HEADER HYDROLASE/DNA 13-JAN-24 8VN7 TITLE HOMING ENDONUCLEASE I-PPOI-DNA COMPLEX:REACTION AT PH8.0 (TRIS) WITH TITLE 2 500 UM MG2+ FOR 20S COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*TP*TP*GP*AP*CP*TP*CP*TP*CP*TP*TP*AP*A)-3'); COMPND 3 CHAIN: C, D; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (5'-D(P*GP*AP*GP*AP*GP*TP*CP*A)-3'); COMPND 7 CHAIN: c, d; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: INTRON-ENCODED ENDONUCLEASE I-PPOI; COMPND 11 CHAIN: A, B; COMPND 12 SYNONYM: I-PPO; COMPND 13 EC: 3.1.-.-; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 8 ORGANISM_TAXID: 32630; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: PHYSARUM POLYCEPHALUM; SOURCE 11 ORGANISM_TAXID: 5791; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 13 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS INTRON ENCODED HOMING ENDONUCLEASE I-PPOI, HYDROLASE, HYDROLASE-DNA KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.CHANG,Y.GAO REVDAT 2 17-JUL-24 8VN7 1 REMARK REVDAT 1 10-JUL-24 8VN7 0 JRNL AUTH C.CHANG,Y.GAO JRNL TITL HOMING ENDONUCLEASE I-PPOI-DNA COMPLEX:REACTION WITH 500 UM JRNL TITL 2 MG2+ FOR 160S JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.67 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.20.1_4487: ???) 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) : 1.67 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.99 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 76108 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.410 REMARK 3 FREE R VALUE TEST SET COUNT : 4118 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 42.9900 - 5.1300 1.00 2668 131 0.1406 0.1563 REMARK 3 2 5.1300 - 4.0700 1.00 2568 139 0.1282 0.1242 REMARK 3 3 4.0700 - 3.5600 1.00 2546 127 0.1518 0.1615 REMARK 3 4 3.5600 - 3.2300 1.00 2541 121 0.1675 0.1888 REMARK 3 5 3.2300 - 3.0000 1.00 2514 140 0.1883 0.1855 REMARK 3 6 3.0000 - 2.8200 1.00 2525 131 0.1964 0.2250 REMARK 3 7 2.8200 - 2.6800 1.00 2491 153 0.1914 0.2217 REMARK 3 8 2.6800 - 2.5700 1.00 2490 140 0.2003 0.2361 REMARK 3 9 2.5700 - 2.4700 1.00 2491 140 0.1946 0.2104 REMARK 3 10 2.4700 - 2.3800 1.00 2521 138 0.1897 0.2001 REMARK 3 11 2.3800 - 2.3100 1.00 2515 113 0.1880 0.2058 REMARK 3 12 2.3100 - 2.2400 1.00 2480 144 0.1854 0.2142 REMARK 3 13 2.2400 - 2.1800 1.00 2437 168 0.1857 0.2111 REMARK 3 14 2.1800 - 2.1300 1.00 2530 139 0.1795 0.2167 REMARK 3 15 2.1300 - 2.0800 1.00 2492 124 0.1847 0.1991 REMARK 3 16 2.0800 - 2.0400 1.00 2418 178 0.1817 0.2130 REMARK 3 17 2.0400 - 2.0000 1.00 2465 164 0.1957 0.2077 REMARK 3 18 2.0000 - 1.9600 1.00 2498 111 0.1895 0.2334 REMARK 3 19 1.9600 - 1.9200 1.00 2456 151 0.1956 0.2423 REMARK 3 20 1.9200 - 1.8900 1.00 2452 155 0.1960 0.2272 REMARK 3 21 1.8900 - 1.8600 1.00 