HEADER LIGASE 31-MAR-22 7UKA TITLE YGIC FROM ESCHERICHIA COLI K-12 IN COMPLEX WITH ADP COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE ACID--AMINE LIGASE YGIC; COMPND 3 CHAIN: A; COMPND 4 EC: 6.3.1.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI K-12; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: YGIC, B3038, JW3006; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS LIGASE, ATP-GRASP EXPDTA X-RAY DIFFRACTION AUTHOR J.L.PEDERICK,J.B.BRUNING REVDAT 3 25-OCT-23 7UKA 1 REMARK REVDAT 2 08-MAR-23 7UKA 1 JRNL REVDAT 1 15-FEB-23 7UKA 0 JRNL AUTH J.L.PEDERICK,J.KLOSE,B.JOVCEVSKI,T.L.PUKALA,J.B.BRUNING JRNL TITL ESCHERICHIA COLI YGIC AND YJFC POSSESS JRNL TITL 2 PEPTIDE─SPERMIDINE LIGASE ACTIVITY. JRNL REF BIOCHEMISTRY V. 62 899 2023 JRNL REFN ISSN 0006-2960 JRNL PMID 36745518 JRNL DOI 10.1021/ACS.BIOCHEM.2C00592 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.18.2-3874 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) : 39.80 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 32530 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.220 REMARK 3 R VALUE (WORKING SET) : 0.218 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.890 REMARK 3 FREE R VALUE TEST SET COUNT : 1591 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 39.8000 - 4.8900 1.00 2984 154 0.2099 0.2654 REMARK 3 2 4.8900 - 3.8800 1.00 2894 115 0.1867 0.1907 REMARK 3 3 3.8800 - 3.3900 1.00 2808 153 0.2067 0.2313 REMARK 3 4 3.3900 - 3.0800 1.00 2850 137 0.2400 0.2774 REMARK 3 5 3.0800 - 2.8600 1.00 2781 157 0.2549 0.3157 REMARK 3 6 2.8600 - 2.6900 1.00 2787 135 0.2573 0.2848 REMARK 3 7 2.6900 - 2.5600 1.00 2797 147 0.2582 0.3037 REMARK 3 8 2.5600 - 2.4500 1.00 2747 147 0.2551 0.3125 REMARK 3 9 2.4500 - 2.3500 1.00 2810 128 0.2528 0.3192 REMARK 3 10 2.3500 - 2.2700 1.00 2769 155 0.2518 0.2904 REMARK 3 11 2.2700 - 2.2000 1.00 2712 163 0.2823 0.2877 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) : 0.260 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.910 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.86 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 7UKA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-APR-22. REMARK 100 THE DEPOSITION ID IS D_1000264323. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-JUN-21 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 : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9537 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32581 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 44.070 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 20.50 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 25.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.27 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 20.80 REMARK 200 R MERGE FOR SHELL (I) : 2.46800 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.8.3 REMARK 200 STARTING MODEL: 7UK6 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.6 M MAGNESIUM SULFATE AND 100 MM MES REMARK 280 PH 6.