HEADER TRANSFERASE 26-JUL-16 5GO3 TITLE CRYSTAL STRUCTURE OF A DI-NUCLEOTIDE CYCLASE VIBRIO MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYCLIC GMP-AMP SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: C-GMP-AMP SYNTHASE,3'3'-CGAMP SYNTHASE,CYCLIC AMP-GMP COMPND 5 SYNTHASE,C-AMP-GMP SYNTHASE,DINUCLEOTIDE CYCLASE DNCV; COMPND 6 EC: 2.7.7.-; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO CHOLERAE SEROTYPE O1 (STRAIN ATCC 39315 SOURCE 3 / EL TOR INABA N16961); SOURCE 4 ORGANISM_TAXID: 243277; SOURCE 5 STRAIN: ATCC 39315 / EL TOR INABA N16961; SOURCE 6 GENE: DNCV, VC_0179; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DI-NUCLEOTIDE CYCLASE VIBRIO, MUTANT, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Z.H.MING,W.WANG,Y.C.XIE,Y.C.CHEN,L.M.YAN,Z.Y.LOU REVDAT 2 13-NOV-24 5GO3 1 REMARK REVDAT 1 02-NOV-16 5GO3 0 JRNL AUTH Z.H.MING,W.WANG,Y.C.XIE,Y.C.CHEN,L.M.YAN,Z.Y.LOU JRNL TITL CRYSTAL STRUCTURE OF A DI-NUCLEOTIDE CYCLASE VIBRIO MUTANT JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Z.MING,W.WANG,Y.XIE,P.DING,Y.CHEN,D.JIN,Y.SUN,B.XIA,L.YAN, REMARK 1 AUTH 2 Z.LOU REMARK 1 TITL CRYSTAL STRUCTURE OF THE NOVEL DI-NUCLEOTIDE CYCLASE FROM REMARK 1 TITL 2 VIBRIO CHOLERAE (DNCV) RESPONSIBLE FOR SYNTHESIZING A HYBRID REMARK 1 TITL 3 CYCLIC GMP-AMP REMARK 1 REF CELL RES. V. 24 1270 2014 REMARK 1 REFN ISSN 1748-7838 REMARK 1 PMID 25245040 REMARK 1 DOI 10.1038/CR.2014.123 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.7.1_743 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.17 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 41882 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.231 REMARK 3 R VALUE (WORKING SET) : 0.228 REMARK 3 FREE R VALUE : 0.292 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 2116 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 43.1821 - 5.4223 0.99 2789 145 0.2312 0.2765 REMARK 3 2 5.4223 - 4.3051 0.99 2715 139 0.1777 0.2111 REMARK 3 3 4.3051 - 3.7613 1.00 2685 135 0.1923 0.2433 REMARK 3 4 3.7613 - 3.4175 1.00 2682 155 0.2138 0.2756 REMARK 3 5 3.4175 - 3.1727 1.00 2688 140 0.2356 0.2973 REMARK 3 6 3.1727 - 2.9857 1.00 2641 152 0.2484 0.3496 REMARK 3 7 2.9857 - 2.8362 1.00 2644 137 0.2696 0.3031 REMARK 3 8 2.8362 - 2.7127 1.00 2634 160 0.2688 0.3662 REMARK 3 9 2.7127 - 2.6083 1.00 2692 130 0.2457 0.3090 REMARK 3 10 2.6083 - 2.5183 0.99 2605 144 0.2332 0.3056 REMARK 3 11 2.5183 - 2.4396 0.99 2616 130 0.2445 0.3261 REMARK 3 12 2.4396 - 2.3699 0.98 2640 136 0.2503 0.3652 REMARK 3 13 2.3699 - 2.3075 0.98 2575 154 0.2485 0.3169 REMARK 3 14 2.3075 - 2.2512 0.98 2590 134 0.2592 0.3629 REMARK 3 15 2.2512 - 2.2000 0.98 2570 125 0.2759 0.3601 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.83 REMARK 3 K_SOL : 0.40 REMARK 3 B_SOL : 45.01 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.840 