HEADER HYDROLASE 22-JUN-15 5C5U TITLE THE CRYSTAL STRUCTURE OF VIRAL COLLAGEN PROLYL HYDROXYLASE VCPH FROM TITLE 2 PARAMECIUM BURSARIA CHLORELLA VIRUS-1 - TRUNCATED CONSTRUCT COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROLYL 4-HYDROXYLASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 36-242; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PARAMECIUM BURSARIA CHLORELLA VIRUS 1; SOURCE 3 ORGANISM_COMMON: PBCV-1; SOURCE 4 ORGANISM_TAXID: 10506; SOURCE 5 GENE: A085R; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET-28A KEYWDS DIOXYGENASE, PROLYL HYDROXYLASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.E.LONGBOTHAM,C.W.LEVY,L.O.JOHANNISEN,H.TARHONSKAYA,S.JIANG, AUTHOR 2 C.LOENARZ,E.FLASHMAN,S.HAY,C.J.SCHOFILED,N.S.SCRUTTON REVDAT 4 23-OCT-24 5C5U 1 REMARK REVDAT 3 10-JAN-24 5C5U 1 LINK REVDAT 2 14-OCT-15 5C5U 1 JRNL REVDAT 1 30-SEP-15 5C5U 0 JRNL AUTH J.E.LONGBOTHAM,C.LEVY,L.O.JOHANNISSEN,H.TARHONSKAYA,S.JIANG, JRNL AUTH 2 C.LOENARZ,E.FLASHMAN,S.HAY,C.J.SCHOFIELD,N.S.SCRUTTON JRNL TITL STRUCTURE AND MECHANISM OF A VIRAL COLLAGEN PROLYL JRNL TITL 2 HYDROXYLASE. JRNL REF BIOCHEMISTRY V. 54 6093 2015 JRNL REFN ISSN 0006-2960 JRNL PMID 26368022 JRNL DOI 10.1021/ACS.BIOCHEM.5B00789 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX DEV_1977 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 : TWIN_LSQ_F REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.40 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.020 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 3 NUMBER OF REFLECTIONS : 44328 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.163 REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.202 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 2085 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 25.7266 - 4.0967 0.94 3164 149 0.1403 0.1788 REMARK 3 2 4.0967 - 3.2537 0.94 3183 153 0.1463 0.1909 REMARK 3 3 3.2537 - 2.8430 0.93 3085 143 0.1524 0.2023 REMARK 3 4 2.8430 - 2.5833 0.94 3154 140 0.1568 0.1810 REMARK 3 5 2.5833 - 2.3983 0.93 3068 150 0.1537 0.2126 REMARK 3 6 2.3983 - 2.2570 0.91 3045 138 0.1558 0.2297 REMARK 3 7 2.2570 - 2.1440 0.85 2864 136 0.1661 0.2452 REMARK 3 8 2.1440 - 2.0507 0.90 3004 137 0.1606 0.2221 REMARK 3 9 2.0507 - 1.9718 0.92 3034 145 0.1762 0.2013 REMARK 3 10 1.9718 - 1.9038 0.94 3177 157 0.1751 0.2365 REMARK 3 11 1.9038 - 1.8443 0.94 3111 147 0.1881 0.2318 REMARK 3 12 1.8443 - 1.7916 0.93 3089 145 0.1954 0.2338 REMARK 3 13 1.7916 - 1.7444 0.86 2929 139 