PDB Short entry for 1KQ9 HEADER HYDROLASE 04-JAN-02 1KQ9 TITLE HUMAN METHIONINE AMINOPEPTIDASE TYPE II IN COMPLEX WITH L-METHIONINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: METHIONINE AMINOPEPTIDASE 2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: METHIONYL AMINOPEPTIDASE 2; METAP 2; PEPTIDASE M 2; COMPND 5 INITIATION FACTOR 2 ASSOCIATED 67 KDA GLYCOPROTEIN; P67; P67EIF2; COMPND 6 EC: 3.4.11.18; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 CELLULAR_LOCATION: CYTOPLASM; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: SF21; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: VIRUS; SOURCE 11 EXPRESSION_SYSTEM_VECTOR: BACULOVIRUS PACSG2 KEYWDS CENTRAL B-SHEET AND TWO PAIRS OF A-HELICES, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.C.NONATO,J.WIDOM,J.CLARDY REVDAT 4 16-AUG-23 1KQ9 1 REMARK SEQADV LINK REVDAT 3 24-FEB-09 1KQ9 1 VERSN REVDAT 2 18-APR-06 1KQ9 1 JRNL REVDAT 1 09-DEC-03 1KQ9 0 JRNL AUTH M.C.NONATO,J.WIDOM,J.CLARDY JRNL TITL HUMAN METHIONINE AMINOPEPTIDASE TYPE 2 IN COMPLEX WITH L- JRNL TITL 2 AND D-METHIONINE JRNL REF BIOORG.MED.CHEM.LETT. V. 16 2580 2006 JRNL REFN ISSN 0960-894X JRNL PMID 16540317 JRNL DOI 10.1016/J.BMCL.2006.02.047 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 66.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.7 REMARK 3 NUMBER OF REFLECTIONS : 31888 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.207 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1701 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2716 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 16 REMARK 3 SOLVENT ATOMS : 204 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.07 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.00000 REMARK 3 B22 (A**2) : -0.87000 REMARK 3 B33 (A**2) : -0.14000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.007 ; 0.021 REMARK 3 ANGLE DISTANCE (A) : 1.914 ; 1.960 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 3.087 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 4.119 ; 3.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 3.656 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 5.323 ; 3.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1KQ9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-JAN-02. REMARK 100 THE DEPOSITION ID IS D_1000015224. 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 : 5.5 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) : NULL REMARK 200 MONOCHROMATOR : BENT CONICAL SI-MIRROR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33600 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 66.