HEADER HYDROLASE 12-OCT-15 5E7I TITLE CRYSTAL STRUCTURE OF THE ACTIVE CATALYTIC CORE OF THE HUMAN DEAD-BOX TITLE 2 PROTEIN DDX3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ATP-DEPENDENT RNA HELICASE DDX3X; COMPND 3 CHAIN: B, A, C; COMPND 4 FRAGMENT: DEAD-BOX DOMAINS; COMPND 5 SYNONYM: DEAD BOX PROTEIN 3,X-CHROMOSOMAL,DEAD BOX,X ISOFORM, COMPND 6 HELICASE-LIKE PROTEIN 2,HLP2; COMPND 7 EC: 3.6.4.13; COMPND 8 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: DDX3X, DBX, DDX3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 STAR (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PHMGWA KEYWDS DEAD-BOX PROTEIN, RNA HELICASE, RECA FOLD, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.N.FLOOR,K.J.CONDON,J.A.DOUDNA REVDAT 4 06-MAR-24 5E7I 1 JRNL REMARK REVDAT 3 10-FEB-16 5E7I 1 JRNL REVDAT 2 09-DEC-15 5E7I 1 JRNL REVDAT 1 02-DEC-15 5E7I 0 JRNL AUTH S.N.FLOOR,K.J.CONDON,D.SHARMA,E.JANKOWSKY,J.A.DOUDNA JRNL TITL AUTOINHIBITORY INTERDOMAIN INTERACTIONS AND JRNL TITL 2 SUBFAMILY-SPECIFIC EXTENSIONS REDEFINE THE CATALYTIC CORE OF JRNL TITL 3 THE HUMAN DEAD-BOX PROTEIN DDX3. JRNL REF J.BIOL.CHEM. V. 291 2412 2016 JRNL REFN ESSN 1083-351X JRNL PMID 26598523 JRNL DOI 10.1074/JBC.M115.700625 REMARK 2 REMARK 2 RESOLUTION. 2.22 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.22 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 86.06 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 79683 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.227 REMARK 3 R VALUE (WORKING SET) : 0.226 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3985 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 86.1258 - 6.7504 1.00 2824 147 0.1593 0.1985 REMARK 3 2 6.7504 - 5.3582 1.00 2807 148 0.1974 0.2258 REMARK 3 3 5.3582 - 4.6809 1.00 2784 146 0.1615 0.2063 REMARK 3 4 4.6809 - 4.2530 1.00 2754 145 0.1528 0.1758 REMARK 3 5 4.2530 - 3.9481 1.00 2772 146 0.1823 0.2044 REMARK 3 6 3.9481 - 3.7154 1.00 2769 146 0.1885 0.2136 REMARK 3 7 3.7154 - 3.5293 1.00 2785 147 0.2031 0.2644 REMARK 3 8 3.5293 - 3.3756 1.00 2715 142 0.2209 0.2627 REMARK 3 9 3.3756 - 3.2457 1.00 2787 147 0.2331 0.2627 REMARK 3 10 3.2457 - 3.1337 1.00 2778 146 0.2435 0.2778 REMARK 3 11 3.1337 - 3.0357 1.00 2737 144 0.2530 0.2725 REMARK 3 12 3.0357 - 2.9489 1.00 2773 146 0.2584 0.3370 REMARK 3 13 2.9489 - 2.8713 1.00 2743 145 0.2560 0.2663 REMARK 3 14 2.8713 - 2.8012 1.00 2742 144 0.2638 0.3293 REMARK 3 15 2.8012 - 2.7375 1.00 2757 145 0.2689 0.2938 REMARK 3 16 