0.2171 0.2372 REMARK 3 14 1.7444 - 1.7019 0.73 2392 124 0.2267 0.2682 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) : NULL REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.940 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 : 0.005 3126 REMARK 3 ANGLE : 0.872 4208 REMARK 3 CHIRALITY : 0.044 435 REMARK 3 PLANARITY : 0.004 538 REMARK 3 DIHEDRAL : 12.698 1191 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 34 THROUGH 46 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.0545 9.0826 16.9886 REMARK 3 T TENSOR REMARK 3 T11: 0.1777 T22: 0.1981 REMARK 3 T33: 0.2512 T12: 0.0409 REMARK 3 T13: -0.0052 T23: 0.0363 REMARK 3 L TENSOR REMARK 3 L11: 3.8537 L22: 2.9061 REMARK 3 L33: 2.5125 L12: 1.3056 REMARK 3 L13: 0.9293 L23: 1.8965 REMARK 3 S TENSOR REMARK 3 S11: 0.0508 S12: -0.4065 S13: -0.7748 REMARK 3 S21: 0.5806 S22: 0.0300 S23: -0.4775 REMARK 3 S31: 0.5034 S32: 0.4201 S33: -0.2878 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 47 THROUGH 241 ) REMARK 3 ORIGIN FOR THE GROUP (A): 40.0857 21.1536 17.1022 REMARK 3 T TENSOR REMARK 3 T11: 0.0317 T22: 0.0638 REMARK 3 T33: 0.0601 T12: 0.0158 REMARK 3 T13: -0.0063 T23: -0.0059 REMARK 3 L TENSOR REMARK 3 L11: 0.8385 L22: 0.9004 REMARK 3 L33: 0.7340 L12: 0.1412 REMARK 3 L13: -0.0240 L23: -0.2024 REMARK 3 S TENSOR REMARK 3 S11: 0.0139 S12: -0.0023 S13: 0.0022 REMARK 3 S21: -0.0006 S22: -0.0090 S23: -0.0166 REMARK 3 S31: 0.0092 S32: -0.0155 S33: -0.0048 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 33 THROUGH 46 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.2598 68.9882 -1.6982 REMARK 3 T TENSOR REMARK 3 T11: 0.1333 T22: 0.1000 REMARK 3 T33: 0.1910 T12: -0.0086 REMARK 3 T13: -0.0345 T23: 0.0132 REMARK 3 L TENSOR REMARK 3 L11: 1.8181 L22: 0.9540 REMARK 3 L33: 0.6081 L12: -0.7437 REMARK 3 L13: -0.3686 L23: 0.7395 REMARK 3 S TENSOR REMARK 3 S11: 0.0514 S12: -0.0709 S13: 0.4933 REMARK 3 S21: 0.0018 S22: -0.0501 S23: -0.0811 REMARK 3 S31: -0.2969 S32: 0.0472 S33: -0.1074 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 47 THROUGH 138 ) REMARK 3 ORIGIN FOR THE GROUP (A): 27.4791 53.7931 -6.9785 REMARK 3 T TENSOR REMARK 3 T11: 0.0441 T22: 0.0892 REMARK 3 T33: 0.0580 T12: -0.0091 REMARK 3 T13: -0.0084 T23: 0.0044 REMARK 3 L TENSOR REMARK 3 L11: 1.5702 L22: 1.3504 REMARK 3 L33: 0.7331 L12: -0.4533 REMARK 3 L13: 0.2457 L23: -0.3635 REMARK 3 S TENSOR REMARK 3 S11: 0.0408 S12: 0.0730 S13: -0.0357 REMARK 3 S21: -0.0602 S22: -0.0447 S23: -0.0251 REMARK 3 S31: 0.0036 S32: 