HEADER IMMUNE SYSTEM 12-SEP-13 3WII TITLE CRYSTAL STRUCTURE OF THE FAB FRAGMENT OF B2212A, A MURINE MONOCLONAL TITLE 2 ANTIBODY SPECIFIC FOR THE THIRD FIBRONECTIN DOMAIN (FN3) OF HUMAN TITLE 3 ROBO1. CAVEAT 3WII CHIRALITY ERROR AT THE CA CENTER OF HIS H 41. CHIRALITY CAVEAT 2 3WII ERROR AT THE CB CENTER OF THR M 172. CHIRALITY ERROR AT THE CAVEAT 3 3WII CA CENTER OF HIS I 41. COMPND MOL_ID: 1; COMPND 2 MOLECULE: ANTI-HUMAN ROBO1 ANTIBODY B2212A FAB LIGHT CHAIN; COMPND 3 CHAIN: L, M; COMPND 4 MOL_ID: 2; COMPND 5 MOLECULE: ANTI-HUMAN ROBO1 ANTIBODY B2212A FAB HEAVY CHAIN; COMPND 6 CHAIN: H, I SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_TAXID: 10090; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 6 ORGANISM_TAXID: 10090 KEYWDS IMMUNOGLOBULIN FAB FRAGMENT, ANTI-HEPATOCELLULAR CARCINOMA ANTIBODY, KEYWDS 2 THE THIRD FIBRONECTIN TYPE-III DOMAIN (FN3) OF HUMAN ROBO1, IMMUNE KEYWDS 3 SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR T.NAKAYAMA,E.MIZOHATA,T.YAMASHITA,S.NAGATOISHI,M.NAKAKIDO,H.IWANARI, AUTHOR 2 Y.MOCHIZUKI,Y.KADO,Y.YOKOTA,R.SATO,K.TSUMOTO,H.FUJITANI,T.KODAMA, AUTHOR 3 T.HAMAKUBO,T.INOUE REVDAT 3 22-NOV-17 3WII 1 REMARK REVDAT 2 04-MAR-15 3WII 1 JRNL REVDAT 1 21-JAN-15 3WII 0 JRNL AUTH T.NAKAYAMA,E.MIZOHATA,T.YAMASHITA,S.NAGATOISHI,M.NAKAKIDO, JRNL AUTH 2 H.IWANARI,Y.MOCHIZUKI,Y.KADO,Y.YOKOTA,R.SATOH,K.TSUMOTO, JRNL AUTH 3 H.FUJITANI,T.KODAMA,T.HAMAKUBO,T.INOUE JRNL TITL STRUCTURAL FEATURES OF INTERFACIAL TYROSINE RESIDUE IN ROBO1 JRNL TITL 2 FIBRONECTIN DOMAIN-ANTIBODY COMPLEX: CRYSTALLOGRAPHIC, JRNL TITL 3 THERMODYNAMIC, AND MOLECULAR DYNAMIC ANALYSES JRNL REF PROTEIN SCI. V. 24 328 2015 JRNL REFN ISSN 0961-8368 JRNL PMID 25492858 JRNL DOI 10.1002/PRO.2619 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 14.91 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.730 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.1 REMARK 3 NUMBER OF REFLECTIONS : 107141 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 5363 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 14.9081 - 4.9136 0.82 3025 144 0.1988 0.2643 REMARK 3 2 4.9136 - 3.9235 0.89 3233 163 0.1553 0.1907 REMARK 3 3 3.9235 - 3.4344 0.96 3450 195 0.1571 0.1869 REMARK 3 4 3.4344 - 3.1236 0.97 3488 198 0.1718 0.2023 REMARK 3 5 3.1236 - 2.9014 0.96 3480 177 0.1836 0.1965 REMARK 3 6 2.9014 - 2.7315 0.96 3489 168 0.1889 0.2391 REMARK 3 7 2.7315 - 2.5954 0.95 3403 194 0.1931 0.2151 REMARK 3 8 2.5954 - 2.4830 0.96 3450 197 0.1987 0.2614 REMARK 3 9 2.4830 - 2.3878 0.96 3518 160 0.2022 0.2493 REMARK 3 10 2.3878 - 2.3057 