HEADER HYDROLASE 03-JUN-09 3HPA TITLE CRYSTAL STRUCTURE OF AN AMIDOHYDROLASE GI:44264246 FROM AN TITLE 2 EVIRONMENTAL SAMPLE OF SARGASSO SEA COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMIDOHYDROLASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: UNIDENTIFIED; SOURCE 3 ORGANISM_TAXID: 32644; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS AMIDOHYDROLASE, SIGNATURE OF ZN LIGANDS, STRUCTURAL GENOMICS, KEYWDS 2 NYSGXRC, TARGET 9236E, PSI-2, PROTEIN STRUCTURE INITIATIVE, NEW YORK KEYWDS 3 SGX RESEARCH CENTER FOR STRUCTURAL GENOMICS, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.A.FEDOROV,E.V.FEDOROV,R.TORO,F.M.RAUSHEL,S.K.BURLEY,S.C.ALMO,NEW AUTHOR 2 YORK SGX RESEARCH CENTER FOR STRUCTURAL GENOMICS (NYSGXRC) REVDAT 4 10-FEB-21 3HPA 1 AUTHOR JRNL REMARK REVDAT 3 24-JAN-18 3HPA 1 AUTHOR REVDAT 2 21-APR-10 3HPA 1 JRNL REVDAT 1 16-JUN-09 3HPA 0 SPRSDE 16-JUN-09 3HPA 3H4U JRNL AUTH R.S.HALL,A.A.FEDOROV,R.MARTI-ARBONA,E.V.FEDOROV,P.KOLB, JRNL AUTH 2 J.M.SAUDER,S.K.BURLEY,B.K.SHOICHET,S.C.ALMO,F.M.RAUSHEL JRNL TITL THE HUNT FOR 8-OXOGUANINE DEAMINASE. JRNL REF J.AM.CHEM.SOC. V. 132 1762 2010 JRNL REFN ISSN 0002-7863 JRNL PMID 20088583 JRNL DOI 10.1021/JA909817D REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.62 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2073974.630 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 47567 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) : 0.232 REMARK 3 FREE R VALUE : 0.276 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2406 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.28 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4288 REMARK 3 BIN R VALUE (WORKING SET) : 0.3010 REMARK 3 BIN FREE R VALUE : 0.3250 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.40 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 243 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.021 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6494 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 129 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.02000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : 0.04000 REMARK 3 B12 (A**2) : 1.08000 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) : 0.29 REMARK 3 ESD FROM SIGMAA (A) : 0.27 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) : 0.36 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.32 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.800 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) : 1.200 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.800 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.070 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.870 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.39 REMARK 3 BSOL : 62.45 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 : CIS_PEPTIDE.PARAM REMARK 3 PARAMETER FILE 5 : &_1_PARAMETER_INFILE_5 REMARK 3 PARAMETER FILE 6 : 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 : &_1_TOPOLOGY_INFILE_4 REMARK 3 TOPOLOGY FILE 5 : &_1_TOPOLOGY_INFILE_5 REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3HPA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-JUN-09. REMARK 100 THE DEPOSITION ID IS D_1000053414. