PDB Short entry for 1J35 HEADER PROTEIN BINDING/BLOOD CLOTTING 20-JAN-03 1J35 TITLE CRYSTAL STRUCTURE OF CA(II)-BOUND GLA DOMAIN OF FACTOR IX COMPLEXED TITLE 2 WITH BINDING PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: COAGULATION FACTOR IX-BINDING PROTEIN A CHAIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: COAGULATION FACTOR IX BINDING PROTEIN CHAIN A; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: COAGULATION FACTOR IX-BINDING PROTEIN B CHAIN; COMPND 7 CHAIN: B; COMPND 8 MOL_ID: 3; COMPND 9 MOLECULE: COAGULATION FACTOR IX; COMPND 10 CHAIN: C; COMPND 11 FRAGMENT: GLA DOMAIN; COMPND 12 EC: 3.4.21.22 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRIMERESURUS FLAVOVIRIDIS; SOURCE 3 ORGANISM_TAXID: 88087; SOURCE 4 SECRETION: VENOM; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: TRIMERESURUS FLAVOVIRIDIS; SOURCE 7 ORGANISM_TAXID: 88087; SOURCE 8 SECRETION: VENOM; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 11 ORGANISM_COMMON: CATTLE; SOURCE 12 ORGANISM_TAXID: 9913; SOURCE 13 SECRETION: PLASMA KEYWDS MAGNESIUM ION, CALCIUM ION, GLA DOMAIN, PROTEIN BINDING-BLOOD KEYWDS 2 CLOTTING COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Y.SHIKAMOTO,T.MORITA,Z.FUJIMOTO,H.MIZUNO REVDAT 4 15-NOV-23 1J35 1 REMARK REVDAT 3 25-OCT-23 1J35 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 1J35 1 VERSN REVDAT 1 08-JUL-03 1J35 0 JRNL AUTH Y.SHIKAMOTO,T.MORITA,Z.FUJIMOTO,H.MIZUNO JRNL TITL CRYSTAL STRUCTURE OF MG2+- AND CA2+-BOUND GLA DOMAIN OF JRNL TITL 2 FACTOR IX COMPLEXED WITH BINDING PROTEIN JRNL REF J.BIOL.CHEM. V. 278 24090 2003 JRNL REFN ISSN 0021-9258 JRNL PMID 12695512 JRNL DOI 10.1074/JBC.M300650200 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH H.MIZUNO,Z.FUJIMOTO,H.ATODA,T.MORITA REMARK 1 TITL CRYSTAL STRUCTURE OF AN ANTICOAGULANT PROTEIN IN COMPLEX REMARK 1 TITL 2 WITH THE GLA DOMAIN OF FACTOR X REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 98 7230 2001 REMARK 1 REFN ISSN 0027-8424 REMARK 1 DOI 10.1073/PNAS.131179698 REMARK 1 REFERENCE 2 REMARK 1 AUTH H.MIZUNO,Z.FUJIMOTO,M.KOIZUMI,H.KANO,H.ATODA,T.MORITA REMARK 1 TITL CRYSTAL STRUCTURE OF COAGULATION FACTOR IX-BINDING PROTEIN REMARK 1 TITL 2 FROM HABU SNAKE VENOM AT 2.6 A: IMPLICATION OF CENTRAL LOOP REMARK 1 TITL 3 SWAPPING BASED ON DELETION IN THE LINKER REGION REMARK 1 REF J.MOL.BIOL. V. 289 103 1999 REMARK 1 REFN ISSN 0022-2836 REMARK 1 DOI 10.1006/JMBI.1999.2756 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.54 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 445935.960 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 93.5 REMARK 3 NUMBER OF REFLECTIONS : 27413 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) : 0.227 REMARK 3 FREE R VALUE : 0.270 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2739 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.91 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 74.80 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3234 REMARK 3 BIN R VALUE (WORKING