HEADER FLUORESCENT PROTEIN 03-SEP-21 7VCM TITLE CRYSTAL STRUCTURE OF GINKO1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GREEN FLUORESCENT PROTEIN,POTASSIUM BINDING PROTEIN KBP, COMPND 3 GREEN FLUORESCENT PROTEIN; COMPND 4 CHAIN: A, B; COMPND 5 SYNONYM: K(+) BINDING PROTEIN KBP; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AEQUOREA VICTORIA, ESCHERICHIA COLI K-12; SOURCE 3 ORGANISM_COMMON: WATER JELLYFISH, MESONEMA VICTORIA; SOURCE 4 ORGANISM_TAXID: 6100, 83333; SOURCE 5 STRAIN: K-12; SOURCE 6 GENE: GFP, KBP; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS GREEN FLUORESCENT PROTEIN, GENETICALLY ENCODED BIOSENSOR, POTASSIUM KEYWDS 2 BINDING DOMAIN PROTEIN, FLUORESCENT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Y.WEN,R.E.CAMPBELL,M.J.LEMIEUX REVDAT 4 06-NOV-24 7VCM 1 REMARK REVDAT 3 29-NOV-23 7VCM 1 REMARK REVDAT 2 08-FEB-23 7VCM 1 JRNL REVDAT 1 27-JUL-22 7VCM 0 JRNL AUTH S.Y.WU,Y.WEN,N.B.C.SERRE,C.C.H.LAURSEN,A.G.DIETZ,B.R.TAYLOR, JRNL AUTH 2 M.DROBIZHEV,R.S.MOLINA,A.AGGARWAL,V.RANCIC,M.BECKER, JRNL AUTH 3 K.BALLANYI,K.PODGORSKI,H.HIRASE,M.NEDERGAARD,M.FENDRYCH, JRNL AUTH 4 M.J.LEMIEUX,D.F.EBERL,A.R.KAY,R.E.CAMPBELL,Y.SHEN JRNL TITL A SENSITIVE AND SPECIFIC GENETICALLY-ENCODED POTASSIUM ION JRNL TITL 2 BIOSENSOR FOR IN VIVO APPLICATIONS ACROSS THE TREE OF LIFE. JRNL REF PLOS BIOL. V. 20 01772 2022 JRNL REFN ESSN 1545-7885 JRNL PMID 36067248 JRNL DOI 10.1371/JOURNAL.PBIO.3001772 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.08 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 93.5 REMARK 3 NUMBER OF REFLECTIONS : 56403 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.54 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 7VCM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-SEP-21. REMARK 100 THE DEPOSITION ID IS D_1300024497. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-AUG-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 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 : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 56403 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 42.107 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.5 REMARK 200 DATA REDUNDANCY : 1.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.92 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: MOLREP REMARK 200 STARTING MODEL: 6GEL, 5FIM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M MES PH 6.0, 20% PEG6000, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 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 REMARK 350 BIOMOLECULE: 2 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: 220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17570 