HEADER HORMONE 23-JUL-15 5CS3 TITLE THE STRUCTURE OF THE NK1 FRAGMENT OF HGF/SF COMPLEXED WITH (H)EPPS COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEPATOCYTE GROWTH FACTOR; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 28-210; COMPND 5 SYNONYM: HEPATOPOIETIN-A,SCATTER FACTOR,SF; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: HGF, HPTA; SOURCE 6 EXPRESSION_SYSTEM: KOMAGATAELLA PASTORIS CBS 7435; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 981350 KEYWDS HGF/SF, NK1 FRAGMENT, FRAGMENT BASED DRUG DISCOVERY, GROWTH FACTOR, KEYWDS 2 CELL CYCLE, HORMONE, NEW CHEMICAL ENTITY EXPDTA X-RAY DIFFRACTION AUTHOR A.G.SIGURDARDOTTIR,A.WINTER,A.SOBKOWICZ,M.FRAGAI,D.Y.CHIRGADZE, AUTHOR 2 D.B.ASCHER,T.L.BLUNDELL,E.GHERARDI REVDAT 5 20-NOV-24 5CS3 1 REMARK REVDAT 4 10-JAN-24 5CS3 1 REMARK REVDAT 3 29-AUG-18 5CS3 1 JRNL REVDAT 2 26-OCT-16 5CS3 1 JRNL REVDAT 1 12-AUG-15 5CS3 0 JRNL AUTH A.G.SIGURDARDOTTIR,A.WINTER,A.SOBKOWICZ,M.FRAGAI, JRNL AUTH 2 D.CHIRGADZE,D.B.ASCHER,T.L.BLUNDELL,E.GHERARDI JRNL TITL EXPLORING THE CHEMICAL SPACE OF THE LYSINE-BINDING POCKET OF JRNL TITL 2 THE FIRST KRINGLE DOMAIN OF HEPATOCYTE GROWTH FACTOR/SCATTER JRNL TITL 3 FACTOR (HGF/SF) YIELDS A NEW CLASS OF INHIBITORS OF JRNL TITL 4 HGF/SF-MET BINDING. JRNL REF CHEM SCI V. 6 6147 2015 JRNL REFN ISSN 2041-6520 JRNL PMID 30090230 JRNL DOI 10.1039/C5SC02155C REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.30 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 12667 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 + TEST SET) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.318 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 657 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 923 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.90 REMARK 3 BIN R VALUE (WORKING SET) : 0.2450 REMARK 3 BIN FREE R VALUE SET COUNT : 44 REMARK 3 BIN FREE R VALUE : 0.3880 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2774 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 16 REMARK 3 SOLVENT ATOMS : 91 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.06000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : -0.07000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.04000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.875 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.387 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.279 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.198 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.931 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.853 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2879 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3878 ; 1.828 ; 1.953 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 346 ; 7.814 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 129 ;35.902 ;23.488 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 525 ;20.079 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;19.464 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 396 ; 0.124 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2155 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1729 ; 3.630 ; 5.