0.0114 S33: 0.0102 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 139 THROUGH 242 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.3210 59.4964 1.8174 REMARK 3 T TENSOR REMARK 3 T11: 0.0261 T22: 0.0725 REMARK 3 T33: 0.0798 T12: -0.0036 REMARK 3 T13: -0.0127 T23: 0.0072 REMARK 3 L TENSOR REMARK 3 L11: 1.0144 L22: 0.7060 REMARK 3 L33: 0.9206 L12: 0.1397 REMARK 3 L13: -0.0584 L23: -0.1649 REMARK 3 S TENSOR REMARK 3 S11: 0.0363 S12: -0.0169 S13: 0.0504 REMARK 3 S21: 0.0633 S22: -0.0217 S23: 0.0164 REMARK 3 S31: -0.0734 S32: -0.0053 S33: -0.0146 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 5C5U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-JUN-15. REMARK 100 THE DEPOSITION ID IS D_1000211073. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-APR-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44328 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 28.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 2JIG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: VCPH WAS CONCENTRATED TO 30 MG/ML IN REMARK 280 100 MM HEPES, PH 7.5, BEFORE BEING SUPPLEMENTED WITH 1.1 MM REMARK 280 MNCL2. CRYSTALS OF VCPH WERE GROWN BY SITTING DROP VAPOUR REMARK 280 DIFFUSION, INCUBATED AT 4 C AND AROSE FROM A RESERVOIR SOLUTION REMARK 280 CONTAINING 0.1 M [IMIDAZOLE; MES MONOHYDRATE (ACID)], 0.1 M REMARK 280 AMINO ACIDS [0.2 M L-NA-GLUTAMATE; 0.2 M ALANINE (RACEMIC); 0.2 REMARK 280 M GLYCINE; 0.2M LYSINE HCL (RACEMIC); 0.2 M SERINE (RACEMIC)], REMARK 280 30 % PEGMME 550 PEG 20K PH 6.5 [MORPHEUS HT96 CONDITION H1, REMARK 280 MOLECULAR DIMENSIONS]., VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K 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 78.83500 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 MET A 15 REMARK 465 GLY A 16 REMARK 465 SER A 17 REMARK 465 SER A 18 REMARK 465 HIS A 19 REMARK 465 HIS A 20 REMARK 465 HIS A 21 REMARK 465 HIS A 22 REMARK 465 HIS A 23 REMARK 465 HIS A 24 REMARK 465 SER A 25 REMARK 465 SER A 26 REMARK 465 GLY A 27 REMARK 465 LEU A 28 REMARK 465 VAL A 29 REMARK 465 PRO A 30 REMARK 465 ARG A 31 REMARK 465 GLY A 32 REMARK 465 SER A 33 REMARK 465 SER A 79 REMARK 465 GLU A 80 REMARK 465 VAL A 81 REMARK 465 GLY A 82 REMARK 465 GLY A 83 REMARK 465 ALA A 84 REMARK 465 THR A 85 REMARK 465 GLU A 86 REMARK 465 ASN A 87 REMARK 465 ASP A 88 REMARK 465 PRO A 89 REMARK 465 ILE A 90 REMARK 465 LYS A 91 REMARK 465 LEU A 92 REMARK 465 ASP A 93 REMARK 465 PRO A 94 REMARK 465 LYS A 95 REMARK 465 SER A 