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.0 REMARK 200 DATA REDUNDANCY : 3.240 REMARK 200 R MERGE (I) : 0.04200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 23.2400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.04600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL 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: PDB ENTRY 1BN5 REMARK 200 REMARK 200 REMARK: 54.6 REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.73 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18-23% T-BUTANOL IN 70 MM SODIUM REMARK 280 CITRATE BUFFER, PH 5.3 TO 5.6, 3 MM DTT (DL-DITHIOTHREITOL), REMARK 280 VAPOR DIFFUSION, SITTING DROP AT 277K, PH 5.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.68500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.68500 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 45.03450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.33000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 45.03450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.33000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 50.68500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 45.03450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 49.33000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 50.68500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 45.03450 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 49.33000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC 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 748 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 802 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 ALA A 2 REMARK 465 GLY A 3 REMARK 465 VAL A 4 REMARK 465 GLU A 5 REMARK 465 GLU A 6 REMARK 465 VAL A 7 REMARK 465 ALA A 8 REMARK 465 ALA A 9 REMARK 465 SER A 10 REMARK 465 GLY A 11 REMARK 465 SER A 12 REMARK 465 HIS A 13 REMARK 465 LEU A 14 REMARK 465 ASN A 15 REMARK 465 GLY A 16 REMARK 465 ASP A 17 REMARK 465 LEU A 18 REMARK 465 ASP A 19 REMARK 465 PRO A 20 REMARK 465 ASP A 21 REMARK 465 ASP A 22 REMARK 465 ARG A 23 REMARK 465 GLU A 24 REMARK 465 GLU A 25 REMARK 465 GLY A 26 REMARK 465 ALA A 27 REMARK 465 ALA A 28 REMARK 465 SER A 29 REMARK 465 THR A 30 REMARK 465 ALA A 31 REMARK 465 GLU A 32 REMARK 465 GLU A 33 REMARK 465 ALA A 34 REMARK 465 ALA A 35 REMARK 465 LYS A 36 REMARK 465 LYS A 37 REMARK 465 LYS A 38 REMARK 465 ARG A 39 REMARK 465 ARG A 40 REMARK 465 LYS A 41 REMARK 465 LYS A 42 REMARK 465 LYS A 43 REMARK 465 LYS A 44 REMARK 465 SER A 45 REMARK 465 LYS A 46 REMARK 465 GLY A 47 REMARK 465 PRO A 48 REMARK 465 SER A 49 REMARK 465 ALA A 50 REMARK 465 ALA A 51 REMARK 465 GLY A 52 REMARK 465 GLU A 53 REMARK 465 GLN A 54 REMARK 465 GLU A 55 REMARK 465 PRO A 56 REMARK 465 ASP A 57 REMARK 465 LYS A 58 REMARK 465 GLU A 59 REMARK 465 SER A 60 REMARK 465 GLY A 61 REMARK 465 ALA A 62 REMARK 465 SER A 63 REMARK 465 VAL A 64 REMARK 465 ASP A 65 REMARK 465 GLU A 66 REMARK 465 VAL A 67 REMARK 465 ALA A 68 REMARK 465 ARG A 69 REMARK 465 GLN A 70 REMARK 465 LEU A 71 REMARK 465 GLU A 72 REMARK 465 ARG A 73 REMARK 