716 REMARK 465 GLN A 717 REMARK 465 ASN A 718 REMARK 465 SER A 719 REMARK 465 LYS A 720 REMARK 465 SER A 721 REMARK 465 ASN A 722 REMARK 465 SER A 723 REMARK 465 GLY A 724 REMARK 465 SER A 725 REMARK 465 ALA A 726 REMARK 465 MET A 727 REMARK 465 ILE A 728 REMARK 465 GLU A 729 REMARK 465 GLY A 730 REMARK 465 ARG A 731 REMARK 465 GLY A 732 REMARK 465 VAL A 733 REMARK 465 GLY A 734 REMARK 465 HIS A 735 REMARK 465 HIS A 736 REMARK 465 HIS A 737 REMARK 465 HIS A 738 REMARK 465 HIS A 739 REMARK 465 HIS A 740 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 931 O HOH A 956 2.18 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 CYS A 224 CA - CB - SG ANGL. DEV. = 10.8 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 130 17.79 54.36 REMARK 500 GLU A 144 -87.22 -3.27 REMARK 500 ALA A 431 -146.92 -130.60 REMARK 500 ASP A 652 -154.50 10.44 REMARK 500 REMARK 500 REMARK: NULL DBREF 5MRH A 45 723 UNP Q99523 SORT_HUMAN 78 756 SEQADV 5MRH MET A 617 UNP Q99523 VAL 650 CONFLICT SEQADV 5MRH GLY A 724 UNP Q99523 EXPRESSION TAG SEQADV 5MRH SER A 725 UNP Q99523 EXPRESSION TAG SEQADV 5MRH ALA A 726 UNP Q99523 EXPRESSION TAG SEQADV 5MRH MET A 727 UNP Q99523 EXPRESSION TAG SEQADV 5MRH ILE A 728 UNP Q99523 EXPRESSION TAG SEQADV 5MRH GLU A 729 UNP Q99523 EXPRESSION TAG SEQADV 5MRH GLY A 730 UNP Q99523 EXPRESSION TAG SEQADV 5MRH ARG A 731 UNP Q99523 EXPRESSION TAG SEQADV 5MRH GLY A 732 UNP Q99523 EXPRESSION TAG SEQADV 5MRH VAL A 733 UNP Q99523 EXPRESSION TAG SEQADV 5MRH GLY A 734 UNP Q99523 EXPRESSION TAG SEQADV 5MRH HIS A 735 UNP Q99523 EXPRESSION TAG SEQADV 5MRH HIS A 736 UNP Q99523 EXPRESSION TAG SEQADV 5MRH HIS A 737 UNP Q99523 EXPRESSION TAG SEQADV 5MRH HIS A 738 UNP Q99523 EXPRESSION TAG SEQADV 5MRH HIS A 739 UNP Q99523 EXPRESSION TAG SEQADV 5MRH HIS A 740 UNP Q99523 EXPRESSION TAG SEQRES 1 A 696 SER ALA PRO GLY GLU ASP GLU GLU CYS GLY ARG VAL ARG SEQRES 2 A 696 ASP PHE VAL ALA LYS LEU ALA ASN ASN THR HIS GLN HIS SEQRES 3 A 696 VAL PHE ASP ASP LEU ARG GLY SER VAL SER LEU SER TRP SEQRES 4 A 696 VAL GLY ASP SER THR GLY VAL ILE LEU VAL LEU THR THR SEQRES 5 A 696 PHE HIS VAL PRO LEU VAL ILE MET THR PHE GLY GLN SER SEQRES 6 A 696 LYS LEU TYR ARG SER GLU ASP TYR GLY LYS ASN PHE LYS SEQRES 7 A 696 ASP ILE THR ASP LEU ILE ASN ASN THR PHE ILE ARG THR SEQRES 8 A 696 GLU PHE GLY MET ALA ILE GLY PRO GLU ASN SER GLY LYS SEQRES 9 A 696 VAL VAL LEU THR ALA