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 46.63633 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 93.27267 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 93.27267 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 46.63633 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 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 -7 REMARK 465 GLY A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 ARG A 306A REMARK 465 GLU A 306B REMARK 465 GLY A 306C REMARK 465 ALA A 306D REMARK 465 GLU A 316 REMARK 465 ASN A 317 REMARK 465 GLY A 318 REMARK 465 LYS A 319 REMARK 465 THR A 320 REMARK 465 ILE A 321 REMARK 465 GLU A 322 REMARK 465 ALA A 323 REMARK 465 ALA A 324 REMARK 465 GLU A 325 REMARK 465 GLY A 326 REMARK 465 ILE A 372 REMARK 465 THR A 373 REMARK 465 GLN A 374 REMARK 465 ASP A 375 REMARK 465 MET A 376 REMARK 465 GLU A 386 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 5 OG REMARK 470 ASP A 11 CG OD1 OD2 REMARK 470 TYR A 31 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 75 CG CD CE NZ REMARK 470 LYS A 80 CG CD CE NZ REMARK 470 GLN A 88 CG CD OE1 NE2 REMARK 470 TRP A 132 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 132 CZ3 CH2 REMARK 470 GLU A 136 CG CD OE1 OE2 REMARK 470 LEU A 139 CG CD1 CD2 REMARK 470 GLU A 146 CG CD OE1 OE2 REMARK 470 ASP A 185 CG OD1 OD2 REMARK 470 GLN A 190 CG CD OE1 NE2 REMARK 470 GLU A 215 CG CD OE1 OE2 REMARK 470 LYS A 216 CG CD CE NZ REMARK 470 LEU A 222 CG CD1 CD2 REMARK 470 GLN A 223 CG CD OE1 NE2 REMARK 470 ASP A 224 CG OD1 OD2 REMARK 470 PHE A 244 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ASP A 292 CG OD1 OD2 REMARK 470 GLN A 295 CG CD OE1 NE2 REMARK 470 GLU A 297 CG CD OE1 OE2 REMARK 470 LYS A 298 CG CD CE NZ REMARK 470 PHE A 305 CG CD1 CD2 CE1 CE2 CZ REMARK 470 SER A 306 OG REMARK 470 ASN A 309 CG OD1 ND2 REMARK 470 VAL A 310 CG1 CG2 REMARK 470 ILE A 312 CG1 CG2 CD1 REMARK 470 ILE A 313 CG1 CG2 CD1 REMARK 470 TYR A 328 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 330 CG CD OE1 OE2 REMARK 470 ASP A 346 CG OD1 OD2 REMARK 470 ARG A 369 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 371 CG CD1 CD2 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 GLU A 34 26.21 -147.53 REMARK 500 TRP A 105 139.84 -170.90 REMARK 500 ASP A 119 -64.26 -127.62 REMARK 500 ASP A 149 -165.07 -122.03 REMARK 500 ASN A 152 97.33 -166.90 REMARK 500 ASP A 181 33.06 76.24 REMARK 500 THR A 182 -101.91 -124.04 REMARK 500 LEU A 233 65.78 -104.12 REMARK 500 PHE A 244 50.64 -110.51 REMARK 500 SER A 265 32.98 -85.32 REMARK 500 PHE A 305 104.30 -166.43 REMARK 500 ASN A 357 -108.60 50.41 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 NI