HEADER CELL ADHESION 06-JAN-20 6VFQ TITLE CRYSTAL STRUCTURE OF MONOMERIC HUMAN PROTOCADHERIN 10 EC1-EC4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTOCADHERIN-10; COMPND 3 CHAIN: A; COMPND 4 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: PCDH10, KIAA1400; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK293 KEYWDS CADHERIN EXTRACELLULAR REGION, NON-CLUSTERED DELTA2 FAMILY KEYWDS 2 PROTOCADHERIN, HOMOPHILIC ADHESION/RECOGNITION CALCIUM-DEPENDENT KEYWDS 3 ADHESION MOLECULE, CELL ADHESION EXPDTA X-RAY DIFFRACTION AUTHOR O.J.HARRISON,J.BRASCH,L.SHAPIRO REVDAT 3 11-OCT-23 6VFQ 1 HETSYN LINK REVDAT 2 29-JUL-20 6VFQ 1 COMPND REMARK HETNAM LINK REVDAT 2 2 1 SITE ATOM REVDAT 1 11-MAR-20 6VFQ 0 JRNL AUTH O.J.HARRISON,J.BRASCH,P.S.KATSAMBA,G.AHLSEN,A.J.NOBLE,H.DAN, JRNL AUTH 2 R.V.SAMPOGNA,C.S.POTTER,B.CARRAGHER,B.HONIG,L.SHAPIRO JRNL TITL FAMILY-WIDE STRUCTURAL AND BIOPHYSICAL ANALYSIS OF BINDING JRNL TITL 2 INTERACTIONS AMONG NON-CLUSTERED DELTA-PROTOCADHERINS. JRNL REF CELL REP V. 30 2655 2020 JRNL REFN ESSN 2211-1247 JRNL PMID 32101743 JRNL DOI 10.1016/J.CELREP.2020.02.003 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10.1_2155 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.93 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 23219 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1162 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 19.9283 - 4.5836 0.99 2955 154 0.1605 0.2082 REMARK 3 2 4.5836 - 3.6454 1.00 2800 148 0.1568 0.1950 REMARK 3 3 3.6454 - 3.1868 1.00 2764 146 0.1934 0.2296 REMARK 3 4 3.1868 - 2.8963 1.00 2717 143 0.2163 0.2927 REMARK 3 5 2.8963 - 2.6893 0.99 2729 144 0.2260 0.2638 REMARK 3 6 2.6893 - 2.5311 1.00 2720 144 0.2308 0.2745 REMARK 3 7 2.5311 - 2.4045 1.00 2650 141 0.2483 0.3657 REMARK 3 8 2.4045 - 2.3000 0.98 2722 142 0.2702 0.3128 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.292 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.130 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 42.85 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 64.07 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 : 0.014 3483 REMARK 3 ANGLE : 0.860 4676 REMARK 3 CHIRALITY : 0.051 548 REMARK 3 PLANARITY : 0.006 623 REMARK 3 DIHEDRAL : 14.105 2086 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 6VFQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JAN-20. REMARK 100 THE DEPOSITION ID IS D_1000242632. