10 20 30 40 50 60 70 80 1QBD - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER GLYCOSYL HYDROLASE 07-JUN-96 1QBD
TITLE HEXOSAMINIDASE BETA CHAIN, GLYCOSYL HYDROLASE FAMILY 20, TITLE 2 THEORETICAL MODEL
COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEXOSAMINIDASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: BETA CHAIN; COMPND 5 EC: 3.2.1.30
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN
KEYWDS GLYCOSYL HYDROLASE, HEXOSAMINIDASE, SANDHOFF DISEASE, BA8- KEYWDS 2 BARREL
EXPDTA THEORETICAL MODEL
AUTHOR I.TEWS,A.PERRAKIS,A.OPPENHEIM,Z.DAUTER,K.S.WILSON, AUTHOR 2 C.E.VORGIAS
REVDAT 1 11-JAN-97 1QBD 0
JRNL AUTH I.TEWS,A.PERRAKIS,A.OPPENHEIM,Z.DAUTER,K.S.WILSON, JRNL AUTH 2 C.E.VORGIAS JRNL TITL BACTERIAL CHITOBIASE STRUCTURE PROVIDES INSIGHT JRNL TITL 2 INTO CATALYTIC MECHANISM AND THE BASIS OF JRNL TITL 3 TAY-SACHS DISEASE. JRNL REF NAT.STRUCT.BIOL. V. 3 638 1996 JRNL REFN ASTM NSBIEW US ISSN 1072-8368
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.NEOTE,B.BAPAT,A.DUMBRILLE-ROSS,C.TROXEL, REMARK 1 AUTH 2 S.M.SCHUSTER,D.J.MAHURAN,R.A.GRAVEL REMARK 1 TITL CHARACTERIZATION OF THE HUMAN HEXB GENE ENCODING REMARK 1 TITL 2 LYSOSOMAL BETA-HEXOSAMINIDASE REMARK 1 REF GENOMICS V. 3 279 1988 REMARK 1 REFN ASTM GNMCEP US ISSN 0888-7543 REMARK 1 REFERENCE 2 REMARK 1 AUTH I.TEWS REMARK 1 REF SERRATIA MARCESCENS 1996 REMARK 1 REF 2 CHITOBIASE REMARK 1 PUBL HEIDELBERG : UNIVERSITY OF HEIDELBERG (THESIS) REMARK 1 REFN GW
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1QBD COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998
REMARK 220 REMARK 220 EXPERIMENTAL DETAILS REMARK 220 EXPERIMENT TYPE : THEORETICAL MODELLING REMARK 220 REMARK 220 REMARK: NULL
REMARK 225 REMARK 225 THEORETICAL MODEL REMARK 225 THE COORDINATES IN THIS ENTRY REPRESENT A MODEL STRUCTURE. REMARK 225 PROTEIN DATA BANK CONVENTIONS REQUIRE THAT CRYST1 AND REMARK 225 SCALE RECORDS BE INCLUDED, BUT THE VALUES ON THESE REMARK 225 RECORDS ARE MEANINGLESS.
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 THR A 122 REMARK 465 GLN A 123 REMARK 465 VAL A 124 REMARK 465 GLN A 125 REMARK 465 GLN A 126 REMARK 465 LEU A 127 REMARK 465 LEU A 128 REMARK 465 VAL A 129 REMARK 465 SER A 130 REMARK 465 ILE A 131 REMARK 465 THR A 132 REMARK 465 LEU A 133 REMARK 465 GLN A 134 REMARK 465 SER A 135 REMARK 465 GLU A 136 REMARK 465 CYS A 137 REMARK 465 ASP A 138 REMARK 465 ALA A 139 REMARK 465 PHE A 140 REMARK 465 PRO A 141 REMARK 465 ASN A 142 REMARK 465 ILE A 143 REMARK 465 SER A 144 REMARK 465 SER A 145 REMARK 465 ASP A 146 REMARK 465 GLU A 147 REMARK 465 SER A 148 REMARK 465 TYR A 149 REMARK 465 THR A 150 REMARK 465 LEU A 151 REMARK 465 LEU A 152 REMARK 465 VAL A 153 REMARK 465 LYS A 154 REMARK 465 GLU A 155 REMARK 465 PRO A 156 REMARK 465 VAL A 157 REMARK 465 ALA A 158 REMARK 465 VAL A 159 REMARK 465 LEU A 160 REMARK 465 LYS A 161 REMARK 465 ALA A 162 REMARK 465 ASN A 163 REMARK 465 ARG A 164 REMARK 465 VAL A 165 REMARK 465 TRP A 166 REMARK 465 GLY A 167 REMARK 465 ALA A 168 REMARK 465 LEU A 169 REMARK 465 ARG A 170 REMARK 465 GLY A 171 REMARK 465 LEU A 172 REMARK 465 GLU A 173 REMARK 465 THR A 174 REMARK 465 PHE A 175 REMARK 465 SER A 176 REMARK 465 GLN A 177 REMARK 465 LEU A 178 REMARK 465 VAL A 179 REMARK 465 TYR A 180 REMARK 465 GLN A 181 REMARK 465 ASP A 182 REMARK 465 SER A 183 REMARK 465 TYR A 184 REMARK 465 GLY A 185 REMARK 