HEADER HYDROLASE 19-OCT-07 3B3C TITLE CRYSTAL STRUCTURE OF THE M180A MUTANT OF THE AMINOPEPTIDASE FROM TITLE 2 VIBRIO PROTEOLYTICUS IN COMPLEX WITH LEUCINE PHOSPHONIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: BACTERIAL LEUCYL AMINOPEPTIDASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 107-397; COMPND 5 EC: 3.4.11.10; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO PROTEOLYTICUS; SOURCE 3 ORGANISM_TAXID: 671; SOURCE 4 STRAIN: DSM 30189 / IFO 13287 / LMG 3772 / NCIMB 1326; SOURCE 5 ATCC: 15338; SOURCE 6 GENE: AAP; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET21B KEYWDS ALPHA BETA, AMINOPEPTIDASE, HYDROLASE, METAL-BINDING, PROTEASE, KEYWDS 2 SECRETED, ZINC, ZYMOGEN EXPDTA X-RAY DIFFRACTION AUTHOR N.J.ATAIE,Q.Q.HOANG,G.A.PETSKO,D.RINGE REVDAT 6 20-OCT-21 3B3C 1 REMARK SEQADV LINK REVDAT 5 25-OCT-17 3B3C 1 REMARK REVDAT 4 24-FEB-09 3B3C 1 VERSN REVDAT 3 12-AUG-08 3B3C 1 JRNL REVDAT 2 19-FEB-08 3B3C 1 AUTHOR JRNL REVDAT 1 27-NOV-07 3B3C 0 JRNL AUTH N.J.ATAIE,Q.Q.HOANG,M.P.ZAHNISER,Y.TU,A.MILNE,G.A.PETSKO, JRNL AUTH 2 D.RINGE JRNL TITL ZINC COORDINATION GEOMETRY AND LIGAND BINDING AFFINITY: THE JRNL TITL 2 STRUCTURAL AND KINETIC ANALYSIS OF THE SECOND-SHELL SERINE JRNL TITL 3 228 RESIDUE AND THE METHIONINE 180 RESIDUE OF THE JRNL TITL 4 AMINOPEPTIDASE FROM VIBRIO PROTEOLYTICUS. JRNL REF BIOCHEMISTRY V. 47 7673 2008 JRNL REFN ISSN 0006-2960 JRNL PMID 18576673 JRNL DOI 10.1021/BI702188E REMARK 2 REMARK 2 RESOLUTION. 1.46 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.46 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.63 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 57867 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) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2926 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) : 1.46 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.50 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3824 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.34 REMARK 3 BIN R VALUE (WORKING SET) : 0.3220 REMARK 3 BIN FREE R VALUE SET COUNT : 192 REMARK 3 BIN FREE R VALUE : 0.3580 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2208 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 22 REMARK 3 SOLVENT ATOMS : 278 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.069 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.072 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.047 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.213 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.954 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2271 ; 0.009 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3100 ; 1.203 ; 1.931 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 290 ; 5.793 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 103 ;37.238 ;25.631 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 337 ;12.643 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 5 ;16.968 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 347 ; 0.079 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1755 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1209 ; 0.231 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1617 ; 0.305 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 236 ; 0.252 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 8 ; 0.386 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 42 ; 0.255 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 21 ; 0.127 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): 1 ; 0.109 ; 0.200 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): 1452 ; 0.646 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2334 ; 1.170 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 819 ; 1.739 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 766 ; 2.660 ; 4.500 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3B3C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-OCT-07. REMARK 100 THE DEPOSITION ID IS D_1000045026. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-BM-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.90010 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57867 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.460 REMARK 200 RESOLUTION RANGE LOW (A) : 30.630 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL 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 : NULL 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: PDB ENTRY 3B35 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.62 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HEPES, KSCN, NACL, PH 8.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 32.40200 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 64.80400 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 48.60300 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 81.00500 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 16.20100 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 32.40200 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 64.80400 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 81.00500 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 48.60300 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 16.20100 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 300 REMARK: AUTHORS STATE THAT THE BIOLOGICAL UNIT OF THIS PROTEIN IS REMARK 300 UNKNOWN. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 A 885 LIES ON A SPECIAL POSITION. 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 O HOH A 655 O HOH A 848 1.26 REMARK 500 O HOH A 819 O HOH A 874 1.41 REMARK 500 O HOH A 635 O HOH A 846 1.47 REMARK 500 O HOH A 641 O HOH A 874 1.54 REMARK 500 O HOH A 675 O HOH A 877 1.59 REMARK 500 O HOH A 609 O HOH A 807 1.95 REMARK 500 O HOH A 795 O HOH A 807 2.01 REMARK 500 OE1 GLN A 44 O HOH A 786 2.11 REMARK 500 O HOH A 848 O HOH A 880 2.14 REMARK 500 O HOH A 756 O HOH A 859 2.16 REMARK 500 O TYR A 73 O HOH A 816 2.18 REMARK 500 K K A 600 O2 PLU A 500 2.19 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 ALA A 180 97.26 78.22 REMARK 500 ASN A 252 114.50 -33.36 REMARK 500 SER A 265 -91.53 -100.00 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 603 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 24 O REMARK 620 2 SER A 27 OG 69.6 REMARK 620 3 SER A 28 OG 66.8 117.2 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 97 NE2 REMARK 620 2 ASP A 117 OD1 95.2 REMARK 620 3 ASP A 179 OD1 94.2 94.7 REMARK 620 4 ASP A 179 OD2 89.5 152.8 58.2 REMARK 620 5 PLU A 500 N 169.0 95.7 86.3 81.4 REMARK 620 6 PLU A 500 O3 95.8 108.3 153.9 97.9 79.