HEADER PEPTIDE BINDING PROTEIN/HYDROLASE 20-JAN-19 6J8N TITLE CRYSTAL STRUCTURE OF SVBP-VASH1 COMPLEX, MUTATION C169A OF VASH1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SMALL VASOHIBIN-BINDING PROTEIN; COMPND 3 CHAIN: A, C; COMPND 4 SYNONYM: COILED COIL DOMAIN-CONTAINING PROTEIN 23; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: TUBULINYL-TYR CARBOXYPEPTIDASE 1; COMPND 8 CHAIN: B, D; COMPND 9 SYNONYM: TUBULIN CARBOXYPEPTIDASE 1,TYROSINE CARBOXYPEPTIDASE 1,TTCP COMPND 10 1,VASOHIBIN-1; COMPND 11 EC: 3.4.17.17; COMPND 12 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: SVBP, CCDC23; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 866768; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: VASH1, KIAA1036, VASH; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 866768 KEYWDS PROTEASE, COMPLEX, PEPTIDE BINDING PROTEIN, PEPTIDE BINDING PROTEIN- KEYWDS 2 HYDROLASE COMPLEX, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS KEYWDS 3 CONSORTIUM, SGC EXPDTA X-RAY DIFFRACTION AUTHOR S.LIAO,J.GAO,C.XU,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 4 03-APR-24 6J8N 1 REMARK REVDAT 3 27-MAR-24 6J8N 1 REMARK REVDAT 2 17-JUL-19 6J8N 1 JRNL REVDAT 1 19-JUN-19 6J8N 0 JRNL AUTH S.LIAO,G.RAJENDRAPRASAD,N.WANG,S.EIBES,J.GAO,H.YU,G.WU,X.TU, JRNL AUTH 2 H.HUANG,M.BARISIC,C.XU JRNL TITL MOLECULAR BASIS OF VASOHIBINS-MEDIATED DETYROSINATION AND JRNL TITL 2 ITS IMPACT ON SPINDLE FUNCTION AND MITOSIS. JRNL REF CELL RES. V. 29 533 2019 JRNL REFN ISSN 1001-0602 JRNL PMID 31171830 JRNL DOI 10.1038/S41422-019-0187-Y REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.14_3260: 000) 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.70 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 57964 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.420 REMARK 3 FREE R VALUE TEST SET COUNT : 1984 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 33.7078 - 4.6958 0.98 4155 147 0.1876 0.2155 REMARK 3 2 4.6958 - 3.7288 1.00 4095 145 0.1524 0.1464 REMARK 3 3 3.7288 - 3.2579 1.00 4026 143 0.1726 0.1997 REMARK 3 4 3.2579 - 2.9602 1.00 4021 143 0.1840 0.2306 REMARK 3 5 2.9602 - 2.7481 1.00 4024 142 0.1914 0.2148 REMARK 3 6 2.7481 - 2.5862 1.00 3977 140 0.1915 0.2233 REMARK 3 7 2.5862 - 2.4567 1.00 4008 143 0.1954 0.2073 REMARK 3 8 2.4567 - 2.3498 1.00 3952 140 0.1933 0.2206 REMARK 3 9 2.3498 - 2.2593 1.00 3957 140 0.1958 0.2324 REMARK 3 10 2.2593 - 2.1814 1.00 3988 141 0.1931 0.2389 REMARK 3 11 2.1814 - 2.1132 1.00 3933 140 0.1977 0.2225 REMARK 3 12 2.1132 - 2.0528 1.00 3944 140 0.2053 0.2411 REMARK 3 13 2.0528 - 1.9988 1.00 3922 139 0.2115 0.2473 REMARK 3 14 1.9988 - 1.9500 0.99 3978 141 0.2297 0.2717 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.950 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 : 0.005 4358 REMARK 3 ANGLE : 0.868 5879 REMARK 3 CHIRALITY : 0.044 629 REMARK 3 PLANARITY : 0.005 757 REMARK 3 DIHEDRAL : 9.200 3161 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 6J8N COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 30-JAN-19. REMARK 100 THE DEPOSITION ID IS D_1300010659. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-SEP-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 : SSRF REMARK 200 BEAMLINE : BL18U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 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 : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 58570 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.80 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 12.60 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: PHENIX (1.14_3260: 000) REMARK 200 STARTING MODEL: A LOW RESOLUTION SEMET STRUCTURE IN OUR GROUP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.77 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 6% V/V TACSIMATE PH6.0, 0.1M MES REMARK 280 MONOHYDRATE PH 6.0, 25% PEG 4000, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 35.01000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 62.24900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.03900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 62.24900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.01000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.03900 REMARK 290 SMTRY3 4 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2070 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13820 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2090 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13600 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 ASP A 2 REMARK 465 PRO A 3 REMARK 465 PRO A 4 REMARK 465 ALA A 5 REMARK 465 ARG A 6 REMARK 465 LYS A 7 REMARK 465 GLU A 8 REMARK 465 LYS A 9 REMARK 465 THR A 10 REMARK 465 LYS A 11 REMARK 465 VAL A 12 REMARK 465 LYS A 13 REMARK 465 GLU A 14 REMARK 465 SER A 15 REMARK 465 VAL A 16 REMARK 465 SER A 17 REMARK 465 ARG A 18 REMARK 465 VAL A 19 REMARK 465 GLU A 20 REMARK 465 LYS A 21 REMARK 465 ALA A 22 REMARK 465 LYS A 23 REMARK 465 GLN A 24 REMARK 465 LYS A 25 REMARK 465 GLU A 50 REMARK 465 GLN A 51 REMARK 465 GLN A 52 REMARK 465 GLN A 53 REMARK 465 PHE A 54 REMARK 465 ASP A 55 REMARK 465 GLU A 56 REMARK 465 PHE A 57 REMARK 465 CYS A 58 REMARK 465 LYS A 59 REMARK 465 GLN A 60 REMARK 465 MET A 61 REMARK 465 GLN A 62 REMARK 465 PRO A 63 REMARK 465 PRO A 64 REMARK 465 GLY A 65 REMARK 465 GLU A 66 REMARK 465 LYS B 304 REMARK 465 ILE B 305 REMARK 465 GLY B 306 REMARK 465 MET C 1 REMARK 465 ASP C 2 REMARK 465 PRO C 3 REMARK 465 PRO C 4 REMARK 465 ALA C 5 REMARK 465 ARG C 6 REMARK 465 LYS C 7 REMARK 465 GLU C 8 REMARK 465 LYS C 9 REMARK 465 THR C 10 