PDB Short entry for 4U6S HEADER OXIDOREDUCTASE 29-JUL-14 4U6S TITLE CTBP1 IN COMPLEX WITH SUBSTRATE PHENYLPYRUVATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: C-TERMINAL-BINDING PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: NAD NUCLEOTIDE BINDING RESIDUES 28-353; COMPND 5 SYNONYM: CTBP1; COMPND 6 EC: 1.1.1.-; COMPND 7 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: CTBP1, CTBP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-DE3; SOURCE 9 EXPRESSION_SYSTEM_VARIANT: RIL+; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS ROSSMAN FOLD, TRANSCRIPTION REGULATOR, CANCER, SUBSTRATE, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR B.J.HILBERT,B.L.MORRIS,K.C.ELLIS,J.L.PAULSEN,C.A.SCHIFFER, AUTHOR 2 S.R.GROSSMAN,W.E.ROYER JR. REVDAT 3 27-SEP-23 4U6S 1 SOURCE REMARK LINK REVDAT 2 29-APR-15 4U6S 1 JRNL REVDAT 1 11-FEB-15 4U6S 0 JRNL AUTH B.J.HILBERT,B.L.MORRIS,K.C.ELLIS,J.L.PAULSEN,C.A.SCHIFFER, JRNL AUTH 2 S.R.GROSSMAN,W.E.ROYER JRNL TITL STRUCTURE-GUIDED DESIGN OF A HIGH AFFINITY INHIBITOR TO JRNL TITL 2 HUMAN CTBP. JRNL REF ACS CHEM.BIOL. V. 10 1118 2015 JRNL REFN ESSN 1554-8937 JRNL PMID 25636004 JRNL DOI 10.1021/CB500820B REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.1_1168) 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 3 NUMBER OF REFLECTIONS : 19617 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 997 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 30.0074 - 4.0104 0.99 2947 138 0.1700 0.2056 REMARK 3 2 4.0104 - 3.1843 0.99 2757 137 0.1624 0.1880 REMARK 3 3 3.1843 - 2.7821 0.96 2640 126 0.1900 0.2414 REMARK 3 4 2.7821 - 2.5279 0.97 2597 150 0.1979 0.2712 REMARK 3 5 2.5279 - 2.3468 0.97 2597 144 0.2140 0.3063 REMARK 3 6 2.3468 - 2.2084 0.96 2542 168 0.2119 0.2677 REMARK 3 7 2.2084 - 2.1000 0.95 2540 134 0.2144 0.2794 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) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.630 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) : 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 2619 REMARK 3 ANGLE : 0.837 3563 REMARK 3 CHIRALITY : 0.049 415 REMARK 3 PLANARITY : 0.003 464 REMARK 3 DIHEDRAL : 16.575 951 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 4U6S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JUL-14. REMARK 100 THE DEPOSITION ID IS D_1000202908. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-OCT-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.99 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19617 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 32.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 28.00 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 30.4600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.14 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.6 REMARK 200 DATA REDUNDANCY IN SHELL : 17.00 REMARK 200 R MERGE FOR SHELL (I) : 0.51000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 6.390 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 4LCE REMARK 200 REMARK 200 REMARK: BI-PYRAMIDAL CRYSTALS REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200 MM CALCIUM CHLORIDE, 100 MM HEPES REMARK 280 PH 7.5, 2.5 MM NAD+, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+1/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.91767 