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.490 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.03190 REMARK 3 B22 (A**2) : -3.50320 REMARK 3 B33 (A**2) : 3.47130 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -2.97820 REMARK 3 B23 (A**2) : 0.00000 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 : 0.008 5974 REMARK 3 ANGLE : 1.202 8050 REMARK 3 CHIRALITY : 0.082 886 REMARK 3 PLANARITY : 0.005 1034 REMARK 3 DIHEDRAL : 15.907 2286 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 5GO3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-JUL-16. REMARK 100 THE DEPOSITION ID IS D_1300001155. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-OCT-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9789 REMARK 200 MONOCHROMATOR : NULL 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 : 50934 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.09200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 18.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.09 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.41 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG 3350, 100 MM HEPES (PH 7.5), REMARK 280 200 MM MAGNESIUM CHLORIDE HEXAHYDRATE, EVAPORATION, TEMPERATURE REMARK 280 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 23.13600 REMARK 290 SMTRY3 2 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 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 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 GLY A -4 REMARK 465 PRO A -3 REMARK 465 LEU A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 ARG A 2 REMARK 465 GLN A 112 REMARK 465 GLY A 113 REMARK 465 SER A 114 REMARK 465 LYS A 201 REMARK 465 ASP A 202 REMARK 465 GLU A 203 REMARK 465 PHE A 204 REMARK 465 GLN A 205 REMARK 465 LYS A 206 REMARK 465 LYS A 207 REMARK 465 GLN A 208 REMARK 465 ILE A 209 REMARK 465 ALA A 210 REMARK 465 LEU A 211 REMARK 465 GLU A 212 REMARK 465 ALA A 213 REMARK 465 ASN A 214 REMARK 465 ARG A 215 REMARK 465 SER A 216 REMARK 465 PHE A 217 REMARK 465 VAL A 218 REMARK 465 LYS A 219 REMARK 465 GLY A 220 REMARK 465 ALA A 221 REMARK 465 ILE A 222 REMARK 465 PHE A 223 REMARK 465 GLU A 224 REMARK 465 SER A 225 REMARK 465 TYR A 226 REMARK 465 VAL A 227 REMARK 465 ALA A 228 REMARK 465 ASP A 229 REMARK 465 SER A 230 REMARK 465 ILE A 231 REMARK 465 THR A 232 REMARK 465 ASP A 233 REMARK 465 ASP A 234 REMARK 465 SER A 235 REMARK 465 GLU A 236 REMARK 465 THR A 237 REMARK 465 TYR A 238 REMARK 465 GLU A 239 REMARK 465 LEU A 240 REMARK 465 GLY A 252 REMARK 465 ASP A 253 REMARK 465 ALA A 410 REMARK 465 LYS A 411 REMARK 465 ALA A 412 REMARK 465 LEU A 413 REMARK 465 PRO A 414 REMARK 465 ALA A 415 REMARK 465 PHE A 416 REMARK 465 ALA A 417 REMARK 465 GLN A 418 REMARK 465 GLU A 419 REMARK 465 PRO A 420 REMARK 465 SER A 421 REMARK 465 SER A 422 REMARK 465 ALA A 423 REMARK 465 SER