HEADER SPLICING 21-SEP-16 5TEE TITLE CRYSTAL STRUCTURE OF GEMIN5 WD40 REPEATS IN APO FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: GEM-ASSOCIATED PROTEIN 5; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GEMIN5; COMPND 5 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: GEMIN5; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: SF9; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PFBOH-LIC KEYWDS STRUCTURAL GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, SGC, SPLICING EXPDTA X-RAY DIFFRACTION AUTHOR X.CHAO,W.TEMPEL,C.BIAN,T.CEROVINA,H.HE,J.R.WALKER,A.SEITOVA, AUTHOR 2 C.BOUNTRA,C.H.ARROWSMITH,A.M.EDWARDS,J.MIN,STRUCTURAL GENOMICS AUTHOR 3 CONSORTIUM (SGC) REVDAT 6 13-NOV-24 5TEE 1 REMARK REVDAT 5 25-OCT-23 5TEE 1 REMARK REVDAT 4 21-DEC-22 5TEE 1 SEQADV LINK REVDAT 3 10-MAY-17 5TEE 1 AUTHOR REVDAT 2 11-JAN-17 5TEE 1 JRNL REVDAT 1 19-OCT-16 5TEE 0 JRNL AUTH C.XU,H.ISHIKAWA,K.IZUMIKAWA,L.LI,H.HE,Y.NOBE,Y.YAMAUCHI, JRNL AUTH 2 H.M.SHAHJEE,X.H.WU,Y.T.YU,T.ISOBE,N.TAKAHASHI,J.MIN JRNL TITL STRUCTURAL INSIGHTS INTO GEMIN5-GUIDED SELECTION OF JRNL TITL 2 PRE-SNRNAS FOR SNRNP ASSEMBLY. JRNL REF GENES DEV. V. 30 2376 2016 JRNL REFN ISSN 1549-5477 JRNL PMID 27881600 JRNL DOI 10.1101/GAD.288340.116 REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0155 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.47 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 88765 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.195 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4684 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.69 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6483 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.90 REMARK 3 BIN R VALUE (WORKING SET) : 0.2810 REMARK 3 BIN FREE R VALUE SET COUNT : 330 REMARK 3 BIN FREE R VALUE : 0.3040 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5298 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 55 REMARK 3 SOLVENT ATOMS : 420 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.44 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.43000 REMARK 3 B22 (A**2) : -0.60000 REMARK 3 B33 (A**2) : -0.33000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.63000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.084 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.085 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.064 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.992 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5706 ; 0.017 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5214 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7834 ; 1.594 ; 1.936 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12065 ; 0.972 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 752 ; 6.512 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 