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(-) Description

Title :  UBIQUITIN-FOLD MODIFIER 1 SPECIFIC PROTEASE, UFSP2
 
Authors :  B. H. Ha, C. H. Chung, E. E. Kim
Date :  02 Sep 10  (Deposition) - 12 Jan 11  (Release) - 26 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Dph Motif Cys Protease, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. H. Ha, Y. J. Jeon, S. C. Shin, K. Tatsumi, M. Komatsu, K. Tanaka, C. M. Watson, G. Wallis, C. H. Chung, E. E. Kim
Structure Of Ubiquitin-Fold Modifier 1-Specific Protease Ufsp2
J. Biol. Chem. V. 286 10248 2011
PubMed-ID: 21228277  |  Reference-DOI: 10.1074/JBC.M110.172171

(-) Compounds

Molecule 1 - UFM1-SPECIFIC PROTEASE 2
    Chains: A, B
    EC Number: 3.4.22.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: UFSP2

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3OQC)

(-) Sites  (0, 0)

(no "Site" information available for 3OQC)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3OQC)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Pro B:19 -Pro B:20

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3OQC)

(-) 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:416
 aligned with UFSP2_MOUSE | Q99K23 from UniProtKB/Swiss-Prot  Length:461

    Alignment length:461
                                    10        20        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       340       350       360       370       380       390       400       410       420       430       440       450       460 
          UFSP2_MOUSE     1 MDILFRIRGGFDLAFQLAPPKEMFIKNALRQVLSDLTTKLSSDALVLRVCNSSVYLWPNSDANTGELTDSSACKNVVRFIQFDQEEDTKRKFIKKKDKKLTDTQQIVNIDLMLEISTPLGAVTPILERENEEHHYINMSLPIDAVVSVAPEESWGKVRKLLVDAILRQLVDVEKCILRYMKGTSIVVPEPLHFQLPGKKNLVTVLYPSGIPDDQLQAYRKELHDLFNLPHDRPYFKRINAYHFPDELYKDGYIRNPHTYLSPPNIEGSMICVVQGTYAYHHYMQDRIDDNGWGCAYRSLQTICSWFRHQGYTERSIPTHREIQQALVDAGDKPATFVGSRQWIGSIEVQMVLNQLIGVTSKILFVNQGSEMASQGRELANHFQNVGTPVMVGGGVLAHTILGVAWNETTGQIKFLILDPHYTGAEDLQVMLEKGWCGWKSPDFWNKDAYYNLCLPQRPNAL 461
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhhhh..eeeee...---......---.......hhhhhhhh.----------------------..eeeeeeeee...-----------------.eeeeeeeeeeeeee.......hhhhhhhhhhhhhhhhhhhhhhhhh.......eeeeee........eeeeee...hhhhhhhhhhhhhhhh.........hhhhh...............hhhhh........eeee....................hhhhhhhhhhhhhhhhh........hhhhhhhhhhhhh..hhhhh......hhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhhhhhh.....eeeee..eeeeeeeeee......eeeeee........hhhhhhhh..eeee..........eeeeee...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3oqc A   1 MDILFRIRGGFDLAFQLAPPKEMFIKNALRQVLSDLTTKLSSDALVLRVCNS---LWPNSD---GELTDSSACKNVVRFI----------------------TQQIVNIDLMLEIS-----------------HYINMSLPIDAVVSVAPEESWGKVRKLLVDAILRQLVDVEKCILRYMKGTSIVVPEPLHFQLPGKKNLVTVLYPSGIPDDQLQAYRKELHDLFNLPHDRPYFKRINAYHFPDELYKDGYIRNPHTYLSPPNIEGSMICVVQGTYAYHHYMQDRIDDNGWGSAYRSLQTICSWFRHQGYTERSIPTHREIQQALVDAGDKPATFVGSRQWIGSIEVQMVLNQLIGVTSKILFVNQGSEMASQGRELANHFQNVGTPVMVGGGVLAHTILGVAWNETTGQIKFLILDPHYTGAEDLQVMLEKGWCGWKSPDFWNKDAYYNLCLPQRPNAL 461
                                    10        20        30        40        50 |   |  60|   |   70        80         -         -  |    110     |   -         -   |   140       150       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       460 
                                                                              52  56   61  65             80                    103          116               134                                                                                                                                                                                                                                                                                                                                       