A 424 REMARK 465 LYS A 425 REMARK 465 PRO A 426 REMARK 465 GLU A 427 REMARK 465 LYS A 428 REMARK 465 ILE A 429 REMARK 465 SER A 430 REMARK 465 SER A 431 REMARK 465 THR A 432 REMARK 465 MET A 433 REMARK 465 VAL A 434 REMARK 465 SER A 435 REMARK 465 GLY A 436 REMARK 465 HIS A 437 REMARK 465 HIS A 438 REMARK 465 HIS A 439 REMARK 465 HIS A 440 REMARK 465 HIS A 441 REMARK 465 HIS A 442 REMARK 465 GLY B -4 REMARK 465 PRO B -3 REMARK 465 LEU B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 MET B 1 REMARK 465 ARG B 2 REMARK 465 GLN B 112 REMARK 465 GLY B 113 REMARK 465 SER B 114 REMARK 465 ASP B 202 REMARK 465 GLU B 203 REMARK 465 PHE B 204 REMARK 465 GLN B 205 REMARK 465 LYS B 206 REMARK 465 LYS B 207 REMARK 465 GLN B 208 REMARK 465 ILE B 209 REMARK 465 ALA B 210 REMARK 465 LEU B 211 REMARK 465 GLU B 212 REMARK 465 ALA B 213 REMARK 465 ASN B 214 REMARK 465 ARG B 215 REMARK 465 SER B 216 REMARK 465 PHE B 217 REMARK 465 VAL B 218 REMARK 465 LYS B 219 REMARK 465 GLY B 220 REMARK 465 ALA B 221 REMARK 465 ILE B 222 REMARK 465 PHE B 223 REMARK 465 GLU B 224 REMARK 465 SER B 225 REMARK 465 TYR B 226 REMARK 465 VAL B 227 REMARK 465 ALA B 228 REMARK 465 ASP B 229 REMARK 465 SER B 230 REMARK 465 ILE B 231 REMARK 465 THR B 232 REMARK 465 ASP B 233 REMARK 465 ASP B 234 REMARK 465 SER B 235 REMARK 465 GLU B 236 REMARK 465 THR B 237 REMARK 465 TYR B 238 REMARK 465 GLU B 239 REMARK 465 GLY B 252 REMARK 465 ASP B 253 REMARK 465 ALA B 410 REMARK 465 LYS B 411 REMARK 465 ALA B 412 REMARK 465 LEU B 413 REMARK 465 PRO B 414 REMARK 465 ALA B 415 REMARK 465 PHE B 416 REMARK 465 ALA B 417 REMARK 465 GLN B 418 REMARK 465 GLU B 419 REMARK 465 PRO B 420 REMARK 465 SER B 421 REMARK 465 SER B 422 REMARK 465 ALA B 423 REMARK 465 SER B 424 REMARK 465 LYS B 425 REMARK 465 PRO B 426 REMARK 465 GLU B 427 REMARK 465 LYS B 428 REMARK 465 ILE B 429 REMARK 465 SER B 430 REMARK 465 SER B 431 REMARK 465 THR B 432 REMARK 465 MET B 433 REMARK 465 VAL B 434 REMARK 465 SER B 435 REMARK 465 GLY B 436 REMARK 465 HIS B 437 REMARK 465 HIS B 438 REMARK 465 HIS B 439 REMARK 465 HIS B 440 REMARK 465 HIS B 441 REMARK 465 HIS B 442 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 SER A 320 OG 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 CB LYS A 350 O HOH A 616 1.25 REMARK 500 NH1 ARG B 290 OD1 ASP B 291 1.73 REMARK 500 O SER B 242 OD1 ASN B 258 1.98 REMARK 500 CB SER A 385 OE1 GLU A 388 2.02 REMARK 500 O VAL A 245 N SER A 259 2.03 REMARK 500 CG LYS A 350 O HOH A 616 2.04 REMARK 500 O VAL A 57 O SER A 60 2.15 REMARK 500 OE2 GLU B 28 NH1 ARG B 122 2.16 REMARK 500 NZ LYS B 58 OD1 ASP B 100 2.16 REMARK 500 ND2 ASN A 399 O HOH A 501 2.17 REMARK 500 O GLU A 69 OG SER A 72 2.18 REMARK 500 O ASP A 118 NH1 ARG A 284 2.18 REMARK 500 O ASP A 241 CG2 VAL A 245 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 NH2 ARG B 85 