465 THR A 186 REMARK 465 PHE A 187 REMARK 465 THR A 188 REMARK 465 ILE A 189 REMARK 465 ASN A 190 REMARK 465 GLU A 191 REMARK 465 SER A 192 REMARK 465 PHE A 376 REMARK 465 LYS A 517 REMARK 465 ASP A 518 REMARK 465 VAL A 519 REMARK 465 ARG A 520 REMARK 465 ASP A 521 REMARK 465 MET A 522 REMARK 465 ASP A 523 REMARK 465 ASP A 524 REMARK 465 ALA A 525 REMARK 465 TYR A 526 REMARK 465 ASP A 527 REMARK 465 ARG A 528 REMARK 465 LEU A 529 REMARK 465 THR A 530 REMARK 465 ARG A 531 REMARK 465 HIS A 532 REMARK 465 ARG A 533 REMARK 465 CYS A 534 REMARK 465 ARG A 535 REMARK 465 MET A 536 REMARK 465 VAL A 537 REMARK 465 GLU A 538 REMARK 465 ARG A 539 REMARK 465 GLY A 540 REMARK 465 ILE A 541 REMARK 465 ALA A 542 REMARK 465 ALA A 543 REMARK 465 GLN A 544 REMARK 465 PRO A 545 REMARK 465 LEU A 546 REMARK 465 TYR A 547 REMARK 465 ALA A 548 REMARK 465 GLY A 549 REMARK 465 TYR A 550 REMARK 465 CYS A 551 REMARK 465 ASN A 552 REMARK 465 HIS A 553 REMARK 465 GLU A 554 REMARK 465 ASN A 555 REMARK 465 MET A 556
REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI REMARK 500 O ASP A 426 CB TYR A 429 1.00 REMARK 500 O GLY A 375 O GLY A 377 1.40 REMARK 500 O ILE A 238 CD PRO A 245 1.49 REMARK 500 C ASP A 426 CB TYR A 429 1.53 REMARK 500 O THR A 419 CD PRO A 442 1.55 REMARK 500 O SER A 427 N TYR A 429 1.70 REMARK 500 O THR A 496 CD PRO A 500 1.73 REMARK 500 O SER A 259 CB SER A 263 1.83 REMARK 500 O ASP A 426 CA TYR A 429 1.95 REMARK 500 O ALA A 447 N TRP A 449 1.96 REMARK 500 N SER A 427 CB TYR A 429 2.05 REMARK 500 O ILE A 238 CG PRO A 245 2.06 REMARK 500 CH2 TRP A 298 CB ILE A 322 2.10 REMARK 500 O SER A 259 OG SER A 263 2.12 REMARK 500 O GLY A 375 N GLY A 377 2.13 REMARK 500 O THR A 295 CE3 TRP A 298 2.15 REMARK 500 CB GLN A 302 OD2 ASP A 304 2.19 REMARK 500 O GLY A 375 C GLY A 377 2.19 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),F6.3) REMARK 500 REMARK 500 EXPECTED VALUES: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 THR A 291 C PRO A 292 N -0.213 REMARK 500 PHE A 358 CA PHE A 358 CB -0.103 REMARK 500 TRP A 503 C PRO A 504 N -0.214 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: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 THR A 291 CA - C - N ANGL. DEV. =-25.8 DEGREES REMARK 500 PRO A 292 C - N - CA ANGL. DEV. =-65.7 DEGREES REMARK 500 PRO A 292 C - N - CD ANGL. DEV. =-57.5 DEGREES REMARK 500 PHE A 358 CB - CA - C ANGL. DEV. =-31.8 DEGREES REMARK 500 ALA A 428 C - N - CA ANGL. DEV. =-23.6 DEGREES REMARK 500 TRP A 503 CA - C - N ANGL. DEV. =-27.2 DEGREES REMARK 500 PRO A 504 C - N - CA ANGL. DEV. =-65.3 DEGREES REMARK 500 PRO A 504 C - N - CD ANGL. DEV. =-61.9 DEGREES 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 M RES CSSEQI PSI PHI REMARK 500 LEU A 262 128.12 69.41 REMARK 500 TYR A 429 18.45 143.36 REMARK 500 THR A 474 143.36 116.68 REMARK 500 LEU A 480 146.48 112.19 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 GLN A 302 LYS A 303 66.50 REMARK 500 LEU A 316 ASP A 317 70.25 REMARK 500 PHE A 358 LYS A 359 38.66 REMARK 500 ALA A 428 TYR A 429 -63.18 REMARK 500 PRO A 448 TRP A 449 36.28 REMARK 500 TYR A 492 VAL A 493 49.57
REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET PRESENTED AS BAB ON SHEET RECORDS BELOW IS REMARK 700 ACTUALLY AN 8-STRANDED BETA-BARREL. THIS IS REMARK 700 REPRESENTED BY A 9-STRANDED SHEET IN WHICH THE FIRST AND REMARK 700 LAST STRANDS ARE IDENTICAL.
