HEADER HYDROLASE 14-DEC-09 3L1V TITLE CRYSTAL STRUCTURE OF GMHB FROM E. COLI IN COMPLEX WITH CALCIUM AND TITLE 2 PHOSPHATE. COMPND MOL_ID: 1; COMPND 2 MOLECULE: D,D-HEPTOSE 1,7-BISPHOSPHATE PHOSPHATASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: D-GLYCERO-D-MANNO-HEPTOSE 1,7-BISPHOSPHATE PHOSPHATASE; COMPND 5 EC: 3.1.3.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K-12; SOURCE 5 GENE: B0200, GMHB, JW0196, YAED; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28B KEYWDS LPS BIOSYNTHESIS, SUGAR PHOSPHATASE, ZINC, HEPTOSE, CARBOHYDRATE KEYWDS 2 METABOLISM, CYTOPLASM, HYDROLASE, LIPOPOLYSACCHARIDE BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR S.N.SUGIMAN-MARANGOS,M.S.JUNOP REVDAT 4 06-SEP-23 3L1V 1 REMARK SEQADV LINK REVDAT 3 25-OCT-17 3L1V 1 REMARK REVDAT 2 16-FEB-10 3L1V 1 JRNL REVDAT 1 05-JAN-10 3L1V 0 JRNL AUTH P.L.TAYLOR,S.SUGIMAN-MARANGOS,K.ZHANG,M.A.VALVANO, JRNL AUTH 2 G.D.WRIGHT,M.S.JUNOP JRNL TITL STRUCTURAL AND KINETIC CHARACTERIZATION OF THE LPS JRNL TITL 2 BIOSYNTHETIC ENZYME D-ALPHA,BETA-D-HEPTOSE-1,7-BISPHOSPHATE JRNL TITL 3 PHOSPHATASE (GMHB) FROM ESCHERICHIA COLI. JRNL REF BIOCHEMISTRY V. 49 1033 2010 JRNL REFN ISSN 0006-2960 JRNL PMID 20050699 JRNL DOI 10.1021/BI901780J REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.5_2) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.14 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.020 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.1 REMARK 3 NUMBER OF REFLECTIONS : 23855 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.249 REMARK 3 R VALUE (WORKING SET) : 0.246 REMARK 3 FREE R VALUE : 0.284 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.080 REMARK 3 FREE R VALUE TEST SET COUNT : 1928 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 27.1373 - 4.2053 0.89 2205 191 0.1924 0.2362 REMARK 3 2 4.2053 - 3.3399 0.89 2111 187 0.1830 0.2416 REMARK 3 3 3.3399 - 2.9182 0.93 2172 193 0.2337 0.2543 REMARK 3 4 2.9182 - 2.6517 0.94 2194 192 0.2612 0.2860 REMARK 3 5 2.6517 - 2.4617 0.95 2199 195 0.2668 0.2991 REMARK 3 6 2.4617 - 2.3167 0.97 2235 196 0.2585 0.2860 REMARK 3 7 2.3167 - 2.2007 0.97 2219 195 0.2853 0.3519 REMARK 3 8 2.2007 - 2.1050 0.98 2248 201 0.3093 0.3345 REMARK 3 9 2.1050 - 2.0239 0.98 2250 197 0.3569 0.3483 REMARK 3 10 2.0239 - 1.9540 0.92 2094 181 0.3776 0.4142 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.39 REMARK 3 B_SOL : 37.11 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.330 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.84 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 : 0.014 2900 REMARK 3 ANGLE : 1.360 3942 REMARK 3 CHIRALITY : 0.115 436 REMARK 3 PLANARITY : 0.007 518 REMARK 3 DIHEDRAL : 18.331 1034 