SET) : 0.3140 REMARK 3 BIN FREE R VALUE : 0.3360 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.60 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 382 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.017 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2480 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 266 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -8.41000 REMARK 3 B22 (A**2) : 7.69000 REMARK 3 B33 (A**2) : 0.72000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 2.32000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.25 REMARK 3 ESD FROM SIGMAA (A) : 0.26 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) : 0.31 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.27 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.00 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.690 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.470 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.320 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.940 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.860 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.32 REMARK 3 BSOL : 50.82 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1J35 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-JAN-03. REMARK 100 THE DEPOSITION ID IS D_1000005571. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-MAY-01 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.72 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27532 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.9 REMARK 200 DATA REDUNDANCY : 9.500 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.88 REMARK 200 COMPLETENESS FOR SHELL (%) : 72.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.25200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 1IOD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 6000, TRIS-HCL, CALCIUM CHLORIDE, REMARK 280 PH 8, MICROBATCH, TEMPERATURE 293K 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 63.97950 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 19.53700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 63.97950 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 19.53700 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6570 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -133.0 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 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 GLU A 10 65.08 38.40 REMARK 500 GLN A 60 95.07 29.62 REMARK 500 ASN A 61 -34.21 -132.21 REMARK 500 SER A 64 152.31 66.37 REMARK 500 SER A 90 -64.69 -126.42 REMARK 500 PRO B 203 151.80 -46.82 REMARK 500 TYR B 209 119.03 -167.77 REMARK 500 HIS B 234 152.61 175.23 REMARK 500 ARG B 286 -69.40 -128.35 REMARK 500 ALA B 289 47.30 -146.27 REMARK 500 SER B 301 -0.49 -56.85 REMARK 500 LYS C 405 -103.23 -115.14 REMARK 500 ASN C 413 117.57 -163.24 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 CA A 511 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 41 O REMARK 620 2 SER A 41 OG 