HEADER PROTEIN BINDING 06-OCT-17 5YIR TITLE CRYSTAL STRUCTURE OF ANKB LIR/GABARAP COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: GAMMA-AMINOBUTYRIC ACID RECEPTOR-ASSOCIATED PROTEIN; COMPND 3 CHAIN: D, A, B; COMPND 4 SYNONYM: GABA(A) RECEPTOR-ASSOCIATED PROTEIN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: ANKYRIN-2; COMPND 8 CHAIN: C, G, H; COMPND 9 FRAGMENT: UNP RESIDUES 1588-1614; COMPND 10 SYNONYM: ANK-2,ANKYRIN-B,BRAIN ANKYRIN,NON-ERYTHROID ANKYRIN; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: GABARAP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: ANK2; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS AUTOPHAGY, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR J.LI,R.ZHU,K.CHEN,H.ZHENG,C.YUAN,H.ZHANG,C.WANG,M.ZHANG REVDAT 4 22-NOV-23 5YIR 1 LINK REVDAT 3 01-AUG-18 5YIR 1 JRNL REVDAT 2 04-JUL-18 5YIR 1 JRNL REVDAT 1 23-MAY-18 5YIR 0 JRNL AUTH J.LI,R.ZHU,K.CHEN,H.ZHENG,H.ZHAO,C.YUAN,H.ZHANG,C.WANG, JRNL AUTH 2 M.ZHANG JRNL TITL POTENT AND SPECIFIC ATG8-TARGETING AUTOPHAGY INHIBITORY JRNL TITL 2 PEPTIDES FROM GIANT ANKYRINS. JRNL REF NAT. CHEM. BIOL. V. 14 778 2018 JRNL REFN ESSN 1552-4469 JRNL PMID 29867141 JRNL DOI 10.1038/S41589-018-0082-8 REMARK 2 REMARK 2 RESOLUTION. 2.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.12_2829 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) : 2.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.59 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.010 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 18543 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.160 REMARK 3 FREE R VALUE TEST SET COUNT : 956 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 27.5910 - 5.2472 0.99 2537 102 0.1811 0.2064 REMARK 3 2 5.2472 - 4.1695 1.00 2516 144 0.1547 0.1642 REMARK 3 3 4.1695 - 3.6438 1.00 2490 152 0.1669 0.2284 REMARK 3 4 3.6438 - 3.3112 0.98 2500 137 0.1849 0.2640 REMARK 3 5 3.3112 - 3.0742 1.00 2530 121 0.2112 0.2467 REMARK 3 6 3.0742 - 2.8932 1.00 2499 164 0.2262 0.2809 REMARK 3 7 2.8932 - 2.7500 1.00 2515 136 0.2355 0.3034 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) : 0.330 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.480 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 52.18 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.66 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 : 0.006 3399 REMARK 3 ANGLE : 1.119 4603 REMARK 3 CHIRALITY : 0.076 491 REMARK 3 PLANARITY : 0.006 597 REMARK 3 DIHEDRAL : 9.419 2037 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 : 2 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: (CHAIN C AND (RESID 1987 THROUGH 2001 OR REMARK 3 (RESID 2002 THROUGH 2004 AND (NAME N OR REMARK 3 NAME CA OR NAME C OR NAME O OR NAME CB ))) REMARK 3 ) REMARK 3 SELECTION : (CHAIN