0.95 3414 176 0.1920 0.2388 REMARK 3 11 2.3057 - 2.2339 0.95 3458 173 0.1875 0.2662 REMARK 3 12 2.2339 - 2.1702 0.95 3446 156 0.1827 0.2367 REMARK 3 13 2.1702 - 2.1132 0.95 3452 174 0.1756 0.2287 REMARK 3 14 2.1132 - 2.0618 0.95 3448 159 0.1819 0.2190 REMARK 3 15 2.0618 - 2.0151 0.95 3389 187 0.1800 0.2454 REMARK 3 16 2.0151 - 1.9723 0.95 3431 168 0.1826 0.2559 REMARK 3 17 1.9723 - 1.9329 0.94 3403 187 0.1932 0.2598 REMARK 3 18 1.9329 - 1.8965 0.95 3389 164 0.1988 0.2539 REMARK 3 19 1.8965 - 1.8627 0.94 3443 208 0.2009 0.2731 REMARK 3 20 1.8627 - 1.8312 0.94 3367 181 0.2007 0.2881 REMARK 3 21 1.8312 - 1.8017 0.95 3398 201 0.2004 0.2529 REMARK 3 22 1.8017 - 1.7740 0.94 3421 165 0.2037 0.2787 REMARK 3 23 1.7740 - 1.7480 0.95 3336 203 0.2123 0.2394 REMARK 3 24 1.7480 - 1.7234 0.94 3418 178 0.2164 0.2710 REMARK 3 25 1.7234 - 1.7001 0.94 3385 180 0.2209 0.2661 REMARK 3 26 1.7001 - 1.6781 0.93 3338 186 0.2265 0.2777 REMARK 3 27 1.6781 - 1.6571 0.94 3395 188 0.2293 0.2800 REMARK 3 28 1.6571 - 1.6372 0.94 3373 189 0.2481 0.2948 REMARK 3 29 1.6372 - 1.6182 0.94 3351 180 0.2531 0.3029 REMARK 3 30 1.6182 - 1.6000 0.89 3187 164 0.2672 0.3075 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.420 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.01000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.008 6843 REMARK 3 ANGLE : 1.229 9313 REMARK 3 CHIRALITY : 0.055 1065 REMARK 3 PLANARITY : 0.006 1183 REMARK 3 DIHEDRAL : 12.339 2443 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN L AND ( RESID 1:213 OR RESID 301:422 ) ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.1632 3.7269 42.9187 REMARK 3 T TENSOR REMARK 3 T11: 0.0183 T22: 0.0669 REMARK 3 T33: 0.0321 T12: -0.0035 REMARK 3 T13: -0.0004 T23: 0.0083 REMARK 3 L TENSOR REMARK 3 L11: 0.1320 L22: 0.4060 REMARK 3 L33: 0.5486 L12: 0.0978 REMARK 3 L13: -0.2747 L23: -0.1950 REMARK 3 S TENSOR REMARK 3 S11: 0.0112 S12: 0.0504 S13: 0.0215 REMARK 3 S21: 0.1182 S22: 0.0289 S23: 0.0496 REMARK 3 S31: -0.0008 S32: -0.0490 S33: -0.0401 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN H AND ( RESID 1:220 OR RESID 301:474 ) ) REMARK 3 ORIGIN FOR THE GROUP (A): 19.8413 -1.1899 29.1356 REMARK 3 T TENSOR REMARK 3 T11: 0.0112 T22: 0.0527 REMARK 3 T33: 0.0295 T12: -0.0044 REMARK 3 T13: -0.0061 T23: 0.0023 REMARK 3 L TENSOR REMARK 3 L11: 0.0217 L22: 0.5426 REMARK 3 L33: 0.1015 L12: -0.0406 REMARK 3 L13: -0.0395 L23: 0.0633 REMARK 3 S TENSOR REMARK 3 S11: -0.0048 S12: -0.0080 S13: 0.0067 REMARK 3 S21: -0.0046 S22: 0.0151 S23: 0.0017 REMARK 3 S31: 0.0119 S32: 0.0187 S33: -0.0103 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN M AND ( RESID 1:213 OR RESID 301:449 ) ) REMARK 3 ORIGIN FOR THE GROUP (A): 41.0619 28.8156 -7.7911 REMARK 3 T TENSOR REMARK 3 T11: 0.0084 T22: 0.0464 REMARK 3 T33: 0.0365 T12: 0.0001 REMARK 3 T13: -0.0014 T23: -0.0017 REMARK 3 L TENSOR REMARK 3 L11: 0.1039 L22: 0.4141 REMARK 3 L33: 0.0719 L12: 0.1714 REMARK 3 L13: -0.0005 L23: -0.0289 REMARK 3 S TENSOR REMARK 3 S11: -0.0148 S12: 0.0150 S13: -0.0071 REMARK 3 S21: -0.0197 S22: 0.0092 S23: -0.0056 REMARK 3 S31: 0.0043 S32: -0.0119 S33: 0.0056 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN I AND ( RESID 1:220 OR RESID 301:518 ) ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.2492 33.7287 8.2541 REMARK 3 T TENSOR REMARK 3 T11: 0.0058 T22: 0.0456 REMARK 3 T33: 0.0314 T12: -0.0011 REMARK 3 T13: -0.0034 T23: -0.0034 REMARK 3 L TENSOR REMARK 3 L11: 0.0942 L22: 0.5088 REMARK 3 L33: 0.0903 L12: 0.0750 REMARK 3 L13: -0.0248 L23: -0.0925 REMARK 3 S TENSOR REMARK 3 S11: -0.0042 S12: 0.0046 S13: -0.0102 REMARK 3 S21: -0.0011 S22: 0.0003 S23: 0.0051 REMARK 3 S31: -0.0024 S32: 0.0005 S33: 0.0040 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 3WII COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 17-SEP-13. REMARK 100 THE DEPOSITION ID IS D_1000096377. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-NOV-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 109771 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 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 (%) : 95.9 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.10700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.30 REMARK 200 R MERGE FOR SHELL (I) : 0.24900 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25%(W/V) PEG4000, 0.1M NA ACETATE REMARK 280 TRIHYDRATE, 0.2M AMMONIUM SULFATE, PH 4.6, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293K. 22%(W/V) PEG3350, 0.1M NA REMARK 280 CITRATE TRIBASIC DEHYDRATE, 0.1%(W/V) N-OCTYL BETA-D- REMARK 280 GLUCOPYRANOSIDE, PH 5.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 68.24500 REMARK 290 SMTRY3 2 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: 3660 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19420 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, H 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: 3590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: M, I 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 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 OE1 GLU L 110 O HOH L 375 2.06 REMARK 500 OE2 GLU M 213 O