HEADER HYDROLASE/RNA 11-NOV-10 3PKM TITLE CRYSTAL STRUCTURE OF CAS6 WITH ITS SUBSTRATE RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: CRISPR-ASSOCIATED ENDORIBONUCLEASE CAS6; COMPND 3 CHAIN: A, X; COMPND 4 EC: 3.1.-.-; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: 5'-R(*AP*UP*UP*AP*CP*AP*AP*UP*AP*A)-3'; COMPND 8 CHAIN: G; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: 5'-R(P*UP*UP*AP*CP*AP*AP*UP*AP*A)-3'; COMPND 12 CHAIN: R; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS FURIOSUS; SOURCE 3 ORGANISM_TAXID: 2261; SOURCE 4 GENE: CAS6, PF1131; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 10 ORGANISM_TAXID: 32630; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630 KEYWDS CAS6, CRISPR, ENDONUCLEASE, FERRIDOXIN FOLD, CRISPR PROCESSING KEYWDS 2 ENDONUCLEASE, REPEAT RNA, HYDROLASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.WANG,G.PREAMPLUME,H.LI REVDAT 2 21-FEB-24 3PKM 1 COMPND SOURCE DBREF SEQADV REVDAT 1 09-MAR-11 3PKM 0 JRNL AUTH R.WANG,G.PREAMPLUME,M.P.TERNS,R.M.TERNS,H.LI JRNL TITL INTERACTION OF THE CAS6 RIBOENDONUCLEASE WITH CRISPR RNAS: JRNL TITL 2 RECOGNITION AND CLEAVAGE. JRNL REF STRUCTURE V. 19 257 2011 JRNL REFN ISSN 0969-2126 JRNL PMID 21300293 JRNL DOI 10.1016/J.STR.2010.11.014 REMARK 2 REMARK 2 RESOLUTION. 3.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6.1_357) 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) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.35 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.140 REMARK 3 COMPLETENESS FOR RANGE (%) : 69.4 REMARK 3 NUMBER OF REFLECTIONS : 21660 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.309 REMARK 3 R VALUE (WORKING SET) : 0.276 REMARK 3 FREE R VALUE : 0.318 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.240 REMARK 3 FREE R VALUE TEST SET COUNT : 2217 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 46.3518 - 7.8079 0.99 1742 202 0.2881 0.2736 REMARK 3 2 7.8079 - 6.2020 0.98 1702 200 0.2902 0.3096 REMARK 3 3 6.2020 - 5.4194 0.94 1669 172 0.2789 0.3422 REMARK 3 4 5.4194 - 4.9245 0.92 1598 192 0.2468 0.2960 REMARK 3 5 4.9245 - 4.5719 0.89 1568 173 0.2480 0.3202 REMARK 3 6 4.5719 - 4.3025 0.85 1506 169 0.2667 0.3041 REMARK 3 7 4.3025 - 4.0872 0.79 1386 160 0.2766 0.3129 REMARK 3 8 4.0872 - 3.9094 0.74 1278 143 0.2837 0.3680 REMARK 3 9 3.9094 - 3.7590 0.69 1212 132 0.3127 0.3734 REMARK 3 10 3.7590 - 3.6293 0.69 1204 135 0.3583 0.3945 REMARK 3 11 3.6293 - 3.5159 0.55 983 108 0.3547 0.4180 REMARK 3 12 3.5159 - 3.4154 0.56 964 111 0.4121 0.4708 REMARK 3 13 3.4154 - 3.3255 0.48 833 99 0.3845 0.3938 REMARK 3 14 3.3255 - 3.2444 0.41 707 90 0.4265 0.4742 REMARK 3 15 3.2444 - 3.1707 0.34 599 64 0.3770 0.4963 REMARK 3 16 3.1707 - 3.1032 0.29 492 67 0.4714 0.5817 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 : 0.31 REMARK 3 B_SOL : 93.85 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.530 