2.7375 - 2.6793 1.00 2757 145 0.2699 0.2778 REMARK 3 17 2.6793 - 2.6257 1.00 2740 144 0.2772 0.3003 REMARK 3 18 2.6257 - 2.5761 1.00 2736 145 0.2777 0.3304 REMARK 3 19 2.5761 - 2.5301 1.00 2774 146 0.2850 0.3009 REMARK 3 20 2.5301 - 2.4872 1.00 2748 144 0.2841 0.3465 REMARK 3 21 2.4872 - 2.4471 1.00 2753 145 0.2854 0.3061 REMARK 3 22 2.4471 - 2.4095 1.00 2723 143 0.2892 0.3093 REMARK 3 23 2.4095 - 2.3740 1.00 2752 145 0.3079 0.3573 REMARK 3 24 2.3740 - 2.3406 1.00 2759 145 0.3031 0.3457 REMARK 3 25 2.3406 - 2.3089 0.97 2642 140 0.3094 0.3633 REMARK 3 26 2.3089 - 2.2790 0.93 2607 137 0.3218 0.3486 REMARK 3 27 2.2790 - 2.2505 0.88 2337 124 0.4353 0.4433 REMARK 3 28 2.2505 - 2.2233 0.66 1843 98 0.4275 0.4370 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) : 0.340 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.080 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.82 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.72 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 : 0.004 10247 REMARK 3 ANGLE : 0.816 13838 REMARK 3 CHIRALITY : 0.031 1542 REMARK 3 PLANARITY : 0.004 1809 REMARK 3 DIHEDRAL : 14.507 3911 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 5E7I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-OCT-15. REMARK 100 THE DEPOSITION ID IS D_1000214491. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-FEB-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.115869 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 79724 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.220 REMARK 200 RESOLUTION RANGE LOW (A) : 86.060 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.16100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.1400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.22 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 77.7 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.36100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.920 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.79 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, SODIUM CITRATE, PH 5.0, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K 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 52.69000 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, 3 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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 GLU B 133 REMARK 465 GLY B 154 REMARK 465 ASN B 155 REMARK 465 THR B 156 REMARK 465 GLY B 157 REMARK 465 ILE B 158 REMARK 