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN B AND RESID 184:205) REMARK 3 ORIGIN FOR THE GROUP (A): 14.8000 17.5365 -23.2611 REMARK 3 T TENSOR REMARK 3 T11: 0.2068 T22: 0.1626 REMARK 3 T33: 0.0918 T12: -0.0060 REMARK 3 T13: -0.0536 T23: 0.0240 REMARK 3 L TENSOR REMARK 3 L11: 1.1414 L22: 1.1449 REMARK 3 L33: 0.7390 L12: -0.2351 REMARK 3 L13: -0.9161 L23: -0.2997 REMARK 3 S TENSOR REMARK 3 S11: 0.1002 S12: -0.0987 S13: 0.0134 REMARK 3 S21: -0.0661 S22: 0.0987 S23: -0.0057 REMARK 3 S31: -0.0571 S32: 0.2181 S33: 0.0188 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 3L1V COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-DEC-09. REMARK 100 THE DEPOSITION ID IS D_1000056727. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-SEP-08 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU300 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : BLUE CONFOCAL OPTICS MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTALCLEAR REMARK 200 DATA SCALING SOFTWARE : CRYSTALCLEAR REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24747 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 45.290 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 3.890 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.89 REMARK 200 R MERGE FOR SHELL (I) : 0.42600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 2GMW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 31.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.81 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG 3350, 0.1M TRIS, 0.005M DTT, REMARK 280 0.025M SODIUM CHLORIDE, 0.005M CALCIUM CHLORIDE, 0.005M SODIUM REMARK 280 PHOSPHATE, 11% GLYCEROL , PH 7.8, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 25.28750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.19050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.15450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.19050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.28750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.15450 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: THE BIOLOGICAL ASSEMBLY OF GMHB IS A MONOMER AS JUDGED BY REMARK 300 GEL FILTRATION CHROMATOGRAPHY. 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 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 SER A 3 REMARK 465 SER A 4 REMARK 465 HIS A 5 REMARK 465 HIS A 6 REMARK 465 HIS A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 HIS A 10 REMARK 465 SER A 11 REMARK 465 SER A 12 REMARK 465 GLY A 13 REMARK 465 LEU A 14 REMARK 465 VAL A 15 REMARK 465 PRO A 16 REMARK 465 ARG A 17 REMARK 465 GLY A 18 REMARK 465 SER A 19 REMARK 465 HIS A 20 REMARK 465 MET A 21 REMARK 465 ALA A 22 REMARK 465 LYS A 23 REMARK 465 GLN A 206 REMARK 465 GLN A 207 REMARK 465 LYS A 208 REMARK 465 