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL 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) : 43.59260 REMARK 3 B22 (A**2) : 43.59260 REMARK 3 B33 (A**2) : -64.27690 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 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 : 0.014 4384 REMARK 3 ANGLE : 2.186 5998 REMARK 3 CHIRALITY : 0.151 644 REMARK 3 PLANARITY : 0.010 687 REMARK 3 DIHEDRAL : 24.018 1680 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 : 7 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN X AND RESID 6:24 REMARK 3 SELECTION : CHAIN A AND RESID 6:24 REMARK 3 ATOM PAIRS NUMBER : 101 REMARK 3 RMSD : 0.056 REMARK 3 NCS GROUP : 2 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN X AND RESID 25:54 REMARK 3 SELECTION : CHAIN A AND RESID 25:54 REMARK 3 ATOM PAIRS NUMBER : 251 REMARK 3 RMSD : 0.440 REMARK 3 NCS GROUP : 3 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN X AND RESID 55:74 REMARK 3 SELECTION : CHAIN A AND RESID 55:74 REMARK 3 ATOM PAIRS NUMBER : 161 REMARK 3 RMSD : 0.480 REMARK 3 NCS GROUP : 4 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN X AND RESID 75:127 REMARK 3 SELECTION : CHAIN A AND RESID 75:127 REMARK 3 ATOM PAIRS NUMBER : 428 REMARK 3 RMSD : 1.082 REMARK 3 NCS GROUP : 5 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN X AND RESID 128:151 REMARK 3 SELECTION : CHAIN A AND RESID 128:151 REMARK 3 ATOM PAIRS NUMBER : 148 REMARK 3 RMSD : 0.646 REMARK 3 NCS GROUP : 6 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN X AND RESID 152:245 REMARK 3 SELECTION : CHAIN A AND RESID 152:245 REMARK 3 ATOM PAIRS NUMBER : 760 REMARK 3 RMSD : 0.805 REMARK 3 NCS GROUP : 7 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN G AND RESID 2:10 REMARK 3 SELECTION : CHAIN R AND RESID 2:10 REMARK 3 ATOM PAIRS NUMBER : 189 REMARK 3 RMSD : 0.043 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3PKM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-DEC-10. REMARK 100 THE DEPOSITION ID IS D_1000062487. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15227 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.400 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 83.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.30 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20 MM MGCL2, 50 MM NAHEPES (PH7.0), REMARK 280 1.4 M AMMONIUM SULFATE, 4% POLYPROPYLENE GLYCOL 400 (P400), 20 REMARK 280 MM NICL2, AND 100 MM NACL, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 303.