HEADER IMMUNE SYSTEM 24-JAN-05 1YNK TITLE IDENTIFICATION OF KEY RESIDUES OF THE NC6.8 FAB ANTIBODY FRAGMENT TITLE 2 BINDING TO SYNTHETIC SWEETENERS: CRYSTAL STRUCTURE OF NC6.8 CO- TITLE 3 CRYSTALIZED WITH HIGH POTENCY SWEETENER COMPOUND SC45647 COMPND MOL_ID: 1; COMPND 2 MOLECULE: IMMUNOGLOBULIN KAPPA LIGHT CHAIN; COMPND 3 CHAIN: L; COMPND 4 SYNONYM: NC6.8 FAB FRAGMENT L-CHAIN, MONOCLONAL ANTIBODY FAB COMPND 5 FRAGMENT; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: IG GAMMA HEAVY CHAIN; COMPND 9 CHAIN: H; COMPND 10 SYNONYM: NC6.8 FAB FRAGMENT H-CHAIN; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 9 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 10 ORGANISM_TAXID: 10090; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SWEETENER COMPOUND, SC45657 AND NC174, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR K.GOKULAN,S.KHARE,D.R.RONNING,S.D.LINTHICUM,J.C.SACCHETTINI,B.RUPP REVDAT 6 23-AUG-23 1YNK 1 REMARK REVDAT 5 11-OCT-17 1YNK 1 REMARK REVDAT 4 24-FEB-09 1YNK 1 VERSN REVDAT 3 18-OCT-05 1YNK 1 SOURCE ATOM REMARK REVDAT 2 30-AUG-05 1YNK 1 JRNL REVDAT 1 16-AUG-05 1YNK 0 JRNL AUTH K.GOKULAN,S.KHARE,D.R.RONNING,S.D.LINTHICUM,J.C.SACCHETTINI, JRNL AUTH 2 B.RUPP JRNL TITL COCRYSTAL STRUCTURES OF NC6.8 FAB IDENTIFY KEY INTERACTIONS JRNL TITL 2 FOR HIGH POTENCY SWEETENER RECOGNITION: IMPLICATIONS FOR THE JRNL TITL 3 DESIGN OF SYNTHETIC SWEETENERS JRNL REF BIOCHEMISTRY V. 44 9889 2005 JRNL REFN ISSN 0006-2960 JRNL PMID 16026161 JRNL DOI 10.1021/BI050613U REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 23.64 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 92.7 REMARK 3 NUMBER OF REFLECTIONS : 23597 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) : 0.216 REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.277 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1246 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1152 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 62.33 REMARK 3 BIN R VALUE (WORKING SET) : 0.2720 REMARK 3 BIN FREE R VALUE SET COUNT : 69 REMARK 3 BIN FREE R VALUE : 0.3670 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3336 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 126 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.22000 REMARK 3 B22 (A**2) : -2.75000 REMARK 3 B33 (A**2) : 4.01000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 3.79000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.281 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.234 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.177 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.769 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.913 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3459 ; 0.027 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4711 ; 2.459 ; 1.961 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 436 ; 8.681 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 132 ;34.054 ;23.864 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 546 ;18.156 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;23.420 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 