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 1 REMARK 465 VAL A 2 REMARK 465 VAL A 165 REMARK 465 THR A 166 REMARK 465 GLY A 167 REMARK 465 GLN A 168 REMARK 465 HIS A 169 REMARK 465 ASP A 170 REMARK 465 LYS A 171 REMARK 465 ASP A 384 REMARK 465 GLU A 385 REMARK 465 LEU A 386 REMARK 465 TYR A 387 REMARK 465 LYS A 388 REMARK 465 MET B 1 REMARK 465 VAL B 2 REMARK 465 SER B 3 REMARK 465 ALA B 164 REMARK 465 VAL B 165 REMARK 465 THR B 166 REMARK 465 GLY B 167 REMARK 465 GLN B 168 REMARK 465 HIS B 169 REMARK 465 ASP B 170 REMARK 465 LYS B 171 REMARK 465 ASP B 384 REMARK 465 GLU B 385 REMARK 465 LEU B 386 REMARK 465 TYR B 387 REMARK 465 LYS B 388 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 A 4 CG CD CE NZ REMARK 470 LYS B 4 CG CD CE NZ 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 ASN A 335 O HOH A 501 1.81 REMARK 500 O HOH A 692 O HOH A 885 1.83 REMARK 500 O HOH A 574 O HOH A 723 1.83 REMARK 500 O HOH A 505 O HOH A 642 1.83 REMARK 500 NZ LYS A 316 O HOH A 502 1.84 REMARK 500 OD2 ASP A 231 O HOH A 503 1.87 REMARK 500 O GLN B 179 O HOH B 501 1.88 REMARK 500 OD1 ASP B 340 O HOH B 502 1.89 REMARK 500 O HOH B 800 O HOH B 807 1.89 REMARK 500 O HOH B 796 O HOH B 844 1.90 REMARK 500 OD2 ASP A 360 O HOH A 504 1.91 REMARK 500 NE2 GLN A 307 O HOH A 505 1.92 REMARK 500 O GLU B 322 O HOH B 503 1.93 REMARK 500 O HOH B 876 O HOH B 901 1.94 REMARK 500 O HOH A 815 O HOH A 900 1.95 REMARK 500 OE2 GLU A 96 O HOH A 506 1.96 REMARK 500 O HOH B 647 O HOH B 831 1.96 REMARK 500 N ALA A 164 O HOH A 507 1.97 REMARK 500 O HOH A 937 O HOH A 942 1.98 REMARK 500 O HOH B 700 O HOH B 805 1.99 REMARK 500 O HOH A 925 O HOH A 934 1.99 REMARK 500 OD1 ASP A 172 O HOH A 508 1.99 REMARK 500 OE1 GLN A 244 O HOH A 509 2.01 REMARK 500 O HOH A 911 O HOH A 913 2.01 REMARK 500 O HOH A 763 O HOH A 889 2.02 REMARK 500 O HOH B 723 O HOH B 810 2.03 REMARK 500 O ILE B 321 O HOH B 504 2.03 REMARK 500 ND2 ASN B 320 O HOH B 505 2.04 REMARK 500 O HOH B 721 O HOH B 841 2.04 REMARK 500 OE1 GLN A 307 O HOH A 505 2.05 REMARK 500 O HOH A 682 O HOH A 730 2.07 REMARK 500 O HOH A 757 O HOH A 909 2.08 REMARK 500 O HOH B 526 O HOH B 816 2.08 REMARK 500 O HOH B 823 O HOH B 849 2.08 REMARK 500 NE2 GLN A 244 O HOH A 510 2.09 REMARK 500 O HOH B 651 O HOH B 851 2.10 REMARK 500 OH TYR A 40 OD2 ASP B 22 2.10 REMARK 500 NE2 GLN B 179 O HOH B 501 2.10 REMARK 500 OE1 GLU B 180 O HOH B 506 2.12 REMARK 500 OD1 ASP A 37 O HOH A 511 2.12 REMARK 500 O HOH A 589 O HOH A 920 2.14 REMARK 500 N ASP B 134 O HOH B 507 2.14 REMARK 500 O HOH B 508 O HOH B 840 2.14 REMARK 500 O HOH A 542 O HOH A 745 2.14 REMARK 500 N LYS B 4 O HOH B 508 2.16 REMARK 500 O HOH B 857 O HOH B 869 2.16 REMARK 500 O GLY B 52 O HOH B 509 2.17 REMARK 500 