HEADER CHAPERONE 02-JAN-19 6QDT TITLE CRYSTAL STRUCTURE OF 14-3-3SIGMA IN COMPLEX WITH A RAPGEF2 PT740 TITLE 2 PHOSPHOPEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 14-3-3 PROTEIN SIGMA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: EPITHELIAL CELL MARKER PROTEIN 1,STRATIFIN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: RAP GUANINE NUCLEOTIDE EXCHANGE FACTOR 2; COMPND 8 CHAIN: B; COMPND 9 SYNONYM: CYCLIC NUCLEOTIDE RAS GEF,CNRASGEF,NEURAL RAP GUANINE COMPND 10 NUCLEOTIDE EXCHANGE PROTEIN,NRAP GEP,PDZ DOMAIN-CONTAINING GUANINE COMPND 11 NUCLEOTIDE EXCHANGE FACTOR 1,PDZ-GEF1,RA-GEF-1,RAS/RAP1-ASSOCIATING COMPND 12 GEF-1; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: SFN, HME1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606 KEYWDS NEURON REGENERATION, PPI, PHOSPHORYLATION, CHAPERONE EXPDTA X-RAY DIFFRACTION AUTHOR S.A.ANDREI,A.KAPLAN,A.E.FOURNIER,C.OTTMAN REVDAT 3 24-JAN-24 6QDT 1 REMARK REVDAT 2 11-AUG-21 6QDT 1 JRNL LINK REVDAT 1 29-JAN-20 6QDT 0 JRNL AUTH A.KAPLAN,S.A.ANDREI,A.VAN REGTEREN ALTENA,T.SIMAS, JRNL AUTH 2 S.L.BANERJEE,N.KATO,N.BISSON,Y.HIGUCHI,C.OTTMANN, JRNL AUTH 3 A.E.FOURNIER JRNL TITL POLYPHARMACOLOGICAL PERTURBATION OF THE 14-3-3 ADAPTOR JRNL TITL 2 PROTEIN INTERACTOME STIMULATES NEURITE OUTGROWTH. JRNL REF CELL CHEM BIOL V. 27 657 2020 JRNL REFN ESSN 2451-9456 JRNL PMID 32220335 JRNL DOI 10.1016/J.CHEMBIOL.2020.02.010 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.87 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 3 NUMBER OF REFLECTIONS : 31210 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) : 0.162 REMARK 3 FREE R VALUE : 0.192 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.940 REMARK 3 FREE R VALUE TEST SET COUNT : 1541 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 41.8787 - 3.7845 1.00 2966 141 0.1646 0.1808 REMARK 3 2 3.7845 - 3.0041 1.00 2812 167 0.1342 0.1664 REMARK 3 3 3.0041 - 2.6245 1.00 2820 147 0.1515 0.2077 REMARK 3 4 2.6245 - 2.3845 1.00 2802 142 0.1543 0.1780 REMARK 3 5 2.3845 - 2.2136 1.00 2783 149 0.1481 0.1730 REMARK 3 6 2.2136 - 2.0831 1.00 2758 145 0.1545 0.1910 REMARK 3 7 2.0831 - 1.9788 1.00 2798 134 0.1618 0.1930 REMARK 3 8 1.9788 - 1.8927 0.99 2721 156 0.1836 0.2281 REMARK 3 9 1.8927 - 1.8198 0.99 2762 134 0.2048 0.2469 REMARK 3 10 1.8198 - 1.7570 0.89 2461 130 0.2182 0.2329 REMARK 3 11 1.7570 - 1.7021 0.72 1986 96 0.2420 0.2589 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.140 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.780 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.17 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID -4 THROUGH 37 ) REMARK 3 ORIGIN FOR THE GROUP (A): 32.1926 13.6166 -8.2539 REMARK 3 T TENSOR REMARK 3 T11: 0.0468 T22: 0.0479 REMARK 3 T33: 0.0429 T12: 0.0035 REMARK 3 T13: -0.0017 T23: 0.0046 REMARK 3 L TENSOR REMARK 3 L11: 2.3721 