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(-) Description

Title :  STRUCTURE OF DIGESTIVE PROCATHEPSIN L 3 OF TENEBRIO MOLITOR LARVAL MIDGUT
 
Authors :  D. Beton, C. R. Guzzo, W. R. Terra, C. S. Farah
Date :  22 Feb 11  (Deposition) - 22 Feb 12  (Release) - 22 Aug 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.11
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, Cysteine Proteinase, Zymogen, Intramolecular Dissulphide Bonds, Insect Larval Midgut (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  D. Beton, C. R. Guzzo, A. F. Ribeiro, C. S. Farah, W. R. Terra
The 3D Structure And Function Of Digestive Cathepsin L-Like Proteinases Of Tenebrio Molitor Larval Midgut.
Insect Biochem. Mol. Biol. V. 42 655 2012
PubMed-ID: 22659439  |  Reference-DOI: 10.1016/J.IBMB.2012.04.010

(-) Compounds

Molecule 1 - CATHEPSIN-L-LIKE MIDGUT CYSTEINE PROTEINASE
    ChainsA
    EC Number3.4.22.15
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPAE
    Expression System StrainORIGAMI B (D3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GenePCAL3
    MutationYES
    Organism CommonYELLOW MEALWORM BEETLE
    Organism ScientificTENEBRIO MOLITOR
    Organism Taxid7067

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 19)

Asymmetric/Biological Unit (3, 19)
No.NameCountTypeFull Name
1PG47Ligand/IonTETRAETHYLENE GLYCOL
2PG62Ligand/Ion1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-METHOXY-ETHOXY]-ETHOXY}-ETHANE
3PO410Ligand/IonPHOSPHATE ION

(-) Sites  (19, 19)

Asymmetric Unit (19, 19)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR A:73 , VAL A:74 , GLY A:77 , GLN A:116 , GLY A:120 , SER A:121 , SER A:122 , ASN A:258 , HIS A:259 , HOH A:504 , HOH A:662BINDING SITE FOR RESIDUE PO4 A 401
02AC2SOFTWAREVAL A:103 , ASP A:104 , TRP A:105 , HOH A:511BINDING SITE FOR RESIDUE PO4 A 402
03AC3SOFTWAREARG A:76 , CYS A:162 , GLN A:190 , GLY A:191 , HOH A:557 , HOH A:750BINDING SITE FOR RESIDUE PO4 A 403
04AC4SOFTWAREPHE A:48 , GLU A:49BINDING SITE FOR RESIDUE PO4 A 404
05AC5SOFTWAREHIS A:44 , LYS A:47 , TYR A:55 , GLU A:238 , GLN A:250 , HOH A:512 , HOH A:758BINDING SITE FOR RESIDUE PO4 A 405
06AC6SOFTWARETHR A:16 , HIS A:17 , LYS A:18 , GLN A:61 , HOH A:602 , HOH A:681 , HOH A:687BINDING SITE FOR RESIDUE PO4 A 406
07AC7SOFTWARELYS A:18 , HOH A:729 , HOH A:753BINDING SITE FOR RESIDUE PO4 A 407
08AC8SOFTWARETYR A:157 , ASP A:176 , HOH A:627BINDING SITE FOR RESIDUE PO4 A 408
09AC9SOFTWAREGLY A:191 , ASP A:192 , TYR A:193 , HOH A:589 , HOH A:703BINDING SITE FOR RESIDUE PO4 A 409
10BC1SOFTWARETYR A:21 , SER A:22 , GLU A:26 , ARG A:30 , PG6 A:419BINDING SITE FOR RESIDUE PO4 A 410
11BC2SOFTWARESER A:213 , GLY A:214 , TYR A:248 , GLN A:272 , TYR A:297 , HOH A:608 , HOH A:620BINDING SITE FOR RESIDUE PG4 A 411
12BC3SOFTWARESER A:66 , GLU A:68 , GLU A:69 , ALA A:72 , LYS A:97 , HOH A:571BINDING SITE FOR RESIDUE PG4 A 412
13BC4SOFTWAREGLY A:77 , LYS A:78 , ALA A:79 , SER A:122 , TRP A:123 , TRP A:166 , LEU A:257 , ASN A:258 , GLY A:260 , HOH A:504BINDING SITE FOR RESIDUE PG4 A 413
14BC5SOFTWAREASP A:115 , GLY A:117 , TYR A:187BINDING SITE FOR RESIDUE PG4 A 414
15BC6SOFTWAREGLN A:12 , PHE A:13 , HIS A:17 , MET A:59 , ASN A:60 , HOH A:569 , HOH A:580 , HOH A:603 , HOH A:653BINDING SITE FOR RESIDUE PG4 A 415
16BC7SOFTWAREGLN A:200BINDING SITE FOR RESIDUE PG4 A 416
17BC8SOFTWAREPHE A:6 , LYS A:35 , VAL A:38 , ALA A:39 , ALA A:42 , HOH A:572 , HOH A:612BINDING SITE FOR RESIDUE PG4 A 417
18BC9SOFTWARELYS A:3 , SER A:4 , GLU A:8 , ASP A:176 , TYR A:177 , ASP A:197 , SER A:198 , HOH A:527BINDING SITE FOR RESIDUE PG6 A 418
19CC1SOFTWARELYS A:19 , ARG A:30 , GLN A:61 , ASP A:64 , MET A:65 , GLU A:69 , TYR A:73 , GLY A:117 , GLN A:118 , PO4 A:410BINDING SITE FOR RESIDUE PG6 A 419