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 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+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 110.32800 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 55.16400 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 55.16400 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 110.32800 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, G 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: X, R 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 PRO A 15 REMARK 465 GLU A 16 REMARK 465 ASP A 17 REMARK 465 LYS A 18 REMARK 465 ASP A 19 REMARK 465 ARG A 20 REMARK 465 LYS A 74 REMARK 465 GLY A 75 REMARK 465 LEU A 76 REMARK 465 PRO A 77 REMARK 465 ARG A 148 REMARK 465 LYS A 149 REMARK 465 GLY A 150 REMARK 465 LYS A 151 REMARK 465 SER A 152 REMARK 465 ASN A 246 REMARK 465 LYS A 247 REMARK 465 THR A 248 REMARK 465 THR A 249 REMARK 465 LYS A 250 REMARK 465 GLU A 251 REMARK 465 ALA A 252 REMARK 465 GLU A 253 REMARK 465 GLU A 254 REMARK 465 GLN A 255 REMARK 465 GLU A 256 REMARK 465 LYS A 257 REMARK 465 ILE A 258 REMARK 465 THR A 259 REMARK 465 PHE A 260 REMARK 465 ASN A 261 REMARK 465 SER A 262 REMARK 465 ARG A 263 REMARK 465 GLU A 264 REMARK 465 GLU A 265 REMARK 465 LEU A 266 REMARK 465 LYS A 267 REMARK 465 THR A 268 REMARK 465 GLY A 269 REMARK 465 VAL A 270 REMARK 465 PRO X 15 REMARK 465 GLU X 16 REMARK 465 ASP X 17 REMARK 465 LYS X 18 REMARK 465 ASP X 19 REMARK 465 ARG X 20 REMARK 465 ALA X 21 REMARK 465 LYS X 74 REMARK 465 GLY X 75 REMARK 465 LEU X 76 REMARK 465 PRO X 77 REMARK 465 ASN X 246 REMARK 465 LYS X 247 REMARK 465 THR X 248 REMARK 465 THR X 249 REMARK 465 LYS X 250 REMARK 465 GLU X 251 REMARK 465 ALA X 252 REMARK 465 GLU X 253 REMARK 465 GLU X 254 REMARK 465 GLN X 255 REMARK 465 GLU X 256 REMARK 465 LYS X 257 REMARK 465 ILE X 258 REMARK 465 THR X 259 REMARK 465 PHE X 260 REMARK 465 ASN X 261 REMARK 465 SER X 262 REMARK 465 ARG X 263 REMARK 465 GLU X 264 REMARK 465 GLU X 265 REMARK 465 LEU X 266 REMARK 465 LYS X 267 REMARK 465 THR X 268 REMARK 465 GLY X 269 REMARK 465 VAL X 270 REMARK 465 A G 1 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 C G 5 O2 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 NZ LYS X 196 OP2 A R 7 2.15 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 PRO A 108 C - N - CA ANGL. DEV. = 10.8 DEGREES REMARK 500 PRO A 108 C - N - CD ANGL. DEV. = -20.6 DEGREES REMARK 500 PRO X 108 C - N - CA ANGL. DEV. = 11.9 DEGREES REMARK 500 PRO X 108 C - N - CD ANGL. DEV. = -20.7 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 HIS A 3 -109.08 61.71 REMARK 500 SER A 43 -63.54 -109.35 REMARK 500 TYR A 82 -156.33 -159.21 REMARK 500 LYS A 84 -147.58 43.48 REMARK 500 ASN A 107 -139.99 163.40 REMARK 500 TRP A 113 -133.88 54.15 REMARK 500 HIS A 120 -75.81 -101.71 REMARK 500 PHE A 131 -61.12 -130.12 REMARK 500 PRO A 141 -178.52 -59.63 REMARK 500 LEU A 191 -72.96 -82.77 REMARK 500 ASN A 234 -31.44 -36.67 REMARK 500 SER X 43 -64.10 -146.49 REMARK 500 PHE X 79 164.46 174.88 REMARK 500 LYS X 83 74.31 42.64 REMARK 500 LYS X 84 -144.21 50.89 REMARK 500 ASN X 107 -138.84 163.00 REMARK 500 TRP X 113 -28.61 60.93 REMARK 500 ASP X 114 -67.13 -148.86 REMARK 500 HIS X 120 -75.95 -106.62 REMARK 500 PHE