O HOH B 758 O HOH B 796 2.17 REMARK 500 O HOH A 906 O HOH A 948 2.17 REMARK 500 O HOH A 671 O HOH A 848 2.17 REMARK 500 REMARK 500 THIS ENTRY HAS 57 CLOSE CONTACTS 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 524 O HOH A 718 1455 1.70 REMARK 500 O HOH A 865 O HOH A 928 1565 1.85 REMARK 500 O HOH A 817 O HOH B 514 1565 2.00 REMARK 500 O HOH A 875 O HOH B 529 1564 2.02 REMARK 500 O HOH A 875 O HOH B 898 1554 2.06 REMARK 500 O HOH A 585 O HOH A 733 1545 2.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 SER A 250 CB SER A 250 OG -0.089 REMARK 500 REMARK 500 REMARK: NULL 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 A 148 CB - CG - OD1 ANGL. DEV. = 10.8 DEGREES REMARK 500 ASP A 148 CB - CG - OD2 ANGL. DEV. = -9.8 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 ASP A 104 -159.93 -166.68 REMARK 500 PRO A 147 131.69 -34.27 REMARK 500 ASN A 223 47.09 -84.91 REMARK 500 GLN A 233 41.74 -104.01 REMARK 500 PRO A 239 -113.70 -52.01 REMARK 500 ALA A 240 133.59 86.57 REMARK 500 THR A 241 132.96 -37.64 REMARK 500 GLN A 307 10.50 -64.21 REMARK 500 ASP A 323 30.08 -96.39 REMARK 500 ASP B 104 -160.94 -166.64 REMARK 500 PRO B 147 126.73 -34.80 REMARK 500 ASN B 223 47.13 -83.82 REMARK 500 GLN B 233 41.09 -104.70 REMARK 500 THR B 241 127.55 -38.46 REMARK 500 GLN B 307 10.22 -66.32 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 949 DISTANCE = 5.95 ANGSTROMS REMARK 525 HOH A 950 DISTANCE = 6.08 ANGSTROMS REMARK 525 HOH A 951 DISTANCE = 6.35 ANGSTROMS REMARK 525 HOH A 952 DISTANCE = 6.97 ANGSTROMS REMARK 525 HOH A 953 DISTANCE = 7.05 ANGSTROMS REMARK 525 HOH A 954 DISTANCE = 7.18 ANGSTROMS REMARK 525 HOH A 955 DISTANCE = 7.28 ANGSTROMS REMARK 525 HOH B 934 DISTANCE = 6.27 ANGSTROMS REMARK 525 HOH B 935 DISTANCE = 6.37 ANGSTROMS REMARK 525 HOH B 936 DISTANCE = 6.42 ANGSTROMS REMARK 525 HOH B 937 DISTANCE = 6.53 ANGSTROMS 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 K A 401 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL A 154 O REMARK 620 2 LYS A 155 O 66.9 REMARK 620 3 ALA A 157 O 84.4 78.8 REMARK 620 4 GLY A 222 O 136.9 150.0 115.9 REMARK 620 5 ILE A 224 O 139.0 74.4 75.3 84.0 REMARK 620 6 ILE A 227 O 93.6 72.5 149.5 86.0 87.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B 401 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL B 154 O REMARK 620 2 LYS B 155 O 66.0 REMARK 620 3 ALA B 157 O 84.5 78.3 REMARK 620 4 GLY B 222 O 137.9 150.8 114.8 REMARK 620 5 ILE B 224 O 139.4 76.0 74.1 82.7 REMARK 620 6 ILE B 227 O 94.0 72.4 148.5 87.0 87.4 REMARK 620 N 1 2 3 4 5 DBREF 7VCM A 3 145 UNP P42212 GFP_AEQVI 2 144 DBREF 7VCM A 149 296 UNP P0ADE6 KBP_ECOLI 2 149 DBREF 7VCM A 299 388 UNP P42212 GFP_AEQVI 149 238 DBREF 