HEADER SIGNALING PROTEIN 23-DEC-16 5MRI
TITLE CRYSTAL STRUCTURE OF THE VPS10P DOMAIN OF HUMAN SORTILIN/NTS3 IN
TITLE 2 COMPLEX WITH TRIAZOLONE 18
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: SORTILIN;
COMPND 3 CHAIN: A;
COMPND 4 SYNONYM: 100 KDA NT RECEPTOR,GLYCOPROTEIN 95,GP95,NEUROTENSIN
COMPND 5 RECEPTOR 3,NTR3;
COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS;
SOURCE 3 ORGANISM_COMMON: HUMAN;
SOURCE 4 ORGANISM_TAXID: 9606;
SOURCE 5 GENE: SORT1;
SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS;
SOURCE 7 EXPRESSION_SYSTEM_COMMON: HUMAN;
SOURCE 8 EXPRESSION_SYSTEM_TAXID: 9606;
SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: HEK293
KEYWDS VPS10P, RECEPTOR, SORTILIN, SIGNALING PROTEIN
EXPDTA X-RAY DIFFRACTION
AUTHOR J.L.ANDERSEN,D.STRANDBYGAARD,S.THIRUP
REVDAT 5 20-NOV-24 5MRI 1 REMARK
REVDAT 4 17-JAN-24 5MRI 1 HETSYN
REVDAT 3 29-JUL-20 5MRI 1 COMPND REMARK HETNAM LINK
REVDAT 3 2 1 SITE ATOM
REVDAT 2 09-AUG-17 5MRI 1 JRNL
REVDAT 1 17-MAY-17 5MRI 0
JRNL AUTH J.L.ANDERSEN,S.LINDBERG,M.LANGGARD,P.J.MALTAS,L.C.B.RONN,
JRNL AUTH 2 C.BUNDGAARD,D.STRANDBYGAARD,S.THIRUP,S.P.WATSON
JRNL TITL THE IDENTIFICATION OF NOVEL ACID ISOSTERE BASED INHIBITORS
JRNL TITL 2 OF THE VPS10P FAMILY SORTING RECEPTOR SORTILIN.
JRNL REF BIOORG. MED. CHEM. LETT. V. 27 2629 2017
JRNL REFN ESSN 1464-3405
JRNL PMID 28462834
JRNL DOI 10.1016/J.BMCL.2017.02.028
REMARK 2
REMARK 2 RESOLUTION. 2.00 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : PHENIX (DEV_2614: ???)
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) : 2.00
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.92
REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360
REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4
REMARK 3 NUMBER OF REFLECTIONS : 67019
REMARK 3
REMARK 3 FIT TO DATA USED IN REFINEMENT.
REMARK 3 R VALUE (WORKING + TEST SET) : 0.196
REMARK 3 R VALUE (WORKING SET) : 0.195
REMARK 3 FREE R VALUE : 0.219
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.000
REMARK 3 FREE R VALUE TEST SET COUNT : 2009
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 43.9257 - 4.8183 0.98 4760 147 0.1757 0.1893
REMARK 3 2 4.8183 - 3.8251 0.97 4608 147 0.1544 0.1617
REMARK 3 3 3.8251 - 3.3418 0.98 4621 136 0.1733 0.2195
REMARK 3 4 3.3418 - 3.0363 0.98 4633 146 0.1945 0.2096
REMARK 3 5 3.0363 - 2.8188 0.98 4650 142 0.2055 0.2142
REMARK 3 6 2.8188 - 2.6526 0.99 4618 149 0.2105 0.2791
REMARK 3 7 2.6526 - 2.5198 0.98 4644 139 0.2192 0.2480
REMARK 3 8 2.5198 - 2.4101 0.99 4652 144 0.2198 0.2748
