HEADER HYDROLASE 30-AUG-12 3VWP TITLE CRYSTAL STRUCTURE OF 6-AMINOHEXANOATE-DIMER HYDROLASE TITLE 2 S112A/G181D/R187S/H266N/D370Y MUTANT COMPLEXD WITH 6-AMINOHEXANOATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 6-AMINOHEXANOATE-DIMER HYDROLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: NYLON OLIGOMERS-DEGRADING ENZYME EII, NYLON OLIGOMERS- COMPND 5 DEGRADING ENZYME EII'; COMPND 6 EC: 3.5.1.46; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 OTHER_DETAILS: THE FUSION PROTEIN OF RESIDUES 1-21 FROMN YLON COMPND 10 OLIGOMERS-DEGRADING ENZYME EII (UNP P07061) AND RESIDUES 22-392 FROM COMPND 11 NYLON OLIGOMERS-DEGRADING ENZYME EII' (UNP Q59710) SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: FLAVOBACTERIUM; SOURCE 3 ORGANISM_TAXID: 261, 408956; SOURCE 4 STRAIN: K172, KI723T1; SOURCE 5 GENE: NYLB, NYLB'; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: KP3998; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PKP1500 KEYWDS HYDROLASE, NYLON DEGRADATION EXPDTA X-RAY DIFFRACTION AUTHOR Y.KAWASHIMA,N.SHIBATA,S.NEGORO,Y.HIGUCHI REVDAT 2 15-NOV-23 3VWP 1 REMARK SEQADV LINK ATOM REVDAT 1 16-OCT-13 3VWP 0 JRNL AUTH S.NEGORO,Y.KAWASHIMA,N.SHIBATA,Y.SHIGETA,T.KOBAYASHI, JRNL AUTH 2 H.NISHIGUCHI,T.MATSUI,T.BABA,Y.LEE,K.KAMIYA,D.KATO,M.TAKEO, JRNL AUTH 3 Y.HIGUCHI JRNL TITL STRUCTURAL, KINETIC AND THEORETICAL ANALYSES OF HYDROLASE JRNL TITL 2 MUTANTS ALTERING IN THE DIRECTIONALITY AND EQUILIBRIUM POINT JRNL TITL 3 OF REVERSIBLE AMIDE-SYNTHETIC/HYDROLYTIC REACTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.2 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.18 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 806636.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.3 REMARK 3 NUMBER OF REFLECTIONS : 85054 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) : 0.198 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 8538 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.002 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.55 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.61 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.70 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 7352 REMARK 3 BIN R VALUE (WORKING SET) : 0.4130 REMARK 3 BIN FREE R VALUE : 0.4340 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 823 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.015 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2959 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 63 REMARK 3 SOLVENT ATOMS : 455 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.30000 REMARK 3 B22 (A**2) : 0.30000 REMARK 3 B33 (A**2) : -0.61000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.19 REMARK 3 ESD FROM SIGMAA (A) : 0.18 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) : 0.22 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.19 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.004 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.30 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.740 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) : 1.660 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.290 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 4.180 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 5.700 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.45 REMARK 3 BSOL : 72.87 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 : MES.PARAM REMARK 3 PARAMETER FILE 5 : 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 : SUB.