7VCM B 3 145 UNP P42212 GFP_AEQVI 2 144 DBREF 7VCM B 149 296 UNP P0ADE6 KBP_ECOLI 2 149 DBREF 7VCM B 299 388 UNP P42212 GFP_AEQVI 149 238 SEQADV 7VCM MET A 1 UNP P42212 INITIATING METHIONINE SEQADV 7VCM VAL A 2 UNP P42212 EXPRESSION TAG SEQADV 7VCM LEU A 65 UNP P42212 PHE 64 ENGINEERED MUTATION SEQADV 7VCM CRO A 67 UNP P42212 SER 65 CHROMOPHORE SEQADV 7VCM CRO A 67 UNP P42212 TYR 66 CHROMOPHORE SEQADV 7VCM CRO A 67 UNP P42212 GLY 67 CHROMOPHORE SEQADV 7VCM ILE A 94 UNP P42212 VAL 93 ENGINEERED MUTATION SEQADV 7VCM LEU A 146 UNP P42212 LINKER SEQADV 7VCM PRO A 147 UNP P42212 LINKER SEQADV 7VCM ASP A 148 UNP P42212 LINKER SEQADV 7VCM LEU A 297 UNP P0ADE6 LINKER SEQADV 7VCM GLU A 298 UNP P0ADE6 LINKER SEQADV 7VCM LYS A 303 UNP P42212 MET 153 ENGINEERED MUTATION SEQADV 7VCM ALA A 313 UNP P42212 VAL 163 ENGINEERED MUTATION SEQADV 7VCM GLY A 325 UNP P42212 SER 175 ENGINEERED MUTATION SEQADV 7VCM TYR A 330 UNP P42212 ASP 180 ENGINEERED MUTATION SEQADV 7VCM VAL A 353 UNP P42212 THR 203 ENGINEERED MUTATION SEQADV 7VCM LYS A 356 UNP P42212 ALA 206 ENGINEERED MUTATION SEQADV 7VCM LEU A 381 UNP P42212 HIS 231 ENGINEERED MUTATION SEQADV 7VCM MET B 1 UNP P42212 INITIATING METHIONINE SEQADV 7VCM VAL B 2 UNP P42212 EXPRESSION TAG SEQADV 7VCM LEU B 65 UNP P42212 PHE 64 ENGINEERED MUTATION SEQADV 7VCM CRO B 67 UNP P42212 SER 65 CHROMOPHORE SEQADV 7VCM CRO B 67 UNP P42212 TYR 66 CHROMOPHORE SEQADV 7VCM CRO B 67 UNP P42212 GLY 67 CHROMOPHORE SEQADV 7VCM ILE B 94 UNP P42212 VAL 93 ENGINEERED MUTATION SEQADV 7VCM LEU B 146 UNP P42212 LINKER SEQADV 7VCM PRO B 147 UNP P42212 LINKER SEQADV 7VCM ASP B 148 UNP P42212 LINKER SEQADV 7VCM LEU B 297 UNP P0ADE6 LINKER SEQADV 7VCM GLU B 298 UNP P0ADE6 LINKER SEQADV 7VCM LYS B 303 UNP P42212 MET 153 ENGINEERED MUTATION SEQADV 7VCM ALA B 313 UNP P42212 VAL 163 ENGINEERED MUTATION SEQADV 7VCM GLY B 325 UNP P42212 SER 175 ENGINEERED MUTATION SEQADV 7VCM TYR B 330 UNP P42212 ASP 180 ENGINEERED MUTATION SEQADV 7VCM VAL B 353 UNP P42212 THR 203 ENGINEERED MUTATION SEQADV 7VCM LYS B 356 UNP P42212 ALA 206 ENGINEERED MUTATION SEQADV 7VCM LEU B 381 UNP P42212 HIS 231 ENGINEERED MUTATION SEQRES 1 A 386 MET VAL SER LYS GLY GLU GLU LEU PHE THR GLY VAL VAL SEQRES 2 A 386 PRO ILE LEU VAL GLU LEU ASP GLY ASP VAL ASN GLY HIS SEQRES 3 A 386 LYS PHE SER VAL SER GLY GLU GLY GLU GLY ASP ALA THR SEQRES 4 A 386 TYR GLY LYS LEU THR LEU LYS PHE ILE CYS THR THR GLY SEQRES 5 A 386 LYS LEU PRO VAL PRO TRP PRO THR LEU VAL THR THR LEU SEQRES 6 A 386 CRO VAL GLN CYS PHE SER ARG TYR PRO ASP HIS MET LYS SEQRES 7 A 386 GLN HIS ASP PHE PHE LYS SER ALA MET PRO GLU GLY TYR SEQRES 8 A 386 ILE GLN GLU ARG THR ILE PHE PHE LYS ASP ASP GLY ASN SEQRES 9 A 386 TYR