PRO A 209 REMARK 465 ALA A 210 REMARK 465 GLN A 211 REMARK 465 MET B 1 REMARK 465 GLY B 2 REMARK 465 SER B 3 REMARK 465 SER B 4 REMARK 465 HIS B 5 REMARK 465 HIS B 6 REMARK 465 HIS B 7 REMARK 465 HIS B 8 REMARK 465 HIS B 9 REMARK 465 HIS B 10 REMARK 465 SER B 11 REMARK 465 SER B 12 REMARK 465 GLY B 13 REMARK 465 LEU B 14 REMARK 465 VAL B 15 REMARK 465 PRO B 16 REMARK 465 ARG B 17 REMARK 465 GLY B 18 REMARK 465 SER B 19 REMARK 465 HIS B 20 REMARK 465 MET B 21 REMARK 465 ALA B 22 REMARK 465 LYS B 23 REMARK 465 GLN B 206 REMARK 465 GLN B 207 REMARK 465 LYS B 208 REMARK 465 PRO B 209 REMARK 465 ALA B 210 REMARK 465 GLN B 211 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 LYS A 179 CG CD CE NZ REMARK 470 LYS A 205 CG CD CE NZ REMARK 470 LYS B 179 CG CD CE NZ REMARK 470 LYS B 205 CG CD CE NZ 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 OD1 ASP B 57 NH2 ARG B 60 1.56 REMARK 500 O HOH A 221 O HOH A 274 1.86 REMARK 500 OD1 ASP B 33 O HOH B 216 1.89 REMARK 500 OD2 ASP A 198 O HOH A 227 1.89 REMARK 500 OD1 ASP A 57 NH2 ARG A 60 1.94 REMARK 500 O HOH A 217 O HOH A 272 1.95 REMARK 500 O HOH A 231 O HOH A 350 1.96 REMARK 500 O HOH B 277 O HOH B 283 1.96 REMARK 500 NE ARG A 130 O HOH A 326 1.96 REMARK 500 OD2 ASP B 128 O HOH B 309 1.97 REMARK 500 O ASP B 53 O HOH B 254 1.98 REMARK 500 O ALA A 167 O HOH A 323 1.99 REMARK 500 OE2 GLU A 85 O HOH A 331 2.03 REMARK 500 OG SER B 24 O HOH B 316 2.09 REMARK 500 O GLU A 122 O HOH A 322 2.09 REMARK 500 OD1 ASP B 101 O HOH B 284 2.13 REMARK 500 N SER B 24 O HOH B 298 2.14 REMARK 500 O HOH B 239 O HOH B 319 2.17 REMARK 500 O HOH A 247 O HOH A 293 2.18 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 NH1 ARG B 124 O HOH B 284 4455 1.78 REMARK 500 NE2 GLN A 117 O HOH B 256 1545 1.85 REMARK 500 O HOH A 222 O HOH B 324 4445 1.89 REMARK 500 O HOH A 341 O HOH B 222 1445 1.92 REMARK 500 O GLU A 186 NZ LYS B 64 3644 1.97 REMARK 500 NH2 ARG A 124 NH2 ARG B 124 1545 2.01 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 ARG A 32 -68.69 -97.67 REMARK 500 HIS A 44 12.82 -141.32 REMARK 500 ARG B 32 -67.67 -93.32 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 CA A 213 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 31 OD2 REMARK 620 2 ASP A 31 OD1 45.2 REMARK 620 3 ASP A 33 O 86.4 84.1 REMARK 620 4 ASP A 156 OD1 67.3 112.6 92.2 REMARK 620 5 PO4 A 214 O1 127.2 82.5 95.8 163.7 REMARK 620 6 HOH A 231 O 173.7 130.4 88.6 116.7 49.6 REMARK 620 7 HOH A 261 O 91.1 89.8 173.4 92.5 80.8 93.5 REMARK 620 8 HOH A 350 O 140.9 160.5 78.6 77.3 90.4 41.0 107.0 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 212 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 112 SG REMARK 620 2 CYS A 127 SG 107.5 REMARK 620 3 CYS A 129 SG 128.1 108.