PDB Short entry for 4DW1 HEADER TRANSPORT PROTEIN 24-FEB-12 4DW1 TITLE CRYSTAL STRUCTURE OF THE ATP-GATED P2X4 ION CHANNEL IN THE ATP-BOUND, TITLE 2 OPEN STATE AT 2.8 ANGSTROMS COMPND MOL_ID: 1; COMPND 2 MOLECULE: P2X PURINOCEPTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 28-365; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DANIO RERIO; SOURCE 3 ORGANISM_COMMON: LEOPARD DANIO,ZEBRA DANIO,ZEBRA FISH; SOURCE 4 ORGANISM_TAXID: 7955; SOURCE 5 GENE: P2RX4A; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: SF9; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: BACMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PFASTBAC KEYWDS ION CHANNEL, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.HATTORI,E.GOUAUX REVDAT 4 29-JUL-20 4DW1 1 COMPND REMARK SEQADV HETNAM REVDAT 4 2 1 LINK SITE ATOM REVDAT 3 09-JAN-13 4DW1 1 JRNL REVDAT 2 02-MAY-12 4DW1 1 JRNL REVDAT 1 25-APR-12 4DW1 0 JRNL AUTH M.HATTORI,E.GOUAUX JRNL TITL MOLECULAR MECHANISM OF ATP BINDING AND ION CHANNEL JRNL TITL 2 ACTIVATION IN P2X RECEPTORS. JRNL REF NATURE V. 485 207 2012 JRNL REFN ISSN 0028-0836 JRNL PMID 22535247 JRNL DOI 10.1038/NATURE11010 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7_650) 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.94 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 19928 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.254 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.090 REMARK 3 FREE R VALUE TEST SET COUNT : 1015 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 45.9460 - 5.3538 0.97 2779 136 0.2618 0.3043 REMARK 3 2 5.3538 - 4.2504 0.99 2723 158 0.1765 0.2250 REMARK 3 3 4.2504 - 3.7134 0.99 2715 123 0.1727 0.2446 REMARK 3 4 3.7134 - 3.3740 1.00 2714 140 0.1638 0.2228 REMARK 3 5 3.3740 - 3.1323 1.00 2662 162 0.1921 0.2012 REMARK 3 6 3.1323 - 2.9476 0.99 2671 154 0.2124 0.2659 REMARK 3 7 2.9476 - 2.8000 0.99 2649 142 0.2684 0.3005 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.95 REMARK 3 K_SOL : 0.30 REMARK 3 B_SOL : 80.04 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.300 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.840 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) : -6.85230 REMARK 3 B22 (A**2) : -6.85230 REMARK 3 B33 (A**2) : 13.70450 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 : 0.013 2718 REMARK 3 ANGLE : 1.566 3612 REMARK 3 CHIRALITY : 0.098 427 REMARK 3 PLANARITY : 0.006 452 REMARK 3 DIHEDRAL : 23.591 971 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 4DW1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-FEB-12. REMARK 100 THE DEPOSITION ID IS D_1000070853. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-MAR-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 5 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : CRYO-COOLED SI(111) DOUBLE REMARK 200 CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19941 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 7.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 76.