HEADER OXIDOREDUCTASE 22-JUL-22 8DSJ TITLE PEPTIDYLGLYCINE ALPHA HYDROXYLATING MONOOXYGENASE ANAEROBIC COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDYLGLYCINE ALPHA-AMIDATING MONOOXYGENASE; COMPND 3 CHAIN: A, K; COMPND 4 SYNONYM: PAM; COMPND 5 EC: 1.14.17.3,4.3.2.5; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: NORWAY RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: PAM; SOURCE 6 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 10029 KEYWDS COPPER, MONOOXYGENASE, PEPTIDYLGLYCINE ALPHA HYDROXYLATING, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR R.J.ARIAS,N.J.BLACKBURN REVDAT 4 25-OCT-23 8DSJ 1 REMARK REVDAT 3 19-APR-23 8DSJ 1 JRNL REVDAT 2 12-APR-23 8DSJ 1 JRNL REVDAT 1 22-MAR-23 8DSJ 0 JRNL AUTH R.J.ARIAS,E.F.WELCH,N.J.BLACKBURN JRNL TITL NEW STRUCTURES REVEAL FLEXIBLE DYNAMICS BETWEEN THE JRNL TITL 2 SUBDOMAINS OF PEPTIDYLGLYCINE MONOOXYGENASE. IMPLICATIONS JRNL TITL 3 FOR AN OPEN TO CLOSED MECHANISM. JRNL REF PROTEIN SCI. V. 32 E4615 2023 JRNL REFN ESSN 1469-896X JRNL PMID 36880254 JRNL DOI 10.1002/PRO.4615 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.40 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 15515 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.275 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 812 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1125 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2310 REMARK 3 BIN FREE R VALUE SET COUNT : 59 REMARK 3 BIN FREE R VALUE : 0.3240 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4796 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.84 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.04000 REMARK 3 B33 (A**2) : -0.09000 REMARK 3 B12 (A**2) : -0.09000 REMARK 3 B13 (A**2) : 0.01000 REMARK 3 B23 (A**2) : -0.05000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.437 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.333 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.595 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.920 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.839 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4977 ; 0.006 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 4545 ; 0.001 ; 0.015 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6748 ; 1.472 ; 1.651 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10488 ; 1.158 ; 1.573 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 611 ; 8.486 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 245 ;31.595 ;21.510 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 771 ;19.648 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;18.784 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 640 ; 0.058 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5573 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1149 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 8DSJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JUL-22. REMARK 100 THE DEPOSITION ID IS D_1000266959. