HEADER SUGAR BINDING PROTEIN 17-MAR-16 5IUC TITLE CRYSTAL STRUCTURE OF THE GSPB SIGLEC DOMAIN WITH SIALYL T ANTIGEN TITLE 2 BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: PLATELET BINDING PROTEIN GSPB; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: BINDING REGION, SIGLEC DOMAIN; COMPND 5 SYNONYM: SERINE-RICH ADHESIN FOR PLATELETS,SERINE-RICH REPEAT PROTEIN COMPND 6 GSPB; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS GORDONII; SOURCE 3 ORGANISM_TAXID: 1302; SOURCE 4 GENE: GSPB; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PBG101 KEYWDS BACTERIAL ADHESIN, LECTIN, IMMUNOGLOBULIN FOLD, SERINE-RICH REPEAT, KEYWDS 2 SUGAR BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR L.V.LOUKACHEVITCH,K.P.FIALKOWSKI,Z.WAWRZAK,T.M.IVERSON REVDAT 5 27-SEP-23 5IUC 1 HETSYN LINK REVDAT 4 29-JUL-20 5IUC 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 11-DEC-19 5IUC 1 JRNL REVDAT 2 13-SEP-17 5IUC 1 REMARK REVDAT 1 13-APR-16 5IUC 0 SPRSDE 13-APR-16 5IUC 4I8E JRNL AUTH T.M.PYBURN,B.A.BENSING,Y.Q.XIONG,B.J.MELANCON,T.M.TOMASIAK, JRNL AUTH 2 N.J.WARD,V.YANKOVSKAYA,K.M.OLIVER,G.CECCHINI,G.A.SULIKOWSKI, JRNL AUTH 3 M.J.TYSKA,P.M.SULLAM,T.M.IVERSON JRNL TITL A STRUCTURAL MODEL FOR BINDING OF THE SERINE-RICH REPEAT JRNL TITL 2 ADHESIN GSPB TO HOST CARBOHYDRATE RECEPTORS. JRNL REF PLOS PATHOG. V. 7 02112 2011 JRNL REFN ESSN 1553-7374 JRNL PMID 21765814 JRNL DOI 10.1371/JOURNAL.PPAT.1002112 REMARK 2 REMARK 2 RESOLUTION. 1.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 1.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.86 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.7 REMARK 3 NUMBER OF REFLECTIONS : 66965 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.157 REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.178 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 3212 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 29.8676 - 3.5601 0.98 3080 142 0.1377 0.1558 REMARK 3 2 3.5601 - 2.8264 0.99 2933 159 0.1421 0.1642 REMARK 3 3 2.8264 - 2.4693 0.98 2909 151 0.1494 0.1746 REMARK 3 4 2.4693 - 2.2437 0.98 2882 129 0.1493 0.1615 REMARK 3 5 2.2437 - 2.0829 0.98 2878 122 0.1397 0.1643 REMARK 3 6 2.0829 - 1.9601 0.97 2807 163 0.1476 0.1580 REMARK 3 7 1.9601 - 1.8620 0.97 2817 145 0.1513 0.1773 REMARK 3 8 1.8620 - 1.7809 0.97 2802 152 0.1641 0.1742 REMARK 3 9 1.7809 - 1.7124 0.97 2777 158 0.1647 0.2025 REMARK 3 10 1.7124 - 1.6533 0.96 2807 115 0.1612 0.1754 REMARK 3 11 1.6533 - 1.6016 0.96 2780 135 0.1696 0.2085 REMARK 3 12 1.6016 - 1.5558 0.96 2714 152 0.1647 0.1853 REMARK 3 13 1.5558 - 1.5149 0.96 2772 116 0.1741 0.1962 REMARK 3 14 1.5149 - 1.4779 0.95 2736 142 0.1729 0.1977 REMARK 3 15 1.4779 - 1.4443 0.95 2723 136 0.1808 0.2197 REMARK 3 16 1.4443 - 1.4136 0.95 2710 157 0.1823 0.2298 REMARK 3 17 1.4136 - 1.3853 0.94 2720 135 0.1896 0.1992 REMARK 3 18 1.3853 - 1.3591 0.95 2703 132 0.1873 0.2068 REMARK 3 19 1.3591 - 1.3349 0.94 2697 143 0.1933 0.1954 REMARK 3 20 1.3349 - 1.3122 0.93 2680 133 0.2009 0.2312 REMARK 3 21 1.3122 - 1.2911 0.94 2719 123 0.2098 0.2564 REMARK 3 22 1.2911 - 1.2712 0.94 2658 152 0.2143 0.2728 REMARK 3 23 1.2712 - 1.2530 0.86 2449 120 0.2276 0.2682 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) : 0.110 