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-AUG-08 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 : NSLS REMARK 200 BEAMLINE : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97915 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47567 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.07900 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: BALBES REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.44 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.8M SODIUM ACETATE, PH 7.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293.0K 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 152.75000 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 76.37500 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 76.37500 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 152.75000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27770 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -104.0 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 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 503 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 GLY A 2 REMARK 465 ALA A 3 REMARK 465 ASP A 4 REMARK 465 ARG A 5 REMARK 465 ARG A 6 REMARK 465 GLY A 7 REMARK 465 GLU A 8 REMARK 465 ARG A 9 REMARK 465 MET A 10 REMARK 465 ASN A 11 REMARK 465 LEU A 12 REMARK 465 GLU A 13 REMARK 465 GLN A 14 REMARK 465 HIS A 15 REMARK 465 ALA A 16 REMARK 465 GLY A 17 REMARK 465 ALA A 18 REMARK 465 ARG A 19 REMARK 465 ALA A 20 REMARK 465 PRO A 21 REMARK 465 ASN A 22 REMARK 465 THR A 23 REMARK 465 SER A 24 REMARK 465 SER A 25 REMARK 465 SER A 26 REMARK 465 ARG A 27 REMARK 465 PRO A 28 REMARK 465 VAL A 186 REMARK 465 GLY A 187 REMARK 465 GLN A 188 REMARK 465 ARG A 189 REMARK 465 ASP A 190 REMARK 465 GLY A 191 REMARK 465 GLY A 192 REMARK 465 LEU A 193 REMARK 465 PRO A 194 REMARK 465 PRO A 195 REMARK 465 ASP A 196 REMARK 465 SER A 197 REMARK 465 VAL A 198 REMARK 465 VAL A 199 REMARK 465 GLU A 200 REMARK 465 ARG A 201 REMARK 465 SER A 270 REMARK 465 ARG A 271 REMARK 465 GLU A 272 REMARK 465 LYS A 273 REMARK 465 PHE A 274 REMARK 465 GLY A 275 REMARK 465 MET A 276 REMARK 465 MET B 1 REMARK 465 GLY B 2 REMARK 465 ALA B 3 REMARK 465 ASP B 4 REMARK 465 ARG B 5 REMARK 465 ARG B 6 REMARK 465 GLY B 7 REMARK 465 GLU B 8 REMARK 465 ARG B 9 REMARK 465 MET B 10 REMARK 465 ASN B 11 REMARK 465 LEU B 12 REMARK 465 GLU B 13 REMARK 465 GLN B 14 REMARK 465 HIS B 15 REMARK 465 ALA B 16 REMARK 465 GLY B 17 REMARK 465 ALA B 18 REMARK 465 ARG B 19 REMARK 465 ALA B 20 REMARK 465 PRO B 21 REMARK 465 ASN B 22 REMARK 465 THR B 23 REMARK 465 SER B 24 REMARK 465 SER B 25 REMARK 465 SER