L22: 3.0655 REMARK 3 L33: 2.4181 L12: 0.6396 REMARK 3 L13: -0.3367 L23: 0.1368 REMARK 3 S TENSOR REMARK 3 S11: -0.0109 S12: 0.0068 S13: -0.0419 REMARK 3 S21: -0.0818 S22: 0.0113 S23: 0.0183 REMARK 3 S31: 0.0809 S32: -0.0373 S33: 0.0036 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 38 THROUGH 70 ) REMARK 3 ORIGIN FOR THE GROUP (A): 24.6177 7.1781 9.1267 REMARK 3 T TENSOR REMARK 3 T11: 0.0981 T22: 0.0659 REMARK 3 T33: 0.0904 T12: 0.0285 REMARK 3 T13: 0.0416 T23: 0.0126 REMARK 3 L TENSOR REMARK 3 L11: 0.9829 L22: 4.5740 REMARK 3 L33: 4.4258 L12: 0.9081 REMARK 3 L13: -0.8702 L23: -3.8861 REMARK 3 S TENSOR REMARK 3 S11: -0.0511 S12: -0.0741 S13: -0.0525 REMARK 3 S21: 0.2887 S22: 0.1733 S23: 0.2671 REMARK 3 S31: -0.0764 S32: -0.1771 S33: -0.1623 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 71 THROUGH 79 ) REMARK 3 ORIGIN FOR THE GROUP (A): 27.1087 -12.0857 26.4511 REMARK 3 T TENSOR REMARK 3 T11: 0.4253 T22: 0.2989 REMARK 3 T33: 0.4513 T12: -0.1283 REMARK 3 T13: 0.1143 T23: 0.0039 REMARK 3 L TENSOR REMARK 3 L11: 2.5140 L22: 2.6896 REMARK 3 L33: 5.0784 L12: 2.5333 REMARK 3 L13: -2.7545 L23: -3.3080 REMARK 3 S TENSOR REMARK 3 S11: 0.0417 S12: -0.2428 S13: -0.6317 REMARK 3 S21: 0.6958 S22: -0.2012 S23: 0.8122 REMARK 3 S31: 0.4302 S32: -0.7950 S33: 0.1910 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 80 THROUGH 139 ) REMARK 3 ORIGIN FOR THE GROUP (A): 31.3665 15.4568 10.0179 REMARK 3 T TENSOR REMARK 3 T11: 0.0748 T22: 0.0775 REMARK 3 T33: 0.0628 T12: 0.0260 REMARK 3 T13: 0.0043 T23: -0.0031 REMARK 3 L TENSOR REMARK 3 L11: 0.3013 L22: 3.2713 REMARK 3 L33: 0.9947 L12: 0.1227 REMARK 3 L13: -0.0304 L23: -1.2575 REMARK 3 S TENSOR REMARK 3 S11: -0.0447 S12: -0.0044 S13: 0.0093 REMARK 3 S21: 0.1527 S22: 0.0453 S23: -0.0966 REMARK 3 S31: -0.0368 S32: -0.0005 S33: 0.0061 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 140 THROUGH 161 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.8703 27.7052 15.7530 REMARK 3 T TENSOR REMARK 3 T11: 0.0682 T22: 0.0762 REMARK 3 T33: 0.0676 T12: 0.0031 REMARK 3 T13: 0.0023 T23: -0.0409 REMARK 3 L TENSOR REMARK 3 L11: 3.9581 L22: 5.1071 REMARK 3 L33: 5.5626 L12: -2.0731 REMARK 3 L13: 1.6739 L23: -2.6320 REMARK 3 S TENSOR REMARK 3 S11: -0.1213 S12: -0.1357 S13: 0.1710 REMARK 3 S21: 0.2761 S22: 0.0509 S23: -0.1705 REMARK 3 S31: -0.1964 S32: 0.0588 S33: 0.0488 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 162 THROUGH 231 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.4065 24.4421 10.3094 REMARK 3 T TENSOR REMARK 3 T11: 0.0576 T22: 0.0837 REMARK 3 T33: 0.0938 T12: 0.0032 REMARK 3 T13: 0.0034 T23: -0.0069 REMARK 3 L TENSOR REMARK 3 L11: 1.8777 L22: 1.6120 REMARK 3 L33: 3.5387 L12: -0.8134 REMARK 3 L13: 0.9652 L23: -1.1369 REMARK 3 S TENSOR REMARK 3 S11: 0.0314 S12: 0.0216 S13: -0.0795 REMARK 3 S21: -0.0601 S22: 0.0461 S23: 0.1179 REMARK 