HEADER ISOMERASE 13-MAY-13 4KP1 TITLE CRYSTAL STRUCTURE OF IPM ISOMERASE LARGE SUBUNIT FROM METHANOCOCCUS TITLE 2 JANNASCHII (MJ0499) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ISOPROPYLMALATE/CITRAMALATE ISOMERASE LARGE SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: (R)-2-METHYLMALATE DEHYDRATASE, (R)-CITRAMALATE DEHYDRATASE, COMPND 5 3-ISOPROPYLMALATE DEHYDRATASE, ALPHA-ISOPROPYLMALATE DEHYDRATASE, COMPND 6 CITRACONATE HYDRATASE, ISOPROPYLMALATE ISOMERASE, IPMI, MALEATE COMPND 7 HYDRATASE, MALEASE; COMPND 8 EC: 4.2.1.33, 4.2.1.35; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOCALDOCOCCUS JANNASCHII; SOURCE 3 ORGANISM_TAXID: 243232; SOURCE 4 STRAIN: ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440; SOURCE 5 GENE: LEUC, MJ0499; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) STAR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS ACONITASE FAMILY, ALPHA-BETA-ALPHA 3-LAYER SANDWICH, ISOMERASE, IRON- KEYWDS 2 SULFUR CLUSTER BINDING, SMALL SUBUNIT (MJ1277) BINDING EXPDTA X-RAY DIFFRACTION AUTHOR K.Y.HWANG,E.H.LEE REVDAT 1 23-APR-14 4KP1 0 JRNL AUTH E.H.LEE,K.LEE,K.Y.HWANG JRNL TITL STRUCTURAL CHARACTERIZATION AND COMPARISON OF THE LARGE JRNL TITL 2 SUBUNITS OF IPM ISOMERASE AND HOMOACONITASE FROM JRNL TITL 3 METHANOCOCCUS JANNASCHII JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 70 922 2014 JRNL REFN ISSN 0907-4449 JRNL PMID 24699638 JRNL DOI 10.1107/S1399004713033762 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.1_1168) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.04 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.490 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 50087 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.217 REMARK 3 R VALUE (WORKING SET) : 0.215 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.110 REMARK 3 FREE R VALUE TEST SET COUNT : 2558 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 34.0425 - 4.7133 0.97 2789 139 0.1857 0.1904 REMARK 3 2 4.7133 - 3.7426 0.99 2735 142 0.1545 0.1820 REMARK 3 3 3.7426 - 3.2700 0.99 2717 129 0.1727 0.2214 REMARK 3 4 3.2700 - 2.9712 0.99 2681 145 0.1882 0.2316 REMARK 3 5 2.9712 - 2.7583 0.99 2689 142 0.1974 0.2702 REMARK 3 6 2.7583 - 2.5958 1.00 2668 152 0.1966 0.3002 REMARK 3 7 2.5958 - 2.4658 0.99 2685 134 0.1992 0.2421 REMARK 3 8 2.4658 - 2.3585 0.99 2651 146 0.2161 0.2583 REMARK 3 9 2.3585 - 2.2677 0.99 2589 170 0.2197 0.3003 REMARK 3 10 2.2677 - 2.1895 0.98 2639 134 0.2466 0.2515 REMARK 3 11 2.1895 - 2.1210 0.98 2613 154 0.2679 0.3209 REMARK 3 12 2.1210 - 2.0604 0.98 2628 125 0.2830 0.3157 REMARK 3 13 2.0604 - 2.0062 0.99 2633 147 0.3236 0.3504 REMARK 3 14 2.0062 - 1.9572 0.98 2582 157 0.3297 0.3972 REMARK 3 15 1.9572 - 1.9127 0.97 2612 123 0.3555 0.3630 REMARK 3 16 1.9127 - 1.8720 0.97 2566 141 0.3702 0.3916 REMARK 3 17 1.8720 - 1.8346 0.96 2541 136 0.3978 0.3636 REMARK 3 18 1.8346 - 1.8000 0.95 2511 142 0.4283 0.4751 