B 26 REMARK 465 ARG B 27 REMARK 465 PRO B 28 REMARK 465 VAL B 186 REMARK 465 GLY B 187 REMARK 465 GLN B 188 REMARK 465 ARG B 189 REMARK 465 ASP B 190 REMARK 465 GLY B 191 REMARK 465 GLY B 192 REMARK 465 LEU B 193 REMARK 465 PRO B 194 REMARK 465 PRO B 195 REMARK 465 ASP B 196 REMARK 465 SER B 197 REMARK 465 VAL B 198 REMARK 465 VAL B 199 REMARK 465 GLU B 200 REMARK 465 ARG B 201 REMARK 465 SER B 270 REMARK 465 ARG B 271 REMARK 465 GLU B 272 REMARK 465 LYS B 273 REMARK 465 PHE B 274 REMARK 465 GLY B 275 REMARK 465 MET B 276 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 O HOH B 496 O HOH B 496 6554 1.79 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 ASP A 58 -111.41 56.80 REMARK 500 LEU A 80 30.35 -95.49 REMARK 500 HIS A 296 -84.31 79.25 REMARK 500 ASP A 347 178.91 71.84 REMARK 500 ASN A 352 -61.27 -158.79 REMARK 500 ALA A 355 47.25 -146.12 REMARK 500 THR A 387 -82.04 -119.93 REMARK 500 LEU A 415 1.78 -69.93 REMARK 500 ASP A 426 83.52 -158.36 REMARK 500 ASP B 58 -108.49 64.26 REMARK 500 LEU B 80 34.18 -98.86 REMARK 500 ASN B 109 57.79 -119.32 REMARK 500 LEU B 112 -70.09 -17.28 REMARK 500 TRP B 293 135.46 -170.41 REMARK 500 HIS B 296 -79.01 73.74 REMARK 500 GLN B 299 31.40 77.40 REMARK 500 PRO B 331 48.09 -76.30 REMARK 500 ASP B 347 171.57 69.33 REMARK 500 ASN B 352 -63.18 -154.12 REMARK 500 ALA B 355 42.97 -140.01 REMARK 500 PRO B 374 -9.61 -51.59 REMARK 500 THR B 387 -83.80 -112.84 REMARK 500 ASN B 395 47.57 72.08 REMARK 500 ASP B 426 77.81 -156.77 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 ZN A 480 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 93 NE2 REMARK 620 2 HIS A 95 NE2 106.9 REMARK 620 3 HIS A 259 NE2 94.9 95.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 480 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 93 NE2 REMARK 620 2 HIS B 95 NE2 101.0 REMARK 620 3 HIS B 259 NE2 89.9 99.0 REMARK 620 N 1 2 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 480 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 480 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3H4U RELATED DB: PDB REMARK 900 THE SAME DEPOSITION WITH WRONG POLARITY OF HIS 259 SIDE CHAIN REMARK 900 RELATED ID: NYSGXRC-9236E RELATED DB: TARGETDB DBREF 3HPA A 1 479 PDB 3HPA 3HPA 1 479 DBREF 3HPA B 1 479 PDB 3HPA 3HPA 1 479 SEQRES 1 A 479 MET GLY ALA ASP ARG ARG GLY GLU ARG MET ASN LEU GLU SEQRES 2 A 479 GLN HIS ALA GLY ALA ARG ALA PRO ASN THR SER SER SER SEQRES 3 A 479 ARG PRO LYS THR LEU LEU VAL LYS HIS ALA ASP VAL LEU SEQRES 4 A 479 VAL THR MET ASP ASP THR ARG ARG GLU LEU ARG ASP ALA SEQRES 5 A 479 GLY LEU TYR ILE GLU ASP ASN ARG ILE VAL ALA VAL GLY SEQRES 6 A 479 PRO SER ALA GLU LEU PRO GLU THR ALA ASP GLU VAL LEU SEQRES 7 A 479 ASP LEU ARG GLY HIS LEU VAL ILE PRO GLY LEU VAL ASN SEQRES 8 A 479 THR HIS HIS HIS MET TYR GLN SER LEU THR ARG ALA VAL SEQRES 9 A 479 PRO ALA ALA GLN ASN ALA GLU LEU PHE GLY TRP LEU THR SEQRES 10 A 479 ASN LEU TYR LYS