HEADER HYDROLASE/HYDROLASE INHIBITOR 06-JUN-13 3WD1 TITLE SERRATIA MARCESCENS CHITINASE B COMPLEXED WITH SYN-TRIAZOLE INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHITINASE B; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.1.14; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SERRATIA MARCESCENS; SOURCE 3 ORGANISM_TAXID: 615; SOURCE 4 GENE: CHIB; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: DH5A; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PTRCHIS B KEYWDS TIM BARREL, HYDROLASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.HIROSE,N.MAITA,H.GOUDA,J.KOSEKI,T.YAMAMOTO,A.SUGAWARA,H.NAKANO, AUTHOR 2 S.HIRONO,K.SHIOMI,T.WATANABE,H.TANIGUCHI,K.B.SHARPLESS,S.OMURA, AUTHOR 3 T.SUNAZUKA REVDAT 4 09-OCT-24 3WD1 1 REMARK REVDAT 3 08-NOV-23 3WD1 1 REMARK SEQADV REVDAT 2 06-NOV-13 3WD1 1 JRNL REVDAT 1 18-SEP-13 3WD1 0 JRNL AUTH T.HIROSE,N.MAITA,H.GOUDA,J.KOSEKI,T.YAMAMOTO,A.SUGAWARA, JRNL AUTH 2 H.NAKANO,S.HIRONO,K.SHIOMI,T.WATANABE,H.TANIGUCHI, JRNL AUTH 3 K.B.SHARPLESS,S.OMURA,T.SUNAZUKA JRNL TITL OBSERVATION OF THE CONTROLLED ASSEMBLY OF PRECLICK JRNL TITL 2 COMPONENTS IN THE IN SITU CLICK CHEMISTRY GENERATION OF A JRNL TITL 3 CHITINASE INHIBITOR JRNL REF PROC.NATL.ACAD.SCI.USA V. 110 15892 2013 JRNL REFN ISSN 0027-8424 JRNL PMID 24043811 JRNL DOI 10.1073/PNAS.1315049110 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 41001 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2176 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2864 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.13 REMARK 3 BIN R VALUE (WORKING SET) : 0.2290 REMARK 3 BIN FREE R VALUE SET COUNT : 174 REMARK 3 BIN FREE R VALUE : 0.2800 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3908 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 126 REMARK 3 SOLVENT ATOMS : 171 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.93 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.59000 REMARK 3 B22 (A**2) : 1.59000 REMARK 3 B33 (A**2) : -3.17000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.182 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.170 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.114 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.730 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4137 ; 0.020 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 3764 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5618 ; 1.946 ; 1.961 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8582 ; 0.879 ; 3.002 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 496 ; 6.875 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 194 ;34.943 ;24.124 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 602 ;13.600 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;17.186 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 588 ; 0.108 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4742 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1004 ; 0.001 ; 0.020 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 3WD1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-JUN-13. REMARK 100 THE DEPOSITION ID IS D_1000096181. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-NOV-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NE3A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 43256 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 15.30 REMARK 200 R MERGE (I) : 0.11400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 25.