243 ;32.549 ;23.745 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 889 ;11.664 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;16.545 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 866 ; 0.100 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6547 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1341 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2838 ; 2.266 ; 2.043 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2837 ; 2.244 ; 2.042 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3565 ; 3.331 ; 3.048 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 MOLECULAR REPLACEMENT SEARCH MODELS WERE BASED ON PDB ENTRIES 3OW8, REMARK 3 2HES, 3DM0 AND MODIFIED USING SCWRL AND THE FFAS03 SERVER. REMARK 3 PROGRAMS PHASER AND MOLREP WERE USED FOR MOLECULAR REPLACEMENT. REMARK 3 ARP/WARP WAS USED FOR MAP IMRPOVEMENT AND AUTOMATED MODEL BUILDING. REMARK 3 GEOMETRY RESTRAINTS FOR THE LIGAND WERE PREPARED WITH PRODRG BASED REMARK 3 ON GTG COORDINATES FROM PDB ENTRY 3HXI. REMARK 3 COOT WAS USED FOR INTERACTIVE MODEL BUILDING. REMARK 3 PHENIX.MOLPROBITY WAS USED FOR GEOMETRY VALIDATION. REMARK 4 REMARK 4 5TEE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1000224036. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-AUG-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID 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 : 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 : AIMLESS 0.5.27 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 93484 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 48.710 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.09100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.68 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 1.01500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER, MOLREP REMARK 200 STARTING MODEL: FFAS03/SCWRL MODELS BASED ON PDB ENTRIES 3OW8, REMARK 200 2HES, 3DM0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG4000, 0.2M AMMONIUM ACETATE, REMARK 280 0.1M SODIUM CITRATE, PH 5.5, VAPOR DIFFUSION, 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 62.20350 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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: AUTHORS DID NOT PROVIDE A BIOLOGICAL ASSEMBLY 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 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 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 -18 REMARK 465 GLY A -17 REMARK 465 SER A -16 REMARK 465 SER A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 SER A -8 REMARK 465 SER A -7 REMARK 465 GLY A -6 REMARK 465 LEU A -5 REMARK 465 VAL A -4 REMARK 465 PRO A -3 REMARK 465 ARG A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 GLY A 2 REMARK 465 SER A 213 REMARK 465 ILE A 214 REMARK 465 ASN A 215 REMARK 465 GLN A 