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(-) Description

Title :  CRYSTAL STRUCTURE OF DEG8
 
Authors :  W. Gong, W. Sun, H. Fan, F. Gao, L. Liu
Date :  10 Dec 12  (Deposition) - 01 May 13  (Release) - 26 Jun 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B,C  (2x)
Keywords :  Beta-Barrel, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. Sun, F. Gao, H. Fan, X. Shan, R. Sun, L. Liu, W. Gong
The Structures Of Arabidopsis Deg5 And Deg8 Reveal New Insights Into Htra Proteases
Acta Crystallogr. , Sect. D V. 69 830 2013
PubMed-ID: 23633592  |  Reference-DOI: 10.1107/S0907444913002023

(-) Compounds

Molecule 1 - PROTEASE DO-LIKE 8, CHLOROPLASTIC
    Chains: A, B, C
    EC Number: 3.4.21.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 91-448
    Gene: DEGP8, AT5G39830, K13H13.1
    Mutation: YES
    Organism Common: MOUSE-EAR CRESS,THALE-CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (2x): ABC

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 4IC6)

(-) Sites  (0, 0)

(no "Site" information available for 4IC6)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4IC6)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4IC6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4IC6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4IC6)

(-) Exons   (0, 0)

(no "Exon" information available for 4IC6)

(-) Sequences/Alignments

Asymmetric 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:340
                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee.....hhhhhhhhhhhhhhhh.eeeeee.......eeeee.....eeeehhhhhhhhhhh......eeeeeeee.....eeeeeeeeeeee....eeeee..............hhhhh....eeeeee.......eeeeeeeeeeeeeee.....eeeeeeee...........eeee....eeeee.............eeeeehhhhhhhhhhhhhhh....ee...ee.hhhhhhhh.....eeeee....hhhhhhh................eeeee..ee..hhhhhhhhhh......eeeeeeee..eeeeeeee.ee.......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ic6 A 104 PTVFPAGPLFPTEGRIVQLFEKNTYSVVNIFDVTLRPGNGSGVVWDGQGYIVTNYHVIGNALSRNPSPGDVVGRVNILASDGVQKNFEGKLVGADRAKDLAVLKVDAPETLLKPIKVGQSNSLKVGQQCLAIGNPFGFDHTLTVGVISGLNRDIFSQTGVTIGGGIQTDAAINPGNAGGPLLDSKGNLIGINTAIFTQTGTSAGVGFAIPSSTVLKIVPQLIQFSKVLRAGINIELAPDPVANQLNVRNGALVLQVPGKSLAEKAGLHPTSRGFAGNIVLGDIIVAVDDKPVKNKAELMKILDEYSVGDKVTLKIKRGNEDLELKISLEEKSSLEHHHHH 455
                                   113       123       133      |155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455
                                                              140|                                                                                                                                                                                                                                                                                                              
                                                               153                                                                                                                                                                                                                                                                                                              


Chain B from PDB  Type:PROTEIN  Length:339
                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhhhhhhhh.eeeeee..........eeeee.....eeee.hhhhhhhhh.......eeeeeeee.....eeeeeeeeeeeehhhheeeee............ee.hhhh....eeeeee.......eeeeeeeeeeeeeee.....eeeeeeee...........eee.....eeeeee............eeeeehhhhhhhhhhhhhhh....ee...ee.hhhhhhhh.....eeeee....hhhhhhh....ee.....ee...eeeee..ee..hhhhhhhhhh......eeeeeee.....eeeeee.ee...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ic6 B 104 PTVFPAGPLFPTEGRIVQLFEKNTYSVVNIFDVTLRPQLKGNGSGVVWDGQGYIVTNYHVIGNALSRNPSPGDVVGRVNILASDGVQKNFEGKLVGADRAKDLAVLKVDAPETLLKPIKVGQSNSLKVGQQCLAIGNPFGFDHTLTVGVISGLNRDIFSQTGVTIGGGIQTDAAINPGNAGGPLLDSKGNLIGINTAIFTQTGTSAGVGFAIPSSTVLKIVPQLIQFSKVLRAGINIELAPDPVANQLNVRNGALVLQVPGKSLAEKAGLHPTSRGFAGNIVLGDIIVAVDDKPVKNKAELMKILDEYSVGDKVTLKIKRGNEDLELKISLEEKEHHHH 454
                                   113       123       133       143|      162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442   ||    
                                                                 143|                                                                                                                                                                                                                                                                                                  446|    
                                                                  153                                                                                                                                                                                                                                                                                                   450    


Chain C from PDB  Type:PROTEIN  Length:335
                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhh.eeeeee........eeeee.....eeeehhhhhhhhhhh......eeeeeeee.....eeeeeeeeeeeehhhheeeee..............hhhhh....eeeeee.......eeeeeeeeeeeeeee.....eeeeeeee...........eee.....eeeeee............eeeeehhhhhhhhhhhhhhh.........ee.hhhhhhhh.....eeeee....hhhhhhh....ee.....ee...eeeee..ee..hhhhhhhhhh......eeeeeee.....eeeeee............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ic6 C 110 GPLFPTEGRIVQLFEKNTYSVVNIFDVTLRPQGNGSGVVWDGQGYIVTNYHVIGNALSRNPSPGDVVGRVNILASDGVQKNFEGKLVGADRAKDLAVLKVDAPETLLKPIKVGQSNSLKVGQQCLAIGNPFGFDHTLTVGVISGLNRDIFSQTGVTIGGGIQTDAAINPGNAGGPLLDSKGNLIGINTAIFTQTGTSAGVGFAIPSSTVLKIVPQLIQFSKVLRAGINIELAPDPVANQLNVRNGALVLQVPGKSLAEKAGLHPTSRGFAGNIVLGDIIVAVDDKPVKNKAELMKILDEYSVGDKVTLKIKRGNEDLELKISLEEKSSLEHHHHH 455
                                   119       129       139 ||    160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450     
                                                         141|                                                                                                                                                                                                                                                                                                              
                                                          153
   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 4IC6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4IC6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4IC6)

(-) Gene Ontology  (12, 12)

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 Related Entries

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(-) Related Entries Specified in the PDB File

4ic5