ILE TRP ALA HIS LEU THR PRO GLU MET SEQRES 11 A 479 ILE GLU VAL SER THR LEU THR ALA MET ALA GLU LEU LEU SEQRES 12 A 479 GLN SER GLY CYS THR THR SER SER ASP HIS LEU TYR ILE SEQRES 13 A 479 TYR PRO ASN GLY SER ARG LEU ASP ASP SER ILE GLY ALA SEQRES 14 A 479 ALA GLN ARG ILE GLY MET ARG PHE HIS ALA SER ARG GLY SEQRES 15 A 479 ALA MET SER VAL GLY GLN ARG ASP GLY GLY LEU PRO PRO SEQRES 16 A 479 ASP SER VAL VAL GLU ARG GLU PRO ASP ILE LEU ARG ASP SEQRES 17 A 479 THR GLN ARG LEU ILE GLU THR TYR HIS ASP GLU GLY ARG SEQRES 18 A 479 TYR ALA MET LEU ARG VAL VAL VAL ALA PRO CYS SER PRO SEQRES 19 A 479 PHE SER VAL SER ARG ASP LEU MET ARG ASP ALA ALA VAL SEQRES 20 A 479 LEU ALA ARG GLU TYR GLY VAL SER LEU HIS THR HIS LEU SEQRES 21 A 479 ALA GLU ASN VAL ASN ASP ILE ALA TYR SER ARG GLU LYS SEQRES 22 A 479 PHE GLY MET THR PRO ALA GLU TYR ALA GLU ASP LEU GLY SEQRES 23 A 479 TRP VAL GLY HIS ASP VAL TRP HIS ALA HIS CYS VAL GLN SEQRES 24 A 479 LEU ASP ASP ALA GLY ILE GLY LEU PHE ALA ARG THR GLY SEQRES 25 A 479 THR GLY VAL ALA HIS CYS PRO CYS SER ASN MET ARG LEU SEQRES 26 A 479 ALA SER GLY ILE ALA PRO VAL LYS LYS MET ARG LEU ALA SEQRES 27 A 479 GLY VAL PRO VAL GLY LEU GLY VAL ASP GLY SER ALA SER SEQRES 28 A 479 ASN ASP GLY ALA GLN MET VAL ALA GLU VAL ARG GLN ALA SEQRES 29 A 479 LEU LEU LEU GLN ARG VAL GLY PHE GLY PRO ASP ALA MET SEQRES 30 A 479 THR ALA ARG GLU ALA LEU GLU ILE ALA THR LEU GLY GLY SEQRES 31 A 479 ALA LYS VAL LEU ASN ARG ASP ASP ILE GLY ALA LEU LYS SEQRES 32 A 479 PRO GLY MET ALA ALA ASP PHE ALA ALA PHE ASP LEU ARG SEQRES 33 A 479 GLN PRO LEU PHE ALA GLY ALA LEU HIS ASP PRO VAL ALA SEQRES 34 A 479 ALA LEU VAL PHE CYS ALA PRO SER GLN THR ALA TYR THR SEQRES 35 A 479 VAL VAL ASN GLY LYS VAL VAL VAL ARG GLU GLY ARG LEU SEQRES 36 A 479 ALA THR LEU ASP LEU PRO PRO VAL ILE GLU ARG HIS ASN SEQRES 37 A 479 ALA LEU ALA HIS ALA LEU VAL GLU ALA ALA ARG SEQRES 1 B 479 MET GLY ALA ASP ARG ARG GLY GLU ARG MET ASN LEU GLU SEQRES 2 B 479 GLN HIS ALA GLY ALA ARG ALA PRO ASN THR SER SER SER SEQRES 3 B 479 ARG PRO LYS THR LEU LEU VAL LYS HIS ALA ASP VAL LEU SEQRES 4 B 479 VAL THR MET ASP ASP THR ARG ARG GLU LEU ARG ASP ALA SEQRES 5 B 479 GLY LEU TYR ILE GLU ASP ASN ARG ILE VAL ALA VAL GLY SEQRES 6 B 479 PRO SER ALA GLU LEU PRO GLU THR ALA ASP GLU VAL LEU SEQRES 7 B 479 ASP LEU ARG GLY HIS LEU VAL ILE PRO GLY LEU VAL ASN SEQRES 8 B 479 THR HIS HIS HIS MET TYR GLN SER LEU THR ARG ALA VAL SEQRES 9 B 479 PRO ALA ALA GLN ASN ALA GLU LEU PHE GLY TRP LEU THR SEQRES 10 B 479 ASN LEU TYR LYS ILE TRP ALA HIS LEU THR PRO GLU MET SEQRES 11 B 479 ILE GLU VAL SER THR LEU THR ALA MET ALA GLU LEU LEU SEQRES 12 B 479 GLN SER GLY CYS THR THR SER SER ASP HIS LEU TYR ILE SEQRES 13 B 479 TYR PRO ASN GLY SER ARG LEU ASP ASP SER ILE GLY ALA SEQRES 14 B 479 ALA GLN ARG ILE GLY MET ARG PHE HIS ALA SER ARG GLY SEQRES 15 B 479 ALA MET SER VAL GLY GLN ARG ASP GLY GLY LEU PRO PRO SEQRES 16 B 479 ASP SER VAL VAL GLU ARG