PDB Short entry for 1JMO HEADER BLOOD CLOTTING 19-JUL-01 1JMO TITLE CRYSTAL STRUCTURE OF THE HEPARIN COFACTOR II-S195A THROMBIN COMPLEX CAVEAT 1JMO NAG B 1 HAS WRONG CHIRALITY AT ATOM C1 NAG A 482 HAS WRONG CAVEAT 2 1JMO CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: THROMBIN, LIGHT CHAIN; COMPND 3 CHAIN: L; COMPND 4 FRAGMENT: LIGHT CHAIN; COMPND 5 SYNONYM: COAGULATION FACTOR II; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: CONTAINS EXTRA 13 AMINO ACIDS AT THE N-TERMINUS; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: THROMBIN, HEAVY CHAIN; COMPND 10 CHAIN: H; COMPND 11 FRAGMENT: HEAVY CHAIN; COMPND 12 SYNONYM: COAGULATION FACTOR II; COMPND 13 EC: 3.4.21.5; COMPND 14 ENGINEERED: YES; COMPND 15 MUTATION: YES; COMPND 16 MOL_ID: 3; COMPND 17 MOLECULE: HEPARIN COFACTOR II; COMPND 18 CHAIN: A; COMPND 19 SYNONYM: HC-II; PROTEASE INHIBITOR LEUSERPIN 2; HLS2; SERINE (OR COMPND 20 CYSTEINE) PROTEINASE INHIBITOR, CLADE D (HEPARIN COFACTOR), MEMBER 1 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 6 EXPRESSION_SYSTEM_COMMON: CHINESE HAMSTER; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 10029; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: BHK CULTURE; SOURCE 9 EXPRESSION_SYSTEM_ORGAN: KIDNEY; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 15 EXPRESSION_SYSTEM_COMMON: CHINESE HAMSTER; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 10029; SOURCE 17 EXPRESSION_SYSTEM_CELL_LINE: BHK CULTURE; SOURCE 18 EXPRESSION_SYSTEM_ORGAN: KIDNEY; SOURCE 19 MOL_ID: 3; SOURCE 20 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 21 ORGANISM_COMMON: HUMAN; SOURCE 22 ORGANISM_TAXID: 9606; SOURCE 23 OTHER_DETAILS: PLASMA PURIFIED HUMAN HEPARIN COFACTOR II KEYWDS SERPIN, THROMBIN, PROTEASE, INHIBITION, INHIBITOR, BLOOD CLOTTING EXPDTA X-RAY DIFFRACTION AUTHOR T.P.BAGLIN,R.W.CARRELL,C.T.ESMON,J.A.HUNTINGTON REVDAT 6 03-APR-24 1JMO 1 REMARK REVDAT 5 27-OCT-21 1JMO 1 REMARK SEQADV HETSYN REVDAT 4 29-JUL-20 1JMO 1 CAVEAT COMPND REMARK SEQADV REVDAT 4 2 1 HET HETNAM FORMUL LINK REVDAT 4 3 1 SITE ATOM REVDAT 3 13-JUL-11 1JMO 1 VERSN REVDAT 2 24-FEB-09 1JMO 1 VERSN REVDAT 1 30-AUG-02 1JMO 0 JRNL AUTH T.P.BAGLIN,R.W.CARRELL,F.C.CHURCH,C.T.ESMON,J.A.HUNTINGTON JRNL TITL CRYSTAL STRUCTURES OF NATIVE AND THROMBIN-COMPLEXED HEPARIN JRNL TITL 2 COFACTOR II REVEAL A MULTISTEP ALLOSTERIC MECHANISM. JRNL REF PROC.NATL.ACAD.SCI.USA V. 99 11079 2002 JRNL REFN ISSN 0027-8424 JRNL PMID 12169660 JRNL DOI 10.1073/PNAS.162232399 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.44 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 91.2 REMARK 3 NUMBER OF REFLECTIONS : 77077 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.300 REMARK 3 FREE R VALUE TEST SET COUNT : 983 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.34 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 60.80 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3020 REMARK 3 BIN FREE R VALUE : 0.3400 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 105 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.033 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5930 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 97 REMARK 3 SOLVENT ATOMS : 208 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 51.