O GLY B 127 2444 1.90 REMARK 500 REMARK 500 REMARK: NULL 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 PRO A 107 CD PRO A 107 N 0.187 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 LYS A 59 CB - CA - C ANGL. DEV. = -13.8 DEGREES REMARK 500 SER A 60 CB - CA - C ANGL. DEV. = -18.3 DEGREES REMARK 500 SER A 60 N - CA - C ANGL. DEV. = -25.4 DEGREES REMARK 500 ALA A 61 N - CA - CB ANGL. DEV. = -16.4 DEGREES REMARK 500 PRO A 107 CA - N - CD ANGL. DEV. = -10.7 DEGREES REMARK 500 PRO A 141 N - CA - C ANGL. DEV. = 40.2 DEGREES REMARK 500 ILE A 142 CB - CA - C ANGL. DEV. = -18.3 DEGREES REMARK 500 ILE A 142 N - CA - C ANGL. DEV. = -21.0 DEGREES REMARK 500 GLU A 144 CB - CA - C ANGL. DEV. = 17.9 DEGREES REMARK 500 SER A 145 N - CA - CB ANGL. DEV. = -12.1 DEGREES REMARK 500 GLU A 243 CB - CA - C ANGL. DEV. = -14.0 DEGREES REMARK 500 SER A 346 CB - CA - C ANGL. DEV. = -17.8 DEGREES REMARK 500 ALA A 383 CB - CA - C ANGL. DEV. = -11.1 DEGREES REMARK 500 MET B 3 CB - CA - C ANGL. DEV. = -17.5 DEGREES REMARK 500 MET B 3 N - CA - CB ANGL. DEV. = -22.8 DEGREES REMARK 500 MET B 3 N - CA - C ANGL. DEV. = -33.7 DEGREES REMARK 500 THR B 4 N - CA - C ANGL. DEV. = -25.5 DEGREES REMARK 500 SER B 60 CB - CA - C ANGL. DEV. = -24.0 DEGREES REMARK 500 ALA B 61 N - CA - CB ANGL. DEV. = -23.5 DEGREES REMARK 500 PRO B 107 CB - CA - C ANGL. DEV. = -32.3 DEGREES REMARK 500 ARG B 108 N - CA - CB ANGL. DEV. = -22.0 DEGREES REMARK 500 SER B 242 CB - CA - C ANGL. DEV. = 15.1 DEGREES REMARK 500 GLU B 243 CB - CA - C ANGL. DEV. = -17.0 DEGREES REMARK 500 ASN B 244 CB - CA - C ANGL. DEV. = 20.6 DEGREES REMARK 500 ASN B 244 N - CA - C ANGL. DEV. = -17.1 DEGREES REMARK 500 VAL B 245 CB - CA - C ANGL. DEV. = -18.3 DEGREES REMARK 500 VAL B 245 N - CA - CB ANGL. DEV. = -24.9 DEGREES REMARK 500 VAL B 245 N - CA - C ANGL. DEV. = 26.5 DEGREES REMARK 500 ASN B 246 CB - CA - C ANGL. DEV. = 13.2 DEGREES REMARK 500 ASN B 246 N - CA - C ANGL. DEV. = -16.9 DEGREES REMARK 500 ARG B 400 N - CA - C ANGL. DEV. = 21.1 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 ASP A 118 25.54 87.72 REMARK 500 PHE A 124 -78.34 -102.54 REMARK 500 GLU A 349 -168.21 -169.03 REMARK 500 SER B 145 -78.92 -114.40 REMARK 500 ASN B 399 -14.36 -49.63 REMARK 500 REMARK 500 REMARK: NULL DBREF 5GO3 A 1 436 UNP Q9KVG7 DNCV_VIBCH 1 436 DBREF 5GO3 B 1 436 UNP Q9KVG7 DNCV_VIBCH 1 436 SEQADV 5GO3 GLY A -4 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 PRO A -3 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 LEU A -2 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 GLY A -1 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 SER A 0 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 ASN A 131 UNP Q9KVG7 ASP 131 ENGINEERED MUTATION SEQADV 5GO3 ASN A 133 UNP Q9KVG7 ASP 133 ENGINEERED MUTATION SEQADV 5GO3 HIS A 437 