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-AUG-16 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 : APS REMARK 200 BEAMLINE : 24-ID-C 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 : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23366 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.70 REMARK 200 R MERGE FOR SHELL (I) : 0.89000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.600 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: 5DZV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 14% PEG 400 (V/V), 0.1M SODIUM ACETATE REMARK 280 PH 4.6, 0.1M CACL2, WITH 30% ETHYLENE GLYCOL (V/V) ADDED AS REMARK 280 CRYOPROTECTANT, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 296K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 13.18650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 119.44300 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.45500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 119.44300 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 13.18650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.45500 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 APPLY THE FOLLOWING TO CHAINS: A, B 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 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 1 REMARK 465 GLY A 192 REMARK 465 GLY A 193 REMARK 465 GLY A 194 REMARK 465 VAL A 195 REMARK 465 GLY A 196 REMARK 465 GLU A 197 REMARK 465 GLY A 198 REMARK 465 GLY A 199 REMARK 465 GLY A 200 REMARK 465 GLY A 201 REMARK 465 GLY A 202 REMARK 465 GLY A 203 REMARK 465 ASP A 438 REMARK 465 HIS A 439 REMARK 465 HIS A 440 REMARK 465 HIS A 441 REMARK 465 HIS A 442 REMARK 465 HIS A 443 REMARK 465 HIS A 444 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 HH TYR A 5 OD2 ASP A 23 1.59 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 HIS A 13 140.28 -39.10 REMARK 500 ASN A 59 -89.58 -102.30 REMARK 500 LYS A 69 -127.29 51.08 REMARK 500 THR A 145 127.71 -37.13 REMARK 500 VAL A 252 -62.52 -94.51 REMARK 500 GLU A 371 -147.16 57.41 REMARK 500 ASP A 383 41.83 -108.19 REMARK 500 PRO A 385 49.86 -89.68 REMARK 500 ASN A 394 -0.12 74.63 REMARK 500 ALA A 402 -176.72 -175.02 REMARK 500 LEU A 404 -168.65 -129.09 REMARK 500 ASP A 410 -73.77 -75.29 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 501 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 9 OE1 REMARK 620 2 GLU A 10 OE1 81.9 REMARK 620 3 ASP A 63 OD1 94.6 83.4 REMARK 620 4 GLU A 65 OE2 85.3 164.2 88.3 REMARK 620 5 ASP A 100 OD2 97.3 92.6 166.8 98.3 REMARK 620 6 HOH A 673 O 169.1 107.4 92.2 86.4 76.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 502 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 9 OE2 REMARK 620 2 GLU A 65 OE1 96.3 REMARK 620 3 GLU A 65 OE2 90.0 51.8 REMARK 620 4 ASP A 97 OD1 79.7 74.5 123.9 REMARK 620 5 ILE A 98 O 89.3 146.8 161.2 74.4 REMARK 620 6 ASP A 100 OD1 96.9 136.6 87.0 148.6 74.4 REMARK 620 7 ASP A 133 OD1 178.0 83.6 91.5 98.4 89.7 84.4 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 503 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 99 OD1 REMARK 620 2 ASN A 101 O 97.6 REMARK 620 3 ASP A 131 OD1 153.9 90.0 REMARK 620 4 ASP A 131 