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 55.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.20000 REMARK 3 B22 (A**2) : 3.02000 REMARK 3 B33 (A**2) : -7.22000 REMARK 3 B12 (A**2) : 6.15000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.29 REMARK 3 ESD FROM SIGMAA (A) : 0.33 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.32 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.37 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.406 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ANISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.450 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.452 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.428 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.794 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: MAXIMUM LIKELIHOOD TARGET OF CNS REMARK 4 REMARK 4 1JMO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JUL-01. REMARK 100 THE DEPOSITION ID IS D_1000013943. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JAN-01 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.4880 REMARK 200 MONOCHROMATOR : LIQUID GALLIUM REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 77077 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.2 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : 0.08100 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.21 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.35 REMARK 200 COMPLETENESS FOR SHELL (%) : 62.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.20 REMARK 200 R MERGE FOR SHELL (I) : 0.53900 REMARK 200 R SYM FOR SHELL (I) : 0.43400 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: N-TERMINAL HALF OF NATIVE HEPARIN COFACTOR II AND REMARK 200 NATIVE S195A THROMBIN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 73.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NH4CL, PEG 3350, PH 7.4, VAPOR REMARK 280 DIFFUSION, HANGING DROP AT 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 42.26667 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 84.53333 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 63.40000 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 105.66667 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 21.13333 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -72.