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(-) Description

Title :  HEXOSAMINIDASE ALPHA CHAIN, GLYCOSYL HYDROLASE FAMILY 20, THEORETICAL MODEL
 
Authors :  I. Tews, A. Perrakis, A. Oppenheim, Z. Dauter, K. S. Wilson, C. E. Vorgias
Date :  07 Jun 96  (Deposition) - 11 Jan 97  (Release) - 11 Jan 97  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A
Keywords :  Glycosyl Hydrolase, Hexosaminidase, Tay-Sachs Disease, Ba8- Barrel (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  I. Tews, A. Perrakis, A. Oppenheim, Z. Dauter, K. S. Wilson, C. E. Vorgias
Bacterial Chitobiase Structure Provides Insight Into Catalytic Mechanism And The Basis Of Tay-Sachs Disease.
Nat. Struct. Biol. V. 3 638 1996
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HEXOSAMINIDASE
    ChainsA
    EC Number3.2.1.30
    FragmentALPHA CHAIN
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS

 Structural Features

(-) Chains, Units

  
Theoretical Model 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1QBC)

(-) Sites  (0, 0)

(no "Site" information available for 1QBC)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1QBC)

(-) Cis Peptide Bonds  (4, 4)

Theoretical Model
No.Residues
1Thr A:259 -Pro A:260
2Gly A:369 -Tyr A:370
3Gln A:384 -Pro A:385
4Trp A:474 -Pro A:475

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (45, 45)

Theoretical Model (45, 45)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
01UniProtVAR_003205R166GHEXA_HUMANDisease (GM2G1)  ---AR166G
02UniProtVAR_003206R170QHEXA_HUMANDisease (GM2G1)121907957AR170Q
03UniProtVAR_003207R170WHEXA_HUMANDisease (GM2G1)121907972AR170W
04UniProtVAR_003208R178CHEXA_HUMANDisease (GM2G1)121907953AR178C
05UniProtVAR_003209R178HHEXA_HUMANDisease (GM2G1)28941770AR178H
06UniProtVAR_003210R178LHEXA_HUMANDisease (GM2G1)28941770AR178L
07UniProtVAR_003211Y180HHEXA_HUMANDisease (GM2G1)28941771AY180H
08UniProtVAR_003212V192LHEXA_HUMANDisease (GM2G1)387906310AV192L
09UniProtVAR_003213N196SHEXA_HUMANDisease (GM2G1)753862880AN196S
10UniProtVAR_003214K197THEXA_HUMANDisease (GM2G1)121907973AK197T
11UniProtVAR_003215V200MHEXA_HUMANDisease (GM2G1)1800429AV200M
12UniProtVAR_003216H204RHEXA_HUMANDisease (GM2G1)121907976AH204R
13UniProtVAR_003217S210FHEXA_HUMANDisease (GM2G1)121907961AS210F
14UniProtVAR_003218F211SHEXA_HUMANDisease (GM2G1)121907974AF211S
15UniProtVAR_022440S226FHEXA_HUMANDisease (GM2G1)769866128AS226F
16UniProtVAR_003219R247WHEXA_HUMANPolymorphism121907970AR247W
17UniProtVAR_003220R249WHEXA_HUMANPolymorphism138058578AR249W
18UniProtVAR_003221G250DHEXA_HUMANDisease (GM2G1)121907959AG250D
19UniProtVAR_003222G250SHEXA_HUMANDisease (GM2G1)  ---AG250S
20UniProtVAR_003223R252HHEXA_HUMANDisease (GM2G1)762255098AR252H
21UniProtVAR_017188R252LHEXA_HUMANDisease (GM2G1)  ---AR252L
22UniProtVAR_003224D258HHEXA_HUMANDisease (GM2G1)121907971AD258H
23UniProtVAR_022441G269DHEXA_HUMANDisease (GM2G1)  ---AG269D
24UniProtVAR_003225G269SHEXA_HUMANDisease (GM2G1)121907954AG269S
25UniProtVAR_003226S279PHEXA_HUMANDisease (GM2G1)  ---AS279P
26UniProtVAR_058477S293IHEXA_HUMANPolymorphism1054374AS293I
27UniProtVAR_017189N295SHEXA_HUMANDisease (GM2G1)199578185AN295S
28UniProtVAR_003227M301RHEXA_HUMANDisease (GM2G1)121907977AM301R
29UniProtVAR_022442D314VHEXA_HUMANDisease (GM2G1)  ---AD314V
30UniProtVAR_077498D322NHEXA_HUMANDisease (GM2G1)  ---AD322N
31UniProtVAR_077499D322YHEXA_HUMANDisease (GM2G1)772180415AD322Y
32UniProtVAR_003230I335FHEXA_HUMANDisease (GM2G1)  ---AI335F
33UniProtVAR_003232V391MHEXA_HUMANDisease (GM2G1)  ---AV391M
34UniProtVAR_077500R393PHEXA_HUMANDisease (GM2G1)  ---AR393P
35UniProtVAR_003234W420CHEXA_HUMANDisease (GM2G1)121907958AW420C
36UniProtVAR_003235I436VHEXA_HUMANPolymorphism1800431AV436V
37UniProtVAR_003236G454SHEXA_HUMANDisease (GM2G1)121907978AG454S
38UniProtVAR_003237G455RHEXA_HUMANDisease (GM2G1)  ---AG455R
39UniProtVAR_003238C458YHEXA_HUMANDisease (GM2G1)  ---AC458Y
40UniProtVAR_077501E462VHEXA_HUMANDisease (GM2G1)863225434AE462V
41UniProtVAR_003239W474CHEXA_HUMANDisease (GM2G1)121907981AW474C
42UniProtVAR_077502G478RHEXA_HUMANDisease (GM2G1)  ---AG478R
43UniProtVAR_003240E482KHEXA_HUMANDisease (GM2G1)121907952AE482K
44UniProtVAR_003241L484QHEXA_HUMANDisease (GM2G1)  ---AL484Q
45UniProtVAR_003242W485RHEXA_HUMANDisease (GM2G1)121907968AW485R

