HEADER MEMBRANE PROTEIN 08-DEC-16 5MLZ TITLE DOLICHYL PHOSPHATE MANNOSE SYNTHASE IN COMPLEX WITH GDP AND MG2+ COMPND MOL_ID: 1; COMPND 2 MOLECULE: DOLICHOL MONOPHOSPHATE MANNOSE SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: N-TERMINAL HEXA-HISTDINE TAG AND TEV PROTEASE CLEAVAGE COMPND 6 SITE PRECEDES THE PROTEIN SEQUENCES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS FURIOSUS (STRAIN ATCC 43587 / DSM SOURCE 3 3638 / JCM 8422 / VC1); SOURCE 4 ORGANISM_TAXID: 186497; SOURCE 5 GENE: PF0058; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4 KEYWDS DOLICHOL PHOSPHATE MANNOSE SYNTHASE, ENZYME, INTEGRAL MEMBRANE KEYWDS 2 PROTEIN, PROTEIN GLYCOSYLATION, MEMBRANE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR R.GANDINI,T.REICHENBACH,T.C.TAN,C.DIVNE REVDAT 1 09-AUG-17 5MLZ 0 JRNL AUTH R.GANDINI,T.REICHENBACH,T.C.TAN,C.DIVNE JRNL TITL STRUCTURAL BASIS FOR DOLICHYLPHOSPHATE MANNOSE BIOSYNTHESIS. JRNL REF NAT COMMUN V. 8 120 2017 JRNL REFN ESSN 2041-1723 JRNL PMID 28743912 JRNL DOI 10.1038/S41467-017-00187-2 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.02 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 43104 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.242 REMARK 3 R VALUE (WORKING SET) : 0.241 REMARK 3 FREE R VALUE : 0.257 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.630 REMARK 3 FREE R VALUE TEST SET COUNT : 1995 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 41.0250 - 4.8181 1.00 3095 154 0.2096 0.2044 REMARK 3 2 4.8181 - 3.8251 1.00 3000 147 0.2200 0.2338 REMARK 3 3 3.8251 - 3.3419 1.00 2971 134 0.2430 0.2855 REMARK 3 4 3.3419 - 3.0364 1.00 2941 154 0.2638 0.2534 REMARK 3 5 3.0364 - 2.8188 1.00 2935 141 0.2559 0.2989 REMARK 3 6 2.8188 - 2.6527 1.00 2938 137 0.2575 0.3189 REMARK 3 7 2.6527 - 2.5199 1.00 2885 151 0.2605 0.2502 REMARK 3 8 2.5199 - 2.4102 1.00 2948 139 0.2671 0.2610 REMARK 3 9 2.4102 - 2.3174 1.00 2908 136 0.2663 0.3404 REMARK 3 10 2.3174 - 2.2374 1.00 2919 153 0.2762 0.3411 REMARK 3 11 2.2374 - 2.1675 1.00 2904 126 0.2754 0.3388 REMARK 3 12 2.1675 - 2.1055 1.00 2895 143 0.2947 0.3370 REMARK 3 13 2.1055 - 2.0501 0.99 2882 144 0.3303 0.3676 REMARK 3 14 2.0501 - 2.0001 0.99 2888 136 0.3660 0.3672 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.290 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.300 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 46.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.005 3079 REMARK 3 ANGLE : 1.051 4141 REMARK 3 CHIRALITY : 0.033 451 REMARK 3 PLANARITY : 0.004 494 REMARK 3 DIHEDRAL : 15.312 1176 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 5MLZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 08-DEC-16. REMARK 100 THE DEPOSITION ID IS D_1200000998. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-SEP-15 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 : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97857 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 43116 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 42.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 13.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 29.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 1.21000 REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIR REMARK 200 SOFTWARE USED: AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M POTASSIUM CHLORIDE, 0.1 M REMARK 280 TRISODIUM CITRATE (PH 5.5), 37% (V/V) PENTAERYTHRITOL REMARK 280 PROPOXYLATE (5/4 PO/OH), 50 MM HEPES (PH 7.5), 150 MM NACL, 10% REMARK 280 (V/V) GLYCEROL, 0.05% LDAO, 5 MM GDP, 5 MM MGCL2, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277K 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 47.67500 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 47.67500 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 45.43500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 73.10500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 45.43500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 73.10500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 47.67500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 