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, H, A, B 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 THR L 1U REMARK 465 ARG H 15 REMARK 465 GLY A 1 REMARK 465 SER A 2 REMARK 465 LYS A 3 REMARK 465 GLY A 4 REMARK 465 PRO A 5 REMARK 465 LEU A 6 REMARK 465 ASP A 7 REMARK 465 GLN A 8 REMARK 465 LEU A 9 REMARK 465 GLU A 10 REMARK 465 LYS A 11 REMARK 465 GLY A 12 REMARK 465 GLY A 13 REMARK 465 GLU A 14 REMARK 465 THR A 15 REMARK 465 ALA A 16 REMARK 465 GLN A 17 REMARK 465 SER A 18 REMARK 465 ALA A 19 REMARK 465 ASP A 20 REMARK 465 PRO A 21 REMARK 465 GLN A 22 REMARK 465 TRP A 23 REMARK 465 GLU A 24 REMARK 465 GLN A 25 REMARK 465 LEU A 26 REMARK 465 ASN A 27 REMARK 465 ASN A 28 REMARK 465 LYS A 29 REMARK 465 ASN A 30 REMARK 465 LEU A 31 REMARK 465 SER A 32 REMARK 465 MET A 33 REMARK 465 PRO A 34 REMARK 465 LEU A 35 REMARK 465 LEU A 36 REMARK 465 PRO A 37 REMARK 465 ALA A 38 REMARK 465 ASP A 39 REMARK 465 PHE A 40 REMARK 465 HIS A 41 REMARK 465 LYS A 42 REMARK 465 GLU A 43 REMARK 465 ASN A 44 REMARK 465 THR A 45 REMARK 465 VAL A 46 REMARK 465 THR A 47 REMARK 465 ASN A 48 REMARK 465 ASP A 49 REMARK 465 TRP A 50 REMARK 465 ILE A 51 REMARK 465 PRO A 52 REMARK 465 GLU A 53 REMARK 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 SER A 83 REMARK 475 PRO A 84 REMARK 475 THR A 85 REMARK 475 ASP A 86 REMARK 475 SER A 87 REMARK 475 ASP A 88 REMARK 475 VAL A 89 REMARK 475 SER A 90 REMARK 475 ALA A 91 REMARK 475 GLY A 92 REMARK 475 ASN A 93 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS H 240 CE NZ REMARK 480 LYS A 185 NZ REMARK 480 ASP A 216 OD2 REMARK 480 LYS A 249 CD CE NZ REMARK 480 GLU A 300 OE1 REMARK 480 LYS A 348 CE NZ REMARK 480 ILE A 413 CD1 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 ASP L 14L N - CA - C ANGL. DEV. = 19.4 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 PHE L 7 -86.71 -132.03 REMARK 500 ILE L 14K 79.24 -60.15 REMARK 500 ASP L 14L 161.96 42.85 REMARK 500 ARG H 50 -3.85 -140.57 REMARK 500 TYR H 60A 85.85 -157.45 REMARK 500 ASN H 60G 59.21 -163.08 REMARK 500 HIS H 71 -61.06 -130.84 REMARK 500 ASN H 78 17.30 56.35 REMARK 500 ILE H 79 -54.89 -128.67 REMARK 500 GLU H 97A -61.37 -109.71 REMARK 500 VAL H 147E -52.70 -134.28 REMARK 500 PHE H 245 -12.38 -142.86 REMARK 500 VAL A 82 -177.49 -45.88 REMARK 500 SER A 83 -88.05 -66.37 REMARK 500 THR A 85 -80.74 -123.81 REMARK 500 ASP A 86 100.64 93.69 REMARK 500 ASP A 88 -177.41 176.99 REMARK 500 VAL A 89 106.20 -162.24 REMARK 500 SER A 90 175.64 -51.18 REMARK 500 ALA A 91 -130.88 -110.48 REMARK 500 ASN A 93 47.32 -93.01 REMARK 500 ILE A 94 155.20 -37.90 REMARK 500 LEU A 95 77.98 -109.64 REMARK 500 ASN A 261 61.21 39.92 REMARK 500 THR A 431 -90.13 -49.67 REMARK 500 ALA A 433 -126.14 44.17 REMARK 500 THR A 434 67.55 90.49 REMARK 500 THR A 435 130.60 15.89 REMARK 500 VAL A 436 55.70 -94.71 REMARK 500 THR A 437 179.34 -57.88 REMARK 500 THR A 438 118.71 158.16 REMARK 500 VAL A 439 -135.61 -131.39 REMARK 500 PHE A 441 119.75 -30.91 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 H 501 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS H 224 O REMARK 620 2 HOH H2048 O 122.8 REMARK 620 N 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1JMJ RELATED DB: PDB DBREF 1JMO L 1U 14M UNP P00734 THRB_HUMAN 315 362 DBREF 1JMO H 15 247 UNP P00734 THRB_HUMAN 363 622 DBREF 1JMO A 1 480 UNP P05546 HEP2_HUMAN 20 499 SEQADV 1JMO