HEADER ANTITUMOR PROTEIN 20-JAN-20 6XUK TITLE ABLIFT DESIGN 15 OF AB 1116NS19.9 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEAVY CHAIN; COMPND 3 CHAIN: H; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: LIGHT CHAIN; COMPND 7 CHAIN: L; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_TAXID: 10090; SOURCE 4 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 8 ORGANISM_TAXID: 10090; SOURCE 9 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS PANCREATIC CANCER, DIAGNOSIS, IN-SILICO OPTIMIZED ANTIBODY, CA19-9 KEYWDS 2 BINDER, IMMUNOTHERAPEUTIC REAGENT, ANTITUMOR PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR R.DISKIN,A.BORENSTEIN-KATZ REVDAT 5 07-FEB-24 6XUK 1 REMARK REVDAT 4 08-MAR-23 6XUK 1 SPRSDE REVDAT 3 29-SEP-21 6XUK 1 JRNL REVDAT 2 11-AUG-21 6XUK 1 SPRSDE JRNL REVDAT 1 03-FEB-21 6XUK 0 JRNL AUTH A.BORENSTEIN-KATZ,S.WARSZAWSKI,R.AMON,M.EILON, JRNL AUTH 2 H.COHEN-DVASHI,S.LEVIATAN BEN-ARYE,N.TASNIMA,H.YU,X.CHEN, JRNL AUTH 3 V.PADLER-KARAVANI,S.J.FLEISHMAN,R.DISKIN JRNL TITL BIOMOLECULAR RECOGNITION OF THE GLYCAN NEOANTIGEN CA19-9 BY JRNL TITL 2 DISTINCT ANTIBODIES. JRNL REF J.MOL.BIOL. V. 433 67099 2021 JRNL REFN ESSN 1089-8638 JRNL PMID 34119488 JRNL DOI 10.1016/J.JMB.2021.167099 REMARK 2 REMARK 2 RESOLUTION. 1.42 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.16_3549 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) : 1.42 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 62.75 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 99620 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.149 REMARK 3 FREE R VALUE : 0.185 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 5022 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 62.7540 - 4.4117 1.00 3520 182 0.1829 0.1974 REMARK 3 2 4.4117 - 3.5018 1.00 3297 180 0.1393 0.1608 REMARK 3 3 3.5018 - 3.0592 1.00 3239 172 0.1441 0.1805 REMARK 3 4 3.0592 - 2.7795 1.00 3223 174 0.1513 0.2003 REMARK 3 5 2.7795 - 2.5802 1.00 3198 179 0.1419 0.1625 REMARK 3 6 2.5802 - 2.4281 1.00 3191 165 0.1369 0.1756 REMARK 3 7 2.4281 - 2.3065 1.00 3149 176 0.1346 0.1697 REMARK 3 8 2.3065 - 2.2061 1.00 3173 185 0.1304 0.1854 REMARK 3 9 2.2061 - 2.1212 1.00 3159 166 0.1318 0.1704 REMARK 3 10 2.1212 - 2.0480 1.00 3128 183 0.1298 0.1763 REMARK 3 11 2.0480 - 1.9839 1.00 3142 166 0.1259 0.1284 REMARK 3 12 1.9839 - 1.9272 1.00 3151 168 0.1296 0.1612 REMARK 3 13 1.9272 - 1.8765 1.00 3143 161 0.1319 0.1610 REMARK 3 14 1.8765 - 1.8307 1.00 3133 156 0.1409 0.1961 REMARK 3 15 1.8307 - 1.7891 1.00 3092 199 0.1423 0.1901 REMARK 3 16 1.7891 - 1.7510 1.00 3126 144 0.1374 0.2005 REMARK 3 17 1.7510 - 1.7160 1.00 3133 164 0.1402 0.1865 REMARK 3 18 1.7160 - 1.6836 1.00 3136 163 0.1391 0.2013 REMARK 3 19 1.6836 - 1.6535 1.00 3132 166 0.1450 0.2061 REMARK 3 20 1.6535 - 1.6255 1.00 3093 162 0.1504 0.2215 REMARK 3 21 1.6255 - 1.5993 1.00 3119 173 0.1564 0.1961 REMARK 3 22 1.5993 - 1.5746 1.00 3115 159 0.1550 0.1997 REMARK 3 23 1.5746 - 1.5515 1.00 3086 162 0.1628 0.2219 REMARK 3 24 1.5515 - 1.5296 1.00 3130 149 0.1654 0.2236 REMARK 3 25 1.5296 - 1.5090 1.00 3096 154 0.1793 0.2463 REMARK 3 26 1.5090 - 1.4894 1.00 3123 177 0.1917 0.2616 REMARK 3 27 1.4894 - 1.4707 1.00 3062 184 0.2116 0.2783 REMARK 3 28 1.4707 - 1.4530 1.00 3150 136 0.2150 0.2912 REMARK 3 29 1.4530 - 1.4361 1.00 3077 155 0.2418 0.3160 REMARK 3 30 1.4361 - 1.4200 0.99 3082 162 0.2649 0.3087 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.00 REMARK 3 SHRINKAGE RADIUS : 0.70 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.370 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.71 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 6XUK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-JAN-20. REMARK 100 THE DEPOSITION ID IS D_1292106306. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-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 : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97371 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 99787 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.420 REMARK 200 RESOLUTION RANGE LOW (A) : 62.754 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.09900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.42 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.46 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 5.40 REMARK 200 R MERGE FOR SHELL (I) : 1.06600 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: 3U7W REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM CITRATE, IMMIDAZOLE PH7, PEG REMARK 280 2K, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 122.05450 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 32.46800 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 32.46800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 183.08175 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 32.46800 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 32.46800 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 61.02725 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 32.46800 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 32.46800 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 183.08175 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 32.46800 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 32.46800 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 61.02725 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 122.05450 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 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: 5480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19120 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: H, L, 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 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 H 674 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 SER H 211 REMARK 465 CYS H 212 REMARK 465 ASP H 213 REMARK 465 LYS H 214 REMARK 465 THR H 215 