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 HIS A 438 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 HIS A 439 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 HIS A 440 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 HIS A 441 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 HIS A 442 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 GLY B -4 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 PRO B -3 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 LEU B -2 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 GLY B -1 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 SER B 0 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 ASN B 131 UNP Q9KVG7 ASP 131 ENGINEERED MUTATION SEQADV 5GO3 ASN B 133 UNP Q9KVG7 ASP 133 ENGINEERED MUTATION SEQADV 5GO3 HIS B 437 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 HIS B 438 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 HIS B 439 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 HIS B 440 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 HIS B 441 UNP Q9KVG7 EXPRESSION TAG SEQADV 5GO3 HIS B 442 UNP Q9KVG7 EXPRESSION TAG SEQRES 1 A 447 GLY PRO LEU GLY SER MET ARG MET THR TRP ASN PHE HIS SEQRES 2 A 447 GLN TYR TYR THR ASN ARG ASN ASP GLY LEU MET GLY LYS SEQRES 3 A 447 LEU VAL LEU THR ASP GLU GLU LYS ASN ASN LEU LYS ALA SEQRES 4 A 447 LEU ARG LYS ILE ILE ARG LEU ARG THR ARG ASP VAL PHE SEQRES 5 A 447 GLU GLU ALA LYS GLY ILE ALA LYS ALA VAL LYS LYS SER SEQRES 6 A 447 ALA LEU THR PHE GLU ILE ILE GLN GLU LYS VAL SER THR SEQRES 7 A 447 THR GLN ILE LYS HIS LEU SER ASP SER GLU GLN ARG GLU SEQRES 8 A 447 VAL ALA LYS LEU ILE TYR GLU MET ASP ASP ASP ALA ARG SEQRES 9 A 447 ASP GLU PHE LEU GLY LEU THR PRO ARG PHE TRP THR GLN SEQRES 10 A 447 GLY SER PHE GLN TYR ASP THR LEU ASN ARG PRO PHE GLN SEQRES 11 A 447 PRO GLY GLN GLU MET ASN ILE ASN ASP GLY THR TYR MET SEQRES 12 A 447 PRO MET PRO ILE PHE GLU SER GLU PRO LYS ILE GLY HIS SEQRES 13 A 447 SER LEU LEU ILE LEU LEU VAL ASP ALA SER LEU LYS SER SEQRES 14 A 447 LEU VAL ALA GLU ASN HIS GLY TRP LYS PHE GLU ALA LYS SEQRES 15 A 447 GLN THR CYS GLY ARG ILE LYS ILE GLU ALA GLU LYS THR SEQRES 16 A 447 HIS ILE ASP VAL PRO MET TYR ALA ILE PRO LYS ASP GLU SEQRES 17 A 447 PHE GLN LYS LYS GLN ILE ALA LEU GLU ALA ASN ARG SER SEQRES 18 A 447 PHE VAL LYS GLY ALA ILE PHE GLU SER TYR VAL ALA ASP SEQRES 19 A 447 SER ILE THR ASP ASP SER GLU THR TYR GLU LEU ASP SER SEQRES 20 A 447 GLU ASN VAL ASN LEU ALA LEU ARG GLU GLY ASP ARG LYS SEQRES 21 A 447 TRP ILE ASN SER ASP PRO LYS ILE VAL GLU ASP TRP PHE SEQRES 22 A 447 ASN ASP SER CYS ILE ARG ILE GLY LYS HIS LEU ARG LYS SEQRES 23 A 447 VAL CYS ARG PHE MET LYS ALA TRP ARG ASP ALA GLN TRP SEQRES 24 A 447 ASP VAL GLY GLY PRO SER SER ILE SER LEU MET ALA ALA SEQRES 25 A 447 THR VAL ASN ILE LEU ASP SER VAL ALA HIS ASP ALA SER