96 REMARK 465 ARG A 97 REMARK 465 ASN A 98 REMARK 465 SER A 99 REMARK 465 LYS A 242 REMARK 465 MET B 15 REMARK 465 GLY B 16 REMARK 465 SER B 17 REMARK 465 SER B 18 REMARK 465 HIS B 19 REMARK 465 HIS B 20 REMARK 465 HIS B 21 REMARK 465 HIS B 22 REMARK 465 HIS B 23 REMARK 465 HIS B 24 REMARK 465 SER B 25 REMARK 465 SER B 26 REMARK 465 GLY B 27 REMARK 465 LEU B 28 REMARK 465 VAL B 29 REMARK 465 PRO B 30 REMARK 465 ARG B 31 REMARK 465 GLY B 32 REMARK 465 SER B 79 REMARK 465 GLU B 80 REMARK 465 VAL B 81 REMARK 465 GLY B 82 REMARK 465 GLY B 83 REMARK 465 ALA B 84 REMARK 465 THR B 85 REMARK 465 GLU B 86 REMARK 465 ASN B 87 REMARK 465 ASP B 88 REMARK 465 PRO B 89 REMARK 465 ILE B 90 REMARK 465 LYS B 91 REMARK 465 LEU B 92 REMARK 465 ASP B 93 REMARK 465 PRO B 94 REMARK 465 LYS B 95 REMARK 465 SER B 96 REMARK 465 ARG B 97 REMARK 465 ASN B 98 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 UNK UNX A 305 UNK UNX A 307 0.84 REMARK 500 UNK UNX A 304 UNK UNX A 305 1.57 REMARK 500 UNK UNX B 304 UNK UNX B 306 1.75 REMARK 500 UNK UNX A 302 UNK UNX A 303 1.77 REMARK 500 UNK UNX B 302 O HOH B 585 1.85 REMARK 500 UNK UNX A 302 UNK UNX A 304 1.89 REMARK 500 UNK UNX A 306 UNK UNX A 307 1.92 REMARK 500 UNK UNX B 303 UNK UNX B 304 1.94 REMARK 500 UNK UNX A 304 UNK UNX A 307 1.94 REMARK 500 O HOH B 413 O HOH B 586 1.95 REMARK 500 O HOH A 620 O HOH A 622 1.95 REMARK 500 O HOH B 632 O HOH B 646 1.97 REMARK 500 O HOH A 590 O HOH A 646 1.98 REMARK 500 OE1 GLU A 36 O HOH A 401 1.99 REMARK 500 UNK UNX B 302 UNK UNX B 303 1.99 REMARK 500 O HOH A 568 O HOH A 628 2.00 REMARK 500 UNK UNX A 303 UNK UNX A 304 2.01 REMARK 500 O HOH B 541 O HOH B 571 2.02 REMARK 500 O HOH A 419 O HOH A 547 2.04 REMARK 500 O HOH B 632 O HOH B 645 2.04 REMARK 500 O HOH A 404 O HOH A 500 2.04 REMARK 500 O HOH B 577 O HOH B 595 2.05 REMARK 500 O HOH A 437 O HOH A 595 2.05 REMARK 500 O HOH A 563 O HOH A 610 2.06 REMARK 500 O HOH A 517 O HOH A 639 2.06 REMARK 500 O HOH B 477 O HOH B 524 2.07 REMARK 500 O HOH B 454 O HOH B 609 2.07 REMARK 500 O HOH A 537 O HOH A 545 2.08 REMARK 500 O HOH A 591 O HOH A 601 2.08 REMARK 500 O HOH A 406 O HOH A 617 2.09 REMARK 500 OE2 GLU B 121 O HOH B 401 2.14 REMARK 500 O HOH A 626 O HOH A 635 2.15 REMARK 500 UNK UNX A 307 O HOH A 578 2.15 REMARK 500 O HOH B 487 O HOH B 515 2.17 REMARK 500 OE1 GLU A 100 O HOH A 402 2.18 REMARK 500 UNK UNX B 304 UNK UNX B 305 2.19 REMARK 500 O HOH B 460 O HOH B 545 2.19 REMARK 500 OD2 ASP A 157 O HOH A 403 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 