REMARK 465 HIS H 216 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 H 613 O HOH H 665 1.48 REMARK 500 H LYS H 210 O HOH H 407 1.56 REMARK 500 O HOH H 519 O HOH L 644 1.79 REMARK 500 O HOH L 640 O HOH L 676 1.86 REMARK 500 NZ LYS H 113 O HOH H 401 1.90 REMARK 500 OE1 GLN H 101 O HOH H 402 1.94 REMARK 500 O HOH H 562 O HOH H 632 1.97 REMARK 500 O HOH H 459 O HOH H 565 2.01 REMARK 500 O HOH H 435 O HOH H 677 2.02 REMARK 500 O HOH H 600 O HOH H 705 2.02 REMARK 500 O HOH H 612 O HOH H 668 2.04 REMARK 500 O HOH H 494 O HOH H 670 2.08 REMARK 500 O HOH H 570 O HOH H 705 2.08 REMARK 500 O HOH H 535 O HOH H 691 2.12 REMARK 500 O HOH H 604 O HOH H 691 2.12 REMARK 500 O HOH H 572 O HOH H 591 2.12 REMARK 500 O HOH L 563 O HOH L 656 2.13 REMARK 500 O HOH L 632 O HOH L 651 2.13 REMARK 500 O HOH L 616 O HOH L 654 2.14 REMARK 500 O HOH L 510 O HOH L 582 2.14 REMARK 500 O HOH H 561 O HOH H 683 2.16 REMARK 500 O HOH H 613 O HOH H 718 2.17 REMARK 500 O HOH H 500 O HOH H 646 2.17 REMARK 500 O HOH H 535 O HOH H 604 2.18 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 L 699 O HOH L 699 7555 1.14 REMARK 500 O HOH H 678 O HOH L 510 7555 1.86 REMARK 500 O HOH H 548 O HOH L 594 7455 2.07 REMARK 500 O HOH H 645 O HOH L 553 7455 2.08 REMARK 500 O HOH H 645 O HOH L 601 7455 2.17 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 GLU L 81 CD GLU L 81 OE1 -0.204 REMARK 500 GLU L 81 CD GLU L 81 OE2 0.077 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 L 108 NE - CZ - NH1 ANGL. DEV. = 6.8 DEGREES REMARK 500 ARG L 108 NE - CZ - NH2 ANGL. DEV. = -7.0 DEGREES REMARK 500 LYS L 169 CD - CE - NZ ANGL. DEV. = -40.1 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 SER H 126 -54.05 -179.65 REMARK 500 THR H 127 138.24 -11.42 REMARK 500 ASP H 140 58.81 72.24 REMARK 500 ALA L 51 -38.06 72.13 REMARK 500 ASN L 52 10.53 -144.16 REMARK 500 ASN L 138 73.69 62.64 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 LYS H 125 SER H 126 -142.01 REMARK 500 SER H 126 THR H 127 -131.75 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 H 725 DISTANCE = 5.88 ANGSTROMS DBREF 6XUK H 1 216 PDB 6XUK 6XUK 1 216 DBREF 6XUK L 1 214 PDB 6XUK 6XUK 1 214 SEQRES 1 H 222 GLU VAL LYS LEU GLU GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 H 222 PRO GLY GLY SER MET LYS LEU SER CYS ALA ALA SER GLY SEQRES 3 H 222 PHE THR PHE SER ASP ALA TRP MET ASP TRP VAL ARG GLN SEQRES 4 H 222 SER PRO GLU LYS GLY LEU GLU TRP VAL ALA GLU ILE GLY SEQRES 5 H 222 ASN LYS GLY ASN ASN HIS ALA THR TYR TYR ALA GLU SER SEQRES 6 H 222 VAL LYS GLY ARG PHE THR VAL SER ARG ASP ASP SER LYS SEQRES 7 H 222 SER ARG VAL TYR LEU GLN MET ASN SER LEU ARG VAL GLU SEQRES 8 H 222 ASP THR GLY THR TYR TYR CYS ALA VAL ARG PHE ALA PHE SEQRES 9 H 222 TRP GLY GLN GLY THR LEU VAL THR VAL SER ALA ALA SER SEQRES 10 H 222 THR LYS GLY PRO SER VAL PHE PRO LEU ALA PRO SER SER SEQRES 11 H 222 LYS SER THR SER GLY GLY THR ALA ALA LEU GLY CYS LEU SEQRES 12 H 222 VAL LYS ASP TYR PHE PRO