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1 MM ATP, 20-26% PEG 2000, 300 MM REMARK 280 MG(NO3)2, 100 MM TRIS, PH 8, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-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 0.00000 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 0.00000 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 0.00000 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 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 64.39550 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 37.17876 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 84.02467 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 64.39550 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 37.17876 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 84.02467 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 64.39550 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 37.17876 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 84.02467 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 64.39550 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 37.17876 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 84.02467 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 64.39550 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 37.17876 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 84.02467 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 64.39550 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 37.17876 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 84.02467 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 74.35752 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 168.04933 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 74.35752 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 168.04933 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 74.35752 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 168.04933 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 74.35752 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 168.04933 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 74.35752 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 168.04933 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 74.35752 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 168.04933 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A TRIMER GENERATED FROM THE REMARK 300 PROTOMER IN THE ASYMMETRIC UNIT BY THE OPERATIONS: -Y, X-Y, Z AND Y- REMARK 300 X, -X, Z. 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 19650 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 44500 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 54.0 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 GLY A 26 REMARK 465 SER A 27 REMARK 465 SER A 28 REMARK 465 LYS A 29 REMARK 465 LYS A 30 REMARK 465 VAL A 31 REMARK 465 GLY A 32 REMARK 465 THR A 33 REMARK 465 LEU A 34 REMARK 465 ASN A 35 REMARK 465 VAL A 360 REMARK 465 LEU A 361 REMARK 465 THR A 362 REMARK 465 PHE A 363 REMARK 465 MET A 364 REMARK 465 LYS A 365 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 A 36 CG CD NE CZ NH1 NH2 REMARK 470 PHE A 37 CG CD1 CD2 CE1 CE2 CZ REMARK 470 TYR A 49 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASN A 54 CG OD1 ND2 REMARK 470 LYS A 55 CG CD