LYS THR ARG ALA GLU VAL LYS PHE GLU GLY ASP THR SEQRES 10 A 386 LEU VAL ASN ARG ILE GLU LEU LYS GLY ILE ASP PHE LYS SEQRES 11 A 386 GLU ASP GLY ASN ILE LEU GLY HIS LYS LEU GLU TYR ASN SEQRES 12 A 386 LEU PRO ASP GLY LEU PHE ASN PHE VAL LYS ASP ALA GLY SEQRES 13 A 386 GLU LYS LEU TRP ASP ALA VAL THR GLY GLN HIS ASP LYS SEQRES 14 A 386 ASP ASP GLN ALA LYS LYS VAL GLN GLU HIS LEU ASN LYS SEQRES 15 A 386 THR GLY ILE PRO ASP ALA ASP LYS VAL ASN ILE GLN ILE SEQRES 16 A 386 ALA ASP GLY LYS ALA THR VAL THR GLY ASP GLY LEU SER SEQRES 17 A 386 GLN GLU ALA LYS GLU LYS ILE LEU VAL ALA VAL GLY ASN SEQRES 18 A 386 ILE SER GLY ILE ALA SER VAL ASP ASP GLN VAL LYS THR SEQRES 19 A 386 ALA THR PRO ALA THR ALA SER GLN PHE TYR THR VAL LYS SEQRES 20 A 386 SER GLY ASP THR LEU SER ALA ILE SER LYS GLN VAL TYR SEQRES 21 A 386 GLY ASN ALA ASN LEU TYR ASN LYS ILE PHE GLU ALA ASN SEQRES 22 A 386 LYS PRO MET LEU LYS SER PRO ASP LYS ILE TYR PRO GLY SEQRES 23 A 386 GLN VAL LEU ARG ILE PRO GLU GLU LEU GLU ASN VAL TYR SEQRES 24 A 386 ILE LYS ALA ASP LYS GLN LYS ASN GLY ILE LYS ALA ASN SEQRES 25 A 386 PHE LYS ILE ARG HIS ASN ILE GLU ASP GLY GLY VAL GLN SEQRES 26 A 386 LEU ALA TYR HIS TYR GLN GLN ASN THR PRO ILE GLY ASP SEQRES 27 A 386 GLY PRO VAL LEU LEU PRO ASP ASN HIS TYR LEU SER VAL SEQRES 28 A 386 GLN SER LYS LEU SER LYS ASP PRO ASN GLU LYS ARG ASP SEQRES 29 A 386 HIS MET VAL LEU LEU GLU PHE VAL THR ALA ALA GLY ILE SEQRES 30 A 386 THR LEU GLY MET ASP GLU LEU TYR LYS SEQRES 1 B 386 MET VAL SER LYS GLY GLU GLU LEU PHE THR GLY VAL VAL SEQRES 2 B 386 PRO ILE LEU VAL GLU LEU ASP GLY ASP VAL ASN GLY HIS SEQRES 3 B 386 LYS PHE SER VAL SER GLY GLU GLY GLU GLY ASP ALA THR SEQRES 4 B 386 TYR GLY LYS LEU THR LEU LYS PHE ILE CYS THR THR GLY SEQRES 5 B 386 LYS LEU PRO VAL PRO TRP PRO THR LEU VAL THR THR LEU SEQRES 6 B 386 CRO VAL GLN CYS PHE SER ARG TYR PRO ASP HIS MET LYS SEQRES 7 B 386 GLN HIS ASP PHE PHE LYS SER ALA MET PRO GLU GLY TYR SEQRES 8 B 386 ILE GLN GLU ARG THR ILE PHE PHE LYS ASP ASP GLY ASN SEQRES 9 B 386 TYR LYS THR ARG ALA GLU VAL LYS PHE GLU GLY ASP THR SEQRES 10 B 386 LEU VAL ASN ARG ILE GLU LEU LYS GLY ILE ASP PHE LYS SEQRES 11 B 386 GLU ASP GLY ASN ILE LEU GLY HIS LYS LEU GLU TYR ASN SEQRES 12 B 386 LEU PRO ASP GLY LEU PHE ASN PHE VAL LYS ASP ALA GLY SEQRES 13 B 386 GLU LYS LEU TRP ASP ALA VAL THR GLY GLN HIS ASP LYS SEQRES 14 B 386 ASP ASP GLN ALA LYS LYS VAL GLN GLU HIS LEU ASN LYS SEQRES 15 B 386 THR GLY ILE PRO ASP ALA ASP LYS VAL ASN ILE GLN ILE SEQRES 16 B 386 ALA ASP GLY LYS ALA THR VAL THR GLY ASP GLY LEU SER SEQRES 17 B 386 GLN GLU ALA LYS GLU LYS ILE LEU VAL ALA VAL GLY ASN SEQRES 18 B 386 ILE SER GLY ILE ALA SER VAL ASP ASP GLN VAL LYS THR SEQRES 19 B 