216 REMARK 465 GLU A 217 REMARK 465 GLU A 218 REMARK 465 THR A 219 REMARK 465 SER A 220 REMARK 465 GLU A 221 REMARK 465 GLU A 222 REMARK 465 ALA A 223 REMARK 465 GLU A 224 REMARK 465 ILE A 225 REMARK 465 THR A 226 REMARK 465 ASN A 227 REMARK 465 GLY A 228 REMARK 465 ASN A 229 REMARK 465 ALA A 230 REMARK 465 VAL A 231 REMARK 465 ALA A 232 REMARK 465 GLN A 233 REMARK 465 ALA A 234 REMARK 465 PRO A 235 REMARK 465 VAL A 236 REMARK 465 THR A 237 REMARK 465 LYS A 238 REMARK 465 GLU A 490 REMARK 465 GLY A 491 REMARK 465 ASP A 492 REMARK 465 GLY A 723 REMARK 465 LYS A 724 REMARK 465 LYS A 725 REMARK 465 SER A 726 REMARK 465 ILE A 727 REMARK 465 GLU A 728 REMARK 465 LEU A 729 REMARK 465 GLU A 730 REMARK 465 LYS A 731 REMARK 465 LYS A 732 REMARK 465 ARG A 733 REMARK 465 LEU A 734 REMARK 465 SER A 735 REMARK 465 GLN A 736 REMARK 465 PRO A 737 REMARK 465 LYS A 738 REMARK 465 ALA A 739 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 GLN A 3 N CB CG CD OE1 NE2 REMARK 470 ARG A 6 NE CZ NH1 NH2 REMARK 470 ARG A 120 NH1 NH2 REMARK 470 LYS A 184 CE NZ REMARK 470 LEU A 212 C O CB CG CD1 CD2 REMARK 470 SER A 257 OG REMARK 470 ARG A 258 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 260 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 271 CG CD CE NZ REMARK 470 ILE A 277 CG1 CG2 CD1 REMARK 470 LYS A 282 CG CD CE NZ REMARK 470 ARG A 284 CG CD NE CZ NH1 NH2 REMARK 470 SER A 316 C O CB OG REMARK 470 TRP A 317 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 317 CZ3 CH2 REMARK 470 ARG A 318 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 320 CD CE NZ REMARK 470 LYS A 349 CD CE NZ REMARK 470 LYS A 413 NZ REMARK 470 LYS A 419 CD CE NZ REMARK 470 LYS A 426 CD CE NZ REMARK 470 LYS A 438 CE NZ REMARK 470 LYS A 460 CE NZ REMARK 470 LYS A 470 CD CE NZ REMARK 470 GLY A 489 C O REMARK 470 ARG A 493 N CB CG CD NE CZ NH1 REMARK 470 ARG A 493 NH2 REMARK 470 LYS A 524 CD CE NZ REMARK 470 LYS A 569 CE NZ REMARK 470 GLN A 593 CD OE1 NE2 REMARK 470 GLU A 595 CG CD OE1 OE2 REMARK 470 LYS A 615 CE NZ REMARK 470 GLU A 623 CD OE1 OE2 REMARK 470 GLU A 630 CD OE1 OE2 REMARK 470 GLU A 673 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 ARG A 190 NE - CZ - NH1 ANGL. DEV. = -3.1 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 33 -119.11 50.58 REMARK 500 ARG A 66 126.86 -35.49 REMARK 500 ILE A 149 -67.94 -98.30 REMARK 500 GLU A 197 132.14 -39.53 REMARK 500 GLN A 249 10.02 80.87 REMARK 500 VAL A 425 -74.92 -95.97 REMARK 500 VAL A 425 -81.26 -95.97 REMARK 500 LYS A 426 -58.77 71.85 REMARK 500 LYS A 514 59.50 -144.21 REMARK 500 GLN A 576 -51.26 -136.77 REMARK 500 SER A 604 -168.31 -129.93 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 NA A 839 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 106 O REMARK 620 2 HIS A 108 O 91.6 REMARK 620 3 HOH A1031 O 89.0 69.5 REMARK 620 4 HOH A1265 O 84.8 95.1 163.3 REMARK 620 5 HOH A1284 O 88.6 173.9 104.5 90.9 REMARK 620 6 HOH A1290 O 173.6 91.6 97.3 89.4 88.