O HOH B 499 O HOH B 558 1556 1.87 REMARK 500 O HOH A 516 O HOH A 621 1554 1.96 REMARK 500 O HOH B 401 O HOH B 469 1554 2.00 REMARK 500 O HOH B 420 O HOH B 576 1655 2.01 REMARK 500 O HOH A 574 O HOH A 647 1455 2.13 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 131 -91.84 -121.47 REMARK 500 ASP A 159 -73.14 -128.47 REMARK 500 PHE A 188 77.68 -117.79 REMARK 500 ASP B 48 16.56 59.37 REMARK 500 ASP B 131 -82.25 -99.37 REMARK 500 ASP B 159 -69.31 -132.72 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 665 DISTANCE = 6.01 ANGSTROMS REMARK 525 HOH A 666 DISTANCE = 6.31 ANGSTROMS REMARK 525 HOH A 667 DISTANCE = 6.48 ANGSTROMS REMARK 525 HOH A 668 DISTANCE = 6.50 ANGSTROMS REMARK 525 HOH A 669 DISTANCE = 6.64 ANGSTROMS REMARK 525 HOH A 670 DISTANCE = 6.72 ANGSTROMS REMARK 525 HOH A 671 DISTANCE = 7.01 ANGSTROMS REMARK 525 HOH A 672 DISTANCE = 9.38 ANGSTROMS REMARK 525 HOH A 673 DISTANCE = 9.69 ANGSTROMS REMARK 525 HOH B 648 DISTANCE = 6.08 ANGSTROMS REMARK 525 HOH B 649 DISTANCE = 6.81 ANGSTROMS REMARK 525 HOH B 650 DISTANCE = 7.09 ANGSTROMS REMARK 525 HOH B 651 DISTANCE = 7.20 ANGSTROMS REMARK 525 HOH B 652 DISTANCE = 7.56 ANGSTROMS REMARK 525 HOH B 653 DISTANCE = 7.78 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 MN A 301 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 152 NE2 REMARK 620 2 ASP A 154 OD2 97.9 REMARK 620 3 HIS A 221 NE2 91.7 86.5 REMARK 620 4 HOH A 447 O 174.6 87.5 88.7 REMARK 620 5 HOH A 576 O 91.3 96.0 175.8 88.1 REMARK 620 6 HOH A 578 O 87.9 174.0 91.9 86.7 85.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 307 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 152 NE2 REMARK 620 2 ASP B 154 OD1 97.7 REMARK 620 3 HIS B 221 NE2 90.2 90.1 REMARK 620 4 HOH B 476 O 169.7 90.0 96.6 REMARK 620 5 HOH B 535 O 83.6 89.0 173.6 89.8 REMARK 620 6 HOH B 585 O 87.4 173.2 94.5 84.4 86.9 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN B 307 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5C5T RELATED DB: PDB REMARK 900 5C5T CONTAINS THE SAME PROTEIN COMPLEXED WITH 2-OG DBREF 5C5U A 36 242 UNP Q84406 Q84406_PBCV1 36 242 DBREF 5C5U B 36 242 UNP Q84406 Q84406_PBCV1 36 242 SEQADV 5C5U MET A 15 UNP Q84406 INITIATING METHIONINE SEQADV 5C5U GLY A 16 UNP Q84406 EXPRESSION TAG SEQADV 5C5U SER A 17 UNP Q84406 EXPRESSION TAG SEQADV 5C5U SER A 18 UNP Q84406 EXPRESSION TAG SEQADV 5C5U HIS A 19 UNP Q84406 EXPRESSION TAG SEQADV 5C5U HIS A 20 UNP Q84406 EXPRESSION TAG SEQADV 5C5U HIS A 21 UNP