OD2 150.8 90.5 53.1 REMARK 620 5 ASP A 133 OD2 74.6 76.8 83.0 134.5 REMARK 620 6 ASN A 137 O 82.6 179.7 89.8 89.2 103.3 REMARK 620 7 ASP A 188 OD2 69.9 92.6 134.9 81.9 141.2 87.4 REMARK 620 N 1 2 3 4 5 6 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 GLU A 116 OE1 REMARK 620 2 ASP A 173 OD1 95.1 REMARK 620 3 GLU A 175 OE2 82.3 94.7 REMARK 620 4 ASP A 228 OD2 91.8 162.1 102.6 REMARK 620 5 HOH A 619 O 100.6 68.8 163.3 93.7 REMARK 620 6 HOH A 679 O 164.3 93.7 84.0 83.7 94.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 505 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 116 OE2 REMARK 620 2 GLU A 175 OE1 104.8 REMARK 620 3 GLU A 175 OE2 90.4 53.3 REMARK 620 4 ASP A 225 OD1 84.2 75.1 124.7 REMARK 620 5 SER A 226 O 84.1 152.3 154.2 79.9 REMARK 620 6 ASP A 228 OD1 89.1 129.4 78.8 155.5 75.9 REMARK 620 7 ASP A 261 OD1 169.7 85.1 93.4 101.4 88.3 82.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 506 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 227 OD1 REMARK 620 2 ASN A 229 O 101.9 REMARK 620 3 ASP A 259 OD1 149.1 90.6 REMARK 620 4 ASP A 259 OD2 155.3 87.0 51.8 REMARK 620 5 ASP A 261 OD2 75.7 79.5 79.1 128.9 REMARK 620 6 ASN A 265 O 83.0 174.9 84.5 88.8 101.0 REMARK 620 7 ASP A 315 OD2 77.9 99.0 128.3 77.9 152.6 82.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 507 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 244 OE1 REMARK 620 2 ASP A 300 OD1 88.4 REMARK 620 3 GLU A 302 OE1 85.1 86.4 REMARK 620 4 ASP A 336 OD2 81.3 162.6 106.5 REMARK 620 5 HOH A 646 O 91.2 80.6 166.6 85.6 REMARK 620 6 HOH A 707 O 170.4 93.7 85.7 98.7 98.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 508 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 244 OE2 REMARK 620 2 GLU A 302 OE1 97.4 REMARK 620 3 GLU A 302 OE2 112.9 51.1 REMARK 620 4 ASP A 333 OD1 89.6 120.4 71.6 REMARK 620 5 ALA A 334 O 79.0 163.5 145.1 75.9 REMARK 620 6 ASP A 336 OD1 87.7 79.8 127.6 159.8 83.9 REMARK 620 7 ASP A 369 OD1 162.1 94.4 85.1 96.1 85.8 81.1 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 509 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 335 OD1 REMARK 620 2 ASN A 337 O 100.8 REMARK 620 3 ASP A 367 OD1 150.9 90.0 REMARK 620 4 ASP A 367 OD2 152.6 90.1 52.4 REMARK 620 5 ASP A 369 OD2 75.5 78.5 80.4 131.7 REMARK 620 6 ASN A 373 O 87.4 170.4 80.4 84.7 98.9 REMARK 620 7 ASP A 420 OD2 75.9 90.7 131.4 79.0 146.8 96.2 REMARK 620 N 1 2 3 4 5 6 DBREF 6VFQ A 1 438 UNP Q9P2E7 PCD10_HUMAN 18 455 SEQADV 6VFQ HIS A 439 UNP Q9P2E7 EXPRESSION TAG SEQADV 6VFQ HIS A 440 UNP Q9P2E7 EXPRESSION TAG SEQADV 6VFQ HIS A 441 UNP Q9P2E7 EXPRESSION TAG SEQADV 6VFQ HIS A 442 UNP Q9P2E7 EXPRESSION TAG SEQADV 6VFQ HIS A 443 UNP Q9P2E7 EXPRESSION TAG SEQADV 6VFQ HIS A 444 UNP Q9P2E7 EXPRESSION TAG SEQRES 1 A 444 SER GLN LEU HIS TYR THR VAL GLN GLU GLU