10 20 30 40 50 60 70 80 1CFI - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER COAGULATION FACTOR 26-APR-95 1CFI
TITLE NMR STRUCTURE OF CALCIUM ION-BOUND GAMMA-CARBOXY-GLUTAMIC TITLE 2 ACID-RICH DOMAIN OF FACTOR IX
COMPND MOL_ID: 1; COMPND 2 MOLECULE: COAGULATION FACTOR IX; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: THE GLA AND AROMATIC AMINO ACID STACK DOMAINS, COMPND 5 RESIDUES 1 - 47; COMPND 6 EC: 3.4.21.22; COMPND 7 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 ORGAN: BLOOD
KEYWDS COAGULATION FACTOR, BLOOD COAGULATION, PLASMA, SERINE KEYWDS 2 PROTEASE, CALCIUM-BINDING
EXPDTA SOLUTION NMR
NUMMDL 17
AUTHOR S.J.FREEDMAN,B.C.FURIE,B.FURIE,J.D.BALEJA
REVDAT 2 24-FEB-09 1CFI 1 VERSN REVDAT 1 20-JUN-96 1CFI 0
JRNL AUTH S.J.FREEDMAN,B.C.FURIE,B.FURIE,J.D.BALEJA JRNL TITL STRUCTURE OF THE CALCIUM ION-BOUND JRNL TITL 2 GAMMA-CARBOXYGLUTAMIC ACID-RICH DOMAIN OF FACTOR JRNL TITL 3 IX. JRNL REF BIOCHEMISTRY V. 34 12126 1995 JRNL REFN ISSN 0006-2960 JRNL PMID 7547952 JRNL DOI 10.1021/BI00038A005
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DGII REMARK 3 AUTHORS : HAVEL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1CFI COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : NULL REMARK 210 PH : 5.35 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : NULL REMARK 210 SPECTROMETER MODEL : NULL REMARK 210 SPECTROMETER MANUFACTURER : NULL REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : NULL REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL REMARK 210 CONFORMERS, NUMBER SUBMITTED : 17 REMARK 210 CONFORMERS, SELECTION CRITERIA : NULL REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: NULL
REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS.
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 1 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 1 ARG A 29 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 1 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 1 ASP A 47 CB - CG - OD1 ANGL. DEV. = -5.5 DEGREES REMARK 500 2 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 2 ARG A 29 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 2 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 2 ASP A 47 CB - CG - OD2 ANGL. DEV. = -5.4 DEGREES REMARK 500 3 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 3 ARG A 29 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 3 PHE A 32 CB - CG - CD2 ANGL. DEV. = -5.1 DEGREES REMARK 500 3 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 4 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 4 ARG A 29 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 4 PHE A 32 CB - CG - CD2 ANGL. DEV. = -5.6 DEGREES REMARK 500 4 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 4 ASP A 47 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 5 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 5 ARG A 29 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 5 PHE A 32 CB - CG - CD2 ANGL. DEV. = -5.1 DEGREES REMARK 500 5 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 5 ASP A 47 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 6 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 6 ARG A 29 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 6 PHE A 32 CB - CG - CD2 ANGL. DEV. = -4.3 DEGREES REMARK 500 6 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 6 ASP A 47 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 7 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 7 ARG A 29 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 7 PHE A 32 CB - CG - CD2 ANGL. DEV. = -4.6 DEGREES REMARK 500 7 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 