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.37 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 15.20 REMARK 200 R MERGE FOR SHELL (I) : 0.70400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.230 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: 1E15 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 70.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM PHOSPHATE PH7.0, 0.8M REMARK 280 AMMONIUM SULFATE, 5% (V/V) GLYCEROL, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 98.87850 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 48.88400 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 48.88400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 148.31775 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 48.88400 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 48.88400 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 49.43925 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 48.88400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 48.88400 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 148.31775 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 48.88400 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 48.88400 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 49.43925 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 98.87850 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8030 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 37780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -54.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 ASP A -3 REMARK 465 PRO A -2 REMARK 465 SER A -1 REMARK 465 SER A 0 REMARK 465 ARG A 1 REMARK 465 ALA A 499 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OE1 GLN A 394 O3 GOL A 509 1.95 REMARK 500 OE2 GLU A 221 O2 GOL A 510 2.18 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 ASP A 63 CB - CG - OD1 ANGL. DEV. = 9.4 DEGREES REMARK 500 ASP A 63 CB - CG - OD2 ANGL. DEV. = -5.8 DEGREES REMARK 500 ARG A 72 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 194 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG A 410 NE - CZ - NH2 ANGL. DEV. = -3.0 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 ASN A 85 102.83 -160.16 REMARK 500 GLU A 144 78.83 -112.12 REMARK 500 ALA A 228 44.92 -156.94 REMARK 500 ASP A 336 116.45 -166.19 REMARK 500 ASN A 447 44.95 -145.63 REMARK 500 ASP A 489 -169.83 -165.13 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 GLY A 301 GLY A 302 -147.89 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 GOL A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 510 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 511 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 512 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO3 A 513 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ST7 A 514 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3WD0 RELATED DB: PDB REMARK 900 RELATED ID: 3WD2 RELATED DB: PDB REMARK 900 RELATED ID: 3WD3 RELATED DB: PDB REMARK 900 RELATED ID: 3WD4 RELATED DB: PDB DBREF 3WD1 A 2 499 UNP P11797 CHIB_SERMA 2 499 SEQADV 3WD1 ASP A -3 UNP P11797 EXPRESSION TAG SEQADV 3WD1 PRO A -2 UNP P11797 EXPRESSION TAG SEQADV 3WD1 SER A -1 UNP P11797 EXPRESSION TAG SEQADV 3WD1 SER A 0 UNP P11797 EXPRESSION TAG SEQADV 3WD1 ARG A 