ALA H 195 UNP P00734 SER 568 ENGINEERED MUTATION SEQADV 1JMO TYS A 60 UNP P05546 TYR 79 MODIFIED RESIDUE SEQADV 1JMO TYS A 73 UNP P05546 TYR 92 MODIFIED RESIDUE SEQRES 1 L 48 THR ALA THR SER GLU TYR GLN THR PHE PHE ASN PRO ARG SEQRES 2 L 48 THR PHE GLY SER GLY GLU ALA ASP CYS GLY LEU ARG PRO SEQRES 3 L 48 LEU PHE GLU LYS LYS SER LEU GLU ASP LYS THR GLU ARG SEQRES 4 L 48 GLU LEU LEU GLU SER TYR ILE ASP GLY SEQRES 1 H 260 ARG ILE VAL GLU GLY SER ASP ALA GLU ILE GLY MET SER SEQRES 2 H 260 PRO TRP GLN VAL MET LEU PHE ARG LYS SER PRO GLN GLU SEQRES 3 H 260 LEU LEU CYS GLY ALA SER LEU ILE SER ASP ARG TRP VAL SEQRES 4 H 260 LEU THR ALA ALA HIS CYS LEU LEU TYR PRO PRO TRP ASP SEQRES 5 H 260 LYS ASN PHE THR GLU ASN ASP LEU LEU VAL ARG ILE GLY SEQRES 6 H 260 LYS HIS SER ARG THR ARG TYR GLU ARG ASN ILE GLU LYS SEQRES 7 H 260 ILE SER MET LEU GLU LYS ILE TYR ILE HIS PRO ARG TYR SEQRES 8 H 260 ASN TRP ARG GLU ASN LEU ASP ARG ASP ILE ALA LEU MET SEQRES 9 H 260 LYS LEU LYS LYS PRO VAL ALA PHE SER ASP TYR ILE HIS SEQRES 10 H 260 PRO VAL CYS LEU PRO ASP ARG GLU THR ALA ALA SER LEU SEQRES 11 H 260 LEU GLN ALA GLY TYR LYS GLY ARG VAL THR GLY TRP GLY SEQRES 12 H 260 ASN LEU LYS GLU THR TRP THR ALA ASN VAL GLY LYS GLY SEQRES 13 H 260 GLN PRO SER VAL LEU GLN VAL VAL ASN LEU PRO ILE VAL SEQRES 14 H 260 GLU ARG PRO VAL CYS LYS ASP SER THR ARG ILE ARG ILE SEQRES 15 H 260 THR ASP ASN MET PHE CYS ALA GLY TYR LYS PRO ASP GLU SEQRES 16 H 260 GLY LYS ARG GLY ASP ALA CYS GLU GLY ASP ALA GLY GLY SEQRES 17 H 260 PRO PHE VAL MET LYS SER PRO PHE ASN ASN ARG TRP TYR SEQRES 18 H 260 GLN MET GLY ILE VAL SER TRP GLY GLU GLY CYS ASP ARG SEQRES 19 H 260 ASP GLY LYS TYR GLY PHE TYR THR HIS VAL PHE ARG LEU SEQRES 20 H 260 LYS LYS TRP ILE GLN LYS VAL ILE ASP GLN PHE GLY GLU SEQRES 1 A 480 GLY SER LYS GLY PRO LEU ASP GLN LEU GLU LYS GLY GLY SEQRES 2 A 480 GLU THR ALA GLN SER ALA ASP PRO GLN TRP GLU GLN LEU SEQRES 3 A 480 ASN ASN LYS ASN LEU SER MET PRO LEU LEU PRO ALA ASP SEQRES 4 A 480 PHE HIS LYS GLU ASN THR VAL THR ASN ASP TRP ILE PRO SEQRES 5 A 480 GLU GLY GLU GLU ASP ASP ASP TYS LEU ASP LEU GLU LYS SEQRES 6 A 480 ILE PHE SER GLU ASP ASP ASP TYS ILE ASP ILE VAL ASP SEQRES 7 A 480 SER LEU SER VAL SER PRO THR ASP SER ASP VAL SER ALA SEQRES 8 A 480 GLY ASN ILE LEU GLN LEU PHE HIS GLY LYS SER ARG ILE SEQRES 9 A 480 GLN ARG LEU ASN ILE LEU ASN ALA LYS PHE ALA PHE ASN SEQRES 10 A 480 LEU TYR ARG VAL LEU LYS ASP GLN VAL ASN THR PHE ASP SEQRES 11 A 480 ASN ILE PHE ILE ALA PRO VAL GLY ILE SER THR ALA MET SEQRES 12 A 480 GLY MET ILE SER LEU GLY LEU LYS GLY GLU THR HIS GLU SEQRES 13 A 480 GLN VAL HIS SER ILE LEU HIS PHE LYS ASP PHE VAL ASN SEQRES 14 A 480 ALA SER SER LYS TYR GLU ILE THR THR ILE HIS ASN LEU SEQRES 15 A 480 PHE ARG LYS LEU THR HIS ARG LEU PHE ARG ARG ASN PHE SEQRES 16 A 480 GLY TYR THR LEU ARG SER VAL ASN ASP LEU TYR ILE GLN SEQRES 17 A 480 LYS GLN PHE PRO ILE LEU LEU ASP PHE LYS THR LYS VAL SEQRES 18 A 480 ARG GLU TYR TYR PHE ALA GLU ALA GLN ILE ALA ASP PHE SEQRES 