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-OCT-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4-5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 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 : AIMLESS 0.7.7 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57073 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 37.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 200 DATA REDUNDANCY : 7.900 REMARK 200 R MERGE (I) : 0.16900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 3.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 57.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.16200 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: MOLREP REMARK 200 STARTING MODEL: 1PHM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5 UL OF WT PHM PROTEIN AT 17 MG/ML REMARK 280 IN 20 MM SODIUM PHOSPHATE, PH 7.5 WAS ADDED TO 1.5 UL OF MOTHER REMARK 280 LIQUOR SOLUTION CONTAINING 16-18% PEG 20K, 20-250 MM SODIUM REMARK 280 CITRATE, AND 2 MM CUSO4. PLATES WERE SEALED USING TRANSPARENT REMARK 280 TAPE. CRYSTALS WERE FORMED WITHIN ONE WEEK, AND THESE INITIAL REMARK 280 CRYSTALS WERE USED TO SEED SUCCEEDING TRAYS USING THE SAME REMARK 280 CRYSTAL CONDITIONS. SEEDING WAS PERFORMED USING A HAMPTON REMARK 280 RESEARCH SEED BEAD AND HAMPTON RESEARCH SEEDING TOOL. INITIAL REMARK 280 CRYSTALS (5-7 CRYSTALS) WERE VORTEXED WITH SEED BEADS FOR 30 REMARK 280 SECONDS IN 30 UL MOTHER LIQUOR, AND STREAKED INTO A NEW DROP REMARK 280 USING THE SEEDING TOOL., PH 4.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: K 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 ALA A 303 REMARK 465 LEU K 48 REMARK 465 GLY K 49 REMARK 465 THR K 50 REMARK 465 ILE K 51 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 GLU A 46 CG CD OE1 OE2 REMARK 470 LYS K 219 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 OH TYR A 205 O2 GOL A 405 2.15 REMARK 500 O ARG A 180 N ASN A 182 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O ASN A 182 CE1 PHE K 125 1556 2.15 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 GLU A 46 153.01 -44.59 REMARK 500 ASP A 58 -173.51 171.16 REMARK 500 THR A 105 -36.09 -134.65 REMARK 500 ALA A 145 138.00 -173.44 REMARK 500 PHE A 179 49.05 -82.00 REMARK 500 ARG A 180 52.42 -67.01 REMARK 500 ASP A 181 -39.10 50.86 REMARK 500 ASN A 182 -9.55 -27.61 REMARK 500 GLU A 218 89.49 -16.38 REMARK 500 HIS A 244 -156.49 -93.24 REMARK 500 GLN A 269 39.38 -93.46 REMARK 500 PHE A 285 127.99 -38.37 REMARK 500 GLU A 298 123.60 -36.07 REMARK 500 PRO A 353 -176.22 -50.24 REMARK 500 ASP K 58 -160.89 -162.06 REMARK 500 PRO K 69 47.04 -86.86 REMARK 500 THR K 72 77.06 -162.06 REMARK 500 PRO K 87 39.74 -87.17 REMARK 500 CYS K 114 -169.72 -163.00 REMARK 500 GLU K 128 0.39 -67.97 REMARK 500 VAL K 210 -35.78 -132.69 REMARK 500 GLU K 218 115.32 -27.60 REMARK 500 HIS K 244 -136.36 -99.24 REMARK 500 PRO K 268 5.66 -67.34 REMARK 500 GLU K 