GLU VAL SER GLY GLY SER ARG GLY SEQRES 10 A 696 GLY ARG ILE PHE ARG SER SER ASP PHE ALA LYS ASN PHE SEQRES 11 A 696 VAL GLN THR ASP LEU PRO PHE HIS PRO LEU THR GLN MET SEQRES 12 A 696 MET TYR SER PRO GLN ASN SER ASP TYR LEU LEU ALA LEU SEQRES 13 A 696 SER THR GLU ASN GLY LEU TRP VAL SER LYS ASN PHE GLY SEQRES 14 A 696 GLY LYS TRP GLU GLU ILE HIS LYS ALA VAL CYS LEU ALA SEQRES 15 A 696 LYS TRP GLY SER ASP ASN THR ILE PHE PHE THR THR TYR SEQRES 16 A 696 ALA ASN GLY SER CYS LYS ALA ASP LEU GLY ALA LEU GLU SEQRES 17 A 696 LEU TRP ARG THR SER ASP LEU GLY LYS SER PHE LYS THR SEQRES 18 A 696 ILE GLY VAL LYS ILE TYR SER PHE GLY LEU GLY GLY ARG SEQRES 19 A 696 PHE LEU PHE ALA SER VAL MET ALA ASP LYS ASP THR THR SEQRES 20 A 696 ARG ARG ILE HIS VAL SER THR ASP GLN GLY ASP THR TRP SEQRES 21 A 696 SER MET ALA GLN LEU PRO SER VAL GLY GLN GLU GLN PHE SEQRES 22 A 696 TYR SER ILE LEU ALA ALA ASN ASP ASP MET VAL PHE MET SEQRES 23 A 696 HIS VAL ASP GLU PRO GLY ASP THR GLY PHE GLY THR ILE SEQRES 24 A 696 PHE THR SER ASP ASP ARG GLY ILE VAL TYR SER LYS SER SEQRES 25 A 696 LEU ASP ARG HIS LEU TYR THR THR THR GLY GLY GLU THR SEQRES 26 A 696 ASP PHE THR ASN VAL THR SER LEU ARG GLY VAL TYR ILE SEQRES 27 A 696 THR SER VAL LEU SER GLU ASP ASN SER ILE GLN THR MET SEQRES 28 A 696 ILE THR PHE ASP GLN GLY GLY ARG TRP THR HIS LEU ARG SEQRES 29 A 696 LYS PRO GLU ASN SER GLU CYS ASP ALA THR ALA LYS ASN SEQRES 30 A 696 LYS ASN GLU CYS SER LEU HIS ILE HIS ALA SER TYR SER SEQRES 31 A 696 ILE SER GLN LYS LEU ASN VAL PRO MET ALA PRO LEU SER SEQRES 32 A 696 GLU PRO ASN ALA VAL GLY ILE VAL ILE ALA HIS GLY SER SEQRES 33 A 696 VAL GLY ASP ALA ILE SER VAL MET VAL PRO ASP VAL TYR SEQRES 34 A 696 ILE SER ASP ASP GLY GLY TYR SER TRP THR LYS MET LEU SEQRES 35 A 696 GLU GLY PRO HIS TYR TYR THR ILE LEU ASP SER GLY GLY SEQRES 36 A 696 ILE ILE VAL ALA ILE GLU HIS SER SER ARG PRO ILE ASN SEQRES 37 A 696 VAL ILE LYS PHE SER THR ASP GLU GLY GLN CYS TRP GLN SEQRES 38 A 696 THR TYR THR PHE THR ARG ASP PRO ILE TYR PHE THR GLY SEQRES 39 A 696 LEU ALA SER GLU PRO GLY ALA ARG SER MET ASN ILE SER SEQRES 40 A 696 ILE TRP GLY PHE THR GLU SER PHE LEU THR SER GLN TRP SEQRES 41 A 696 VAL SER TYR THR ILE ASP PHE LYS ASP ILE LEU GLU ARG SEQRES 42 A 696 ASN CYS GLU GLU LYS ASP TYR THR ILE TRP LEU ALA HIS SEQRES 43 A 696 SER THR ASP PRO GLU ASP TYR GLU ASP GLY CYS ILE LEU SEQRES 44 A 696 GLY TYR LYS GLU GLN