REMARK 465 LYS C 11 REMARK 465 VAL C 12 REMARK 465 LYS C 13 REMARK 465 GLU C 14 REMARK 465 SER C 15 REMARK 465 VAL C 16 REMARK 465 SER C 17 REMARK 465 ARG C 18 REMARK 465 VAL C 19 REMARK 465 GLU C 20 REMARK 465 LYS C 21 REMARK 465 ALA C 22 REMARK 465 LYS C 23 REMARK 465 GLN C 24 REMARK 465 LYS C 25 REMARK 465 GLU C 50 REMARK 465 GLN C 51 REMARK 465 GLN C 52 REMARK 465 GLN C 53 REMARK 465 PHE C 54 REMARK 465 ASP C 55 REMARK 465 GLU C 56 REMARK 465 PHE C 57 REMARK 465 CYS C 58 REMARK 465 LYS C 59 REMARK 465 GLN C 60 REMARK 465 MET C 61 REMARK 465 GLN C 62 REMARK 465 PRO C 63 REMARK 465 PRO C 64 REMARK 465 GLY C 65 REMARK 465 GLU C 66 REMARK 465 LYS D 304 REMARK 465 ILE D 305 REMARK 465 GLY D 306 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 D 622 O HOH D 623 1.88 REMARK 500 O HOH B 643 O HOH D 653 1.90 REMARK 500 O HOH D 475 O HOH D 539 1.93 REMARK 500 O HOH B 590 O HOH B 625 1.96 REMARK 500 O HOH B 607 O HOH D 628 1.99 REMARK 500 O HOH B 623 O HOH B 663 1.99 REMARK 500 O HOH B 647 O HOH B 678 1.99 REMARK 500 OE2 GLU C 48 O HOH C 101 1.99 REMARK 500 O HOH D 443 O HOH D 462 2.00 REMARK 500 O HOH B 576 O HOH B 626 2.02 REMARK 500 OE1 GLU B 123 O HOH B 401 2.02 REMARK 500 O HOH D 626 O HOH D 655 2.03 REMARK 500 O HOH B 657 O HOH B 692 2.03 REMARK 500 O HOH B 584 O HOH B 616 2.03 REMARK 500 O HOH D 607 O HOH D 636 2.05 REMARK 500 O HOH B 568 O HOH B 614 2.05 REMARK 500 OE2 GLU B 131 O HOH B 402 2.06 REMARK 500 O HOH D 616 O HOH D 674 2.07 REMARK 500 O HOH B 667 O HOH B 672 2.07 REMARK 500 O GLY B 88 O HOH B 403 2.08 REMARK 500 OE1 GLU B 187 O HOH B 404 2.10 REMARK 500 O HOH B 653 O HOH B 668 2.10 REMARK 500 O HOH D 603 O HOH D 638 2.11 REMARK 500 O HOH B 467 O HOH B 555 2.12 REMARK 500 O HOH B 468 O HOH B 540 2.13 REMARK 500 NE2 GLN D 113 O HOH D 401 2.14 REMARK 500 O HOH B 555 O HOH B 646 2.14 REMARK 500 O HOH C 111 O HOH C 119 2.14 REMARK 500 O HOH D 652 O HOH D 659 2.14 REMARK 500 O HOH D 589 O HOH D 624 2.14 REMARK 500 O THR B 99 O HOH B 405 2.14 REMARK 500 O HOH B 465 O HOH B 583 2.14 REMARK 500 OE1 GLU D 271 O HOH D 402 2.15 REMARK 500 NH1 ARG D 299 O HOH D 403 2.15 REMARK 500 NH1 ARG B 223 O HOH B 406 2.15 REMARK 500 O HOH D 425 O HOH D 479 2.16 REMARK 500 O HOH C 128 O HOH D 670 2.16 REMARK 500 O HOH B 658 O HOH B 696 2.16 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 B 543 O HOH D 483 3544 1.98 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 ARG B 223 CG - CD - NE ANGL. DEV. = -26.1 DEGREES REMARK 500 ARG D 94 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 LYS D 292 CD - CE - NZ ANGL. DEV. = -14.9 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 GLN B 133 144.52 81.01 REMARK 500 LYS B 168 -165.37 -117.03 REMARK 500 MET B 227 -96.95 -139.78 REMARK 500 ARG B 302 48.61 -73.18 REMARK 500 GLN D 133 144.87 81.14 