G AND (RESID 1987 THROUGH 2001 OR REMARK 3 (RESID 2002 THROUGH 2004 AND (NAME N OR REMARK 3 NAME CA OR NAME C OR NAME O OR NAME CB ))) REMARK 3 ) REMARK 3 ATOM PAIRS NUMBER : 243 REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: (CHAIN C AND (RESID 1987 THROUGH 2001 OR REMARK 3 (RESID 2002 THROUGH 2004 AND (NAME N OR REMARK 3 NAME CA OR NAME C OR NAME O OR NAME CB ))) REMARK 3 ) REMARK 3 SELECTION : (CHAIN H AND RESID 1987 THROUGH 2004) REMARK 3 ATOM PAIRS NUMBER : 243 REMARK 3 RMSD : NULL REMARK 3 NCS GROUP : 2 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: (CHAIN A AND (RESID 1 THROUGH 65 OR REMARK 3 (RESID 66 AND (NAME N OR NAME CA OR NAME REMARK 3 C OR NAME O OR NAME CB OR NAME CG OR NAME REMARK 3 CD )) OR RESID 67 THROUGH 117)) REMARK 3 SELECTION : (CHAIN B AND (RESID 1 THROUGH 23 OR REMARK 3 (RESID 24 AND (NAME N OR NAME CA OR NAME REMARK 3 C OR NAME O OR NAME CB OR NAME CG )) OR REMARK 3 RESID 25 THROUGH 65 OR (RESID 66 AND REMARK 3 (NAME N OR NAME CA OR NAME C OR NAME O OR REMARK 3 NAME CB OR NAME CG OR NAME CD )) OR RESID REMARK 3 67 THROUGH 96 OR (RESID 97 AND (NAME N OR REMARK 3 NAME CA OR NAME C OR NAME O OR NAME CB )) REMARK 3 OR RESID 98 THROUGH 117)) REMARK 3 ATOM PAIRS NUMBER : 1695 REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: (CHAIN A AND (RESID 1 THROUGH 65 OR REMARK 3 (RESID 66 AND (NAME N OR NAME CA OR NAME REMARK 3 C OR NAME O OR NAME CB OR NAME CG OR NAME REMARK 3 CD )) OR RESID 67 THROUGH 117)) REMARK 3 SELECTION : (CHAIN D AND (RESID 1 THROUGH 6 OR (RESID REMARK 3 7 AND (NAME N OR NAME CA OR NAME C OR REMARK 3 NAME O OR NAME CB )) OR RESID 8 THROUGH REMARK 3 39 OR (RESID 40 AND (NAME N OR NAME CA OR REMARK 3 NAME C OR NAME O OR NAME CB )) OR RESID REMARK 3 41 THROUGH 96 OR (RESID 97 AND (NAME N OR REMARK 3 NAME CA OR NAME C OR NAME O OR NAME CB )) REMARK 3 OR RESID 98 THROUGH 117)) REMARK 3 ATOM PAIRS NUMBER : 1695 REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5YIR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-OCT-17. REMARK 100 THE DEPOSITION ID IS D_1300005360. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-OCT-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL19U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97774 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18585 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.750 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.09900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 3.