GLU PRO VAL THR VAL SER TRP SEQRES 13 H 222 ASN SER GLY ALA LEU THR SER GLY VAL HIS THR PHE PRO SEQRES 14 H 222 ALA VAL LEU GLN SER SER GLY LEU TYR SER LEU SER SER SEQRES 15 H 222 VAL VAL THR VAL PRO SER SER SER LEU GLY THR GLN THR SEQRES 16 H 222 TYR ILE CYS ASN VAL ASN HIS LYS PRO SER ASN THR LYS SEQRES 17 H 222 VAL ASP LYS ARG VAL GLU PRO LYS SER CYS ASP LYS THR SEQRES 18 H 222 HIS SEQRES 1 L 214 ASP ILE LYS MET THR GLN SER PRO SER SER MET TYR ALA SEQRES 2 L 214 SER LEU GLY GLU ARG VAL THR ILE THR CYS LYS ALA SER SEQRES 3 L 214 GLN ASP ILE ASN SER TYR LEU SER TRP PHE GLN GLN LYS SEQRES 4 L 214 PRO GLY LYS PRO PRO LYS THR LEU ILE TYR ARG ALA ASN SEQRES 5 L 214 ARG LEU VAL PRO GLY VAL PRO SER ARG PHE SER GLY SER SEQRES 6 L 214 GLY SER GLY GLN ASP TYR SER LEU THR ILE SER SER LEU SEQRES 7 L 214 GLU TYR GLU ASP MET GLY ILE TYR TRP CYS LEU GLN TYR SEQRES 8 L 214 ASP GLU PHE PRO ARG THR TRP GLY GLY GLY THR LYS LEU SEQRES 9 L 214 GLU ILE LYS ARG THR VAL ALA ALA PRO SER VAL PHE ILE SEQRES 10 L 214 PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY THR ALA SEQRES 11 L 214 SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO ARG GLU SEQRES 12 L 214 ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU GLN SER SEQRES 13 L 214 GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SER LYS SEQRES 14 L 214 ASP SER THR TYR SER LEU SER SER THR LEU THR LEU SER SEQRES 15 L 214 LYS ALA ASP TYR GLU LYS HIS LYS VAL TYR ALA CYS GLU SEQRES 16 L 214 VAL THR HIS GLN GLY LEU SER SER PRO VAL THR LYS SER SEQRES 17 L 214 PHE ASN ARG GLY GLU CYS HET NAG A 1 28 HET GAL A 2 20 HET SIA A 3 37 HET FUC A 4 21 HET GOL L 301 14 HET GOL L 302 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM GAL BETA-D-GALACTOPYRANOSE HETNAM SIA N-ACETYL-ALPHA-NEURAMINIC ACID HETNAM FUC ALPHA-L-FUCOPYRANOSE HETNAM GOL GLYCEROL HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN GAL BETA-D-GALACTOSE; D-GALACTOSE; GALACTOSE HETSYN SIA N-ACETYLNEURAMINIC ACID; SIALIC ACID; ALPHA-SIALIC HETSYN 2 SIA ACID; O-SIALIC ACID HETSYN FUC ALPHA-L-FUCOSE; 6-DEOXY-ALPHA-L-GALACTOPYRANOSE; L- HETSYN 2 FUC FUCOSE; FUCOSE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 NAG C8 H15 N O6 FORMUL 3 GAL C6 H12 O6 FORMUL 3 SIA C11 H19 N O9 FORMUL 3 FUC C6 H12 O5 FORMUL 4 GOL 2(C3 H8 O3) FORMUL 6 HOH *661(H2 O) HELIX 1 AA1 THR H 28 ALA H 32 5 5 HELIX 2 AA2 ASN H 52A ASN H 54 5 5 HELIX 3 AA3 ASP H 73 LYS H 75 5 3 HELIX 4 AA4 ARG H 83 THR H 87 5 5 HELIX 5 AA5 SER H 152 ALA H 154 5 3 HELIX 6 AA6 SER H 183 LEU H 185 5 3 HELIX 7 AA7 LYS H 197 ASN H 200 5 4 HELIX 8 AA8 GLU L 79 MET L 83 5 5 HELIX 9 AA9 SER L 121 LYS L 126 1 6 HELIX 10 AB1 LYS L 183 GLU L 187 1 5 SHEET 1 AA1 4 LYS H 3 SER H 7 0 SHEET 2 AA1 4 MET H 18 SER H 25 -1 O SER H 21 N SER H 7 SHEET 3 AA1 4 ARG H 77 MET H 82 -1 O LEU H 80 N LEU H 20 SHEET 4 AA1 4 PHE H 67 ASP H 72 -1 N THR H 68 O GLN H 81 SHEET 1 AA2 6 GLY H 10 VAL H 12 0 SHEET 2 AA2 6 THR H 103 VAL H 107 1 O THR H 106 N GLY H 10 SHEET 