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 840 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 679 O REMARK 620 2 HIS A 681 O 85.3 REMARK 620 3 HOH A1066 O 90.1 84.8 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 839 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 840 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5TEF RELATED DB: PDB DBREF 5TEE A 1 739 UNP Q8TEQ6 GEMI5_HUMAN 1 739 SEQADV 5TEE MET A -18 UNP Q8TEQ6 INITIATING METHIONINE SEQADV 5TEE GLY A -17 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE SER A -16 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE SER A -15 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE HIS A -14 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE HIS A -13 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE HIS A -12 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE HIS A -11 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE HIS A -10 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE HIS A -9 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE SER A -8 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE SER A -7 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE GLY A -6 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE LEU A -5 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE VAL A -4 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE PRO A -3 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE ARG A -2 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE GLY A -1 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE SER A 0 UNP Q8TEQ6 EXPRESSION TAG SEQADV 5TEE GLN A 682 UNP Q8TEQ6 ARG 682 VARIANT SEQRES 1 A 758 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 758 LEU VAL PRO ARG GLY SER MET GLY GLN GLU PRO ARG THR SEQRES 3 A 758 LEU PRO PRO SER PRO ASN TRP TYR CYS ALA ARG CYS SER SEQRES 4 A 758 ASP ALA VAL PRO GLY GLY LEU PHE GLY PHE ALA ALA ARG SEQRES 5 A 758 THR SER VAL PHE LEU VAL ARG VAL GLY PRO GLY ALA GLY SEQRES 6 A 758 GLU SER PRO GLY THR PRO PRO PHE ARG VAL ILE GLY GLU SEQRES 7 A 758 LEU VAL GLY HIS THR GLU ARG VAL SER GLY PHE THR PHE SEQRES 8 A 758 SER HIS HIS PRO GLY GLN TYR ASN LEU CYS ALA THR SER SEQRES 9 A 758 SER ASP ASP GLY THR VAL LYS ILE TRP ASP VAL GLU THR SEQRES 10 A 758 LYS THR VAL VAL THR GLU HIS ALA LEU HIS GLN HIS THR SEQRES 11 A 758 ILE SER THR LEU HIS TRP SER PRO ARG VAL LYS ASP LEU SEQRES 12 A 758 ILE VAL SER GLY ASP GLU LYS GLY VAL VAL PHE CYS TYR SEQRES 13 A 758 TRP PHE ASN ARG ASN ASP SER GLN HIS LEU PHE ILE GLU SEQRES 14 A 758 PRO ARG THR ILE PHE CYS LEU THR CYS SER PRO HIS HIS SEQRES 15 A 758 GLU ASP LEU VAL ALA ILE GLY TYR LYS ASP GLY ILE VAL SEQRES 16 A 758 VAL ILE ILE