68.0 REMARK 620 3 GLU A 43 OE1 89.7 70.9 REMARK 620 4 GLU A 47 OE1 63.0 123.9 83.0 REMARK 620 5 GLU A 47 OE2 72.2 137.3 124.2 41.5 REMARK 620 6 GLU A 128 OE1 125.7 108.3 142.4 121.7 83.0 REMARK 620 7 GLU A 128 OE2 79.6 71.4 142.1 122.0 87.1 51.1 REMARK 620 8 HOH A 603 O 137.0 141.3 79.3 74.4 80.1 81.1 131.7 REMARK 620 9 HOH A 823 O 137.1 69.3 79.6 152.7 146.2 66.1 83.9 81.8 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 501 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 98 OE2 REMARK 620 2 HOH B 617 O 84.7 REMARK 620 3 CGU C 426 OE12 102.9 75.1 REMARK 620 4 CGU C 426 OE21 89.7 156.7 84.2 REMARK 620 5 CGU C 430 OE12 86.8 109.7 169.7 92.4 REMARK 620 6 CGU C 430 OE22 170.2 99.7 86.7 89.5 83.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 512 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 241 O REMARK 620 2 SER B 241 OG 73.4 REMARK 620 3 GLN B 243 OE1 76.3 75.3 REMARK 620 4 GLU B 247 OE2 63.3 127.8 67.7 REMARK 620 5 GLU B 247 OE1 72.1 140.8 113.3 45.7 REMARK 620 6 GLU B 320 OE1 127.6 105.3 155.8 123.5 82.0 REMARK 620 7 GLU B 320 OE2 82.6 73.4 146.1 124.7 84.3 49.4 REMARK 620 8 HOH B 822 O 134.8 61.6 88.7 147.2 150.5 71.3 87.6 REMARK 620 9 HOH B 829 O 132.0 142.4 84.3 68.8 76.4 81.2 129.1 87.2 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 502 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 643 O REMARK 620 2 CGU C 408 OE22 82.9 REMARK 620 3 CGU C 408 OE12 82.9 75.1 REMARK 620 4 CGU C 427 OE11 175.6 94.1 99.4 REMARK 620 5 CGU C 430 OE22 86.9 160.6 120.1 95.1 REMARK 620 6 CGU C 430 OE21 103.2 147.1 73.7 81.0 51.8 REMARK 620 7 HOH C 655 O 91.1 83.4 158.2 85.4 80.3 128.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 504 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR C 401 O REMARK 620 2 ASN C 402 OD1 79.5 REMARK 620 3 CGU C 407 OE21 60.7 96.5 REMARK 620 4 CGU C 408 OE11 130.9 80.7 77.7 REMARK 620 5 CGU C 417 OE12 56.9 135.9 69.4 131.8 REMARK 620 6 CGU C 417 OE22 128.9 151.5 97.2 78.1 72.4 REMARK 620 7 CGU C 427 OE12 142.2 79.8 153.3 75.6 130.5 76.7 REMARK 620 8 CGU C 427 OE22 71.8 77.8 132.4 144.5 82.3 109.9 73.0 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 505 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR C 401 O REMARK 620 2 CGU C 407 OE22 69.5 REMARK 620 3 CGU C 407 OE21 82.7 50.4 REMARK 620 4 CGU C 417 OE11 125.1 120.7 73.2 REMARK 620 5 CGU C 417 OE12 75.7 118.6 76.8 51.3 REMARK 620 6 CGU C 421 OE21 126.0 135.2 151.2 86.3 106.3 REMARK 620 7 CGU C 421 OE22 81.5 144.0 147.4 93.1 71.8 51.1 REMARK 620 8 HOH C 692 O 147.0 77.6 75.1 71.2 121.0 79.3 129.3 REMARK 620 9 HOH C 705 O 84.9 75.7 125.6 148.5 148.5 65.8 81.0 88.5 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 503 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CGU C 408 OE12 REMARK 620 2 CGU C 408 OE11 48.9 REMARK 620 3 CGU C 417 OE22 117.9 70.1 REMARK 620 4 CGU C 427 OE12 75.6 68.1 71.4 REMARK 620 5 CGU C 430 OE21 72.9 116.6 140.9 76.1 REMARK 620 6 HOH C 625 O 100.4 75.8 71.5 134.8 146.8 REMARK 620 7 HOH C 636 O 159.6 145.5 75.8 96.5 87.0 98.4 REMARK 620 8 HOH C 661 O 87.6 117.7 137.7 150.9 76.2 71.0 91.1 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 507 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CGU C 415 OE11 REMARK 620 2 CGU C 415 OE22 78.0 REMARK 620 3 CGU C 420 OE21 89.2 88.0 REMARK 620 4 HOH C 776 O 92.7 70.0 157.