3 S31: 0.1439 S32: -0.1959 S33: -0.0646 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 591 THROUGH 595 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.4085 14.4377 9.9928 REMARK 3 T TENSOR REMARK 3 T11: 0.2385 T22: 0.2845 REMARK 3 T33: 0.2692 T12: 0.0057 REMARK 3 T13: -0.0540 T23: -0.0234 REMARK 3 L TENSOR REMARK 3 L11: 2.4706 L22: 7.3331 REMARK 3 L33: 9.4240 L12: -2.6711 REMARK 3 L13: 2.4020 L23: 1.7638 REMARK 3 S TENSOR REMARK 3 S11: -0.3343 S12: 0.7931 S13: -0.0978 REMARK 3 S21: -0.6366 S22: 0.0543 S23: 0.5853 REMARK 3 S31: 0.8900 S32: -0.2993 S33: 0.2180 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 6QDT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-JAN-19. REMARK 100 THE DEPOSITION ID IS D_1200013707. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-NOV-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : SEALED TUBE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-003 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5419 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 200K REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32913 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.620 REMARK 200 RESOLUTION RANGE LOW (A) : 41.866 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.2 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.11100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.62 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.8.2 REMARK 200 STARTING MODEL: 4JC3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.19 M CACL2, 5% V/V GLYCEROL, 28 % REMARK 280 PEG 400, 0.095 M HEPES, PH 7.1, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 31.37450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 31.37450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 41.32850 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 56.20550 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 41.32850 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 56.20550 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 31.37450 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 41.32850 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 56.20550 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 31.37450 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 41.32850 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 56.20550 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23760 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -126.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 NA NA A 305 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 420 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 791 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 803 LIES ON A SPECIAL POSITION. 