45.43500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 73.10500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 47.67500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 45.43500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 73.10500 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 TOTAL BURIED SURFACE AREA: 4080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18540 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 -21 REMARK 465 HIS A -20 REMARK 465 HIS A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 SER A -14 REMARK 465 SER A -13 REMARK 465 GLY A -12 REMARK 465 VAL A -11 REMARK 465 ASP A -10 REMARK 465 LEU A -9 REMARK 465 GLY A -8 REMARK 465 THR A -7 REMARK 465 GLU A -6 REMARK 465 ASN A -5 REMARK 465 LEU A -4 REMARK 465 TYR A -3 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG A 62 C ARG A 63 N 0.183 REMARK 500 GLY A 205 C GLU A 206 N 0.174 REMARK 500 REMARK 500 REMARK: NULL 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 13 NE - CZ - NH1 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 13 NE - CZ - NH2 ANGL. DEV. = 3.9 DEGREES REMARK 500 ASP A 43 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 LEU A 209 CB - CA - C ANGL. DEV. = -12.1 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 GLN A -1 44.25 -74.95 REMARK 500 ARG A 13 -70.32 -109.66 REMARK 500 LEU A 27 31.18 -98.98 REMARK 500 ASP A 39 59.30 -96.81 REMARK 500 PHE A 177 -37.09 -134.01 REMARK 500 TRP A 284 -73.44 -130.57 REMARK 500 VAL A 348 -63.44 -127.87 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 THR A 45 TRP A 46 50.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 204 0.17 SIDE CHAIN 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 555 DISTANCE = 6.21 ANGSTROMS REMARK 525 HOH A 556 DISTANCE = 6.24 ANGSTROMS REMARK 525 HOH A 557 DISTANCE = 6.47 ANGSTROMS 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 MG A 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 91 OD2 REMARK 620 2 GLN A 93 OE1 101.5 REMARK 620 3 GDP A 401 O2B 155.8 90.0 REMARK 620 4 GDP A 401 O2A 77.5 167.7 95.7 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GDP A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LDA A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LDA A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LDA A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LDA A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LDA A 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LDA A 410 DBREF 5MLZ A 1 352 UNP Q8U4M3 Q8U4M3_PYRFU 1 352 SEQADV 5MLZ MET A -21 UNP Q8U4M3 INITIATING METHIONINE SEQADV 5MLZ HIS A -20 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ HIS A -19 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ HIS A -18 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ HIS A -17 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ HIS A -16 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ HIS A -15 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ SER A -14 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ SER A -13 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ GLY A -12 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ VAL A -11 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ ASP A -10 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ LEU A -9 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ GLY A -8 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ THR A -7 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ GLU A -6 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ ASN A -5 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ LEU A -4 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ TYR A -3 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ PHE A -2 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ GLN A -1 UNP Q8U4M3 EXPRESSION TAG SEQADV 5MLZ SER A 0 UNP Q8U4M3 EXPRESSION TAG SEQRES 1 A 374 MET HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 A 374 GLY THR GLU ASN LEU TYR PHE GLN SER MET LYS VAL SER SEQRES 3 A 374 VAL ILE ILE PRO THR TYR ASN GLU ARG GLU ASN LEU GLU SEQRES 4 A 374 GLU LEU PHE SER ARG ILE ASP ASN ALA LEU GLN GLY LEU