2479 144 0.1944 0.2394 REMARK 3 22 1.8600 - 1.8300 1.00 2500 143 0.2000 0.2262 REMARK 3 23 1.8300 - 1.8000 1.00 2429 156 0.1987 0.2186 REMARK 3 24 1.8000 - 1.7800 1.00 2469 141 0.2108 0.2252 REMARK 3 25 1.7800 - 1.7600 1.00 2465 166 0.2221 0.2347 REMARK 3 26 1.7500 - 1.7300 1.00 2460 148 0.2135 0.2403 REMARK 3 27 1.7300 - 1.7100 1.00 2483 132 0.2238 0.2482 REMARK 3 28 1.7100 - 1.6900 1.00 2471 143 0.2278 0.2444 REMARK 3 29 1.6900 - 1.6700 0.88 2136 138 0.2599 0.2698 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 : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.040 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) : 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 : 0.009 3663 REMARK 3 ANGLE : 1.109 5197 REMARK 3 CHIRALITY : 0.074 562 REMARK 3 PLANARITY : 0.009 514 REMARK 3 DIHEDRAL : 19.794 1366 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 8VN7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-FEB-24. REMARK 100 THE DEPOSITION ID IS D_1000280565. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-APR-23 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9787 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 147328 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.670 REMARK 200 RESOLUTION RANGE LOW (A) : 42.990 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 11.10 REMARK 200 R MERGE (I) : 0.07900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.1500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.67 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.77 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.93700 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM MALONATE, PEG 3350, 0.1 M REMARK 280 MES, PH 6, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 29.43667 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 58.87333 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 58.87333 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 29.43667 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 14080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18570 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -101.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, c, D, d, A, 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 743 LIES ON A SPECIAL POSITION. 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 DG c 416 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DA c 417 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DA d 517 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DA d 521 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 856 DISTANCE = 6.74 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG c 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA C 413 O3' REMARK 620 2 