PHE LEU ARG LEU ARG LYS SER SER SEQRES 45 A 696 MET CYS GLN ASN GLY ARG ASP TYR VAL VAL THR LYS GLN SEQRES 46 A 696 PRO SER ILE CYS LEU CYS SER LEU GLU ASP PHE LEU CYS SEQRES 47 A 696 ASP PHE GLY TYR TYR ARG PRO GLU ASN ASP SER LYS CYS SEQRES 48 A 696 VAL GLU GLN PRO GLU LEU LYS GLY HIS ASP LEU GLU PHE SEQRES 49 A 696 CYS LEU TYR GLY ARG GLU GLU HIS LEU THR THR ASN GLY SEQRES 50 A 696 TYR ARG LYS ILE PRO GLY ASP LYS CYS GLN GLY GLY VAL SEQRES 51 A 696 ASN PRO VAL ARG GLU VAL LYS ASP LEU LYS LYS LYS CYS SEQRES 52 A 696 THR SER ASN PHE LEU SER PRO GLU LYS GLN ASN SER LYS SEQRES 53 A 696 SER ASN SER GLY SER ALA MET ILE GLU GLY ARG GLY VAL SEQRES 54 A 696 GLY HIS HIS HIS HIS HIS HIS HET NAG B 1 14 HET NAG B 2 14 HET NAG C 1 14 HET NAG C 2 14 HET Q9Z A 805 11 HET PGE A 806 10 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM Q9Z 3-(3-METHYLBUTYL)-4~{H}-1,2,3-TRIAZOL-5-ONE HETNAM PGE TRIETHYLENE GLYCOL HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 2 NAG 4(C8 H15 N O6) FORMUL 4 Q9Z C7 H13 N3 O FORMUL 5 PGE C6 H14 O4 FORMUL 6 HOH *57(H2 O) HELIX 1 AA1 ASP A 58 THR A 67 1 10 HELIX 2 AA2 SER A 230 ASN A 232 5 3 HELIX 3 AA3 ALA A 431 GLN A 437 1 7 HELIX 4 AA4 ASP A 496 GLY A 499 5 4 HELIX 5 AA5 GLU A 580 LYS A 582 5 3 HELIX 6 AA6 SER A 636 GLU A 638 5 3 HELIX 7 AA7 GLY A 663 LEU A 670 1 8 HELIX 8 AA8 LEU A 703 THR A 708 1 6 HELIX 9 AA9 SER A 709 PHE A 711 5 3 SHEET 1 AA1 4 HIS A 68 VAL A 71 0 SHEET 2 AA1 4 VAL A 565 ASP A 570 -1 O THR A 568 N HIS A 68 SHEET 3 AA1 4 ASN A 549 PHE A 555 -1 N GLY A 554 O VAL A 565 SHEET 4 AA1 4 TYR A 535 ALA A 540 -1 N TYR A 535 O PHE A 555 SHEET 1 AA2 4 SER A 78 VAL A 84 0 SHEET 2 AA2 4 VAL A 90 THR A 96 -1 O THR A 96 N SER A 78 SHEET 3 AA2 4 SER A 109 SER A 114 -1 O LYS A 110 N THR A 95 SHEET 4 AA2 4 LYS A 122 ASP A 123 -1 O LYS A 122 N ARG A 113 SHEET 1 AA3 4 MET A 139 ILE A 141 0 SHEET 2 AA3 4 VAL A 149 THR A 152 -1 O VAL A 150 N ALA A 140 SHEET 3 AA3 4 ARG A 163 SER A 167 -1 O PHE A 165 N LEU A 151 SHEET 4 AA3 4 VAL A 175 ASP A 178 -1 O VAL A 175 N ARG A 166 SHEET 1 AA4 4 MET A 188 TYR A 189 0 SHEET 2 AA4 4 LEU A 197 LEU A 200 -1 O LEU A 198 N MET A 188 SHEET 3 AA4 4 LEU A 206 SER A 209 -1 O TRP A 207 N ALA A 199 SHEET 4 AA4 4 GLU A 217 HIS A 220 -1 O HIS A 220 N LEU A 206 SHEET 1 AA5 7 VAL A 223 TRP A 228 0 SHEET 2 AA5 7 ILE A 234 THR A 238 -1 O THR A 237 N CYS A 224 SHEET 3 AA5 7 LEU A 251 THR