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 213 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 31 OD2 REMARK 620 2 ASP B 33 O 59.6 REMARK 620 3 ASP B 156 OD1 51.9 77.9 REMARK 620 4 PO4 B 214 O2 61.8 81.7 112.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 212 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 112 SG REMARK 620 2 CYS B 127 SG 97.9 REMARK 620 3 CYS B 129 SG 124.7 111.0 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 212 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 213 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 214 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 212 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 213 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 214 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3L1U RELATED DB: PDB DBREF 3L1V A 21 211 UNP P63228 GMHB_ECOLI 1 191 DBREF 3L1V B 21 211 UNP P63228 GMHB_ECOLI 1 191 SEQADV 3L1V MET A 1 UNP P63228 EXPRESSION TAG SEQADV 3L1V GLY A 2 UNP P63228 EXPRESSION TAG SEQADV 3L1V SER A 3 UNP P63228 EXPRESSION TAG SEQADV 3L1V SER A 4 UNP P63228 EXPRESSION TAG SEQADV 3L1V HIS A 5 UNP P63228 EXPRESSION TAG SEQADV 3L1V HIS A 6 UNP P63228 EXPRESSION TAG SEQADV 3L1V HIS A 7 UNP P63228 EXPRESSION TAG SEQADV 3L1V HIS A 8 UNP P63228 EXPRESSION TAG SEQADV 3L1V HIS A 9 UNP P63228 EXPRESSION TAG SEQADV 3L1V HIS A 10 UNP P63228 EXPRESSION TAG SEQADV 3L1V SER A 11 UNP P63228 EXPRESSION TAG SEQADV 3L1V SER A 12 UNP P63228 EXPRESSION TAG SEQADV 3L1V GLY A 13 UNP P63228 EXPRESSION TAG SEQADV 3L1V LEU A 14 UNP P63228 EXPRESSION TAG SEQADV 3L1V VAL A 15 UNP P63228 EXPRESSION TAG SEQADV 3L1V PRO A 16 UNP P63228 EXPRESSION TAG SEQADV 3L1V ARG A 17 UNP P63228 EXPRESSION TAG SEQADV 3L1V GLY A 18 UNP P63228 EXPRESSION TAG SEQADV 3L1V SER A 19 UNP P63228 EXPRESSION TAG SEQADV 3L1V HIS A 20 UNP P63228 EXPRESSION TAG SEQADV 3L1V MET B 1 UNP P63228 EXPRESSION TAG SEQADV 3L1V GLY B 2 UNP P63228 EXPRESSION TAG SEQADV 3L1V SER B 3 UNP P63228 EXPRESSION TAG SEQADV 3L1V SER B 4 UNP P63228 EXPRESSION TAG SEQADV 3L1V HIS B 5 UNP P63228 EXPRESSION TAG SEQADV 3L1V HIS B 6 UNP P63228 EXPRESSION TAG SEQADV 3L1V HIS B 7 UNP P63228 EXPRESSION TAG SEQADV 3L1V HIS B 8 UNP P63228 EXPRESSION TAG SEQADV 3L1V HIS B 9 UNP P63228 EXPRESSION TAG SEQADV 3L1V HIS B 10 UNP P63228 EXPRESSION TAG SEQADV 3L1V SER B 11 UNP P63228 EXPRESSION TAG SEQADV 3L1V SER B 12 UNP P63228 EXPRESSION TAG SEQADV 3L1V GLY B 13 UNP P63228 EXPRESSION TAG SEQADV 3L1V LEU B 14 UNP P63228 EXPRESSION TAG SEQADV 3L1V VAL B 15 UNP P63228 EXPRESSION TAG SEQADV 3L1V PRO B 16 UNP P63228 EXPRESSION TAG SEQADV 3L1V ARG B 17 UNP P63228 EXPRESSION TAG SEQADV 3L1V GLY B 18 UNP P63228 EXPRESSION TAG SEQADV 3L1V SER B 19 UNP P63228 EXPRESSION TAG