HOH M 307 2.08 REMARK 500 OG SER H 44 O HOH H 330 2.11 REMARK 500 O HOH I 481 O HOH I 507 2.14 REMARK 500 OD2 ASP M 70 O HOH M 395 2.16 REMARK 500 O HOH I 432 O HOH I 487 2.19 REMARK 500 NZ LYS L 149 OE2 GLU L 195 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 M 411 O HOH I 475 1655 2.14 REMARK 500 O HOH M 410 O HOH I 476 1655 2.15 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 L 30 -119.63 54.58 REMARK 500 THR L 51 -49.89 71.26 REMARK 500 ALA L 84 -174.60 -173.74 REMARK 500 ARG L 211 -49.56 -7.60 REMARK 500 ASN L 212 46.68 -147.90 REMARK 500 HIS H 41 40.29 -103.67 REMARK 500 SER H 44 -128.40 50.87 REMARK 500 CYS H 134 71.89 -58.54 REMARK 500 ASP H 179 62.61 21.37 REMARK 500 SER M 30 -118.97 56.21 REMARK 500 THR M 51 -48.69 73.26 REMARK 500 ALA M 84 -178.96 -175.16 REMARK 500 ASN M 212 -41.61 -168.14 REMARK 500 HIS I 41 46.74 -108.68 REMARK 500 SER I 44 -135.25 53.20 REMARK 500 CYS I 134 6.75 153.50 REMARK 500 ASP I 136 -139.95 -127.80 REMARK 500 THR I 137 140.79 44.70 REMARK 500 ASP I 179 54.33 11.57 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 ASP I 179 LEU I 180 148.28 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3WIH RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE THIRD FIBRONECTIN DOMAIN (FN3) OF HUMAN REMARK 900 ROBO1 IN COMPLEX WITH THE FAB FRAGMENT OF MURINE MONOCLONAL REMARK 900 ANTIBODY B2212A. REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE DATABASE OF THE THE SEQUENCE OF THIS PROTEIN WAS NOT REMARK 999 AVAILABLE AT THE UNIPROT KNOWLEDGEBASE DATABASE (UNIPROTKB) AT THE REMARK 999 TIME OF DEPOSITION. DBREF 3WII L 1 213 PDB 3WII 3WII 1 213 DBREF 3WII M 1 213 PDB 3WII 3WII 1 213 DBREF 3WII H 1 220 PDB 3WII 3WII 1 220 DBREF 3WII I 1 220 PDB 3WII 3WII 1 220 SEQRES 1 L 213 ASP ILE GLN MET THR GLN THR THR SER SER LEU SER ALA SEQRES 2 L 213 SER LEU GLY ASP ARG VAL THR ILE SER CYS ARG ALA SER SEQRES 3 L 213 GLN ASP ILE SER ASN PHE LEU ASN TRP TYR GLN GLN LYS SEQRES 4 L 213 PRO ASP GLY THR VAL LYS LEU LEU ILE TYR TYR THR SER SEQRES 5 L 213 ARG LEU HIS SER GLY VAL PRO SER ARG PHE SER GLY SER SEQRES 6 L 213 GLY SER GLY THR ASP PHE SER LEU THR ILE SER LYS LEU SEQRES 7 L 213 GLU GLN GLU ASP ILE ALA THR TYR PHE CYS GLN GLN GLY SEQRES 8 L 213 ASN THR LEU PRO LEU THR PHE GLY ALA GLY THR LYS LEU SEQRES 9 L 213 GLU LEU LYS ARG ALA GLU ALA ALA PRO THR VAL SER ILE SEQRES 10 L 213 PHE PRO PRO SER SER GLU GLN LEU THR SER GLY GLY ALA SEQRES 11 L 213 SER VAL VAL CYS PHE LEU ASN ASN PHE TYR PRO LYS ASP SEQRES 12 L 213 ILE ASN VAL LYS TRP LYS ILE ASP GLY SER GLU ARG GLN SEQRES 13 