A 402 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A -2 NE2 REMARK 620 2 HIS A 0 NE2 111.5 REMARK 620 3 GLU A 14 OE1 68.3 43.3 REMARK 620 4 GLU A 14 OE2 65.6 46.1 2.8 REMARK 620 5 HIS A 17 ND1 67.7 44.6 5.0 4.5 REMARK 620 N 1 2 3 4 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7UK6 RELATED DB: PDB REMARK 900 APO FORM OF HOMOLOGOUS PROTEIN YJFC REMARK 900 RELATED ID: 7UK7 RELATED DB: PDB REMARK 900 ADP BOUND FORM OF HOMOLOGOUS PROTEIN YJFC REMARK 900 RELATED ID: 7UK8 RELATED DB: PDB REMARK 900 APO FORM OF THE SAME PROTEIN DBREF 7UKA A 1 386 UNP P0ADT5 YGIC_ECOLI 1 386 SEQADV 7UKA MET A -7 UNP P0ADT5 INITIATING METHIONINE SEQADV 7UKA GLY A -6 UNP P0ADT5 EXPRESSION TAG SEQADV 7UKA HIS A -5 UNP P0ADT5 EXPRESSION TAG SEQADV 7UKA HIS A -4 UNP P0ADT5 EXPRESSION TAG SEQADV 7UKA HIS A -3 UNP P0ADT5 EXPRESSION TAG SEQADV 7UKA HIS A -2 UNP P0ADT5 EXPRESSION TAG SEQADV 7UKA HIS A -1 UNP P0ADT5 EXPRESSION TAG SEQADV 7UKA HIS A 0 UNP P0ADT5 EXPRESSION TAG SEQRES 1 A 394 MET GLY HIS HIS HIS HIS HIS HIS MET GLU ARG VAL SER SEQRES 2 A 394 ILE THR GLU ARG PRO ASP TRP ARG GLU LYS ALA HIS GLU SEQRES 3 A 394 TYR GLY PHE ASN PHE HIS THR MET TYR GLY GLU PRO TYR SEQRES 4 A 394 TRP CYS GLU ASP ALA TYR TYR LYS LEU THR LEU ALA GLN SEQRES 5 A 394 VAL GLU LYS LEU GLU GLU VAL THR ALA GLU LEU HIS GLN SEQRES 6 A 394 MET CYS LEU LYS VAL VAL GLU LYS VAL ILE ALA SER ASP SEQRES 7 A 394 GLU LEU MET THR LYS PHE ARG ILE PRO LYS HIS THR TRP SEQRES 8 A 394 SER PHE VAL ARG GLN SER TRP LEU THR HIS GLN PRO SER SEQRES 9 A 394 LEU TYR SER ARG LEU ASP LEU ALA TRP ASP GLY THR GLY SEQRES 10 A 394 GLU PRO LYS LEU LEU GLU ASN ASN ALA ASP THR PRO THR SEQRES 11 A 394 SER LEU TYR GLU ALA ALA PHE PHE GLN TRP ILE TRP LEU SEQRES 12 A 394 GLU ASP GLN LEU ASN ALA GLY ASN LEU PRO GLU GLY SER SEQRES 13 A 394 ASP GLN PHE ASN SER LEU GLN GLU LYS LEU ILE ASP ARG SEQRES 14 A 394 PHE VAL GLU LEU ARG GLU GLN TYR GLY PHE GLN LEU LEU SEQRES 15 A 394 HIS LEU THR CYS CYS ARG ASP THR VAL GLU ASP ARG GLY SEQRES 16 A 394 THR ILE GLN TYR LEU GLN ASP CYS ALA THR GLU ALA GLU SEQRES 17 A 394 ILE ALA THR GLU PHE LEU TYR ILE ASP ASP ILE GLY LEU SEQRES 18 A 394 GLY GLU LYS GLY GLN PHE THR ASP LEU GLN ASP GLN VAL SEQRES 19 A 394 ILE SER ASN LEU PHE LYS LEU TYR PRO TRP GLU PHE MET SEQRES 20 A 394 LEU ARG GLU MET PHE SER THR LYS LEU GLU ASP ALA GLY SEQRES 21 A 394 VAL ARG TRP LEU GLU PRO ALA TRP LYS SER ILE ILE SER SEQRES 22 A 394 ASN LYS ALA LEU LEU PRO LEU LEU TRP GLU MET PHE PRO SEQRES 23 A 394 ASN HIS PRO ASN LEU LEU PRO ALA TYR PHE ALA GLU ASP SEQRES 24 A 394 ASP HIS PRO GLN MET GLU LYS TYR VAL VAL LYS PRO ILE SEQRES 25 A 394 PHE SER ARG GLU GLY ALA ASN VAL SER ILE ILE GLU ASN SEQRES 26 A 394 GLY LYS THR ILE GLU ALA ALA GLU GLY PRO TYR GLY GLU SEQRES 27 A 394 GLU GLY MET ILE VAL GLN GLN PHE HIS PRO LEU PRO LYS SEQRES 28 A 394 PHE GLY ASP