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED REMARK 4 REMARK 4 3VWP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-SEP-12. REMARK 100 THE DEPOSITION ID IS D_1000095594. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-AUG-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : CONFOCAL MIRROR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS VII REMARK 200 INTENSITY-INTEGRATION SOFTWARE : D*TREK 9.4SSI REMARK 200 DATA SCALING SOFTWARE : D*TREK 9.4SSI REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 87694 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 24.180 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 3.790 REMARK 200 R MERGE (I) : 0.04200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.61 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.66 REMARK 200 R MERGE FOR SHELL (I) : 0.41400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.2M AMMONIUM SULFATE, 0.2M LITHIUM REMARK 280 SULFATE, 0.1M MES, PH 6.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 283K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 75.24667 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 37.62333 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 37.62333 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 75.24667 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: 9890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -58.0 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 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 37.62333 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1038 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1039 LIES ON A SPECIAL POSITION. 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 MET A 1 REMARK 465 ASN A 2 REMARK 465 ALA A 3 REMARK 465 ARG A 4 REMARK 465 VAL A 53 REMARK 465 ASN A 54 REMARK 465 ALA A 55 REMARK 465 PRO A 56 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 GLY A 342 N - CA - C ANGL. DEV. = -15.2 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 HIS A 38 41.79 -147.06 REMARK 500 MET A 111 -140.08 50.88 REMARK 500 LEU A 243 -69.55 -138.66 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 NA A 501 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 123 O REMARK 620 2 ASP A 127 OD2 78.7 REMARK 620 3 ASP A 127 OD1 101.1 58.5 REMARK 620 4 SER A 296 OG 159.9 88.3 58.9 REMARK 620 5 HOH A 754 O 114.3 113.2 54.7 57.1 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACA 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 MES A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES A 509 