386 ALA THR PRO ALA THR ALA SER GLN PHE TYR THR VAL LYS SEQRES 20 B 386 SER GLY ASP THR LEU SER ALA ILE SER LYS GLN VAL TYR SEQRES 21 B 386 GLY ASN ALA ASN LEU TYR ASN LYS ILE PHE GLU ALA ASN SEQRES 22 B 386 LYS PRO MET LEU LYS SER PRO ASP LYS ILE TYR PRO GLY SEQRES 23 B 386 GLN VAL LEU ARG ILE PRO GLU GLU LEU GLU ASN VAL TYR SEQRES 24 B 386 ILE LYS ALA ASP LYS GLN LYS ASN GLY ILE LYS ALA ASN SEQRES 25 B 386 PHE LYS ILE ARG HIS ASN ILE GLU ASP GLY GLY VAL GLN SEQRES 26 B 386 LEU ALA TYR HIS TYR GLN GLN ASN THR PRO ILE GLY ASP SEQRES 27 B 386 GLY PRO VAL LEU LEU PRO ASP ASN HIS TYR LEU SER VAL SEQRES 28 B 386 GLN SER LYS LEU SER LYS ASP PRO ASN GLU LYS ARG ASP SEQRES 29 B 386 HIS MET VAL LEU LEU GLU PHE VAL THR ALA ALA GLY ILE SEQRES 30 B 386 THR LEU GLY MET ASP GLU LEU TYR LYS MODRES 7VCM CRO A 67 SER CHROMOPHORE MODRES 7VCM CRO A 67 TYR CHROMOPHORE MODRES 7VCM CRO A 67 GLY CHROMOPHORE MODRES 7VCM CRO B 67 SER CHROMOPHORE MODRES 7VCM CRO B 67 TYR CHROMOPHORE MODRES 7VCM CRO B 67 GLY CHROMOPHORE HET CRO A 67 22 HET CRO B 67 22 HET K A 401 1 HET K B 401 1 HETNAM CRO {2-[(1R,2R)-1-AMINO-2-HYDROXYPROPYL]-4-(4- HETNAM 2 CRO HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1- HETNAM 3 CRO YL}ACETIC ACID HETNAM K POTASSIUM ION HETSYN CRO PEPTIDE DERIVED CHROMOPHORE FORMUL 1 CRO 2(C15 H17 N3 O5) FORMUL 3 K 2(K 1+) FORMUL 5 HOH *892(H2 O) HELIX 1 AA1 SER A 3 THR A 10 5 8 HELIX 2 AA2 PRO A 57 VAL A 62 5 6 HELIX 3 AA3 VAL A 69 SER A 73 5 5 HELIX 4 AA4 PRO A 76 HIS A 82 5 7 HELIX 5 AA5 ASP A 83 ALA A 88 1 6 HELIX 6 AA6 ASP A 173 THR A 185 1 13 HELIX 7 AA7 ASP A 189 ASP A 191 5 3 HELIX 8 AA8 SER A 210 ASN A 223 1 14 HELIX 9 AA9 THR A 253 GLY A 263 1 11 HELIX 10 AB1 ASN A 264 ASN A 266 5 3 HELIX 11 AB2 LEU A 267 ASN A 275 1 9 HELIX 12 AB3 SER A 281 ILE A 285 5 5 HELIX 13 AB4 LYS A 306 ASN A 309 5 4 HELIX 14 AB5 GLY B 5 THR B 10 5 6 HELIX 15 AB6 PRO B 57 VAL B 62 5 6 HELIX 16 AB7 VAL B 69 SER B 73 5 5 HELIX 17 AB8 PRO B 76 HIS B 82 5 7 HELIX 18 AB9 ASP B 83 ALA B 88 1 6 HELIX 19 AC1 ASP B 173 THR B 185 1 13 HELIX 20 AC2 ASP B 189 ASP B 191 5 3 HELIX 21 AC3 SER B 210 ASN B 223 1 14 HELIX 22 AC4 THR B 253 TYR B 262 1 10 HELIX 23 AC5 ASN B 264 ASN B 266 5 3 HELIX 24 AC6 LEU B 267 ASN B 275 1 9 HELIX 25 AC7 SER B 281 ILE B 285 5 5 HELIX 26 AC8 LYS B 306 ASN B 309 5 4 SHEET 1 AA112 VAL A 12 VAL A 23 0 SHEET 2 AA112 HIS A 26 ASP A 37 -1 O GLY A 34 N ILE A 15 SHEET 3 AA112 LYS A 42 CYS A 49 -1 O LYS A 42 N ASP A 37 SHEET 4 AA112 HIS A 367 GLY A 378 -1 O MET A 368 N PHE A 47 SHEET 5 AA112 HIS A 349 SER A 358 -1 N SER A 352 O THR A 375 SHEET 6 AA112 VAL A 300 ASP A 305 -1 N ILE A 302 O HIS A 349 SHEET 7 AA112 GLY A 310 ASN A 320 -1 O LYS A 312 N LYS A 303 SHEET 