1 UNP P11797 EXPRESSION TAG SEQRES 1 A 503 ASP PRO SER SER ARG SER THR ARG LYS ALA VAL ILE GLY SEQRES 2 A 503 TYR TYR PHE ILE PRO THR ASN GLN ILE ASN ASN TYR THR SEQRES 3 A 503 GLU THR ASP THR SER VAL VAL PRO PHE PRO VAL SER ASN SEQRES 4 A 503 ILE THR PRO ALA LYS ALA LYS GLN LEU THR HIS ILE ASN SEQRES 5 A 503 PHE SER PHE LEU ASP ILE ASN SER ASN LEU GLU CYS ALA SEQRES 6 A 503 TRP ASP PRO ALA THR ASN ASP ALA LYS ALA ARG ASP VAL SEQRES 7 A 503 VAL ASN ARG LEU THR ALA LEU LYS ALA HIS ASN PRO SER SEQRES 8 A 503 LEU ARG ILE MET PHE SER ILE GLY GLY TRP TYR TYR SER SEQRES 9 A 503 ASN ASP LEU GLY VAL SER HIS ALA ASN TYR VAL ASN ALA SEQRES 10 A 503 VAL LYS THR PRO ALA ALA ARG THR LYS PHE ALA GLN SER SEQRES 11 A 503 CYS VAL ARG ILE MET LYS ASP TYR GLY PHE ASP GLY VAL SEQRES 12 A 503 ASP ILE ASP TRP GLU TYR PRO GLN ALA ALA GLU VAL ASP SEQRES 13 A 503 GLY PHE ILE ALA ALA LEU GLN GLU ILE ARG THR LEU LEU SEQRES 14 A 503 ASN GLN GLN THR ILE ALA ASP GLY ARG GLN ALA LEU PRO SEQRES 15 A 503 TYR GLN LEU THR ILE ALA GLY ALA GLY GLY ALA PHE PHE SEQRES 16 A 503 LEU SER ARG TYR TYR SER LYS LEU ALA GLN ILE VAL ALA SEQRES 17 A 503 PRO LEU ASP TYR ILE ASN LEU MET THR TYR ASP LEU ALA SEQRES 18 A 503 GLY PRO TRP GLU LYS ILE THR ASN HIS GLN ALA ALA LEU SEQRES 19 A 503 PHE GLY ASP ALA ALA GLY PRO THR PHE TYR ASN ALA LEU SEQRES 20 A 503 ARG GLU ALA ASN LEU GLY TRP SER TRP GLU GLU LEU THR SEQRES 21 A 503 ARG ALA PHE PRO SER PRO PHE SER LEU THR VAL ASP ALA SEQRES 22 A 503 ALA VAL GLN GLN HIS LEU MET MET GLU GLY VAL PRO SER SEQRES 23 A 503 ALA LYS ILE VAL MET GLY VAL PRO PHE TYR GLY ARG ALA SEQRES 24 A 503 PHE LYS GLY VAL SER GLY GLY ASN GLY GLY GLN TYR SER SEQRES 25 A 503 SER HIS SER THR PRO GLY GLU ASP PRO TYR PRO ASN ALA SEQRES 26 A 503 ASP TYR TRP LEU VAL GLY CYS ASP GLU CYS VAL ARG ASP SEQRES 27 A 503 LYS ASP PRO ARG ILE ALA SER TYR ARG GLN LEU GLU GLN SEQRES 28 A 503 MET LEU GLN GLY ASN TYR GLY TYR GLN ARG LEU TRP ASN SEQRES 29 A 503 ASP LYS THR LYS THR PRO TYR LEU TYR HIS ALA GLN ASN SEQRES 30 A 503 GLY LEU PHE VAL THR TYR ASP ASP ALA GLU SER PHE LYS SEQRES 31 A 503 TYR LYS ALA LYS TYR ILE LYS GLN GLN GLN LEU GLY GLY SEQRES 32 A 503 VAL MET PHE TRP HIS LEU GLY GLN ASP ASN ARG ASN GLY SEQRES 33 A 503 ASP LEU LEU ALA ALA LEU ASP ARG TYR PHE ASN ALA ALA SEQRES 34 A 503 ASP TYR ASP ASP SER GLN LEU ASP MET GLY THR GLY LEU SEQRES 35 A 503 ARG TYR THR GLY VAL GLY PRO GLY ASN LEU PRO ILE MET SEQRES 36 A 503 THR ALA PRO ALA TYR VAL PRO GLY THR THR TYR ALA GLN SEQRES 37 A 503 GLY ALA LEU VAL SER TYR GLN GLY TYR VAL TRP GLN THR SEQRES 38 A 503 LYS TRP GLY TYR ILE THR SER ALA PRO GLY SER ASP SER SEQRES 39 A 503 ALA TRP LEU LYS VAL GLY ARG LEU ALA HET GOL A 501 6 HET GOL A 502 6 HET GOL A 503 6 HET GOL A 504 6 HET GOL A 505 6 HET GOL A 506 6 HET GOL A 507 6 HET GOL A 508 6 HET GOL A 509 6 HET GOL A 510 6 HET SO4 A 511 5 HET SO4 A 512 5 HET PO3 A 513 4 HET ST7 A 514 52 HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETNAM PO3 PHOSPHITE ION HETNAM ST7 N,N-DIBENZYL-N~5~-[N-(METHYLCARBAMOYL)CARBAMIMIDOYL]- HETNAM 2 ST7 N~2~-{[5-({[(E)-(QUINOLIN-4-YLMETHYLIDENE) HETNAM 3 ST7 AMINO]OXY}METHYL)-1H-1,2,3-TRIAZOL-1-YL]ACETYL}-L- HETNAM 4 ST7 ORNITHINAMIDE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL 10(C3 H8 O3) FORMUL 12 SO4 2(O4 S 2-) FORMUL 14 PO3 O3 P 3- FORMUL 15 ST7 C37 H41 N11 O4 FORMUL 16 HOH *171(H2 O) HELIX 1 1 PRO A 14 ASN A 20 1 7 HELIX 