A 256 -1 O TRP A 254 N PHE A 236 SHEET 4 AA5 7 LYS A 264 GLY A 276 -1 O ILE A 270 N LEU A 251 SHEET 5 AA5 7 PHE A 279 MET A 285 -1 O PHE A 281 N GLY A 274 SHEET 6 AA5 7 ARG A 292 SER A 297 -1 O HIS A 295 N ALA A 282 SHEET 7 AA5 7 SER A 305 MET A 306 -1 O SER A 305 N VAL A 296 SHEET 1 AA6 4 TYR A 318 ALA A 323 0 SHEET 2 AA6 4 VAL A 328 ASP A 333 -1 O PHE A 329 N ALA A 322 SHEET 3 AA6 4 PHE A 340 SER A 346 -1 O PHE A 344 N MET A 330 SHEET 4 AA6 4 TYR A 353 LEU A 361 -1 O HIS A 360 N GLY A 341 SHEET 1 AA7 8 THR A 372 ASN A 373 0 SHEET 2 AA7 8 TYR A 381 LEU A 386 -1 O ILE A 382 N THR A 372 SHEET 3 AA7 8 ILE A 392 THR A 397 -1 O MET A 395 N THR A 383 SHEET 4 AA7 8 THR A 405 ARG A 408 -1 O THR A 405 N ILE A 396 SHEET 5 AA7 8 SER A 426 HIS A 430 -1 O LEU A 427 N LEU A 407 SHEET 6 AA7 8 VAL A 455 GLY A 462 -1 O HIS A 458 N HIS A 430 SHEET 7 AA7 8 ASP A 471 SER A 475 -1 O TYR A 473 N ALA A 457 SHEET 8 AA7 8 THR A 483 LEU A 486 -1 O MET A 485 N VAL A 472 SHEET 1 AA8 4 HIS A 490 LEU A 495 0 SHEET 2 AA8 4 ILE A 500 GLU A 505 -1 O ILE A 500 N LEU A 495 SHEET 3 AA8 4 VAL A 513 SER A 517 -1 O LYS A 515 N ALA A 503 SHEET 4 AA8 4 GLN A 525 THR A 528 -1 O TYR A 527 N ILE A 514 SHEET 1 AA9 3 TYR A 584 LEU A 588 0 SHEET 2 AA9 3 TYR A 605 LEU A 612 -1 O PHE A 609 N TRP A 587 SHEET 3 AA9 3 THR A 627 ILE A 632 -1 O SER A 631 N LYS A 606 SHEET 1 AB1 2 PHE A 640 LEU A 641 0 SHEET 2 AB1 2 ARG A 683 LYS A 684 -1 O ARG A 683 N LEU A 641 SHEET 1 AB2 2 TYR A 646 TYR A 647 0 SHEET 2 AB2 2 VAL A 656 GLU A 657 -1 O VAL A 656 N TYR A 647 SHEET 1 AB3 2 THR A 678 THR A 679 0 SHEET 2 AB3 2 LYS A 701 ASP A 702 -1 O LYS A 701 N THR A 679 SSBOND 1 CYS A 224 CYS A 244 1555 1555 2.03 SSBOND 2 CYS A 415 CYS A 425 1555 1555 2.04 SSBOND 3 CYS A 579 CYS A 618 1555 1555 2.04 SSBOND 4 CYS A 601 CYS A 633 1555 1555 2.04 SSBOND 5 CYS A 635 CYS A 690 1555 1555 2.05 SSBOND 6 CYS A 642 CYS A 655 1555 1555 2.06 SSBOND 7 CYS A 669 CYS A 707 1555 1555 2.01 LINK ND2 ASN A 373 C1 NAG B 1 1555 1555 1.43 LINK ND2 ASN A 549 C1 NAG C 1 1555 1555 1.44 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.44 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.44 CRYST1 162.395 78.230 111.796 90.00 127.20 90.00 C 1 2 1 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 0.006158 0.000000 0.004674 0.00000 SCALE2 0.000000 0.012783 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011230 0.00000