8 AA112 VAL A 326 PRO A 337 -1 O HIS A 331 N PHE A 315 SHEET 9 AA112 TYR A 93 PHE A 101 -1 N ILE A 94 O THR A 336 SHEET 10 AA112 ASN A 106 GLU A 116 -1 O TYR A 107 N ILE A 99 SHEET 11 AA112 THR A 119 ILE A 129 -1 O VAL A 121 N LYS A 114 SHEET 12 AA112 VAL A 12 VAL A 23 1 N GLU A 18 O ILE A 124 SHEET 1 AA2 4 LEU A 150 ASN A 152 0 SHEET 2 AA2 4 SER A 229 THR A 236 -1 O VAL A 230 N PHE A 151 SHEET 3 AA2 4 LYS A 201 LEU A 209 1 N ALA A 202 O ASP A 231 SHEET 4 AA2 4 VAL A 193 ALA A 198 -1 N ALA A 198 O LYS A 201 SHEET 1 AA3 2 GLN A 244 THR A 247 0 SHEET 2 AA3 2 VAL A 290 ILE A 293 -1 O ILE A 293 N GLN A 244 SHEET 1 AA412 VAL B 12 VAL B 23 0 SHEET 2 AA412 HIS B 26 ASP B 37 -1 O GLY B 32 N VAL B 17 SHEET 3 AA412 LYS B 42 CYS B 49 -1 O LYS B 42 N ASP B 37 SHEET 4 AA412 HIS B 367 GLY B 378 -1 O MET B 368 N PHE B 47 SHEET 5 AA412 HIS B 349 SER B 358 -1 N SER B 352 O THR B 375 SHEET 6 AA412 VAL B 300 ASP B 305 -1 N ILE B 302 O HIS B 349 SHEET 7 AA412 GLY B 310 ASN B 320 -1 O LYS B 312 N LYS B 303 SHEET 8 AA412 VAL B 326 PRO B 337 -1 O HIS B 331 N PHE B 315 SHEET 9 AA412 TYR B 93 PHE B 101 -1 N ILE B 94 O THR B 336 SHEET 10 AA412 ASN B 106 GLU B 116 -1 O TYR B 107 N ILE B 99 SHEET 11 AA412 THR B 119 ILE B 129 -1 O VAL B 121 N LYS B 114 SHEET 12 AA412 VAL B 12 VAL B 23 1 N GLU B 18 O ILE B 124 SHEET 1 AA5 4 LEU B 150 ASN B 152 0 SHEET 2 AA5 4 SER B 229 THR B 236 -1 O VAL B 230 N PHE B 151 SHEET 3 AA5 4 LYS B 201 LEU B 209 1 N ALA B 202 O ASP B 231 SHEET 4 AA5 4 VAL B 193 ALA B 198 -1 N ALA B 198 O LYS B 201 SHEET 1 AA6 2 GLN B 244 THR B 247 0 SHEET 2 AA6 2 VAL B 290 ILE B 293 -1 O ILE B 293 N GLN B 244 LINK C LEU A 65 N1 CRO A 67 1555 1555 1.33 LINK C3 CRO A 67 N VAL A 69 1555 1555 1.33 LINK C LEU B 65 N1 CRO B 67 1555 1555 1.33 LINK C3 CRO B 67 N VAL B 69 1555 1555 1.33 LINK O VAL A 154 K K A 401 1555 1555 2.80 LINK O LYS A 155 K K A 401 1555 1555 3.20 LINK O ALA A 157 K K A 401 1555 1555 2.58 LINK O GLY A 222 K K A 401 1555 1555 2.70 LINK O ILE A 224 K K A 401 1555 1555 2.84 LINK O ILE A 227 K K A 401 1555 1555 2.82 LINK O VAL B 154 K K B 401 1555 1555 2.81 LINK O LYS B 155 K K B 401 1555 1555 3.18 LINK O ALA B 157 K K B 401 1555 1555 2.56 LINK O GLY B 222 K K B 401 1555 1555 2.74 LINK O ILE B 224 K K B 401 1555 1555 2.83 LINK O ILE B 227 K K B 401 1555 1555 2.82 CISPEP 1 MET A 89 PRO A 90 0 5.15 CISPEP 2 LYS A 276 PRO A 277 0 2.94 CISPEP 3 LYS B 4 GLY B 5 0 -2.97 CISPEP 4 MET B 89 PRO B 90 0 4.99 CISPEP 5 LYS B 276 PRO B 277 0 0.24 CRYST1 46.827 49.319 83.683 89.96 89.97 80.95 P 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 0.021355 -0.003401 -0.000009 0.00000 SCALE2 0.000000 0.020532 -0.000013 0.00000 SCALE3 0.000000 0.000000 0.011950 0.00000