2 2 PRO A 32 ILE A 36 5 5 HELIX 3 3 THR A 37 LEU A 44 1 8 HELIX 4 4 ASN A 67 LEU A 81 1 15 HELIX 5 5 LYS A 82 ASN A 85 5 4 HELIX 6 6 GLY A 96 ASN A 101 1 6 HELIX 7 7 SER A 106 VAL A 114 1 9 HELIX 8 8 THR A 116 GLY A 135 1 20 HELIX 9 9 GLN A 147 ALA A 149 5 3 HELIX 10 10 GLU A 150 GLY A 173 1 24 HELIX 11 11 GLY A 188 SER A 193 1 6 HELIX 12 12 ARG A 194 SER A 197 5 4 HELIX 13 13 LYS A 198 ALA A 204 1 7 HELIX 14 14 ASN A 241 ALA A 246 5 6 HELIX 15 15 SER A 251 PHE A 259 1 9 HELIX 16 16 THR A 266 MET A 276 1 11 HELIX 17 17 PRO A 281 ALA A 283 5 3 HELIX 18 18 CYS A 328 ASP A 334 1 7 HELIX 19 19 TYR A 342 GLY A 351 1 10 HELIX 20 20 ASP A 381 GLN A 395 1 15 HELIX 21 21 HIS A 404 ASP A 408 5 5 HELIX 22 22 GLY A 412 ALA A 424 1 13 SHEET 1 A10 CYS A 60 ALA A 61 0 SHEET 2 A10 HIS A 46 ILE A 54 -1 N ASP A 53 O ALA A 61 SHEET 3 A10 ARG A 89 GLY A 95 1 O SER A 93 N LEU A 52 SHEET 4 A10 GLY A 138 ASP A 142 1 O ASP A 142 N ILE A 94 SHEET 5 A10 GLN A 180 ALA A 186 1 O ALA A 184 N ILE A 141 SHEET 6 A10 TYR A 208 MET A 212 1 O ASN A 210 N ILE A 183 SHEET 7 A10 ILE A 285 PRO A 290 1 O VAL A 286 N LEU A 211 SHEET 8 A10 GLY A 399 TRP A 403 1 O MET A 401 N MET A 287 SHEET 9 A10 ALA A 6 PHE A 12 1 N TYR A 10 O PHE A 402 SHEET 10 A10 HIS A 46 ILE A 54 1 O HIS A 46 N GLY A 9 SHEET 1 B 5 ILE A 339 SER A 341 0 SHEET 2 B 5 TYR A 292 PHE A 296 -1 N GLY A 293 O ALA A 340 SHEET 3 B 5 LEU A 375 THR A 378 -1 O PHE A 376 N PHE A 296 SHEET 4 B 5 THR A 365 HIS A 370 -1 N HIS A 370 O LEU A 375 SHEET 5 B 5 TYR A 355 ASN A 360 -1 N LEU A 358 O TYR A 367 SHEET 1 C 3 LEU A 467 TYR A 470 0 SHEET 2 C 3 TYR A 473 THR A 477 -1 O TYR A 473 N TYR A 470 SHEET 3 C 3 TRP A 492 ARG A 497 -1 O LEU A 493 N GLN A 476 SSBOND 1 CYS A 328 CYS A 331 1555 1555 2.11 CISPEP 1 SER A 50 PHE A 51 0 4.85 CISPEP 2 GLU A 144 TYR A 145 0 9.12 CISPEP 3 SER A 261 PRO A 262 0 -0.20 CISPEP 4 ASP A 316 PRO A 317 0 5.01 CISPEP 5 TRP A 403 HIS A 404 0 -11.79 CISPEP 6 GLY A 480 TYR A 481 0 5.23 SITE 1 AC1 8 THR A 3 ARG A 4 HIS A 46 ARG A 89 SITE 2 AC1 8 TYR A 208 SO4 A 512 HOH A 659 HOH A 689 SITE 1 AC2 8 PRO A 260 PHE A 263 SER A 264 ARG A 439 SITE 2 AC2 8 TYR A 440 THR A 441 HOH A 735 HOH A 740 SITE 1 AC3 6 ARG A 244 TRP A 252 PHE A 259 PRO A 260 SITE 2 AC3 6 SER A 261 HOH A 736 SITE 1 AC4 7 TYR A 323 LEU A 325 GLY A 327 CYS A 328 SITE 2 AC4 7 ASP A 329 VAL A 332 HOH A 760 SITE 1 AC5 4 ARG A 162 ALA A 204 ASP A 207 LYS A 284 SITE 1 AC6 6 LYS A 393 TYR A 421 TYR A 427 ASP A 428 SITE 2 AC6 6 ASP A 429 SER A 430 SITE 1 AC7 5 TRP A 359 ASN A 360 ASP A 361 LYS A 362 SITE 2 AC7 5 HOH A 711 SITE 1 AC8 3 TYR A 240 GLY A 480 HOH A 745 SITE 1 AC9 3 GLN A 394 MET A 434 ARG A 439 SITE 1 BC1 7 PHE A 190 ASP A 215 LEU A 216 TRP A 220 SITE 2 BC1 7 GLU A 221 LEU A 265 HOH A 657 SITE 1 BC2 3 LYS A 386 ARG A 420 TYR A 427 SITE 1 BC3 5 ARG A 89 ALA A 176 PRO A 178 GOL A 501 SITE 2 BC3 5 HOH A 659 SITE 1 BC4 1 ARG A 194 SITE 1 BC5 18 TYR A 10 PHE A 12 TRP A 97 ASP A 142 SITE 2 BC5 18 GLU A 144 MET A 212 TYR A 214 ASP A 215 SITE 3 BC5 18 PRO A 219 TRP A 220 TYR A 292 ARG A 294 SITE 4 BC5 18 GLY A 314 ARG A 338 ILE A 339 TRP A 403 SITE 5 BC5 18 HOH A 690 HOH A 704 CRYST1 97.768 97.768 197.757 90.00 90.00 90.00 P 43 21 2 8 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 0.010228 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010228 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005057 0.00000