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2804 ; 5.380 ; 6.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1150 ; 4.824 ; 5.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1073 ; 6.538 ; 7.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5CS3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1000212105. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-FEB-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : BRUKER AXS MICROSTAR REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRUKER PLATINUM 135 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : PROTEUM PLUS REMARK 200 DATA SCALING SOFTWARE : PROTEUM PLUS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13345 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 34.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.200 REMARK 200 R MERGE (I) : 0.12700 REMARK 200 R SYM (I) : 0.12700 REMARK 200 FOR THE DATA SET : 9.7000 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) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : 0.52800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: 1NK1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 19% PEG 4000, 200 MM NA ACETATE, 150 REMARK 280 MM TRIS, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 31.68900 REMARK 290 SMTRY3 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17540 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 TYR A 28 REMARK 465 VAL A 29 REMARK 465 GLU A 30 REMARK 465 GLY A 31 REMARK 465 GLN A 32 REMARK 465 ARG A 33 REMARK 465 LYS A 34 REMARK 465 ARG A 35 REMARK 465 ARG A 36 REMARK 465 ASN A 37 REMARK 465 TYR B 28 REMARK 465 VAL B 29 REMARK 465 GLU B 30 REMARK 465 GLY B 31 REMARK 465 GLN B 32 REMARK 465 ARG B 33 REMARK 465 LYS B 34 REMARK 465 ARG B 35 REMARK 465 ARG B 36 REMARK 465 GLU B 210 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 210 CG CD OE1 OE2 REMARK 470 ASN B 37 CG OD1 ND2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 128 CB CYS A 128 SG -0.176 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 B 70 CA - CB - SG ANGL. DEV. = -21.0 DEGREES REMARK 500 CYS B 128 CA - CB - SG ANGL. DEV. = -11.7 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 ILE A 39 20.39 -68.73 REMARK 500 LYS A 47 33.38 70.23 REMARK 500 ASP A 54 91.67 -49.71 REMARK 500 PRO A 55 28.04 -78.03 REMARK 500 VAL A 64 -164.42 -115.10 REMARK 500 ASN A 77 20.69 49.14 REMARK 500 PRO A 81 48.38 -76.11 REMARK 500 PHE A 82 -179.34 -175.15 REMARK 500 PRO A 100 38.88 -87.21 REMARK 500 LYS A 110 179.09 -53.44 REMARK 500 GLU A 111 133.10 179.57 REMARK 500 SER A 154 135.94 -170.90 REMARK 500 PHE A 162 71.66 -116.91 REMARK 500 PRO A 164 -81.64 -37.80 REMARK 500 GLU A 174 -134.46 43.89 REMARK 500 GLU A 184 -54.33 -12.84 REMARK 500 ASP A 202 58.54 -113.94 REMARK 500 PRO B 81 23.24 -68.69 REMARK 500 PRO B 100 37.27 -93.55 REMARK 500 PHE B 162 48.33 -84.71 REMARK 500 TYR B 167 51.51 -146.79 REMARK 500 GLU B 174 -128.21 58.79 REMARK 500 ASP B 202 78.50 -103.32 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASN A 127 CYS A 128 -149.