L 213 ASN GLY VAL LEU ASN SER TRP THR ASP GLN ASP SER LYS SEQRES 14 L 213 ASP SER THR TYR SER MET SER SER THR LEU THR LEU THR SEQRES 15 L 213 LYS ASP GLU TYR GLU ARG HIS ASN SER TYR THR CYS GLU SEQRES 16 L 213 ALA THR HIS LYS THR SER THR SER PRO ILE VAL LYS SER SEQRES 17 L 213 PHE ASN ARG ASN GLU SEQRES 1 H 220 GLU VAL GLN LEU GLN GLN SER GLY PRO GLU LEU VAL LYS SEQRES 2 H 220 PRO GLY ALA SER VAL LYS ILE SER CYS LYS ALA SER GLY SEQRES 3 H 220 TYR THR PHE THR ASP TYR TYR MET ASN TRP VAL LYS LEU SEQRES 4 H 220 SER HIS GLY LYS SER LEU GLU TRP ILE GLY ASP ILE VAL SEQRES 5 H 220 PRO ASN ASN GLY ASP THR THR TYR ASN GLN ASN PHE ARG SEQRES 6 H 220 GLY LYS ALA THR LEU THR VAL ASP LYS SER SER SER THR SEQRES 7 H 220 ALA TYR MET GLU LEU ARG SER LEU THR SER GLU ASP SER SEQRES 8 H 220 ALA VAL TYR TYR CYS ALA ARG PHE SER ASN TYR VAL TYR SEQRES 9 H 220 PRO PHE ASP TYR TRP GLY GLN GLY THR THR LEU THR VAL SEQRES 10 H 220 SER SER ALA LYS THR THR ALA PRO SER VAL TYR PRO LEU SEQRES 11 H 220 ALA PRO VAL CYS GLY ASP THR THR GLY SER SER VAL THR SEQRES 12 H 220 LEU GLY CYS LEU VAL LYS GLY TYR PHE PRO GLU PRO VAL SEQRES 13 H 220 THR LEU THR TRP ASN SER GLY SER LEU SER SER GLY VAL SEQRES 14 H 220 HIS THR PHE PRO ALA ILE LEU GLN SER ASP LEU TYR THR SEQRES 15 H 220 LEU SER SER SER VAL THR VAL THR SER SER THR TRP PRO SEQRES 16 H 220 SER GLN SER ILE THR CYS ASN VAL ALA HIS PRO ALA SER SEQRES 17 H 220 SER THR LYS VAL ASP LYS LYS ILE GLU PRO ARG ALA SEQRES 1 M 213 ASP ILE GLN MET THR GLN THR THR SER SER LEU SER ALA SEQRES 2 M 213 SER LEU GLY ASP ARG VAL THR ILE SER CYS ARG ALA SER SEQRES 3 M 213 GLN ASP ILE SER ASN PHE LEU ASN TRP TYR GLN GLN LYS SEQRES 4 M 213 PRO ASP GLY THR VAL LYS LEU LEU ILE TYR TYR THR SER SEQRES 5 M 213 ARG LEU HIS SER GLY VAL PRO SER ARG PHE SER GLY SER SEQRES 6 M 213 GLY SER GLY THR ASP PHE SER LEU THR ILE SER LYS LEU SEQRES 7 M 213 GLU GLN GLU ASP ILE ALA THR TYR PHE CYS GLN GLN GLY SEQRES 8 M 213 ASN THR LEU PRO LEU THR PHE GLY ALA GLY THR LYS LEU SEQRES 9 M 213 GLU LEU LYS ARG ALA GLU ALA ALA PRO THR VAL SER ILE SEQRES 10 M 213 PHE PRO PRO SER SER GLU GLN LEU THR SER GLY GLY ALA SEQRES 11 M 213 SER VAL VAL CYS PHE LEU ASN ASN PHE TYR PRO LYS ASP SEQRES 12 M 213 ILE ASN VAL LYS TRP LYS ILE ASP GLY SER GLU ARG GLN SEQRES 13 M 213 ASN GLY VAL LEU ASN SER TRP THR ASP GLN ASP SER LYS SEQRES 14 M 213 ASP SER THR TYR SER MET SER SER THR LEU THR LEU THR SEQRES 15 M 213 LYS ASP GLU TYR GLU ARG HIS ASN SER TYR THR CYS GLU SEQRES 16 M 213 ALA THR HIS LYS THR SER THR SER PRO ILE VAL LYS SER SEQRES 17 M 213 PHE ASN ARG ASN GLU