SEQADV 3L1V HIS B 20 UNP P63228 EXPRESSION TAG SEQRES 1 A 211 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 211 LEU VAL PRO ARG GLY SER HIS MET ALA LYS SER VAL PRO SEQRES 3 A 211 ALA ILE PHE LEU ASP ARG ASP GLY THR ILE ASN VAL ASP SEQRES 4 A 211 HIS GLY TYR VAL HIS GLU ILE ASP ASN PHE GLU PHE ILE SEQRES 5 A 211 ASP GLY VAL ILE ASP ALA MET ARG GLU LEU LYS LYS MET SEQRES 6 A 211 GLY PHE ALA LEU VAL VAL VAL THR ASN GLN SER GLY ILE SEQRES 7 A 211 ALA ARG GLY LYS PHE THR GLU ALA GLN PHE GLU THR LEU SEQRES 8 A 211 THR GLU TRP MET ASP TRP SER LEU ALA ASP ARG ASP VAL SEQRES 9 A 211 ASP LEU ASP GLY ILE TYR TYR CYS PRO HIS HIS PRO GLN SEQRES 10 A 211 GLY SER VAL GLU GLU PHE ARG GLN VAL CYS ASP CYS ARG SEQRES 11 A 211 LYS PRO HIS PRO GLY MET LEU LEU SER ALA ARG ASP TYR SEQRES 12 A 211 LEU HIS ILE ASP MET ALA ALA SER TYR MET VAL GLY ASP SEQRES 13 A 211 LYS LEU GLU ASP MET GLN ALA ALA VAL ALA ALA ASN VAL SEQRES 14 A 211 GLY THR LYS VAL LEU VAL ARG THR GLY LYS PRO ILE THR SEQRES 15 A 211 PRO GLU ALA GLU ASN ALA ALA ASP TRP VAL LEU ASN SER SEQRES 16 A 211 LEU ALA ASP LEU PRO GLN ALA ILE LYS LYS GLN GLN LYS SEQRES 17 A 211 PRO ALA GLN SEQRES 1 B 211 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 211 LEU VAL PRO ARG GLY SER HIS MET ALA LYS SER VAL PRO SEQRES 3 B 211 ALA ILE PHE LEU ASP ARG ASP GLY THR ILE ASN VAL ASP SEQRES 4 B 211 HIS GLY TYR VAL HIS GLU ILE ASP ASN PHE GLU PHE ILE SEQRES 5 B 211 ASP GLY VAL ILE ASP ALA MET ARG GLU LEU LYS LYS MET SEQRES 6 B 211 GLY PHE ALA LEU VAL VAL VAL THR ASN GLN SER GLY ILE SEQRES 7 B 211 ALA ARG GLY LYS PHE THR GLU ALA GLN PHE GLU THR LEU SEQRES 8 B 211 THR GLU TRP MET ASP TRP SER LEU ALA ASP ARG ASP VAL SEQRES 9 B 211 ASP LEU ASP GLY ILE TYR TYR CYS PRO HIS HIS PRO GLN SEQRES 10 B 211 GLY SER VAL GLU GLU PHE ARG GLN VAL CYS ASP CYS ARG SEQRES 11 B 211 LYS PRO HIS PRO GLY MET LEU LEU SER ALA ARG ASP TYR SEQRES 12 B 211 LEU HIS ILE ASP MET ALA ALA SER TYR MET VAL GLY ASP SEQRES 13 B 211 LYS LEU GLU ASP MET GLN ALA ALA VAL ALA ALA ASN VAL SEQRES 14 B 211 GLY THR LYS VAL LEU VAL ARG THR GLY LYS PRO ILE THR SEQRES 15 B 211 PRO GLU ALA GLU ASN ALA ALA ASP TRP VAL LEU ASN SER SEQRES 16 B 211 LEU ALA ASP LEU PRO GLN ALA ILE LYS LYS GLN GLN LYS SEQRES 17 B 211 PRO ALA GLN HET ZN A 212 1 HET CA A 213 1 HET PO4 A 214 5 HET ZN B 212 1 HET CA B 213 1 HET PO4 B 214 5 HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM PO4 PHOSPHATE ION FORMUL 3 ZN 2(ZN 2+) FORMUL 4 CA 2(CA 2+) FORMUL 5 PO4 2(O4 P 3-) FORMUL 9 HOH *251(H2 O) HELIX 1 1 GLU A 45 PHE A 49 5 5 HELIX 2 2 GLY A 54 GLY A 66 1 13 HELIX 3 3 SER A 76 GLY A 81 1 6 HELIX 4 4 THR A 84 ASP A 101 1 18 HELIX 5 5 VAL A 120 ARG A 124 5 5 HELIX 6 6 PRO A 134 HIS A 145 1 12 HELIX 7 7 LYS A 157 ASN A 168 1 12 HELIX 