Q84406 EXPRESSION TAG SEQADV 5C5U HIS A 22 UNP Q84406 EXPRESSION TAG SEQADV 5C5U HIS A 23 UNP Q84406 EXPRESSION TAG SEQADV 5C5U HIS A 24 UNP Q84406 EXPRESSION TAG SEQADV 5C5U SER A 25 UNP Q84406 EXPRESSION TAG SEQADV 5C5U SER A 26 UNP Q84406 EXPRESSION TAG SEQADV 5C5U GLY A 27 UNP Q84406 EXPRESSION TAG SEQADV 5C5U LEU A 28 UNP Q84406 EXPRESSION TAG SEQADV 5C5U VAL A 29 UNP Q84406 EXPRESSION TAG SEQADV 5C5U PRO A 30 UNP Q84406 EXPRESSION TAG SEQADV 5C5U ARG A 31 UNP Q84406 EXPRESSION TAG SEQADV 5C5U GLY A 32 UNP Q84406 EXPRESSION TAG SEQADV 5C5U SER A 33 UNP Q84406 EXPRESSION TAG SEQADV 5C5U HIS A 34 UNP Q84406 EXPRESSION TAG SEQADV 5C5U MET A 35 UNP Q84406 EXPRESSION TAG SEQADV 5C5U MET B 15 UNP Q84406 INITIATING METHIONINE SEQADV 5C5U GLY B 16 UNP Q84406 EXPRESSION TAG SEQADV 5C5U SER B 17 UNP Q84406 EXPRESSION TAG SEQADV 5C5U SER B 18 UNP Q84406 EXPRESSION TAG SEQADV 5C5U HIS B 19 UNP Q84406 EXPRESSION TAG SEQADV 5C5U HIS B 20 UNP Q84406 EXPRESSION TAG SEQADV 5C5U HIS B 21 UNP Q84406 EXPRESSION TAG SEQADV 5C5U HIS B 22 UNP Q84406 EXPRESSION TAG SEQADV 5C5U HIS B 23 UNP Q84406 EXPRESSION TAG SEQADV 5C5U HIS B 24 UNP Q84406 EXPRESSION TAG SEQADV 5C5U SER B 25 UNP Q84406 EXPRESSION TAG SEQADV 5C5U SER B 26 UNP Q84406 EXPRESSION TAG SEQADV 5C5U GLY B 27 UNP Q84406 EXPRESSION TAG SEQADV 5C5U LEU B 28 UNP Q84406 EXPRESSION TAG SEQADV 5C5U VAL B 29 UNP Q84406 EXPRESSION TAG SEQADV 5C5U PRO B 30 UNP Q84406 EXPRESSION TAG SEQADV 5C5U ARG B 31 UNP Q84406 EXPRESSION TAG SEQADV 5C5U GLY B 32 UNP Q84406 EXPRESSION TAG SEQADV 5C5U SER B 33 UNP Q84406 EXPRESSION TAG SEQADV 5C5U HIS B 34 UNP Q84406 EXPRESSION TAG SEQADV 5C5U MET B 35 UNP Q84406 EXPRESSION TAG SEQRES 1 A 228 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 228 LEU VAL PRO ARG GLY SER HIS MET GLU GLY PHE GLU THR SEQRES 3 A 228 SER ASP ARG PRO GLY VAL CYS ASP GLY LYS TYR TYR GLU SEQRES 4 A 228 LYS ILE ASP GLY PHE LEU SER ASP ILE GLU CYS ASP VAL SEQRES 5 A 228 LEU ILE ASN ALA ALA ILE LYS LYS GLY LEU ILE LYS SER SEQRES 6 A 228 GLU VAL GLY GLY ALA THR GLU ASN ASP PRO ILE LYS LEU SEQRES 7 A 228 ASP PRO LYS SER ARG ASN SER GLU GLN THR TRP PHE MET SEQRES 8 A 228 PRO GLY GLU HIS GLU VAL ILE ASP LYS ILE GLN LYS LYS SEQRES 9 A 228 THR ARG GLU PHE LEU ASN SER LYS LYS HIS CYS ILE ASP SEQRES 10 A 228 LYS TYR ASN PHE GLU ASP VAL GLN VAL ALA ARG TYR LYS SEQRES 11 A 228 PRO GLY GLN TYR TYR TYR HIS HIS TYR ASP GLY ASP ASP SEQRES 12 A 228 CYS ASP ASP ALA CYS PRO LYS ASP GLN ARG LEU ALA THR SEQRES 13 A 