ASP ILE SER LYS LYS GLY GLU VAL ILE HIS SEQRES 17 A 758 ARG LEU ARG GLY HIS ASP ASP GLU ILE HIS SER ILE ALA SEQRES 18 A 758 TRP CYS PRO LEU PRO GLY GLU ASP CYS LEU SER ILE ASN SEQRES 19 A 758 GLN GLU GLU THR SER GLU GLU ALA GLU ILE THR ASN GLY SEQRES 20 A 758 ASN ALA VAL ALA GLN ALA PRO VAL THR LYS GLY CYS TYR SEQRES 21 A 758 LEU ALA THR GLY SER LYS ASP GLN THR ILE ARG ILE TRP SEQRES 22 A 758 SER CYS SER ARG GLY ARG GLY VAL MET ILE LEU LYS LEU SEQRES 23 A 758 PRO PHE LEU LYS ARG ARG GLY GLY GLY ILE ASP PRO THR SEQRES 24 A 758 VAL LYS GLU ARG LEU TRP LEU THR LEU HIS TRP PRO SER SEQRES 25 A 758 ASN GLN PRO THR GLN LEU VAL SER SER CYS PHE GLY GLY SEQRES 26 A 758 GLU LEU LEU GLN TRP ASP LEU THR GLN SER TRP ARG ARG SEQRES 27 A 758 LYS TYR THR LEU PHE SER ALA SER SER GLU GLY GLN ASN SEQRES 28 A 758 HIS SER ARG ILE VAL PHE ASN LEU CYS PRO LEU GLN THR SEQRES 29 A 758 GLU ASP ASP LYS GLN LEU LEU LEU SER THR SER MET ASP SEQRES 30 A 758 ARG ASP VAL LYS CYS TRP ASP ILE ALA THR LEU GLU CYS SEQRES 31 A 758 SER TRP THR LEU PRO SER LEU GLY GLY PHE ALA TYR SER SEQRES 32 A 758 LEU ALA PHE SER SER VAL ASP ILE GLY SER LEU ALA ILE SEQRES 33 A 758 GLY VAL GLY ASP GLY MET ILE ARG VAL TRP ASN THR LEU SEQRES 34 A 758 SER ILE LYS ASN ASN TYR ASP VAL LYS ASN PHE TRP GLN SEQRES 35 A 758 GLY VAL LYS SER LYS VAL THR ALA LEU CYS TRP HIS PRO SEQRES 36 A 758 THR LYS GLU GLY CYS LEU ALA PHE GLY THR ASP ASP GLY SEQRES 37 A 758 LYS VAL GLY LEU TYR ASP THR TYR SER ASN LYS PRO PRO SEQRES 38 A 758 GLN ILE SER SER THR TYR HIS LYS LYS THR VAL TYR THR SEQRES 39 A 758 LEU ALA TRP GLY PRO PRO VAL PRO PRO MET SER LEU GLY SEQRES 40 A 758 GLY GLU GLY ASP ARG PRO SER LEU ALA LEU TYR SER CYS SEQRES 41 A 758 GLY GLY GLU GLY ILE VAL LEU GLN HIS ASN PRO TRP LYS SEQRES 42 A 758 LEU SER GLY GLU ALA PHE ASP ILE ASN LYS LEU ILE ARG SEQRES 43 A 758 ASP THR ASN SER ILE LYS TYR LYS LEU PRO VAL HIS THR SEQRES 44 A 758 GLU ILE SER TRP LYS ALA ASP GLY LYS ILE MET ALA LEU SEQRES 45 A 758 GLY ASN GLU ASP GLY SER ILE GLU ILE PHE GLN ILE PRO SEQRES 46 A 758 ASN LEU LYS LEU ILE CYS THR ILE GLN GLN HIS HIS LYS SEQRES 47 A 758 LEU VAL ASN THR ILE SER TRP HIS HIS GLU HIS GLY SER SEQRES 48 A 758 GLN PRO GLU LEU SER TYR LEU MET ALA SER GLY SER ASN SEQRES 49 A 758 ASN ALA VAL ILE TYR VAL HIS ASN LEU LYS THR VAL ILE SEQRES 50 A 758 GLU SER SER PRO GLU SER PRO VAL THR ILE THR GLU PRO SEQRES 51 A 758 TYR ARG THR LEU SER GLY HIS THR ALA LYS ILE THR SER SEQRES 52 A 758 VAL ALA TRP SER PRO HIS HIS ASP GLY ARG LEU VAL SER SEQRES 53 A 758 ALA SER TYR ASP GLY THR ALA GLN VAL TRP ASP ALA LEU SEQRES 54 A 758 ARG GLU GLU PRO LEU CYS ASN PHE ARG GLY HIS GLN GLY SEQRES 55 A 758 ARG LEU LEU CYS VAL ALA TRP SER PRO LEU ASP PRO ASP SEQRES 56 A 758 CYS ILE TYR SER GLY ALA ASP ASP PHE CYS VAL HIS LYS SEQRES 57 A 758 TRP LEU THR SER MET GLN ASP HIS SER ARG PRO PRO