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.480 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.230 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.012 3318 REMARK 3 ANGLE : 1.384 4485 REMARK 3 CHIRALITY : 0.084 511 REMARK 3 PLANARITY : 0.006 572 REMARK 3 DIHEDRAL : 16.647 1227 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4KP1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-MAY-13. REMARK 100 THE RCSB ID CODE IS RCSB079614. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-OCT-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : SILICON DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 50087 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 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) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.7 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: SAD REMARK 200 SOFTWARE USED: SHELXS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.77 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 60% MPD, 0.1M BICINE, PH 9.7, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 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+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 0.00000 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 0.00000 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 38.72850 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.41900 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 71.34000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 38.72850 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.41900 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 71.34000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 38.72850 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 49.41900 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 71.34000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 38.72850 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 49.41900 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 71.34000 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 750 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 753 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 768 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 810 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 MSE A -20 REMARK 465 GLY A -19 REMARK 465 SER A -18 REMARK 465 SER A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 SER A -10 REMARK 465 SER A -9 REMARK 465 GLY A -8 REMARK 465 LEU A -7 REMARK 465 VAL A -6 REMARK 465 PRO A -5 REMARK 465 ARG A -4 REMARK 465 GLY A -3 REMARK 465 SER A -2 REMARK 465 HIS A -1 REMARK 465 MSE A 0 REMARK 465 MSE A 1 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 O4 MPD A 505 O HOH A 683 2.14 REMARK 500 O HOH A 800 O HOH A 801 2.15 REMARK 500 O HOH A 698 O HOH A 751 2.19 REMARK 500 REMARK 500 REMARK: NULL 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 A 812 O HOH A 812 