465 ASN B 159 REMARK 465 PHE B 160 REMARK 465 GLU B 161 REMARK 465 LYS B 162 REMARK 465 TYR B 163 REMARK 465 ASP B 164 REMARK 465 ASP B 165 REMARK 465 ASN B 257 REMARK 465 GLY B 258 REMARK 465 ARG B 259 REMARK 465 TYR B 260 REMARK 465 GLY B 261 REMARK 465 ARG B 262 REMARK 465 GLY B 473 REMARK 465 ASP B 474 REMARK 465 ARG B 475 REMARK 465 SER B 476 REMARK 465 GLN B 477 REMARK 465 ARG B 478 REMARK 465 ASP B 479 REMARK 465 ARG B 480 REMARK 465 HIS B 578 REMARK 465 HIS B 579 REMARK 465 TYR B 580 REMARK 465 LYS B 581 REMARK 465 GLY B 582 REMARK 465 SER B 583 REMARK 465 SER B 584 REMARK 465 GLU A 133 REMARK 465 GLY A 154 REMARK 465 ASN A 155 REMARK 465 THR A 156 REMARK 465 GLY A 157 REMARK 465 ILE A 158 REMARK 465 ASN A 159 REMARK 465 PHE A 160 REMARK 465 GLU A 161 REMARK 465 LYS A 162 REMARK 465 TYR A 163 REMARK 465 ASN A 257 REMARK 465 GLY A 258 REMARK 465 ARG A 259 REMARK 465 TYR A 260 REMARK 465 HIS A 578 REMARK 465 HIS A 579 REMARK 465 TYR A 580 REMARK 465 LYS A 581 REMARK 465 GLY A 582 REMARK 465 SER A 583 REMARK 465 SER A 584 REMARK 465 GLU C 133 REMARK 465 GLY C 154 REMARK 465 ASN C 155 REMARK 465 THR C 156 REMARK 465 GLY C 157 REMARK 465 ILE C 158 REMARK 465 ASN C 159 REMARK 465 PHE C 160 REMARK 465 GLU C 161 REMARK 465 LYS C 162 REMARK 465 TYR C 163 REMARK 465 ASP C 164 REMARK 465 GLU C 256 REMARK 465 ASN C 257 REMARK 465 GLY C 258 REMARK 465 ARG C 259 REMARK 465 TYR C 260 REMARK 465 GLY C 261 REMARK 465 ARG C 262 REMARK 465 TYR C 576 REMARK 465 GLU C 577 REMARK 465 HIS C 578 REMARK 465 HIS C 579 REMARK 465 TYR C 580 REMARK 465 LYS C 581 REMARK 465 GLY C 582 REMARK 465 SER C 583 REMARK 465 SER C 584 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 ND2 ASN A 436 OH TYR A 466 1.99 REMARK 500 O LEU B 484 N ARG B 488 2.01 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU B 482 CB GLU B 482 CG -0.125 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 THR B 201 -68.60 -102.04 REMARK 500 ASP B 368 -140.84 -125.36 REMARK 500 VAL B 375 -61.22 -102.10 REMARK 500 GLU B 399 58.15 39.72 REMARK 500 VAL B 405 47.66 -96.72 REMARK 500 GLU B 413 -26.62 75.82 REMARK 500 ASP B 441 -26.20 71.23 REMARK 500 GLU B 482 60.31 140.22 REMARK 500 ARG A 199 26.80 41.02 REMARK 500 THR A 201 -88.06 -120.00 REMARK 500 MET A 254 31.60 -155.23 REMARK 500 ARG A 262 74.90 -115.36 REMARK 500 ASP A 368 -139.64 -119.40 REMARK 500 PRO C 167 128.60 -38.48 REMARK 500 ASP C 368 -133.89 -114.17 REMARK 500 VAL C 375 -61.75 -102.84 REMARK 500 GLU C 413 -24.12 