HEADER HYDROLASE 21-SEP-15 5DV2 TITLE CRYSTAL STRUCTURE OF HUMAN CNOT6L IN COMPLEX WITH CYTIDINE-5'- TITLE 2 MONOPHOSPHATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CCR4-NOT TRANSCRIPTION COMPLEX SUBUNIT 6-LIKE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 158-555; COMPND 5 SYNONYM: CARBON CATABOLITE REPRESSOR PROTEIN 4 HOMOLOG B; COMPND 6 EC: 3.1.13.4; 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: CNOT6L, CCR4B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NUCLEASE DOMAIN, DEADENYLASE, INHIBITOR COMPLEX, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR Q.ZHANG,M.BARTLAM REVDAT 1 18-MAY-16 5DV2 0 JRNL AUTH Q.ZHANG,D.YAN,E.GUO,B.DING,W.YANG,R.LIU,T.YAMAMOTO,M.BARTLAM JRNL TITL STRUCTURAL BASIS FOR INHIBITION OF THE DEADENYLASE ACTIVITY JRNL TITL 2 OF HUMAN CNOT6L JRNL REF FEBS LETT. V. 590 1270 2016 JRNL REFN ISSN 0014-5793 JRNL PMID 27013054 JRNL DOI 10.1002/1873-3468.12160 REMARK 2 REMARK 2 RESOLUTION. 2.07 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) 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) : 2.07 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.84 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 35911 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) : 0.183 REMARK 3 FREE R VALUE : 0.207 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.570 REMARK 3 FREE R VALUE TEST SET COUNT : 2002 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 42.8525 - 4.9860 1.00 2616 151 0.2069 0.2168 REMARK 3 2 4.9860 - 3.9584 1.00 2480 148 0.1490 0.1725 REMARK 3 3 3.9584 - 3.4583 1.00 2456 145 0.1685 0.1871 REMARK 3 4 3.4583 - 3.1422 1.00 2435 144 0.1786 0.2058 REMARK 3 5 3.1422 - 2.9170 1.00 2415 145 0.1902 0.2166 REMARK 3 6 2.9170 - 2.7451 1.00 2404 142 0.1933 0.2362 REMARK 3 7 2.7451 - 2.6076 1.00 2422 147 0.1941 0.2269 REMARK 3 8 2.6076 - 2.4941 1.00 2382 141 0.1836 0.2298 REMARK 3 9 2.4941 - 2.3981 1.00 2391 138 0.1868 0.1968 REMARK 3 10 2.3981 - 2.3154 1.00 2409 142 0.1871 0.2076 REMARK 3 11 2.3154 - 2.2430 1.00 2408 139 0.1929 0.2276 REMARK 3 12 2.2430 - 2.1789 1.00 2380 141 0.2012 0.2567 REMARK 3 13 2.1789 - 2.1215 1.00 2357 142 0.2100 0.2383 REMARK 3 14 2.1215 - 2.0698 0.98 2354 137 0.2231 0.2811 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) : 0.210 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.470 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 : 0.009 2799 REMARK 3 ANGLE : 0.916 3792 REMARK 3 CHIRALITY : 0.057 416 REMARK 3 PLANARITY : 0.005 480 REMARK 3 DIHEDRAL : 14.040 1660 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 169 THROUGH 265 ) REMARK 3 ORIGIN FOR THE GROUP (A): -36.9667 1.3265 3.6773 REMARK 3 T TENSOR REMARK 3 T11: 0.3920 T22: 0.2695 REMARK 3 T33: 0.3434 T12: -0.1288 REMARK 3 T13: -0.0757 T23: 0.0511 REMARK 3 L TENSOR REMARK 3 L11: 2.6979 L22: 2.5493 REMARK 3 L33: 2.7403 L12: -0.0807 REMARK 3 L13: 0.2802 L23: -0.4471 REMARK 3 S TENSOR REMARK 3 S11: 0.1049 S12: -0.1265 S13: -0.2153 REMARK 3 S21: -0.0887 S22: 0.0865 S23: 0.2900 REMARK 3 S31: 0.2340 S32: -0.1619 S33: -0.1617 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 