7 ASP A 47 CB - CG - OD1 ANGL. DEV. = -5.4 DEGREES REMARK 500 8 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 8 ARG A 29 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 8 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 8 ASP A 47 CB - CG - OD1 ANGL. DEV. = -5.5 DEGREES REMARK 500 9 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 9 ARG A 29 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 9 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 9 ASP A 47 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 10 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 10 ARG A 29 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 10 PHE A 32 CB - CG - CD2 ANGL. DEV. = -5.3 DEGREES REMARK 500 10 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 10 ASP A 47 CB - CG - OD1 ANGL. DEV. = -5.5 DEGREES REMARK 500 11 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 11 ARG A 29 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 11 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 11 ASP A 47 CB - CG - OD1 ANGL. DEV. = -5.5 DEGREES REMARK 500 12 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 75 ANGLE DEVIATIONS. 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 1 LYS A 5 -90.39 -134.90 REMARK 500 1 GLN A 11 -141.87 -71.95 REMARK 500 1 CYS A 23 145.27 175.77 REMARK 500 1 VAL A 46 -142.59 -98.78 REMARK 500 2 LYS A 5 -87.73 -89.57 REMARK 500 2 CYS A 23 137.95 176.92 REMARK 500 2 VAL A 46 -147.76 -87.09 REMARK 500 3 LYS A 5 -89.65 -98.45 REMARK 500 3 GLN A 11 -165.34 -70.46 REMARK 500 3 CYS A 23 142.88 172.12 REMARK 500 3 VAL A 46 -142.62 -120.03 REMARK 500 4 LYS A 5 -93.35 -115.72 REMARK 500 4 GLN A 11 -140.45 -72.95 REMARK 500 4 CYS A 23 136.72 172.83 REMARK 500 4 TYR A 45 -44.78 -145.41 REMARK 500 5 ASN A 2 90.14 70.16 REMARK 500 5 LYS A 5 -79.69 -90.14 REMARK 500 5 CYS A 23 142.86 173.53 REMARK 500 6 LYS A 5 -88.08 -96.32 REMARK 500 6 GLN A 11 135.40 -37.86 REMARK 500 6 CYS A 23 134.75 174.49 REMARK 500 6 TYR A 45 71.71 -179.67 REMARK 500 6 VAL A 46 -150.65 -148.54 REMARK 500 7 ASN A 2 76.33 -103.85 REMARK 500 7 LYS A 5 -89.60 -130.28 REMARK 500 7 ASN A 13 116.19 -161.80 REMARK 500 7 CYS A 23 142.46 -171.67 REMARK 500 7 TYR A 45 14.54 -155.43 REMARK 500 7 VAL A 46 -150.26 -121.30 REMARK 500 8 LYS A 5 -82.50 -97.37 REMARK 500 8 CYS A 23 145.79 171.48 REMARK 500 8 TYR A 45 -70.28 -148.99 REMARK 500 8 VAL A 46 123.68 13.67 REMARK 500 9 ASN A 2 77.69 -173.24 REMARK 500 9 LYS A 5 -88.42 -96.07 REMARK 500 9 CYS A 23 135.54 171.52 REMARK 500 9 VAL A 46 -140.88 -99.52 REMARK 500 10 LYS A 5 -91.56 -116.98 REMARK 500 10 GLN A 11 -139.38 -72.89 REMARK 500 10 CYS A 23 141.06 169.49 REMARK 500 10 VAL A 46 -136.84 -80.32 REMARK 500 11 ASN A 2 79.14 -178.80 REMARK 500 11 LYS A 5 -72.53 -71.60 REMARK 500 11 CYS A 23 143.48 178.07 REMARK 500 11 VAL A 46 -139.85 -81.82 REMARK 500 12 ASN A 2 71.56 -171.39 REMARK 500 12 LYS A 5 -85.80 -87.24 REMARK 500 12 CYS A 23 143.47 175.46 REMARK 500 12 VAL A 46 -148.24 -95.93 REMARK 500 13 LYS A 5 -105.73 -97.02 REMARK 500 13 GLN A 11 -156.68 -74.54 REMARK 500 13 CYS A 23 138.56 -178.10 REMARK 500 13 VAL A 46 -149.01 -98.94 REMARK 500 14 LYS A 5 -86.30 -113.05 REMARK 500 14 GLN A 11 -140.82 -72.91 REMARK 500 14 CYS A 23 144.13 174.41 REMARK 500 14 TYR A 45 -2.66 -141.53 REMARK 500 14 VAL A 46 -147.46 -106.33 REMARK 500 15 LYS A 5 -136.10 -68.23 REMARK 500 15 GLN A 11 -141.81 -72.84 REMARK 500 15 CYS A 23 139.87 -176.11 REMARK 500 15 TYR A 45 -59.96 -144.96 REMARK 500 15 VAL A 46 -135.56 -86.51 REMARK 500 16 LYS A 5 -93.25 -113.54 REMARK 500 16 GLN A 11 -140.03 -72.22 REMARK 500 16 CYS A 23 142.15 175.23 REMARK 500 16 VAL A 46 -146.19 -74.44 REMARK 500 17 ASN A 2 70.99 -100.85 REMARK 500 17 LYS A 5 -129.34 -72.19 REMARK 500 17 GLN A 11 96.88 -36.49 REMARK 500 17 CYS A 23 142.54 164.41 REMARK 500 17 TYR A 45 13.22 -156.76 REMARK 500 17 VAL A 46 -149.04 -113.48 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 7 TYR A 45 0.08 SIDE_CHAIN REMARK 500 9 TYR A 1 0.07 SIDE_CHAIN REMARK 500 17 TYR A 45 0.08 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