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.40 REMARK 200 R MERGE FOR SHELL (I) : 0.56000 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 REMARK 200 STARTING MODEL: 1KJT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12% W/V PEG 3350, 5 MM COCL2, 5 MM REMARK 280 NICL2, 5 MM CDCL2, 5 MM MGCL2, 0.1 M HEPES BUFFER (PH 7.5), REMARK 280 VAPOR DIFFUSION, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 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 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 59.56267 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 29.78133 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 KCAL/MOL 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: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2070 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -27.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, H 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 VAL C 1985 REMARK 465 GLU C 1986 REMARK 465 PRO C 2005 REMARK 465 LEU C 2006 REMARK 465 GLU C 2007 REMARK 465 ILE C 2008 REMARK 465 THR C 2009 REMARK 465 GLU C 2010 REMARK 465 TYR C 2011 REMARK 465 VAL G 1985 REMARK 465 GLU G 1986 REMARK 465 LEU G 2006 REMARK 465 GLU G 2007 REMARK 465 ILE G 2008 REMARK 465 THR G 2009 REMARK 465 GLU G 2010 REMARK 465 TYR G 2011 REMARK 465 VAL H 1985 REMARK 465 GLU H 1986 REMARK 465 ILE H 2008 REMARK 465 THR H 2009 REMARK 465 GLU H 2010 REMARK 465 TYR H 2011 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 LYS D 2 CG CD CE NZ REMARK 470 GLU D 12 CG CD OE1 OE2 REMARK 470 LYS D 13 CE NZ REMARK 470 LYS D 20 CG CD CE NZ REMARK 470 LYS D 24 CD CE NZ REMARK 470 LYS D 66 CE NZ REMARK 470 ARG D 71 CG CD NE CZ NH1 NH2 REMARK 470 GLU D 73 CG CD OE1 OE2 REMARK 470 GLU D 101 CG CD OE1 OE2 REMARK 470 LYS A 2 CG CD CE NZ REMARK 470 GLU A 7 CG CD OE1 OE2 REMARK 470 GLU A 12 CG CD OE1 OE2 REMARK 470 LYS A 13 CE NZ REMARK 470 LYS A 20 CG CD CE NZ REMARK 470 LYS A 24 CD CE NZ REMARK 470 ARG A 40 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 71 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 73 CG CD OE1 OE2 REMARK 470 GLU A 97 CG CD OE1 OE2 REMARK 470 GLU A 101 CG CD OE1 OE2 REMARK 470 LYS B 2 CG CD CE NZ REMARK 470 GLU B 7 CG CD OE1 OE2 REMARK 470 GLU B 12 CG CD OE1 OE2 REMARK 470 LYS B 13 CE NZ REMARK 470 LYS B 20 CG CD CE NZ REMARK 470 ARG B 40 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 71 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 73 CG CD OE1 OE2 REMARK 470 GLU B 101 CG CD OE1 OE2 REMARK 470 LYS G2003 CG CD CE NZ REMARK 470 GLN H2002 CG CD OE1 NE2 REMARK 470 LYS H2003 CG CD CE NZ REMARK 470 GLU H2007 CG CD OE1 OE2 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 ASP D 43 CB - CG - OD1 ANGL. DEV. = -5.5 DEGREES REMARK 500 ASP D 45 CB - CG - OD2 ANGL. DEV. = -5.8 DEGREES REMARK 500 GLU C1988 CA - CB - CG ANGL. DEV. = 13.7 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 ARG A 40 74.73 64.24 REMARK 500 LYS C2003 49.21 -81.30 REMARK 500 REMARK 500 REMARK: NULL 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 NI B 201 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS D 69 NE2 REMARK 620 2 HOH D 307 O 123.1 REMARK 620 3 HIS B 9 NE2 86.9 148.5 REMARK 620 4 HOH H2101 O 78.8 105.1 88.