SEQRES 5 A 374 ASN TYR GLU ILE VAL VAL VAL ASP ASP ASP SER PRO ASP SEQRES 6 A 374 ARG THR TRP GLU LYS ALA GLN GLU LEU SER SER LYS TYR SEQRES 7 A 374 PRO VAL LYS VAL ILE ARG ARG THR LYS GLU LYS GLY LEU SEQRES 8 A 374 SER SER ALA VAL ILE ARG GLY PHE LYS GLU ALA SER GLY SEQRES 9 A 374 ASP VAL PHE VAL VAL MET ASP ALA ASP LEU GLN HIS PRO SEQRES 10 A 374 PRO GLU VAL ILE PRO LYS LEU ILE GLU ALA ILE LYS ASN SEQRES 11 A 374 GLY SER ASP ILE ALA ILE GLY SER ARG TYR VAL LYS GLY SEQRES 12 A 374 GLY LYS VAL GLU ASN TRP PRO PHE TYR ARG LYS LEU ILE SEQRES 13 A 374 SER LYS GLY ALA ILE MET VAL GLY ARG ILE ALA LEU PRO SEQRES 14 A 374 LYS ILE ARG ASP ILE LYS ASP PRO VAL SER GLY PHE PHE SEQRES 15 A 374 ALA LEU ARG LYS GLU VAL VAL GLU GLY VAL GLU LEU ASN SEQRES 16 A 374 PRO ILE GLY PHE LYS ILE LEU MET GLU ILE LEU ILE LYS SEQRES 17 A 374 GLY LYS TYR SER LYS VAL VAL GLU VAL PRO PHE THR PHE SEQRES 18 A 374 GLY ILE ARG ALA ARG GLY GLU SER LYS LEU LYS GLY LYS SEQRES 19 A 374 THR ILE PHE GLU TYR LEU ARG HIS ILE TYR ARG LEU MET SEQRES 20 A 374 LYS TRP GLU GLY GLU ILE ASP ARG ILE VAL LYS PHE SER SEQRES 21 A 374 ILE VAL GLY LEU SER GLY ILE LEU VAL ASN GLU GLY PHE SEQRES 22 A 374 LEU TRP LEU PHE VAL ASN LEU GLY ILE PRO LYS GLU ILE SEQRES 23 A 374 ALA VAL ILE PRO ALA VAL GLU LEU SER ILE LEU ASN ASN SEQRES 24 A 374 PHE PHE TRP ASN ASP ILE TRP THR PHE LYS ASP ILE ARG SEQRES 25 A 374 ARG GLY SER ILE PHE SER ARG LEU LEU LYS PHE HIS ILE SEQRES 26 A 374 ALA ALA LEU SER GLY ALA VAL VAL ASN PHE ILE VAL TYR SEQRES 27 A 374 TRP ILE LEU LEU PHE LEU GLY ILE HIS TYR LEU ILE ALA SEQRES 28 A 374 ASN LEU VAL GLY ILE VAL LEU SER PHE GLY VAL ARG TYR SEQRES 29 A 374 VAL ILE ASN ARG HIS VAL THR TRP ALA THR HET GDP A 401 28 HET MG A 402 1 HET CL A 403 1 HET LDA A 404 16 HET LDA A 405 16 HET LDA A 406 16 HET LDA A 407 16 HET LDA A 408 16 HET LDA A 409 16 HET LDA A 410 16 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM LDA LAURYL DIMETHYLAMINE-N-OXIDE FORMUL 2 GDP C10 H15 N5 O11 P2 FORMUL 3 MG MG 2+ FORMUL 4 CL CL 1- FORMUL 5 LDA 7(C14 H31 N O) FORMUL 12 HOH *57(H2 O) HELIX 1 AA1 GLU A 14 LEU A 27 1 14 HELIX 2 AA2 TRP A 46 SER A 53 1 8 HELIX 3 AA3 GLY A 68 ALA A 80 1 13 HELIX 4 AA4 PRO A 95 GLU A 97 5 3 HELIX 5 AA5 VAL A 98 ASN A 108 1 11 HELIX 6 AA6 PRO A 128 LEU A 146 1 19 HELIX 7 AA7 PRO A 147 ARG A 150 5 4 HELIX 8 AA8 GLU A 165 VAL A 167 5 3 HELIX 9 AA9 LYS A 178 GLY A 187 1 10 HELIX 10 AB1 THR A 213 GLU A 228 1 16 HELIX 11 AB2 GLY A 229 ASN A 257 1 29 HELIX 12 AB3 PRO A 261 TRP A 284 1 24 HELIX 13 AB4 PHE A 286 ARG A 290 5 5 HELIX 14 AB5 SER A 293 LEU A 322 1 30 HELIX 15 AB6 HIS A 325 VAL A 348 1 24 SHEET 1 AA1 7 VAL A 58 ARG A 62 0 SHEET 2 AA1 7 TYR A 32 ASP A 38 1 N ILE A 34 O LYS A 59 SHEET 3 AA1 7 VAL A 3 THR A 9 1 N VAL A 5 O GLU A 33 SHEET 4 AA1 7 VAL A 84 VAL A 87 1 O VAL A 86 N SER A 4 SHEET 5 AA1 7 PHE A 160 ARG A 163 -1 O PHE A 160 N VAL A 87 SHEET 6 AA1 7 ILE A 112 SER A 116 -1 N ALA A 113 O ALA A 161 SHEET 7 AA1 7 VAL A 192 PRO A 196 1 O VAL A 195 N ILE A 114 SHEET 1 AA2 2 LYS A 123 VAL A 124 0 SHEET 2 AA2 2 THR A 198 PHE A 199 1 O PHE A 199 N LYS A 123 LINK OD2 ASP A 91 MG MG A 402 1555 1555 2.14 LINK OE1 GLN A 93 MG MG A 402 1555 1555 1.94 LINK O2B GDP A 401 MG MG A 402 1555 1555 2.02 LINK O2A GDP A 401 MG MG A 402 1555 1555 1.99 CISPEP 1 LYS A 210 GLY A 211 0 -11.96 SITE 1 AC1 17 PRO A 8 THR A 9 TYR A 10 GLU A 12 SITE 2 AC1 17 VAL A 37 ASP A 39 GLY A 68 LEU A 69 SITE 3 AC1 17 ALA A 72 ASP A 89 ALA A 90 ASP A 91 SITE 4 AC1 17 GLN A 93 ARG A 202 SER A 207 LYS A 208 SITE 5 AC1 17 MG A 402 SITE 1 AC2 4 ASP A 91 GLN A 93 ARG A 202 GDP A 401 SITE 1 AC3 3 ASN A 277 PHE A 301 ARG A 341 SITE 1 AC4 4 SER A 243 ASN A 276 TRP A 280 TRP A 284 SITE 1 AC5 4 GLU A 249 GLY A 250 PHE A 251 TRP A 253 SITE 1 AC6 3 TRP A 317 VAL A 343 HIS A 347 SITE 1 AC7 6 GLY A 244 VAL A 270 SER A 273 ASN A 277 SITE 2 AC7 6 LEU A 306 LDA A 409 SITE 1 AC8 3 VAL A 270 GLU A 271 LDA A 408 SITE 1 AC9 1 TYR A 222 CRYST1 90.870 146.210 95.350 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 0.011005 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006839 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010488 0.00000