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 GLU A 72 REMARK 465 GLY A 73 REMARK 465 ACE B 588 REMARK 465 LYS B 589 REMARK 465 LEU B 590 REMARK 465 ALA B 597 REMARK 465 ASN B 598 REMARK 465 LEU B 599 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 ARG B 591 CG CD NE CZ NH1 NH2 REMARK 470 CYS B 596 SG 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 HH21 ARG A 60 O HOH A 407 1.54 REMARK 500 O HOH A 473 O HOH A 535 1.98 REMARK 500 O HOH A 431 O HOH A 617 2.04 REMARK 500 O HOH A 413 O HOH A 654 2.04 REMARK 500 O HOH A 551 O HOH A 767 2.05 REMARK 500 O HOH A 658 O HOH A 679 2.05 REMARK 500 O HOH A 406 O HOH A 495 2.06 REMARK 500 OD2 ASP A 145 O HOH A 401 2.10 REMARK 500 OE2 GLU A 20 O HOH A 402 2.11 REMARK 500 O HOH A 406 O HOH A 453 2.11 REMARK 500 O HOH B 603 O HOH B 608 2.12 REMARK 500 O HOH A 675 O HOH A 786 2.12 REMARK 500 OE2 GLU A 91 O HOH A 403 2.13 REMARK 500 O HOH A 437 O HOH A 610 2.13 REMARK 500 O HOH A 679 O HOH A 796 2.15 REMARK 500 O HOH A 609 O HOH A 636 2.18 REMARK 500 O HOH A 678 O HOH A 767 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 OE2 GLU A 110 HH TYR A 213 8555 1.55 REMARK 500 OE2 GLU A 110 OH TYR A 213 8555 2.01 REMARK 500 O HOH A 643 O HOH A 681 3654 2.03 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 ARG A 18 77.56 -107.71 REMARK 500 ARG A 18 77.56 -104.80 REMARK 500 HIS A 106 37.83 -144.05 REMARK 500 THR A 136 61.79 -154.45 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 803 DISTANCE = 5.97 ANGSTROMS REMARK 525 HOH A 804 DISTANCE = 6.50 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 NA A 305 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 2 OE1 REMARK 620 2 GLU A 2 OE1 0.0 REMARK 620 3 HOH A 451 O 77.3 77.3 REMARK 620 4 HOH A 451 O 81.6 81.6 151.0 REMARK 620 5 HOH A 598 O 77.0 77.0 117.4 76.1 REMARK 620 6 HOH A 598 O 150.1 150.1 76.1 117.4 128.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 307 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 8 OE1 REMARK 620 2 GLN A 8 OE1 28.7 REMARK 620 3 LYS A 77 O 30.9 40.1 REMARK 620 4 GLU A 80 OE1 32.9 41.1 2.1 REMARK 620 5 GLU A 80 OE2 35.2 43.4 4.4 2.5 REMARK 620 6 HOH A 454 O 35.7 43.2 4.8 2.8 0.9 REMARK 620 7 HOH A 615 O 35.4 45.5 5.5 4.6 2.9 3.7 REMARK 620 8 HOH A 665 O 33.4 42.5 2.6 1.6 1.9 2.7 3.0 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 306 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 33 O REMARK 620 2 GLU A 110 OE1 95.0 REMARK 620 3 HOH A 551 O 169.4 82.1 REMARK 620 4 HOH A 767 O 132.2 124.1 45.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 35 OE1 REMARK 620 2 GLU A 35 OE2 50.9 REMARK 620 3 GLU A 110 O 86.0 88.1 REMARK 620 4 GLU A 110 O 82.6 84.7 3.8 REMARK 620 5 GLU A 188 OE2 86.1 121.5 46.0 47.6 REMARK 620 6 HOH A 590 O 134.7 84.6 84.9 86.3 117.0 REMARK 620 7 HOH A 619 O 145.7 160.4 101.7 105.5 76.4 79.5 REMARK 620 8 HOH A 648 O 88.2 80.8 168.8 165.5 143.0 92.4 88.4 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 304 