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 105.83533 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 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 52.91767 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 105.83533 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 52.91767 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 105.83533 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 52.91767 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 105.83533 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9780 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -42.0 KCAL/MOL 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 BIOMT1 2 0.500000 0.866025 0.000000 -42.06050 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 72.85092 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -52.91767 REMARK 350 REMARK 350 BIOMOLECULE: 2 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: 23480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 44730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -83.0 KCAL/MOL 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 BIOMT1 2 -1.000000 0.000000 0.000000 -42.06050 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 72.85092 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 -52.91767 REMARK 350 BIOMT1 4 0.500000 0.866025 0.000000 -42.06050 REMARK 350 BIOMT2 4 0.866025 -0.500000 0.000000 72.85092 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 -52.91767 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 HOH A 505 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 560 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 576 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 585 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 592 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 594 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 596 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 MET A 7 REMARK 465 GLY A 8 REMARK 465 SER A 9 REMARK 465 SER A 10 REMARK 465 HIS A 11 REMARK 465 HIS A 12 REMARK 465 HIS A 13 REMARK 465 HIS A 14 REMARK 465 HIS A 15 REMARK 465 HIS A 16 REMARK 465 SER A 17 REMARK 465 SER A 18 REMARK 465 GLY A 19 REMARK 465 LEU A 20 REMARK 465 VAL A 21 REMARK 465 PRO A 22 REMARK 465 ARG A 23 REMARK 465 GLY A 24 REMARK 465 SER A 25 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 HIS A 26 CG ND1 CD2 CE1 NE2 REMARK 470 ARG A 36 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 57 CG CD OE1 NE2 REMARK 470 GLU A 84 CD OE1 OE2 REMARK 470 LYS A 90 CG CD CE NZ REMARK 470 LYS A 108 CG CD CE NZ REMARK 470 ARG A 155 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 164 CG CD OE1 OE2 REMARK 470 GLU A 241 CG CD OE1 OE2 REMARK 470 LYS A 253 CG CD CE NZ REMARK 470 GLN A 301 CG CD OE1 NE2 REMARK 470 LYS A 305 CG CD CE NZ REMARK 470 ASP A 306 CG OD1 OD2 REMARK 470 ARG A 342 CG CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 NZ LYS A 46 O HOH A 501 1.98 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 O HOH A 542 O HOH A 553 4565 2.17 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 ASP A 34 51.14 -103.90 REMARK 500 TYR A 76 -149.46 -94.77 REMARK 500 ALA A 123 106.47 -56.75 REMARK 500 LEU A 182 61.59 -102.20 REMARK 500 HIS A 236 31.53 -146.48 REMARK 500 ALA A 265 -89.21 -91.07 