X 131 -57.70 -127.49 REMARK 500 PRO X 141 -177.87 -60.59 REMARK 500 LYS X 149 -130.78 47.43 REMARK 500 TYR X 153 -142.72 61.12 REMARK 500 LEU X 191 -72.91 -84.76 REMARK 500 LYS X 201 163.59 77.82 REMARK 500 ILE X 204 167.89 172.96 REMARK 500 ASN X 234 -31.50 -37.16 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 SER X 42 SER X 43 143.12 REMARK 500 REMARK 500 REMARK: NULL DBREF 3PKM A 8 270 UNP Q8U1S4 CAS6_PYRFU 2 264 DBREF 3PKM X 8 270 UNP Q8U1S4 CAS6_PYRFU 2 264 DBREF 3PKM G 1 10 PDB 3PKM 3PKM 1 10 DBREF 3PKM R 2 10 PDB 3PKM 3PKM 2 10 SEQADV 3PKM HIS A 2 UNP Q8U1S4 EXPRESSION TAG SEQADV 3PKM HIS A 3 UNP Q8U1S4 EXPRESSION TAG SEQADV 3PKM HIS A 4 UNP Q8U1S4 EXPRESSION TAG SEQADV 3PKM HIS A 5 UNP Q8U1S4 EXPRESSION TAG SEQADV 3PKM GLY A 6 UNP Q8U1S4 EXPRESSION TAG SEQADV 3PKM SER A 7 UNP Q8U1S4 EXPRESSION TAG SEQADV 3PKM HIS X 2 UNP Q8U1S4 EXPRESSION TAG SEQADV 3PKM HIS X 3 UNP Q8U1S4 EXPRESSION TAG SEQADV 3PKM HIS X 4 UNP Q8U1S4 EXPRESSION TAG SEQADV 3PKM HIS X 5 UNP Q8U1S4 EXPRESSION TAG SEQADV 3PKM GLY X 6 UNP Q8U1S4 EXPRESSION TAG SEQADV 3PKM SER X 7 UNP Q8U1S4 EXPRESSION TAG SEQRES 1 A 269 HIS HIS HIS HIS GLY SER ARG PHE LEU ILE ARG LEU VAL SEQRES 2 A 269 PRO GLU ASP LYS ASP ARG ALA PHE LYS VAL PRO TYR ASN SEQRES 3 A 269 HIS GLN TYR TYR LEU GLN GLY LEU ILE TYR ASN ALA ILE SEQRES 4 A 269 LYS SER SER ASN PRO LYS LEU ALA THR TYR LEU HIS GLU SEQRES 5 A 269 VAL LYS GLY PRO LYS LEU PHE THR TYR SER LEU PHE MET SEQRES 6 A 269 ALA GLU LYS ARG GLU HIS PRO LYS GLY LEU PRO TYR PHE SEQRES 7 A 269 LEU GLY TYR LYS LYS GLY PHE PHE TYR PHE SER THR CYS SEQRES 8 A 269 VAL PRO GLU ILE ALA GLU ALA LEU VAL ASN GLY LEU LEU SEQRES 9 A 269 MET ASN PRO GLU VAL ARG LEU TRP ASP GLU ARG PHE TYR SEQRES 10 A 269 LEU HIS GLU ILE LYS VAL LEU ARG GLU PRO LYS LYS PHE SEQRES 11 A 269 ASN GLY SER THR PHE VAL THR LEU SER PRO ILE ALA VAL SEQRES 12 A 269 THR VAL VAL ARG LYS GLY LYS SER TYR ASP VAL PRO PRO SEQRES 13 A 269 MET GLU LYS GLU PHE TYR SER ILE ILE LYS ASP ASP LEU SEQRES 14 A 269 GLN ASP LYS TYR VAL MET ALA TYR GLY ASP LYS PRO PRO SEQRES 15 A 269 SER GLU PHE GLU MET GLU VAL LEU ILE ALA LYS PRO LYS SEQRES 16 A 269 ARG PHE ARG ILE LYS PRO GLY ILE TYR GLN THR ALA TRP SEQRES 17 A 269 HIS LEU VAL PHE ARG ALA TYR GLY ASN ASP ASP LEU LEU SEQRES 18 A 269 LYS VAL GLY TYR GLU VAL GLY PHE GLY GLU LYS ASN SER SEQRES 19 A 269 LEU GLY PHE GLY MET VAL LYS VAL GLU GLY ASN LYS THR SEQRES 20 A 269 THR LYS GLU ALA GLU GLU GLN GLU LYS ILE THR PHE ASN SEQRES 21 A 269 SER ARG GLU GLU LEU LYS THR GLY VAL SEQRES 1 X 269 HIS HIS HIS HIS GLY SER ARG PHE LEU ILE ARG LEU VAL SEQRES 2 X 269 PRO GLU ASP LYS ASP ARG ALA PHE LYS VAL PRO TYR ASN SEQRES 3 X 269 HIS GLN TYR TYR LEU GLN GLY LEU ILE TYR ASN ALA ILE SEQRES 4 X 269 LYS SER SER ASN PRO LYS LEU ALA THR TYR LEU HIS GLU SEQRES 5 X 269 VAL LYS GLY PRO LYS LEU PHE THR TYR SER LEU PHE MET SEQRES 6 X 269 ALA GLU LYS ARG GLU HIS PRO