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 506 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CGU C 421 OE12 REMARK 620 2 CGU C 421 OE21 74.9 REMARK 620 3 HOH C 675 O 68.4 140.6 REMARK 620 4 HOH C 708 O 81.0 70.6 89.6 REMARK 620 5 HOH C 740 O 146.7 78.2 141.2 108.1 REMARK 620 6 HOH C 810 O 134.0 150.9 67.6 111.4 73.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 508 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CGU C 436 OE21 REMARK 620 2 CGU C 436 OE12 75.7 REMARK 620 3 CGU C 440 OE22 89.8 146.9 REMARK 620 4 CGU C 440 OE12 98.4 87.6 64.9 REMARK 620 5 HOH C 654 O 100.2 72.6 140.1 148.3 REMARK 620 6 HOH C 725 O 82.8 132.2 73.3 138.1 69.9 REMARK 620 7 HOH C 840 O 175.8 106.3 86.6 78.1 84.0 98.2 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 511 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 512 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1IOD RELATED DB: PDB REMARK 900 MOLECULAR REPLACEMENT MODEL REMARK 900 RELATED ID: 1BJ3 RELATED DB: PDB REMARK 900 A PART OF THIS COMPLEX REMARK 900 RELATED ID: 1J34 RELATED DB: PDB REMARK 900 THE SAME COMPLEX WITH MG(II) AND CA(II) IONS DBREF 1J35 A 1 129 UNP P23806 IXA_TRIFL 1 129 DBREF 1J35 B 201 323 UNP P23807 IXB_TRIFL 24 146 DBREF 1J35 C 401 446 UNP P00741 FA9_BOVIN 1 46 SEQADV 1J35 CGU C 407 UNP P00741 GLU 7 MODIFIED RESIDUE SEQADV 1J35 CGU C 408 UNP P00741 GLU 8 MODIFIED RESIDUE SEQADV 1J35 CGU C 415 UNP P00741 GLU 15 MODIFIED RESIDUE SEQADV 1J35 CGU C 417 UNP P00741 GLU 17 MODIFIED RESIDUE SEQADV 1J35 CGU C 420 UNP P00741 GLU 20 MODIFIED RESIDUE SEQADV 1J35 CGU C 421 UNP P00741 GLU 21 MODIFIED RESIDUE SEQADV 1J35 CGU C 426 UNP P00741 GLU 26 MODIFIED RESIDUE SEQADV 1J35 CGU C 427 UNP P00741 GLU 27 MODIFIED RESIDUE SEQADV 1J35 CGU C 430 UNP P00741 GLU 30 MODIFIED RESIDUE SEQADV 1J35 CGU C 433 UNP P00741 GLU 33 MODIFIED RESIDUE SEQADV 1J35 CGU C 436 UNP P00741 GLU 36 MODIFIED RESIDUE SEQADV 1J35 CGU C 440 UNP P00741 GLU 40 MODIFIED RESIDUE SEQRES 1 A 129 ASP CYS PRO SER GLY TRP SER SER TYR GLU GLY HIS CYS SEQRES 2 A 129 TYR LYS PRO PHE LYS LEU TYR LYS THR TRP ASP ASP ALA SEQRES 3 A 129 GLU ARG PHE CYS THR GLU GLN ALA LYS GLY GLY HIS LEU SEQRES 4 A 129 VAL SER ILE GLU SER ALA GLY GLU ALA ASP PHE VAL ALA SEQRES 5 A 129 GLN LEU VAL THR GLU ASN ILE GLN ASN THR LYS SER TYR SEQRES 6 A 129 VAL TRP ILE GLY LEU ARG VAL GLN GLY LYS GLU LYS GLN SEQRES 7 A 129 CYS SER SER GLU TRP SER ASP GLY SER SER VAL SER TYR SEQRES 8 A 129 GLU ASN TRP ILE GLU ALA GLU SER LYS THR CYS LEU GLY SEQRES 9 A 129 LEU GLU LYS GLU THR GLY PHE ARG LYS TRP VAL ASN ILE SEQRES 10 A 129 TYR CYS GLY GLN GLN ASN PRO PHE VAL CYS GLU ALA SEQRES 1 B 123 ASP CYS PRO SER ASP TRP SER