GLU PRO ASP ILE LEU ARG ASP SEQRES 17 B 479 THR GLN ARG LEU ILE GLU THR TYR HIS ASP GLU GLY ARG SEQRES 18 B 479 TYR ALA MET LEU ARG VAL VAL VAL ALA PRO CYS SER PRO SEQRES 19 B 479 PHE SER VAL SER ARG ASP LEU MET ARG ASP ALA ALA VAL SEQRES 20 B 479 LEU ALA ARG GLU TYR GLY VAL SER LEU HIS THR HIS LEU SEQRES 21 B 479 ALA GLU ASN VAL ASN ASP ILE ALA TYR SER ARG GLU LYS SEQRES 22 B 479 PHE GLY MET THR PRO ALA GLU TYR ALA GLU ASP LEU GLY SEQRES 23 B 479 TRP VAL GLY HIS ASP VAL TRP HIS ALA HIS CYS VAL GLN SEQRES 24 B 479 LEU ASP ASP ALA GLY ILE GLY LEU PHE ALA ARG THR GLY SEQRES 25 B 479 THR GLY VAL ALA HIS CYS PRO CYS SER ASN MET ARG LEU SEQRES 26 B 479 ALA SER GLY ILE ALA PRO VAL LYS LYS MET ARG LEU ALA SEQRES 27 B 479 GLY VAL PRO VAL GLY LEU GLY VAL ASP GLY SER ALA SER SEQRES 28 B 479 ASN ASP GLY ALA GLN MET VAL ALA GLU VAL ARG GLN ALA SEQRES 29 B 479 LEU LEU LEU GLN ARG VAL GLY PHE GLY PRO ASP ALA MET SEQRES 30 B 479 THR ALA ARG GLU ALA LEU GLU ILE ALA THR LEU GLY GLY SEQRES 31 B 479 ALA LYS VAL LEU ASN ARG ASP ASP ILE GLY ALA LEU LYS SEQRES 32 B 479 PRO GLY MET ALA ALA ASP PHE ALA ALA PHE ASP LEU ARG SEQRES 33 B 479 GLN PRO LEU PHE ALA GLY ALA LEU HIS ASP PRO VAL ALA SEQRES 34 B 479 ALA LEU VAL PHE CYS ALA PRO SER GLN THR ALA TYR THR SEQRES 35 B 479 VAL VAL ASN GLY LYS VAL VAL VAL ARG GLU GLY ARG LEU SEQRES 36 B 479 ALA THR LEU ASP LEU PRO PRO VAL ILE GLU ARG HIS ASN SEQRES 37 B 479 ALA LEU ALA HIS ALA LEU VAL GLU ALA ALA ARG HET ZN A 480 1 HET ZN B 480 1 HETNAM ZN ZINC ION FORMUL 3 ZN 2(ZN 2+) FORMUL 5 HOH *129(H2 O) HELIX 1 1 ALA A 68 LEU A 70 5 3 HELIX 2 2 HIS A 95 THR A 101 5 7 HELIX 3 3 GLU A 111 ALA A 124 1 14 HELIX 4 4 THR A 127 GLN A 144 1 18 HELIX 5 5 ARG A 162 GLY A 174 1 13 HELIX 6 6 GLU A 202 HIS A 217 1 16 HELIX 7 7 SER A 238 GLY A 253 1 16 HELIX 8 8 ASN A 263 TYR A 269 1 7 HELIX 9 9 THR A 277 LEU A 285 1 9 HELIX 10 10 ASP A 301 GLY A 312 1 12 HELIX 11 11 CYS A 318 LEU A 325 1 8 HELIX 12 12 PRO A 331 GLY A 339 1 9 HELIX 13 13 GLN A 356 GLY A 373 1 18 HELIX 14 14 THR A 378 ALA A 386 1 9 HELIX 15 15 THR A 387 ASN A 395 1 9 HELIX 16 16 GLN A 417 ALA A 421 5 5 HELIX 17 17 ASP A 426 CYS A 434 1 9 HELIX 18 18 ASP A 459 ARG A 479 1 21 HELIX 19 19 ALA B 68 LEU B 70 5 3 HELIX 20 20 HIS B 95 THR B 101 5 7 HELIX 21 21 VAL B 104 ASN B 109 1 6 HELIX 22 22 GLU B 111 ALA B 124 1 14 HELIX 23 23 THR B 127 GLN B 144 1 18 HELIX 24 24 ARG B 162 GLY B 174 1 13 HELIX 25 25 GLU B 202 HIS B 217 1 16 HELIX 26 26 SER B 238 GLY B 253 1 16 HELIX 27 27 ASN B 263 ALA B 268 1 6 HELIX 28 28 THR B 277 ASP B 284 1 8 HELIX 29 29 ASP B 301 GLY B 312 1 12 HELIX 30 30 CYS B 318 LEU B 325 1 8 HELIX 31 31 PRO B 331 GLY B 339 1 9 HELIX 32 32 GLN B 356 GLY B 373 1 18 HELIX 33 33 THR B 378 THR B 387 1 10 HELIX 34 34 THR B 387 ASN B 395 1 9 HELIX 35 35 GLN B 417 ALA B 421 5 5 HELIX 36 36 ASP B 426 CYS B 434 1 9 HELIX 37 37 ASP B 459 ARG B 479 1 21 SHEET 1 A 4 ARG A 60 PRO A 66 0 SHEET 2 A 4 GLU