SEQRES 1 I 220 GLU VAL GLN LEU GLN GLN SER GLY PRO GLU LEU VAL LYS SEQRES 2 I 220 PRO GLY ALA SER VAL LYS ILE SER CYS LYS ALA SER GLY SEQRES 3 I 220 TYR THR PHE THR ASP TYR TYR MET ASN TRP VAL LYS LEU SEQRES 4 I 220 SER HIS GLY LYS SER LEU GLU TRP ILE GLY ASP ILE VAL SEQRES 5 I 220 PRO ASN ASN GLY ASP THR THR TYR ASN GLN ASN PHE ARG SEQRES 6 I 220 GLY LYS ALA THR LEU THR VAL ASP LYS SER SER SER THR SEQRES 7 I 220 ALA TYR MET GLU LEU ARG SER LEU THR SER GLU ASP SER SEQRES 8 I 220 ALA VAL TYR TYR CYS ALA ARG PHE SER ASN TYR VAL TYR SEQRES 9 I 220 PRO PHE ASP TYR TRP GLY GLN GLY THR THR LEU THR VAL SEQRES 10 I 220 SER SER ALA LYS THR THR ALA PRO SER VAL TYR PRO LEU SEQRES 11 I 220 ALA PRO VAL CYS GLY ASP THR THR GLY SER SER VAL THR SEQRES 12 I 220 LEU GLY CYS LEU VAL LYS GLY TYR PHE PRO GLU PRO VAL SEQRES 13 I 220 THR LEU THR TRP ASN SER GLY SER LEU SER SER GLY VAL SEQRES 14 I 220 HIS THR PHE PRO ALA ILE LEU GLN SER ASP LEU TYR THR SEQRES 15 I 220 LEU SER SER SER VAL THR VAL THR SER SER THR TRP PRO SEQRES 16 I 220 SER GLN SER ILE THR CYS ASN VAL ALA HIS PRO ALA SER SEQRES 17 I 220 SER THR LYS VAL ASP LYS LYS ILE GLU PRO ARG ALA FORMUL 5 HOH *663(H2 O) HELIX 1 1 GLU L 79 ILE L 83 5 5 HELIX 2 2 SER L 121 GLY L 128 1 8 HELIX 3 3 LYS L 183 GLU L 187 1 5 HELIX 4 4 THR H 28 TYR H 32 5 5 HELIX 5 5 GLN H 62 ARG H 65 5 4 HELIX 6 6 LYS H 74 SER H 76 5 3 HELIX 7 7 THR H 87 SER H 91 5 5 HELIX 8 8 SER H 162 SER H 164 5 3 HELIX 9 9 PRO H 206 SER H 208 5 3 HELIX 10 10 GLU M 79 ILE M 83 5 5 HELIX 11 11 SER M 121 SER M 127 1 7 HELIX 12 12 LYS M 183 GLU M 187 1 5 HELIX 13 13 THR I 28 TYR I 32 5 5 HELIX 14 14 GLN I 62 ARG I 65 5 4 HELIX 15 15 LYS I 74 SER I 76 5 3 HELIX 16 16 THR I 87 SER I 91 5 5 HELIX 17 17 SER I 162 SER I 164 5 3 HELIX 18 18 SER I 192 TRP I 194 5 3 HELIX 19 19 PRO I 206 SER I 208 5 3 SHEET 1 A 4 MET L 4 THR L 5 0 SHEET 2 A 4 VAL L 19 ALA L 25 -1 O ARG L 24 N THR L 5 SHEET 3 A 4 ASP L 70 ILE L 75 -1 O ILE L 75 N VAL L 19 SHEET 4 A 4 PHE L 62 SER L 67 -1 N SER L 63 O THR L 74 SHEET 1 B 6 SER L 10 ALA L 13 0 SHEET 2 B 6 THR L 102 LEU L 106 1 O GLU L 105 N LEU L 11 SHEET 3 B 6 THR L 85 GLN L 90 -1 N TYR L 86 O THR L 102 SHEET 4 B 6 LEU L 33 GLN L 38 -1 N GLN L 38 O THR L 85 SHEET 5 B 6 VAL L 44 TYR L 49 -1 O ILE L 48 N TRP L 35 SHEET 6 B 6 ARG L 53 LEU L 54 -1 O ARG L 53 N TYR L 49 SHEET 1 C 4 SER L 10 ALA L 13 0 SHEET 2 C 4 THR L 102 LEU L 106 1 O GLU L 105 N LEU L 11 SHEET 3 C 4 THR L 85 GLN L 90 -1 N TYR L 86 O THR L 102 SHEET 4 C 4 THR L 97 PHE L 98 -1 O THR L 97 N GLN L 90 SHEET 1 D 4 THR L 114 PHE L 118 0 SHEET 2 