266 THROUGH 291 ) REMARK 3 ORIGIN FOR THE GROUP (A): -31.2119 10.9655 -5.3952 REMARK 3 T TENSOR REMARK 3 T11: 0.4461 T22: 0.3209 REMARK 3 T33: 0.3669 T12: -0.0992 REMARK 3 T13: -0.0765 T23: 0.0598 REMARK 3 L TENSOR REMARK 3 L11: 3.2740 L22: 7.1480 REMARK 3 L33: 2.3355 L12: 4.6937 REMARK 3 L13: 0.2971 L23: 1.3878 REMARK 3 S TENSOR REMARK 3 S11: -0.0370 S12: 0.0608 S13: -0.2447 REMARK 3 S21: -0.5553 S22: 0.1442 S23: -0.2132 REMARK 3 S31: 0.1356 S32: -0.0062 S33: -0.1745 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 292 THROUGH 425 ) REMARK 3 ORIGIN FOR THE GROUP (A): -42.8814 20.7652 1.8504 REMARK 3 T TENSOR REMARK 3 T11: 0.3277 T22: 0.3118 REMARK 3 T33: 0.4211 T12: -0.0318 REMARK 3 T13: -0.0498 T23: 0.1108 REMARK 3 L TENSOR REMARK 3 L11: 2.7305 L22: 4.0273 REMARK 3 L33: 2.9600 L12: 1.1797 REMARK 3 L13: 0.8041 L23: 0.6095 REMARK 3 S TENSOR REMARK 3 S11: 0.0074 S12: 0.1409 S13: 0.2896 REMARK 3 S21: -0.2479 S22: 0.1428 S23: 0.6678 REMARK 3 S31: -0.2740 S32: -0.2619 S33: -0.0565 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 426 THROUGH 541 ) REMARK 3 ORIGIN FOR THE GROUP (A): -44.7795 12.8584 13.3115 REMARK 3 T TENSOR REMARK 3 T11: 0.3281 T22: 0.3939 REMARK 3 T33: 0.4391 T12: -0.0633 REMARK 3 T13: 0.0748 T23: 0.0715 REMARK 3 L TENSOR REMARK 3 L11: 2.4874 L22: 3.2090 REMARK 3 L33: 2.3260 L12: -0.0867 REMARK 3 L13: 0.4476 L23: -0.3672 REMARK 3 S TENSOR REMARK 3 S11: 0.1048 S12: -0.1599 S13: 0.1927 REMARK 3 S21: 0.2266 S22: 0.0976 S23: 0.7715 REMARK 3 S31: -0.0999 S32: -0.4180 S33: -0.1839 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 5DV2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-SEP-15. REMARK 100 THE DEPOSITION ID IS D_1000213852. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-NOV-14 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 : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35967 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.070 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 (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 29.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES, 1.1M AMMONIUM TARTRATE, REMARK 280 0.2M NDSB-201, PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 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 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -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 111.76667 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 55.88333 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 55.88333 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 111.76667 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 600 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 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 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 873 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 158 REMARK 465 LEU A 159 REMARK 465 ASP A 160 REMARK 465 ASN A 161 REMARK 465 LEU A 162 REMARK 465 ALA A 163 REMARK 465 VAL A 164 REMARK 465 HIS A 165 REMARK 465 PRO A 166 REMARK 465 GLU A 167 REMARK 465 GLN A 168 REMARK 465 GLN A 182 REMARK 465 ILE A 183 REMARK 