PDB Short entry for 1UEM HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 19-MAY-03 1UEM TITLE SOLUTION STRUCTURE OF THE FIRST FIBRONECTIN TYPE III DOMAIN OF HUMAN TITLE 2 KIAA1568 PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: KIAA1568 PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: FIBRONECTIN TYPE III DOMAIN; 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: KAZUSA CDNA FH22308; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P021007-51; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS IMMUNOGLOBULIN-LIKE BETA-SANDWICH FOLD, FIBRONECTIN TYPE III, KEYWDS 2 STRUCTURAL GENOMICS, RIKEN STRUCTURAL GENOMICS/PROTEOMICS KEYWDS 3 INITIATIVE, RSGI, UNKNOWN FUNCTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR H.LI,T.KIGAWA,N.TOCHIO,S.KOSHIBA,M.INOUE,S.YOKOYAMA,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 4 27-DEC-23 1UEM 1 REMARK REVDAT 3 02-MAR-22 1UEM 1 REMARK SEQADV REVDAT 2 24-FEB-09 1UEM 1 VERSN REVDAT 1 19-NOV-03 1UEM 0 JRNL AUTH H.LI,T.KIGAWA,N.TOCHIO,S.KOSHIBA,M.INOUE,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE FIRST FIBRONECTIN TYPE III DOMAIN JRNL TITL 2 OF HUMAN KIAA1568 PROTEIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 2.6, OPALP REMARK 3 AUTHORS : BRUKER (XWINNMR), R. KORADI, M. BILLETER, P. REMARK 3 GUENTERT (OPALP) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1UEM COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-MAY-03. REMARK 100 THE DEPOSITION ID IS D_1000005737. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.1MM FIBRONECTIN TYPE III REMARK 210 DOMAIN U-15N, 13C; 20MM REMARK 210 PHOSPHATE BUFFER NA; 100MM NACL; REMARK 210 0.02% NAN3; 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 20020425, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.811, CYANA 1.0.7 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 RESTRAINED MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS,STRUCTURES REMARK 210 WITH THE LOWEST ENERGY,TARGET REMARK 210 FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 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 2 ARG A 80 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 2 ARG A 90 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 7 ARG A 90 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 9 ARG A 77 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 10 ARG A 90 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 11 ARG A 90 NE - CZ - NH2 ANGL. DEV. = -3.6 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 1 TYR A 10 -179.98 57.71 REMARK 500 1 THR A 25 -90.66 -124.32 REMARK 500 1 THR A 28 -159.88 -137.33 REMARK 500 1 ASN A 30 1.66 -152.54 REMARK 500 1 VAL A 58 -73.89 -126.20 REMARK 500 1 ASP A 105 154.14 67.54 REMARK 500 1 GLN A 110 -116.06 -81.91 REMARK 500 2 ASN A 9 73.14 60.33 REMARK 500 2 LEU A 12 -121.82 -121.15 REMARK 500 2 THR A 25 -66.59 -126.33 REMARK 500 2 ASN A 30 13.13 -147.34 REMARK 500 2 PRO A 41 -159.96 -71.42 REMARK 500 2 ALA A 48 -162.03 -163.87 REMARK 500 2 VAL A 58 -91.83 -121.84 REMARK 500 2 ASN A 82 16.99 50.62 REMARK 500 2 PRO A 94 -9.87 -58.69 REMARK 500 2 ASP A 99 151.15 -47.26 REMARK 500 2 PRO A 106 92.60 -66.68 REMARK 500 3 SER A 2 83.33 15.11 REMARK 500 3 ASP A 11 173.61 67.08 REMARK 500 3 LEU A 12 85.63 5.46 REMARK 500 3 THR A 25 -84.81 -119.21 REMARK 500 3 PRO A 41 -148.06 -70.82 REMARK 500 3 VAL A 58 -77.44 -128.51 REMARK 500 3 SER A 59 21.19 -149.15 REMARK 500 3 ASN A 60 51.02 36.66 REMARK 500 3 SER A 101 155.45 -49.07 REMARK 500 3 ASP A 105 146.50 92.04 REMARK 500 3 SER A 115 38.99 -161.61 REMARK 500 3 SER A 116 -77.95 -89.50 REMARK 500 4 LYS A 8 28.78 -149.03 REMARK 500 4 LEU A 12 52.00 -91.59 REMARK 500 4 SER A 13 79.79 46.48 REMARK 500 4 THR A 25 -97.45 -127.51 REMARK 500 4 PRO A 41 -167.66 -75.11 REMARK 500 