2555 2.11 REMARK 500 O HOH A 697 O HOH A 712 2555 2.18 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 36 -135.82 54.08 REMARK 500 ASP A 71 -76.23 -108.55 REMARK 500 TYR A 192 -6.09 74.35 REMARK 500 SER A 303 -149.53 -161.84 REMARK 500 ASN A 306 -165.71 -163.04 REMARK 500 ARG A 393 44.11 -83.13 REMARK 500 SER A 396 56.53 -143.47 REMARK 500 GLU A 398 30.04 -99.21 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 776 DISTANCE = 5.41 ANGSTROMS REMARK 525 HOH A 803 DISTANCE = 5.04 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE KP1 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 506 DBREF 4KP1 A 1 424 UNP P81291 LEUC_METJA 1 424 SEQADV 4KP1 MSE A -20 UNP P81291 EXPRESSION TAG SEQADV 4KP1 GLY A -19 UNP P81291 EXPRESSION TAG SEQADV 4KP1 SER A -18 UNP P81291 EXPRESSION TAG SEQADV 4KP1 SER A -17 UNP P81291 EXPRESSION TAG SEQADV 4KP1 HIS A -16 UNP P81291 EXPRESSION TAG SEQADV 4KP1 HIS A -15 UNP P81291 EXPRESSION TAG SEQADV 4KP1 HIS A -14 UNP P81291 EXPRESSION TAG SEQADV 4KP1 HIS A -13 UNP P81291 EXPRESSION TAG SEQADV 4KP1 HIS A -12 UNP P81291 EXPRESSION TAG SEQADV 4KP1 HIS A -11 UNP P81291 EXPRESSION TAG SEQADV 4KP1 SER A -10 UNP P81291 EXPRESSION TAG SEQADV 4KP1 SER A -9 UNP P81291 EXPRESSION TAG SEQADV 4KP1 GLY A -8 UNP P81291 EXPRESSION TAG SEQADV 4KP1 LEU A -7 UNP P81291 EXPRESSION TAG SEQADV 4KP1 VAL A -6 UNP P81291 EXPRESSION TAG SEQADV 4KP1 PRO A -5 UNP P81291 EXPRESSION TAG SEQADV 4KP1 ARG A -4 UNP P81291 EXPRESSION TAG SEQADV 4KP1 GLY A -3 UNP P81291 EXPRESSION TAG SEQADV 4KP1 SER A -2 UNP P81291 EXPRESSION TAG SEQADV 4KP1 HIS A -1 UNP P81291 EXPRESSION TAG SEQADV 4KP1 MSE A 0 UNP P81291 EXPRESSION TAG SEQRES 1 A 445 MSE GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 445 LEU VAL PRO ARG GLY SER HIS MSE MSE GLY MSE THR ILE SEQRES 3 A 445 VAL GLU LYS ILE LEU ALA LYS ALA SER GLY LYS LYS GLU SEQRES 4 A 445 VAL SER PRO GLY ASP ILE VAL MSE ALA ASN ILE ASP VAL SEQRES 5 A 445 ALA MSE VAL HIS ASP ILE THR GLY PRO LEU THR VAL ASN SEQRES 6 A 445 THR LEU LYS GLU TYR GLY ILE GLU LYS VAL TRP ASN PRO SEQRES 7 A 445 GLU LYS ILE VAL ILE LEU PHE ASP HIS GLN VAL PRO ALA SEQRES 8 A 445 ASP SER ILE LYS ALA ALA GLU ASN HIS ILE LEU MSE ARG SEQRES 9 A 445 LYS PHE VAL LYS GLU GLN GLY ILE LYS TYR PHE TYR ASP SEQRES 10 A 445 ILE ARG GLU GLY VAL CYS HIS GLN VAL LEU PRO GLU LYS SEQRES 11 A 445 GLY HIS VAL ALA PRO GLY GLU VAL VAL VAL GLY ALA ASP SEQRES 12 A 445 SER HIS THR CYS THR HIS GLY ALA PHE GLY ALA PHE ALA SEQRES 13 A 445 THR GLY ILE GLY SER THR ASP MSE ALA HIS VAL PHE ALA SEQRES 14 A 445 THR GLY LYS LEU TRP PHE LYS VAL PRO GLU THR ILE TYR SEQRES 15 A 445 PHE ASN ILE THR GLY ASP LEU GLN PRO TYR VAL THR SER SEQRES 16 A 445 LYS ASP VAL ILE LEU SER ILE ILE GLY GLU VAL GLY VAL SEQRES 17 A 445 ASP GLY ALA THR TYR LYS ALA CYS GLN PHE GLY GLY GLU SEQRES 18 A 445 THR VAL LYS LYS MSE SER ILE ALA SER ARG MSE THR MSE SEQRES 19 A 445 THR ASN MSE ALA ILE GLU MSE GLY GLY LYS THR