228 LEU MET VAL TYR LEU LYS ALA PRO GLU GLU GLY GLY GLY SEQRES 14 A 228 GLY GLU THR ASP PHE PRO THR LEU LYS THR LYS ILE LYS SEQRES 15 A 228 PRO LYS LYS GLY THR SER ILE PHE PHE TRP VAL ALA ASP SEQRES 16 A 228 PRO VAL THR ARG LYS LEU TYR LYS GLU THR LEU HIS ALA SEQRES 17 A 228 GLY LEU PRO VAL LYS SER GLY GLU LYS ILE ILE ALA ASN SEQRES 18 A 228 GLN TRP ILE ARG ALA VAL LYS SEQRES 1 B 228 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 228 LEU VAL PRO ARG GLY SER HIS MET GLU GLY PHE GLU THR SEQRES 3 B 228 SER ASP ARG PRO GLY VAL CYS ASP GLY LYS TYR TYR GLU SEQRES 4 B 228 LYS ILE ASP GLY PHE LEU SER ASP ILE GLU CYS ASP VAL SEQRES 5 B 228 LEU ILE ASN ALA ALA ILE LYS LYS GLY LEU ILE LYS SER SEQRES 6 B 228 GLU VAL GLY GLY ALA THR GLU ASN ASP PRO ILE LYS LEU SEQRES 7 B 228 ASP PRO LYS SER ARG ASN SER GLU GLN THR TRP PHE MET SEQRES 8 B 228 PRO GLY GLU HIS GLU VAL ILE ASP LYS ILE GLN LYS LYS SEQRES 9 B 228 THR ARG GLU PHE LEU ASN SER LYS LYS HIS CYS ILE ASP SEQRES 10 B 228 LYS TYR ASN PHE GLU ASP VAL GLN VAL ALA ARG TYR LYS SEQRES 11 B 228 PRO GLY GLN TYR TYR TYR HIS HIS TYR ASP GLY ASP ASP SEQRES 12 B 228 CYS ASP ASP ALA CYS PRO LYS ASP GLN ARG LEU ALA THR SEQRES 13 B 228 LEU MET VAL TYR LEU LYS ALA PRO GLU GLU GLY GLY GLY SEQRES 14 B 228 GLY GLU THR ASP PHE PRO THR LEU LYS THR LYS ILE LYS SEQRES 15 B 228 PRO LYS LYS GLY THR SER ILE PHE PHE TRP VAL ALA ASP SEQRES 16 B 228 PRO VAL THR ARG LYS LEU TYR LYS GLU THR LEU HIS ALA SEQRES 17 B 228 GLY LEU PRO VAL LYS SER GLY GLU LYS ILE ILE ALA ASN SEQRES 18 B 228 GLN TRP ILE ARG ALA VAL LYS HET MN A 301 1 HET UNX A 302 1 HET UNX A 303 1 HET UNX A 304 1 HET UNX A 305 1 HET UNX A 306 1 HET UNX A 307 1 HET ACT B 301 4 HET UNX B 302 1 HET UNX B 303 1 HET UNX B 304 1 HET UNX B 305 1 HET UNX B 306 1 HET MN B 307 1 HETNAM MN MANGANESE (II) ION HETNAM UNX UNKNOWN ATOM OR ION HETNAM ACT ACETATE ION FORMUL 3 MN 2(MN 2+) FORMUL 4 UNX 11(X) FORMUL 10 ACT C2 H3 O2 1- FORMUL 17 HOH *526(H2 O) HELIX 1 AA1 VAL A 46 LYS A 50 5 5 HELIX 2 AA2 SER A 60 LYS A 74 1 15 HELIX 3 AA3 HIS A 109 SER A 125 1 17 HELIX 4 AA4 TYR A 216 LEU A 220 5 5 HELIX 5 AA5 VAL B 46 LYS B 50 5 5 HELIX 6 AA6 SER B 60 LYS B 74 1 15 HELIX 7 AA7 HIS B 109 SER B 125 1 17 HELIX 8 AA8 TYR B 216 LEU B 220 5 5 SHEET 1 AA1 6 TYR A 52 ILE A 55 0 SHEET 2 AA1 6 SER A 202 TRP A 206 -1 O PHE A 204 N GLU A 53 SHEET 3 AA1 6 ARG A 167 LYS A 176 -1 N MET A 172 O ILE A 203 SHEET 4 AA1 6 LYS A 231 ARG A 239 -1 O ILE A 238 N LEU A 168 SHEET 5 AA1 6 GLN A 139 TYR A 143 -1 N