8 8 THR A 182 ALA A 189 1 8 HELIX 9 9 SER A 195 ALA A 197 5 3 HELIX 10 10 ASP A 198 LYS A 205 1 8 HELIX 11 11 GLU B 45 PHE B 49 5 5 HELIX 12 12 GLY B 54 MET B 65 1 12 HELIX 13 13 SER B 76 GLY B 81 1 6 HELIX 14 14 THR B 84 ARG B 102 1 19 HELIX 15 15 VAL B 120 ARG B 124 5 5 HELIX 16 16 PRO B 134 LEU B 144 1 11 HELIX 17 17 LYS B 157 ALA B 167 1 11 HELIX 18 18 THR B 182 ALA B 188 1 7 HELIX 19 19 SER B 195 ALA B 197 5 3 HELIX 20 20 ASP B 198 LYS B 205 1 8 SHEET 1 A 6 GLY A 108 CYS A 112 0 SHEET 2 A 6 ALA A 68 ASN A 74 1 N VAL A 71 O TYR A 110 SHEET 3 A 6 ALA A 27 LEU A 30 1 N LEU A 30 O VAL A 70 SHEET 4 A 6 TYR A 152 GLY A 155 1 O TYR A 152 N PHE A 29 SHEET 5 A 6 THR A 171 VAL A 175 1 O VAL A 173 N MET A 153 SHEET 6 A 6 TRP A 191 LEU A 193 1 O LEU A 193 N LEU A 174 SHEET 1 B 6 GLY B 108 CYS B 112 0 SHEET 2 B 6 ALA B 68 ASN B 74 1 N VAL B 71 O TYR B 110 SHEET 3 B 6 ALA B 27 LEU B 30 1 N ILE B 28 O ALA B 68 SHEET 4 B 6 TYR B 152 GLY B 155 1 O TYR B 152 N PHE B 29 SHEET 5 B 6 THR B 171 VAL B 175 1 O VAL B 173 N MET B 153 SHEET 6 B 6 TRP B 191 LEU B 193 1 O LEU B 193 N LEU B 174 LINK OD2 ASP A 31 CA CA A 213 1555 1555 2.83 LINK OD1 ASP A 31 CA CA A 213 1555 1555 2.84 LINK O ASP A 33 CA CA A 213 1555 1555 2.51 LINK SG CYS A 112 ZN ZN A 212 1555 1555 2.62 LINK SG CYS A 127 ZN ZN A 212 1555 1555 2.27 LINK SG CYS A 129 ZN ZN A 212 1555 1555 2.13 LINK OD1 ASP A 156 CA CA A 213 1555 1555 2.57 LINK CA CA A 213 O1 PO4 A 214 1555 1555 2.50 LINK CA CA A 213 O HOH A 231 1555 1555 2.95 LINK CA CA A 213 O HOH A 261 1555 1555 2.77 LINK CA CA A 213 O HOH A 350 1555 1555 2.54 LINK OD2 ASP B 31 CA CA B 213 1555 1555 2.96 LINK O ASP B 33 CA CA B 213 1555 1555 2.89 LINK SG CYS B 112 ZN ZN B 212 1555 1555 2.22 LINK SG CYS B 127 ZN ZN B 212 1555 1555 2.62 LINK SG CYS B 129 ZN ZN B 212 1555 1555 2.35 LINK OD1 ASP B 156 CA CA B 213 1555 1555 2.84 LINK CA CA B 213 O2 PO4 B 214 1555 1555 2.57 CISPEP 1 LYS A 131 PRO A 132 0 13.93 CISPEP 2 LYS B 131 PRO B 132 0 10.56 SITE 1 AC1 5 CYS A 112 HIS A 114 CYS A 127 CYS A 129 SITE 2 AC1 5 ARG A 130 SITE 1 AC2 7 ASP A 31 ASP A 33 ASP A 156 PO4 A 214 SITE 2 AC2 7 HOH A 231 HOH A 261 HOH A 350 SITE 1 AC3 10 ASP A 31 ARG A 32 ASP A 33 THR A 73 SITE 2 AC3 10 ASN A 74 GLN A 75 LYS A 131 CA A 213 SITE 3 AC3 10 HOH A 231 HOH A 330 SITE 1 AC4 4 CYS B 112 HIS B 114 CYS B 127 CYS B 129 SITE 1 AC5 5 ASP B 31 ASP B 33 ASP B 156 LYS B 157 SITE 2 AC5 5 PO4 B 214 SITE 1 AC6 7 ASP B 31 ARG B 32 ASP B 33 THR B 73 SITE 2 AC6 7 ASN B 74 LYS B 131 CA B 213 CRYST1 50.575 64.309 104.381 90.00 90.00 90.00 P 21 21 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 0.019773 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015550 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009580 0.00000