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EP1 B 301 DBREF 5CS3 A 28 210 UNP P14210 HGF_HUMAN 28 210 DBREF 5CS3 B 28 210 UNP P14210 HGF_HUMAN 28 210 SEQADV 5CS3 VAL A 29 UNP P14210 ALA 29 ENGINEERED MUTATION SEQADV 5CS3 VAL B 29 UNP P14210 ALA 29 ENGINEERED MUTATION SEQRES 1 A 183 TYR VAL GLU GLY GLN ARG LYS ARG ARG ASN THR ILE HIS SEQRES 2 A 183 GLU PHE LYS LYS SER ALA LYS THR THR LEU ILE LYS ILE SEQRES 3 A 183 ASP PRO ALA LEU LYS ILE LYS THR LYS LYS VAL ASN THR SEQRES 4 A 183 ALA ASP GLN CYS ALA ASN ARG CYS THR ARG ASN LYS GLY SEQRES 5 A 183 LEU PRO PHE THR CYS LYS ALA PHE VAL PHE ASP LYS ALA SEQRES 6 A 183 ARG LYS GLN CYS LEU TRP PHE PRO PHE ASN SER MET SER SEQRES 7 A 183 SER GLY VAL LYS LYS GLU PHE GLY HIS GLU PHE ASP LEU SEQRES 8 A 183 TYR GLU ASN LYS ASP TYR ILE ARG ASN CYS ILE ILE GLY SEQRES 9 A 183 LYS GLY ARG SER TYR LYS GLY THR VAL SER ILE THR LYS SEQRES 10 A 183 SER GLY ILE LYS CYS GLN PRO TRP SER SER MET ILE PRO SEQRES 11 A 183 HIS GLU HIS SER PHE LEU PRO SER SER TYR ARG GLY LYS SEQRES 12 A 183 ASP LEU GLN GLU ASN TYR CYS ARG ASN PRO ARG GLY GLU SEQRES 13 A 183 GLU GLY GLY PRO TRP CYS PHE THR SER ASN PRO GLU VAL SEQRES 14 A 183 ARG TYR GLU VAL CYS ASP ILE PRO GLN CYS SER GLU VAL SEQRES 15 A 183 GLU SEQRES 1 B 183 TYR VAL GLU GLY GLN ARG LYS ARG ARG ASN THR ILE HIS SEQRES 2 B 183 GLU PHE LYS LYS SER ALA LYS THR THR LEU ILE LYS ILE SEQRES 3 B 183 ASP PRO ALA LEU LYS ILE LYS THR LYS LYS VAL ASN THR SEQRES 4 B 183 ALA ASP GLN CYS ALA ASN ARG CYS THR ARG ASN LYS GLY SEQRES 5 B 183 LEU PRO PHE THR CYS LYS ALA PHE VAL PHE ASP LYS ALA SEQRES 6 B 183 ARG LYS GLN CYS LEU TRP PHE PRO PHE ASN SER MET SER SEQRES 7 B 183 SER GLY VAL LYS LYS GLU PHE GLY HIS GLU PHE ASP LEU SEQRES 8 B 183 TYR GLU ASN LYS ASP TYR ILE ARG ASN CYS ILE ILE GLY SEQRES 9 B 183 LYS GLY ARG SER TYR LYS GLY THR VAL SER ILE THR LYS SEQRES 10 B 183 SER GLY ILE LYS CYS GLN PRO TRP SER SER MET ILE PRO SEQRES 11 B 183 HIS GLU HIS SER PHE LEU PRO SER SER TYR ARG GLY LYS SEQRES 12 B 183 ASP LEU GLN GLU ASN TYR CYS ARG ASN PRO ARG GLY GLU SEQRES 13 B 183 GLU GLY GLY PRO TRP CYS PHE THR SER ASN PRO GLU VAL SEQRES 14 B 183 ARG TYR GLU VAL CYS ASP ILE PRO GLN CYS SER GLU VAL SEQRES 15 B 183 GLU HET EP1 B 301 16 HETNAM EP1 3-[4-(2-HYDROXYETHYL)PIPERAZIN-1-YL]PROPANE-1-SULFONIC HETNAM 2 EP1 ACID FORMUL 3 EP1 C9 H20 N2 O4 S FORMUL 4 HOH *91(H2 O) HELIX 1 AA1 ALA A 67 ARG A 76 1 10 HELIX 2 AA2 ASP A 123 ILE A 125 5 3 HELIX 3 AA3 PRO A 164 ARG A 168 5 5 HELIX 4 AA4 THR B 38 HIS B 40 5 3 HELIX 5 AA5 ALA B 67 ASN B 77 1 11 HELIX 