DA C 413 O3' 2.0 REMARK 620 3 DG c 414 OP2 63.4 65.4 REMARK 620 4 ASN B 319 OD1 87.7 87.7 94.0 REMARK 620 5 HOH B 504 O 170.5 171.8 110.1 85.8 REMARK 620 6 HOH B 528 O 95.4 93.3 158.6 87.3 91.3 REMARK 620 7 HOH B 606 O 99.8 99.9 87.3 172.2 86.5 94.3 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA c 502 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA C 413 O3' REMARK 620 2 DA C 413 O3' 2.0 REMARK 620 3 DG c 414 OP2 63.7 65.7 REMARK 620 4 ASN B 319 OD1 87.6 87.6 94.7 REMARK 620 5 HOH B 504 O 171.3 172.5 111.1 85.9 REMARK 620 6 HOH B 528 O 94.6 92.5 158.1 86.6 90.8 REMARK 620 7 HOH B 606 O 99.8 99.8 88.0 172.6 86.7 93.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 603 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA D 513 O3' REMARK 620 2 DA D 513 O3' 1.5 REMARK 620 3 DG d 514 OP1 60.3 61.7 REMARK 620 4 ASN A 119 OD1 88.3 87.5 93.6 REMARK 620 5 HOH A 710 O 167.5 168.0 109.8 84.6 REMARK 620 6 HOH A 722 O 98.5 97.2 158.7 88.0 91.6 REMARK 620 7 HOH A 813 O 94.0 94.8 87.2 177.7 93.1 92.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 604 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA D 513 O3' REMARK 620 2 DA D 513 O3' 1.5 REMARK 620 3 DG d 514 OP1 60.5 61.8 REMARK 620 4 ASN A 119 OD1 88.1 87.3 94.0 REMARK 620 5 HOH A 710 O 168.3 168.6 110.7 84.8 REMARK 620 6 HOH A 722 O 97.7 96.5 158.0 87.4 91.3 REMARK 620 7 HOH A 813 O 93.8 94.7 87.7 177.9 93.4 91.5 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 602 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 41 SG REMARK 620 2 CYS A 100 SG 113.1 REMARK 620 3 CYS A 105 SG 109.8 113.5 REMARK 620 4 HIS A 110 ND1 106.6 103.9 109.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 125 SG REMARK 620 2 CYS A 132 SG 107.5 REMARK 620 3 HIS A 134 ND1 112.1 106.2 REMARK 620 4 CYS A 138 SG 110.1 115.5 105.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 241 SG REMARK 620 2 CYS B 300 SG 113.0 REMARK 620 3 CYS B 305 SG 109.8 112.6 REMARK 620 4 HIS B 310 ND1 106.4 106.3 108.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 325 SG REMARK 620 2 CYS B 332 SG 107.7 REMARK 620 3 HIS B 334 ND1 111.0 107.8 REMARK 620 4 CYS B 338 SG 109.9 116.5 103.8 REMARK 620 N 1 2 3 DBREF 8VN7 C 401 413 PDB 8VN7 8VN7 401 413 DBREF 8VN7 c 414 421 PDB 8VN7 8VN7 414 421 DBREF 8VN7 D 501 513 PDB 8VN7 8VN7 501 513 DBREF 8VN7 d 514 521 PDB 8VN7 8VN7 514 521 DBREF 8VN7 A 2 163 UNP Q94702 PPO1_PHYPO 2 163 DBREF 8VN7 B 202 363 UNP Q94702 PPO1_PHYPO 2 163 SEQRES 1 C 13 DT DT DG DA DC DT DC DT DC DT DT DA DA SEQRES 1 c 8 DG DA DG DA DG DT DC DA SEQRES 1 D 13 DT DT DG DA DC DT DC DT DC DT DT DA DA SEQRES 1 d 8 DG DA DG DA DG DT DC DA SEQRES 1 A 162 ALA LEU THR ASN ALA GLN ILE LEU ALA VAL ILE ASP SER SEQRES 2 A 162 TRP GLU GLU THR VAL GLY GLN PHE