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 117 OD2 REMARK 620 2 GLU A 152 OE2 100.2 REMARK 620 3 HIS A 256 NE2 99.3 109.9 REMARK 620 4 PLU A 500 O1 100.3 140.7 99.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 600 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 227 O REMARK 620 2 HOH A 680 O 172.7 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 600 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SCN A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 606 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 607 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLU A 500 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3B35 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF M180A MUTANT OF AMINOPEPTIDASE FROM VIBRIO REMARK 900 PROTEOLYTICUS REMARK 900 RELATED ID: 3B3S RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF M180A MUTANT OF AMINOPEPTIDASE FROM VIBRIO REMARK 900 PROTEOLYTICUS IN COMPLEX WITH LEUCINE REMARK 900 RELATED ID: 3B3T RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF D118N MUTANT OF AMINOPEPTIDASE FROM VIBRIO REMARK 900 PROTEOLYTICUS REMARK 900 RELATED ID: 3B3V RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF S228A MUTANT OF AMINOPEPTIDASE FROM VIBRIO REMARK 900 PROTEOLYTICUS REMARK 900 RELATED ID: 3B3W RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF S228A MUTANT OF AMINOPEPTIDASE FROM VIBRIO REMARK 900 PROTEOLYTICUS IN COMPLEX WITH LEUCINE DBREF 3B3C A 1 291 UNP Q01693 AMPX_VIBPR 107 397 SEQADV 3B3C ALA A 180 UNP Q01693 MET 286 ENGINEERED MUTATION SEQRES 1 A 291 MET PRO PRO ILE THR GLN GLN ALA THR VAL THR ALA TRP SEQRES 2 A 291 LEU PRO GLN VAL ASP ALA SER GLN ILE THR GLY THR ILE SEQRES 3 A 291 SER SER LEU GLU SER PHE THR ASN ARG PHE TYR THR THR SEQRES 4 A 291 THR SER GLY ALA GLN ALA SER ASP TRP ILE ALA SER GLU SEQRES 5 A 291 TRP GLN ALA LEU SER ALA SER LEU PRO ASN ALA SER VAL SEQRES 6 A 291 LYS GLN VAL SER HIS SER GLY TYR ASN GLN LYS SER VAL SEQRES 7 A 291 VAL MET THR ILE THR GLY SER GLU ALA PRO ASP GLU TRP SEQRES 8 A 291 ILE VAL ILE GLY GLY HIS LEU ASP SER THR ILE GLY SER SEQRES 9 A 291 HIS THR ASN GLU GLN SER VAL ALA PRO GLY ALA ASP ASP SEQRES 10 A 291 ASP ALA SER GLY ILE ALA ALA VAL THR GLU VAL ILE ARG SEQRES 11 A 291 VAL LEU SER GLU ASN ASN PHE GLN PRO LYS ARG SER ILE SEQRES 12 A 291 ALA PHE MET ALA TYR ALA ALA GLU GLU VAL GLY LEU ARG SEQRES 13 A 291 GLY SER GLN ASP LEU ALA ASN GLN TYR LYS SER GLU GLY SEQRES 14 A 291 LYS ASN VAL VAL SER ALA LEU GLN LEU ASP ALA THR ASN SEQRES 15 A 291 TYR LYS GLY SER ALA GLN ASP VAL VAL PHE ILE THR ASP SEQRES 16 A 291 TYR THR ASP SER ASN PHE THR GLN TYR LEU THR GLN LEU SEQRES 17 A 291 MET ASP GLU TYR LEU PRO SER LEU THR TYR GLY PHE ASP SEQRES 18 A 291 THR CYS GLY TYR ALA CYS SER ASP HIS ALA SER TRP HIS SEQRES 19 A 291 ASN ALA GLY TYR PRO ALA ALA MET PRO PHE GLU SER LYS SEQRES 20 A 291 PHE ASN ASP TYR ASN PRO ARG ILE HIS THR THR GLN ASP SEQRES 21 A 291 THR LEU ALA ASN SER ASP PRO THR GLY SER HIS