SER TYR GLU GLY HIS CYS SEQRES 2 B 123 TYR LYS PRO PHE SER GLU PRO LYS ASN TRP ALA ASP ALA SEQRES 3 B 123 GLU ASN PHE CYS THR GLN GLN HIS ALA GLY GLY HIS LEU SEQRES 4 B 123 VAL SER PHE GLN SER SER GLU GLU ALA ASP PHE VAL VAL SEQRES 5 B 123 LYS LEU ALA PHE GLN THR PHE GLY HIS SER ILE PHE TRP SEQRES 6 B 123 MET GLY LEU SER ASN VAL TRP ASN GLN CYS ASN TRP GLN SEQRES 7 B 123 TRP SER ASN ALA ALA MET LEU ARG TYR LYS ALA TRP ALA SEQRES 8 B 123 GLU GLU SER TYR CYS VAL TYR PHE LYS SER THR ASN ASN SEQRES 9 B 123 LYS TRP ARG SER ARG ALA CYS ARG MET MET ALA GLN PHE SEQRES 10 B 123 VAL CYS GLU PHE GLN ALA SEQRES 1 C 46 TYR ASN SER GLY LYS LEU CGU CGU PHE VAL ARG GLY ASN SEQRES 2 C 46 LEU CGU ARG CGU CYS LYS CGU CGU LYS CYS SER PHE CGU SEQRES 3 C 46 CGU ALA ARG CGU VAL PHE CGU ASN THR CGU LYS THR THR SEQRES 4 C 46 CGU PHE TRP LYS GLN TYR VAL MODRES 1J35 CGU C 407 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1J35 CGU C 408 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1J35 CGU C 415 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1J35 CGU C 417 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1J35 CGU C 420 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1J35 CGU C 421 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1J35 CGU C 426 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1J35 CGU C 427 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1J35 CGU C 430 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1J35 CGU C 433 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1J35 CGU C 436 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1J35 CGU C 440 GLU GAMMA-CARBOXY-GLUTAMIC ACID HET CGU C 407 12 HET CGU C 408 12 HET CGU C 415 12 HET CGU C 417 12 HET CGU C 420 12 HET CGU C 421 12 HET CGU C 426 12 HET CGU C 427 12 HET CGU C 430 12 HET CGU C 433 12 HET CGU C 436 12 HET CGU C 440 12 HET CA A 511 1 HET CA B 512 1 HET CA C 501 1 HET CA C 502 1 HET CA C 503 1 HET CA C 504 1 HET CA C 505 1 HET CA C 506 1 HET CA C 507 1 HET CA C 508 1 HETNAM CGU GAMMA-CARBOXY-GLUTAMIC ACID HETNAM CA CALCIUM ION FORMUL 3 CGU 12(C6 H9 N O6) FORMUL 4 CA 10(CA 2+) FORMUL 14 HOH *266(H2 O) HELIX 1 1 THR A 22 ALA A 34 1 13 HELIX 2 2 SER A 44 GLU A 57 1 14 HELIX 3 3 ILE A 95 SER A 99 5 5 HELIX 4 4 GLU A 106 GLY A 110 5 5 HELIX 5 5 ASN B 222 THR B 231 1 10 HELIX 6 6 SER B 244 GLY B 260 1 17 HELIX 7 7 LEU C 406 VAL C 410 5 5 HELIX 8 8 ASN C 413 LYS C 419 1 7 HELIX 9 9 SER C 424 CGU C 433 1 10 HELIX 10 10 ASN C 434 GLN C 444 1 11 SHEET 1 A 4 SER A 7 TYR A 9 0 SHEET 2 A 4 HIS A 12 LYS A 21 -1 O TYR A 14 N SER A 7 SHEET 3 A 4 ASN A 123 ALA A 129 -1 O ALA A 129 N CYS A 13 SHEET 4 A 4 HIS A 38 LEU A 39 -1 N HIS A 38 O GLU A 128 SHEET 1 B 4 VAL A 115 ILE A 117 0 SHEET 2 B 4 CYS A 102 LEU A 105 -1 N CYS A 102 O ILE A 117 SHEET 3 B 4 VAL A 66 VAL A 72 -1 N VAL A 66 O LEU A 105 SHEET 4 B 4 TRP B 277 TRP B 279 -1 O GLN B 278 N ARG A 71 SHEET 1 C 4 SER B 207 TYR B 209 0 SHEET 2 C 4 HIS B 212 LYS B 221 -1 O TYR B 214 N SER B 207 SHEET 3 C 4 ALA B 315 GLN B 322 -1 O PHE B 317 N PHE B 217 SHEET 4 C 4 HIS B 238 LEU B 239 -1 N HIS B 238 O GLU B 320 SHEET 1 D 6 SER B 207 TYR B 209 0 SHEET 2 D 6 HIS B 212 LYS B 221 -1 O TYR B 214 N SER B 207 SHEET 3 D 6 ALA B 315 GLN B 322 -1 O PHE B 317 N PHE B 217 SHEET 4 D 6 ILE B 263 TRP B 265 1 N TRP B 265 O GLN B 316 SHEET 5 D 6 TYR B 295 LYS B 300 -1 O PHE B 299 N PHE B 264 SHEET 6 D 6 ARG B 307 ALA B 310 -1 O ARG B 309 N CYS B 296 SSBOND 1 CYS A 2 CYS A 13 1555 1555 2.03 SSBOND 2 CYS A 30 CYS A 127 1555 1555 2.03 SSBOND 3 CYS A 79 CYS B 275 1555 1555 2.03 SSBOND 4 CYS A 102 CYS A 119 1555 1555 2.04 SSBOND 5 CYS B 202 CYS B 213 1555 1555 2.03 SSBOND 6 CYS B 230 CYS B 319 1555 1555 2.03 SSBOND 7 CYS B 296 CYS B 311 1555 1555 2.04 SSBOND 8 CYS C 418 CYS C 423 1555 1555 2.03 LINK C LEU C 406 N CGU C 407 1555 1555 1.33 LINK C CGU C 407 N CGU C 408 1555 1555 1.33 LINK C CGU C 408 N PHE C 409 1555 1555 1.33 LINK C LEU C 414 N CGU C 415 1555 1555 1.33 LINK C CGU C 415 N ARG C 416 1555 1555 1.33 LINK C ARG C 416 N CGU C 417 1555 1555 1.33 LINK C CGU C 417 N CYS C 418 1555 1555 1.33 LINK C LYS C 419 N CGU C 420 1555 1555 1.33 LINK C CGU C 420 N CGU C 421 1555 1555 1.33 LINK C CGU C 421 N LYS C 422 1555 1555 1.33 LINK C PHE C 425 N CGU C 426 1555 1555 1.33 LINK C CGU C 426 N CGU C 427 1555 1555 1.33 LINK C CGU C 427 N ALA C 428 1555 1555 1.33 LINK C ARG C 429 N CGU C 430 1555 1555 1.33 LINK C CGU C 430 N VAL C 431 1555 1555 1.33 LINK C PHE C 432 N CGU C 433 1555 1555 1.33 LINK C CGU C 433 N ASN C 434 1555 1555 1.33 LINK C THR C 435 N CGU C 436 1555 1555 1.33 LINK C CGU C 436 N LYS C 437 1555 1555 1.33 LINK C THR C 439 N CGU C 440 1555 1555 1.33 LINK C CGU C 440 N PHE C 441 1555 1555 1.33 LINK O SER A 41 CA CA A 511 1555 1555 2.46 LINK OG SER A 41 CA CA A 511 1555 1555 2.56 LINK OE1 GLU A 43 CA CA A 511 1555 1555 2.39 LINK OE1 GLU A 47 CA CA A 511 1555 1555 3.31 LINK OE2 GLU A 47 CA CA A 511 1555 1555 2.43 LINK OE2 GLU A 98 CA CA C 501 1555 1555 2.16 LINK OE1 GLU A 128 CA CA A 511 1555 1555 2.46 LINK OE2 GLU A 128 CA CA A 511 1555 1555 2.61 LINK CA CA A 511 O HOH A 603 1555 1555 2.31 LINK CA CA A 511 O HOH A 823 1555 1555 2.55 LINK O SER B 241 CA CA B 512 1555 1555 2.44 LINK OG SER B 241 CA CA B 512 1555 1555 2.52 LINK OE1 GLN B 243 CA CA B 512 1555 1555 2.43 LINK OE2 GLU B 247 CA CA B 512 1555 1555 3.08 LINK OE1 GLU B 247 CA CA B 512 1555 1555 2.18 LINK OE1 GLU B 320 CA CA B 512 1555 1555 2.38 LINK OE2 GLU B 320 CA CA B 512 1555 1555 2.78 LINK CA CA B 512 O HOH B 822 1555 1555 2.46 LINK CA CA B 512 O HOH B 829 1555 1555 2.27 LINK O HOH B 617 CA CA C 501 1555 1555 2.47 LINK O HOH B 643 CA CA C 502 1555 1555 2.51 LINK O TYR C 401 CA CA C 504 1555 1555 3.39 LINK O TYR C 401 CA CA C 505 1555 1555 2.30 LINK OD1 ASN C 402 CA CA C 504 1555 1555 2.32 LINK OE21 CGU C 407 CA CA C 504 1555 1555 2.82 LINK OE22 CGU C 407 CA CA C 505 1555 1555 2.68 LINK OE21 CGU C 407 CA CA C 505 1555 1555 2.50 LINK OE22 CGU C 408 CA CA C 502 1555 1555 2.24 LINK OE12 CGU C 408 CA CA C 502 1555 1555 2.27 LINK