6 AA6 ASP B 123 ILE B 125 5 3 HELIX 7 AA7 PRO B 164 ARG B 168 5 5 SHEET 1 AA1 5 PHE A 42 THR A 48 0 SHEET 2 AA1 5 PHE A 112 ASN A 121 -1 O LEU A 118 N SER A 45 SHEET 3 AA1 5 ALA A 86 ASP A 90 -1 N PHE A 87 O TYR A 119 SHEET 4 AA1 5 GLN A 95 PHE A 99 -1 O GLN A 95 N ASP A 90 SHEET 5 AA1 5 LYS A 60 LYS A 63 -1 N LYS A 60 O TRP A 98 SHEET 1 AA2 2 ILE A 51 LYS A 52 0 SHEET 2 AA2 2 VAL A 108 LYS A 109 -1 O LYS A 109 N ILE A 51 SHEET 1 AA3 3 CYS A 149 GLN A 150 0 SHEET 2 AA3 3 TRP A 188 THR A 191 -1 O PHE A 190 N GLN A 150 SHEET 3 AA3 3 TYR A 198 VAL A 200 -1 O GLU A 199 N CYS A 189 SHEET 1 AA4 5 PHE B 42 ILE B 51 0 SHEET 2 AA4 5 LYS B 109 ASN B 121 -1 O GLU B 111 N THR B 49 SHEET 3 AA4 5 ALA B 86 ASP B 90 -1 N PHE B 87 O TYR B 119 SHEET 4 AA4 5 GLN B 95 PHE B 99 -1 O GLN B 95 N ASP B 90 SHEET 5 AA4 5 LYS B 60 LYS B 63 -1 N LYS B 62 O CYS B 96 SHEET 1 AA5 2 TRP B 188 PHE B 190 0 SHEET 2 AA5 2 TYR B 198 VAL B 200 -1 O GLU B 199 N CYS B 189 SSBOND 1 CYS A 70 CYS A 96 1555 1555 1.91 SSBOND 2 CYS A 74 CYS A 84 1555 1555 2.07 SSBOND 3 CYS A 128 CYS A 206 1555 1555 2.03 SSBOND 4 CYS A 149 CYS A 189 1555 1555 2.02 SSBOND 5 CYS A 177 CYS A 201 1555 1555 2.01 SSBOND 6 CYS B 70 CYS B 96 1555 1555 1.91 SSBOND 7 CYS B 74 CYS B 84 1555 1555 2.06 SSBOND 8 CYS B 128 CYS B 206 1555 1555 1.85 SSBOND 9 CYS B 149 CYS B 189 1555 1555 2.01 SSBOND 10 CYS B 177 CYS B 201 1555 1555 1.98 CISPEP 1 ILE A 156 PRO A 157 0 -5.13 CISPEP 2 ILE B 156 PRO B 157 0 -2.27 SITE 1 AC1 7 PHE B 162 GLU B 183 TRP B 188 PHE B 190 SITE 2 AC1 7 ARG B 197 TYR B 198 VAL B 200 CRYST1 53.340 63.378 57.482 90.00 95.17 90.00 P 1 21 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 0.018748 0.000000 0.001697 0.00000 SCALE2 0.000000 0.015778 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017468 0.00000 TER 1396 GLU A 210 TER 2784 VAL B 209 HETATM 2785 O2S EP1 B 301 -4.702 30.724 -13.735 1.00 52.83 O HETATM 2786 S EP1 B 301 -5.630 30.150 -12.758 1.00 57.69 S HETATM 2787 O3S EP1 B 301 -6.364 28.931 -13.261 1.00 53.83 O HETATM 2788 O1S EP1 B 301 -6.639 31.206 -12.370 1.00 51.53 O HETATM 2789 C11 EP1 B 301 -4.649 29.515 -11.338 1.00 54.83 C HETATM 2790 C10 EP1 B 301 -3.549 28.577 -11.847 1.00 55.32 C HETATM 2791 C9 EP1 B 301 -2.758 27.873 -10.727 1.00 64.36 C HETATM 2792 N1 EP1 B 301 -2.650 26.402 -10.931 1.00 66.14 N HETATM 2793 C2 EP1 B 301 -2.428 25.763 -9.601 1.00 68.11 C HETATM 2794 C3 EP1 B 301 -1.668 24.411 -9.653 1.00 70.05 C HETATM 2795 N4 EP1 B 301 -0.498 24.475 -10.562 1.00 68.48 N HETATM 2796 C5 EP1 B 301 -1.013 24.718 -11.920 1.00 68.33 C HETATM 2797 C6 EP1 B 301 -1.690 26.103 -12.023 1.00 65.35 C HETATM 2798 C7 EP1 B 301 0.478 25.512 -10.142 1.00 68.65 C HETATM 2799 C8 EP1 B 301 1.820 24.886 -9.787 1.00 71.18 C HETATM 2800 O8 EP1 B 301 2.742 25.056 -10.875 1.00 71.18 O HETATM 2801 O HOH A 301 38.760 30.987 11.283 1.00 25.65 O HETATM 2802 O HOH A 302 0.511 18.096 19.456 1.00 35.32 O HETATM 2803 O HOH