70.53 REMARK 500 LYS C 440 -11.34 72.69 REMARK 500 ASN C 509 87.08 -36.66 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 GLU B 481 GLU B 482 -131.71 REMARK 500 SER C 508 ASN C 509 -127.42 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5E7M RELATED DB: PDB REMARK 900 RELATED ID: 5E7J RELATED DB: PDB DBREF 5E7I B 133 584 UNP O00571 DDX3X_HUMAN 133 584 DBREF 5E7I A 133 584 UNP O00571 DDX3X_HUMAN 133 584 DBREF 5E7I C 133 584 UNP O00571 DDX3X_HUMAN 133 584 SEQRES 1 B 452 GLU ASP ASP TRP SER LYS PRO LEU PRO PRO SER GLU ARG SEQRES 2 B 452 LEU GLU GLN GLU LEU PHE SER GLY GLY ASN THR GLY ILE SEQRES 3 B 452 ASN PHE GLU LYS TYR ASP ASP ILE PRO VAL GLU ALA THR SEQRES 4 B 452 GLY ASN ASN CYS PRO PRO HIS ILE GLU SER PHE SER ASP SEQRES 5 B 452 VAL GLU MET GLY GLU ILE ILE MET GLY ASN ILE GLU LEU SEQRES 6 B 452 THR ARG TYR THR ARG PRO THR PRO VAL GLN LYS HIS ALA SEQRES 7 B 452 ILE PRO ILE ILE LYS GLU LYS ARG ASP LEU MET ALA CYS SEQRES 8 B 452 ALA GLN THR GLY SER GLY LYS THR ALA ALA PHE LEU LEU SEQRES 9 B 452 PRO ILE LEU SER GLN ILE TYR SER ASP GLY PRO GLY GLU SEQRES 10 B 452 ALA LEU ARG ALA MET LYS GLU ASN GLY ARG TYR GLY ARG SEQRES 11 B 452 ARG LYS GLN TYR PRO ILE SER LEU VAL LEU ALA PRO THR SEQRES 12 B 452 ARG GLU LEU ALA VAL GLN ILE TYR GLU GLU ALA ARG LYS SEQRES 13 B 452 PHE SER TYR ARG SER ARG VAL ARG PRO CYS VAL VAL TYR SEQRES 14 B 452 GLY GLY ALA ASP ILE GLY GLN GLN ILE ARG ASP LEU GLU SEQRES 15 B 452 ARG GLY CYS HIS LEU LEU VAL ALA THR PRO GLY ARG LEU SEQRES 16 B 452 VAL ASP MET MET GLU ARG GLY LYS ILE GLY LEU ASP PHE SEQRES 17 B 452 CYS LYS TYR LEU VAL LEU ASP GLU ALA ASP ARG MET LEU SEQRES 18 B 452 ASP MET GLY PHE GLU PRO GLN ILE ARG ARG ILE VAL GLU SEQRES 19 B 452 GLN ASP THR MET PRO PRO LYS GLY VAL ARG HIS THR MET SEQRES 20 B 452 MET PHE SER ALA THR PHE PRO LYS GLU ILE GLN MET LEU SEQRES 21 B 452 ALA ARG ASP PHE LEU ASP GLU TYR ILE PHE LEU ALA VAL SEQRES 22 B 452 GLY ARG VAL GLY SER THR SER GLU ASN ILE THR GLN LYS SEQRES 23 B 452 VAL VAL TRP VAL GLU GLU SER ASP LYS ARG SER PHE LEU SEQRES 24 B 452 LEU ASP LEU LEU ASN ALA THR GLY LYS ASP SER LEU THR SEQRES 25 B 452 LEU VAL PHE VAL GLU THR LYS LYS GLY ALA ASP SER LEU SEQRES 26 B 452 GLU ASP PHE LEU TYR HIS GLU GLY TYR ALA CYS THR SER SEQRES 27 B 452 ILE HIS GLY ASP ARG SER GLN ARG ASP ARG GLU GLU ALA SEQRES 28 B 452 LEU HIS GLN PHE ARG SER GLY LYS SER PRO ILE LEU VAL SEQRES 29 B 452 ALA THR ALA VAL ALA ALA ARG GLY LEU ASP ILE SER ASN SEQRES 30 B 452 VAL LYS HIS VAL ILE ASN PHE