Chain B from PDB  Type:PROTEIN  Length:411
 aligned with UFSP2_MOUSE | Q99K23 from UniProtKB/Swiss-Prot  Length:461

    Alignment length:461
                                    10        20        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       340       350       360       370       380       390       400       410       420       430       440       450       460 
          UFSP2_MOUSE     1 MDILFRIRGGFDLAFQLAPPKEMFIKNALRQVLSDLTTKLSSDALVLRVCNSSVYLWPNSDANTGELTDSSACKNVVRFIQFDQEEDTKRKFIKKKDKKLTDTQQIVNIDLMLEISTPLGAVTPILERENEEHHYINMSLPIDAVVSVAPEESWGKVRKLLVDAILRQLVDVEKCILRYMKGTSIVVPEPLHFQLPGKKNLVTVLYPSGIPDDQLQAYRKELHDLFNLPHDRPYFKRINAYHFPDELYKDGYIRNPHTYLSPPNIEGSMICVVQGTYAYHHYMQDRIDDNGWGCAYRSLQTICSWFRHQGYTERSIPTHREIQQALVDAGDKPATFVGSRQWIGSIEVQMVLNQLIGVTSKILFVNQGSEMASQGRELANHFQNVGTPVMVGGGVLAHTILGVAWNETTGQIKFLILDPHYTGAEDLQVMLEKGWCGWKSPDFWNKDAYYNLCLPQRPNAL 461
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Peptidase_C78-3oqcB01 B:268-453                                                                                                                                                           -------- Pfam domains (1)
           Pfam domains (2) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Peptidase_C78-3oqcB02 B:268-453                                                                                                                                                           -------- Pfam domains (2)
         Sec.struct. author ..eeeeeeeeeeeee....hhhhhhhhhhhhhhhhhhhhh....eeeee...-.ee......--.........-----------------------------..eeeeeeeee...------------------.eeeeeeeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhh..........eeeeee........eeeeee.......hhhhhhhhhhhh.........hhhhh............................eeee....................hhhhhhhhhhhhhhhhh........hhhhhhhhhhhh...hhhhh......hhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhhhhhhhh...eeeee..eeeeeeeeee......eeeeee.........hhhhhhh..eeeehhhhh.....eeeeee...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3oqc B   1 MDILFRIRGGFDLAFQLAPPKEMFIKNALRQVLSDLTTKLSSDALVLRVCNS-VYLWPNSDA--GELTDSSAC-----------------------------TQQIVNIDLMLEIS------------------YINMSLPIDAVVSVAPEESWGKVRKLLVDAILRQLVDVEKCILRYMKGTSIVVPEPLHFQLPGKKNLVTVLYPSGIPDDQLQAYRKELHDLFNLPHDRPYFKRINAYHFPDELYKDGYIRNPHTYLSPPNIEGSMICVVQGTYAYHHYMQDRIDDNGWGSAYRSLQTICSWFRHQGYTERSIPTHREIQQALVDAGDKPATFVGSRQWIGSIEVQMVLNQLIGVTSKILFVNQGSEMASQGRELANHFQNVGTPVMVGGGVLAHTILGVAWNETTGQIKFLILDPHYTGAEDLQVMLEKGWCGWKSPDFWNKDAYYNLCLPQRPNAL 461
                                    10        20        30        40        50 | |    60 |  |   70  |      -         -         -  |    110     |   -         -    |  140       150       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       460 
                                                                              52 |      62 65      73                           103          116                135                                                                                                                                                                                                                                                                                                                                      
                                                                                54
   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 3OQC)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: Peptidase_CA (169)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (UFSP2_MOUSE | Q99K23)
molecular function
    GO:0071567    UFM1 hydrolase activity    Catalysis of the hydrolysis of UFM1, a small ubiquitin-related modifier, from previously modified substrates.
    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.
    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:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
    GO:0016790    thiolester hydrolase activity    Catalysis of the reaction: RCO-SR' + H2O = RCOOH + HSR'. This reaction is the hydrolysis of a thiolester bond, an ester formed from a carboxylic acid and a thiol (i.e., RCO-SR'), such as that found in acetyl-coenzyme A.
biological process
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
    GO:0033146    regulation of intracellular estrogen receptor signaling pathway    Any process that modulates the frequency, rate or extent of the activity of an intracellular estrogen receptor signaling pathway.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005783    endoplasmic reticulum    The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached).
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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