19 A 480 SER ASP PRO ALA PHE ILE SER LYS THR ASN ASN HIS ILE SEQRES 20 A 480 MET LYS LEU THR LYS GLY LEU ILE LYS ASP ALA LEU GLU SEQRES 21 A 480 ASN ILE ASP PRO ALA THR GLN MET MET ILE LEU ASN CYS SEQRES 22 A 480 ILE TYR PHE LYS GLY SER TRP VAL ASN LYS PHE PRO VAL SEQRES 23 A 480 GLU MET THR HIS ASN HIS ASN PHE ARG LEU ASN GLU ARG SEQRES 24 A 480 GLU VAL VAL LYS VAL SER MET MET GLN THR LYS GLY ASN SEQRES 25 A 480 PHE LEU ALA ALA ASN ASP GLN GLU LEU ASP CYS ASP ILE SEQRES 26 A 480 LEU GLN LEU GLU TYR VAL GLY GLY ILE SER MET LEU ILE SEQRES 27 A 480 VAL VAL PRO HIS LYS MET SER GLY MET LYS THR LEU GLU SEQRES 28 A 480 ALA GLN LEU THR PRO ARG VAL VAL GLU ARG TRP GLN LYS SEQRES 29 A 480 SER MET THR ASN ARG THR ARG GLU VAL LEU LEU PRO LYS SEQRES 30 A 480 PHE LYS LEU GLU LYS ASN TYR ASN LEU VAL GLU SER LEU SEQRES 31 A 480 LYS LEU MET GLY ILE ARG MET LEU PHE ASP LYS ASN GLY SEQRES 32 A 480 ASN MET ALA GLY ILE SER ASP GLN ARG ILE ALA ILE ASP SEQRES 33 A 480 LEU PHE LYS HIS GLN GLY THR ILE THR VAL ASN GLU GLU SEQRES 34 A 480 GLY THR GLN ALA THR THR VAL THR THR VAL GLY PHE MET SEQRES 35 A 480 PRO LEU SER THR GLN VAL ARG PHE THR VAL ASP ARG PRO SEQRES 36 A 480 PHE LEU PHE LEU ILE TYR GLU HIS ARG THR SER CYS LEU SEQRES 37 A 480 LEU PHE MET GLY ARG VAL ALA ASN PRO SER ARG SER MODRES 1JMO ASN H 60G ASN GLYCOSYLATION SITE MODRES 1JMO ASN A 169 ASN GLYCOSYLATION SITE MODRES 1JMO ASN A 368 ASN GLYCOSYLATION SITE MODRES 1JMO TYS A 60 TYR O-SULFO-L-TYROSINE MODRES 1JMO TYS A 73 TYR O-SULFO-L-TYROSINE HET TYS A 60 16 HET TYS A 73 16 HET NAG B 1 14 HET NAG B 2 14 HET NA H 501 1 HET MPD H2003 8 HET MPD H2004 8 HET NAG A 481 14 HET NAG A 482 14 HET MPD A2001 8 HET MPD A2002 8 HET MPD A2005 8 HETNAM TYS O-SULFO-L-TYROSINE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM NA SODIUM ION HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL 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 3 TYS 2(C9 H11 N O6 S) FORMUL 4 NAG 4(C8 H15 N O6) FORMUL 5 NA NA 1+ FORMUL 6 MPD 5(C6 H14 O2) FORMUL 13 HOH *208(H2 O) HELIX 1 1 ASN L 1K GLY L 1F 1 6 HELIX 2 2 PHE L 7 SER L 11 5 5 HELIX 3 3 THR L 14B TYR L 14J 1 9 HELIX 4 4 ALA H 55 CYS H 58 5 4 HELIX 5 5 PRO H 60B ASP H 60E 5 4 HELIX 6 6 THR H 60I ASN H 62 5 3 HELIX 7 7 ASP H 125 LEU H 130 1 9 HELIX 8 8 GLU H 164 THR H 172 1 9 HELIX 9 9 LYS H 185 GLY H 186C 5 5 HELIX 10 10 LEU H 234 GLY H 246 1 13 HELIX 11 11 ASP A 62 GLU A 69 1 8 HELIX 12 12 SER A 102 ASP A 124 1 23 HELIX 13 13 ALA A 135 SER A 147 1 13 HELIX 14 14 LEU A 148 LEU A 150 5 3 HELIX 15 15 LYS A 151 LEU A 162 1 12 HELIX 16 16 HIS A 163 SER A 171 1 9 HELIX 17 17 GLU A 175 ARG A 192 1 18 HELIX 18 18 LEU A 214 PHE A 226 1 13 HELIX 19 19 ASP A 236 THR A 251 1 16 HELIX 20 20 PRO A 285 THR A 289 5 5 HELIX 21 21 LYS A 343 SER A 345 5 3 HELIX 22 22 GLY A 346 LEU A 354 1 9 HELIX 23 23 THR A 355 MET A 366 1 12 HELIX 24 24 LEU A 386 GLY A 394 1 9 HELIX 25 25 ARG A 396 ASP A 400 5 5 SHEET 1 A 7 MET H 180 ALA H 183 0 SHEET 2 A 7 GLY H 226 HIS H 230 -1 O