465 SER A 74 REMARK 465 ALA A 75 REMARK 465 LEU A 76 REMARK 465 GLU A 77 REMARK 465 ASP A 78 REMARK 465 LYS A 79 REMARK 465 GLU A 80 REMARK 465 ARG A 81 REMARK 465 ASP A 82 REMARK 465 GLU A 83 REMARK 465 ASP A 84 REMARK 465 ASP A 85 REMARK 465 GLU A 86 REMARK 465 ASP A 87 REMARK 465 GLY A 88 REMARK 465 ASP A 89 REMARK 465 GLY A 90 REMARK 465 ASP A 91 REMARK 465 GLY A 92 REMARK 465 ASP A 93 REMARK 465 GLY A 94 REMARK 465 ALA A 95 REMARK 465 THR A 96 REMARK 465 GLY A 97 REMARK 465 LYS A 98 REMARK 465 LYS A 99 REMARK 465 LYS A 100 REMARK 465 LYS A 101 REMARK 465 LYS A 102 REMARK 465 LYS A 103 REMARK 465 LYS A 104 REMARK 465 LYS A 105 REMARK 465 LYS A 106 REMARK 465 ARG A 107 REMARK 465 GLY A 108 REMARK 465 PRO A 109 REMARK 465 LYS A 110 REMARK 465 VAL A 111 REMARK 465 ASP A 114 REMARK 465 PRO A 115 REMARK 465 PRO A 139 REMARK 465 THR A 140 REMARK 465 GLN A 141 REMARK 465 ASP A 142 REMARK 465 GLY A 143 REMARK 465 ARG A 144 REMARK 465 THR A 145 REMARK 465 ALA A 146 REMARK 465 ALA A 147 REMARK 465 TRP A 148 REMARK 465 ARG A 149 REMARK 465 THR A 150 REMARK 465 THR A 151 REMARK 465 SER A 152 REMARK 465 GLU A 153 REMARK 465 GLU A 154 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 THR A 113 CG2 REMARK 470 ASN A 126 CG OD1 ND2 REMARK 470 GLU A 136 CB CG CD OE1 OE2 REMARK 470 LYS A 156 CD CE NZ REMARK 470 LYS A 278 CD CE NZ REMARK 470 LYS A 289 CG CD CE NZ REMARK 470 ARG A 395 CZ NH1 NH2 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 ARG A 205 CD - NE - CZ ANGL. DEV. = 10.7 DEGREES REMARK 500 ARG A 205 CD - NE - CZ ANGL. DEV. = 15.3 DEGREES REMARK 500 HIS A 331 CE1 - NE2 - CD2 ANGL. DEV. = 5.2 DEGREES REMARK 500 ARG A 354 CD - NE - CZ ANGL. DEV. = 11.5 DEGREES REMARK 500 ARG A 354 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 417 NE - CZ - NH2 ANGL. DEV. = -5.6 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 SER A 117 -20.93 -152.49 REMARK 500 CYS A 223 38.09 -147.09 REMARK 500 ASN A 226 -110.77 52.24 REMARK 500 ASP A 294 -0.91 79.28 REMARK 500 MET A 378 -177.50 75.98 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 479 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 251 OD1 REMARK 620 2 ASP A 251 OD2 51.3 REMARK 620 3 ASP A 262 OD1 99.8 150.7 REMARK 620 4 GLU A 459 OE1 97.3 90.2 88.7 REMARK 620 5 MET A 601 N 84.4 86.0 97.1 173.6 REMARK 620 6 MET A 601 OXT 143.5 99.2 109.4 104.6 71.0 REMARK 620 N 1 2 3 4 5 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 ASP A 262 OD2 REMARK 620 2 HIS A 331 NE2 89.8 REMARK 620 3 GLU A 364 OE1 173.9 90.5 REMARK 620 4 GLU A 459 OE2 83.6 123.2 91.2 REMARK 620 5 MET A 601 OXT 86.5 129.4 98.1 106.5 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 ZN A 479 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 480 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MET A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TBU