GLN GLU HIS SEQRES 2 A 444 GLY THR PHE VAL GLY ASN ILE ALA GLU ASP LEU GLY LEU SEQRES 3 A 444 ASP ILE THR LYS LEU SER ALA ARG GLY PHE GLN THR VAL SEQRES 4 A 444 PRO ASN SER ARG THR PRO TYR LEU ASP LEU ASN LEU GLU SEQRES 5 A 444 THR GLY VAL LEU TYR VAL ASN GLU LYS ILE ASP ARG GLU SEQRES 6 A 444 GLN ILE CYS LYS GLN SER PRO SER CYS VAL LEU HIS LEU SEQRES 7 A 444 GLU VAL PHE LEU GLU ASN PRO LEU GLU LEU PHE GLN VAL SEQRES 8 A 444 GLU ILE GLU VAL LEU ASP ILE ASN ASP ASN PRO PRO SER SEQRES 9 A 444 PHE PRO GLU PRO ASP LEU THR VAL GLU ILE SER GLU SER SEQRES 10 A 444 ALA THR PRO GLY THR ARG PHE PRO LEU GLU SER ALA PHE SEQRES 11 A 444 ASP PRO ASP VAL GLY THR ASN SER LEU ARG ASP TYR GLU SEQRES 12 A 444 ILE THR PRO ASN SER TYR PHE SER LEU ASP VAL GLN THR SEQRES 13 A 444 GLN GLY ASP GLY ASN ARG PHE ALA GLU LEU VAL LEU GLU SEQRES 14 A 444 LYS PRO LEU ASP ARG GLU GLN GLN ALA VAL HIS ARG TYR SEQRES 15 A 444 VAL LEU THR ALA VAL ASP GLY GLY GLY GLY GLY GLY VAL SEQRES 16 A 444 GLY GLU GLY GLY GLY GLY GLY GLY GLY ALA GLY LEU PRO SEQRES 17 A 444 PRO GLN GLN GLN ARG THR GLY THR ALA LEU LEU THR ILE SEQRES 18 A 444 ARG VAL LEU ASP SER ASN ASP ASN VAL PRO ALA PHE ASP SEQRES 19 A 444 GLN PRO VAL TYR THR VAL SER LEU PRO GLU ASN SER PRO SEQRES 20 A 444 PRO GLY THR LEU VAL ILE GLN LEU ASN ALA THR ASP PRO SEQRES 21 A 444 ASP GLU GLY GLN ASN GLY GLU VAL VAL TYR SER PHE SER SEQRES 22 A 444 SER HIS ILE SER PRO ARG ALA ARG GLU LEU PHE GLY LEU SEQRES 23 A 444 SER PRO ARG THR GLY ARG LEU GLU VAL SER GLY GLU LEU SEQRES 24 A 444 ASP TYR GLU GLU SER PRO VAL TYR GLN VAL TYR VAL GLN SEQRES 25 A 444 ALA LYS ASP LEU GLY PRO ASN ALA VAL PRO ALA HIS CYS SEQRES 26 A 444 LYS VAL LEU VAL ARG VAL LEU ASP ALA ASN ASP ASN ALA SEQRES 27 A 444 PRO GLU ILE SER PHE SER THR VAL LYS GLU ALA VAL SER SEQRES 28 A 444 GLU GLY ALA ALA PRO GLY THR VAL VAL ALA LEU PHE SER SEQRES 29 A 444 VAL THR ASP ARG ASP SER GLU GLU ASN GLY GLN VAL GLN SEQRES 30 A 444 CYS GLU LEU LEU GLY ASP VAL PRO PHE ARG LEU LYS SER SEQRES 31 A 444 SER PHE LYS ASN TYR TYR THR ILE VAL THR GLU ALA PRO SEQRES 32 A 444 LEU ASP ARG GLU ALA GLY ASP SER TYR THR LEU THR VAL SEQRES 33 A 444 VAL ALA ARG ASP ARG GLY GLU PRO ALA LEU SER THR SER SEQRES 34 A 444 LYS SER ILE GLN VAL GLN VAL SER ASP HIS HIS HIS HIS SEQRES 35 A 444 HIS HIS HET NAG B 1 14 HET NAG B 2 14 HET FUC B 3 10 HET CA A 501 1 HET CA A 502 1 HET CA A 503 1 HET CA A 504 1 HET CA A 505 1 HET CA A 506 1 HET CA A 507 1 HET CA A 508 1 HET CA A 509 1 HET MAN A 510 21 HET MAN A 511 21 HET ACT A 515 7 HET EDO A 516 10 HET EDO A 517 10 HET EDO A 518 10 HET EDO A 519 10 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE HETNAM CA CALCIUM ION HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM ACT ACETATE ION HETNAM EDO 1,2-ETHANEDIOL 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 