REMARK 3 9 2.4101 - 2.3173 0.99 4642 144 0.2284 0.2377
REMARK 3 10 2.3173 - 2.2373 0.99 4634 138 0.2319 0.2456
REMARK 3 11 2.2373 - 2.1674 0.99 4647 145 0.2426 0.2890
REMARK 3 12 2.1674 - 2.1054 0.99 4658 140 0.2568 0.2568
REMARK 3 13 2.1054 - 2.0500 0.99 4616 143 0.2878 0.3546
REMARK 3 14 2.0500 - 2.0000 0.99 4627 149 0.3154 0.3065
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) : 0.220
REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.070
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : 35.70
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 : 0.003 5483
REMARK 3 ANGLE : 0.761 7456
REMARK 3 CHIRALITY : 0.051 828
REMARK 3 PLANARITY : 0.008 951
REMARK 3 DIHEDRAL : 16.007 3243
REMARK 3
REMARK 3 TLS DETAILS
REMARK 3 NUMBER OF TLS GROUPS : 6
REMARK 3 TLS GROUP : 1
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 54 THROUGH 90 )
REMARK 3 ORIGIN FOR THE GROUP (A): -39.1516 -53.9943 17.0717
REMARK 3 T TENSOR
REMARK 3 T11: 0.2948 T22: 0.6237
REMARK 3 T33: 0.3515 T12: 0.1596
REMARK 3 T13: -0.0267 T23: 0.0004
REMARK 3 L TENSOR
REMARK 3 L11: 2.8083 L22: 6.1883
REMARK 3 L33: 3.3988 L12: 0.5145
REMARK 3 L13: -0.3287 L23: -0.7713
REMARK 3 S TENSOR
REMARK 3 S11: 0.0274 S12: 0.1346 S13: 0.3126
REMARK 3 S21: -0.1730 S22: 0.1095 S23: 0.2513
REMARK 3 S31: -0.3640 S32: -0.7009 S33: -0.1772
REMARK 3 TLS GROUP : 2
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 91 THROUGH 238 )
REMARK 3 ORIGIN FOR THE GROUP (A): -36.9777 -80.3763 24.5792
REMARK 3 T TENSOR
REMARK 3 T11: 0.3673 T22: 0.4044
REMARK 3 T33: 0.3637 T12: -0.0419
REMARK 3 T13: 0.0359 T23: -0.0924
REMARK 3 L TENSOR
REMARK 3 L11: 2.2392 L22: 0.5616
REMARK 3 L33: 0.5398 L12: -0.2641
REMARK 3 L13: -0.4122 L23: -0.1129
REMARK 3 S TENSOR
REMARK 3 S11: -0.1347 S12: 0.2749 S13: -0.3575
REMARK 3 S21: -0.0395 S22: -0.0101 S23: 0.0692
REMARK 3 S31: 0.1908 S32: -0.1936 S33: 0.1533
REMARK 3 TLS GROUP : 3
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 239 THROUGH 317 )
REMARK 3 ORIGIN FOR THE GROUP (A): -9.4139 -87.3615 30.9270
REMARK 3 T TENSOR
REMARK 3 T11: 0.3438 T22: 0.3303
REMARK 3 T33: 0.4726 T12: 0.1176
REMARK 3 T13: 0.0807 T23: 0.1058
REMARK 3 L TENSOR
REMARK 3 L11: 2.7046 L22: 2.7833
REMARK 3 L33: 1.9507 L12: 0.7106
REMARK 3 L13: -0.5962 L23: 0.5936
REMARK 3 S TENSOR
REMARK 3 S11: -0.2452 S12: -0.1244 S13: -0.5452
REMARK 3 S21: 0.1578 S22: -0.0893 S23: -0.2182
REMARK 3 S31: 0.2828 S32: 0.3933 S33: 0.2404
REMARK 3 TLS GROUP : 4
