HEADER PROTEIN BINDING 18-MAY-14 4PLM TITLE CRYSTAL STRUCTURE OF CHICKEN NETRIN-1 (LN-LE3) COMPND MOL_ID: 1; COMPND 2 MOLECULE: NETRIN-1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: LN-LE3 (UNP RESIDUES 26-457); COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GALLUS GALLUS; SOURCE 3 ORGANISM_COMMON: CHICKEN; SOURCE 4 ORGANISM_TAXID: 9031; SOURCE 5 GENE: NTN1; SOURCE 6 EXPRESSION_SYSTEM: BACULOVIRIDAE; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 10442 KEYWDS ELONGATED, CYSTEINE RICH, GLYCOPROTEIN, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR K.XU,D.B.NIKOLOV REVDAT 8 16-OCT-24 4PLM 1 REMARK REVDAT 7 27-DEC-23 4PLM 1 HETSYN REVDAT 6 29-JUL-20 4PLM 1 COMPND REMARK HETNAM LINK REVDAT 6 2 1 SITE REVDAT 5 04-DEC-19 4PLM 1 REMARK REVDAT 4 27-SEP-17 4PLM 1 COMPND SOURCE JRNL REMARK REVDAT 3 25-FEB-15 4PLM 1 REMARK REVDAT 2 25-JUN-14 4PLM 1 JRNL REVDAT 1 18-JUN-14 4PLM 0 JRNL AUTH K.XU,Z.WU,N.RENIER,A.ANTIPENKO,D.TZVETKOVA-ROBEV,Y.XU, JRNL AUTH 2 M.MINCHENKO,V.NARDI-DEI,K.R.RAJASHANKAR,J.HIMANEN, JRNL AUTH 3 M.TESSIER-LAVIGNE,D.B.NIKOLOV JRNL TITL NEURAL MIGRATION. STRUCTURES OF NETRIN-1 BOUND TO TWO JRNL TITL 2 RECEPTORS PROVIDE INSIGHT INTO ITS AXON GUIDANCE MECHANISM. JRNL REF SCIENCE V. 344 1275 2014 JRNL REFN ESSN 1095-9203 JRNL PMID 24876346 JRNL DOI 10.1126/SCIENCE.1255149 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.2_1309) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.64 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 28902 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.257 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.080 REMARK 3 FREE R VALUE TEST SET COUNT : 2913 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 28.6403 - 7.6790 0.94 1176 126 0.2071 0.2507 REMARK 3 2 7.6790 - 6.1146 0.99 1234 140 0.1965 0.2650 REMARK 3 3 6.1146 - 5.3474 0.99 1248 138 0.1696 0.2501 REMARK 3 4 5.3474 - 4.8610 1.00 1226 132 0.1452 0.2065 REMARK 3 5 4.8610 - 4.5141 1.00 1231 151 0.1328 0.1493 REMARK 3 6 4.5141 - 4.2488 1.00 1271 136 0.1437 0.2074 REMARK 3 7 4.2488 - 4.0366 0.99 1245 139 0.1622 0.2649 REMARK 3 8 4.0366 - 3.8614 0.99 1215 140 0.1708 0.2283 REMARK 3 9 3.8614 - 3.7130 1.00 1244 144 0.1757 0.2743 REMARK 3 10 3.7130 - 3.5851 0.99 1262 137 0.1744 0.2303 REMARK 3 11 3.5851 - 3.4732 0.99 1205 130 0.1832 0.2544 REMARK 3 12 3.4732 - 3.3741 1.00 1265 146 0.1939 0.2440 REMARK 3 13 3.3741 - 3.2854 1.00 1238 134 0.2115 0.3429 REMARK 3 14 3.2854 - 3.2054 0.99 1270 150 0.2457 0.3061 REMARK 3 15 3.2054 - 3.1326 1.00 1170 135 0.2666 0.3622 REMARK 3 16 3.1326 - 3.0660 0.99 1285 153 0.2613 0.3331 REMARK 3 17 3.0660 - 3.0047 0.99 1186 133 0.2793 0.3324 REMARK 3 18 3.0047 - 2.9481 0.99 1283 139 0.2909 0.3788 REMARK 3 19 2.9481 - 2.8955 0.99 1242 