PRO VAL ILE THR HIS SEQRES 3 A 162 HIS VAL PRO LEU GLY GLY GLY LEU GLN GLY THR LEU HIS SEQRES 4 A 162 CYS TYR GLU ILE PRO LEU ALA ALA PRO TYR GLY VAL GLY SEQRES 5 A 162 PHE ALA LYS ASN GLY PRO THR ARG TRP GLN TYR LYS ARG SEQRES 6 A 162 THR ILE ASN GLN VAL VAL HIS ARG TRP GLY SER HIS THR SEQRES 7 A 162 VAL PRO PHE LEU LEU GLU PRO ASP ASN ILE ASN GLY LYS SEQRES 8 A 162 THR CYS THR ALA SER HIS LEU CYS HIS ASN THR ARG CYS SEQRES 9 A 162 HIS ASN PRO LEU HIS LEU CYS TRP GLU SER LEU ASP ASP SEQRES 10 A 162 ASN LYS GLY ARG ASN TRP CYS PRO GLY PRO ASN GLY GLY SEQRES 11 A 162 CYS VAL HIS ALA VAL VAL CYS LEU ARG GLN GLY PRO LEU SEQRES 12 A 162 TYR GLY PRO GLY ALA THR VAL ALA GLY PRO GLN GLN ARG SEQRES 13 A 162 GLY SER HIS PHE VAL VAL SEQRES 1 B 162 ALA LEU THR ASN ALA GLN ILE LEU ALA VAL ILE ASP SER SEQRES 2 B 162 TRP GLU GLU THR VAL GLY GLN PHE PRO VAL ILE THR HIS SEQRES 3 B 162 HIS VAL PRO LEU GLY GLY GLY LEU GLN GLY THR LEU HIS SEQRES 4 B 162 CYS TYR GLU ILE PRO LEU ALA ALA PRO TYR GLY VAL GLY SEQRES 5 B 162 PHE ALA LYS ASN GLY PRO THR ARG TRP GLN TYR LYS ARG SEQRES 6 B 162 THR ILE ASN GLN VAL VAL HIS ARG TRP GLY SER HIS THR SEQRES 7 B 162 VAL PRO PHE LEU LEU GLU PRO ASP ASN ILE ASN GLY LYS SEQRES 8 B 162 THR CYS THR ALA SER HIS LEU CYS HIS ASN THR ARG CYS SEQRES 9 B 162 HIS ASN PRO LEU HIS LEU CYS TRP GLU SER LEU ASP ASP SEQRES 10 B 162 ASN LYS GLY ARG ASN TRP CYS PRO GLY PRO ASN GLY GLY SEQRES 11 B 162 CYS VAL HIS ALA VAL VAL CYS LEU ARG GLN GLY PRO LEU SEQRES 12 B 162 TYR GLY PRO GLY ALA THR VAL ALA GLY PRO GLN GLN ARG SEQRES 13 B 162 GLY SER HIS PHE VAL VAL HET GOL C 501 6 HET MG c 501 1 HET NA c 502 1 HET GOL D 601 6 HET ZN A 601 1 HET ZN A 602 1 HET MG A 603 1 HET NA A 604 1 HET GOL A 605 6 HET GOL A 606 6 HET ZN B 401 1 HET ZN B 402 1 HET GOL B 403 6 HETNAM GOL GLYCEROL HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETNAM ZN ZINC ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 7 GOL 5(C3 H8 O3) FORMUL 8 MG 2(MG 2+) FORMUL 9 NA 2(NA 1+) FORMUL 11 ZN 4(ZN 2+) FORMUL 20 HOH *405(H2 O) HELIX 1 AA1 THR A 4 GLY A 20 1 17 HELIX 2 AA2 THR A 79 LEU A 83 5 5 HELIX 3 AA3 ASN A 107 LEU A 109 5 3 HELIX 4 AA4 LEU A 116 ARG A 122 1 7 HELIX 5 AA5 ASN A 123 CYS A 125 5 3 HELIX 6 AA6 THR B 204 GLY B 220 1 17 HELIX 7 AA7 THR B 279 LEU B 283 5 5 HELIX 8 AA8 ASN B 307 LEU B 309 5 3 HELIX 9 AA9 LEU B 316 ARG B 322 1 7 HELIX 10 AB1 ASN B 323 CYS B 325 5 3 SHEET 1 AA1 2 VAL A 24 GLY A 32 0 SHEET 2 AA1 2 LEU A 35 TYR A 42 -1 O GLY A 37 N VAL A 29 SHEET 1 AA2 3 PHE A 54 GLY A 58 0 SHEET 2 AA2 3 ARG A 61 ILE A 68 -1 O GLN A 63 N ALA A 55 SHEET 3 AA2 3 VAL A 71 GLY A 76 -1 O HIS A 73 N ARG A 66 SHEET 1 AA3 3 ASN A 88 ILE A 89 0 SHEET 2 AA3 3 LYS A 92 HIS A 98 -1 O LYS A 92 N ILE A 89 SHEET 3 AA3 3 LEU A 111 SER