GLN SEQRES 58 A 758 GLY LYS LYS SER ILE GLU LEU GLU LYS LYS ARG LEU SER SEQRES 59 A 758 GLN PRO LYS ALA HET GOL A 801 6 HET GOL A 802 6 HET GOL A 803 6 HET UNX A 804 1 HET UNX A 805 1 HET UNX A 806 1 HET UNX A 807 1 HET UNX A 808 1 HET UNX A 809 1 HET UNX A 810 1 HET UNX A 811 1 HET UNX A 812 1 HET UNX A 813 1 HET UNX A 814 1 HET UNX A 815 1 HET UNX A 816 1 HET UNX A 817 1 HET UNX A 818 1 HET UNX A 819 1 HET UNX A 820 1 HET UNX A 821 1 HET UNX A 822 1 HET UNX A 823 1 HET UNX A 824 1 HET UNX A 825 1 HET UNX A 826 1 HET UNX A 827 1 HET UNX A 828 1 HET UNX A 829 1 HET UNX A 830 1 HET UNX A 831 1 HET UNX A 832 1 HET UNX A 833 1 HET UNX A 834 1 HET UNX A 835 1 HET UNX A 836 1 HET UNX A 837 1 HET UNX A 838 1 HET NA A 839 1 HET NA A 840 1 HETNAM GOL GLYCEROL HETNAM UNX UNKNOWN ATOM OR ION HETNAM NA SODIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL 3(C3 H8 O3) FORMUL 5 UNX 35(X) FORMUL 40 NA 2(NA 1+) FORMUL 42 HOH *420(H2 O) HELIX 1 AA1 PRO A 43 GLY A 46 5 4 HELIX 2 AA2 ASN A 140 ASN A 142 5 3 HELIX 3 AA3 SER A 182 LYS A 184 5 3 HELIX 4 AA4 PHE A 304 GLY A 306 5 3 HELIX 5 AA5 THR A 314 SER A 316 5 3 HELIX 6 AA6 PRO A 484 GLY A 488 5 5 HELIX 7 AA7 ILE A 522 SER A 531 1 10 HELIX 8 AA8 GLN A 593 SER A 597 5 5 HELIX 9 AA9 LEU A 614 SER A 621 1 8 HELIX 10 AB1 LEU A 670 GLU A 672 5 3 HELIX 11 AB2 SER A 713 GLN A 715 5 3 SHEET 1 AA1 4 ARG A 6 LEU A 8 0 SHEET 2 AA1 4 VAL A 707 LEU A 711 -1 O LYS A 709 N ARG A 6 SHEET 3 AA1 4 CYS A 697 ALA A 702 -1 N ILE A 698 O TRP A 710 SHEET 4 AA1 4 LEU A 685 TRP A 690 -1 N ALA A 689 O TYR A 699 SHEET 1 AA2 4 SER A 20 VAL A 23 0 SHEET 2 AA2 4 LEU A 27 ALA A 32 -1 O GLY A 29 N ASP A 21 SHEET 3 AA2 4 SER A 35 VAL A 41 -1 O VAL A 39 N PHE A 28 SHEET 4 AA2 4 PHE A 54 LEU A 60 -1 O GLY A 58 N LEU A 38 SHEET 1 AA3 4 VAL A 67 PHE A 72 0 SHEET 2 AA3 4 LEU A 81 SER A 86 -1 O ALA A 83 N THR A 71 SHEET 3 AA3 4 VAL A 91 ASP A 95 -1 O TRP A 94 N CYS A 82 SHEET 4 AA3 4 THR A 100 HIS A 105 -1 O VAL A 102 N ILE A 93 SHEET 1 AA4 4 ILE A 112 TRP A 117 0 SHEET 2 AA4 4 LEU A 124 ASP A 129 -1 O GLY A 128 N SER A 113 SHEET 3 AA4 4 VAL A 133 TRP A 138 -1 O TYR A 137 N ILE A 125 SHEET 4 AA4 4 ASP A 143 PHE A 148 -1 O LEU A 147 N VAL A 134 SHEET 1 AA5 4 ILE A 154 CYS A 159 0 SHEET 2 AA5 4 LEU A 166 TYR A 171 -1 O GLY A 170 N PHE A 155 SHEET 3 AA5 4 VAL A 176 ASP A 180 -1 O ILE A 179 N VAL A 167 SHEET 4 AA5 4 VAL A 187 LEU A 191 -1 O LEU A 191 N VAL A 176 SHEET 1 AA6 4 ILE A 198 TRP A 203 0 SHEET 2 AA6 4 TYR A 241 SER A 246 -1 O ALA A 243 N ALA A 202 SHEET 3 AA6 4 THR A 250 SER A 255 -1 O TRP A 254 N LEU A 242 SHEET 4 AA6 4 ARG A 260 LYS A 266 -1 O LEU A 265 N ILE A 251 SHEET 1 AA7 4 LEU A 289 HIS A 290 0 SHEET 2 AA7 4 GLN A 298 SER A 302 -1 O VAL A 300 N HIS A 290 SHEET 3 AA7 4 LEU A 308 ASP A 312 -1 O TRP A 311 N LEU A 299 SHEET 4 AA7 4 LYS A 320 LEU A 323 -1 O THR A 