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1WYB RELATED DB: PDB REMARK 900 RELATED ID: 3VWL RELATED DB: PDB REMARK 900 RELATED ID: 3VWM RELATED DB: PDB REMARK 900 RELATED ID: 3VWN RELATED DB: PDB REMARK 900 RELATED ID: 3VWQ RELATED DB: PDB REMARK 900 RELATED ID: 3VWR RELATED DB: PDB DBREF 3VWP A 1 21 UNP P07061 NYLB_FLASK 1 21 DBREF 3VWP A 22 392 UNP Q59710 Q59710_9FLAO 22 392 SEQADV 3VWP ALA A 112 UNP P07062 SER 112 ENGINEERED MUTATION SEQADV 3VWP ASP A 181 UNP P07062 GLY 181 ENGINEERED MUTATION SEQADV 3VWP SER A 187 UNP P07062 ARG 187 ENGINEERED MUTATION SEQADV 3VWP ASN A 266 UNP P07062 HIS 266 ENGINEERED MUTATION SEQADV 3VWP TYR A 370 UNP P07062 ASP 370 ENGINEERED MUTATION SEQRES 1 A 392 MET ASN ALA ARG SER THR GLY GLN HIS PRO ALA ARG TYR SEQRES 2 A 392 PRO GLY ALA ALA ALA GLY GLU PRO THR LEU ASP SER TRP SEQRES 3 A 392 GLN GLU PRO PRO HIS ASN ARG TRP ALA PHE ALA HIS LEU SEQRES 4 A 392 GLY GLU MET VAL PRO SER ALA ALA VAL SER ARG ARG PRO SEQRES 5 A 392 VAL ASN ALA PRO GLY HIS ALA LEU ALA ARG LEU GLY ALA SEQRES 6 A 392 ILE ALA ALA GLN LEU PRO ASP LEU GLU GLN ARG LEU GLU SEQRES 7 A 392 GLN THR TYR THR ASP ALA PHE LEU VAL LEU ARG GLY THR SEQRES 8 A 392 GLU VAL VAL ALA GLU TYR TYR ARG ALA GLY PHE ALA PRO SEQRES 9 A 392 ASP ASP ARG HIS LEU LEU MET ALA VAL SER LYS SER LEU SEQRES 10 A 392 CYS GLY THR VAL VAL GLY ALA LEU VAL ASP GLU GLY ARG SEQRES 11 A 392 ILE ASP PRO ALA GLN PRO VAL THR GLU TYR VAL PRO GLU SEQRES 12 A 392 LEU ALA GLY SER VAL TYR ASP GLY PRO SER VAL LEU GLN SEQRES 13 A 392 VAL LEU ASP MET GLN ILE SER ILE ASP TYR ASN GLU ASP SEQRES 14 A 392 TYR VAL ASP PRO ALA SER GLU VAL GLN THR HIS ASP ARG SEQRES 15 A 392 SER ALA GLY TRP SER THR ARG ARG HIS GLY ASP PRO ALA SEQRES 16 A 392 ASP THR TYR GLU PHE LEU THR THR LEU ARG GLY ASP GLY SEQRES 17 A 392 SER THR GLY GLU PHE GLN TYR CYS SER ALA ASN THR ASP SEQRES 18 A 392 VAL LEU ALA TRP ILE VAL GLU ARG VAL THR GLY LEU ARG SEQRES 19 A 392 TYR VAL GLU ALA LEU SER THR TYR LEU TRP ALA LYS LEU SEQRES 20 A 392 ASP ALA ASP ARG ASP ALA THR ILE THR VAL ASP THR THR SEQRES 21 A 392 GLY PHE GLY PHE ALA ASN GLY GLY VAL SER CYS THR ALA SEQRES 22 A 392 ARG ASP LEU ALA ARG VAL GLY ARG MET MET LEU ASP GLY SEQRES 23 A 392 GLY VAL ALA PRO GLY GLY ARG VAL VAL SER GLU ASP TRP SEQRES 24 A 392 VAL ARG ARG VAL LEU ALA GLY GLY SER HIS GLU ALA MET SEQRES 25 A 392 THR ASP LYS GLY PHE THR ASN THR PHE PRO ASP GLY SER SEQRES 26 A 392 TYR THR ARG GLN TRP TRP CYS THR GLY ASN GLU ARG GLY SEQRES 27 A 392 ASN VAL SER GLY ILE GLY ILE HIS GLY GLN ASN LEU TRP SEQRES 28 A 392 LEU ASP PRO LEU THR ASP SER VAL ILE VAL LYS LEU SER SEQRES 29 A 392 SER TRP PRO ASP PRO TYR THR GLU HIS TRP HIS ARG LEU SEQRES 30 A 392 GLN ASN GLY ILE LEU LEU ASP VAL SER ARG ALA LEU ASP SEQRES 31 A 392 ALA VAL HET NA A 501 1 HET SO4 A 502 5 HET ACA A 503 9 HET GOL A 504 6 HET GOL A 505 6 HET GOL A 506 6 HET GOL A 507 6 HET MES A 508 12 HET MES A 509 12 HETNAM NA SODIUM ION HETNAM SO4 SULFATE ION HETNAM ACA 6-AMINOHEXANOIC ACID HETNAM GOL GLYCEROL HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETSYN ACA AMINOCAPROIC ACID HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 NA NA 1+ FORMUL 3 SO4 O4 S 2- FORMUL 4 ACA C6 H13 N O2 FORMUL 5 GOL 4(C3 H8 O3) FORMUL 9 MES 2(C6 H13 N O4 S) FORMUL 11 HOH *455(H2 O) HELIX 1 1 HIS A 31 PHE A 36 1 6 HELIX 2 2 ALA A 37 MET A 42 5 6 HELIX 3 3 ALA A 65 LEU A 70 1 6 HELIX 4 4 ASP A 72 THR A 80 1 9 HELIX 5 5 ALA A 112 GLU A 128 1 17 HELIX 6 6 PRO A 136 TYR A 140 5 5 HELIX 7 7 VAL A 141 ALA A 145 5 5 HELIX 8 8 SER A 153 ASP A 159 1 7 HELIX 9 9 SER A 175 GLY A 185 1 11 HELIX 10 10 ASP A 196 THR A 203 1 8 HELIX 11 11 CYS A 216 GLY A 232 1 17 HELIX 12 12 ARG A 234 LEU A 243 1 10 HELIX 13 13 TRP A 244 LEU A 247 5 4 HELIX 14 14 THR A 272 ASP A 285 1 14 HELIX 15 15 SER A 296 GLY A 306 1 11 HELIX 16 16 ASP A 314 ASN A 319 1 6 HELIX 17 17 PRO A 354 THR A 356 5 3 HELIX 18 18 THR A 371 LEU A 389 1 19 SHEET 1 A 8 LEU A 60 ARG A 62 0 SHEET 2 A 8 GLU A 92 TYR A 98 -1 O GLU A 96 N ARG A 62 SHEET 3 A 8 THR A 82 ARG A 89 -1 N ARG A 89 O GLU A 92 SHEET 4 A 8 SER A 358 SER A 364 -1 O LEU A 363 N ALA A 84 SHEET 5 A 8 GLN A 348 ASP A 353 -1 N TRP A 351 O ILE A 360 SHEET 6 A 8 VAL A 340 GLY A 344 -1 N VAL A 340 O LEU A 352 SHEET 7 A 8 TRP A 330 CYS A 332 -1 N TRP A 331 O SER A 341 SHEET 8 A 8 SER A 325 THR A 327 -1 N SER A 325 O CYS A 332 SHEET 1 B 3 HIS A 108 LEU A 109 0 SHEET 2 B 3 VAL A 269 CYS A 271 -1 O CYS A 271 N HIS A 108 SHEET 3 B 3 THR A 254 ILE A 255 -1 N THR A 254 O SER A 270 SHEET 1 C 2 VAL A 288 ALA A 289 0 SHEET 2 C 2 GLY A 292 ARG A 293 -1 O GLY A 292 N ALA A 289 LINK O GLY A 123 NA NA A 501 1555 1555 2.69 LINK OD2 ASP A 127 NA NA A 501 1555 1555 2.25 LINK OD1 ASP A 127 NA NA A 501 1555 1555 2.25 LINK OG SER A 296 NA NA A 501 1555 1555 3.14 LINK NA NA A 501 O HOH A 754 1555 1555 3.05 CISPEP 1 GLU A 20 PRO A 21 0 -0.18 CISPEP 2 PRO A 29 PRO A 30 0 0.01 SITE 1 AC1 5 GLY A 123 ASP A 127 SER A 296 TRP A 299 SITE 2 AC1 5 HOH A 754 SITE 1 AC2 8 PRO A 173 GLN A 178 ARG A 182 SER A 187 SITE 2 AC2 8 ARG A 190 HOH A 808 HOH A 934 HOH A 942 SITE 1 AC3 11 MET A 111 ALA A 112 ASP A 181 TRP A 186 SITE 2 AC3 11 TYR A 215 ASN A 266 GLY A 344 ILE A 345 SITE 3 AC3 11 GOL A 506 HOH A 770 HOH A 800 SITE 1 AC4 9 PRO A 29 ASP A 159 GLN A 161 GLY A 307 SITE 2 AC4 9 SER A 308 THR A 327 ARG A 328 HOH A 666 SITE 3 AC4 9 HOH A 774 SITE 1 AC5 5 ARG A 107 ARG A 251 ASP A 252 HOH A 721 SITE 2 AC5 5 HOH A 933 SITE 1 AC6 8 TYR A 215 ILE A 343 GLY A 344 ILE A 345 SITE 2 AC6 8 ACA A 503 GOL A 507 HOH A 682 HOH A1001 SITE 1 AC7 8 ASP A 314 GLY A 316 PHE A 317 TRP A 331 SITE 2 AC7 8 TYR A 370 HIS A 375 GOL A 506 HOH A 706 SITE 1 AC8 13 TYR A 13 PRO A 30 TRP A 34 HIS A 38 SITE 2 AC8 13 ARG A 99 GLY A 101 HIS A 309 GLU A 310 SITE 3 AC8 13 HOH A 649 HOH A 776 HOH A 794 HOH A 959 SITE 4 AC8 13 HOH A 978 SITE 1 AC9 6 LEU A 70 PRO A 71 ASP A 72 ARG A 76 SITE 2 AC9 6 HOH A 906 HOH A1016 CRYST1 96.390 96.390 112.870 90.00 90.00 120.00 P 32 2 1 6 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 0.010375 0.005990 0.000000 0.00000 SCALE2 0.000000 0.011979 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008860 0.00000