523 ; 0.155 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2615 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1707 ; 0.251 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2340 ; 0.325 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 225 ; 0.177 ; 0.200 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): 73 ; 0.249 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 13 ; 0.240 ; 0.200 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): 2221 ; 0.862 ; 5.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3539 ; 1.479 ; 7.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1455 ; 1.677 ; 9.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1172 ; 2.408 ;11.000 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 : 1.20 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 1YNK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JAN-05. REMARK 100 THE DEPOSITION ID IS D_1000031720. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-SEP-99 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 9.20 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24844 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 23.640 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.850 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.32170 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: SNB REMARK 200 STARTING MODEL: PDB ENTRY 1CGS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50 MM POTASSIUM HYDROGEN PHOSPHATE, REMARK 280 20% POLYETHYLENE GLYCOL, PH 9.2, EVAPORATION, TEMPERATURE 18C, REMARK 280 PH 9.20, TEMPERATURE 291K 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 67.80000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.09500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 67.80000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 24.09500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, H 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: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OG SER H 82A OG SER H 82B 2556 1.54 REMARK 500 O HOH L 243 O HOH L 264 2556 2.06 REMARK 500 N GLY H 15 CA GLY H 65 2556 2.10 REMARK 500 O SER L 26 CG GLN L 156 2556 2.18 REMARK 500 REMARK 500 REMARK: NULL 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 L 88 CB CYS L 88 SG -0.106 REMARK 500 CYS L 194 CB CYS L 194 SG -0.106 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 LEU L 2 CB - CG - CD1 ANGL. DEV. = -13.9 DEGREES REMARK 500 ARG L 24 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG L 61 NE - CZ - NH1 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG H 1 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG H 40 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 LYS H 62 CD - CE - NZ ANGL. DEV. = -17.4 DEGREES REMARK 500 LEU H 158 CA - CB - CG ANGL. DEV. = 16.1 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 VAL L 51 -50.82 85.11 REMARK 500 SER L 67 176.67 179.77 REMARK 500 THR L 200 5.82 -67.90 REMARK 500 ASN L 212 2.60 -66.07 REMARK 500 TYR H 96 -72.97 -151.82 REMARK 500 SER H 98 -162.01 -119.77 REMARK 500 SER H 111 136.87 -172.95 REMARK 500 CYS H 127 23.53 46.28 REMARK 500 SER