A 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1KQ0 RELATED DB: PDB REMARK 900 HUMAN METAP-2 IN COMPLEX WITH D-METHIONINE DBREF 1KQ9 A 1 478 UNP P50579 AMPM2_HUMAN 1 478 SEQADV 1KQ9 ILE A 347 UNP P50579 VAL 347 CONFLICT SEQRES 1 A 478 MET ALA GLY VAL GLU GLU VAL ALA ALA SER GLY SER HIS SEQRES 2 A 478 LEU ASN GLY ASP LEU ASP PRO ASP ASP ARG GLU GLU GLY SEQRES 3 A 478 ALA ALA SER THR ALA GLU GLU ALA ALA LYS LYS LYS ARG SEQRES 4 A 478 ARG LYS LYS LYS LYS SER LYS GLY PRO SER ALA ALA GLY SEQRES 5 A 478 GLU GLN GLU PRO ASP LYS GLU SER GLY ALA SER VAL ASP SEQRES 6 A 478 GLU VAL ALA ARG GLN LEU GLU ARG SER ALA LEU GLU ASP SEQRES 7 A 478 LYS GLU ARG ASP GLU ASP ASP GLU ASP GLY ASP GLY ASP SEQRES 8 A 478 GLY ASP GLY ALA THR GLY LYS LYS LYS LYS LYS LYS LYS SEQRES 9 A 478 LYS LYS ARG GLY PRO LYS VAL GLN THR ASP PRO PRO SER SEQRES 10 A 478 VAL PRO ILE CYS ASP LEU TYR PRO ASN GLY VAL PHE PRO SEQRES 11 A 478 LYS GLY GLN GLU CYS GLU TYR PRO PRO THR GLN ASP GLY SEQRES 12 A 478 ARG THR ALA ALA TRP ARG THR THR SER GLU GLU LYS LYS SEQRES 13 A 478 ALA LEU ASP GLN ALA SER GLU GLU ILE TRP ASN ASP PHE SEQRES 14 A 478 ARG GLU ALA ALA GLU ALA HIS ARG GLN VAL ARG LYS TYR SEQRES 15 A 478 VAL MET SER TRP ILE LYS PRO GLY MET THR MET ILE GLU SEQRES 16 A 478 ILE CYS GLU LYS LEU GLU ASP CYS SER ARG LYS LEU ILE SEQRES 17 A 478 LYS GLU ASN GLY LEU ASN ALA GLY LEU ALA PHE PRO THR SEQRES 18 A 478 GLY CYS SER LEU ASN ASN CYS ALA ALA HIS TYR THR PRO SEQRES 19 A 478 ASN ALA GLY ASP THR THR VAL LEU GLN TYR ASP ASP ILE SEQRES 20 A 478 CYS LYS ILE ASP PHE GLY THR HIS ILE SER GLY ARG ILE SEQRES 21 A 478 ILE ASP CYS ALA PHE THR VAL THR PHE ASN PRO LYS TYR SEQRES 22 A 478 ASP THR LEU LEU LYS ALA VAL LYS ASP ALA THR ASN THR SEQRES 23 A 478 GLY ILE LYS CYS ALA GLY ILE ASP VAL ARG LEU CYS ASP SEQRES 24 A 478 VAL GLY GLU ALA ILE GLN GLU VAL MET GLU SER TYR GLU SEQRES 25 A 478 VAL GLU ILE ASP GLY LYS THR TYR GLN VAL LYS PRO ILE SEQRES 26 A 478 ARG ASN LEU ASN GLY HIS SER ILE GLY GLN TYR ARG ILE SEQRES 27 A 478 HIS ALA GLY LYS THR VAL PRO ILE ILE LYS GLY GLY GLU SEQRES 28 A 478 ALA THR ARG MET GLU GLU GLY GLU VAL TYR ALA ILE GLU SEQRES 29 A 478 THR PHE GLY SER THR GLY LYS GLY VAL VAL HIS ASP ASP SEQRES 30 A 478 MET GLU CYS SER HIS TYR MET LYS ASN PHE ASP VAL GLY SEQRES 31 A 478 HIS VAL PRO ILE ARG LEU PRO ARG THR LYS HIS LEU LEU SEQRES 32 A 478 ASN VAL ILE ASN GLU ASN PHE GLY THR LEU ALA PHE CYS SEQRES 33 A 478 ARG ARG TRP LEU ASP ARG LEU GLY GLU SER LYS TYR LEU SEQRES 34 A 478 MET ALA LEU LYS ASN LEU CYS ASP LEU GLY ILE VAL ASP SEQRES 35 A 478 PRO TYR PRO PRO LEU CYS ASP ILE LYS GLY SER TYR THR SEQRES 36 A 478 ALA GLN PHE GLU HIS THR ILE LEU LEU ARG PRO THR CYS SEQRES 37 A 478 LYS GLU VAL VAL SER ARG GLY ASP ASP TYR HET ZN A 479 1 HET ZN A 480 1 HET MET A 601 9 HET TBU A 501 5 HETNAM ZN ZINC ION HETNAM MET