322 N GLN A 310 SHEET 1 AA8 4 VAL A 337 GLN A 344 0 SHEET 2 AA8 4 GLN A 350 SER A 356 -1 O LEU A 353 N CYS A 341 SHEET 3 AA8 4 ASP A 360 ASP A 365 -1 O TRP A 364 N LEU A 352 SHEET 4 AA8 4 CYS A 371 PRO A 376 -1 O LEU A 375 N VAL A 361 SHEET 1 AA9 4 ALA A 382 PHE A 387 0 SHEET 2 AA9 4 SER A 394 VAL A 399 -1 O ALA A 396 N ALA A 386 SHEET 3 AA9 4 ILE A 404 ASN A 408 -1 O TRP A 407 N LEU A 395 SHEET 4 AA9 4 VAL A 418 PHE A 421 -1 O PHE A 421 N ILE A 404 SHEET 1 AB1 4 VAL A 429 TRP A 434 0 SHEET 2 AB1 4 CYS A 441 THR A 446 -1 O ALA A 443 N CYS A 433 SHEET 3 AB1 4 VAL A 451 ASP A 455 -1 O TYR A 454 N LEU A 442 SHEET 4 AB1 4 GLN A 463 ILE A 464 -1 O GLN A 463 N LEU A 453 SHEET 1 AB2 4 VAL A 473 GLY A 479 0 SHEET 2 AB2 4 ALA A 497 GLY A 502 -1 O TYR A 499 N ALA A 477 SHEET 3 AB2 4 VAL A 507 HIS A 510 -1 O HIS A 510 N LEU A 498 SHEET 4 AB2 4 PHE A 520 ASP A 521 -1 O PHE A 520 N GLN A 509 SHEET 1 AB3 5 HIS A 539 TRP A 544 0 SHEET 2 AB3 5 ILE A 550 ASN A 555 -1 O GLY A 554 N THR A 540 SHEET 3 AB3 5 ILE A 560 GLN A 564 -1 O GLU A 561 N LEU A 553 SHEET 4 AB3 5 LYS A 569 ILE A 574 -1 O ILE A 574 N ILE A 560 SHEET 5 AB3 5 VAL A 626 ILE A 628 1 O ILE A 628 N THR A 573 SHEET 1 AB4 4 VAL A 581 TRP A 586 0 SHEET 2 AB4 4 LEU A 599 SER A 604 -1 O ALA A 601 N SER A 585 SHEET 3 AB4 4 ILE A 609 ASN A 613 -1 O HIS A 612 N MET A 600 SHEET 4 AB4 4 ARG A 633 LEU A 635 -1 O LEU A 635 N ILE A 609 SHEET 1 AB5 4 ILE A 642 TRP A 647 0 SHEET 2 AB5 4 ARG A 654 SER A 659 -1 O VAL A 656 N ALA A 646 SHEET 3 AB5 4 ALA A 664 ASP A 668 -1 O TRP A 667 N LEU A 655 SHEET 4 AB5 4 GLU A 673 PHE A 678 -1 O LEU A 675 N VAL A 666 SSBOND 1 CYS A 240 CYS A 256 1555 1555 2.02 LINK O ALA A 106 NA NA A 839 1555 1555 2.37 LINK O HIS A 108 NA NA A 839 1555 1555 2.53 LINK O ARG A 679 NA NA A 840 1555 1555 2.43 LINK O HIS A 681 NA NA A 840 1555 1555 2.52 LINK NA NA A 839 O HOH A1031 1555 1555 2.46 LINK NA NA A 839 O HOH A1265 1555 1555 2.15 LINK NA NA A 839 O HOH A1284 1555 1555 2.27 LINK NA NA A 839 O HOH A1290 1555 1555 2.42 LINK NA NA A 840 O HOH A1066 1555 1555 2.25 CISPEP 1 GLY A 25 GLY A 26 0 -4.61 CISPEP 2 PRO A 483 PRO A 484 0 6.70 CISPEP 3 ILE A 565 PRO A 566 0 0.69 SITE 1 AC1 6 PRO A 12 ASN A 13 TRP A 14 ARG A 359 SITE 2 AC1 6 HOH A 951 HOH A1023 SITE 1 AC2 9 TYR A 15 SER A 113 PHE A 155 TRP A 286 SITE 2 AC2 9 HOH A 907 HOH A 956 HOH A1039 HOH A1187 SITE 3 AC2 9 HOH A1229 SITE 1 AC3 6 PHE A 269 LEU A 270 ARG A 272 PHE A 304 SITE 2 AC3 6 ASP A 668 HOH A1058 SITE 1 AC4 6 ALA A 106 HIS A 108 HOH A1031 HOH A1265 SITE 2 AC4 6 HOH A1284 HOH A1290 SITE 1 AC5 3 ARG A 679 HIS A 681 HOH A1066 CRYST1 60.811 124.407 61.034 90.00 119.49 90.00 P 1 21 1 2 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 0.016444 0.000000 0.009299 0.00000 SCALE2 0.000000 0.008038 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018822 0.00000