FUC ALPHA-L-FUCOSE; 6-DEOXY-ALPHA-L-GALACTOPYRANOSE; L- HETSYN 2 FUC FUCOSE; FUCOSE HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN EDO ETHYLENE GLYCOL FORMUL 2 NAG 2(C8 H15 N O6) FORMUL 2 FUC C6 H12 O5 FORMUL 3 CA 9(CA 2+) FORMUL 12 MAN 2(C6 H12 O6) FORMUL 14 ACT C2 H3 O2 1- FORMUL 15 EDO 4(C2 H6 O2) FORMUL 19 HOH *144(H2 O) HELIX 1 AA1 ILE A 20 GLY A 25 1 6 HELIX 2 AA2 ASP A 27 SER A 32 1 6 HELIX 3 AA3 PRO A 40 ARG A 43 5 4 HELIX 4 AA4 ASP A 63 LYS A 69 1 7 HELIX 5 AA5 VAL A 134 ASN A 137 5 4 HELIX 6 AA6 GLU A 262 GLY A 266 5 5 HELIX 7 AA7 SER A 277 LEU A 283 1 7 HELIX 8 AA8 SER A 370 GLY A 374 5 5 SHEET 1 AA1 4 LEU A 3 GLN A 8 0 SHEET 2 AA1 4 GLU A 87 LEU A 96 1 O GLU A 94 N TYR A 5 SHEET 3 AA1 4 VAL A 75 LEU A 82 -1 N LEU A 78 O VAL A 91 SHEET 4 AA1 4 GLN A 37 THR A 38 -1 N GLN A 37 O PHE A 81 SHEET 1 AA2 3 PHE A 16 ASN A 19 0 SHEET 2 AA2 3 VAL A 55 VAL A 58 -1 O LEU A 56 N GLY A 18 SHEET 3 AA2 3 LEU A 47 ASN A 50 -1 N ASP A 48 O TYR A 57 SHEET 1 AA3 4 ASP A 109 SER A 115 0 SHEET 2 AA3 4 THR A 214 LEU A 224 1 O LEU A 218 N LEU A 110 SHEET 3 AA3 4 VAL A 179 ASP A 188 -1 N HIS A 180 O ILE A 221 SHEET 4 AA3 4 LEU A 139 ILE A 144 -1 N GLU A 143 O THR A 185 SHEET 1 AA4 3 ARG A 123 PRO A 125 0 SHEET 2 AA4 3 ASN A 161 LEU A 168 -1 O LEU A 166 N PHE A 124 SHEET 3 AA4 3 PHE A 150 GLY A 158 -1 N SER A 151 O VAL A 167 SHEET 1 AA5 2 ALA A 232 PHE A 233 0 SHEET 2 AA5 2 ALA A 257 THR A 258 -1 O THR A 258 N ALA A 232 SHEET 1 AA6 4 VAL A 237 PRO A 243 0 SHEET 2 AA6 4 ALA A 323 LEU A 332 1 O LEU A 328 N TYR A 238 SHEET 3 AA6 4 VAL A 306 ASP A 315 -1 N ALA A 313 O ALA A 323 SHEET 4 AA6 4 VAL A 268 PHE A 272 -1 N SER A 271 O GLN A 312 SHEET 1 AA7 3 LEU A 251 GLN A 254 0 SHEET 2 AA7 3 ARG A 292 VAL A 295 -1 O LEU A 293 N VAL A 252 SHEET 3 AA7 3 PHE A 284 LEU A 286 -1 N GLY A 285 O GLU A 294 SHEET 1 AA8 4 GLU A 340 VAL A 346 0 SHEET 2 AA8 4 VAL A 359 THR A 366 -1 O THR A 366 N GLU A 340 SHEET 3 AA8 4 TYR A 395 THR A 400 -1 O ILE A 398 N VAL A 360 SHEET 4 AA8 4 PHE A 386 PHE A 392 -1 N LYS A 389 O THR A 397 SHEET 1 AA9 4 ALA A 349 VAL A 350 0 SHEET 2 AA9 4 SER A 427 VAL A 436 1 O GLN A 435 N VAL A 350 SHEET 3 AA9 4 SER A 411 ASP A 420 -1 N TYR A 412 O VAL A 434 SHEET 4 AA9 4 VAL A 376 LEU A 380 -1 N GLN A 377 O ARG A 419 SSBOND 1 CYS A 68 CYS A 74 1555 1555 2.05 LINK OG1 THR A 214 C1 MAN A 510 1555 1555 1.44 LINK OG1 THR A 216 C1 MAN A 511 1555 1555 1.44 LINK ND2 ASN A 256 C1 NAG B 1 1555 1555 1.45 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.46 LINK O6 NAG B 1 C1 FUC B 3 1555 1555 1.45 LINK OE1 GLU A 9 CA CA A 501 1555 1555 2.42 LINK OE2 GLU A 9 CA CA A 502 1555 1555 2.39 LINK OE1 GLU A 10 CA CA A 501 1555 1555 2.50 LINK OD1 ASP A 63 CA CA A 501 1555 1555 2.27 LINK OE2 GLU A 65 CA CA A 501 1555 1555 2.27 LINK OE1 GLU A 65 CA CA A 