GLY H 226 N ALA H 183 SHEET 3 A 7 TRP H 207 GLU H 217 -1 O ILE H 212 N THR H 229 SHEET 4 A 7 PRO H 198 LYS H 202 -1 N PHE H 199 O GLY H 211 SHEET 5 A 7 LYS H 135 GLY H 140 -1 N ARG H 137 O VAL H 200 SHEET 6 A 7 GLN H 156 PRO H 161 -1 N GLN H 156 O GLY H 140 SHEET 7 A 7 SER H 20 ASP H 21 -1 O SER H 20 N VAL H 157 SHEET 1 B 4 MET H 180 ALA H 183 0 SHEET 2 B 4 GLY H 226 HIS H 230 -1 O GLY H 226 N ALA H 183 SHEET 3 B 4 TRP H 207 GLU H 217 -1 O ILE H 212 N THR H 229 SHEET 4 B 4 PHE A 441 PRO A 443 -1 N MET A 442 O GLY H 216 SHEET 1 C 7 GLN H 30 ARG H 35 0 SHEET 2 C 7 GLU H 39 LEU H 46 -1 O GLU H 39 N ARG H 35 SHEET 3 C 7 TRP H 51 THR H 54 -1 N LEU H 53 O SER H 45 SHEET 4 C 7 ALA H 104 LEU H 108 -1 N ALA H 104 O THR H 54 SHEET 5 C 7 LYS H 81 ILE H 90 -1 N GLU H 86 O LYS H 107 SHEET 6 C 7 LEU H 64 ILE H 68 -1 O LEU H 64 N LEU H 85 SHEET 7 C 7 GLN H 30 ARG H 35 -1 N MET H 32 O ARG H 67 SHEET 1 E 4 ARG A 449 THR A 451 0 SHEET 2 E 4 THR A 367 PRO A 376 1 O GLU A 372 N PHE A 450 SHEET 3 E 4 VAL A 301 ASP A 318 -1 N MET A 307 O LEU A 375 SHEET 4 E 4 HIS A 290 ARG A 295 -1 O HIS A 290 N MET A 306 SHEET 1 F 8 ARG A 449 THR A 451 0 SHEET 2 F 8 THR A 367 PRO A 376 1 O GLU A 372 N PHE A 450 SHEET 3 F 8 VAL A 301 ASP A 318 -1 N MET A 307 O LEU A 375 SHEET 4 F 8 CYS A 323 TYR A 330 -1 O CYS A 323 N ASP A 318 SHEET 5 F 8 ILE A 334 PRO A 341 -1 O ILE A 334 N TYR A 330 SHEET 6 F 8 PHE A 456 GLU A 462 -1 O LEU A 457 N VAL A 339 SHEET 7 F 8 CYS A 467 VAL A 474 -1 O CYS A 467 N GLU A 462 SHEET 8 F 8 ILE A 132 ILE A 134 -1 N ILE A 132 O ARG A 473 SHEET 1 G 5 ALA A 229 ALA A 232 0 SHEET 2 G 5 THR A 198 GLN A 208 1 O LEU A 205 N GLN A 230 SHEET 3 G 5 MET A 268 LYS A 277 -1 O MET A 269 N TYR A 206 SHEET 4 G 5 ILE A 415 VAL A 426 1 N ASP A 416 O MET A 268 SHEET 5 G 5 PHE A 378 GLU A 381 -1 O PHE A 378 N VAL A 426 SHEET 1 H 5 ALA A 229 ALA A 232 0 SHEET 2 H 5 THR A 198 GLN A 208 1 O LEU A 205 N GLN A 230 SHEET 3 H 5 MET A 268 LYS A 277 -1 O MET A 269 N TYR A 206 SHEET 4 H 5 ILE A 415 VAL A 426 1 N ASP A 416 O MET A 268 SHEET 5 H 5 TYR A 384 ASN A 385 -1 N TYR A 384 O HIS A 420 SSBOND 1 CYS L 1 CYS H 122 1555 1555 2.04 SSBOND 2 CYS H 42 CYS H 58 1555 1555 2.06 SSBOND 3 CYS H 168 CYS H 182 1555 1555 2.03 SSBOND 4 CYS H 191 CYS H 220 1555 1555 2.06 LINK ND2 ASN H 60G C1 NAG B 1 1555 1555 1.45 LINK C ASP A 59 N TYS A 60 1555 1555 1.33 LINK C TYS A 60 N LEU A 61 1555 1555 1.32 LINK C ASP A 72 N TYS A 73 1555 1555 1.33 LINK C TYS A 73 N ILE A 74 1555 1555 1.33 LINK ND2 ASN A 169 C1 NAG A 481 1555 1555 1.45 LINK ND2 ASN A 368 C1 NAG A 482 1555 1555 1.46 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.40 LINK O LYS H 224 NA NA H 501 1555 1555 2.64 LINK NA NA H 501 O HOH H2048 1555 1555 2.86 CISPEP 1 SER H 36A PRO H 37 0 0.21 CRYST1 152.310 152.310 126.800 90.00 90.00 120.00 P 61 6 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 0.006566 0.003791 0.000000 0.00000 SCALE2 0.000000 0.007581 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007886 0.00000