CE NZ REMARK 470 LYS A 78 CG CD CE NZ REMARK 470 THR A 79 OG1 CG2 REMARK 470 SER A 80 OG REMARK 470 LEU A 82 CG CD1 CD2 REMARK 470 LYS A 118 CE NZ REMARK 470 LYS A 136 CG CD CE NZ REMARK 470 ARG A 151 CZ NH1 NH2 REMARK 470 LYS A 172 CG CD CE NZ REMARK 470 ARG A 187 CZ NH1 NH2 REMARK 470 ASN A 202 CG OD1 ND2 REMARK 470 LYS A 225 CG CD CE NZ REMARK 470 GLN A 270 CG CD OE1 NE2 REMARK 470 ARG A 276 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 280 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 290 CG OD1 ND2 REMARK 470 ASP A 307 CG OD1 OD2 REMARK 470 LYS A 332 CG CD CE NZ REMARK 470 LEU A 348 CG CD1 CD2 REMARK 470 LEU A 349 CG CD1 CD2 REMARK 470 VAL A 352 CG1 CG2 REMARK 470 VAL A 354 CG1 CG2 REMARK 470 CYS A 356 SG REMARK 470 TRP A 358 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 358 CZ3 CH2 REMARK 470 ILE A 359 CG1 CG2 CD1 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 113 C2 NAG A 507 1.94 REMARK 500 CG ASN A 213 C1 NAG B 1 2.15 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 A 124 149.29 -174.03 REMARK 500 THR A 130 -51.72 -127.76 REMARK 500 HIS A 219 -43.35 -130.45 REMARK 500 PRO A 231 46.28 -89.08 REMARK 500 CYS A 273 69.97 62.73 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 THR A 149 GLY A 150 -35.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4DW0 RELATED DB: PDB DBREF 4DW1 A 28 365 UNP Q6NYR1 Q6NYR1_DANRE 28 365 SEQADV 4DW1 GLY A 26 UNP Q6NYR1 EXPRESSION TAG SEQADV 4DW1 SER A 27 UNP Q6NYR1 EXPRESSION TAG SEQADV 4DW1 LYS A 78 UNP Q6NYR1 ASN 78 ENGINEERED MUTATION SEQADV 4DW1 ARG A 187 UNP Q6NYR1 ASN 187 ENGINEERED MUTATION SEQADV 4DW1 ARG A 252 UNP Q6NYR1 HIS 252 ENGINEERED MUTATION SEQRES 1 A 340 GLY SER SER LYS LYS VAL GLY THR LEU ASN ARG PHE THR SEQRES 2 A 340 GLN ALA LEU VAL ILE ALA TYR VAL ILE GLY TYR VAL CYS SEQRES 3 A 340 VAL TYR ASN LYS GLY TYR GLN ASP THR ASP THR VAL LEU SEQRES 4 A 340 SER SER VAL THR THR LYS VAL LYS GLY ILE ALA LEU THR SEQRES 5 A 340 LYS THR SER GLU LEU GLY GLU ARG ILE TRP ASP VAL ALA SEQRES 6 A 340 ASP TYR ILE ILE PRO PRO GLN GLU ASP GLY SER PHE PHE SEQRES 7 A 340 VAL LEU THR ASN MET ILE ILE THR THR ASN GLN THR GLN SEQRES 8 A 340 SER LYS CYS ALA GLU ASN PRO THR PRO ALA SER THR CYS SEQRES 9 A 340 THR SER HIS ARG ASP CYS LYS ARG GLY PHE ASN ASP ALA SEQRES 10 A 340 ARG GLY ASP GLY VAL ARG THR GLY ARG CYS VAL SER TYR SEQRES 11 A 340 SER ALA SER VAL LYS THR CYS GLU VAL LEU SER TRP CYS SEQRES 12 A 340 PRO LEU GLU LYS ILE VAL ASP PRO PRO ASN PRO PRO LEU SEQRES 13 A 340 LEU ALA ASP ALA GLU ARG PHE THR VAL LEU ILE LYS ASN SEQRES 14 A 340 ASN ILE ARG TYR PRO LYS PHE ASN PHE ASN LYS ARG ASN SEQRES 15 A 340 ILE LEU PRO ASN ILE ASN SER SER TYR LEU THR HIS CYS SEQRES 16 A 340 VAL PHE SER ARG LYS THR ASP PRO ASP CYS PRO ILE PHE SEQRES 17 A 340 ARG LEU GLY ASP ILE VAL GLY GLU ALA GLU GLU ASP PHE SEQRES 18 A 340 GLN ILE MET ALA VAL ARG GLY GLY VAL MET GLY VAL GLN SEQRES 19 A 340 ILE ARG TRP ASP CYS ASP LEU ASP MET PRO GLN SER TRP SEQRES 20 A 340 CYS VAL PRO ARG TYR THR PHE ARG ARG LEU ASP ASN LYS SEQRES 21 A 340 ASP PRO ASP ASN ASN VAL ALA PRO GLY TYR ASN PHE ARG SEQRES 22 A 340 PHE ALA LYS TYR TYR LYS ASN SER ASP GLY THR