GLY ILE SEQRES 20 A 445 ILE GLU PRO ASP GLU LYS THR ILE GLN TYR VAL LYS GLU SEQRES 21 A 445 ALA MSE LYS LYS HIS GLY THR GLU ARG PRO PHE GLU VAL SEQRES 22 A 445 ILE LYS GLY ASP GLU ASP ALA GLU PHE ALA GLU VAL TYR SEQRES 23 A 445 GLU ILE GLU ALA ASP LYS ILE GLU PRO VAL PHE ALA CYS SEQRES 24 A 445 PRO HIS ASN VAL ASP ASN VAL LYS GLN ALA ARG GLU VAL SEQRES 25 A 445 ALA GLY LYS PRO ILE ASP GLN VAL PHE ILE GLY SER CYS SEQRES 26 A 445 THR ASN GLY ARG LEU GLU ASP LEU ARG MSE ALA ILE LYS SEQRES 27 A 445 ILE ILE GLU LYS HIS GLY GLY ILE ALA ASP ASP VAL ARG SEQRES 28 A 445 VAL VAL VAL THR PRO ALA SER ARG GLU GLU TYR LEU LYS SEQRES 29 A 445 ALA LEU LYS GLU GLY ILE ILE GLU LYS PHE LEU LYS TYR SEQRES 30 A 445 GLY CYS VAL VAL THR ASN PRO SER CYS SER ALA CYS MSE SEQRES 31 A 445 GLY SER LEU TYR GLY VAL LEU GLY PRO GLY GLU VAL CYS SEQRES 32 A 445 VAL SER THR SER ASN ARG ASN PHE ARG GLY ARG GLN GLY SEQRES 33 A 445 SER LEU GLU ALA GLU ILE TYR LEU ALA SER PRO ILE THR SEQRES 34 A 445 ALA ALA ALA CYS ALA VAL LYS GLY GLU LEU VAL ASP PRO SEQRES 35 A 445 ARG ASP LEU MODRES 4KP1 MSE A 3 MET SELENOMETHIONINE MODRES 4KP1 MSE A 26 MET SELENOMETHIONINE MODRES 4KP1 MSE A 33 MET SELENOMETHIONINE MODRES 4KP1 MSE A 82 MET SELENOMETHIONINE MODRES 4KP1 MSE A 143 MET SELENOMETHIONINE MODRES 4KP1 MSE A 205 MET SELENOMETHIONINE MODRES 4KP1 MSE A 211 MET SELENOMETHIONINE MODRES 4KP1 MSE A 213 MET SELENOMETHIONINE MODRES 4KP1 MSE A 216 MET SELENOMETHIONINE MODRES 4KP1 MSE A 220 MET SELENOMETHIONINE MODRES 4KP1 MSE A 241 MET SELENOMETHIONINE MODRES 4KP1 MSE A 314 MET SELENOMETHIONINE MODRES 4KP1 MSE A 369 MET SELENOMETHIONINE HET MSE A 3 8 HET MSE A 26 8 HET MSE A 33 8 HET MSE A 82 8 HET MSE A 143 8 HET MSE A 205 8 HET MSE A 211 8 HET MSE A 213 8 HET MSE A 216 8 HET MSE A 220 8 HET MSE A 241 8 HET MSE A 314 8 HET MSE A 369 8 HET KP1 A 501 9 HET MPD A 502 8 HET MPD A 503 8 HET MPD A 504 8 HET MPD A 505 8 HET MG A 506 1 HETNAM MSE SELENOMETHIONINE HETNAM KP1 2,4-DIMETHYLPENTANE-2,4-DIOL HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM MG MAGNESIUM ION FORMUL 1 MSE 13(C5 H11 N O2 SE) FORMUL 2 KP1 C7 H16 O2 FORMUL 3 MPD 4(C6 H14 O2) FORMUL 7 MG MG 2+ FORMUL 8 HOH *212(H2 O) HELIX 1 1 THR A 4 GLY A 15 1 12 HELIX 2 2 ILE A 37 TYR A 49 1 13 HELIX 3 3 SER A 72 GLY A 90 1 19 HELIX 4 4 VAL A 101 LYS A 109 1 9 HELIX 5 5 HIS A 124 GLY A 132 5 9 HELIX 6 6 GLY A 139 GLY A 150 1 12 HELIX 7 7 THR A 173 GLY A 186 1 14 HELIX 8 8 GLY A 199 MSE A 205 1 7 HELIX 9 9 SER A 206 MSE A 216 1 11 HELIX 10 10 ALA A 217 GLY A 221 5 5 HELIX 11 11 ASP A 230 GLY A 245 1 16 HELIX 12 12 ASP A 270 ILE A 272 5 3 HELIX 13 13 ARG A 289 ALA A 292 5 4 HELIX 14 14 ARG A 308 HIS A 322 1 15 HELIX 15 15 SER A 337 GLU A 347 1 11 HELIX 16 16 GLY A 348 TYR A 356 1 9 HELIX 17 17 SER A 364 GLY A 370 1 7 HELIX 18 18 SER A 405 GLY A 416 1 12 HELIX 19 19 ASP A 420 LEU A 424 5 5 SHEET 1 A 2 ILE A 24 ASN A 28 0 SHEET 2 A 2 LYS A 151 LYS A 155 -1 O PHE A 154 