278 -87.56 -18.18 REMARK 500 PHE K 285 125.46 -36.87 REMARK 500 PRO K 353 -171.31 -62.50 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 ASP A 104 THR A 105 -148.58 REMARK 500 ASP K 104 THR K 105 -147.21 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 CU A 401 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 107 ND1 REMARK 620 2 HIS A 108 ND1 119.3 REMARK 620 3 HIS A 172 ND1 96.3 141.2 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A 402 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 242 NE2 REMARK 620 2 HIS A 244 NE2 115.3 REMARK 620 3 MET A 314 SD 127.3 112.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU K 401 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS K 107 ND1 REMARK 620 2 HIS K 108 ND1 128.4 REMARK 620 3 HIS K 172 ND1 114.7 116.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU K 402 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS K 242 NE2 REMARK 620 2 HIS K 244 NE2 116.2 REMARK 620 3 MET K 314 SD 101.8 117.0 REMARK 620 N 1 2 DBREF 8DSJ A 45 354 UNP P14925 AMD_RAT 45 354 DBREF 8DSJ K 45 354 UNP P14925 AMD_RAT 45 354 SEQRES 1 A 310 ASN GLU CYS LEU GLY THR ILE GLY PRO VAL THR PRO LEU SEQRES 2 A 310 ASP ALA SER ASP PHE ALA LEU ASP ILE ARG MET PRO GLY SEQRES 3 A 310 VAL THR PRO LYS GLU SER ASP THR TYR PHE CYS MET SER SEQRES 4 A 310 MET ARG LEU PRO VAL ASP GLU GLU ALA PHE VAL ILE ASP SEQRES 5 A 310 PHE LYS PRO ARG ALA SER MET ASP THR VAL HIS HIS MET SEQRES 6 A 310 LEU LEU PHE GLY CYS ASN MET PRO SER SER THR GLY SER SEQRES 7 A 310 TYR TRP PHE CYS ASP GLU GLY THR CYS THR ASP LYS ALA SEQRES 8 A 310 ASN ILE LEU TYR ALA TRP ALA ARG ASN ALA PRO PRO THR SEQRES 9 A 310 ARG LEU PRO LYS GLY VAL GLY PHE ARG VAL GLY GLY GLU SEQRES 10 A 310 THR GLY SER LYS TYR PHE VAL LEU GLN VAL HIS TYR GLY SEQRES 11 A 310 ASP ILE SER ALA PHE ARG ASP ASN HIS LYS ASP CYS SER SEQRES 12 A 310 GLY VAL SER VAL HIS LEU THR ARG VAL PRO GLN PRO LEU SEQRES 13 A 310 ILE ALA GLY MET TYR LEU MET MET SER VAL ASP THR VAL SEQRES 14 A 310 ILE PRO PRO GLY GLU LYS VAL VAL ASN ALA ASP ILE SER SEQRES 15 A 310 CYS GLN TYR LYS MET TYR PRO MET HIS VAL PHE ALA TYR SEQRES 16 A 310 ARG VAL HIS THR HIS HIS LEU GLY LYS VAL VAL SER GLY SEQRES 17 A 310 TYR ARG VAL ARG ASN GLY GLN TRP THR LEU ILE GLY ARG SEQRES 18 A 310 GLN ASN PRO GLN LEU PRO GLN ALA PHE TYR PRO VAL GLU SEQRES 19 A 310 HIS PRO VAL ASP VAL THR PHE GLY ASP ILE LEU ALA ALA SEQRES 20 A 310 ARG CYS VAL PHE THR GLY GLU GLY ARG THR GLU ALA THR SEQRES 21 A 310 HIS ILE GLY GLY THR SER SER ASP GLU MET CYS ASN LEU SEQRES 22 A 310 TYR ILE MET TYR TYR MET GLU ALA LYS TYR ALA LEU SER SEQRES 23 A 310 PHE MET THR CYS THR LYS ASN VAL ALA PRO ASP MET PHE SEQRES 24 A 310 ARG THR ILE PRO ALA GLU ALA ASN ILE PRO ILE SEQRES 1 K 310 ASN GLU CYS LEU GLY THR ILE GLY PRO VAL THR PRO LEU SEQRES 2 K 310 ASP ALA SER ASP PHE ALA LEU ASP ILE ARG MET PRO GLY SEQRES 3 K 310 VAL THR PRO LYS GLU SER ASP THR TYR PHE CYS MET SER SEQRES 4 K 310 MET ARG LEU PRO VAL