SEQRES 26 A 447 ASP LEU GLY GLU THR MET LYS ILE ILE ALA LYS HIS LEU SEQRES 27 A 447 PRO SER GLU PHE ALA ARG GLY VAL GLU SER PRO ASP SER SEQRES 28 A 447 THR ASP GLU LYS PRO LEU PHE PRO PRO SER TYR LYS HIS SEQRES 29 A 447 GLY PRO ARG GLU MET ASP ILE MET SER LYS LEU GLU ARG SEQRES 30 A 447 LEU PRO GLU ILE LEU SER SER ALA GLU SER ALA ASP SER SEQRES 31 A 447 LYS SER GLU ALA LEU LYS LYS ILE ASN MET ALA PHE GLY SEQRES 32 A 447 ASN ARG VAL THR ASN SER GLU LEU ILE VAL LEU ALA LYS SEQRES 33 A 447 ALA LEU PRO ALA PHE ALA GLN GLU PRO SER SER ALA SER SEQRES 34 A 447 LYS PRO GLU LYS ILE SER SER THR MET VAL SER GLY HIS SEQRES 35 A 447 HIS HIS HIS HIS HIS SEQRES 1 B 447 GLY PRO LEU GLY SER MET ARG MET THR TRP ASN PHE HIS SEQRES 2 B 447 GLN TYR TYR THR ASN ARG ASN ASP GLY LEU MET GLY LYS SEQRES 3 B 447 LEU VAL LEU THR ASP GLU GLU LYS ASN ASN LEU LYS ALA SEQRES 4 B 447 LEU ARG LYS ILE ILE ARG LEU ARG THR ARG ASP VAL PHE SEQRES 5 B 447 GLU GLU ALA LYS GLY ILE ALA LYS ALA VAL LYS LYS SER SEQRES 6 B 447 ALA LEU THR PHE GLU ILE ILE GLN GLU LYS VAL SER THR SEQRES 7 B 447 THR GLN ILE LYS HIS LEU SER ASP SER GLU GLN ARG GLU SEQRES 8 B 447 VAL ALA LYS LEU ILE TYR GLU MET ASP ASP ASP ALA ARG SEQRES 9 B 447 ASP GLU PHE LEU GLY LEU THR PRO ARG PHE TRP THR GLN SEQRES 10 B 447 GLY SER PHE GLN TYR ASP THR LEU ASN ARG PRO PHE GLN SEQRES 11 B 447 PRO GLY GLN GLU MET ASN ILE ASN ASP GLY THR TYR MET SEQRES 12 B 447 PRO MET PRO ILE PHE GLU SER GLU PRO LYS ILE GLY HIS SEQRES 13 B 447 SER LEU LEU ILE LEU LEU VAL ASP ALA SER LEU LYS SER SEQRES 14 B 447 LEU VAL ALA GLU ASN HIS GLY TRP LYS PHE GLU ALA LYS SEQRES 15 B 447 GLN THR CYS GLY ARG ILE LYS ILE GLU ALA GLU LYS THR SEQRES 16 B 447 HIS ILE ASP VAL PRO MET TYR ALA ILE PRO LYS ASP GLU SEQRES 17 B 447 PHE GLN LYS LYS GLN ILE ALA LEU GLU ALA ASN ARG SER SEQRES 18 B 447 PHE VAL LYS GLY ALA ILE PHE GLU SER TYR VAL ALA ASP SEQRES 19 B 447 SER ILE THR ASP ASP SER GLU THR TYR GLU LEU ASP SER SEQRES 20 B 447 GLU ASN VAL ASN LEU ALA LEU ARG GLU GLY ASP ARG LYS SEQRES 21 B 447 TRP ILE ASN SER ASP PRO LYS ILE VAL GLU ASP TRP PHE SEQRES 22 B 447 ASN ASP SER CYS ILE ARG ILE GLY LYS HIS LEU ARG LYS SEQRES 23 B 447 VAL CYS ARG PHE MET LYS ALA TRP ARG ASP ALA GLN TRP SEQRES 24 B 447 ASP VAL GLY GLY PRO SER SER ILE SER LEU MET ALA ALA SEQRES 25 B 447 THR VAL ASN ILE LEU ASP SER VAL ALA HIS ASP ALA SER SEQRES 26 B 447 ASP LEU GLY GLU THR MET LYS ILE ILE ALA LYS HIS LEU SEQRES 27 B 447 PRO SER GLU PHE ALA ARG GLY VAL GLU SER PRO ASP SER SEQRES 28 B 447 THR ASP GLU LYS PRO LEU PHE PRO PRO SER TYR LYS HIS SEQRES 29 B 447 GLY PRO ARG GLU MET ASP ILE MET SER LYS LEU GLU ARG SEQRES 30 B 447 LEU PRO GLU ILE LEU SER SER ALA GLU SER ALA ASP SER SEQRES 31 B 447 LYS SER GLU ALA LEU LYS LYS ILE ASN MET ALA PHE GLY SEQRES 32 B 447 ASN ARG VAL THR ASN SER GLU LEU ILE VAL LEU ALA LYS SEQRES 33 B 