138 0.3215 0.3735 REMARK 3 20 2.8955 - 2.8465 0.99 1185 130 0.3110 0.4035 REMARK 3 21 2.8465 - 2.8010 0.99 1308 142 0.3357 0.4315 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) : 0.390 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.430 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 63.72 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 : 0.009 3398 REMARK 3 ANGLE : 1.401 4578 REMARK 3 CHIRALITY : 0.116 485 REMARK 3 PLANARITY : 0.008 604 REMARK 3 DIHEDRAL : 17.143 1259 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 40 THROUGH 265 ) REMARK 3 ORIGIN FOR THE GROUP (A): -33.0828 3.7588 22.7374 REMARK 3 T TENSOR REMARK 3 T11: 0.5369 T22: 0.4073 REMARK 3 T33: 0.3736 T12: 0.0318 REMARK 3 T13: -0.0353 T23: -0.0279 REMARK 3 L TENSOR REMARK 3 L11: 2.5748 L22: 4.5461 REMARK 3 L33: 4.9281 L12: -0.2343 REMARK 3 L13: 0.2120 L23: 1.6445 REMARK 3 S TENSOR REMARK 3 S11: 0.0294 S12: 0.0018 S13: -0.5363 REMARK 3 S21: -0.0400 S22: 0.0537 S23: -0.1214 REMARK 3 S31: 0.4674 S32: -0.0698 S33: -0.0390 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 266 THROUGH 456 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.7163 26.7398 62.9174 REMARK 3 T TENSOR REMARK 3 T11: 0.5405 T22: 0.7020 REMARK 3 T33: 0.3855 T12: -0.0283 REMARK 3 T13: -0.0550 T23: -0.1372 REMARK 3 L TENSOR REMARK 3 L11: 0.0397 L22: 0.7145 REMARK 3 L33: 3.1371 L12: 0.0751 REMARK 3 L13: 0.5975 L23: 0.8520 REMARK 3 S TENSOR REMARK 3 S11: 0.0457 S12: 0.1072 S13: -0.0858 REMARK 3 S21: -0.3432 S22: -0.0308 S23: -0.0765 REMARK 3 S31: -0.4906 S32: -0.0487 S33: 0.0457 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 457 THROUGH 457 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.2825 52.9017 113.5523 REMARK 3 T TENSOR REMARK 3 T11: 1.7799 T22: 1.2725 REMARK 3 T33: 0.7277 T12: -0.3573 REMARK 3 T13: -0.1843 T23: -0.0715 REMARK 3 L TENSOR REMARK 3 L11: 2.0000 L22: 2.0000 REMARK 3 L33: 2.0000 L12: 2.0000 REMARK 3 L13: -5.7603 L23: 4.3710 REMARK 3 S TENSOR REMARK 3 S11: -2.5986 S12: -1.8799 S13: 0.5639 REMARK 3 S21: -1.2777 S22: 2.2659 S23: -0.4032 REMARK 3 S31: 2.7211 S32: 1.2861 S33: 0.3613 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 4PLM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-JUN-14. REMARK 100 THE DEPOSITION ID IS D_1000201633. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-00 REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X9A 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 : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17693 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 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 (%) : 98.8 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.08500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : 0.73400 