4 ALA A 48 -166.26 -166.23 REMARK 500 4 VAL A 58 -59.82 -124.22 REMARK 500 4 ASP A 105 149.87 64.25 REMARK 500 5 SER A 3 -39.19 -138.59 REMARK 500 5 ASP A 11 0.18 -69.26 REMARK 500 5 THR A 25 -95.67 -116.20 REMARK 500 5 ASN A 30 15.35 -152.36 REMARK 500 5 PRO A 41 -156.51 -71.31 REMARK 500 5 VAL A 58 -55.34 -121.68 REMARK 500 5 SER A 59 -98.30 -141.31 REMARK 500 5 ASN A 60 -17.18 140.49 REMARK 500 5 PRO A 94 22.64 -75.95 REMARK 500 5 GLN A 95 -34.30 -131.55 REMARK 500 5 GLN A 110 -175.27 -66.74 REMARK 500 5 SER A 112 46.10 -87.88 REMARK 500 REMARK 500 THIS ENTRY HAS 271 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 VAL A 65 ALA A 66 1 149.31 REMARK 500 SER A 116 GLY A 117 3 126.73 REMARK 500 SER A 59 ASN A 60 5 -149.66 REMARK 500 GLY A 1 SER A 2 6 -149.75 REMARK 500 SER A 115 SER A 116 7 149.38 REMARK 500 SER A 61 TRP A 62 10 -138.83 REMARK 500 SER A 116 GLY A 117 10 148.17 REMARK 500 SER A 98 ASP A 99 11 145.56 REMARK 500 THR A 72 LEU A 73 12 147.47 REMARK 500 SER A 2 SER A 3 13 149.16 REMARK 500 LYS A 8 ASN A 9 15 149.89 REMARK 500 SER A 3 GLY A 4 17 149.39 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 1 TYR A 85 0.08 SIDE CHAIN REMARK 500 4 ARG A 80 0.09 SIDE CHAIN REMARK 500 5 TYR A 10 0.10 SIDE CHAIN REMARK 500 6 ARG A 90 0.16 SIDE CHAIN REMARK 500 7 TYR A 85 0.11 SIDE CHAIN REMARK 500 9 ARG A 90 0.11 SIDE CHAIN REMARK 500 11 ARG A 90 0.13 SIDE CHAIN REMARK 500 13 TYR A 74 0.09 SIDE CHAIN REMARK 500 13 ARG A 90 0.09 SIDE CHAIN REMARK 500 14 TYR A 85 0.07 SIDE CHAIN REMARK 500 15 ARG A 80 0.08 SIDE CHAIN REMARK 500 15 ARG A 90 0.10 SIDE CHAIN REMARK 500 16 ARG A 108 0.10 SIDE CHAIN REMARK 500 17 TYR A 74 0.08 SIDE CHAIN REMARK 500 18 TYR A 10 0.08 SIDE CHAIN REMARK 500 19 ARG A 90 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: AUTHOR DETERMINED REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSK002001540.1 RELATED DB: TARGETDB DBREF 1UEM A 8 111 UNP Q9HCK4 ROBO2_HUMAN 516 619 SEQADV 1UEM GLY A 1 UNP Q9HCK4 CLONING ARTIFACT SEQADV 1UEM SER A 2 UNP Q9HCK4 CLONING ARTIFACT SEQADV 1UEM SER A 3 UNP Q9HCK4 CLONING ARTIFACT SEQADV 1UEM GLY A 4 UNP Q9HCK4 CLONING ARTIFACT SEQADV 1UEM SER A 5 UNP Q9HCK4 CLONING ARTIFACT SEQADV 1UEM SER A 6 UNP Q9HCK4 CLONING ARTIFACT SEQADV 1UEM GLY A 7 UNP Q9HCK4 CLONING ARTIFACT SEQADV 1UEM SER A 112 UNP Q9HCK4 CLONING ARTIFACT SEQADV 1UEM GLY A 113 UNP Q9HCK4 CLONING ARTIFACT SEQADV 1UEM PRO A 114 UNP Q9HCK4 CLONING ARTIFACT SEQADV 1UEM SER A 115 UNP Q9HCK4 CLONING ARTIFACT SEQADV 1UEM SER A 116 UNP Q9HCK4 CLONING ARTIFACT SEQADV 1UEM GLY A 117 UNP Q9HCK4 CLONING ARTIFACT SEQRES 1 A 117 GLY SER SER GLY SER SER GLY LYS ASN TYR ASP LEU SER SEQRES 2 A 117 ASP LEU PRO GLY PRO PRO SER LYS PRO GLN VAL THR ASP SEQRES 3 A 117 VAL THR LYS ASN SER VAL THR LEU SER TRP GLN PRO GLY SEQRES 4 A 117 THR PRO GLY THR LEU PRO ALA SER ALA TYR ILE ILE GLU SEQRES 5 A 117 ALA PHE SER GLN SER VAL SER ASN SER TRP GLN THR VAL SEQRES 6 A 117 ALA ASN HIS VAL LYS THR THR LEU TYR THR VAL ARG GLY SEQRES 7 A 117 LEU ARG PRO ASN THR ILE TYR LEU PHE MET VAL ARG ALA SEQRES 8 A 117 ILE ASN PRO GLN GLY LEU SER ASP PRO SER PRO MET SER SEQRES 9 A 117 ASP PRO VAL ARG THR GLN ASP SER GLY PRO SER SER GLY SHEET 1 A 3 GLN A 23 VAL A 27 0 SHEET 2 A 3 VAL A 32 SER A 35 -1 O SER A 35 N GLN A 23 SHEET 3 A 3 LEU A 73 VAL A 76 -1 O VAL A 76 N VAL A 32 SHEET 1 B 4 SER A 61 VAL A 69 0 SHEET 2 B 4 ALA A 48 SER A 55 -1 N ALA A 53 O GLN A 63 SHEET 3 B 4 ILE A 84 ASN A 93 -1 O ILE A 92 N ALA A 48 SHEET 4 B 4 GLY A 96 SER A 98 -1 O GLY A 96 N ASN A 93 SHEET 1 C 4 SER A 61 VAL A 69 0 SHEET 2 C 4 ALA A 48 SER A 55 -1 N ALA A 53 O GLN A 63 SHEET 3 C 4 ILE A 84 ASN A 93 -1 O ILE A 92 N ALA A 48 SHEET 4 C 4 VAL A 107 ARG A 108 -1 O VAL A 107 N TYR A 85 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000