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 318 THROUGH 470 )
REMARK 3 ORIGIN FOR THE GROUP (A): -8.1813 -58.1304 29.5231
REMARK 3 T TENSOR
REMARK 3 T11: 0.2219 T22: 0.3314
REMARK 3 T33: 0.1884 T12: -0.0474
REMARK 3 T13: -0.0279 T23: -0.0000
REMARK 3 L TENSOR
REMARK 3 L11: 1.8420 L22: 2.0674
REMARK 3 L33: 2.1245 L12: -0.3924
REMARK 3 L13: -0.7103 L23: -0.2159
REMARK 3 S TENSOR
REMARK 3 S11: 0.0756 S12: -0.2217 S13: 0.0740
REMARK 3 S21: 0.1094 S22: -0.0700 S23: -0.1278
REMARK 3 S31: -0.2025 S32: 0.3067 S33: -0.0062
REMARK 3 TLS GROUP : 5
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 471 THROUGH 626 )
REMARK 3 ORIGIN FOR THE GROUP (A): -23.9818 -49.6470 15.5103
REMARK 3 T TENSOR
REMARK 3 T11: 0.4020 T22: 0.3649
REMARK 3 T33: 0.3101 T12: 0.0632
REMARK 3 T13: 0.0233 T23: 0.0516
REMARK 3 L TENSOR
REMARK 3 L11: 3.0928 L22: 0.6563
REMARK 3 L33: 2.0415 L12: -0.3255
REMARK 3 L13: -0.4937 L23: 0.1610
REMARK 3 S TENSOR
REMARK 3 S11: 0.1762 S12: 0.2484 S13: 0.3184
REMARK 3 S21: -0.0016 S22: -0.0523 S23: 0.0448
REMARK 3 S31: -0.3249 S32: -0.3420 S33: -0.1325
REMARK 3 TLS GROUP : 6
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 627 THROUGH 715 )
REMARK 3 ORIGIN FOR THE GROUP (A): 11.7932 -75.3432 21.1654
REMARK 3 T TENSOR
REMARK 3 T11: 0.5230 T22: 0.8206
REMARK 3 T33: 0.5388 T12: 0.1051
REMARK 3 T13: 0.0208 T23: 0.1441
REMARK 3 L TENSOR
REMARK 3 L11: 1.6942 L22: 3.5524
REMARK 3 L33: 4.8197 L12: -2.4753
REMARK 3 L13: 2.8750 L23: -4.1602
REMARK 3 S TENSOR
REMARK 3 S11: -0.0388 S12: 0.0538 S13: -0.1411
REMARK 3 S21: 0.1400 S22: -0.3336 S23: -0.2888
REMARK 3 S31: 0.0519 S32: 0.5239 S33: 0.2929
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 5MRI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-DEC-16.
REMARK 100 THE DEPOSITION ID IS D_1200002890.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 25-OCT-13
REMARK 200 TEMPERATURE (KELVIN) : 100
REMARK 200 PH : 7.3
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : Y
REMARK 200 RADIATION SOURCE : DIAMOND
REMARK 200 BEAMLINE : I24
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 0.969
REMARK 200 MONOCHROMATOR : NULL
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : PIXEL
REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS
REMARK 200 DATA SCALING SOFTWARE : AIMLESS
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 67029
REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000
REMARK 200 RESOLUTION RANGE LOW (A) : 64.000
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4