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.39 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NAOAC, NACACODYLATE, PH 6.5, VAPOR REMARK 280 DIFFUSION, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 179.85867 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 89.92933 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 89.92933 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 179.85867 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 45430 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -72.0 KCAL/MOL 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 179.85867 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 26 REMARK 465 TYR A 27 REMARK 465 PRO A 28 REMARK 465 GLY A 29 REMARK 465 LEU A 30 REMARK 465 ASN A 31 REMARK 465 MET A 32 REMARK 465 PHE A 33 REMARK 465 ALA A 34 REMARK 465 VAL A 35 REMARK 465 GLN A 36 REMARK 465 THR A 37 REMARK 465 ALA A 38 REMARK 465 GLN A 39 REMARK 465 GLU A 262 REMARK 465 ASN A 263 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 264 CG CD OE1 OE2 REMARK 470 ASP A 265 CG OD1 OD2 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 A 601 O HOH A 603 2.06 REMARK 500 O HOH A 603 O HOH A 624 2.07 REMARK 500 ND2 ASN A 118 C2 NAG A 502 2.11 REMARK 500 NE2 HIS A 324 O HOH A 601 2.13 REMARK 500 OH TYR A 127 O HOH A 602 2.17 REMARK 500 NH2 ARG A 192 OD1 ASP A 207 2.18 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 A 129 158.62 173.61 REMARK 500 HIS A 132 134.00 155.60 REMARK 500 SER A 254 -89.84 -103.99 REMARK 500 ASP A 266 -120.49 50.30 REMARK 500 PHE A 323 -1.88 69.07 REMARK 500 LYS A 365 -62.88 -101.46 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 GLU A 84 LYS A 85 148.47 REMARK 500 LYS A 85 GLY A 86 -147.69 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 A 681 DISTANCE = 7.02 ANGSTROMS 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 CA A 504 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PHE A 109 O REMARK 620 2 ASP A 112 OD1 69.8 REMARK 620 3 THR A 120 O 83.8 125.3 REMARK 620 4 THR A 120 OG1 118.4 77.6 74.4 REMARK 620 5 SER A 279 O 77.0 134.5 79.2 147.2 REMARK 620 6 HOH A 656 O 170.2 119.9 89.9 66.6 94.5 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4PLN RELATED DB: PDB REMARK 900 RELATED ID: 4PLO RELATED DB: PDB DBREF 4PLM A 26 457 UNP Q90922 NET1_CHICK 26 457 SEQRES 1 A 432 GLY TYR PRO GLY LEU ASN MET PHE ALA VAL GLN THR ALA SEQRES 2 A 432 GLN PRO ASP PRO CYS TYR ASP GLU HIS GLY LEU PRO ARG SEQRES 3 A 432 ARG CYS ILE PRO ASP PHE VAL ASN SER ALA PHE GLY LYS SEQRES 4 A 432 GLU VAL LYS VAL SER SER THR CYS GLY LYS PRO PRO SER SEQRES 5 A 432 ARG TYR CYS VAL VAL THR GLU LYS GLY GLU GLU GLN VAL SEQRES 6 A 432 ARG SER CYS HIS LEU CYS ASN ALA SER ASP PRO LYS ARG SEQRES 7 A 432 ALA HIS