ASP LEU PRO SER ASP ILE SEQRES 31 B 452 GLU GLU TYR VAL HIS ARG ILE GLY ARG THR GLY ARG VAL SEQRES 32 B 452 GLY ASN LEU GLY LEU ALA THR SER PHE PHE ASN GLU ARG SEQRES 33 B 452 ASN ILE ASN ILE THR LYS ASP LEU LEU ASP LEU LEU VAL SEQRES 34 B 452 GLU ALA LYS GLN GLU VAL PRO SER TRP LEU GLU ASN MET SEQRES 35 B 452 ALA TYR GLU HIS HIS TYR LYS GLY SER SER SEQRES 1 A 452 GLU ASP ASP TRP SER LYS PRO LEU PRO PRO SER GLU ARG SEQRES 2 A 452 LEU GLU GLN GLU LEU PHE SER GLY GLY ASN THR GLY ILE SEQRES 3 A 452 ASN PHE GLU LYS TYR ASP ASP ILE PRO VAL GLU ALA THR SEQRES 4 A 452 GLY ASN ASN CYS PRO PRO HIS ILE GLU SER PHE SER ASP SEQRES 5 A 452 VAL GLU MET GLY GLU ILE ILE MET GLY ASN ILE GLU LEU SEQRES 6 A 452 THR ARG TYR THR ARG PRO THR PRO VAL GLN LYS HIS ALA SEQRES 7 A 452 ILE PRO ILE ILE LYS GLU LYS ARG ASP LEU MET ALA CYS SEQRES 8 A 452 ALA GLN THR GLY SER GLY LYS THR ALA ALA PHE LEU LEU SEQRES 9 A 452 PRO ILE LEU SER GLN ILE TYR SER ASP GLY PRO GLY GLU SEQRES 10 A 452 ALA LEU ARG ALA MET LYS GLU ASN GLY ARG TYR GLY ARG SEQRES 11 A 452 ARG LYS GLN TYR PRO ILE SER LEU VAL LEU ALA PRO THR SEQRES 12 A 452 ARG GLU LEU ALA VAL GLN ILE TYR GLU GLU ALA ARG LYS SEQRES 13 A 452 PHE SER TYR ARG SER ARG VAL ARG PRO CYS VAL VAL TYR SEQRES 14 A 452 GLY GLY ALA ASP ILE GLY GLN GLN ILE ARG ASP LEU GLU SEQRES 15 A 452 ARG GLY CYS HIS LEU LEU VAL ALA THR PRO GLY ARG LEU SEQRES 16 A 452 VAL ASP MET MET GLU ARG GLY LYS ILE GLY LEU ASP PHE SEQRES 17 A 452 CYS LYS TYR LEU VAL LEU ASP GLU ALA ASP ARG MET LEU SEQRES 18 A 452 ASP MET GLY PHE GLU PRO GLN ILE ARG ARG ILE VAL GLU SEQRES 19 A 452 GLN ASP THR MET PRO PRO LYS GLY VAL ARG HIS THR MET SEQRES 20 A 452 MET PHE SER ALA THR PHE PRO LYS GLU ILE GLN MET LEU SEQRES 21 A 452 ALA ARG ASP PHE LEU ASP GLU TYR ILE PHE LEU ALA VAL SEQRES 22 A 452 GLY ARG VAL GLY SER THR SER GLU ASN ILE THR GLN LYS SEQRES 23 A 452 VAL VAL TRP VAL GLU GLU SER ASP LYS ARG SER PHE LEU SEQRES 24 A 452 LEU ASP LEU LEU ASN ALA THR GLY LYS ASP SER LEU THR SEQRES 25 A 452 LEU VAL PHE VAL GLU THR LYS LYS GLY ALA ASP SER LEU SEQRES 26 A 452 GLU ASP PHE LEU TYR HIS GLU GLY TYR ALA CYS THR SER SEQRES 27 A 452 ILE HIS GLY ASP ARG SER GLN ARG ASP ARG GLU GLU ALA SEQRES 28 A 452 LEU HIS GLN PHE ARG SER GLY LYS SER PRO ILE LEU VAL SEQRES 29 A 452 ALA THR ALA VAL ALA ALA ARG GLY LEU ASP ILE SER ASN SEQRES 30 A 452 VAL LYS HIS VAL ILE ASN PHE ASP LEU PRO SER ASP ILE SEQRES 31 A 452 GLU GLU TYR VAL HIS ARG ILE GLY ARG THR GLY ARG VAL SEQRES 32 A 452 GLY ASN