ALA LYS SEQRES 22 A 291 LYS PHE THR GLN LEU GLY LEU ALA TYR ALA ILE GLU MET SEQRES 23 A 291 GLY SER ALA THR GLY HET ZN A 501 1 HET ZN A 502 1 HET K A 600 1 HET SCN A 601 3 HET NA A 602 1 HET NA A 603 1 HET NA A 604 1 HET NA A 605 1 HET NA A 606 1 HET NA A 607 1 HET PLU A 500 10 HETNAM ZN ZINC ION HETNAM K POTASSIUM ION HETNAM SCN THIOCYANATE ION HETNAM NA SODIUM ION HETNAM PLU LEUCINE PHOSPHONIC ACID FORMUL 2 ZN 2(ZN 2+) FORMUL 4 K K 1+ FORMUL 5 SCN C N S 1- FORMUL 6 NA 6(NA 1+) FORMUL 12 PLU C5 H14 N O3 P FORMUL 13 HOH *278(H2 O) HELIX 1 1 GLN A 6 LEU A 14 1 9 HELIX 2 2 PRO A 15 VAL A 17 5 3 HELIX 3 3 ASP A 18 SER A 31 1 14 HELIX 4 4 THR A 39 ALA A 58 1 20 HELIX 5 5 ASP A 118 ASN A 135 1 18 HELIX 6 6 LEU A 155 GLU A 168 1 14 HELIX 7 7 ASP A 198 LEU A 213 1 16 HELIX 8 8 ASP A 229 ALA A 236 1 8 HELIX 9 9 LYS A 247 TYR A 251 5 5 HELIX 10 10 THR A 261 ASP A 266 1 6 HELIX 11 11 GLY A 269 ALA A 289 1 21 SHEET 1 A 8 ALA A 63 VAL A 68 0 SHEET 2 A 8 SER A 77 ILE A 82 -1 O VAL A 79 N LYS A 66 SHEET 3 A 8 ARG A 141 TYR A 148 -1 O PHE A 145 N MET A 80 SHEET 4 A 8 ALA A 87 HIS A 97 1 N ILE A 92 O ALA A 144 SHEET 5 A 8 ASN A 171 GLN A 177 1 O ASN A 171 N TRP A 91 SHEET 6 A 8 ALA A 240 PHE A 244 1 O ALA A 241 N GLN A 177 SHEET 7 A 8 VAL A 190 ILE A 193 -1 N VAL A 191 O PHE A 244 SHEET 8 A 8 TYR A 218 ASP A 221 1 O GLY A 219 N PHE A 192 SSBOND 1 CYS A 223 CYS A 227 1555 1555 2.04 LINK OG1 THR A 9 NA NA A 602 1555 1555 2.92 LINK O GLY A 24 NA NA A 603 1555 1555 2.74 LINK OG SER A 27 NA NA A 603 1555 1555 2.64 LINK OG SER A 28 NA NA A 603 1555 1555 2.82 LINK NE2 HIS A 97 ZN ZN A 502 1555 1555 2.07 LINK OD2 ASP A 117 ZN ZN A 501 1555 1555 2.02 LINK OD1 ASP A 117 ZN ZN A 502 1555 1555 2.07 LINK OE2 GLU A 152 ZN ZN A 501 1555 1555 2.04 LINK OD1 ASP A 179 ZN ZN A 502 1555 1555 2.19 LINK OD2 ASP A 179 ZN ZN A 502 1555 1555 2.27 LINK O CYS A 227 K K A 600 1555 1555 2.41 LINK NE2 HIS A 256 ZN ZN A 501 1555 1555 2.06 LINK O1 PLU A 500 ZN ZN A 501 1555 1555 1.96 LINK N PLU A 500 ZN ZN A 502 1555 1555 2.26 LINK O3 PLU A 500 ZN ZN A 502 1555 1555 2.17 LINK K K A 600 O HOH A 680 1555 1555 2.36 LINK NA NA A 605 O HOH A 704 1555 1555 2.89 CISPEP 1 ASP A 117 ASP A 118 0 1.52 SITE 1 AC1 4 ASP A 117 GLU A 152 HIS A 256 PLU A 500 SITE 1 AC2 4 HIS A 97 ASP A 117 ASP A 179 PLU A 500 SITE 1 AC3 5 GLU A 151 CYS A 227 PLU A 500 HOH A 672 SITE 2 AC3 5 HOH A 680 SITE 1 AC4 5 THR A 194 THR A 202 GLN A 203 LEU A 262 SITE 2 AC4 5 HOH A 641 SITE 1 AC5 2 GLN A 6 THR A 9 SITE 1 AC6 5 GLY A 24 SER A 27 SER A 28 ASN A 200 SITE 2 AC6 5 HOH A 806 SITE 1 AC7 2 TYR A 73 ASN A 74 SITE 1 AC8 3 ALA A 55 SER A 71 HOH A 704 SITE 1 AC9 4 LEU A 213 PRO A 214 SER A 215 HOH A 852 SITE 1 BC1 2 ALA A 19 LYS A 273 SITE 1 BC2 15 HIS A 97 ASP A 117 GLU A 151 GLU A 152 SITE 2 BC2 15 ASP A 179 CYS A 227 PHE A 248 TYR A 251 SITE 3 BC2 15 HIS A 256 ZN A 501 ZN A 502 K A 600 SITE 4 BC2 15 HOH A 645 HOH A 662 HOH A 713 CRYST1 108.189 108.189 97.206 90.00 90.00 120.00 P 61 2 2 12 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 0.009243 0.005336 0.000000 0.00000 SCALE2 0.000000 0.010673 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010287 0.00000 MASTER 418 0 11 11 8 0 17 6 0 0 0 23 END