TYR A 143 O LYS A 231 SHEET 6 AA1 6 GLN A 101 TRP A 103 -1 N THR A 102 O VAL A 140 SHEET 1 AA2 5 TYR A 52 ILE A 55 0 SHEET 2 AA2 5 SER A 202 TRP A 206 -1 O PHE A 204 N GLU A 53 SHEET 3 AA2 5 ARG A 167 LYS A 176 -1 N MET A 172 O ILE A 203 SHEET 4 AA2 5 LYS A 231 ARG A 239 -1 O ILE A 238 N LEU A 168 SHEET 5 AA2 5 ASN A 134 PHE A 135 -1 N ASN A 134 O ARG A 239 SHEET 1 AA3 3 THR A 193 ILE A 195 0 SHEET 2 AA3 3 THR A 186 PHE A 188 -1 N PHE A 188 O THR A 193 SHEET 3 AA3 3 ALA A 222 GLY A 223 -1 O ALA A 222 N ASP A 187 SHEET 1 AA4 6 TYR B 52 ILE B 55 0 SHEET 2 AA4 6 SER B 202 TRP B 206 -1 O SER B 202 N ILE B 55 SHEET 3 AA4 6 ARG B 167 LYS B 176 -1 N MET B 172 O ILE B 203 SHEET 4 AA4 6 LYS B 231 ARG B 239 -1 O GLN B 236 N LEU B 171 SHEET 5 AA4 6 GLN B 139 TYR B 143 -1 N GLN B 139 O ASN B 235 SHEET 6 AA4 6 GLN B 101 TRP B 103 -1 N THR B 102 O VAL B 140 SHEET 1 AA5 5 TYR B 52 ILE B 55 0 SHEET 2 AA5 5 SER B 202 TRP B 206 -1 O SER B 202 N ILE B 55 SHEET 3 AA5 5 ARG B 167 LYS B 176 -1 N MET B 172 O ILE B 203 SHEET 4 AA5 5 LYS B 231 ARG B 239 -1 O GLN B 236 N LEU B 171 SHEET 5 AA5 5 ASN B 134 PHE B 135 -1 N ASN B 134 O ARG B 239 SHEET 1 AA6 3 THR B 193 ILE B 195 0 SHEET 2 AA6 3 THR B 186 PHE B 188 -1 N PHE B 188 O THR B 193 SHEET 3 AA6 3 ALA B 222 GLY B 223 -1 O ALA B 222 N ASP B 187 SSBOND 1 CYS A 47 CYS A 129 1555 1555 2.02 SSBOND 2 CYS A 158 CYS A 162 1555 1555 2.04 SSBOND 3 CYS B 47 CYS B 129 1555 1555 2.03 SSBOND 4 CYS B 158 CYS B 162 1555 1555 2.04 LINK NE2 HIS A 152 MN MN A 301 1555 1555 2.26 LINK OD2 ASP A 154 MN MN A 301 1555 1555 2.21 LINK NE2 HIS A 221 MN MN A 301 1555 1555 2.23 LINK MN MN A 301 O HOH A 447 1555 1555 2.25 LINK MN MN A 301 O HOH A 576 1555 1555 2.31 LINK MN MN A 301 O HOH A 578 1555 1555 2.55 LINK NE2 HIS B 152 MN MN B 307 1555 1555 2.31 LINK OD1 ASP B 154 MN MN B 307 1555 1555 2.21 LINK NE2 HIS B 221 MN MN B 307 1555 1555 2.25 LINK MN MN B 307 O HOH B 476 1555 1555 2.21 LINK MN MN B 307 O HOH B 535 1555 1555 2.18 LINK MN MN B 307 O HOH B 585 1555 1555 2.58 SITE 1 AC1 6 HIS A 152 ASP A 154 HIS A 221 HOH A 447 SITE 2 AC1 6 HOH A 576 HOH A 578 SITE 1 AC2 7 TYR B 143 TYR B 149 TYR B 150 HIS B 152 SITE 2 AC2 7 ALA B 222 GLY B 223 HOH B 479 SITE 1 AC3 6 HIS B 152 ASP B 154 HIS B 221 HOH B 476 SITE 2 AC3 6 HOH B 535 HOH B 585 CRYST1 33.770 157.670 41.010 90.00 90.02 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 0.029612 0.000000 0.000009 0.00000 SCALE2 0.000000 0.006342 0.000000 0.00000 SCALE3 0.000000 0.000000 0.024384 0.00000