N VAL A 25 SHEET 1 B 5 TYR A 93 TYR A 95 0 SHEET 2 B 5 ILE A 60 LEU A 63 1 N ILE A 62 O TYR A 95 SHEET 3 B 5 VAL A 31 HIS A 35 1 N ALA A 32 O VAL A 61 SHEET 4 B 5 VAL A 117 GLY A 120 1 O VAL A 119 N MSE A 33 SHEET 5 B 5 PHE A 134 GLY A 137 1 O PHE A 134 N VAL A 118 SHEET 1 C 4 THR A 224 ILE A 226 0 SHEET 2 C 4 ALA A 194 GLY A 198 1 N CYS A 195 O THR A 224 SHEET 3 C 4 THR A 159 THR A 165 1 N PHE A 162 O GLN A 196 SHEET 4 C 4 GLU A 263 GLU A 268 1 O TYR A 265 N ASN A 163 SHEET 1 D 2 VAL A 275 ALA A 277 0 SHEET 2 D 2 VAL A 285 GLN A 287 -1 O LYS A 286 N PHE A 276 SHEET 1 E 5 VAL A 359 VAL A 360 0 SHEET 2 E 5 ARG A 330 VAL A 333 1 N VAL A 333 O VAL A 359 SHEET 3 E 5 GLN A 298 ILE A 301 1 N ILE A 301 O VAL A 332 SHEET 4 E 5 VAL A 381 SER A 384 1 O VAL A 383 N PHE A 300 SHEET 5 E 5 GLU A 400 LEU A 403 1 O TYR A 402 N SER A 384 SSBOND 1 CYS A 102 CYS A 365 1555 1555 2.03 SSBOND 2 CYS A 304 CYS A 368 1555 1555 2.03 LINK C GLY A 2 N MSE A 3 1555 1555 1.33 LINK C MSE A 3 N THR A 4 1555 1555 1.34 LINK C VAL A 25 N MSE A 26 1555 1555 1.33 LINK C MSE A 26 N ALA A 27 1555 1555 1.33 LINK C ALA A 32 N MSE A 33 1555 1555 1.32 LINK C MSE A 33 N VAL A 34 1555 1555 1.33 LINK C LEU A 81 N MSE A 82 1555 1555 1.34 LINK C MSE A 82 N ARG A 83 1555 1555 1.33 LINK C ASP A 142 N MSE A 143 1555 1555 1.33 LINK C MSE A 143 N ALA A 144 1555 1555 1.34 LINK C LYS A 204 N MSE A 205 1555 1555 1.34 LINK C MSE A 205 N SER A 206 1555 1555 1.32 LINK C ARG A 210 N MSE A 211 1555 1555 1.33 LINK C MSE A 211 N THR A 212 1555 1555 1.33 LINK C THR A 212 N MSE A 213 1555 1555 1.32 LINK C MSE A 213 N THR A 214 1555 1555 1.33 LINK C ASN A 215 N MSE A 216 1555 1555 1.33 LINK C MSE A 216 N ALA A 217 1555 1555 1.33 LINK C GLU A 219 N MSE A 220 1555 1555 1.33 LINK C MSE A 220 N GLY A 221 1555 1555 1.33 LINK C ALA A 240 N MSE A 241 1555 1555 1.33 LINK C MSE A 241 N LYS A 242 1555 1555 1.33 LINK C ARG A 313 N MSE A 314 1555 1555 1.33 LINK C MSE A 314 N ALA A 315 1555 1555 1.33 LINK C CYS A 368 N MSE A 369 1555 1555 1.33 LINK C MSE A 369 N GLY A 370 1555 1555 1.33 CISPEP 1 PRO A 279 HIS A 280 0 -4.19 CISPEP 2 CYS A 304 THR A 305 0 -3.75 CISPEP 3 GLN A 394 GLY A 395 0 -1.83 CISPEP 4 SER A 396 LEU A 397 0 -13.50 SITE 1 AC1 4 PHE A 300 SER A 303 SER A 384 HOH A 797 SITE 1 AC2 10 ALA A 277 CYS A 278 HIS A 280 ASN A 281 SITE 2 AC2 10 VAL A 282 ASN A 389 PHE A 390 GLN A 394 SITE 3 AC2 10 ILE A 401 HOH A 728 SITE 1 AC3 4 GLU A 257 VAL A 264 GLU A 320 LYS A 321 SITE 1 AC4 2 TYR A 49 HIS A 145 SITE 1 AC5 9 GLY A 198 GLY A 199 LYS A 203 ARG A 210 SITE 2 AC5 9 GLU A 228 ASP A 230 LYS A 321 GLY A 323 SITE 3 AC5 9 HOH A 683 SITE 1 AC6 5 HIS A 103 ASN A 215 CYS A 304 THR A 305 SITE 2 AC6 5 ARG A 388 CRYST1 77.457 98.838 142.680 90.00 90.00 90.00 I 2 2 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 0.012910 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010118 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007009 0.00000