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI D 202 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU D 97 OE1 REMARK 620 2 HIS D 98 NE2 92.1 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI D 201 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS D 99 NE2 REMARK 620 2 GLU D 112 OE1 46.4 REMARK 620 3 HOH D 303 O 80.2 83.8 REMARK 620 4 HOH D 304 O 96.3 102.4 167.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI D 203 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH C2101 O REMARK 620 2 GLU G1995 OE2 102.0 REMARK 620 3 HOH G2103 O 109.2 130.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 203 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 9 NE2 REMARK 620 2 HOH A 305 O 96.3 REMARK 620 3 GLU G1987 OE1 91.5 98.0 REMARK 620 4 HOH G2101 O 83.8 159.6 61.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 202 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 69 NE2 REMARK 620 2 HOH A 304 O 137.1 REMARK 620 3 HIS B 69 NE2 96.8 101.7 REMARK 620 4 HOH B 301 O 84.9 137.9 67.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 201 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 99 NE2 REMARK 620 2 GLU A 112 OE1 52.1 REMARK 620 3 GLU A 112 OE2 48.8 3.9 REMARK 620 4 HOH A 301 O 47.2 5.3 1.7 REMARK 620 5 HOH A 303 O 54.1 2.0 5.6 7.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 203 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 97 OE1 REMARK 620 2 HIS B 98 NE2 88.5 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 202 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 99 NE2 REMARK 620 2 GLU B 112 OE2 51.0 REMARK 620 3 HOH B 303 O 97.4 106.6 REMARK 620 4 HOH B 304 O 87.1 85.0 167.9 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI D 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI D 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI D 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI B 203 DBREF 5YIR D 1 117 UNP Q9DCD6 GBRAP_MOUSE 1 117 DBREF 5YIR A 1 117 UNP Q9DCD6 GBRAP_MOUSE 1 117 DBREF 5YIR B 1 117 UNP Q9DCD6 GBRAP_MOUSE 1 117 DBREF 5YIR C 1985 2011 UNP Q01484 ANK2_HUMAN 1588 1614 DBREF 5YIR G 1985 2011 UNP Q01484 ANK2_HUMAN 1588 1614 DBREF 5YIR H 1985 2011 UNP Q01484 ANK2_HUMAN 1588 1614 SEQRES 1 D 117 MET LYS PHE VAL TYR LYS GLU GLU HIS PRO PHE GLU LYS SEQRES 2 D 117 ARG ARG SER GLU GLY GLU LYS ILE ARG LYS LYS TYR PRO SEQRES 3 D 117 ASP ARG VAL PRO VAL ILE VAL GLU LYS ALA PRO LYS ALA SEQRES 4 D 117 ARG ILE GLY ASP LEU ASP LYS LYS LYS TYR LEU VAL PRO SEQRES 5 D 117 SER ASP LEU THR VAL GLY GLN PHE TYR PHE LEU ILE ARG SEQRES 6 D 117 LYS ARG ILE HIS LEU ARG ALA GLU ASP ALA LEU PHE PHE SEQRES 7 D 117 PHE VAL