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.360 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.07 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.46 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 : 0.013 2162 REMARK 3 ANGLE : 1.507 2946 REMARK 3 CHIRALITY : 0.079 352 REMARK 3 PLANARITY : 0.007 379 REMARK 3 DIHEDRAL : 11.017 796 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 5IUC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-MAR-16. REMARK 100 THE DEPOSITION ID IS D_1000219445. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-DEC-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 67016 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.250 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 200 DATA REDUNDANCY : 14.90 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.29 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.4 REMARK 200 DATA REDUNDANCY IN SHELL : 14.30 REMARK 200 R MERGE FOR SHELL (I) : 0.40600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 3QC5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, NACL, BIS-TRIS, PH 6.2, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 33.83500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.27350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.83500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.27350 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 APPLY THE FOLLOWING TO CHAINS: B, 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 913 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 967 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 906 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 959 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 395 REMARK 465 PRO A 396 REMARK 465 GLY A 397 REMARK 465 SER A 398 REMARK 465 GLY B 395 REMARK 465 PRO B 396 REMARK 465 GLY B 397 REMARK 465 SER B 398 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 OD1 ASN A 472 O HOH A 701 1.97 REMARK 500 O HOH B 702 O HOH B 740 2.00 REMARK 500 O HOH B 918 O HOH B 968 2.03 REMARK 500 O HOH B 758 O HOH B 843 2.04 REMARK 500 O HOH B 730 O HOH B 799 2.05 REMARK 500 O HOH A 931 O HOH B 968 2.06 REMARK 500 O HOH B 808 O HOH B 956 2.07 REMARK 500 O HOH B 949 O HOH B 956 2.07 REMARK 500 O HOH B 956 O HOH B 992 2.07 REMARK 500 O HOH B 912 O HOH B 968 2.08 REMARK 500 O HOH B 956 O HOH B 993 2.10 REMARK 500 O HOH B 723 O HOH B 964 2.10 REMARK 500 O HOH A 922 O HOH B 968 2.11 REMARK 500 O HOH A 806 O HOH A 954 2.11 REMARK 500 O HOH B 957 O HOH B 971 2.11 REMARK 500 O HOH A 954 O HOH A 990 2.11 REMARK 500 O HOH A 774 O HOH A 954 2.11 REMARK 500 O HOH A 876 O HOH A 954 2.11 REMARK 500 O HOH B 964 O HOH B 969 2.11 REMARK 500 O HOH B 889 O HOH B 956 2.11 REMARK 500 O HOH B 776 O HOH B 956 2.12 REMARK 500 O HOH A 951 O HOH B 968 2.12 REMARK 500 O HOH B 791 O HOH B 955 2.12 REMARK 500 O HOH A 942 O HOH A 975 2.13 REMARK 500 O HOH B 739 O HOH B 893 2.13 REMARK 500 O HOH A 954 O HOH A 991 2.13 REMARK 500 O HOH B 925 O HOH B 968 2.15 REMARK 500 O HOH A 721 O HOH A 965 2.16 REMARK 500 O HOH B 914 O HOH B 926 2.18 REMARK 500 OH TYR A 421 O HOH A 702 2.18 REMARK 500 O HOH B 934 O HOH B 986 2.19 REMARK 500 O HOH B 737 O HOH B 926 2.19 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 714 O HOH