A 115 -1 O GLU A 114 N THR A 95 SHEET 1 AA4 2 VAL B 224 GLY B 232 0 SHEET 2 AA4 2 LEU B 235 TYR B 242 -1 O CYS B 241 N ILE B 225 SHEET 1 AA5 3 PHE B 254 GLY B 258 0 SHEET 2 AA5 3 ARG B 261 ILE B 268 -1 O GLN B 263 N ALA B 255 SHEET 3 AA5 3 VAL B 271 GLY B 276 -1 O HIS B 273 N ARG B 266 SHEET 1 AA6 3 ASN B 288 ILE B 289 0 SHEET 2 AA6 3 LYS B 292 HIS B 298 -1 O LYS B 292 N ILE B 289 SHEET 3 AA6 3 LEU B 311 SER B 315 -1 O GLU B 314 N THR B 295 LINK O3'A DA C 413 MG MG c 501 1555 1555 2.38 LINK O3'B DA C 413 MG MG c 501 1555 1555 2.45 LINK O3'A DA C 413 NA NA c 502 1555 1555 2.38 LINK O3'B DA C 413 NA NA c 502 1555 1555 2.45 LINK OP2A DG c 414 MG MG c 501 1555 1555 2.45 LINK OP2A DG c 414 NA NA c 502 1555 1555 2.42 LINK MG MG c 501 OD1 ASN B 319 1555 1555 2.22 LINK MG MG c 501 O HOH B 504 1555 1555 2.33 LINK MG MG c 501 O HOH B 528 1555 1555 2.31 LINK MG MG c 501 O HOH B 606 1555 1555 2.20 LINK NA NA c 502 OD1 ASN B 319 1555 1555 2.22 LINK NA NA c 502 O HOH B 504 1555 1555 2.32 LINK NA NA c 502 O HOH B 528 1555 1555 2.33 LINK NA NA c 502 O HOH B 606 1555 1555 2.20 LINK O3'A DA D 513 MG MG A 603 1555 1555 2.40 LINK O3'B DA D 513 MG MG A 603 1555 1555 2.42 LINK O3'A DA D 513 NA NA A 604 1555 1555 2.41 LINK O3'B DA D 513 NA NA A 604 1555 1555 2.43 LINK OP1A DG d 514 MG MG A 603 1555 1555 2.51 LINK OP1A DG d 514 NA NA A 604 1555 1555 2.50 LINK SG CYS A 41 ZN ZN A 602 1555 1555 2.33 LINK SG CYS A 100 ZN ZN A 602 1555 1555 2.32 LINK SG CYS A 105 ZN ZN A 602 1555 1555 2.31 LINK ND1 HIS A 110 ZN ZN A 602 1555 1555 2.08 LINK OD1 ASN A 119 MG MG A 603 1555 1555 2.23 LINK OD1 ASN A 119 NA NA A 604 1555 1555 2.23 LINK SG CYS A 125 ZN ZN A 601 1555 1555 2.31 LINK SG CYS A 132 ZN ZN A 601 1555 1555 2.31 LINK ND1 HIS A 134 ZN ZN A 601 1555 1555 2.10 LINK SG CYS A 138 ZN ZN A 601 1555 1555 2.33 LINK MG MG A 603 O HOH A 710 1555 1555 2.32 LINK MG MG A 603 O HOH A 722 1555 1555 2.27 LINK MG MG A 603 O HOH A 813 1555 1555 2.31 LINK NA NA A 604 O HOH A 710 1555 1555 2.31 LINK NA NA A 604 O HOH A 722 1555 1555 2.29 LINK NA NA A 604 O HOH A 813 1555 1555 2.31 LINK SG CYS B 241 ZN ZN B 402 1555 1555 2.32 LINK SG CYS B 300 ZN ZN B 402 1555 1555 2.33 LINK SG CYS B 305 ZN ZN B 402 1555 1555 2.33 LINK ND1 HIS B 310 ZN ZN B 402 1555 1555 2.09 LINK SG CYS B 325 ZN ZN B 401 1555 1555 2.31 LINK SG CYS B 332 ZN ZN B 401 1555 1555 2.31 LINK ND1 HIS B 334 ZN ZN B 401 1555 1555 2.12 LINK SG CYS B 338 ZN ZN B 401 1555 1555 2.34 CISPEP 1 ALA A 48 PRO A 49 0 0.39 CISPEP 2 ALA B 248 PRO B 249 0 0.08 CRYST1 113.650 113.650 88.310 90.00 90.00 120.00 P 31 2 1 12 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 0.008799 0.005080 0.000000 0.00000 SCALE2 0.000000 0.010160 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011324 0.00000