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 75 OE1 REMARK 620 2 GLU A 161 O 69.2 REMARK 620 3 HOH A 588 O 69.2 2.9 REMARK 620 4 HOH A 626 O 70.0 3.4 0.9 REMARK 620 5 HOH A 642 O 66.9 2.7 2.9 3.8 REMARK 620 6 HOH A 650 O 68.4 0.9 3.3 4.0 2.2 REMARK 620 7 HOH A 680 O 67.9 3.2 1.2 2.1 2.1 3.3 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 303 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 228 O REMARK 620 2 THR A 231 O 84.7 REMARK 620 3 HOH A 661 O 70.2 113.9 REMARK 620 4 HOH A 676 O 139.5 84.8 78.7 REMARK 620 5 HOH A 711 O 95.6 171.4 58.5 89.5 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 307 DBREF 6QDT A 1 231 UNP P31947 1433S_HUMAN 1 231 DBREF 6QDT B 588 599 UNP Q9Y4G8 RPGF2_HUMAN 746 757 SEQADV 6QDT GLY A -4 UNP P31947 EXPRESSION TAG SEQADV 6QDT ALA A -3 UNP P31947 EXPRESSION TAG SEQADV 6QDT MET A -2 UNP P31947 EXPRESSION TAG SEQADV 6QDT GLY A -1 UNP P31947 EXPRESSION TAG SEQADV 6QDT SER A 0 UNP P31947 EXPRESSION TAG SEQADV 6QDT ACE B 588 UNP Q9Y4G8 PHE 746 ACETYLATION SEQRES 1 A 236 GLY ALA MET GLY SER MET GLU ARG ALA SER LEU ILE GLN SEQRES 2 A 236 LYS ALA LYS LEU ALA GLU GLN ALA GLU ARG TYR GLU ASP SEQRES 3 A 236 MET ALA ALA PHE MET LYS GLY ALA VAL GLU LYS GLY GLU SEQRES 4 A 236 GLU LEU SER CYS GLU GLU ARG ASN LEU LEU SER VAL ALA SEQRES 5 A 236 TYR LYS ASN VAL VAL GLY GLY GLN ARG ALA ALA TRP ARG SEQRES 6 A 236 VAL LEU SER SER ILE GLU GLN LYS SER ASN GLU GLU GLY SEQRES 7 A 236 SER GLU GLU LYS GLY PRO GLU VAL ARG GLU TYR ARG GLU SEQRES 8 A 236 LYS VAL GLU THR GLU LEU GLN GLY VAL CYS ASP THR VAL SEQRES 9 A 236 LEU GLY LEU LEU ASP SER HIS LEU ILE LYS GLU ALA GLY SEQRES 10 A 236 ASP ALA GLU SER ARG VAL PHE TYR LEU LYS MET LYS GLY SEQRES 11 A 236 ASP TYR TYR ARG TYR LEU ALA GLU VAL ALA THR GLY ASP SEQRES 12 A 236 ASP LYS LYS ARG ILE ILE ASP SER ALA ARG SER ALA TYR SEQRES 13 A 236 GLN GLU ALA MET ASP ILE SER LYS LYS GLU MET PRO PRO SEQRES 14 A 236 THR ASN PRO ILE ARG LEU GLY LEU ALA LEU ASN PHE SER SEQRES 15 A 236 VAL PHE HIS TYR GLU ILE ALA ASN SER PRO GLU GLU ALA SEQRES 16 A 236 ILE SER LEU ALA LYS THR THR PHE ASP GLU ALA MET ALA SEQRES 17 A 236 ASP LEU HIS THR LEU SER GLU ASP SER TYR LYS ASP SER SEQRES 18 A 236 THR LEU ILE MET GLN LEU LEU ARG ASP ASN LEU THR LEU SEQRES 19 A 236 TRP THR SEQRES 1 B 12 ACE LYS LEU ARG SER LYS TPO SER CYS ALA ASN LEU MODRES 6QDT TPO B 594 THR MODIFIED RESIDUE HET TPO B 594 16 HET CA A 301 1 HET CL A 302 1 HET NA A 303 1 HET NA A 304 1 HET NA A 305 1 HET NA A 306 1 HET NA A 307 1 HETNAM TPO PHOSPHOTHREONINE HETNAM CA CALCIUM ION HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION HETSYN TPO PHOSPHONOTHREONINE FORMUL 2 TPO C4 H10 N O6 P FORMUL 3 CA CA 2+ FORMUL 4 CL CL 1- FORMUL 5 NA 5(NA 1+) FORMUL 10 HOH *415(H2 O) HELIX 1 AA1 GLU A 2 ALA A 16 1 15 HELIX 2 AA2 ARG A 18 LYS A 32 1 15 HELIX 3 AA3 SER A 37 ASN A 70 1 34 HELIX 4 AA4 PRO A 79 