A 48 GLU A 57 -1 N TYR A 55 O ALA A 63 SHEET 3 A 4 THR A 30 VAL A 40 -1 N LEU A 31 O ILE A 56 SHEET 4 A 4 GLU A 76 ASP A 79 1 O LEU A 78 N LEU A 32 SHEET 1 B 8 ARG A 60 PRO A 66 0 SHEET 2 B 8 GLU A 48 GLU A 57 -1 N TYR A 55 O ALA A 63 SHEET 3 B 8 THR A 30 VAL A 40 -1 N LEU A 31 O ILE A 56 SHEET 4 B 8 HIS A 83 PRO A 87 1 O VAL A 85 N VAL A 38 SHEET 5 B 8 PHE A 410 ASP A 414 -1 O ALA A 411 N ILE A 86 SHEET 6 B 8 TYR A 441 VAL A 444 -1 O VAL A 443 N PHE A 410 SHEET 7 B 8 LYS A 447 ARG A 451 -1 O LYS A 447 N VAL A 444 SHEET 8 B 8 ARG A 454 LEU A 455 -1 O ARG A 454 N ARG A 451 SHEET 1 C 9 LEU A 89 ASN A 91 0 SHEET 2 C 9 CYS A 147 SER A 151 1 O THR A 149 N ASN A 91 SHEET 3 C 9 ARG A 176 ALA A 183 1 O HIS A 178 N SER A 150 SHEET 4 C 9 LEU A 225 PRO A 231 1 O VAL A 228 N ARG A 181 SHEET 5 C 9 SER A 255 LEU A 260 1 O SER A 255 N VAL A 229 SHEET 6 C 9 VAL A 292 HIS A 296 1 O ALA A 295 N THR A 258 SHEET 7 C 9 GLY A 314 HIS A 317 1 O GLY A 314 N HIS A 294 SHEET 8 C 9 VAL A 342 LEU A 344 1 O GLY A 343 N HIS A 317 SHEET 9 C 9 LEU A 89 ASN A 91 1 N VAL A 90 O LEU A 344 SHEET 1 D 4 ARG B 60 PRO B 66 0 SHEET 2 D 4 GLU B 48 GLU B 57 -1 N TYR B 55 O VAL B 62 SHEET 3 D 4 THR B 30 VAL B 40 -1 N LEU B 39 O LEU B 49 SHEET 4 D 4 GLU B 76 ASP B 79 1 O LEU B 78 N LEU B 32 SHEET 1 E 8 ARG B 60 PRO B 66 0 SHEET 2 E 8 GLU B 48 GLU B 57 -1 N TYR B 55 O VAL B 62 SHEET 3 E 8 THR B 30 VAL B 40 -1 N LEU B 39 O LEU B 49 SHEET 4 E 8 HIS B 83 PRO B 87 1 O VAL B 85 N VAL B 40 SHEET 5 E 8 PHE B 410 ASP B 414 -1 O ALA B 411 N ILE B 86 SHEET 6 E 8 TYR B 441 VAL B 444 -1 O VAL B 443 N PHE B 410 SHEET 7 E 8 LYS B 447 ARG B 451 -1 O LYS B 447 N VAL B 444 SHEET 8 E 8 ARG B 454 LEU B 455 -1 O ARG B 454 N ARG B 451 SHEET 1 F 9 LEU B 89 ASN B 91 0 SHEET 2 F 9 CYS B 147 SER B 151 1 O THR B 149 N ASN B 91 SHEET 3 F 9 ARG B 176 ALA B 183 1 O ARG B 176 N SER B 150 SHEET 4 F 9 LEU B 225 PRO B 231 1 O VAL B 228 N ARG B 181 SHEET 5 F 9 SER B 255 LEU B 260 1 O SER B 255 N VAL B 229 SHEET 6 F 9 VAL B 292 HIS B 296 1 O ALA B 295 N THR B 258 SHEET 7 F 9 GLY B 314 HIS B 317 1 O GLY B 314 N HIS B 294 SHEET 8 F 9 VAL B 342 LEU B 344 1 O GLY B 343 N VAL B 315 SHEET 9 F 9 LEU B 89 ASN B 91 1 N VAL B 90 O LEU B 344 LINK NE2 HIS A 93 ZN ZN A 480 1555 1555 2.13 LINK NE2 HIS A 95 ZN ZN A 480 1555 1555 2.13 LINK NE2 HIS A 259 ZN ZN A 480 1555 1555 2.31 LINK NE2 HIS B 93 ZN ZN B 480 1555 1555 2.12 LINK NE2 HIS B 95 ZN ZN B 480 1555 1555 2.12 LINK NE2 HIS B 259 ZN ZN B 480 1555 1555 2.17 CISPEP 1 ASN A 352 ASP A 353 0 -0.83 CISPEP 2 ASN B 352 ASP B 353 0 -0.74 SITE 1 AC1 4 HIS A 93 HIS A 95 HIS A 259 ASP A 347 SITE 1 AC2 4 HIS B 93 HIS B 95 HIS B 259 ASP B 347 CRYST1 83.304 83.304 229.125 90.00 90.00 120.00 P 32 2 1 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 0.012004 0.006931 0.000000 0.00000 SCALE2 0.000000 0.013861 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004364 0.00000 MASTER 455 0 2 37 42 0 2 6 0 0 0 74 END