A 834 4454 2.02 REMARK 500 O HOH B 930 O HOH B 930 2455 2.05 REMARK 500 O HOH A 885 O HOH B 888 1554 2.07 REMARK 500 O HOH A 742 O HOH A 901 4454 2.12 REMARK 500 O HOH A 945 O HOH B 802 3454 2.13 REMARK 500 O HOH B 934 O HOH B 947 3445 2.14 REMARK 500 O HOH A 706 O HOH A 931 4454 2.15 REMARK 500 O HOH A 978 O HOH B 750 2455 2.16 REMARK 500 O HOH A 920 O HOH B 869 2455 2.16 REMARK 500 O HOH A 819 O HOH A 901 4454 2.16 REMARK 500 O HOH A 921 O HOH B 825 4454 2.17 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 427 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 484 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ASP B 427 CB - CG - OD2 ANGL. DEV. = 7.0 DEGREES REMARK 500 ARG B 468 NE - CZ - NH2 ANGL. DEV. = -3.5 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 THR B 510 -164.64 -126.03 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 MG A 601 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 399 OD1 REMARK 620 2 ASP A 399 OD2 61.8 REMARK 620 3 GLU A 401 O 82.7 124.5 REMARK 620 4 ASP A 427 OD1 163.3 128.0 98.1 REMARK 620 5 ASP A 427 OD2 118.9 76.1 157.0 58.8 REMARK 620 6 ASN A 428 OD1 73.1 109.6 97.5 90.3 82.8 REMARK 620 7 ASP A 490 OD2 105.3 66.7 85.7 91.3 95.1 176.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 601 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 399 OD1 REMARK 620 2 ASP B 399 OD2 62.5 REMARK 620 3 GLU B 401 O 85.4 128.4 REMARK 620 4 ASP B 427 OD1 160.0 127.9 96.2 REMARK 620 5 ASP B 427 OD2 117.5 75.4 154.5 58.4 REMARK 620 6 ASN B 428 OD1 71.1 109.9 94.2 89.0 83.7 REMARK 620 7 ASP B 490 OD2 108.1 67.5 88.5 91.8 94.3 177.1 REMARK 620 N 1 2 3 4 5 6 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3QC5 RELATED DB: PDB REMARK 900 RELATED ID: 3QC6 RELATED DB: PDB DBREF 5IUC A 399 521 UNP Q939N5 GSPB_STRGN 399 521 DBREF 5IUC B 399 521 UNP Q939N5 GSPB_STRGN 399 521 SEQADV 5IUC GLY A 395 UNP Q939N5 EXPRESSION TAG SEQADV 5IUC PRO A 396 UNP Q939N5 EXPRESSION TAG SEQADV 5IUC GLY A 397 UNP Q939N5 EXPRESSION TAG SEQADV 5IUC SER A 398 UNP Q939N5 EXPRESSION TAG SEQADV 5IUC SER A 444 UNP Q939N5 ASN 444 CONFLICT SEQADV 5IUC GLY B 395 UNP Q939N5 EXPRESSION TAG SEQADV 5IUC PRO B 396 UNP Q939N5 EXPRESSION TAG SEQADV 5IUC GLY B 397 UNP Q939N5 EXPRESSION TAG SEQADV 5IUC SER B 398 UNP Q939N5 EXPRESSION TAG SEQADV 5IUC SER B 444 UNP Q939N5 ASN 444 CONFLICT SEQRES 1 A 127 GLY PRO GLY SER ASP THR GLU ARG PRO VAL VAL ASN VAL SEQRES 2 A 127 PRO SER GLU ILE THR VAL TYR ARG GLY GLU SER PHE GLU SEQRES 3 A 127 TYR PHE ALA THR VAL THR ASP ASN SER ASN ALA PHE ASP SEQRES 4 A 127 LEU ALA LYS THR VAL VAL ARG TRP LEU TYR SER ASN GLN SEQRES 5 A 127 PRO GLY ARG GLY THR GLU TRP LEU GLN TYR SER VAL THR SEQRES 6 A 127 GLN VAL GLY ASN GLN LEU LYS VAL ARG ILE PHE GLY ASN SEQRES 7 A 127 VAL PRO ILE ASP THR THR ILE GLY ASP TYR THR ARG TYR SEQRES 8 A 127 VAL VAL ALA THR ASP ALA ALA GLY ASN VAL ASN ALA THR SEQRES 9 A 127 GLN THR GLU MET GLY ASN ALA ALA VAL ASP LYS THR SER SEQRES 10 A 127 VAL ASN GLY GLN PHE LYS LEU ILE ILE ARG SEQRES 1 B 127 GLY PRO GLY SER ASP THR GLU ARG PRO VAL VAL ASN VAL SEQRES 2 B 127 PRO SER GLU ILE THR VAL TYR ARG GLY GLU SER PHE GLU SEQRES 3 B 127 TYR PHE ALA THR VAL THR ASP ASN SER ASN ALA PHE ASP SEQRES 4 B 127 LEU ALA LYS THR VAL VAL ARG TRP LEU TYR