REMARK 500 LYS D 168 -165.02 -116.53 REMARK 500 MET D 227 -96.90 -139.77 REMARK 500 ARG D 302 45.90 -73.34 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 GLU B 283 0.07 SIDE CHAIN 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 B 709 DISTANCE = 5.85 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: VASH1C169A RELATED DB: TARGETTRACK DBREF 6J8N A 1 66 UNP Q8N300 SVBP_HUMAN 1 66 DBREF 6J8N B 70 306 UNP Q7L8A9 VASH1_HUMAN 70 306 DBREF 6J8N C 1 66 UNP Q8N300 SVBP_HUMAN 1 66 DBREF 6J8N D 70 306 UNP Q7L8A9 VASH1_HUMAN 70 306 SEQADV 6J8N MET B 69 UNP Q7L8A9 INITIATING METHIONINE SEQADV 6J8N ALA B 169 UNP Q7L8A9 CYS 169 ENGINEERED MUTATION SEQADV 6J8N MET D 69 UNP Q7L8A9 INITIATING METHIONINE SEQADV 6J8N ALA D 169 UNP Q7L8A9 CYS 169 ENGINEERED MUTATION SEQRES 1 A 66 MET ASP PRO PRO ALA ARG LYS GLU LYS THR LYS VAL LYS SEQRES 2 A 66 GLU SER VAL SER ARG VAL GLU LYS ALA LYS GLN LYS SER SEQRES 3 A 66 ALA GLN GLN GLU LEU LYS GLN ARG GLN ARG ALA GLU ILE SEQRES 4 A 66 TYR ALA LEU ASN ARG VAL MET THR GLU LEU GLU GLN GLN SEQRES 5 A 66 GLN PHE ASP GLU PHE CYS LYS GLN MET GLN PRO PRO GLY SEQRES 6 A 66 GLU SEQRES 1 B 238 MET ASP GLU ALA THR TRP GLU ARG MET TRP LYS HIS VAL SEQRES 2 B 238 ALA LYS ILE HIS PRO ASP GLY GLU LYS VAL ALA GLN ARG SEQRES 3 B 238 ILE ARG GLY ALA THR ASP LEU PRO LYS ILE PRO ILE PRO SEQRES 4 B 238 SER VAL PRO THR PHE GLN PRO SER THR PRO VAL PRO GLU SEQRES 5 B 238 ARG LEU GLU ALA VAL GLN ARG TYR ILE ARG GLU LEU GLN SEQRES 6 B 238 TYR ASN HIS THR GLY THR GLN PHE PHE GLU ILE LYS LYS SEQRES 7 B 238 SER ARG PRO LEU THR GLY LEU MET ASP LEU ALA LYS GLU SEQRES 8 B 238 MET THR LYS GLU ALA LEU PRO ILE LYS ALA LEU GLU ALA SEQRES 9 B 238 VAL ILE LEU GLY ILE TYR LEU THR ASN SER MET PRO THR SEQRES 10 B 238 LEU GLU ARG PHE PRO ILE SER PHE LYS THR TYR PHE SER SEQRES 11 B 238 GLY ASN TYR PHE ARG HIS ILE VAL LEU GLY VAL ASN PHE SEQRES 12 B 238 ALA GLY ARG TYR GLY ALA LEU GLY MET SER ARG ARG GLU SEQRES 13 B 238 ASP LEU MET TYR LYS PRO PRO ALA PHE ARG THR LEU SER SEQRES 14 B 238 GLU LEU VAL LEU ASP PHE GLU ALA ALA TYR GLY ARG CYS SEQRES 15 B 238 TRP HIS VAL LEU LYS LYS VAL LYS LEU GLY GLN SER VAL SEQRES 16 B 238 SER HIS ASP PRO HIS SER VAL GLU GLN ILE GLU TRP LYS SEQRES 17 B 238 HIS SER VAL LEU ASP VAL GLU ARG LEU GLY ARG ASP ASP SEQRES 18 B 238 PHE ARG LYS GLU LEU GLU ARG HIS ALA ARG ASP MET ARG SEQRES 19 B 238 LEU LYS ILE GLY SEQRES 1 C 66 MET ASP PRO PRO ALA ARG LYS GLU LYS THR LYS VAL LYS SEQRES 2 C 66 GLU SER VAL SER ARG VAL GLU LYS ALA LYS GLN LYS SER SEQRES 3 C 66 ALA GLN GLN GLU LEU LYS GLN ARG GLN ARG ALA GLU ILE SEQRES 4 C 66 TYR ALA LEU ASN ARG VAL MET THR GLU LEU GLU GLN GLN SEQRES 5 C 66 GLN PHE ASP GLU PHE CYS LYS GLN MET GLN PRO PRO GLY SEQRES 6 C 66 GLU SEQRES 1 D 238 MET ASP GLU ALA THR TRP GLU ARG MET TRP LYS HIS VAL SEQRES 