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1QBC)

(-) Exons   (9, 9)

Theoretical Model (9, 9)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000002680971aENSE00001945618chr15:72668817-72668061757HEXA_HUMAN1-85850--
1.2bENST000002680972bENSE00001631603chr15:72648958-7264886693HEXA_HUMAN85-116320--
1.3ENST000002680973ENSE00001630774chr15:72647965-7264790066HEXA_HUMAN116-138230--
1.4ENST000002680974ENSE00001027559chr15:72646078-7264603247HEXA_HUMAN138-153160--
1.5ENST000002680975ENSE00001027552chr15:72645519-72645409111HEXA_HUMAN154-190371A:160-19031
1.6ENST000002680976ENSE00001027556chr15:72643575-72643474102HEXA_HUMAN191-224341A:191-22434
1.7ENST000002680977ENSE00001027553chr15:72642991-72642859133HEXA_HUMAN225-269451A:225-26945
1.8ENST000002680978ENSE00001027550chr15:72641600-72641420181HEXA_HUMAN269-329611A:269-32961
1.9ENST000002680979ENSE00001694348chr15:72640475-7264038987HEXA_HUMAN329-358301A:329-358 (gaps)30
1.10ENST0000026809710ENSE00001637244chr15:72640099-7264002773HEXA_HUMAN358-382251A:358-38225
1.11ENST0000026809711ENSE00001677789chr15:72639051-72638868184HEXA_HUMAN383-444621A:383-444 (gaps)62
1.12ENST0000026809712ENSE00001725825chr15:72638666-7263857691HEXA_HUMAN444-474311A:444-47431
1.13ENST0000026809713ENSE00001646126chr15:72637891-72637787105HEXA_HUMAN474-509361A:474-48714
1.14bENST0000026809714bENSE00001826978chr15:72636481-72635775707HEXA_HUMAN509-529210--

(-) Sequences/Alignments

Theoretical Model
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:326
 aligned with HEXA_HUMAN | P06865 from UniProtKB/Swiss-Prot  Length:529

    Alignment length:328
                                   169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479        
           HEXA_HUMAN   160 EIEDFPRFPHRGLLLDTSRHYLPLSSILDTLDVMAYNKLNVFHWHLVDDPSFPYESFTFPELMRKGSYNPVTHIYTAQDVKEVIEYARLRGIRVLAEFDTPGHTLSWGPGIPGLLTPCYSGSEPSGTFGPVNPSLNNTYEFMSTFFLEVSSVFPDFYLHLGGDEVDFTCWKSNPEIQDFMRKKGFGEDFKQLESFYIQTLLDIVSSYGKGYVVWQEVFDNKVKIQPDTIIQVWREDIPVNYMKELELVTKAGFRALLSAPWYLNRISYGPDWKDFYIVEPLAFEGTPEQKALVIGGEACMWGEYVDNTNLVPRLWPRAGAVAERLWSN 487
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeeeee.......hhhhhhhhhhhhh....eeeee..............hhhhh............hhhhhhhhhhhhh...eeeee.......hhhh...........................hhhhhhhhhhhhhhhhh......eee............hhhhhhhh...-.....hhhhhhhhhhhhhhhhh...eeeehhhhh.........eeee.......-hhhhhhhhhhh..eeee..............hhhhhh.................eeeeee......hhhhhhhh..hhhhhhhhhh.. Sec.struct. author
             SAPs(SNPs) (1) ------G---Q-------C-H-----------L---ST--M---R-----FS--------------F--------------------W-WD-H-----H----------D---------P-------------I-S-----R------------V-------N------------F-------------------------------------------------------M-P--------------------------C---------------V-----------------SR--Y---V-----------C---R---K-QR-- SAPs(SNPs) (1)
             SAPs(SNPs) (2) ----------W-------H-----------------------------------------------------------------------S-L----------------S----------------------------------------------------Y--------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs) (2)
             SAPs(SNPs) (3) ------------------L--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs) (3)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.5  PDB: A:160-190       Exon 1.6  PDB: A:191-224          Exon 1.7  PDB: A:225-269 UniProt: 225-269    ----------------------------------------------------------------------------------------Exon 1.10  PDB: A:358-382Exon 1.11  PDB: A:383-444 (gaps) UniProt: 383-444             -----------------------------Exon 1.13      Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------------------------------------------------------Exon 1.8  PDB: A:269-329 UniProt: 269-329                    ------------------------------------------------------------------------------------------------------------------Exon 1.12  PDB: A:444-474      ------------- Transcript 1 (2)
           Transcript 1 (3) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.9  PDB: A:329-358 (gaps--------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (3)
                 1qbc A 160 EIEDFPRFPHRGLLLDTSRHYLPLSSILDTLDVMAYNKLNVFHWHLVDDPSFPYESFTFPELMRKGSYNPVTHIYTAQDVKEVIEYARLRGIRVLAEFDTPGHTLSWGPGIPGLLTPCYSGSEPSGTFGPVNPSLNNTYEFMSTFFLEVSSVFPDFYLHLGGDEVDFTCWKSNPEIQDFMRKKG-GEDFKQLESFYIQTLLDIVSSYGKGYVVWQEVFDNKVKIQPDTIIQVWREDIPV-YMKELELVTKAGFRALLSAPWYLNRISYGPDWKDFYVVEPLAFEGTPEQKALVIGGEACMWGEYVDNTNLVPRLWPRAGAVAERLWSN 487
                                   169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339   | | 349       359       369       379       389        |-|      409       419       429       439       449       459       469       479        
                                                                                                                                                                                                                 343 |                                                  398 |                                                                                       
                                                                                                                                                                                                                   345                                                    400                                                                                       