PRO PRO SER PHE LEU THR ASP LEU ASN ASN PRO SEQRES 8 A 432 HIS ASN LEU THR CYS TRP GLN SER ASP SER TYR VAL GLN SEQRES 9 A 432 TYR PRO HIS ASN VAL THR LEU THR LEU SER LEU GLY LYS SEQRES 10 A 432 LYS PHE GLU VAL THR TYR VAL SER LEU GLN PHE CYS SER SEQRES 11 A 432 PRO ARG PRO GLU SER MET ALA ILE TYR LYS SER MET ASP SEQRES 12 A 432 TYR GLY LYS THR TRP VAL PRO PHE GLN PHE TYR SER THR SEQRES 13 A 432 GLN CYS ARG LYS MET TYR ASN LYS PRO SER ARG ALA ALA SEQRES 14 A 432 ILE THR LYS GLN ASN GLU GLN GLU ALA ILE CYS THR ASP SEQRES 15 A 432 SER HIS THR ASP VAL ARG PRO LEU SER GLY GLY LEU ILE SEQRES 16 A 432 ALA PHE SER THR LEU ASP GLY ARG PRO THR ALA HIS ASP SEQRES 17 A 432 PHE ASP ASN SER PRO VAL LEU GLN ASP TRP VAL THR ALA SEQRES 18 A 432 THR ASP ILE LYS VAL THR PHE SER ARG LEU HIS THR PHE SEQRES 19 A 432 GLY ASP GLU ASN GLU ASP ASP SER GLU LEU ALA ARG ASP SEQRES 20 A 432 SER TYR PHE TYR ALA VAL SER ASP LEU GLN VAL GLY GLY SEQRES 21 A 432 ARG CYS LYS CYS ASN GLY HIS ALA SER ARG CYS VAL ARG SEQRES 22 A 432 ASP ARG ASP ASP ASN LEU VAL CYS ASP CYS LYS HIS ASN SEQRES 23 A 432 THR ALA GLY PRO GLU CYS ASP ARG CYS LYS PRO PHE HIS SEQRES 24 A 432 TYR ASP ARG PRO TRP GLN ARG ALA THR ALA ARG GLU ALA SEQRES 25 A 432 ASN GLU CYS VAL ALA CYS ASN CYS ASN LEU HIS ALA ARG SEQRES 26 A 432 ARG CYS ARG PHE ASN MET GLU LEU TYR LYS LEU SER GLY SEQRES 27 A 432 ARG LYS SER GLY GLY VAL CYS LEU ASN CYS ARG HIS ASN SEQRES 28 A 432 THR ALA GLY ARG HIS CYS HIS TYR CYS LYS GLU GLY PHE SEQRES 29 A 432 TYR ARG ASP LEU SER LYS PRO ILE SER HIS ARG LYS ALA SEQRES 30 A 432 CYS LYS GLU CYS ASP CYS HIS PRO VAL GLY ALA ALA GLY SEQRES 31 A 432 GLN THR CYS ASN GLN THR THR GLY GLN CYS PRO CYS LYS SEQRES 32 A 432 ASP GLY VAL THR GLY ILE THR CYS ASN ARG CYS ALA LYS SEQRES 33 A 432 GLY TYR GLN GLN SER ARG SER PRO ILE ALA PRO CYS ILE SEQRES 34 A 432 LYS ILE PRO HET NAG A 501 14 HET NAG A 502 14 HET NAG A 503 14 HET CA A 504 1 HET CL A 505 1 HET CL A 506 1 HET MG A 507 1 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM CA CALCIUM ION HETNAM CL CHLORIDE ION HETNAM MG MAGNESIUM ION 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 FORMUL 2 NAG 3(C8 H15 N O6) FORMUL 5 CA CA 2+ FORMUL 6 CL 2(CL 1-) FORMUL 8 MG MG 2+ FORMUL 9 HOH *82(H2 O) HELIX 1 AA1 ASP A 100 ALA A 104 5 5 HELIX 2 AA2 PRO A 106 LEU A 110 5 5 HELIX 3 AA3 GLN A 182 ASN A 188 1 7 HELIX 4 AA4 THR A 230 ASN A 236 5 7 HELIX 5 AA5 SER A 237 VAL A 244 1 8 HELIX 6 AA6 ASN A 355 SER A 362 1 8 SHEET 1 AA1 3 VAL A 58 ASN A 59 0 SHEET 2 AA1 3 ALA A 277 CYS A 287 -1 O GLY A 285 N VAL A 58 SHEET 3 AA1 3 TRP A 122 GLN A 123 -1 N TRP A 122 O VAL A 278 SHEET 1 AA2 3 LYS A 67 VAL A 68 0 SHEET 2 AA2 3 VAL A 134 PHE A 153 -1 O THR A 137 N LYS A 67 SHEET 3 AA2 3 GLY A 218 SER A 223 -1 O PHE A 222 N