ASP GLU GLU ALA PHE VAL ILE ASP SEQRES 5 K 310 PHE LYS PRO ARG ALA SER MET ASP THR VAL HIS HIS MET SEQRES 6 K 310 LEU LEU PHE GLY CYS ASN MET PRO SER SER THR GLY SER SEQRES 7 K 310 TYR TRP PHE CYS ASP GLU GLY THR CYS THR ASP LYS ALA SEQRES 8 K 310 ASN ILE LEU TYR ALA TRP ALA ARG ASN ALA PRO PRO THR SEQRES 9 K 310 ARG LEU PRO LYS GLY VAL GLY PHE ARG VAL GLY GLY GLU SEQRES 10 K 310 THR GLY SER LYS TYR PHE VAL LEU GLN VAL HIS TYR GLY SEQRES 11 K 310 ASP ILE SER ALA PHE ARG ASP ASN HIS LYS ASP CYS SER SEQRES 12 K 310 GLY VAL SER VAL HIS LEU THR ARG VAL PRO GLN PRO LEU SEQRES 13 K 310 ILE ALA GLY MET TYR LEU MET MET SER VAL ASP THR VAL SEQRES 14 K 310 ILE PRO PRO GLY GLU LYS VAL VAL ASN ALA ASP ILE SER SEQRES 15 K 310 CYS GLN TYR LYS MET TYR PRO MET HIS VAL PHE ALA TYR SEQRES 16 K 310 ARG VAL HIS THR HIS HIS LEU GLY LYS VAL VAL SER GLY SEQRES 17 K 310 TYR ARG VAL ARG ASN GLY GLN TRP THR LEU ILE GLY ARG SEQRES 18 K 310 GLN ASN PRO GLN LEU PRO GLN ALA PHE TYR PRO VAL GLU SEQRES 19 K 310 HIS PRO VAL ASP VAL THR PHE GLY ASP ILE LEU ALA ALA SEQRES 20 K 310 ARG CYS VAL PHE THR GLY GLU GLY ARG THR GLU ALA THR SEQRES 21 K 310 HIS ILE GLY GLY THR SER SER ASP GLU MET CYS ASN LEU SEQRES 22 K 310 TYR ILE MET TYR TYR MET GLU ALA LYS TYR ALA LEU SER SEQRES 23 K 310 PHE MET THR CYS THR LYS ASN VAL ALA PRO ASP MET PHE SEQRES 24 K 310 ARG THR ILE PRO ALA GLU ALA ASN ILE PRO ILE HET CU A 401 1 HET CU A 402 1 HET CU A 403 1 HET GOL A 404 6 HET GOL A 405 6 HET CU K 401 1 HET CU K 402 1 HET CU K 403 1 HET GOL K 404 6 HET GOL K 405 6 HET GOL K 406 6 HETNAM CU COPPER (II) ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 CU 6(CU 2+) FORMUL 6 GOL 5(C3 H8 O3) HELIX 1 AA1 ALA A 339 ILE A 346 5 8 HELIX 2 AA2 PRO A 347 ILE A 352 5 6 HELIX 3 AA3 ASP K 175 ASN K 182 5 8 HELIX 4 AA4 LYS K 326 ALA K 328 5 3 HELIX 5 AA5 ALA K 339 ILE K 346 5 8 HELIX 6 AA6 PRO K 347 ASN K 351 5 5 SHEET 1 AA1 9 VAL A 54 PRO A 56 0 SHEET 2 AA1 9 ASP A 61 ARG A 67 -1 O ALA A 63 N THR A 55 SHEET 3 AA1 9 GLY A 188 THR A 194 -1 O VAL A 191 N LEU A 64 SHEET 4 AA1 9 ALA A 92 ARG A 100 -1 N ARG A 100 O GLY A 188 SHEET 5 AA1 9 VAL A 154 VAL A 158 -1 O VAL A 158 N ALA A 92 SHEET 6 AA1 9 LEU A 200 SER A 209 1 O ALA A 202 N GLY A 155 SHEET 7 AA1 9 CYS A 315 GLU A 324 -1 O ILE A 319 N TYR A 205 SHEET 8 AA1 9 MET A 234 HIS A 242 -1 N ARG A 240 O TYR A 318 SHEET 9 AA1 9 TYR A 275 VAL A 283 -1 O VAL A 281 N VAL A 236 SHEET 1 AA2 7 VAL A 54 PRO A 56 0 SHEET 2 AA2 7 ASP A 61 ARG A 67 -1 O ALA A 63 N THR A 55 SHEET 3 AA2 7 GLY A 188 THR A 194 -1 O VAL A 191 N LEU A 64 SHEET 4 AA2 7 ALA A 92 ARG A 100 -1 N ARG A 100 O GLY A 188 SHEET 5 AA2 7 VAL A 154 VAL A 158 -1 O VAL A 158 N ALA A 92 SHEET 6 AA2 7 LEU A 200 SER A 209 1 O ALA A 202 N GLY A 155 SHEET 7 AA2 7 PHE A 331 CYS A 334 1 O MET A 332 N LEU A 206 SHEET 1 AA3 5 TRP A 124 PHE A 125 0 SHEET 2 AA3 5 THR A 78 ARG A 85 -1 N CYS A 81 O TRP A 124 SHEET 3 AA3 5 TYR A 166 TYR A 173 -1 O VAL A 171 N PHE A 80 SHEET 4 