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 1QBC)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1QBC)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1QBC)

(-) Gene Ontology  (18, 18)

Theoretical Model(hide GO term definitions)
Chain A   (HEXA_HUMAN | P06865)
molecular function
    GO:0008375    acetylglucosaminyltransferase activity    Catalysis of the transfer of an N-acetylglucosaminyl residue from UDP-N-acetyl-glucosamine to a sugar.
    GO:0004563    beta-N-acetylhexosaminidase activity    Catalysis of the hydrolysis of terminal non-reducing N-acetyl-D-hexosamine residues in N-acetyl-beta-D-hexosaminides.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0016798    hydrolase activity, acting on glycosyl bonds    Catalysis of the hydrolysis of any glycosyl bond.
    GO:0004553    hydrolase activity, hydrolyzing O-glycosyl compounds    Catalysis of the hydrolysis of any O-glycosyl bond.
    GO:0046982    protein heterodimerization activity    Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
biological process
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
    GO:0030207    chondroitin sulfate catabolic process    The chemical reactions and pathways resulting in the breakdown of chondroitin sulfate, any member of a group of 10-60 kDa glycosaminoglycans, widely distributed in cartilage and other mammalian connective tissues, the repeat units of which consist of beta-(1,4)-linked D-glucuronyl beta-(1,3)-N-acetyl-D-galactosamine sulfate.
    GO:0006024    glycosaminoglycan biosynthetic process    The chemical reactions and pathways resulting in the formation of glycosaminoglycans, any of a group of polysaccharides that contain amino sugars.
    GO:0006687    glycosphingolipid metabolic process    The chemical reactions and pathways involving glycosphingolipids, any compound with residues of sphingoid and at least one monosaccharide.
    GO:0030214    hyaluronan catabolic process    The chemical reactions and pathways resulting in the breakdown of hyaluronan, the naturally occurring anionic form of hyaluronic acid, any member of a group of glycosaminoglycans, the repeat units of which consist of beta-1,4 linked D-glucuronyl-beta-(1,3)-N-acetyl-D-glucosamine.
    GO:0042340    keratan sulfate catabolic process    The chemical reactions and pathways resulting in the breakdown of keratan sulfate, a glycosaminoglycan with repeat units consisting of beta-1,4-linked D-galactopyranosyl-beta-(1,4)-N-acetyl-D-glucosamine 6-sulfate and with variable amounts of fucose, sialic acid and mannose units; keratan sulfate chains are covalently linked by a glycosidic attachment through the trisaccharide galactosyl-galactosyl-xylose to peptidyl-threonine or serine residues.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
cellular component
    GO:0042582    azurophil granule    Primary lysosomal granule found in neutrophil granulocytes. Contains a wide range of hydrolytic enzymes and is released into the extracellular fluid.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0043202    lysosomal lumen    The volume enclosed within the lysosomal membrane.
    GO:0005764    lysosome    A small lytic vacuole that has cell cycle-independent morphology and is found in most animal cells and that contains a variety of hydrolases, most of which have their maximal activities in the pH range 5-6. The contained enzymes display latency if properly isolated. About 40 different lysosomal hydrolases are known and lysosomes have a great variety of morphologies and functions.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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    Gln A:384 - Pro A:385   [ RasMol ]  
    Gly A:369 - Tyr A:370   [ RasMol ]  
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        HEXA_HUMAN | P068652gjx 2gk1

(-) Related Entries Specified in the PDB File

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