REMARK 200 DATA REDUNDANCY : 2.800
REMARK 200 R MERGE (I) : 0.07600
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.1000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05
REMARK 200 COMPLETENESS FOR SHELL (%) : 98.8
REMARK 200 DATA REDUNDANCY IN SHELL : 2.90
REMARK 200 R MERGE FOR SHELL (I) : 0.09600
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.300
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: 3F6K
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 62.55
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.28
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES-TRIS PH 7.3 0.4 M SODIUM
REMARK 280 MALONATE 6 % (V/V) GLYCEROL 26 % (W/V) PEG 3350, VAPOR DIFFUSION,
REMARK 280 SITTING DROP, TEMPERATURE 292K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1
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 79.14800
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.52900
REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 79.14800
REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 40.52900
REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000
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: MONOMERIC
REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC
REMARK 350 SOFTWARE USED: PISA
REMARK 350 TOTAL BURIED SURFACE AREA: 1690 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 31020 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 24.0 KCAL/MOL
REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 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 A1213 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 A 45
REMARK 465 ALA A 46
REMARK 465 PRO A 47
REMARK 465 GLY A 48
REMARK 465 GLU A 49
REMARK 465 ASP A 50
REMARK 465 GLU A 51
REMARK 465 GLU A 52
REMARK 465 CYS A 53
REMARK 465 LYS A 716
REMARK 465 GLN A 717
REMARK 465 ASN A 718
REMARK 465 SER A 719
REMARK 465 LYS A 720
REMARK 465 SER A 721
REMARK 465 ASN A 722
REMARK 465 SER A 723
REMARK 465 GLY A 724
REMARK 465 SER A 725
REMARK 465 ALA A 726
REMARK 465 MET A 727
REMARK 465 ILE A 728
REMARK 465 GLU A 729
REMARK 465 GLY A 730
REMARK 465 ARG A 731
REMARK 465 GLY A 732
REMARK 465 VAL A 733
REMARK 465 GLY A 734
REMARK 465 HIS A 735
REMARK 465 HIS A 736
REMARK 465 HIS A 737
REMARK 465 HIS A 738
REMARK 465 HIS A 739
REMARK 465 HIS A 740
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 1154 O HOH A 1205 1.85
REMARK 500 O HOH A 1145 O HOH A 1212 1.93
REMARK 500 O HOH A 1098 O HOH A 1218 1.94
REMARK 500 O HOH A 903 O HOH A 1215 1.99