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 CA A 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 FMT A 404 O2 REMARK 620 2 FMT A 404 O1 49.2 REMARK 620 3 HOH A 637 O 78.4 126.5 REMARK 620 4 HOH A 638 O 128.3 85.8 145.2 REMARK 620 5 HOH A 681 O 160.5 148.0 82.5 70.7 REMARK 620 6 HOH A 682 O 84.0 96.0 86.8 76.0 99.0 REMARK 620 7 HOH A 684 O 87.2 87.1 79.8 118.6 85.5 165.2 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAD A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PPY A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 404 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4U6Q RELATED DB: PDB REMARK 900 4U6Q CONTAINS THE SAME PROTEIN COMPLEXED WITH AN INHIBITOR REMARK 900 RELATED ID: 4LCE RELATED DB: PDB REMARK 900 4LCE CONTAINS THE SAME PROTEIN COMPLEXED WITH A DIFFERENT SUBSTRATE DBREF 4U6S A 28 353 UNP Q13363 CTBP1_HUMAN 28 353 SEQADV 4U6S MET A 7 UNP Q13363 EXPRESSION TAG SEQADV 4U6S GLY A 8 UNP Q13363 EXPRESSION TAG SEQADV 4U6S SER A 9 UNP Q13363 EXPRESSION TAG SEQADV 4U6S SER A 10 UNP Q13363 EXPRESSION TAG SEQADV 4U6S HIS A 11 UNP Q13363 EXPRESSION TAG SEQADV 4U6S HIS A 12 UNP Q13363 EXPRESSION TAG SEQADV 4U6S HIS A 13 UNP Q13363 EXPRESSION TAG SEQADV 4U6S HIS A 14 UNP Q13363 EXPRESSION TAG SEQADV 4U6S HIS A 15 UNP Q13363 EXPRESSION TAG SEQADV 4U6S HIS A 16 UNP Q13363 EXPRESSION TAG SEQADV 4U6S SER A 17 UNP Q13363 EXPRESSION TAG SEQADV 4U6S SER A 18 UNP Q13363 EXPRESSION TAG SEQADV 4U6S GLY A 19 UNP Q13363 EXPRESSION TAG SEQADV 4U6S LEU A 20 UNP Q13363 EXPRESSION TAG SEQADV 4U6S VAL A 21 UNP Q13363 EXPRESSION TAG SEQADV 4U6S PRO A 22 UNP Q13363 EXPRESSION TAG SEQADV 4U6S ARG A 23 UNP Q13363 EXPRESSION TAG SEQADV 4U6S GLY A 24 UNP Q13363 EXPRESSION TAG SEQADV 4U6S SER A 25 UNP Q13363 EXPRESSION TAG SEQADV 4U6S HIS A 26 UNP Q13363 EXPRESSION TAG SEQADV 4U6S MET A 27 UNP Q13363 EXPRESSION TAG SEQRES 1 A 347 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 347 LEU VAL PRO ARG GLY SER HIS MET PRO LEU VAL ALA LEU SEQRES 3 A 347 LEU ASP GLY ARG ASP CYS THR VAL GLU MET PRO ILE LEU SEQRES 4 A 347 LYS ASP VAL ALA THR VAL ALA PHE CYS ASP ALA GLN SER SEQRES 5 A 347 THR GLN GLU ILE HIS GLU LYS VAL LEU ASN GLU ALA VAL SEQRES 6 A 347 GLY ALA LEU MET TYR HIS THR ILE THR LEU THR ARG GLU SEQRES 7 A 347 ASP LEU GLU LYS PHE LYS ALA LEU ARG ILE ILE VAL ARG SEQRES 8 A 347 ILE GLY SER GLY PHE ASP ASN ILE ASP ILE LYS SER ALA SEQRES 9 A 347 GLY ASP LEU GLY ILE ALA VAL CYS ASN VAL PRO ALA ALA SEQRES 10 A 347 SER VAL GLU GLU THR ALA ASP SER THR LEU CYS HIS ILE SEQRES 11 A 347 LEU ASN LEU TYR ARG ARG ALA THR TRP LEU HIS GLN ALA SEQRES 12 A 347 LEU ARG GLU GLY THR ARG VAL GLN SER VAL GLU GLN ILE SEQRES 13 A 347 ARG GLU VAL ALA SER GLY ALA ALA ARG ILE ARG GLY GLU SEQRES 14 A 347 THR LEU GLY ILE ILE GLY LEU GLY ARG VAL GLY GLN ALA SEQRES 15 A 347 VAL ALA LEU ARG ALA LYS ALA PHE GLY PHE ASN VAL LEU SEQRES 16 A 347 PHE TYR ASP PRO TYR LEU SER ASP GLY VAL GLU ARG ALA SEQRES 17 A 347 LEU GLY LEU GLN ARG VAL SER THR LEU GLN ASP LEU LEU SEQRES 18 A 347 PHE HIS SER ASP CYS VAL THR LEU HIS CYS GLY LEU ASN SEQRES 19 A 347 GLU HIS ASN HIS HIS LEU ILE ASN ASP PHE THR VAL LYS SEQRES 20 A 347 GLN MET ARG GLN GLY ALA PHE LEU VAL ASN THR ALA ARG SEQRES 21 A 347 GLY GLY LEU VAL ASP GLU LYS ALA LEU ALA GLN ALA LEU SEQRES 22 A 