2 D 238 ALA LYS ILE HIS PRO ASP GLY GLU LYS VAL ALA GLN ARG SEQRES 3 D 238 ILE ARG GLY ALA THR ASP LEU PRO LYS ILE PRO ILE PRO SEQRES 4 D 238 SER VAL PRO THR PHE GLN PRO SER THR PRO VAL PRO GLU SEQRES 5 D 238 ARG LEU GLU ALA VAL GLN ARG TYR ILE ARG GLU LEU GLN SEQRES 6 D 238 TYR ASN HIS THR GLY THR GLN PHE PHE GLU ILE LYS LYS SEQRES 7 D 238 SER ARG PRO LEU THR GLY LEU MET ASP LEU ALA LYS GLU SEQRES 8 D 238 MET THR LYS GLU ALA LEU PRO ILE LYS ALA LEU GLU ALA SEQRES 9 D 238 VAL ILE LEU GLY ILE TYR LEU THR ASN SER MET PRO THR SEQRES 10 D 238 LEU GLU ARG PHE PRO ILE SER PHE LYS THR TYR PHE SER SEQRES 11 D 238 GLY ASN TYR PHE ARG HIS ILE VAL LEU GLY VAL ASN PHE SEQRES 12 D 238 ALA GLY ARG TYR GLY ALA LEU GLY MET SER ARG ARG GLU SEQRES 13 D 238 ASP LEU MET TYR LYS PRO PRO ALA PHE ARG THR LEU SER SEQRES 14 D 238 GLU LEU VAL LEU ASP PHE GLU ALA ALA TYR GLY ARG CYS SEQRES 15 D 238 TRP HIS VAL LEU LYS LYS VAL LYS LEU GLY GLN SER VAL SEQRES 16 D 238 SER HIS ASP PRO HIS SER VAL GLU GLN ILE GLU TRP LYS SEQRES 17 D 238 HIS SER VAL LEU ASP VAL GLU ARG LEU GLY ARG ASP ASP SEQRES 18 D 238 PHE ARG LYS GLU LEU GLU ARG HIS ALA ARG ASP MET ARG SEQRES 19 D 238 LEU LYS ILE GLY FORMUL 5 HOH *649(H2 O) HELIX 1 AA1 SER A 26 LEU A 49 1 24 HELIX 2 AA2 ASP B 70 HIS B 85 1 16 HELIX 3 AA3 GLY B 88 ARG B 96 1 9 HELIX 4 AA4 PRO B 117 LEU B 132 1 16 HELIX 5 AA5 PRO B 149 ALA B 164 1 16 HELIX 6 AA6 LYS B 168 ASN B 181 1 14 HELIX 7 AA7 ARG B 223 MET B 227 5 5 HELIX 8 AA8 THR B 235 CYS B 250 1 16 HELIX 9 AA9 VAL B 282 ARG B 302 1 21 HELIX 10 AB1 ALA C 27 LEU C 49 1 23 HELIX 11 AB2 ASP D 70 HIS D 85 1 16 HELIX 12 AB3 GLY D 88 ARG D 96 1 9 HELIX 13 AB4 PRO D 117 GLN D 133 1 17 HELIX 14 AB5 PRO D 149 ALA D 164 1 16 HELIX 15 AB6 LYS D 168 ASN D 181 1 14 HELIX 16 AB7 ARG D 223 MET D 227 5 5 HELIX 17 AB8 THR D 235 CYS D 250 1 16 HELIX 18 AB9 VAL D 282 ARG D 302 1 21 SHEET 1 AA1 6 LYS B 229 PHE B 233 0 SHEET 2 AA1 6 ARG B 214 LEU B 218 -1 N TYR B 215 O PHE B 233 SHEET 3 AA1 6 ASN B 200 PHE B 211 -1 N LEU B 207 O LEU B 218 SHEET 4 AA1 6 LEU B 186 PHE B 197 -1 N PHE B 193 O HIS B 204 SHEET 5 AA1 6 VAL B 253 LEU B 259 -1 O LYS B 258 N SER B 192 SHEET 6 AA1 6 SER B 278 ASP B 281 -1 O LEU B 280 N VAL B 257 SHEET 1 AA2 6 LYS D 229 PHE D 233 0 SHEET 2 AA2 6 ARG D 214 LEU D 218 -1 N TYR D 215 O PHE D 233 SHEET 3 AA2 6 ASN D 200 PHE D 211 -1 N LEU D 207 O LEU D 218 SHEET 4 AA2 6 LEU D 186 PHE D 197 -1 N PHE D 193 O HIS D 204 SHEET 5 AA2 6 VAL D 253 LEU D 259 -1 O LYS D 258 N SER D 192 SHEET 6 AA2 6 SER D 278 ASP D 281 -1 O LEU D 280 N VAL D 257 CRYST1 70.020 90.078 124.498 90.00 90.00 90.00 P 21 21 21 8 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 0.014282 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011101 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008032 0.00000