REMARK 500 O HOH A 1214 O HOH A 1222 1.99
REMARK 500 O HOH A 933 O HOH A 1200 2.01
REMARK 500 OE2 GLU A 607 O HOH A 901 2.03
REMARK 500 OG SER A 713 O HOH A 902 2.06
REMARK 500 N ASN A 680 O HOH A 903 2.07
REMARK 500 O HOH A 1225 O HOH A 1239 2.09
REMARK 500 NE2 GLN A 608 O HOH A 904 2.12
REMARK 500 O GLY A 336 O HOH A 905 2.13
REMARK 500 O HOH A 936 O HOH A 1188 2.14
REMARK 500 O HOH A 1211 O HOH A 1233 2.14
REMARK 500 O HOH A 978 O HOH A 1119 2.17
REMARK 500 OE2 GLU A 505 O HOH A 906 2.18
REMARK 500 O GLU A 136 O HOH A 907 2.19
REMARK 500 O HOH A 1124 O HOH A 1217 2.19
REMARK 500 O6 NAG A 806 O HOH A 908 2.19
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 PRO A 649 C - N - CD ANGL. DEV. = -18.9 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 ASP A 74 -104.61 -94.62
REMARK 500 ASN A 130 14.44 58.62
REMARK 500 GLU A 144 -100.82 13.78
REMARK 500 ALA A 240 -82.62 -117.33
REMARK 500 TYR A 362 94.12 -162.53
REMARK 500 ALA A 431 -145.92 -131.62
REMARK 500 ASN A 512 27.27 -149.76
REMARK 500 SER A 653 -56.83 68.36
REMARK 500
REMARK 500 REMARK: NULL
DBREF 5MRI A 45 723 UNP Q99523 SORT_HUMAN 78 756
SEQADV 5MRI MET A 617 UNP Q99523 VAL 650 CONFLICT
SEQADV 5MRI GLY A 724 UNP Q99523 EXPRESSION TAG
SEQADV 5MRI SER A 725 UNP Q99523 EXPRESSION TAG
SEQADV 5MRI ALA A 726 UNP Q99523 EXPRESSION TAG
SEQADV 5MRI MET A 727 UNP Q99523 EXPRESSION TAG
SEQADV 5MRI ILE A 728 UNP Q99523 EXPRESSION TAG
SEQADV 5MRI GLU A 729 UNP Q99523 EXPRESSION TAG
SEQADV 5MRI GLY A 730 UNP Q99523 EXPRESSION TAG
SEQADV 5MRI ARG A 731 UNP Q99523 EXPRESSION TAG
SEQADV 5MRI GLY A 732 UNP Q99523 EXPRESSION TAG
SEQADV 5MRI VAL A 733 UNP Q99523 EXPRESSION TAG
SEQADV 5MRI GLY A 734 UNP Q99523 EXPRESSION TAG
SEQADV 5MRI HIS A 735 UNP Q99523 EXPRESSION TAG
SEQADV 5MRI HIS A 736 UNP Q99523 EXPRESSION TAG
SEQADV 5MRI HIS A 737 UNP Q99523 EXPRESSION TAG
SEQADV 5MRI HIS A 738 UNP Q99523 EXPRESSION TAG
SEQADV 5MRI HIS A 739 UNP Q99523 EXPRESSION TAG
SEQADV 5MRI HIS A 740 UNP Q99523 EXPRESSION TAG
SEQRES 1 A 696 SER ALA PRO GLY GLU ASP GLU GLU CYS GLY ARG VAL ARG
SEQRES 2 A 696 ASP PHE VAL ALA LYS LEU ALA ASN ASN THR HIS GLN HIS
SEQRES 3 A 696 VAL PHE ASP ASP LEU ARG GLY SER VAL SER LEU SER TRP
SEQRES 4 A 696 VAL GLY ASP SER THR GLY VAL ILE LEU VAL LEU THR THR
SEQRES 5 A 696 PHE HIS VAL PRO LEU VAL ILE MET THR PHE GLY GLN SER
SEQRES 6 A 696 LYS LEU TYR ARG SER GLU ASP TYR GLY LYS ASN PHE LYS
SEQRES 7 A 696 ASP ILE THR ASP LEU ILE ASN ASN THR PHE ILE ARG THR
SEQRES 8 A 696 GLU PHE GLY MET ALA ILE GLY PRO GLU ASN SER GLY LYS