ASN ASN VAL ILE PRO PRO THR SER ALA THR MET SEQRES 8 D 117 GLY GLN LEU TYR GLN GLU HIS HIS GLU GLU ASP PHE PHE SEQRES 9 D 117 LEU TYR ILE ALA TYR SER ASP GLU SER VAL TYR GLY LEU SEQRES 1 A 117 MET LYS PHE VAL TYR LYS GLU GLU HIS PRO PHE GLU LYS SEQRES 2 A 117 ARG ARG SER GLU GLY GLU LYS ILE ARG LYS LYS TYR PRO SEQRES 3 A 117 ASP ARG VAL PRO VAL ILE VAL GLU LYS ALA PRO LYS ALA SEQRES 4 A 117 ARG ILE GLY ASP LEU ASP LYS LYS LYS TYR LEU VAL PRO SEQRES 5 A 117 SER ASP LEU THR VAL GLY GLN PHE TYR PHE LEU ILE ARG SEQRES 6 A 117 LYS ARG ILE HIS LEU ARG ALA GLU ASP ALA LEU PHE PHE SEQRES 7 A 117 PHE VAL ASN ASN VAL ILE PRO PRO THR SER ALA THR MET SEQRES 8 A 117 GLY GLN LEU TYR GLN GLU HIS HIS GLU GLU ASP PHE PHE SEQRES 9 A 117 LEU TYR ILE ALA TYR SER ASP GLU SER VAL TYR GLY LEU SEQRES 1 B 117 MET LYS PHE VAL TYR LYS GLU GLU HIS PRO PHE GLU LYS SEQRES 2 B 117 ARG ARG SER GLU GLY GLU LYS ILE ARG LYS LYS TYR PRO SEQRES 3 B 117 ASP ARG VAL PRO VAL ILE VAL GLU LYS ALA PRO LYS ALA SEQRES 4 B 117 ARG ILE GLY ASP LEU ASP LYS LYS LYS TYR LEU VAL PRO SEQRES 5 B 117 SER ASP LEU THR VAL GLY GLN PHE TYR PHE LEU ILE ARG SEQRES 6 B 117 LYS ARG ILE HIS LEU ARG ALA GLU ASP ALA LEU PHE PHE SEQRES 7 B 117 PHE VAL ASN ASN VAL ILE PRO PRO THR SER ALA THR MET SEQRES 8 B 117 GLY GLN LEU TYR GLN GLU HIS HIS GLU GLU ASP PHE PHE SEQRES 9 B 117 LEU TYR ILE ALA TYR SER ASP GLU SER VAL TYR GLY LEU SEQRES 1 C 27 VAL GLU GLU GLU TRP VAL ILE VAL SER ASP GLU GLU ILE SEQRES 2 C 27 GLU GLU ALA ARG GLN LYS ALA PRO LEU GLU ILE THR GLU SEQRES 3 C 27 TYR SEQRES 1 G 27 VAL GLU GLU GLU TRP VAL ILE VAL SER ASP GLU GLU ILE SEQRES 2 G 27 GLU GLU ALA ARG GLN LYS ALA PRO LEU GLU ILE THR GLU SEQRES 3 G 27 TYR SEQRES 1 H 27 VAL GLU GLU GLU TRP VAL ILE VAL SER ASP GLU GLU ILE SEQRES 2 H 27 GLU GLU ALA ARG GLN LYS ALA PRO LEU GLU ILE THR GLU SEQRES 3 H 27 TYR HET NI D 201 1 HET NI D 202 1 HET NI D 203 1 HET NI A 201 1 HET NI A 202 1 HET NI A 203 1 HET NI A 204 1 HET NI B 201 1 HET NI B 202 1 HET NI B 203 1 HETNAM NI NICKEL (II) ION FORMUL 7 NI 10(NI 2+) FORMUL 17 HOH *21(H2 O) HELIX 1 AA1 PHE D 3 HIS D 9 1 7 HELIX 2 AA2 PRO D 10 TYR D 25 1 16 HELIX 3 AA3 THR D 56 HIS D 69 1 14 HELIX 4 AA4 THR D 90 HIS D 99 1 10 HELIX 5 AA5 PHE A 3 HIS A 9 1 7 HELIX 6 AA6 PRO A 10 TYR A 25 1 16 HELIX 7 AA7 THR A 56 HIS A 69 1 14 HELIX 8 AA8 THR A 90 HIS A 99 1 10 HELIX 9 AA9 PHE B 3 HIS B 9 1 7 HELIX 10 AB1 PRO B 10 TYR B 25 1 16 HELIX 11 AB2 THR B 56 HIS B 69 1 14 HELIX 12 AB3 THR B 90 HIS B 99 1 10 HELIX 13 AB4 SER C 1993 LYS C 2003 1 11 HELIX 14 AB5 SER G 1993 ALA G 2004 1 12 HELIX 15 AB6 SER H 1993 ALA H 2004 1 12 SHEET 1 AA1 5 PHE D 77 PHE D 79 0 SHEET 2 AA1 5 LEU D 105 SER D 110 -1 O SER D 110 N PHE D 77 SHEET 3 AA1 5 ARG D 28 LYS D 35 1 N ILE D 32 O LEU D 105 SHEET 4 AA1 5 LYS D 48 PRO D 52 -1 O TYR D 