D 4 GLY L 129 PHE L 139 -1 O ASN L 137 N THR L 114 SHEET 3 D 4 TYR L 173 THR L 182 -1 O MET L 175 N LEU L 136 SHEET 4 D 4 VAL L 159 TRP L 163 -1 N SER L 162 O SER L 176 SHEET 1 E 4 SER L 153 ARG L 155 0 SHEET 2 E 4 ASN L 145 ILE L 150 -1 N ILE L 150 O SER L 153 SHEET 3 E 4 SER L 191 THR L 197 -1 O GLU L 195 N LYS L 147 SHEET 4 E 4 ILE L 205 ASN L 210 -1 O ILE L 205 N ALA L 196 SHEET 1 F 4 GLN H 3 GLN H 6 0 SHEET 2 F 4 VAL H 18 SER H 25 -1 O LYS H 23 N GLN H 5 SHEET 3 F 4 THR H 78 LEU H 83 -1 O ALA H 79 N CYS H 22 SHEET 4 F 4 ALA H 68 ASP H 73 -1 N THR H 71 O TYR H 80 SHEET 1 G 6 GLU H 10 VAL H 12 0 SHEET 2 G 6 THR H 113 VAL H 117 1 O THR H 116 N GLU H 10 SHEET 3 G 6 ALA H 92 PHE H 99 -1 N ALA H 92 O LEU H 115 SHEET 4 G 6 TYR H 33 SER H 40 -1 N VAL H 37 O TYR H 95 SHEET 5 G 6 SER H 44 ILE H 51 -1 O GLU H 46 N LYS H 38 SHEET 6 G 6 THR H 58 TYR H 60 -1 O THR H 59 N ASP H 50 SHEET 1 H 4 GLU H 10 VAL H 12 0 SHEET 2 H 4 THR H 113 VAL H 117 1 O THR H 116 N GLU H 10 SHEET 3 H 4 ALA H 92 PHE H 99 -1 N ALA H 92 O LEU H 115 SHEET 4 H 4 TYR H 108 TRP H 109 -1 O TYR H 108 N ARG H 98 SHEET 1 I 4 SER H 126 LEU H 130 0 SHEET 2 I 4 SER H 141 TYR H 151 -1 O LEU H 147 N TYR H 128 SHEET 3 I 4 LEU H 180 THR H 190 -1 O TYR H 181 N TYR H 151 SHEET 4 I 4 VAL H 169 THR H 171 -1 N HIS H 170 O SER H 186 SHEET 1 J 4 SER H 126 LEU H 130 0 SHEET 2 J 4 SER H 141 TYR H 151 -1 O LEU H 147 N TYR H 128 SHEET 3 J 4 LEU H 180 THR H 190 -1 O TYR H 181 N TYR H 151 SHEET 4 J 4 ILE H 175 GLN H 177 -1 N GLN H 177 O LEU H 180 SHEET 1 K 6 THR H 157 TRP H 160 0 SHEET 2 K 6 THR H 200 HIS H 205 -1 O ASN H 202 N THR H 159 SHEET 3 K 6 THR H 210 LYS H 215 -1 O VAL H 212 N VAL H 203 SHEET 4 K 6 THR I 210 LYS I 215 -1 O LYS I 211 N LYS H 211 SHEET 5 K 6 THR I 200 HIS I 205 -1 N HIS I 205 O THR I 210 SHEET 6 K 6 THR I 157 TRP I 160 -1 N THR I 159 O ASN I 202 SHEET 1 L 4 MET M 4 THR M 5 0 SHEET 2 L 4 VAL M 19 ALA M 25 -1 O ARG M 24 N THR M 5 SHEET 3 L 4 ASP M 70 ILE M 75 -1 O ILE M 75 N VAL M 19 SHEET 4 L 4 PHE M 62 SER M 67 -1 N SER M 63 O THR M 74 SHEET 1 M 6 SER M 10 ALA M 13 0 SHEET 2 M 6 THR M 102 LEU M 106 1 O LYS M 103 N LEU M 11 SHEET 3 M 6 THR M 85 GLN M 90 -1 N TYR M 86 O THR M 102 SHEET 4 M 6 LEU M 33 GLN M 38 -1 N GLN M 38 O THR M 85 SHEET 5 M 6 VAL M 44 TYR M 49 -1 O ILE M 48 N TRP M 35 SHEET 6 M 6 ARG M 53 LEU M 54 -1 O ARG M 53 N TYR M 49 SHEET 1 N 4 SER M 10 ALA M 13 0 SHEET 2 N 4 THR M 102 LEU M 106 1 O LYS M 103 N LEU M 11 SHEET 3 N 4 THR M 85 GLN M 90 -1 N TYR M 86 O THR M 102 SHEET 4 N 4 THR M 97 PHE M 98 -1 O THR M 97 N GLN M 90 SHEET 1 O 4 THR