SEQRES 9 A 696 VAL VAL LEU THR ALA GLU VAL SER GLY GLY SER ARG GLY
SEQRES 10 A 696 GLY ARG ILE PHE ARG SER SER ASP PHE ALA LYS ASN PHE
SEQRES 11 A 696 VAL GLN THR ASP LEU PRO PHE HIS PRO LEU THR GLN MET
SEQRES 12 A 696 MET TYR SER PRO GLN ASN SER ASP TYR LEU LEU ALA LEU
SEQRES 13 A 696 SER THR GLU ASN GLY LEU TRP VAL SER LYS ASN PHE GLY
SEQRES 14 A 696 GLY LYS TRP GLU GLU ILE HIS LYS ALA VAL CYS LEU ALA
SEQRES 15 A 696 LYS TRP GLY SER ASP ASN THR ILE PHE PHE THR THR TYR
SEQRES 16 A 696 ALA ASN GLY SER CYS LYS ALA ASP LEU GLY ALA LEU GLU
SEQRES 17 A 696 LEU TRP ARG THR SER ASP LEU GLY LYS SER PHE LYS THR
SEQRES 18 A 696 ILE GLY VAL LYS ILE TYR SER PHE GLY LEU GLY GLY ARG
SEQRES 19 A 696 PHE LEU PHE ALA SER VAL MET ALA ASP LYS ASP THR THR
SEQRES 20 A 696 ARG ARG ILE HIS VAL SER THR ASP GLN GLY ASP THR TRP
SEQRES 21 A 696 SER MET ALA GLN LEU PRO SER VAL GLY GLN GLU GLN PHE
SEQRES 22 A 696 TYR SER ILE LEU ALA ALA ASN ASP ASP MET VAL PHE MET
SEQRES 23 A 696 HIS VAL ASP GLU PRO GLY ASP THR GLY PHE GLY THR ILE
SEQRES 24 A 696 PHE THR SER ASP ASP ARG GLY ILE VAL TYR SER LYS SER
SEQRES 25 A 696 LEU ASP ARG HIS LEU TYR THR THR THR GLY GLY GLU THR
SEQRES 26 A 696 ASP PHE THR ASN VAL THR SER LEU ARG GLY VAL TYR ILE
SEQRES 27 A 696 THR SER VAL LEU SER GLU ASP ASN SER ILE GLN THR MET
SEQRES 28 A 696 ILE THR PHE ASP GLN GLY GLY ARG TRP THR HIS LEU ARG
SEQRES 29 A 696 LYS PRO GLU ASN SER GLU CYS ASP ALA THR ALA LYS ASN
SEQRES 30 A 696 LYS ASN GLU CYS SER LEU HIS ILE HIS ALA SER TYR SER
SEQRES 31 A 696 ILE SER GLN LYS LEU ASN VAL PRO MET ALA PRO LEU SER
SEQRES 32 A 696 GLU PRO ASN ALA VAL GLY ILE VAL ILE ALA HIS GLY SER
SEQRES 33 A 696 VAL GLY ASP ALA ILE SER VAL MET VAL PRO ASP VAL TYR
SEQRES 34 A 696 ILE SER ASP ASP GLY GLY TYR SER TRP THR LYS MET LEU
SEQRES 35 A 696 GLU GLY PRO HIS TYR TYR THR ILE LEU ASP SER GLY GLY
SEQRES 36 A 696 ILE ILE VAL ALA ILE GLU HIS SER SER ARG PRO ILE ASN
SEQRES 37 A 696 VAL ILE LYS PHE SER THR ASP GLU GLY GLN CYS TRP GLN
SEQRES 38 A 696 THR TYR THR PHE THR ARG ASP PRO ILE TYR PHE THR GLY
SEQRES 39 A 696 LEU ALA SER GLU PRO GLY ALA ARG SER MET ASN ILE SER
SEQRES 40 A 696 ILE TRP GLY PHE THR GLU SER PHE LEU THR SER GLN TRP
SEQRES 41 A 696 VAL SER TYR THR ILE ASP PHE LYS ASP ILE LEU GLU ARG
SEQRES 42 A 696 ASN CYS GLU GLU LYS ASP TYR THR ILE TRP LEU ALA HIS
SEQRES 43 A 696 SER THR ASP PRO GLU ASP TYR GLU ASP GLY CYS ILE LEU
SEQRES 44 A 696 GLY TYR LYS GLU GLN PHE LEU ARG LEU ARG LYS SER SER