H 148 -162.84 -120.34 REMARK 500 ASN H 154 38.56 25.56 REMARK 500 SER H 155 -56.90 72.23 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 SER H 54 GLY H 55 -144.53 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 SC5 H 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1YNL RELATED DB: PDB DBREF 1YNK L 1 214 PDB 1YNK 1YNK 1 214 DBREF 1YNK H 2 214 UNP Q6PJB2 Q6PJB2_MOUSE 21 237 SEQRES 1 L 219 GLU LEU VAL MET THR GLN SER PRO LEU SER LEU PRO VAL SEQRES 2 L 219 SER LEU GLY ASP GLN ALA SER ILE SER CYS ARG PRO SER SEQRES 3 L 219 GLN SER LEU VAL HIS SER ASN GLY ASN THR TYR LEU HIS SEQRES 4 L 219 TRP TYR LEU GLN LYS PRO GLY GLN SER PRO LYS LEU LEU SEQRES 5 L 219 ILE TYR ARG VAL SER ASN ARG PHE SER GLY VAL PRO ASP SEQRES 6 L 219 ARG PHE SER GLY SER GLY SER GLY THR ALA PHE THR LEU SEQRES 7 L 219 LYS ILE SER ARG VAL GLU ALA GLU ASP LEU GLY VAL TYR SEQRES 8 L 219 PHE CYS SER GLN GLY THR HIS VAL PRO TYR THR PHE GLY SEQRES 9 L 219 GLY GLY THR LYS LEU GLU LEU LYS ARG ALA ASP ALA ALA SEQRES 10 L 219 PRO THR VAL SER ILE PHE PRO PRO SER SER GLU GLN LEU SEQRES 11 L 219 THR SER GLY GLY ALA SER VAL VAL CYS PHE LEU ASN ASN SEQRES 12 L 219 PHE TYR PRO LYS ASP ILE ASN VAL LYS TRP LYS ILE ASP SEQRES 13 L 219 GLY SER GLU ARG GLN ASN GLY VAL LEU ASN SER TRP THR SEQRES 14 L 219 ASP GLN ASP SER LYS ASP SER THR TYR SER MET SER SER SEQRES 15 L 219 THR LEU THR LEU THR LYS ASP GLU TYR GLU ARG HIS ASN SEQRES 16 L 219 SER TYR THR CYS GLU ALA THR HIS LYS THR SER THR SER SEQRES 17 L 219 PRO ILE VAL LYS SER PHE ASN ARG ASN GLU CYS SEQRES 1 H 219 ARG VAL GLN LEU LEU GLU SER GLY ALA GLU LEU MET LYS SEQRES 2 H 219 PRO GLY ALA SER VAL GLN ILE SER CYS LYS ALA THR GLY SEQRES 3 H 219 TYR THR PHE SER GLU TYR TRP ILE GLU TRP VAL LYS GLU SEQRES 4 H 219 ARG PRO GLY HIS GLY LEU GLU TRP ILE GLY GLU ILE LEU SEQRES 5 H 219 PRO GLY SER GLY ARG THR ASN TYR ARG GLU LYS PHE LYS SEQRES 6 H 219 GLY LYS ALA THR PHE THR ALA ASP THR SER SER ASN THR SEQRES 7 H 219 ALA TYR MET GLN LEU SER SER LEU THR SER GLU ASP SER SEQRES 8 H 219 ALA VAL TYR TYR CYS THR ARG GLY TYR SER SER MET ASP SEQRES 9 H 219 TYR TRP GLY GLN GLY THR SER VAL THR VAL SER ALA ALA SEQRES 10 H 219 LYS THR THR PRO PRO SER VAL TYR PRO LEU ALA PRO GLY SEQRES 11 H 219 CYS GLY ASP THR THR GLY SER SER VAL THR LEU GLY CYS SEQRES 12 H 219 LEU VAL LYS GLY TYR PHE PRO GLU SER VAL THR VAL THR SEQRES 13 H 219 TRP ASN SER GLY SER LEU SER SER SER VAL HIS THR PHE SEQRES 14 H 219 PRO ALA LEU LEU GLN SER GLY LEU TYR THR MET SER SER SEQRES 15 H 219 SER VAL THR VAL PRO SER SER THR TRP PRO SER GLN THR SEQRES 16 H 219 VAL THR CYS SER VAL ALA HIS PRO ALA SER SER THR THR SEQRES 17 H 219 VAL ASP LYS LYS LEU GLU PRO SER GLY PRO ILE HET SC5 H 501 24 HETNAM SC5 2-[((R)-{[4-(AMINOMETHYL)PHENYL]AMINO}{[(1R)-1- HETNAM 2 SC5 PHENYLETHYL]AMINO}METHYL)AMINO]ETHANE-1,1-DIOL HETSYN SC5 SC45647 FORMUL 3 SC5 C18 H26 N4 O2 FORMUL 4 HOH *126(H2 O) HELIX 1 1 GLU L 79 LEU L 83 5 5 HELIX 2 2 SER L 121 THR L 126 1 6 HELIX 3 3 LYS L 183 ARG L 188 1 6 HELIX 4 4 ASN L 212 CYS L 214 5 3 HELIX 5 5 THR H 28 TYR H 32 5 5 HELIX 6 6 GLU H 61 LYS H 64 5 4 HELIX 7 7 THR H 83 SER H 87 5 5 HELIX 8 8 PRO H 199 