SER A 105 1 27 HELIX 5 AA5 HIS A 106 ALA A 111 1 6 HELIX 6 AA6 ASP A 113 ALA A 135 1 23 HELIX 7 AA7 ASP A 139 MET A 162 1 24 HELIX 8 AA8 ASN A 166 ILE A 183 1 18 HELIX 9 AA9 SER A 186 ALA A 203 1 18 HELIX 10 AB1 ASP A 204 LEU A 208 5 5 HELIX 11 AB2 SER A 209 THR A 231 1 23 LINK C LYS B 593 N TPO B 594 1555 1555 1.33 LINK C TPO B 594 N ASER B 595 1555 1555 1.33 LINK C TPO B 594 N BSER B 595 1555 1555 1.33 LINK OE1 GLU A 2 NA NA A 305 1555 1555 2.44 LINK OE1 GLU A 2 NA NA A 305 1555 3654 2.44 LINK OE1AGLN A 8 NA NA A 307 1555 4555 2.82 LINK OE1BGLN A 8 NA NA A 307 1555 4555 2.74 LINK O GLY A 33 NA NA A 306 1555 1555 2.78 LINK OE1 GLU A 35 CA CA A 301 1555 1555 2.69 LINK OE2 GLU A 35 CA CA A 301 1555 1555 2.37 LINK OE1 GLU A 75 NA NA A 304 1555 7545 2.40 LINK O LYS A 77 NA NA A 307 1555 1555 2.31 LINK OE1 GLU A 80 NA NA A 307 1555 1555 2.45 LINK OE2 GLU A 80 NA NA A 307 1555 1555 2.83 LINK O AGLU A 110 CA CA A 301 1555 1555 2.33 LINK O BGLU A 110 CA CA A 301 1555 1555 2.35 LINK OE1BGLU A 110 NA NA A 306 1555 1555 2.18 LINK O GLU A 161 NA NA A 304 1555 1555 2.27 LINK OE2 GLU A 188 CA CA A 301 1555 6555 2.42 LINK O THR A 228 NA NA A 303 1555 1555 2.44 LINK O THR A 231 NA NA A 303 1555 1555 2.41 LINK CA CA A 301 O HOH A 590 1555 1555 2.26 LINK CA CA A 301 O HOH A 619 1555 6554 2.32 LINK CA CA A 301 O HOH A 648 1555 1555 2.35 LINK NA NA A 303 O HOH A 661 1555 1555 2.98 LINK NA NA A 303 O HOH A 676 1555 1555 2.37 LINK NA NA A 303 O HOH A 711 1555 1555 2.48 LINK NA NA A 304 O HOH A 588 1555 1555 2.61 LINK NA NA A 304 O HOH A 626 1555 7555 2.54 LINK NA NA A 304 O HOH A 642 1555 1555 2.44 LINK NA NA A 304 O HOH A 650 1555 1555 2.31 LINK NA NA A 304 O HOH A 680 1555 6554 2.43 LINK NA NA A 305 O HOH A 451 1555 1555 2.52 LINK NA NA A 305 O HOH A 451 1555 3654 2.52 LINK NA NA A 305 O HOH A 598 1555 1555 2.24 LINK NA NA A 305 O HOH A 598 1555 3654 2.24 LINK NA NA A 306 O HOH A 551 1555 1555 2.60 LINK NA NA A 306 O HOH A 767 1555 1555 2.68 LINK NA NA A 307 O HOH A 454 1555 1555 2.93 LINK NA NA A 307 O HOH A 615 1555 4555 2.66 LINK NA NA A 307 O HOH A 665 1555 1555 2.42 CISPEP 1 SER A 105 HIS A 106 0 7.15 SITE 1 AC1 6 GLU A 35 GLU A 110 GLU A 188 HOH A 590 SITE 2 AC1 6 HOH A 619 HOH A 648 SITE 1 AC2 3 LYS A 9 HOH A 698 HOH A 746 SITE 1 AC3 5 THR A 228 THR A 231 HOH A 661 HOH A 676 SITE 2 AC3 5 HOH A 711 SITE 1 AC4 7 GLU A 75 GLU A 161 HOH A 588 HOH A 626 SITE 2 AC4 7 HOH A 642 HOH A 650 HOH A 680 SITE 1 AC5 3 GLU A 2 HOH A 451 HOH A 598 SITE 1 AC6 4 GLY A 33 GLU A 110 HOH A 551 HOH A 767 SITE 1 AC7 6 GLN A 8 LYS A 77 GLU A 80 HOH A 454 SITE 2 AC7 6 HOH A 615 HOH A 665 CRYST1 82.657 112.411 62.749 90.00 90.00 90.00 C 2 2 21 8 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 0.012098 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008896 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015937 0.00000