REMARK 850 REMARK 850 CORRECTION BEFORE RELEASE REMARK 850 ORIGINAL DEPOSITION REVISED PRIOR TO RELEASE REMARK 850 DATE REVISED: 17-SEP-1996 TRACKING NUMBER: T8857
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 1QBA,1QBB AND 1QBC
REMARK 999 REMARK 999 SEQUENCE REMARK 999 1QBD SWS P07686 1 - 192 NOT IN ATOMS LIST REMARK 999 1QBD SWS P07686 517 - 556 NOT IN ATOMS LIST REMARK 999 REMARK 999 NUMBERING OF AMINO ACIDS IS CONSISTENT WITH THE PUBLISHED REMARK 999 PRIMARY SEQUENCE OF HEXOSAMINIDASE BETA CHAIN.
DBREF 1QBD A 122 556 UNP P07686 HEXB_HUMAN 122 556
SEQRES 1 A 435 THR GLN VAL GLN GLN LEU LEU VAL SER ILE THR LEU GLN SEQRES 2 A 435 SER GLU CYS ASP ALA PHE PRO ASN ILE SER SER ASP GLU SEQRES 3 A 435 SER TYR THR LEU LEU VAL LYS GLU PRO VAL ALA VAL LEU SEQRES 4 A 435 LYS ALA ASN ARG VAL TRP GLY ALA LEU ARG GLY LEU GLU SEQRES 5 A 435 THR PHE SER GLN LEU VAL TYR GLN ASP SER TYR GLY THR SEQRES 6 A 435 PHE THR ILE ASN GLU SER THR ILE ILE ASP SER PRO ARG SEQRES 7 A 435 PHE SER HIS ARG GLY ILE LEU ILE ASP THR SER ARG HIS SEQRES 8 A 435 TYR LEU PRO VAL LYS ILE ILE LEU LYS THR LEU ASP ALA SEQRES 9 A 435 MET ALA PHE ASN LYS PHE ASN VAL LEU HIS TRP HIS ILE SEQRES 10 A 435 VAL ASP ASP GLN SER PHE PRO TYR GLN SER ILE THR PHE SEQRES 11 A 435 PRO GLU LEU SER ASN LYS GLY SER TYR SER LEU SER HIS SEQRES 12 A 435 VAL TYR THR PRO ASN ASP VAL ARG MET VAL ILE GLU TYR SEQRES 13 A 435 ALA ARG LEU ARG GLY ILE ARG VAL LEU PRO GLU PHE ASP SEQRES 14 A 435 THR PRO GLY HIS THR LEU SER TRP GLY LYS GLY GLN LYS SEQRES 15 A 435 ASP LEU LEU THR PRO CYS TYR SER ARG GLN ASN LYS LEU SEQRES 16 A 435 ASP SER PHE GLY PRO ILE ASN PRO THR LEU ASN THR THR SEQRES 17 A 435 TYR SER PHE LEU THR THR PHE PHE LYS GLU ILE SER GLU SEQRES 18 A 435 VAL PHE PRO ASP GLN PHE ILE HIS LEU GLY GLY ASP GLU SEQRES 19 A 435 VAL GLU PHE LYS CYS TRP GLU SER ASN PRO LYS ILE GLN SEQRES 20 A 435 ASP PHE MET ARG GLN LYS GLY PHE GLY THR ASP PHE LYS SEQRES 21 A 435 LYS LEU GLU SER PHE TYR ILE GLN LYS VAL LEU ASP ILE SEQRES 22 A 435 ILE ALA THR ILE ASN LYS GLY SER ILE VAL TRP GLN GLU SEQRES 23 A 435 VAL PHE ASP ASP LYS ALA LYS LEU ALA PRO GLY THR ILE SEQRES 24 A 435 VAL GLU VAL TRP LYS ASP SER ALA TYR PRO GLU GLU LEU SEQRES 25 A 435 SER ARG VAL THR ALA SER GLY PHE PRO VAL ILE