GLU THR SEQRES 23 A 340 ARG THR LEU ILE LYS GLY TYR GLY ILE ARG PHE ASP VAL SEQRES 24 A 340 MET VAL PHE GLY GLN ALA GLY LYS PHE ASN ILE ILE PRO SEQRES 25 A 340 THR LEU LEU ASN ILE GLY ALA GLY LEU ALA LEU LEU GLY SEQRES 26 A 340 LEU VAL ASN VAL ILE CYS ASP TRP ILE VAL LEU THR PHE SEQRES 27 A 340 MET LYS MODRES 4DW1 ASN A 113 ASN GLYCOSYLATION SITE MODRES 4DW1 ASN A 213 ASN GLYCOSYLATION SITE HET NAG B 1 14 HET NAG B 2 14 HET BMA B 3 11 HET MAN B 4 11 HET MAN B 5 11 HET MAN B 6 11 HET NAG A 507 14 HET ATP A 508 31 HET GOL A 509 6 HET GOL A 510 6 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 NAG 3(C8 H15 N O6) FORMUL 2 BMA C6 H12 O6 FORMUL 2 MAN 3(C6 H12 O6) FORMUL 4 ATP C10 H16 N5 O13 P3 FORMUL 5 GOL 2(C3 H8 O3) FORMUL 7 HOH *92(H2 O) HELIX 1 1 ARG A 36 ALA A 44 1 9 HELIX 2 2 ALA A 44 TYR A 49 1 6 HELIX 3 3 ASP A 88 ILE A 93 1 6 HELIX 4 4 SER A 131 CYS A 135 5 5 HELIX 5 5 LEU A 182 ARG A 187 5 6 HELIX 6 6 PRO A 199 ASN A 202 5 4 HELIX 7 7 ASN A 213 CYS A 220 1 8 HELIX 8 8 LEU A 235 ALA A 242 1 8 HELIX 9 9 ASP A 245 GLY A 253 1 9 HELIX 10 10 ASN A 334 ILE A 359 1 26 SHEET 1 A 3 GLN A 58 THR A 62 0 SHEET 2 A 3 GLN A 329 PHE A 333 -1 O ALA A 330 N ASP A 61 SHEET 3 A 3 CYS A 264 ASP A 265 1 N CYS A 264 O GLY A 331 SHEET 1 B 3 LEU A 64 LYS A 72 0 SHEET 2 B 3 THR A 189 TYR A 198 -1 O THR A 189 N LYS A 72 SHEET 3 B 3 PHE A 203 ARG A 206 -1 O LYS A 205 N ILE A 196 SHEET 1 C 3 LEU A 64 LYS A 72 0 SHEET 2 C 3 THR A 189 TYR A 198 -1 O THR A 189 N LYS A 72 SHEET 3 C 3 ILE A 232 ARG A 234 -1 O PHE A 233 N VAL A 190 SHEET 1 D 2 ALA A 75 THR A 79 0 SHEET 2 D 2 GLY A 83 TRP A 87 -1 O ARG A 85 N THR A 77 SHEET 1 E 6 VAL A 147 SER A 154 0 SHEET 2 E 6 LYS A 160 CYS A 168 -1 O LEU A 165 N VAL A 147 SHEET 3 E 6 SER A 101 ALA A 120 -1 N SER A 117 O SER A 166 SHEET 4 E 6 GLU A 310 PHE A 327 -1 O PHE A 322 N PHE A 102 SHEET 5 E 6 GLY A 254 ARG A 261 1 N ILE A 260 O MET A 325 SHEET 6 E 6 ARG A 276 ARG A 281 -1 O ARG A 280 N GLY A 257 SHEET 1 F 5 VAL A 147 SER A 154 0 SHEET 2 F 5 LYS A 160 CYS A 168 -1 O LEU A 165 N VAL A 147 SHEET 3 F 5 SER A 101 ALA A 120 -1 N SER A 117 O SER A 166 SHEET 4 F 5 GLU A 310 PHE A 327 -1 O PHE A 322 N PHE A 102 SHEET 5 F 5 ASN A 296 LYS A 304 -1 N PHE A 299 O ILE A 315 SSBOND 1 CYS A 119 CYS A 168 1555 1555 2.06 SSBOND 2 CYS A 129 CYS A 152 1555 1555 2.03 SSBOND 3 CYS A 135 CYS A 162 1555 1555 2.04 SSBOND 4 CYS A 220 CYS A 230 1555 1555 2.05 SSBOND 5 CYS A 264 CYS A 273 1555 1555 2.03 LINK ND2 ASN A 113 C1 NAG A 507 1555 1555 1.43 LINK ND2 ASN A 213 C1 NAG B 1 1555 1555 1.46 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.43 LINK O4 NAG B 2 C1 BMA B 3 1555 1555 1.45 LINK O3 BMA B 3 C1 MAN B 4 1555 1555 1.47 LINK O6 BMA B 3 C1 MAN B 6 1555 1555 1.45 LINK O3 MAN B 4 C1 MAN B 5 1555 1555 1.45 CISPEP 1 SER A 80 GLU A 81 0 -18.20 CISPEP 2 ILE A 94 PRO A 95 0 -5.10 CISPEP 3 CYS A 168 PRO A 169 0 0.62 CISPEP 4 ASN A 178 PRO A 179 0 5.71 CRYST1 128.791 128.791 252.074 90.00 90.00 120.00 H 3 2 18 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 0.007765 0.004483 0.000000 0.00000 SCALE2 0.000000 0.008966 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003967 0.00000