DBREF 1CFI A 1 47 UNP P00740 FA9_HUMAN 47 93
SEQADV 1CFI CGU A 7 UNP P00740 GLU 53 CONFLICT SEQADV 1CFI CGU A 8 UNP P00740 GLU 54 CONFLICT SEQADV 1CFI CGU A 15 UNP P00740 GLU 61 CONFLICT SEQADV 1CFI CGU A 17 UNP P00740 GLU 63 CONFLICT SEQADV 1CFI CGU A 20 UNP P00740 GLU 66 CONFLICT SEQADV 1CFI CGU A 21 UNP P00740 GLU 67 CONFLICT SEQADV 1CFI CGU A 26 UNP P00740 GLU 72 CONFLICT SEQADV 1CFI CGU A 27 UNP P00740 GLU 73 CONFLICT SEQADV 1CFI CGU A 30 UNP P00740 GLU 76 CONFLICT SEQADV 1CFI CGU A 33 UNP P00740 GLU 79 CONFLICT SEQADV 1CFI CGU A 36 UNP P00740 GLU 82 CONFLICT SEQADV 1CFI CGU A 40 UNP P00740 GLU 86 CONFLICT
SEQRES 1 A 47 TYR ASN SER GLY LYS LEU CGU CGU PHE VAL GLN GLY ASN SEQRES 2 A 47 LEU CGU ARG CGU CYS MET CGU CGU LYS CYS SER PHE CGU SEQRES 3 A 47 CGU ALA ARG CGU VAL PHE CGU ASN THR CGU ARG THR THR SEQRES 4 A 47 CGU PHE TRP LYS GLN TYR VAL ASP
MODRES 1CFI CGU A 7 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1CFI CGU A 8 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1CFI CGU A 15 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1CFI CGU A 17 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1CFI CGU A 20 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1CFI CGU A 21 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1CFI CGU A 26 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1CFI CGU A 27 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1CFI CGU A 30 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1CFI CGU A 33 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1CFI CGU A 36 GLU GAMMA-CARBOXY-GLUTAMIC ACID MODRES 1CFI CGU A 40 GLU GAMMA-CARBOXY-GLUTAMIC ACID
HET CGU A 7 12 HET CGU A 8 12 HET CGU A 15 12 HET CGU A 17 12 HET CGU A 20 12 HET CGU A 21 12 HET CGU A 26 12 HET CGU A 27 12 HET CGU A 30 12 HET CGU A 33 12 HET CGU A 36 12 HET CGU A 40 12
HETNAM CGU GAMMA-CARBOXY-GLUTAMIC ACID
FORMUL 1 CGU 12(C6 H9 N O6)
HELIX 1 1 CGU A 7 CGU A 8 1 2 HELIX 2 2 LEU A 14 CGU A 17 1 4 HELIX 3 3 CYS A 18 CGU A 20 1 3 HELIX 4 4 PHE A 25 PHE A 32 1 8 HELIX 5 5 THR A 35 VAL A 46 1 12
SSBOND 1 CYS A 18 CYS A 23 1555 1555 2.13
LINK N CGU A 7 C LEU A 6 1555 1555 1.33 LINK C CGU A 7 N CGU A 8 1555 1555 1.32 LINK C CGU A 8 N PHE A 9 1555 1555 1.32 LINK N CGU A 15 C LEU A 14 1555 1555 1.32 LINK C CGU A 15 N ARG A 16 1555 1555 1.32 LINK N CGU A 17 C ARG A 16 1555 1555 1.32 LINK C CGU A 17 N CYS A 18 1555 1555 1.33 LINK N CGU A 20 C MET A 19 1555 1555 1.32 LINK C CGU A 20 N CGU A 21 1555 1555 1.32 LINK C CGU A 21 N LYS A 22 1555 1555 1.32 LINK N CGU A 26 C PHE A 25 1555 1555 1.32 LINK C CGU A 26 N CGU A 27 1555 1555 1.32 LINK C CGU A 27 N ALA A 28 1555 1555 1.33 LINK N CGU A 30 C ARG A 29 1555 1555 1.32 LINK C CGU A 30 N VAL A 31 1555 1555 1.32 LINK N CGU A 33 C PHE A 32 1555 1555 1.32 LINK C CGU A 33 N ASN A 34 1555 1555 1.32 LINK N CGU A 36 C THR A 35 1555 1555 1.32 LINK C CGU A 36 N ARG A 37 1555 1555 1.32 LINK N CGU A 40 C THR A 39 1555 1555 1.32 LINK C CGU A 40 N PHE A 41 1555 1555 1.33
CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1
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 1.000000 0.000000 0.000000 0.00000
SCALE2 0.000000 1.000000 0.000000 0.00000
SCALE3 0.000000 0.000000 1.000000 0.00000