LYS GLY LEU PRO TYR PHE SEQRES 7 X 269 LEU GLY TYR LYS LYS GLY PHE PHE TYR PHE SER THR CYS SEQRES 8 X 269 VAL PRO GLU ILE ALA GLU ALA LEU VAL ASN GLY LEU LEU SEQRES 9 X 269 MET ASN PRO GLU VAL ARG LEU TRP ASP GLU ARG PHE TYR SEQRES 10 X 269 LEU HIS GLU ILE LYS VAL LEU ARG GLU PRO LYS LYS PHE SEQRES 11 X 269 ASN GLY SER THR PHE VAL THR LEU SER PRO ILE ALA VAL SEQRES 12 X 269 THR VAL VAL ARG LYS GLY LYS SER TYR ASP VAL PRO PRO SEQRES 13 X 269 MET GLU LYS GLU PHE TYR SER ILE ILE LYS ASP ASP LEU SEQRES 14 X 269 GLN ASP LYS TYR VAL MET ALA TYR GLY ASP LYS PRO PRO SEQRES 15 X 269 SER GLU PHE GLU MET GLU VAL LEU ILE ALA LYS PRO LYS SEQRES 16 X 269 ARG PHE ARG ILE LYS PRO GLY ILE TYR GLN THR ALA TRP SEQRES 17 X 269 HIS LEU VAL PHE ARG ALA TYR GLY ASN ASP ASP LEU LEU SEQRES 18 X 269 LYS VAL GLY TYR GLU VAL GLY PHE GLY GLU LYS ASN SER SEQRES 19 X 269 LEU GLY PHE GLY MET VAL LYS VAL GLU GLY ASN LYS THR SEQRES 20 X 269 THR LYS GLU ALA GLU GLU GLN GLU LYS ILE THR PHE ASN SEQRES 21 X 269 SER ARG GLU GLU LEU LYS THR GLY VAL SEQRES 1 G 10 A U U A C A A U A A SEQRES 1 R 9 U U A C A A U A A HELIX 1 1 TYR A 31 SER A 42 1 12 HELIX 2 2 ASN A 44 VAL A 54 1 11 HELIX 3 3 VAL A 93 MET A 106 1 14 HELIX 4 4 GLU A 161 GLY A 179 1 19 HELIX 5 5 ASN A 218 VAL A 228 1 11 HELIX 6 6 HIS X 2 GLY X 6 5 5 HELIX 7 7 ASN X 27 TYR X 30 5 4 HELIX 8 8 TYR X 31 SER X 42 1 12 HELIX 9 9 ASN X 44 VAL X 54 1 11 HELIX 10 10 VAL X 93 MET X 106 1 14 HELIX 11 11 GLU X 161 GLY X 179 1 19 HELIX 12 12 ASN X 218 VAL X 228 1 11 SHEET 1 A 4 PHE A 60 TYR A 62 0 SHEET 2 A 4 GLY A 85 THR A 91 -1 O SER A 90 N THR A 61 SHEET 3 A 4 SER A 7 LEU A 13 -1 N PHE A 9 O PHE A 89 SHEET 4 A 4 LEU A 119 VAL A 124 -1 O LYS A 123 N LEU A 10 SHEET 1 B 4 PHE A 186 ILE A 200 0 SHEET 2 B 4 ILE A 204 GLY A 217 -1 O ARG A 214 N GLU A 189 SHEET 3 B 4 THR A 135 THR A 138 -1 N PHE A 136 O PHE A 213 SHEET 4 B 4 VAL A 241 GLU A 244 -1 O LYS A 242 N VAL A 137 SHEET 1 C 4 PHE X 60 TYR X 62 0 SHEET 2 C 4 GLY X 85 THR X 91 -1 O SER X 90 N THR X 61 SHEET 3 C 4 SER X 7 LEU X 13 -1 N PHE X 9 O PHE X 89 SHEET 4 C 4 LEU X 119 VAL X 124 -1 O LYS X 123 N LEU X 10 SHEET 1 D 2 LYS X 23 VAL X 24 0 SHEET 2 D 2 PHE X 79 LEU X 80 -1 O PHE X 79 N VAL X 24 SHEET 1 E 2 ARG X 111 LEU X 112 0 SHEET 2 E 2 GLU X 115 ARG X 116 -1 N GLU X 115 O LEU X 112 SHEET 1 F 4 PHE X 186 ARG X 199 0 SHEET 2 F 4 TYR X 205 GLY X 217 -1 O ARG X 214 N GLU X 189 SHEET 3 F 4 THR X 135 THR X 138 -1 N PHE X 136 O PHE X 213 SHEET 4 F 4 VAL X 241 GLU X 244 -1 O LYS X 242 N VAL X 137 CISPEP 1 HIS A 2 HIS A 3 0 27.46 CISPEP 2 PRO A 108 GLU A 109 0 -13.31 CISPEP 3 LYS A 201 PRO A 202 0 -29.71 CISPEP 4 PRO X 108 GLU X 109 0 -13.35 CRYST1 96.557 96.557 165.492 90.00 90.00 120.00 P 32 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 0.010357 0.005979 0.000000 0.00000 SCALE2 0.000000 0.011959 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006043 0.00000