AA3 5 VAL A 106 CYS A 114 -1 N HIS A 107 O HIS A 172 SHEET 5 AA3 5 ASN A 136 ALA A 142 -1 O ASN A 136 N GLY A 113 SHEET 1 AA4 4 VAL A 221 GLN A 228 0 SHEET 2 AA4 4 ILE A 288 PHE A 295 -1 O PHE A 295 N VAL A 221 SHEET 3 AA4 4 GLY A 247 ARG A 256 -1 N LYS A 248 O VAL A 294 SHEET 4 AA4 4 GLN A 259 GLN A 266 -1 O ILE A 263 N GLY A 252 SHEET 1 AA5 9 VAL K 54 PRO K 56 0 SHEET 2 AA5 9 ASP K 61 ARG K 67 -1 O ALA K 63 N THR K 55 SHEET 3 AA5 9 GLY K 188 THR K 194 -1 O VAL K 191 N LEU K 64 SHEET 4 AA5 9 ALA K 92 ARG K 100 -1 N ARG K 100 O GLY K 188 SHEET 5 AA5 9 VAL K 154 VAL K 158 -1 O VAL K 158 N ALA K 92 SHEET 6 AA5 9 LEU K 200 SER K 209 1 O ALA K 202 N GLY K 155 SHEET 7 AA5 9 CYS K 315 GLU K 324 -1 O LEU K 317 N MET K 207 SHEET 8 AA5 9 MET K 234 HIS K 242 -1 N ARG K 240 O TYR K 318 SHEET 9 AA5 9 TYR K 275 VAL K 283 -1 O TYR K 275 N TYR K 239 SHEET 1 AA6 7 VAL K 54 PRO K 56 0 SHEET 2 AA6 7 ASP K 61 ARG K 67 -1 O ALA K 63 N THR K 55 SHEET 3 AA6 7 GLY K 188 THR K 194 -1 O VAL K 191 N LEU K 64 SHEET 4 AA6 7 ALA K 92 ARG K 100 -1 N ARG K 100 O GLY K 188 SHEET 5 AA6 7 VAL K 154 VAL K 158 -1 O VAL K 158 N ALA K 92 SHEET 6 AA6 7 LEU K 200 SER K 209 1 O ALA K 202 N GLY K 155 SHEET 7 AA6 7 PHE K 331 CYS K 334 1 O MET K 332 N LEU K 206 SHEET 1 AA7 5 TRP K 124 PHE K 125 0 SHEET 2 AA7 5 THR K 78 ARG K 85 -1 N CYS K 81 O TRP K 124 SHEET 3 AA7 5 TYR K 166 TYR K 173 -1 O VAL K 171 N PHE K 80 SHEET 4 AA7 5 VAL K 106 CYS K 114 -1 N HIS K 107 O HIS K 172 SHEET 5 AA7 5 ASN K 136 ALA K 142 -1 O TYR K 139 N LEU K 111 SHEET 1 AA8 4 GLY K 217 GLN K 228 0 SHEET 2 AA8 4 ILE K 288 GLY K 297 -1 O PHE K 295 N VAL K 221 SHEET 3 AA8 4 GLY K 247 ARG K 256 -1 N VAL K 249 O VAL K 294 SHEET 4 AA8 4 GLN K 259 GLN K 266 -1 O ILE K 263 N GLY K 252 SSBOND 1 CYS A 47 CYS A 186 1555 1555 2.06 SSBOND 2 CYS A 81 CYS A 126 1555 1555 2.05 SSBOND 3 CYS A 114 CYS A 131 1555 1555 2.08 SSBOND 4 CYS A 227 CYS A 334 1555 1555 2.07 SSBOND 5 CYS A 293 CYS A 315 1555 1555 2.03 SSBOND 6 CYS K 47 CYS K 186 1555 1555 2.04 SSBOND 7 CYS K 81 CYS K 126 1555 1555 2.04 SSBOND 8 CYS K 114 CYS K 131 1555 1555 2.05 SSBOND 9 CYS K 227 CYS K 334 1555 1555 2.05 SSBOND 10 CYS K 293 CYS K 315 1555 1555 2.04 LINK ND1 HIS A 107 CU CU A 401 1555 1555 2.02 LINK ND1 HIS A 108 CU CU A 401 1555 1555 2.01 LINK ND1 HIS A 172 CU CU A 401 1555 1555 2.04 LINK NE2 HIS A 242 CU CU A 402 1555 1555 2.04 LINK NE2 HIS A 244 CU CU A 402 1555 1555 2.02 LINK SD MET A 314 CU CU A 402 1555 1555 2.32 LINK ND1 HIS K 107 CU CU K 401 1555 1555 2.06 LINK ND1 HIS K 108 CU CU K 401 1555 1555 2.02 LINK ND1 HIS K 172 CU CU K 401 1555 1555 2.03 LINK NE2 HIS K 242 CU CU K 402 1555 1555 2.01 LINK NE2 HIS K 244 CU CU K 402 1555 1555 2.06 LINK SD MET K 314 CU CU K 402 1555 1555 2.33 CRYST1 38.140 53.263 86.424 84.85 89.96 78.50 P 1 2 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 0.026219 -0.005332 0.000473 0.00000 SCALE2 0.000000 0.019159 -0.001762 0.00000 SCALE3 0.000000 0.000000 0.011620 0.00000