VAL A 149 SHEET 1 AA3 6 ALA A 277 CYS A 287 0 SHEET 2 AA3 6 VAL A 134 PHE A 153 -1 N SER A 150 O GLN A 282 SHEET 3 AA3 6 THR A 245 PHE A 253 -1 O ALA A 246 N PHE A 144 SHEET 4 AA3 6 SER A 160 SER A 166 -1 N SER A 166 O THR A 247 SHEET 5 AA3 6 VAL A 174 SER A 180 -1 O PHE A 176 N ILE A 163 SHEET 6 AA3 6 CYS A 205 THR A 206 1 O THR A 206 N SER A 180 SHEET 1 AA4 2 SER A 77 LYS A 85 0 SHEET 2 AA4 2 GLU A 88 CYS A 96 -1 O GLU A 88 N LYS A 85 SHEET 1 AA5 2 CYS A 296 ARG A 298 0 SHEET 2 AA5 2 LEU A 304 CYS A 306 -1 O VAL A 305 N VAL A 297 SHEET 1 AA6 2 THR A 312 ALA A 313 0 SHEET 2 AA6 2 ARG A 319 CYS A 320 -1 O ARG A 319 N ALA A 313 SHEET 1 AA7 2 ARG A 351 PHE A 354 0 SHEET 2 AA7 2 GLY A 368 LEU A 371 -1 O VAL A 369 N ARG A 353 SHEET 1 AA8 2 THR A 377 ALA A 378 0 SHEET 2 AA8 2 TYR A 384 CYS A 385 -1 O TYR A 384 N ALA A 378 SHEET 1 AA9 2 PHE A 389 ARG A 391 0 SHEET 2 AA9 2 CYS A 403 GLU A 405 -1 O LYS A 404 N TYR A 390 SHEET 1 AB1 2 VAL A 431 THR A 432 0 SHEET 2 AB1 2 ARG A 438 CYS A 439 -1 O ARG A 438 N THR A 432 SHEET 1 AB2 2 TYR A 443 GLN A 445 0 SHEET 2 AB2 2 CYS A 453 LYS A 455 -1 O ILE A 454 N GLN A 444 SSBOND 1 CYS A 43 CYS A 53 1555 1555 2.04 SSBOND 2 CYS A 72 CYS A 96 1555 1555 2.01 SSBOND 3 CYS A 80 CYS A 93 1555 1555 2.03 SSBOND 4 CYS A 121 CYS A 154 1555 1555 2.02 SSBOND 5 CYS A 183 CYS A 205 1555 1555 2.04 SSBOND 6 CYS A 287 CYS A 296 1555 1555 2.04 SSBOND 7 CYS A 289 CYS A 306 1555 1555 2.03 SSBOND 8 CYS A 308 CYS A 317 1555 1555 2.03 SSBOND 9 CYS A 320 CYS A 340 1555 1555 2.04 SSBOND 10 CYS A 343 CYS A 352 1555 1555 2.03 SSBOND 11 CYS A 345 CYS A 370 1555 1555 2.04 SSBOND 12 CYS A 373 CYS A 382 1555 1555 2.04 SSBOND 13 CYS A 385 CYS A 403 1555 1555 2.02 SSBOND 14 CYS A 406 CYS A 418 1555 1555 2.03 SSBOND 15 CYS A 408 CYS A 425 1555 1555 2.02 SSBOND 16 CYS A 427 CYS A 436 1555 1555 2.02 SSBOND 17 CYS A 439 CYS A 453 1555 1555 2.04 LINK ND2 ASN A 97 C1 NAG A 501 1555 1555 1.46 LINK ND2 ASN A 118 C1 NAG A 502 1555 1555 1.44 LINK ND2 ASN A 133 C1 NAG A 503 1555 1555 1.45 LINK O PHE A 109 CA CA A 504 1555 1555 2.39 LINK OD1 ASP A 112 CA CA A 504 1555 1555 2.42 LINK O THR A 120 CA CA A 504 1555 1555 2.56 LINK OG1 THR A 120 CA CA A 504 1555 1555 2.92 LINK OE1 GLN A 123 MG MG A 507 1555 1555 2.90 LINK O SER A 279 CA CA A 504 1555 1555 2.30 LINK CA CA A 504 O HOH A 656 1555 1555 2.38 CISPEP 1 LYS A 74 PRO A 75 0 3.58 CISPEP 2 TYR A 130 PRO A 131 0 -9.34 CISPEP 3 VAL A 212 ARG A 213 0 4.89 CISPEP 4 ARG A 213 PRO A 214 0 -3.86 CISPEP 5 GLY A 260 ASP A 261 0 -20.19 CRYST1 62.627 62.627 269.788 90.00 90.00 120.00 P 32 2 1 6 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 0.015968 0.009219 0.000000 0.00000 SCALE2 0.000000 0.018438 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003707 0.00000