465 LEU A 184 REMARK 465 PRO A 185 REMARK 465 GLY A 340 REMARK 465 ALA A 341 REMARK 465 GLY A 342 REMARK 465 MET A 343 REMARK 465 LYS A 344 REMARK 465 PRO A 345 REMARK 465 ILE A 346 REMARK 465 HIS A 347 REMARK 465 ALA A 348 REMARK 465 ALA A 349 REMARK 465 ASP A 350 REMARK 465 SER A 390 REMARK 465 SER A 391 REMARK 465 ARG A 392 REMARK 465 PRO A 393 REMARK 465 GLY A 394 REMARK 465 SER A 395 REMARK 465 PRO A 396 REMARK 465 THR A 397 REMARK 465 ALA A 398 REMARK 465 ASP A 399 REMARK 465 PRO A 400 REMARK 465 ASN A 401 REMARK 465 CYS A 450 REMARK 465 ASN A 451 REMARK 465 GLY A 452 REMARK 465 LYS A 453 REMARK 465 ASN A 454 REMARK 465 GLY A 455 REMARK 465 SER A 456 REMARK 465 SER A 457 REMARK 465 GLU A 458 REMARK 465 GLY A 459 REMARK 465 PRO A 542 REMARK 465 LEU A 543 REMARK 465 LEU A 544 REMARK 465 PRO A 545 REMARK 465 LEU A 546 REMARK 465 VAL A 547 REMARK 465 ASN A 548 REMARK 465 GLY A 549 REMARK 465 VAL A 550 REMARK 465 HIS A 551 REMARK 465 LEU A 552 REMARK 465 PRO A 553 REMARK 465 ASN A 554 REMARK 465 ARG A 555 REMARK 465 ARG A 556 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 O HOH A 836 O HOH A 847 1.82 REMARK 500 O HOH A 793 O HOH A 882 1.91 REMARK 500 O HOH A 843 O HOH A 874 1.98 REMARK 500 NZ LYS A 288 O HOH A 701 1.98 REMARK 500 O HOH A 758 O HOH A 855 2.01 REMARK 500 O GLU A 437 O HOH A 702 2.05 REMARK 500 OE2 GLU A 226 O HOH A 703 2.05 REMARK 500 OE1 GLU A 242 O HOH A 704 2.07 REMARK 500 O HOH A 849 O HOH A 856 2.09 REMARK 500 O HOH A 854 O HOH A 861 2.10 REMARK 500 N LEU A 169 O HOH A 705 2.15 REMARK 500 N LEU A 294 O HOH A 706 2.17 REMARK 500 OE1 GLU A 244 O HOH A 707 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 LEU A 197 101.43 64.85 REMARK 500 GLU A 437 126.60 79.47 REMARK 500 TYR A 440 22.65 -77.65 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 892 DISTANCE = 6.13 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue C5P A 601 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5DV4 RELATED DB: PDB DBREF 5DV2 A 158 556 UNP Q96LI5 CNO6L_HUMAN 158 555 SEQRES 1 A 398 MET LEU ASP ASN LEU ALA VAL HIS PRO GLU GLN LEU PRO SEQRES 2 A 398 PRO ARG PRO TRP ILE THR LEU LYS GLU ARG ASP GLN ILE SEQRES 3 A 398 LEU PRO SER ALA SER PHE THR VAL MET CYS TYR ASN VAL SEQRES 4 A 398 LEU CYS ASP LYS TYR ALA THR ARG GLN LEU TYR GLY TYR SEQRES 5 A 398 CYS PRO SER TRP ALA LEU ASN TRP GLU TYR ARG LYS LYS SEQRES 6 A 398 GLY ILE MET GLU GLU ILE VAL ASN CYS ASP ALA ASP ILE SEQRES 7 A 398 ILE SER LEU GLN GLU VAL GLU THR GLU GLN TYR PHE THR SEQRES 8 A 398 LEU PHE LEU PRO ALA LEU LYS GLU ARG GLY TYR ASP GLY SEQRES 9 A 398 PHE PHE SER PRO LYS SER ARG ALA LYS ILE MET SER GLU SEQRES 10 A 398 GLN GLU ARG LYS HIS VAL ASP GLY CYS ALA ILE PHE PHE SEQRES 11 A 398 LYS THR GLU LYS PHE THR LEU VAL GLN LYS HIS THR VAL SEQRES 12 A 398 GLU PHE ASN GLN VAL ALA MET ALA ASN SER ASP GLY SER SEQRES 13 A 398 GLU ALA MET LEU ASN ARG VAL MET THR LYS ASP ASN ILE SEQRES 14 A 398 GLY VAL ALA VAL VAL LEU GLU VAL HIS LYS GLU LEU PHE SEQRES 15 A 398 GLY ALA GLY MET LYS PRO ILE HIS ALA ALA ASP LYS GLN SEQRES 16 A 398 LEU LEU ILE VAL ALA ASN ALA HIS MET HIS TRP ASP PRO