502 1555 1555 2.47 LINK OE2 GLU A 65 CA CA A 502 1555 1555 2.58 LINK OD1 ASP A 97 CA CA A 502 1555 1555 2.18 LINK O ILE A 98 CA CA A 502 1555 1555 2.36 LINK OD1 ASN A 99 CA CA A 503 1555 1555 2.41 LINK OD2 ASP A 100 CA CA A 501 1555 1555 2.23 LINK OD1 ASP A 100 CA CA A 502 1555 1555 2.21 LINK O ASN A 101 CA CA A 503 1555 1555 2.29 LINK OE1 GLU A 116 CA CA A 504 1555 1555 2.35 LINK OE2 GLU A 116 CA CA A 505 1555 1555 2.34 LINK OD1 ASP A 131 CA CA A 503 1555 1555 2.52 LINK OD2 ASP A 131 CA CA A 503 1555 1555 2.40 LINK OD1 ASP A 133 CA CA A 502 1555 1555 2.41 LINK OD2 ASP A 133 CA CA A 503 1555 1555 2.45 LINK O ASN A 137 CA CA A 503 1555 1555 2.35 LINK OD1 ASP A 173 CA CA A 504 1555 1555 2.29 LINK OE2 GLU A 175 CA CA A 504 1555 1555 2.41 LINK OE1 GLU A 175 CA CA A 505 1555 1555 2.38 LINK OE2 GLU A 175 CA CA A 505 1555 1555 2.50 LINK OD2 ASP A 188 CA CA A 503 1555 1555 2.46 LINK OD1 ASP A 225 CA CA A 505 1555 1555 2.23 LINK O SER A 226 CA CA A 505 1555 1555 2.40 LINK OD1 ASN A 227 CA CA A 506 1555 1555 2.37 LINK OD2 ASP A 228 CA CA A 504 1555 1555 2.28 LINK OD1 ASP A 228 CA CA A 505 1555 1555 2.30 LINK O ASN A 229 CA CA A 506 1555 1555 2.37 LINK OE1 GLU A 244 CA CA A 507 1555 1555 2.43 LINK OE2 GLU A 244 CA CA A 508 1555 1555 2.37 LINK OD1 ASP A 259 CA CA A 506 1555 1555 2.55 LINK OD2 ASP A 259 CA CA A 506 1555 1555 2.45 LINK OD1 ASP A 261 CA CA A 505 1555 1555 2.34 LINK OD2 ASP A 261 CA CA A 506 1555 1555 2.41 LINK O ASN A 265 CA CA A 506 1555 1555 2.44 LINK OD1 ASP A 300 CA CA A 507 1555 1555 2.42 LINK OE1 GLU A 302 CA CA A 507 1555 1555 2.28 LINK OE1 GLU A 302 CA CA A 508 1555 1555 2.73 LINK OE2 GLU A 302 CA CA A 508 1555 1555 2.26 LINK OD2 ASP A 315 CA CA A 506 1555 1555 2.40 LINK OD1 ASP A 333 CA CA A 508 1555 1555 2.35 LINK O ALA A 334 CA CA A 508 1555 1555 2.39 LINK OD1 ASN A 335 CA CA A 509 1555 1555 2.30 LINK OD2 ASP A 336 CA CA A 507 1555 1555 2.32 LINK OD1 ASP A 336 CA CA A 508 1555 1555 2.26 LINK O ASN A 337 CA CA A 509 1555 1555 2.27 LINK OD1 ASP A 367 CA CA A 509 1555 1555 2.50 LINK OD2 ASP A 367 CA CA A 509 1555 1555 2.45 LINK OD1 ASP A 369 CA CA A 508 1555 1555 2.43 LINK OD2 ASP A 369 CA CA A 509 1555 1555 2.40 LINK O ASN A 373 CA CA A 509 1555 1555 2.36 LINK OD2 ASP A 420 CA CA A 509 1555 1555 2.49 LINK CA CA A 501 O HOH A 673 1555 1555 2.40 LINK CA CA A 504 O HOH A 619 1555 1555 2.33 LINK CA CA A 504 O HOH A 679 1555 1555 2.39 LINK CA CA A 507 O HOH A 646 1555 1555 2.55 LINK CA CA A 507 O HOH A 707 1555 1555 2.40 CISPEP 1 ASN A 84 PRO A 85 0 0.62 CISPEP 2 GLU A 423 PRO A 424 0 -1.88 CRYST1 26.373 78.910 238.886 90.00 90.00 90.00 P 21 21 21 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 0.037918 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012673 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004186 0.00000