OE12 CGU C 408 CA CA C 503 1555 1555 2.45 LINK OE11 CGU C 408 CA CA C 503 1555 1555 2.81 LINK OE11 CGU C 408 CA CA C 504 1555 1555 2.50 LINK OE11 CGU C 415 CA CA C 507 1555 1555 2.46 LINK OE22 CGU C 415 CA CA C 507 1555 1555 2.40 LINK OE22 CGU C 417 CA CA C 503 1555 1555 2.71 LINK OE12 CGU C 417 CA CA C 504 1555 1555 2.61 LINK OE22 CGU C 417 CA CA C 504 1555 1555 2.54 LINK OE11 CGU C 417 CA CA C 505 1555 1555 2.62 LINK OE12 CGU C 417 CA CA C 505 1555 1555 2.49 LINK OE21 CGU C 420 CA CA C 507 1555 1555 2.44 LINK OE21 CGU C 421 CA CA C 505 1555 1555 2.72 LINK OE22 CGU C 421 CA CA C 505 1555 1555 2.27 LINK OE12 CGU C 421 CA CA C 506 1555 1555 2.60 LINK OE21 CGU C 421 CA CA C 506 1555 1555 2.56 LINK OE12 CGU C 426 CA CA C 501 1555 1555 2.37 LINK OE21 CGU C 426 CA CA C 501 1555 1555 2.20 LINK OE11 CGU C 427 CA CA C 502 1555 1555 2.52 LINK OE12 CGU C 427 CA CA C 503 1555 1555 2.61 LINK OE12 CGU C 427 CA CA C 504 1555 1555 2.46 LINK OE22 CGU C 427 CA CA C 504 1555 1555 2.39 LINK OE12 CGU C 430 CA CA C 501 1555 1555 2.37 LINK OE22 CGU C 430 CA CA C 501 1555 1555 2.46 LINK OE22 CGU C 430 CA CA C 502 1555 1555 2.43 LINK OE21 CGU C 430 CA CA C 502 1555 1555 2.61 LINK OE21 CGU C 430 CA CA C 503 1555 1555 2.49 LINK OE21 CGU C 436 CA CA C 508 1555 1555 2.42 LINK OE12 CGU C 436 CA CA C 508 1555 1555 2.44 LINK OE22 CGU C 440 CA CA C 508 1555 1555 2.41 LINK OE12 CGU C 440 CA CA C 508 1555 1555 2.22 LINK CA CA C 502 O HOH C 655 1555 1555 2.37 LINK CA CA C 503 O HOH C 625 1555 1555 2.29 LINK CA CA C 503 O HOH C 636 1555 1555 2.28 LINK CA CA C 503 O HOH C 661 1555 1555 2.48 LINK CA CA C 505 O HOH C 692 1555 1555 2.28 LINK CA CA C 505 O HOH C 705 1555 1555 2.49 LINK CA CA C 506 O HOH C 675 1555 1555 2.50 LINK CA CA C 506 O HOH C 708 1555 1555 2.51 LINK CA CA C 506 O HOH C 740 1555 1555 2.42 LINK CA CA C 506 O HOH C 810 1555 1555 2.49 LINK CA CA C 507 O HOH C 776 1555 1555 2.74 LINK CA CA C 508 O HOH C 654 1555 1555 2.34 LINK CA CA C 508 O HOH C 725 1555 1555 2.37 LINK CA CA C 508 O HOH C 840 1555 1555 2.37 SITE 1 AC1 4 GLU A 98 HOH B 617 CGU C 426 CGU C 430 SITE 1 AC2 5 HOH B 643 CGU C 408 CGU C 427 CGU C 430 SITE 2 AC2 5 HOH C 655 SITE 1 AC3 7 CGU C 408 CGU C 417 CGU C 427 CGU C 430 SITE 2 AC3 7 HOH C 625 HOH C 636 HOH C 661 SITE 1 AC4 6 TYR C 401 ASN C 402 CGU C 407 CGU C 408 SITE 2 AC4 6 CGU C 417 CGU C 427 SITE 1 AC5 6 TYR C 401 CGU C 407 CGU C 417 CGU C 421 SITE 2 AC5 6 HOH C 692 HOH C 705 SITE 1 AC6 5 CGU C 421 HOH C 675 HOH C 708 HOH C 740 SITE 2 AC6 5 HOH C 810 SITE 1 AC7 3 CGU C 415 CGU C 420 HOH C 776 SITE 1 AC8 5 CGU C 436 CGU C 440 HOH C 654 HOH C 725 SITE 2 AC8 5 HOH C 840 SITE 1 AC9 6 SER A 41 GLU A 43 GLU A 47 GLU A 128 SITE 2 AC9 6 HOH A 603 HOH A 823 SITE 1 BC1 6 SER B 241 GLN B 243 GLU B 247 GLU B 320 SITE 2 BC1 6 HOH B 822 HOH B 829 CRYST1 127.959 39.074 63.949 90.00 99.56 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 0.007815 0.000000 0.001316 0.00000 SCALE2 0.000000 0.025592 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015858 0.00000