447 ALA LEU PRO ALA PHE ALA GLN GLU PRO SER SER ALA SER SEQRES 34 B 447 LYS PRO GLU LYS ILE SER SER THR MET VAL SER GLY HIS SEQRES 35 B 447 HIS HIS HIS HIS HIS FORMUL 3 HOH *278(H2 O) HELIX 1 AA1 PHE A 7 ASN A 13 1 7 HELIX 2 AA2 GLY A 17 VAL A 23 1 7 HELIX 3 AA3 THR A 25 SER A 60 1 36 HELIX 4 AA4 THR A 63 SER A 72 1 10 HELIX 5 AA5 THR A 73 LEU A 79 5 7 HELIX 6 AA6 SER A 80 GLU A 93 1 14 HELIX 7 AA7 ASP A 95 GLY A 104 1 10 HELIX 8 AA8 PHE A 115 THR A 119 5 5 HELIX 9 AA9 GLY A 150 ASN A 169 1 20 HELIX 10 AB1 ASP A 260 GLY A 276 1 17 HELIX 11 AB2 LYS A 277 TRP A 294 1 18 HELIX 12 AB3 SER A 300 ASP A 313 1 14 HELIX 13 AB4 ASP A 321 GLY A 340 1 20 HELIX 14 AB5 PRO A 355 HIS A 359 5 5 HELIX 15 AB6 GLY A 360 SER A 382 1 23 HELIX 16 AB7 SER A 385 GLY A 398 1 14 HELIX 17 AB8 ASN A 403 ILE A 407 5 5 HELIX 18 AB9 PHE B 7 ASN B 13 1 7 HELIX 19 AC1 GLY B 17 VAL B 23 1 7 HELIX 20 AC2 THR B 25 SER B 60 1 36 HELIX 21 AC3 THR B 63 THR B 74 1 12 HELIX 22 AC4 GLN B 75 LEU B 79 5 5 HELIX 23 AC5 SER B 80 GLU B 93 1 14 HELIX 24 AC6 ASP B 95 GLY B 104 1 10 HELIX 25 AC7 PHE B 115 THR B 119 5 5 HELIX 26 AC8 GLY B 150 ASN B 169 1 20 HELIX 27 AC9 ASP B 241 VAL B 245 1 5 HELIX 28 AD1 ASP B 260 GLY B 276 1 17 HELIX 29 AD2 LYS B 277 TRP B 294 1 18 HELIX 30 AD3 SER B 300 VAL B 315 1 16 HELIX 31 AD4 ASP B 321 GLY B 340 1 20 HELIX 32 AD5 PRO B 355 HIS B 359 5 5 HELIX 33 AD6 GLY B 360 SER B 382 1 23 HELIX 34 AD7 SER B 385 GLY B 398 1 14 HELIX 35 AD8 ASN B 403 ILE B 407 5 5 SHEET 1 AA1 5 ARG A 108 PHE A 109 0 SHEET 2 AA1 5 THR A 136 PRO A 139 -1 O TYR A 137 N ARG A 108 SHEET 3 AA1 5 MET A 196 ILE A 199 1 O TYR A 197 N MET A 138 SHEET 4 AA1 5 ASN A 246 ALA A 248 -1 O ASN A 246 N ALA A 198 SHEET 5 AA1 5 TRP A 256 ASN A 258 -1 O ILE A 257 N LEU A 247 SHEET 1 AA2 4 MET A 130 ASN A 133 0 SHEET 2 AA2 4 THR A 190 VAL A 194 1 O ASP A 193 N ILE A 132 SHEET 3 AA2 4 GLY A 181 ILE A 185 -1 N GLY A 181 O VAL A 194 SHEET 4 AA2 4 TRP A 172 ALA A 176 -1 N LYS A 173 O LYS A 184 SHEET 1 AA3 5 ARG B 108 PHE B 109 0 SHEET 2 AA3 5 THR B 136 PRO B 139 -1 O TYR B 137 N ARG B 108 SHEET 3 AA3 5 MET B 196 ILE B 199 1 O TYR B 197 N MET B 138 SHEET 4 AA3 5 ASN B 246 ALA B 248 -1 O ALA B 248 N MET B 196 SHEET 5 AA3 5 TRP B 256 ASN B 258 -1 O ILE B 257 N LEU B 247 SHEET 1 AA4 4 MET B 130 ASN B 133 0 SHEET 2 AA4 4 THR B 190 VAL B 194 1 O ASP B 193 N ILE B 132 SHEET 3 AA4 4 GLY B 181 ILE B 185 -1 N GLY B 181 O VAL B 194 SHEET 4 AA4 4 TRP B 172 ALA B 176 -1 N LYS B 173 O LYS B 184 LINK CD1 ILE A 142 ND1 HIS A 170 1555 1545 1.27 LINK CD1 ILE A 142 CE1 HIS A 170 1555 1545 1.56 CISPEP 1 PRO A 126 GLY A 127 0 0.77 CRYST1 74.745 46.272 121.791 90.00 99.82 90.00 P 1 21 1 4 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 0.013379 0.000000 0.002315 0.00000 SCALE2 0.000000 0.021611 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008333 0.00000