49 N VAL D 31 SHEET 5 AA1 5 VAL C1990 ILE C1991 1 O VAL C1990 N LYS D 48 SHEET 1 AA2 5 PHE A 77 PHE A 79 0 SHEET 2 AA2 5 LEU A 105 SER A 110 -1 O SER A 110 N PHE A 77 SHEET 3 AA2 5 ARG A 28 LYS A 35 1 N ILE A 32 O LEU A 105 SHEET 4 AA2 5 LYS A 48 PRO A 52 -1 O TYR A 49 N VAL A 31 SHEET 5 AA2 5 VAL G1990 ILE G1991 1 O VAL G1990 N LYS A 48 SHEET 1 AA3 5 PHE B 77 PHE B 79 0 SHEET 2 AA3 5 LEU B 105 SER B 110 -1 O SER B 110 N PHE B 77 SHEET 3 AA3 5 ARG B 28 LYS B 35 1 N ILE B 32 O LEU B 105 SHEET 4 AA3 5 LYS B 48 PRO B 52 -1 O VAL B 51 N VAL B 29 SHEET 5 AA3 5 VAL H1990 ILE H1991 1 O VAL H1990 N LEU B 50 LINK NE2 HIS D 69 NI NI B 201 1555 1555 2.09 LINK OE1 GLU D 97 NI NI D 202 1555 1555 2.44 LINK NE2 HIS D 98 NI NI D 202 1555 1555 2.80 LINK NE2 HIS D 99 NI NI D 201 1555 1555 2.20 LINK OE1 GLU D 112 NI NI D 201 1555 3655 2.00 LINK NI NI D 201 O HOH D 303 1555 2544 2.00 LINK NI NI D 201 O HOH D 304 1555 2544 2.31 LINK NI NI D 203 O HOH C2101 1555 1555 2.23 LINK NI NI D 203 OE2 GLU G1995 1555 1555 2.31 LINK NI NI D 203 O HOH G2103 1555 1555 2.31 LINK O HOH D 307 NI NI B 201 1555 1555 2.48 LINK NE2 HIS A 9 NI NI A 203 1555 1555 2.16 LINK NE2 HIS A 69 NI NI A 202 1555 1555 2.20 LINK NE2 HIS A 98 NI NI A 204 1555 1555 2.47 LINK NE2 HIS A 99 NI NI A 201 1555 2554 2.23 LINK OE1 GLU A 112 NI NI A 201 1555 1555 2.18 LINK OE2 GLU A 112 NI NI A 201 1555 1555 2.36 LINK NI NI A 201 O HOH A 301 1555 1555 2.16 LINK NI NI A 201 O HOH A 303 1555 1555 2.17 LINK NI NI A 202 O HOH A 304 1555 1555 2.18 LINK NI NI A 202 NE2 HIS B 69 1555 1555 2.38 LINK NI NI A 202 O HOH B 301 1555 1555 2.00 LINK NI NI A 203 O HOH A 305 1555 1555 2.18 LINK NI NI A 203 OE1 GLU G1987 1555 1555 2.28 LINK NI NI A 203 O HOH G2101 1555 1555 2.45 LINK NE2 HIS B 9 NI NI B 201 1555 1555 2.14 LINK OE1 GLU B 97 NI NI B 203 1555 1555 2.57 LINK NE2 HIS B 98 NI NI B 203 1555 1555 2.72 LINK NE2 HIS B 99 NI NI B 202 1555 1555 2.21 LINK OE2 GLU B 112 NI NI B 202 1555 3665 2.01 LINK NI NI B 201 O HOH H2101 1555 1555 2.00 LINK NI NI B 202 O HOH B 303 1555 2654 2.25 LINK NI NI B 202 O HOH B 304 1555 2654 2.33 SITE 1 AC1 4 HIS D 99 GLU D 112 HOH D 303 HOH D 304 SITE 1 AC2 2 GLU D 97 HIS D 98 SITE 1 AC3 4 HOH C2101 HIS D 9 GLU G1995 HOH G2103 SITE 1 AC4 4 HIS A 99 GLU A 112 HOH A 301 HOH A 303 SITE 1 AC5 4 HIS A 69 HOH A 304 HIS B 69 HOH B 301 SITE 1 AC6 4 HIS A 9 HOH A 305 GLU G1987 HOH G2101 SITE 1 AC7 1 HIS A 98 SITE 1 AC8 5 HIS B 9 HIS D 69 HOH D 307 GLU H1987 SITE 2 AC8 5 HOH H2101 SITE 1 AC9 4 HIS B 99 GLU B 112 HOH B 303 HOH B 304 SITE 1 AD1 2 GLU B 97 HIS B 98 CRYST1 84.637 84.637 89.344 90.00 90.00 120.00 P 32 9 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 0.011815 0.006821 0.000000 0.00000 SCALE2 0.000000 0.013643 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011193 0.00000