347 LYS GLU GLY ARG ILE ARG GLY ALA ALA LEU ASP VAL HIS SEQRES 23 A 347 GLU SER GLU PRO PHE SER PHE SER GLN GLY PRO LEU LYS SEQRES 24 A 347 ASP ALA PRO ASN LEU ILE CYS THR PRO HIS ALA ALA TRP SEQRES 25 A 347 TYR SER GLU GLN ALA SER ILE GLU MET ARG GLU GLU ALA SEQRES 26 A 347 ALA ARG GLU ILE ARG ARG ALA ILE THR GLY ARG ILE PRO SEQRES 27 A 347 ASP SER LEU LYS ASN CYS VAL ASN LYS HET NAD A 401 44 HET PPY A 402 24 HET CA A 403 1 HET FMT A 404 3 HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM PPY 3-PHENYLPYRUVIC ACID HETNAM CA CALCIUM ION HETNAM FMT FORMIC ACID FORMUL 2 NAD C21 H27 N7 O14 P2 FORMUL 3 PPY C9 H8 O3 FORMUL 4 CA CA 2+ FORMUL 5 FMT C H2 O2 FORMUL 6 HOH *200(H2 O) HELIX 1 AA1 GLU A 41 LYS A 46 1 6 HELIX 2 AA2 SER A 58 ILE A 62 5 5 HELIX 3 AA3 HIS A 63 GLU A 69 1 7 HELIX 4 AA4 THR A 82 LYS A 88 1 7 HELIX 5 AA5 ASP A 106 LEU A 113 1 8 HELIX 6 AA6 SER A 124 ARG A 142 1 19 HELIX 7 AA7 ARG A 142 GLU A 152 1 11 HELIX 8 AA8 SER A 158 ALA A 166 1 9 HELIX 9 AA9 GLY A 183 ALA A 195 1 13 HELIX 10 AB1 GLY A 210 GLY A 216 1 7 HELIX 11 AB2 THR A 222 SER A 230 1 9 HELIX 12 AB3 ASN A 248 LYS A 253 1 6 HELIX 13 AB4 ARG A 266 VAL A 270 5 5 HELIX 14 AB5 ASP A 271 GLU A 281 1 11 HELIX 15 AB6 SER A 320 GLY A 341 1 22 SHEET 1 AA1 5 THR A 50 PHE A 53 0 SHEET 2 AA1 5 LEU A 29 LEU A 32 1 N VAL A 30 O THR A 50 SHEET 3 AA1 5 ALA A 70 MET A 75 1 O LEU A 74 N ALA A 31 SHEET 4 AA1 5 ILE A 94 ARG A 97 1 O VAL A 96 N ALA A 73 SHEET 5 AA1 5 ALA A 116 CYS A 118 1 O CYS A 118 N ARG A 97 SHEET 1 AA2 7 GLN A 218 ARG A 219 0 SHEET 2 AA2 7 ASN A 199 TYR A 203 1 N VAL A 200 O GLN A 218 SHEET 3 AA2 7 THR A 176 ILE A 180 1 N ILE A 179 O LEU A 201 SHEET 4 AA2 7 CYS A 232 LEU A 235 1 O CYS A 232 N GLY A 178 SHEET 5 AA2 7 ALA A 259 ASN A 263 1 O VAL A 262 N VAL A 233 SHEET 6 AA2 7 ILE A 284 LEU A 289 1 O ALA A 288 N LEU A 261 SHEET 7 AA2 7 LEU A 310 CYS A 312 1 O ILE A 311 N LEU A 289 LINK CA CA A 403 O2 FMT A 404 1555 1555 2.46 LINK CA CA A 403 O1 FMT A 404 1555 1555 2.69 LINK CA CA A 403 O HOH A 637 1555 1555 2.59 LINK CA CA A 403 O HOH A 638 1555 1555 2.83 LINK CA CA A 403 O HOH A 681 1555 1555 2.36 LINK CA CA A 403 O HOH A 682 1555 1555 2.45 LINK CA CA A 403 O HOH A 684 1555 1555 2.68 CISPEP 1 GLU A 295 PRO A 296 0 3.20 CISPEP 2 ILE A 343 PRO A 344 0 -1.55 SITE 1 AC1 32 SER A 100 GLY A 101 THR A 128 GLY A 181 SITE 2 AC1 32 GLY A 183 ARG A 184 VAL A 185 TYR A 203 SITE 3 AC1 32 ASP A 204 PRO A 205 TYR A 206 HIS A 236 SITE 4 AC1 32 CYS A 237 GLY A 238 ASN A 240 ASN A 243 SITE 5 AC1 32 THR A 264 ALA A 265 ARG A 266 ASP A 290 SITE 6 AC1 32 VAL A 291 HIS A 315 TRP A 318 PPY A 402 SITE 7 AC1 32 HOH A 548 HOH A 599 HOH A 600 HOH A 608 SITE 8 AC1 32 HOH A 627 HOH A 631 HOH A 652 HOH A 672 SITE 1 AC2 14 TYR A 76 HIS A 77 ARG A 97 ILE A 98 SITE 2 AC2 14 GLY A 99 SER A 100 GLY A 101 ARG A 266 SITE 3 AC2 14 HIS A 315 TRP A 318 MET A 327 NAD A 401 SITE 4 AC2 14 HOH A 597 HOH A 632 SITE 1 AC3 6 FMT A 404 HOH A 637 HOH A 638 HOH A 681 SITE 2 AC3 6 HOH A 682 HOH A 684 SITE 1 AC4 5 GLU A 175 ASP A 231 GLY A 258 ARG A 285 SITE 2 AC4 5 CA A 403 CRYST1 84.121 84.121 158.753 90.00 90.00 120.00 P 64 2 2 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.011888 0.006863 0.000000 0.00000 SCALE2 0.000000 0.013727 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006299 0.00000