LEU GLY LEU ALA THR SER PHE PHE ASN GLU ARG SEQRES 33 A 452 ASN ILE ASN ILE THR LYS ASP LEU LEU ASP LEU LEU VAL SEQRES 34 A 452 GLU ALA LYS GLN GLU VAL PRO SER TRP LEU GLU ASN MET SEQRES 35 A 452 ALA TYR GLU HIS HIS TYR LYS GLY SER SER SEQRES 1 C 452 GLU ASP ASP TRP SER LYS PRO LEU PRO PRO SER GLU ARG SEQRES 2 C 452 LEU GLU GLN GLU LEU PHE SER GLY GLY ASN THR GLY ILE SEQRES 3 C 452 ASN PHE GLU LYS TYR ASP ASP ILE PRO VAL GLU ALA THR SEQRES 4 C 452 GLY ASN ASN CYS PRO PRO HIS ILE GLU SER PHE SER ASP SEQRES 5 C 452 VAL GLU MET GLY GLU ILE ILE MET GLY ASN ILE GLU LEU SEQRES 6 C 452 THR ARG TYR THR ARG PRO THR PRO VAL GLN LYS HIS ALA SEQRES 7 C 452 ILE PRO ILE ILE LYS GLU LYS ARG ASP LEU MET ALA CYS SEQRES 8 C 452 ALA GLN THR GLY SER GLY LYS THR ALA ALA PHE LEU LEU SEQRES 9 C 452 PRO ILE LEU SER GLN ILE TYR SER ASP GLY PRO GLY GLU SEQRES 10 C 452 ALA LEU ARG ALA MET LYS GLU ASN GLY ARG TYR GLY ARG SEQRES 11 C 452 ARG LYS GLN TYR PRO ILE SER LEU VAL LEU ALA PRO THR SEQRES 12 C 452 ARG GLU LEU ALA VAL GLN ILE TYR GLU GLU ALA ARG LYS SEQRES 13 C 452 PHE SER TYR ARG SER ARG VAL ARG PRO CYS VAL VAL TYR SEQRES 14 C 452 GLY GLY ALA ASP ILE GLY GLN GLN ILE ARG ASP LEU GLU SEQRES 15 C 452 ARG GLY CYS HIS LEU LEU VAL ALA THR PRO GLY ARG LEU SEQRES 16 C 452 VAL ASP MET MET GLU ARG GLY LYS ILE GLY LEU ASP PHE SEQRES 17 C 452 CYS LYS TYR LEU VAL LEU ASP GLU ALA ASP ARG MET LEU SEQRES 18 C 452 ASP MET GLY PHE GLU PRO GLN ILE ARG ARG ILE VAL GLU SEQRES 19 C 452 GLN ASP THR MET PRO PRO LYS GLY VAL ARG HIS THR MET SEQRES 20 C 452 MET PHE SER ALA THR PHE PRO LYS GLU ILE GLN MET LEU SEQRES 21 C 452 ALA ARG ASP PHE LEU ASP GLU TYR ILE PHE LEU ALA VAL SEQRES 22 C 452 GLY ARG VAL GLY SER THR SER GLU ASN ILE THR GLN LYS SEQRES 23 C 452 VAL VAL TRP VAL GLU GLU SER ASP LYS ARG SER PHE LEU SEQRES 24 C 452 LEU ASP LEU LEU ASN ALA THR GLY LYS ASP SER LEU THR SEQRES 25 C 452 LEU VAL PHE VAL GLU THR LYS LYS GLY ALA ASP SER LEU SEQRES 26 C 452 GLU ASP PHE LEU TYR HIS GLU GLY TYR ALA CYS THR SER SEQRES 27 C 452 ILE HIS GLY ASP ARG SER GLN ARG ASP ARG GLU GLU ALA SEQRES 28 C 452 LEU HIS GLN PHE ARG SER GLY LYS SER PRO ILE LEU VAL SEQRES 29 C 452 ALA THR ALA VAL ALA ALA ARG GLY LEU ASP ILE SER ASN SEQRES 30 C 452 VAL LYS HIS VAL ILE ASN PHE ASP LEU PRO SER ASP ILE SEQRES 31 C 452 GLU GLU TYR VAL HIS ARG ILE GLY ARG THR GLY ARG VAL SEQRES 32 C 452 GLY ASN LEU GLY LEU ALA THR SER PHE PHE ASN GLU ARG SEQRES 33 C 452 ASN ILE ASN ILE THR LYS ASP LEU LEU ASP LEU LEU VAL SEQRES 