SER ASN GLN SEQRES 5 B 127 PRO GLY ARG GLY THR GLU TRP LEU GLN TYR SER VAL THR SEQRES 6 B 127 GLN VAL GLY ASN GLN LEU LYS VAL ARG ILE PHE GLY ASN SEQRES 7 B 127 VAL PRO ILE ASP THR THR ILE GLY ASP TYR THR ARG TYR SEQRES 8 B 127 VAL VAL ALA THR ASP ALA ALA GLY ASN VAL ASN ALA THR SEQRES 9 B 127 GLN THR GLU MET GLY ASN ALA ALA VAL ASP LYS THR SER SEQRES 10 B 127 VAL ASN GLY GLN PHE LYS LEU ILE ILE ARG HET A2G C 1 29 HET GAL C 2 22 HET SIA C 3 37 HET A2G D 1 29 HET GAL D 2 22 HET SIA D 3 37 HET MG A 601 1 HET MG B 601 1 HETNAM A2G 2-ACETAMIDO-2-DEOXY-ALPHA-D-GALACTOPYRANOSE HETNAM GAL BETA-D-GALACTOPYRANOSE HETNAM SIA N-ACETYL-ALPHA-NEURAMINIC ACID HETNAM MG MAGNESIUM ION HETSYN A2G N-ACETYL-ALPHA-D-GALACTOSAMINE; 2-ACETAMIDO-2-DEOXY- HETSYN 2 A2G ALPHA-D-GALACTOSE; 2-ACETAMIDO-2-DEOXY-D-GALACTOSE; 2- HETSYN 3 A2G ACETAMIDO-2-DEOXY-GALACTOSE; N-ACETYL-2-DEOXY-2-AMINO- HETSYN 4 A2G GALACTOSE HETSYN GAL BETA-D-GALACTOSE; D-GALACTOSE; GALACTOSE HETSYN SIA N-ACETYLNEURAMINIC ACID; SIALIC ACID; ALPHA-SIALIC HETSYN 2 SIA ACID; O-SIALIC ACID FORMUL 3 A2G 2(C8 H15 N O6) FORMUL 3 GAL 2(C6 H12 O6) FORMUL 3 SIA 2(C11 H19 N O9) FORMUL 5 MG 2(MG 2+) FORMUL 7 HOH *595(H2 O) HELIX 1 AA1 ASP A 433 THR A 437 5 5 HELIX 2 AA2 THR A 498 ASP A 508 1 11 HELIX 3 AA3 ASP B 433 THR B 437 5 5 HELIX 4 AA4 THR B 498 ASP B 508 1 11 SHEET 1 AA1 4 VAL A 404 ASN A 406 0 SHEET 2 AA1 4 SER A 418 THR A 426 -1 O THR A 424 N ASN A 406 SHEET 3 AA1 4 GLN A 464 ASN A 472 -1 O ILE A 469 N TYR A 421 SHEET 4 AA1 4 GLN A 455 VAL A 461 -1 N THR A 459 O LYS A 466 SHEET 1 AA2 4 GLU A 410 TYR A 414 0 SHEET 2 AA2 4 GLN A 515 ARG A 521 1 O ILE A 519 N ILE A 411 SHEET 3 AA2 4 GLY A 480 VAL A 487 -1 N GLY A 480 O ILE A 520 SHEET 4 AA2 4 VAL A 438 ARG A 440 -1 N VAL A 438 O VAL A 487 SHEET 1 AA3 4 VAL B 404 ASN B 406 0 SHEET 2 AA3 4 SER B 418 THR B 426 -1 O THR B 424 N ASN B 406 SHEET 3 AA3 4 GLN B 464 ASN B 472 -1 O VAL B 467 N ALA B 423 SHEET 4 AA3 4 GLN B 455 VAL B 461 -1 N THR B 459 O LYS B 466 SHEET 1 AA4 4 GLU B 410 VAL B 413 0 SHEET 2 AA4 4 GLN B 515 ILE B 520 1 O ILE B 519 N ILE B 411 SHEET 3 AA4 4 GLY B 480 VAL B 487 -1 N GLY B 480 O ILE B 520 SHEET 4 AA4 4 VAL B 438 ARG B 440 -1 N VAL B 438 O VAL B 487 LINK O3 A2G C 1 C1 GAL C 2 1555 1555 1.38 LINK O3 GAL C 2 C2 SIA C 3 1555 1555 1.39 LINK O3 A2G D 1 C1 GAL D 2 1555 1555 1.39 LINK O3 GAL D 2 C2 SIA D 3 1555 1555 1.40 LINK OD1 ASP A 399 MG MG A 601 1555 1555 2.10 LINK OD2 ASP A 399 MG MG A 601 1555 1555 2.09 LINK O GLU A 401 MG MG A 601 1555 1555 2.10 LINK OD1 ASP A 427 MG MG A 601 1555 1555 2.15 LINK OD2 ASP A 427 MG MG A 601 1555 1555 2.16 LINK OD1 ASN A 428 MG MG A 601 1555 1555 2.13 LINK OD2 ASP A 490 MG MG A 601 1555 1555 2.13 LINK OD1 ASP B 399 MG MG B 601 1555 1555 2.10 LINK OD2 ASP B 399 MG MG B 601 1555 1555 2.08 LINK O GLU B 401 MG MG B 601 1555 1555 2.13 LINK OD1 ASP B 427 MG MG B 601 1555 1555 2.15 LINK OD2 ASP B 427 MG MG B 601 1555 1555 2.18 LINK OD1 ASN B 428 MG MG B 601 1555 1555 2.16 LINK OD2 ASP B 490 MG MG B 601 1555 1555 2.13 CRYST1 67.670 66.547 55.854 90.00 90.00 90.00 P 21 21 2 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 0.014778 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015027 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017904 0.00000