A 303 40.322 35.244 7.539 1.00 39.60 O HETATM 2804 O HOH A 304 10.021 34.816 5.557 1.00 32.43 O HETATM 2805 O HOH A 305 23.619 27.967 26.436 1.00 37.37 O HETATM 2806 O HOH A 306 21.297 29.664 12.674 1.00 18.28 O HETATM 2807 O HOH A 307 27.380 38.819 12.363 1.00 23.38 O HETATM 2808 O HOH A 308 27.132 28.531 34.650 1.00 58.98 O HETATM 2809 O HOH A 309 23.384 31.676 33.115 1.00 43.93 O HETATM 2810 O HOH A 310 6.541 35.130 6.514 1.00 32.09 O HETATM 2811 O HOH A 311 16.183 29.387 7.238 1.00 33.11 O HETATM 2812 O HOH A 312 15.910 19.149 11.474 1.00 19.66 O HETATM 2813 O HOH A 313 13.923 24.364 5.209 1.00 38.82 O HETATM 2814 O HOH A 314 16.943 18.934 19.371 1.00 32.38 O HETATM 2815 O HOH A 315 11.508 16.956 15.110 1.00 8.61 O HETATM 2816 O HOH A 316 7.896 38.299 10.868 1.00 43.40 O HETATM 2817 O HOH A 317 13.017 13.757 15.185 1.00 40.94 O HETATM 2818 O HOH A 318 -4.124 15.283 16.256 1.00 39.64 O HETATM 2819 O HOH A 319 33.750 47.695 5.144 1.00 29.51 O HETATM 2820 O HOH A 320 18.691 15.607 34.665 1.00 38.23 O HETATM 2821 O HOH A 321 20.241 15.430 39.095 1.00 39.53 O HETATM 2822 O HOH A 322 13.895 22.645 8.524 1.00 30.20 O HETATM 2823 O HOH A 323 9.192 34.275 11.697 1.00 27.97 O HETATM 2824 O HOH A 324 28.482 31.574 30.766 1.00 33.07 O HETATM 2825 O HOH A 325 37.468 44.793 4.196 1.00 33.27 O HETATM 2826 O HOH A 326 25.155 21.917 16.102 1.00 38.26 O HETATM 2827 O HOH A 327 12.853 19.126 40.306 1.00 38.23 O HETATM 2828 O HOH A 328 15.323 21.549 11.662 1.00 27.45 O HETATM 2829 O HOH A 329 26.449 22.122 18.204 1.00 30.05 O HETATM 2830 O HOH A 330 8.559 29.798 47.709 1.00 37.87 O HETATM 2831 O HOH A 331 15.677 14.489 31.374 1.00 37.82 O HETATM 2832 O HOH A 332 14.448 14.935 9.417 1.00 40.30 O HETATM 2833 O HOH A 333 10.241 37.404 7.455 1.00 43.38 O HETATM 2834 O HOH A 334 26.165 27.092 20.597 1.00 37.11 O HETATM 2835 O HOH B 401 4.787 39.876 1.157 1.00 25.50 O HETATM 2836 O HOH B 402 -1.899 47.991 31.030 1.00 28.05 O HETATM 2837 O HOH B 403 -16.582 25.978 27.816 1.00 47.87 O HETATM 2838 O HOH B 404 -12.840 28.990 14.671 1.00 25.11 O HETATM 2839 O HOH B 405 -3.968 35.291 12.735 1.00 18.56 O HETATM 2840 O HOH B 406 14.246 6.969 1.332 1.00 33.76 O HETATM 2841 O HOH B 407 5.714 28.939 6.419 1.00 18.04 O HETATM 2842 O HOH B 408 10.575 20.170 7.114 1.00 19.78 O HETATM 2843 O HOH B 409 -2.985 37.231 7.827 1.00 34.12 O HETATM 2844 O HOH B 410 -5.817 35.256 7.742 1.00 37.35 O HETATM 2845 O HOH B 411 -7.242 39.970 8.826 1.00 13.24 O HETATM 2846 O HOH B 412 -10.396 36.078 11.204 1.00 34.15 O HETATM 2847 O HOH B 413 -5.914 39.456 -0.129 1.00 7.53 O HETATM 2848 O HOH B 414 -11.050 26.911 24.495 1.00 62.21 O HETATM 2849 O HOH B 415 -9.705 31.695 -11.631 1.00 39.66 O HETATM 2850 O HOH B 416 1.220 23.348 6.979 1.00 33.29 O HETATM 2851 O HOH B 417 -1.980 24.171 22.562 1.00 50.52 O HETATM 2852 O HOH B 418 -2.270 42.055 1.261 1.00 19.18 O HETATM 2853 O HOH B 419 0.302 30.817 16.777 1.00 14.38 O