34 C 452 GLU ALA LYS GLN GLU VAL PRO SER TRP LEU GLU ASN MET SEQRES 35 C 452 ALA TYR GLU HIS HIS TYR LYS GLY SER SER HELIX 1 AA1 SER B 143 SER B 152 1 10 HELIX 2 AA2 SER B 181 VAL B 185 5 5 HELIX 3 AA3 MET B 187 THR B 198 1 12 HELIX 4 AA4 THR B 204 GLU B 216 1 13 HELIX 5 AA5 GLY B 229 ASP B 245 1 17 HELIX 6 AA6 GLY B 248 MET B 254 1 7 HELIX 7 AA7 THR B 275 SER B 290 1 16 HELIX 8 AA8 ASP B 305 GLU B 314 1 10 HELIX 9 AA9 THR B 323 ARG B 333 1 11 HELIX 10 AB1 GLU B 348 MET B 355 1 8 HELIX 11 AB2 PHE B 357 GLU B 366 1 10 HELIX 12 AB3 PRO B 386 LEU B 397 1 12 HELIX 13 AB4 GLU B 423 SER B 425 5 3 HELIX 14 AB5 ASP B 426 ALA B 437 1 12 HELIX 15 AB6 THR B 450 GLU B 464 1 15 HELIX 16 AB7 LEU B 484 GLY B 490 1 7 HELIX 17 AB8 ASP B 521 GLY B 530 1 10 HELIX 18 AB9 ASN B 546 ASN B 551 5 6 HELIX 19 AC1 ILE B 552 ALA B 563 1 12 HELIX 20 AC2 TRP B 570 TYR B 576 1 7 HELIX 21 AC3 ARG A 145 SER A 152 1 8 HELIX 22 AC4 MET A 187 THR A 198 1 12 HELIX 23 AC5 THR A 204 GLU A 216 1 13 HELIX 24 AC6 GLY A 229 GLY A 246 1 18 HELIX 25 AC7 GLY A 248 ALA A 253 1 6 HELIX 26 AC8 THR A 275 SER A 290 1 16 HELIX 27 AC9 ASP A 305 GLU A 314 1 10 HELIX 28 AD1 THR A 323 ARG A 333 1 11 HELIX 29 AD2 GLU A 348 MET A 355 1 8 HELIX 30 AD3 PHE A 357 GLN A 367 1 11 HELIX 31 AD4 PRO A 386 LEU A 397 1 12 HELIX 32 AD5 GLU A 423 SER A 425 5 3 HELIX 33 AD6 ASP A 426 THR A 438 1 13 HELIX 34 AD7 THR A 450 GLU A 464 1 15 HELIX 35 AD8 SER A 476 SER A 489 1 14 HELIX 36 AD9 THR A 498 ARG A 503 1 6 HELIX 37 AE1 ASP A 521 GLY A 530 1 10 HELIX 38 AE2 ASN A 546 ASN A 551 5 6 HELIX 39 AE3 ILE A 552 ALA A 563 1 12 HELIX 40 AE4 PRO A 568 GLU A 577 1 10 HELIX 41 AE5 SER C 143 PHE C 151 1 9 HELIX 42 AE6 SER C 181 VAL C 185 5 5 HELIX 43 AE7 GLY C 188 THR C 198 1 11 HELIX 44 AE8 THR C 204 GLU C 216 1 13 HELIX 45 AE9 GLY C 229 GLY C 246 1 18 HELIX 46 AF1 GLY C 248 ALA C 253 1 6 HELIX 47 AF2 THR C 275 SER C 290 1 16 HELIX 48 AF3 ASP C 305 ARG C 315 1 11 HELIX 49 AF4 THR C 323 ARG C 333 1 11 HELIX 50 AF5 GLU C 348 MET C 355 1 8 HELIX 51 AF6 PHE C 357 GLN C 367 1 11 HELIX 52 AF7 PRO C 386 LEU C 397 1 12 HELIX 53 AF8 GLU C 423 SER C 425 5 3 HELIX 54 AF9 ASP C 426 THR C 438 1 13 HELIX 55 AG1 THR C 450 GLU C 464 1 15 HELIX 56 AG2 SER C 476 SER C 489 1 14 HELIX 57 AG3 ASP C 521 GLY C 530 1 10 HELIX 58 AG4 ASN C 546 ASN C 551 5 6 HELIX 59 AG5 ILE C 552 ALA C 563 1 12 SHEET 1 AA1 8 GLU B 169 THR B 171 0 SHEET 2 AA1 8 ILE B 401 ALA B 404 -1 O PHE B 402 N THR B 171 SHEET 3 AA1 8 LEU B 220 CYS B 223 1 N CYS B 223 