METHIONINE HETNAM TBU TERTIARY-BUTYL ALCOHOL HETSYN TBU 2-METHYL-2-PROPANOL FORMUL 2 ZN 2(ZN 2+) FORMUL 4 MET C5 H11 N O2 S FORMUL 5 TBU C4 H10 O FORMUL 6 HOH *204(H2 O) HELIX 1 1 PRO A 119 TYR A 124 1 6 HELIX 2 2 LYS A 155 ALA A 161 1 7 HELIX 3 3 SER A 162 ILE A 187 1 26 HELIX 4 4 THR A 192 LYS A 209 1 18 HELIX 5 5 ASN A 270 LYS A 272 5 3 HELIX 6 6 TYR A 273 ALA A 291 1 19 HELIX 7 7 ARG A 296 GLU A 309 1 14 HELIX 8 8 LEU A 396 PHE A 410 1 15 HELIX 9 9 ARG A 417 LEU A 423 1 7 HELIX 10 10 TYR A 428 LEU A 438 1 11 SHEET 1 A 5 GLN A 133 CYS A 135 0 SHEET 2 A 5 LYS A 469 VAL A 471 -1 O VAL A 471 N GLN A 133 SHEET 3 A 5 THR A 455 LEU A 464 -1 N LEU A 463 O GLU A 470 SHEET 4 A 5 VAL A 360 SER A 368 -1 N ILE A 363 O HIS A 460 SHEET 5 A 5 LYS A 323 PRO A 324 -1 N LYS A 323 O SER A 368 SHEET 1 B 6 GLN A 133 CYS A 135 0 SHEET 2 B 6 LYS A 469 VAL A 471 -1 O VAL A 471 N GLN A 133 SHEET 3 B 6 THR A 455 LEU A 464 -1 N LEU A 463 O GLU A 470 SHEET 4 B 6 VAL A 360 SER A 368 -1 N ILE A 363 O HIS A 460 SHEET 5 B 6 GLY A 330 ILE A 333 -1 N HIS A 331 O ALA A 362 SHEET 6 B 6 THR A 343 VAL A 344 -1 O VAL A 344 N GLY A 330 SHEET 1 C 3 ALA A 215 LEU A 225 0 SHEET 2 C 3 CYS A 248 ILE A 256 -1 O ASP A 251 N GLY A 222 SHEET 3 C 3 ARG A 259 VAL A 267 -1 O VAL A 267 N CYS A 248 SHEET 1 D 3 CYS A 228 ALA A 230 0 SHEET 2 D 3 LEU A 447 CYS A 448 -1 O LEU A 447 N ALA A 230 SHEET 3 D 3 HIS A 375 ASP A 376 -1 N HIS A 375 O CYS A 448 SHEET 1 E 2 GLU A 312 ILE A 315 0 SHEET 2 E 2 LYS A 318 GLN A 321 -1 O TYR A 320 N VAL A 313 SHEET 1 F 3 PHE A 415 CYS A 416 0 SHEET 2 F 3 HIS A 382 LYS A 385 -1 N TYR A 383 O PHE A 415 SHEET 3 F 3 VAL A 441 TYR A 444 -1 O TYR A 444 N HIS A 382 SSBOND 1 CYS A 228 CYS A 448 1555 1555 2.01 LINK OD1 ASP A 251 ZN ZN A 479 1555 1555 2.41 LINK OD2 ASP A 251 ZN ZN A 479 1555 1555 2.60 LINK OD1 ASP A 262 ZN ZN A 479 1555 1555 2.37 LINK OD2 ASP A 262 ZN ZN A 480 1555 1555 2.43 LINK NE2 HIS A 331 ZN ZN A 480 1555 1555 2.47 LINK OE1 GLU A 364 ZN ZN A 480 1555 1555 2.58 LINK OE1 GLU A 459 ZN ZN A 479 1555 1555 2.40 LINK OE2 GLU A 459 ZN ZN A 480 1555 1555 2.37 LINK ZN ZN A 479 N MET A 601 1555 1555 2.38 LINK ZN ZN A 479 OXT MET A 601 1555 1555 1.97 LINK ZN ZN A 480 OXT MET A 601 1555 1555 2.09 SITE 1 AC1 5 ASP A 251 ASP A 262 GLU A 459 ZN A 480 SITE 2 AC1 5 MET A 601 SITE 1 AC2 7 ASP A 262 HIS A 331 ALA A 362 GLU A 364 SITE 2 AC2 7 GLU A 459 ZN A 479 MET A 601 SITE 1 AC3 11 PHE A 219 ASP A 251 ASP A 262 HIS A 339 SITE 2 AC3 11 GLU A 364 ALA A 414 GLU A 459 ZN A 479 SITE 3 AC3 11 ZN A 480 HOH A 787 HOH A 805 SITE 1 AC4 4 MET A 184 PHE A 265 LYS A 281 ASP A 477 CRYST1 90.069 98.660 101.370 90.00 90.00 90.00 C 2 2 21 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 0.011103 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010136 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009865 0.00000