SEQRES 45 A 696 MET CYS GLN ASN GLY ARG ASP TYR VAL VAL THR LYS GLN
SEQRES 46 A 696 PRO SER ILE CYS LEU CYS SER LEU GLU ASP PHE LEU CYS
SEQRES 47 A 696 ASP PHE GLY TYR TYR ARG PRO GLU ASN ASP SER LYS CYS
SEQRES 48 A 696 VAL GLU GLN PRO GLU LEU LYS GLY HIS ASP LEU GLU PHE
SEQRES 49 A 696 CYS LEU TYR GLY ARG GLU GLU HIS LEU THR THR ASN GLY
SEQRES 50 A 696 TYR ARG LYS ILE PRO GLY ASP LYS CYS GLN GLY GLY VAL
SEQRES 51 A 696 ASN PRO VAL ARG GLU VAL LYS ASP LEU LYS LYS LYS CYS
SEQRES 52 A 696 THR SER ASN PHE LEU SER PRO GLU LYS GLN ASN SER LYS
SEQRES 53 A 696 SER ASN SER GLY SER ALA MET ILE GLU GLY ARG GLY VAL
SEQRES 54 A 696 GLY HIS HIS HIS HIS HIS HIS
HET NAG B 1 14
HET NAG B 2 14
HET BMA B 3 11
HET NAG C 1 14
HET NAG C 2 14
HET NAG A 806 14
HET Q9Y A 807 15
HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE
HETNAM BMA BETA-D-MANNOPYRANOSE
HETNAM Q9Y ~{N}-METHYL-3-(3-METHYLBUTYL)-5-OXIDANYL-1,2,3-
HETNAM 2 Q9Y TRIAZOLE-4-CARBOXAMIDE
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 BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE
FORMUL 2 NAG 5(C8 H15 N O6)
FORMUL 2 BMA C6 H12 O6
FORMUL 5 Q9Y C9 H16 N4 O2
FORMUL 6 HOH *347(H2 O)
HELIX 1 AA1 ASP A 58 ASN A 65 1 8
HELIX 2 AA2 LEU A 101 THR A 105 5 5
HELIX 3 AA3 THR A 125 ASN A 129 5 5
HELIX 4 AA4 ALA A 431 GLN A 437 1 7
HELIX 5 AA5 ASP A 496 GLY A 499 5 4
HELIX 6 AA6 SER A 558 THR A 561 5 4
HELIX 7 AA7 GLU A 580 LYS A 582 5 3
HELIX 8 AA8 SER A 636 GLU A 638 5 3
HELIX 9 AA9 LYS A 662 GLY A 672 1 11
HELIX 10 AB1 ARG A 673 HIS A 676 5 4
HELIX 11 AB2 LEU A 703 SER A 709 1 7
SHEET 1 AA1 4 THR A 67 VAL A 71 0
SHEET 2 AA1 4 TRP A 564 ASP A 570 -1 O THR A 568 N HIS A 68
SHEET 3 AA1 4 ASN A 549 THR A 556 -1 N ILE A 552 O TYR A 567
SHEET 4 AA1 4 ILE A 534 ALA A 540 -1 N ALA A 540 O SER A 551
SHEET 1 AA2 4 VAL A 79 TRP A 83 0
SHEET 2 AA2 4 ILE A 91 HIS A 98 -1 O LEU A 94 N SER A 80
SHEET 3 AA2 4 GLY A 107 SER A 114 -1 O TYR A 112 N VAL A 93
SHEET 4 AA2 4 LYS A 122 ASP A 123 -1 O LYS A 122 N ARG A 113
SHEET 1 AA3 4 ALA A 140 ILE A 141 0
SHEET 2 AA3 4 VAL A 149 ALA A 153 -1 O VAL A 150 N ALA A 140
SHEET 3 AA3 4 ARG A 163 SER A 167 -1 O PHE A 165 N LEU A 151
SHEET 4 AA3 4 VAL A 175 ASP A 178 -1 O THR A 177 N ILE A 164
SHEET 1 AA4 4 MET A 188 TYR A 189 0
SHEET 2 AA4 4 LEU A 197 LEU A 200 -1 O LEU A 198 N MET A 188
SHEET 3 AA4 4 LEU A 206 SER A 209 -1 O TRP A 207 N ALA A 199
SHEET 4 AA4 4 GLU A 217 HIS A 220 -1 O HIS A 220 N LEU A 206
SHEET 1 AA5 7 VAL A 223 TRP A 228 0
SHEET 2 AA5 7 ILE A 234 THR A 238 -1 O PHE A 235 N LYS A 227