LEU SER SEQRES 26 A 435 ALA PRO TRP TYR LEU ASP LEU ILE SER TYR GLY GLN ASP SEQRES 27 A 435 TRP ARG LYS TYR TYR LYS VAL GLU PRO LEU ASP PHE GLY SEQRES 28 A 435 GLY THR GLN LYS GLN LYS GLN LEU PHE ILE GLY GLY GLU SEQRES 29 A 435 ALA CYS LEU TRP GLY GLU TYR VAL ASP ALA THR ASN LEU SEQRES 30 A 435 THR PRO ARG LEU TRP PRO ARG ALA SER ALA VAL GLY GLU SEQRES 31 A 435 ARG LEU TRP SER SER LYS ASP VAL ARG ASP MET ASP ASP SEQRES 32 A 435 ALA TYR ASP ARG LEU THR ARG HIS ARG CYS ARG MET VAL SEQRES 33 A 435 GLU ARG GLY ILE ALA ALA GLN PRO LEU TYR ALA GLY TYR SEQRES 34 A 435 CYS ASN HIS GLU ASN MET
HELIX 1 A1 VAL A 216 PHE A 228 1B/A-BARREL HELIX ALPHA-1 13 HELIX 2 L21 PRO A 252 ASN A 256 1LOOP-2 HELIX-1 5 HELIX 3 A2 ASN A 269 ARG A 281 1B/A-BARREL HELIX ALPHA-2 13 HELIX 4 L31 LEU A 296 GLY A 299 1LOOP-3 HELIX-1 4 HELIX 5 A3 ASN A 327 VAL A 343 1B/A-BARREL HELIX ALPHA-3 17 HELIX 6 L41 PRO A 365 ARG A 372 1LOOP-4 HELIX-1 8 HELIX 7 A4 LYS A 382 ILE A 398 1B/A BARREL HELIX ALPHA-4 17 HELIX 8 L51 GLN A 406 ASP A 410 5LOOP-5 HELIX-1 5 HELIX 9 A5 GLU A 431 SER A 439 1B/A BARREL HELIX ALPHA-5 9 HELIX 10 L71 TRP A 460 LYS A 465 1LOOP-7 HELIX-1 6 HELIX 11 A8A ALA A 495 LEU A 502 1B/A BARREL HELIX ALPHA-8A 8 HELIX 12 A8B ARG A 505 TRP A 514 1B/A BARREL HELIX ALPHA-8B 10
SHEET 1 BAB 9 ARG A 203 ASP A 208 0 SHEET 2 BAB 9 VAL A 233 HIS A 237 1 N VAL A 233 O ARG A 203 SHEET 3 BAB 9 ARG A 284 GLU A 288 1 N LEU A 286 O LEU A 234 SHEET 4 BAB 9 HIS A 350 GLY A 352 1 N HIS A 350 O PRO A 287 SHEET 5 BAB 9 SER A 402 TRP A 405 1 N TRP A 405 O GLY A 352 SHEET 6 BAB 9 ILE A 420 VAL A 423 1 N ILE A 420 O SER A 402 SHEET 7 BAB 9 PRO A 442 LEU A 445 1 N ILE A 444 O VAL A 421 SHEET 8 BAB 9 GLY A 483 LEU A 488 1 N GLY A 483 O VAL A 443 SHEET 9 BAB 9 ARG A 203 ASP A 208 1
CISPEP 1 SER A 261 LEU A 262 0 -29.34 CISPEP 2 THR A 291 PRO A 292 0 19.37 CISPEP 3 PHE A 344 PRO A 345 0 22.84 CISPEP 4 GLY A 401 SER A 402 0 -10.79 CISPEP 5 ALA A 416 PRO A 417 0 1.84 CISPEP 6 GLY A 490 GLU A 491 0 25.52 CISPEP 7 TRP A 503 PRO A 504 0 13.67
CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1
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 1.000000 0.000000 0.000000 0.00000
SCALE2 0.000000 1.000000 0.000000 0.00000
SCALE3 0.000000 0.000000 1.000000 0.00000