SER TYR MET LEU ILE GLY SER TRP LEU VAL SEQRES 29 A 394 ASN ASP GLN PRO ALA GLY ILE GLY ILE ARG GLU ASP ARG SEQRES 30 A 394 ALA LEU ILE THR GLN ASP MET SER ARG PHE TYR PRO HIS SEQRES 31 A 394 ILE PHE VAL GLU HET ADP A 401 27 HET NI A 402 1 HET SO4 A 403 5 HET SO4 A 404 5 HET SO4 A 405 5 HET SO4 A 406 5 HET SO4 A 407 5 HET SO4 A 408 5 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM NI NICKEL (II) ION HETNAM SO4 SULFATE ION FORMUL 2 ADP C10 H15 N5 O10 P2 FORMUL 3 NI NI 2+ FORMUL 4 SO4 6(O4 S 2-) FORMUL 10 HOH *32(H2 O) HELIX 1 AA1 ASP A 11 GLY A 20 1 10 HELIX 2 AA2 LEU A 42 ALA A 68 1 27 HELIX 3 AA3 SER A 69 PHE A 76 1 8 HELIX 4 AA4 PRO A 79 HIS A 81 5 3 HELIX 5 AA5 THR A 82 THR A 92 1 11 HELIX 6 AA6 SER A 123 PHE A 129 1 7 HELIX 7 AA7 PHE A 129 ALA A 141 1 13 HELIX 8 AA8 SER A 153 GLY A 170 1 18 HELIX 9 AA9 GLY A 187 ALA A 199 1 13 HELIX 10 AB1 TYR A 207 ILE A 211 5 5 HELIX 11 AB2 PRO A 235 LEU A 240 1 6 HELIX 12 AB3 PHE A 244 ALA A 251 5 8 HELIX 13 AB4 TRP A 260 SER A 265 1 6 HELIX 14 AB5 ALA A 268 PHE A 277 1 10 SHEET 1 AA1 3 GLU A 2 SER A 5 0 SHEET 2 AA1 3 ALA A 36 THR A 41 -1 O TYR A 37 N VAL A 4 SHEET 3 AA1 3 HIS A 382 VAL A 385 1 O ILE A 383 N LEU A 40 SHEET 1 AA2 6 TYR A 31 TRP A 32 0 SHEET 2 AA2 6 ARG A 378 TYR A 380 1 O PHE A 379 N TYR A 31 SHEET 3 AA2 6 GLN A 359 ASP A 368 -1 N GLU A 367 O ARG A 378 SHEET 4 AA2 6 SER A 347 VAL A 356 -1 N GLY A 352 O GLY A 364 SHEET 5 AA2 6 TYR A 98 ALA A 104 -1 N LEU A 101 O SER A 353 SHEET 6 AA2 6 LYS A 112 ASN A 117 -1 O GLU A 115 N ASP A 102 SHEET 1 AA3 5 TYR A 31 TRP A 32 0 SHEET 2 AA3 5 ARG A 378 TYR A 380 1 O PHE A 379 N TYR A 31 SHEET 3 AA3 5 GLN A 359 ASP A 368 -1 N GLU A 367 O ARG A 378 SHEET 4 AA3 5 SER A 347 VAL A 356 -1 N GLY A 352 O GLY A 364 SHEET 5 AA3 5 LYS A 343 PHE A 344 -1 N PHE A 344 O SER A 347 SHEET 1 AA4 4 ALA A 202 PHE A 205 0 SHEET 2 AA4 4 LEU A 173 THR A 177 1 N LEU A 174 O ALA A 202 SHEET 3 AA4 4 ASN A 229 LYS A 232 1 O PHE A 231 N HIS A 175 SHEET 4 AA4 4 ARG A 254 LEU A 256 1 O ARG A 254 N LEU A 230 SHEET 1 AA5 2 GLY A 212 LEU A 213 0 SHEET 2 AA5 2 PHE A 219 THR A 220 -1 O THR A 220 N GLY A 212 SHEET 1 AA6 4 ALA A 286 PHE A 288 0 SHEET 2 AA6 4 MET A 333 GLN A 337 -1 O VAL A 335 N TYR A 287 SHEET 3 AA6 4 TYR A 299 PRO A 303 -1 N VAL A 300 O GLN A 336 SHEET 4 AA6 4 SER A 311 ILE A 313 -1 O ILE A 313 N TYR A 299 LINK NE2 HIS A -2 NI NI A 402 1555 6445 1.86 LINK NE2 HIS A 0 NI NI A 402 1555 6445 2.10 LINK OE1 GLU A 14 NI NI A 402 1555 1555 1.92 LINK OE2 GLU A 14 NI NI A 402 1555 1555 2.38 LINK ND1 HIS A 17 NI NI A 402 1555 1555 2.30 CISPEP 1 LEU A 256 GLU A 257 0 -6.75 CRYST1 88.131 88.131 139.909 90.00 90.00 120.00 P 31 2 1 6 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 0.011347 0.006551 0.000000 0.00000 SCALE2 0.000000 0.013102 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007148 0.00000