3 AA2 6 GLY H 88 VAL H 94 -1 N GLY H 88 O VAL H 105 SHEET 4 AA2 6 MET H 34 SER H 40 -1 N VAL H 37 O TYR H 91 SHEET 5 AA2 6 GLY H 44 ILE H 51 -1 O GLU H 46 N ARG H 38 SHEET 6 AA2 6 THR H 57 TYR H 59 -1 O TYR H 58 N GLU H 50 SHEET 1 AA3 4 GLY H 10 VAL H 12 0 SHEET 2 AA3 4 THR H 103 VAL H 107 1 O THR H 106 N GLY H 10 SHEET 3 AA3 4 GLY H 88 VAL H 94 -1 N GLY H 88 O VAL H 105 SHEET 4 AA3 4 PHE H 98 TRP H 99 -1 O PHE H 98 N VAL H 94 SHEET 1 AA4 4 SER H 116 LEU H 120 0 SHEET 2 AA4 4 THR H 131 TYR H 141 -1 O LEU H 137 N PHE H 118 SHEET 3 AA4 4 TYR H 172 PRO H 181 -1 O LEU H 174 N VAL H 138 SHEET 4 AA4 4 VAL H 159 THR H 161 -1 N HIS H 160 O VAL H 177 SHEET 1 AA5 4 SER H 116 LEU H 120 0 SHEET 2 AA5 4 THR H 131 TYR H 141 -1 O LEU H 137 N PHE H 118 SHEET 3 AA5 4 TYR H 172 PRO H 181 -1 O LEU H 174 N VAL H 138 SHEET 4 AA5 4 VAL H 165 LEU H 166 -1 N VAL H 165 O SER H 173 SHEET 1 AA6 3 THR H 147 TRP H 150 0 SHEET 2 AA6 3 ILE H 191 HIS H 196 -1 O ASN H 193 N SER H 149 SHEET 3 AA6 3 THR H 201 ARG H 206 -1 O VAL H 203 N VAL H 194 SHEET 1 AA7 4 MET L 4 SER L 7 0 SHEET 2 AA7 4 VAL L 19 ALA L 25 -1 O LYS L 24 N THR L 5 SHEET 3 AA7 4 ASP L 70 ILE L 75 -1 O ILE L 75 N VAL L 19 SHEET 4 AA7 4 PHE L 62 SER L 67 -1 N SER L 63 O THR L 74 SHEET 1 AA8 6 SER L 10 ALA L 13 0 SHEET 2 AA8 6 THR L 102 ILE L 106 1 O LYS L 103 N MET L 11 SHEET 3 AA8 6 GLY L 84 GLN L 90 -1 N GLY L 84 O LEU L 104 SHEET 4 AA8 6 LEU L 33 GLN L 38 -1 N GLN L 38 O ILE L 85 SHEET 5 AA8 6 LYS L 45 TYR L 49 -1 O LEU L 47 N TRP L 35 SHEET 6 AA8 6 ARG L 53 LEU L 54 -1 O ARG L 53 N TYR L 49 SHEET 1 AA9 4 SER L 10 ALA L 13 0 SHEET 2 AA9 4 THR L 102 ILE L 106 1 O LYS L 103 N MET L 11 SHEET 3 AA9 4 GLY L 84 GLN L 90 -1 N GLY L 84 O LEU L 104 SHEET 4 AA9 4 THR L 97 TRP L 98 -1 O THR L 97 N GLN L 90 SHEET 1 AB1 4 SER L 114 PHE L 118 0 SHEET 2 AB1 4 THR L 129 PHE L 139 -1 O ASN L 137 N SER L 114 SHEET 3 AB1 4 TYR L 173 SER L 182 -1 O TYR L 173 N PHE L 139 SHEET 4 AB1 4 SER L 159 VAL L 163 -1 N GLN L 160 O THR L 178 SHEET 1 AB2 4 ALA L 153 LEU L 154 0 SHEET 2 AB2 4 LYS L 145 VAL L 150 -1 N VAL L 150 O ALA L 153 SHEET 3 AB2 4 VAL L 191 THR L 197 -1 O GLU L 195 N GLN L 147 SHEET 4 AB2 4 VAL L 205 ASN L 210 -1 O VAL L 205 N VAL L 196 SSBOND 1 CYS H 22 CYS H 92 1555 1555 2.04 SSBOND 2 CYS H 136 CYS H 192 1555 1555 2.06 SSBOND 3 CYS L 23 CYS L 88 1555 1555 2.07 SSBOND 4 CYS L 134 CYS L 194 1555 1555 2.02 LINK O3 NAG A 1 C1 GAL A 2 1555 1555 1.37 LINK O4 NAG A 1 C1 FUC A 4 1555 1555 1.39 LINK O3 GAL A 2 C2 SIA A 3 1555 1555 1.37 CISPEP 1 PHE H 142 PRO H 143 0 -9.17 CISPEP 2 GLU H 144 PRO H 145 0 1.33 CISPEP 3 SER L 7 PRO L 8 0 -9.80 CISPEP 4 SER L 7 PRO L 8 0 -9.27 CISPEP 5 PHE L 94 PRO L 95 0 -0.95 CISPEP 6 TYR L 140 PRO L 141 0 1.59 CRYST1 64.936 64.936 244.109 90.00 90.00 90.00 P 43 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 0.015400 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015400 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004097 0.00000