O LEU B 403 SHEET 4 AA1 8 HIS B 377 PHE B 381 1 O MET B 380 N LEU B 220 SHEET 5 AA1 8 TYR B 343 LEU B 346 1 N LEU B 346 O PHE B 381 SHEET 6 AA1 8 SER B 269 LEU B 272 1 N LEU B 270 O TYR B 343 SHEET 7 AA1 8 LEU B 319 ALA B 322 1 O LEU B 320 N VAL B 271 SHEET 8 AA1 8 PRO B 297 VAL B 300 1 N CYS B 298 O VAL B 321 SHEET 1 AA2 6 ILE B 415 TRP B 421 0 SHEET 2 AA2 6 GLY B 539 PHE B 545 1 O ALA B 541 N LYS B 418 SHEET 3 AA2 6 HIS B 512 ASN B 515 1 N VAL B 513 O LEU B 540 SHEET 4 AA2 6 THR B 444 PHE B 447 1 N LEU B 445 O ILE B 514 SHEET 5 AA2 6 ILE B 494 ALA B 497 1 O LEU B 495 N VAL B 446 SHEET 6 AA2 6 CYS B 468 ILE B 471 1 N THR B 469 O VAL B 496 SHEET 1 AA3 8 GLU A 169 THR A 171 0 SHEET 2 AA3 8 ILE A 401 ALA A 404 -1 O ALA A 404 N GLU A 169 SHEET 3 AA3 8 LEU A 220 CYS A 223 1 N CYS A 223 O LEU A 403 SHEET 4 AA3 8 HIS A 377 PHE A 381 1 O MET A 380 N LEU A 220 SHEET 5 AA3 8 TYR A 343 LEU A 346 1 N LEU A 344 O HIS A 377 SHEET 6 AA3 8 SER A 269 LEU A 272 1 N LEU A 272 O VAL A 345 SHEET 7 AA3 8 LEU A 319 ALA A 322 1 O LEU A 320 N VAL A 271 SHEET 8 AA3 8 PRO A 297 VAL A 300 1 N CYS A 298 O VAL A 321 SHEET 1 AA4 6 ILE A 415 TRP A 421 0 SHEET 2 AA4 6 GLY A 539 PHE A 545 1 O ALA A 541 N THR A 416 SHEET 3 AA4 6 HIS A 512 ASN A 515 1 N VAL A 513 O LEU A 540 SHEET 4 AA4 6 THR A 444 PHE A 447 1 N LEU A 445 O ILE A 514 SHEET 5 AA4 6 ILE A 494 ALA A 497 1 O LEU A 495 N VAL A 446 SHEET 6 AA4 6 CYS A 468 ILE A 471 1 N THR A 469 O VAL A 496 SHEET 1 AA5 8 GLU C 169 THR C 171 0 SHEET 2 AA5 8 ILE C 401 ALA C 404 -1 O PHE C 402 N THR C 171 SHEET 3 AA5 8 LEU C 220 CYS C 223 1 N CYS C 223 O LEU C 403 SHEET 4 AA5 8 HIS C 377 SER C 382 1 O MET C 380 N LEU C 220 SHEET 5 AA5 8 TYR C 343 LEU C 346 1 N LEU C 344 O HIS C 377 SHEET 6 AA5 8 SER C 269 LEU C 272 1 N LEU C 272 O VAL C 345 SHEET 7 AA5 8 LEU C 319 ALA C 322 1 O LEU C 320 N VAL C 271 SHEET 8 AA5 8 PRO C 297 VAL C 300 1 N CYS C 298 O VAL C 321 SHEET 1 AA6 6 THR C 416 TRP C 421 0 SHEET 2 AA6 6 LEU C 540 PHE C 545 1 O ALA C 541 N LYS C 418 SHEET 3 AA6 6 HIS C 512 ASN C 515 1 N ASN C 515 O THR C 542 SHEET 4 AA6 6 THR C 444 VAL C 448 1 N LEU C 445 O ILE C 514 SHEET 5 AA6 6 ILE C 494 THR C 498 1 O LEU C 495 N VAL C 446 SHEET 6 AA6 6 CYS C 468 ILE C 471 1 N THR C 469 O VAL C 496 CRYST1 92.710 105.380 94.610 90.00 114.54 90.00 P 1 21 1 6 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 0.010786 0.000000 0.004926 0.00000 SCALE2 0.000000 0.009489 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011620 0.00000