SEQRES 17 A 398 GLU TYR SER ASP VAL LYS LEU ILE GLN THR MET MET PHE SEQRES 18 A 398 VAL SER GLU VAL LYS ASN ILE LEU GLU LYS ALA SER SER SEQRES 19 A 398 ARG PRO GLY SER PRO THR ALA ASP PRO ASN SER ILE PRO SEQRES 20 A 398 LEU VAL LEU CYS ALA ASP LEU ASN SER LEU PRO ASP SER SEQRES 21 A 398 GLY VAL VAL GLU TYR LEU SER ASN GLY GLY VAL ALA ASP SEQRES 22 A 398 ASN HIS LYS ASP PHE LYS GLU LEU ARG TYR ASN GLU CYS SEQRES 23 A 398 LEU MET ASN PHE SER CYS ASN GLY LYS ASN GLY SER SER SEQRES 24 A 398 GLU GLY ARG ILE THR HIS GLY PHE GLN LEU LYS SER ALA SEQRES 25 A 398 TYR GLU ASN ASN LEU MET PRO TYR THR ASN TYR THR PHE SEQRES 26 A 398 ASP PHE LYS GLY VAL ILE ASP TYR ILE PHE TYR SER LYS SEQRES 27 A 398 THR HIS MET ASN VAL LEU GLY VAL LEU GLY PRO LEU ASP SEQRES 28 A 398 PRO GLN TRP LEU VAL GLU ASN ASN ILE THR GLY CYS PRO SEQRES 29 A 398 HIS PRO HIS ILE PRO SER ASP HIS PHE SER LEU LEU THR SEQRES 30 A 398 GLN LEU GLU LEU HIS PRO PRO LEU LEU PRO LEU VAL ASN SEQRES 31 A 398 GLY VAL HIS LEU PRO ASN ARG ARG HET C5P A 601 21 HETNAM C5P CYTIDINE-5'-MONOPHOSPHATE FORMUL 2 C5P C9 H14 N3 O8 P FORMUL 3 HOH *192(H2 O) HELIX 1 AA1 CYS A 198 ALA A 202 5 5 HELIX 2 AA2 PRO A 211 ASN A 216 1 6 HELIX 3 AA3 ASN A 216 ASP A 232 1 17 HELIX 4 AA4 THR A 243 LEU A 249 1 7 HELIX 5 AA5 LEU A 249 ARG A 257 1 9 HELIX 6 AA6 SER A 273 VAL A 280 1 8 HELIX 7 AA7 PHE A 302 ASN A 309 1 8 HELIX 8 AA8 SER A 313 VAL A 320 1 8 HELIX 9 AA9 LYS A 336 PHE A 339 5 4 HELIX 10 AB1 TYR A 367 LYS A 388 1 22 HELIX 11 AB2 SER A 417 GLY A 426 1 10 HELIX 12 AB3 HIS A 432 LYS A 436 5 5 HELIX 13 AB4 ASN A 441 SER A 448 5 8 HELIX 14 AB5 ASP A 509 ASN A 516 1 8 SHEET 1 AA1 7 TRP A 174 THR A 176 0 SHEET 2 AA1 7 MET A 499 LEU A 505 -1 O VAL A 504 N ILE A 175 SHEET 3 AA1 7 LEU A 533 LEU A 539 -1 O GLN A 536 N LEU A 502 SHEET 4 AA1 7 ALA A 187 ASN A 195 -1 N ALA A 187 O LEU A 539 SHEET 5 AA1 7 ILE A 235 GLU A 242 1 O SER A 237 N MET A 192 SHEET 6 AA1 7 ASP A 281 LYS A 288 -1 O PHE A 286 N ILE A 236 SHEET 7 AA1 7 TYR A 259 PRO A 265 -1 N PHE A 262 O ILE A 285 SHEET 1 AA2 6 PHE A 292 GLU A 301 0 SHEET 2 AA2 6 ILE A 326 VAL A 334 -1 O GLY A 327 N VAL A 300 SHEET 3 AA2 6 GLN A 352 HIS A 360 -1 O LEU A 354 N LEU A 332 SHEET 4 AA2 6 LEU A 405 ASP A 410 1 O CYS A 408 N ALA A 357 SHEET 5 AA2 6 ASP A 490 SER A 495 -1 O PHE A 493 N LEU A 407 SHEET 6 AA2 6 LEU A 467 SER A 469 -1 N LYS A 468 O TYR A 494 SHEET 1 AA3 2 GLY A 427 VAL A 428 0 SHEET 2 AA3 2 ILE A 461 THR A 462 -1 O ILE A 461 N VAL A 428 SHEET 1 AA4 2 ASN A 480 TYR A 481 0 SHEET 2 AA4 2 LYS A 486 GLY A 487 -1 O GLY A 487 N ASN A 480 CISPEP 1 GLU A 437 LEU A 438 0 5.40 CISPEP 2 CYS A 521 PRO A 522 0 2.03 SITE 1 AC1 14 GLU A 240 HIS A 360 TRP A 363 PRO A 365 SITE 2 AC1 14 LYS A 371 ASP A 410 ASN A 412 ASN A 480 SITE 3 AC1 14 PHE A 485 HIS A 530 HOH A 709 HOH A 753 SITE 4 AC1 14 HOH A 783 HOH A 795 CRYST1 77.051 77.051 167.650 90.00 90.00 120.00 P 32 2 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 0.012978 0.007493 0.000000 0.00000 SCALE2 0.000000 0.014986 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005965 0.00000 MASTER 415 0 1 14 17 0 4 6 0 0 0 31 END