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1A:119 -A:162
2A:153 -A:194
3A:252 -A:301

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3QT4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3QT4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3QT4)

(-) Exons   (0, 0)

(no "Exon" information available for 3QT4)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   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:304
 aligned with Q7YXL2_TENMO | Q7YXL2 from UniProtKB/TrEMBL  Length:330

    Alignment length:310
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330
         Q7YXL2_TENMO    21 KSLFQEQWSQFKLTHKKSYSSPIEEIRRQLIFKDNVAKIAEHNAKFEKGEVTYSKAMNQFGDMSKEEFLAYVNRGKAQKPKHPENLRMPYVSSKKPLAASVDWRSNAVSEVKDQGQCGSCWSFSTTGAVEGQLALQRGRLTSLSEQNLIDCSSSYGNAGCDGGWMDSAFSYIHDYGIMSESAYPYEAQGDYCRFDSSQSVTTLSGYYDLPSGDENSLADAVGQAGPVAVAIDATDELQFYSGGLFYDQTCNQSDLNHGVLVVGYGSDNGQDYWILKNSWGSGWGESGYWRQVRNYGNNCGIATAASYPAL 330
               SCOP domains d3qt4a_ A: automated matches                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh....eee..hhhhhhhhhhhhhhhhhh...------..eee...........ee................hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh.hhhhh.hhhhhhhhhhhh...................hhhhh.....eeee....hhhhhhhhhhhh..eeeee..hhhhh.eeeeee...........eeeeeeeeeee..eeeeeee...........eeeee....hhhhh....eeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qt4 A   3 KSLFQEQWSQFKLTHKKSYSSPIEEIRRQLIFKDNVAKIAEHNAKFEKGEVTYSKAMNQFGDMSKEEFLAYVNRGKAQ------NLRMPYVSSKKPLAASVDWRSNAVSEVKDQGQCGSSWSFSTTGAVEGQLALQRGRLTSLSEQNLIDCSSSYGNAGCDGGWMDSAFSYIHDYGIMSESAYPYEAQGDYCRFDSSQSVTTLSGYYDLPSGDENSLADAVGQAGPVAVAIDATDELQFYSGGLFYDQTCNQSDLNHGVLVVGYGSDNGQDYWILKNSWGSGWGESGYWRQVRNYGNNCGIATAASYPAL 312
                                    12        22        32        42        52        62        72       | -    |   92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312
                                                                                                        80     87                                                                                                                                                                                                                                 

   Legend:   → Mismatch (orange background)
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  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  (1, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3QT4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3QT4)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q7YXL2_TENMO | Q7YXL2)
molecular function
    GO:0008234    cysteine-type peptidase activity    Catalysis of the hydrolysis of peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile.
biological process
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

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3qj3 PROCATHEPSIN L 2 FROM TENEBRIO MOLITOR LARVAL MIDGUT