SHEET 3 AA5 7 LEU A 251 THR A 256 -1 O TRP A 254 N PHE A 236
SHEET 4 AA5 7 LYS A 264 GLY A 276 -1 O ILE A 270 N LEU A 251
SHEET 5 AA5 7 PHE A 279 MET A 285 -1 O SER A 283 N TYR A 271
SHEET 6 AA5 7 ARG A 292 SER A 297 -1 O HIS A 295 N ALA A 282
SHEET 7 AA5 7 SER A 305 MET A 306 -1 O SER A 305 N VAL A 296
SHEET 1 AA6 4 TYR A 318 ALA A 323 0
SHEET 2 AA6 4 VAL A 328 ASP A 333 -1 O PHE A 329 N ALA A 322
SHEET 3 AA6 4 PHE A 340 SER A 346 -1 O PHE A 344 N MET A 330
SHEET 4 AA6 4 TYR A 353 LEU A 361 -1 O SER A 354 N THR A 345
SHEET 1 AA7 8 THR A 372 ASN A 373 0
SHEET 2 AA7 8 TYR A 381 LEU A 386 -1 O ILE A 382 N THR A 372
SHEET 3 AA7 8 ILE A 392 THR A 397 -1 O MET A 395 N THR A 383
SHEET 4 AA7 8 THR A 405 ARG A 408 -1 O THR A 405 N ILE A 396
SHEET 5 AA7 8 SER A 426 ILE A 429 -1 O LEU A 427 N LEU A 407
SHEET 6 AA7 8 VAL A 455 GLY A 462 -1 O GLY A 462 N SER A 426
SHEET 7 AA7 8 ASP A 471 SER A 475 -1 O TYR A 473 N ALA A 457
SHEET 8 AA7 8 THR A 483 LEU A 486 -1 O THR A 483 N ILE A 474
SHEET 1 AA8 4 HIS A 490 LEU A 495 0
SHEET 2 AA8 4 ILE A 500 GLU A 505 -1 O ILE A 504 N TYR A 491
SHEET 3 AA8 4 VAL A 513 SER A 517 -1 O LYS A 515 N ALA A 503
SHEET 4 AA8 4 GLN A 525 THR A 528 -1 O TYR A 527 N ILE A 514
SHEET 1 AA9 3 TYR A 584 LEU A 588 0
SHEET 2 AA9 3 TYR A 605 LEU A 612 -1 O PHE A 609 N TRP A 587
SHEET 3 AA9 3 THR A 627 ILE A 632 -1 O GLN A 629 N GLN A 608
SHEET 1 AB1 2 PHE A 640 CYS A 642 0
SHEET 2 AB1 2 TYR A 682 LYS A 684 -1 O ARG A 683 N LEU A 641
SHEET 1 AB2 2 TYR A 646 TYR A 647 0
SHEET 2 AB2 2 VAL A 656 GLU A 657 -1 O VAL A 656 N TYR A 647
SHEET 1 AB3 2 THR A 678 THR A 679 0
SHEET 2 AB3 2 LYS A 701 ASP A 702 -1 O LYS A 701 N THR A 679
SSBOND 1 CYS A 224 CYS A 244 1555 1555 2.04
SSBOND 2 CYS A 415 CYS A 425 1555 1555 2.03
SSBOND 3 CYS A 579 CYS A 618 1555 1555 2.04
SSBOND 4 CYS A 601 CYS A 633 1555 1555 2.03
SSBOND 5 CYS A 635 CYS A 690 1555 1555 2.05
SSBOND 6 CYS A 642 CYS A 655 1555 1555 2.04
SSBOND 7 CYS A 669 CYS A 707 1555 1555 2.03
LINK ND2 ASN A 129 C1 NAG A 806 1555 1555 1.44
LINK ND2 ASN A 373 C1 NAG B 1 1555 1555 1.44
LINK ND2 ASN A 549 C1 NAG C 1 1555 1555 1.47
LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.44
LINK O4 NAG B 2 C1 BMA B 3 1555 1555 1.44
LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.44
CRYST1 158.296 81.058 105.690 90.00 131.10 90.00 C 1 2 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 0.006317 0.000000 0.005511 0.00000
SCALE2 0.000000 0.012337 0.000000 0.00000
SCALE3 0.000000 0.000000 0.012556 0.00000