HETATM 2854 O HOH B 420 4.790 30.200 10.510 1.00 24.05 O HETATM 2855 O HOH B 421 8.648 29.337 13.430 1.00 28.12 O HETATM 2856 O HOH B 422 -2.434 35.364 -5.160 1.00 17.93 O HETATM 2857 O HOH B 423 0.346 24.692 16.859 1.00 35.10 O HETATM 2858 O HOH B 424 -6.607 33.433 10.315 1.00 25.76 O HETATM 2859 O HOH B 425 -7.904 38.283 1.263 1.00 21.60 O HETATM 2860 O HOH B 426 7.752 30.969 21.528 1.00 39.23 O HETATM 2861 O HOH B 427 -7.036 39.805 3.714 1.00 30.64 O HETATM 2862 O HOH B 428 -10.208 30.731 5.790 1.00 38.70 O HETATM 2863 O HOH B 429 11.196 13.355 9.013 1.00 34.92 O HETATM 2864 O HOH B 430 -3.454 45.825 -5.565 1.00 31.79 O HETATM 2865 O HOH B 431 7.488 35.811 2.666 1.00 28.54 O HETATM 2866 O HOH B 432 -0.254 25.111 12.791 1.00 24.36 O HETATM 2867 O HOH B 433 5.268 16.200 5.071 1.00 28.08 O HETATM 2868 O HOH B 434 -2.679 18.837 3.765 1.00 32.60 O HETATM 2869 O HOH B 435 5.225 29.419 -12.993 1.00 28.25 O HETATM 2870 O HOH B 436 -2.765 18.411 0.551 1.00 35.45 O HETATM 2871 O HOH B 437 0.468 21.945 4.643 1.00 25.44 O HETATM 2872 O HOH B 438 -11.909 32.072 26.153 1.00 36.22 O HETATM 2873 O HOH B 439 -18.924 43.427 16.903 1.00 34.27 O HETATM 2874 O HOH B 440 7.989 30.030 11.104 1.00 42.04 O HETATM 2875 O HOH B 441 5.388 27.664 -10.814 1.00 25.02 O HETATM 2876 O HOH B 442 12.653 42.220 17.536 1.00 36.77 O HETATM 2877 O HOH B 443 -7.044 23.923 8.067 1.00 45.90 O HETATM 2878 O HOH B 444 10.557 19.476 0.294 1.00 26.21 O HETATM 2879 O HOH B 445 -11.694 23.184 -9.022 1.00 42.51 O HETATM 2880 O HOH B 446 9.825 22.199 -1.445 1.00 27.68 O HETATM 2881 O HOH B 447 -18.982 42.021 19.157 1.00 27.82 O HETATM 2882 O HOH B 448 11.153 34.049 25.077 1.00 34.92 O HETATM 2883 O HOH B 449 4.703 46.531 26.906 1.00 43.64 O HETATM 2884 O HOH B 450 3.022 32.036 -15.573 1.00 32.47 O HETATM 2885 O HOH B 451 -18.893 46.179 27.542 1.00 31.20 O HETATM 2886 O HOH B 452 12.072 36.285 21.936 1.00 45.16 O HETATM 2887 O HOH B 453 -12.266 24.520 -13.150 1.00 36.80 O HETATM 2888 O HOH B 454 12.339 39.833 19.104 1.00 49.54 O HETATM 2889 O HOH B 455 13.798 38.613 25.335 1.00 43.43 O HETATM 2890 O HOH B 456 -7.653 36.389 -17.378 1.00 39.81 O HETATM 2891 O HOH B 457 -1.396 25.088 10.415 1.00 21.21 O CONECT 259 475 CONECT 289 367 CONECT 367 289 CONECT 475 259 CONECT 750 1368 CONECT 902 1230 CONECT 1136 1330 CONECT 1230 902 CONECT 1330 1136 CONECT 1368 750 CONECT 1660 1868 CONECT 1690 1768 CONECT 1768 1690 CONECT 1868 1660 CONECT 2143 2761 CONECT 2295 2623 CONECT 2529 2723 CONECT 2623 2295 CONECT 2723 2529 CONECT 2761 2143 CONECT 2785 2786 CONECT 2786 2785 2787 2788 2789 CONECT 2787 2786 CONECT 2788 2786 CONECT 2789 2786 2790 CONECT 2790 2789 2791 CONECT 2791 2790 2792 CONECT 2792 2791 2793 2797 CONECT 2793 2792 2794 CONECT 2794 2793 2795 CONECT 2795 2794 2796 2798 CONECT 2796 2795 2797 CONECT 2797 2792 2796 CONECT 2798 2795 2799 CONECT 2799 2798 2800 CONECT 2800 2799 MASTER 362 0 1 7 17 0 2 6 2881 2 36 30 END