M 114 PHE M 118 0 SHEET 2 O 4 GLY M 129 PHE M 139 -1 O ASN M 137 N THR M 114 SHEET 3 O 4 TYR M 173 THR M 182 -1 O LEU M 179 N VAL M 132 SHEET 4 O 4 VAL M 159 TRP M 163 -1 N SER M 162 O SER M 176 SHEET 1 P 4 SER M 153 ARG M 155 0 SHEET 2 P 4 ASN M 145 ILE M 150 -1 N ILE M 150 O SER M 153 SHEET 3 P 4 SER M 191 THR M 197 -1 O GLU M 195 N LYS M 147 SHEET 4 P 4 ILE M 205 ASN M 210 -1 O ILE M 205 N ALA M 196 SHEET 1 Q 4 GLN I 3 GLN I 6 0 SHEET 2 Q 4 VAL I 18 SER I 25 -1 O LYS I 23 N GLN I 5 SHEET 3 Q 4 THR I 78 LEU I 83 -1 O MET I 81 N ILE I 20 SHEET 4 Q 4 ALA I 68 ASP I 73 -1 N THR I 71 O TYR I 80 SHEET 1 R 6 GLU I 10 VAL I 12 0 SHEET 2 R 6 THR I 113 VAL I 117 1 O THR I 114 N GLU I 10 SHEET 3 R 6 ALA I 92 PHE I 99 -1 N TYR I 94 O THR I 113 SHEET 4 R 6 TYR I 33 SER I 40 -1 N VAL I 37 O TYR I 95 SHEET 5 R 6 SER I 44 ILE I 51 -1 O GLU I 46 N LYS I 38 SHEET 6 R 6 THR I 58 TYR I 60 -1 O THR I 59 N ASP I 50 SHEET 1 S 4 GLU I 10 VAL I 12 0 SHEET 2 S 4 THR I 113 VAL I 117 1 O THR I 114 N GLU I 10 SHEET 3 S 4 ALA I 92 PHE I 99 -1 N TYR I 94 O THR I 113 SHEET 4 S 4 TYR I 108 TRP I 109 -1 O TYR I 108 N ARG I 98 SHEET 1 T 4 SER I 126 LEU I 130 0 SHEET 2 T 4 SER I 141 TYR I 151 -1 O LEU I 147 N TYR I 128 SHEET 3 T 4 TYR I 181 THR I 190 -1 O TYR I 181 N TYR I 151 SHEET 4 T 4 VAL I 169 THR I 171 -1 N HIS I 170 O SER I 186 SHEET 1 U 4 SER I 126 LEU I 130 0 SHEET 2 U 4 SER I 141 TYR I 151 -1 O LEU I 147 N TYR I 128 SHEET 3 U 4 TYR I 181 THR I 190 -1 O TYR I 181 N TYR I 151 SHEET 4 U 4 ILE I 175 LEU I 176 -1 N ILE I 175 O THR I 182 SSBOND 1 CYS L 23 CYS L 88 1555 1555 2.06 SSBOND 2 CYS L 134 CYS L 194 1555 1555 2.03 SSBOND 3 CYS H 22 CYS H 96 1555 1555 2.05 SSBOND 4 CYS H 146 CYS H 201 1555 1555 2.01 SSBOND 5 CYS M 23 CYS M 88 1555 1555 2.08 SSBOND 6 CYS M 134 CYS M 194 1555 1555 2.04 SSBOND 7 CYS I 22 CYS I 96 1555 1555 2.08 SSBOND 8 CYS I 146 CYS I 201 1555 1555 2.03 CISPEP 1 LEU L 94 PRO L 95 0 -1.19 CISPEP 2 TYR L 140 PRO L 141 0 2.89 CISPEP 3 ASP H 136 THR H 137 0 1.77 CISPEP 4 PHE H 152 PRO H 153 0 -6.29 CISPEP 5 GLU H 154 PRO H 155 0 1.05 CISPEP 6 TRP H 194 PRO H 195 0 7.85 CISPEP 7 LEU M 94 PRO M 95 0 0.75 CISPEP 8 TYR M 140 PRO M 141 0 5.16 CISPEP 9 VAL I 133 CYS I 134 0 -2.71 CISPEP 10 PHE I 152 PRO I 153 0 -3.81 CISPEP 11 GLU I 154 PRO I 155 0 -0.99 CISPEP 12 TRP I 194 PRO I 195 0 12.38 CRYST1 41.823 136.490 77.512 90.00 91.86 90.00 P 1 21 1 4 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 0.023910 0.000000 0.000776 0.00000 SCALE2 0.000000 0.007327 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012908 0.00000