SER H 202 5 4 SHEET 1 A 4 MET L 4 SER L 7 0 SHEET 2 A 4 ALA L 19 PRO L 25 -1 O ARG L 24 N THR L 5 SHEET 3 A 4 ALA L 70 ILE L 75 -1 O LEU L 73 N ILE L 21 SHEET 4 A 4 PHE L 62 SER L 67 -1 N SER L 65 O THR L 72 SHEET 1 B 6 SER L 10 VAL L 13 0 SHEET 2 B 6 THR L 102 LEU L 106 1 O LYS L 103 N LEU L 11 SHEET 3 B 6 GLY L 84 GLN L 90 -1 N TYR L 86 O THR L 102 SHEET 4 B 6 LEU L 33 GLN L 38 -1 N HIS L 34 O SER L 89 SHEET 5 B 6 PRO L 44 TYR L 49 -1 O LEU L 47 N TRP L 35 SHEET 6 B 6 ASN L 53 ARG L 54 -1 O ASN L 53 N TYR L 49 SHEET 1 C 4 SER L 10 VAL L 13 0 SHEET 2 C 4 THR L 102 LEU L 106 1 O LYS L 103 N LEU L 11 SHEET 3 C 4 GLY L 84 GLN L 90 -1 N TYR L 86 O THR L 102 SHEET 4 C 4 THR L 97 PHE L 98 -1 O THR L 97 N GLN L 90 SHEET 1 D 4 THR L 114 PHE L 118 0 SHEET 2 D 4 GLY L 129 PHE L 139 -1 O VAL L 133 N PHE L 118 SHEET 3 D 4 TYR L 173 THR L 182 -1 O LEU L 179 N VAL L 132 SHEET 4 D 4 VAL L 159 TRP L 163 -1 N LEU L 160 O THR L 178 SHEET 1 E 4 SER L 153 ARG L 155 0 SHEET 2 E 4 ASN L 145 ILE L 150 -1 N TRP L 148 O ARG L 155 SHEET 3 E 4 SER L 191 THR L 197 -1 O THR L 197 N ASN L 145 SHEET 4 E 4 ILE L 205 ASN L 210 -1 O LYS L 207 N CYS L 194 SHEET 1 F 4 GLN H 3 GLU H 6 0 SHEET 2 F 4 VAL H 18 THR H 25 -1 O LYS H 23 N LEU H 5 SHEET 3 F 4 THR H 77 LEU H 82 -1 O LEU H 82 N VAL H 18 SHEET 4 F 4 ALA H 67 ASP H 72 -1 N ASP H 72 O THR H 77 SHEET 1 G 6 GLU H 10 MET H 12 0 SHEET 2 G 6 THR H 106 VAL H 110 1 O SER H 107 N GLU H 10 SHEET 3 G 6 ALA H 88 GLY H 95 -1 N TYR H 90 O THR H 106 SHEET 4 G 6 TRP H 33 GLU H 39 -1 N TRP H 33 O GLY H 95 SHEET 5 G 6 LEU H 45 ILE H 51 -1 O GLU H 46 N LYS H 38 SHEET 6 G 6 THR H 57 TYR H 59 -1 O ASN H 58 N GLU H 50 SHEET 1 H 4 GLU H 10 MET H 12 0 SHEET 2 H 4 THR H 106 VAL H 110 1 O SER H 107 N GLU H 10 SHEET 3 H 4 ALA H 88 GLY H 95 -1 N TYR H 90 O THR H 106 SHEET 4 H 4 MET H 99 TRP H 102 -1 O TYR H 101 N ARG H 94 SHEET 1 I 4 SER H 119 LEU H 123 0 SHEET 2 I 4 SER H 134 TYR H 144 -1 O LYS H 142 N SER H 119 SHEET 3 I 4 LEU H 173 PRO H 183 -1 O VAL H 182 N VAL H 135 SHEET 4 I 4 VAL H 162 GLN H 170 -1 N GLN H 170 O LEU H 173 SHEET 1 J 3 THR H 150 TRP H 153 0 SHEET 2 J 3 THR H 193 HIS H 198 -1 O SER H 195 N THR H 152 SHEET 3 J 3 THR H 203 LYS H 208 -1 O VAL H 205 N VAL H 196 SSBOND 1 CYS L 23 CYS L 88 1555 1555 2.02 SSBOND 2 CYS L 134 CYS L 194 1555 1555 2.03 SSBOND 3 CYS L 214 CYS H 127 1555 1555 2.00 SSBOND 4 CYS H 22 CYS H 92 1555 1555 1.99 SSBOND 5 CYS H 139 CYS H 194 1555 1555 1.99 CISPEP 1 SER L 7 PRO L 8 0 5.24 CISPEP 2 VAL L 94 PRO L 95 0 -0.52 CISPEP 3 TYR L 140 PRO L 141 0 3.77 CISPEP 4 PHE H 145 PRO H 146 0 -7.75 CISPEP 5 GLU H 147 SER H 148 0 -6.90 CISPEP 6 SER H 159 SER H 160 0 29.20 CISPEP 7 TRP H 187 PRO H 188 0 4.40 SITE 1 AC1 17 TRP H 33 GLU H 35 GLU H 50 ARG H 56 SITE 2 AC1 17 ASN H 58 TYR H 96 SER H 97 SER H 98 SITE 3 AC1 17 HIS L 27D ASN L 28 TYR L 32 HIS L 34 SITE 4 AC1 17 GLY L 91 TYR L 96 ASN L 212 GLU L 213 SITE 5 AC1 17 HOH L 220 CRYST1 135.600 48.190 75.350 90.00 109.04 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 0.007375 0.000000 0.002545 0.00000 SCALE2 0.000000 0.020751 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014039 0.00000