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(-) Description

Title :  CRYSTAL STRUCTURE OF STOA FROM BACILLUS SUBTILIS
 
Authors :  A. Crow, Y. Liu, M. C. Moller, N. E. Le Brun, L. Hederstedt
Date :  03 Oct 08  (Deposition) - 20 Jan 09  (Release) - 28 Apr 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B,C,D,E,F,G
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Biol. Unit 5:  E  (1x)
Biol. Unit 6:  F  (1x)
Biol. Unit 7:  G  (1x)
Keywords :  Thioredoxin-Like Fold, Resa-Like Fold, Disulfide, Dithiol, Stoa, Oxidoreductase, Redox-Active Center, Sporulation (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. Crow, Y. Liu, M. C. Moller, N. E. Le Brun, L. Hederstedt
Structure And Functional Properties Of Bacillus Subtilis Endospore Biogenesis Factor Stoa
J. Biol. Chem. V. 284 10056 2009
PubMed-ID: 19144642  |  Reference-DOI: 10.1074/JBC.M809566200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SPORULATION THIOL-DISULFIDE OXIDOREDUCTASE A
    ChainsA, B, C, D, E, F, G
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainB834
    Expression System Taxid562
    FragmentUNP RESIDUES 22 TO 164
    GeneBSU13840, SPOIVH, STOA
    Organism ScientificBACILLUS SUBTILIS
    Organism Taxid1423
    Strain1A1
    SynonymSTAGE IV SPORULATION PROTEIN H

 Structural Features

(-) Chains, Units

  1234567
Asymmetric Unit ABCDEFG
Biological Unit 1 (1x)A      
Biological Unit 2 (1x) B     
Biological Unit 3 (1x)  C    
Biological Unit 4 (1x)   D   
Biological Unit 5 (1x)    E  
Biological Unit 6 (1x)     F 
Biological Unit 7 (1x)      G

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 21)

Asymmetric Unit (1, 21)
No.NameCountTypeFull Name
1MSE21Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1MSE3Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 3)
No.NameCountTypeFull Name
1MSE3Mod. Amino AcidSELENOMETHIONINE
Biological Unit 3 (1, 3)
No.NameCountTypeFull Name
1MSE3Mod. Amino AcidSELENOMETHIONINE
Biological Unit 4 (1, 3)
No.NameCountTypeFull Name
1MSE3Mod. Amino AcidSELENOMETHIONINE
Biological Unit 5 (1, 3)
No.NameCountTypeFull Name
1MSE3Mod. Amino AcidSELENOMETHIONINE
Biological Unit 6 (1, 3)
No.NameCountTypeFull Name
1MSE3Mod. Amino AcidSELENOMETHIONINE
Biological Unit 7 (1, 3)
No.NameCountTypeFull Name
1MSE3Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 3ERW)

(-) SS Bonds  (7, 7)

Asymmetric Unit
No.Residues
1A:65 -A:68
2B:65 -B:68
3C:65 -C:68
4D:65 -D:68
5E:65 -E:68
6F:65 -F:68
7G:65 -G:68

(-) Cis Peptide Bonds  (14, 14)

Asymmetric Unit
No.Residues
1Ile A:49 -Pro A:50
2Ile A:134 -Pro A:135
3Ile B:49 -Pro B:50
4Ile B:134 -Pro B:135
5Ile C:49 -Pro C:50
6Ile C:134 -Pro C:135
7Ile D:49 -Pro D:50
8Ile D:134 -Pro D:135
9Ile E:49 -Pro E:50
10Ile E:134 -Pro E:135
11Ile F:49 -Pro F:50
12Ile F:134 -Pro F:135
13Ile G:49 -Pro G:50
14Ile G:134 -Pro G:135

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 7)

Asymmetric Unit (1, 7)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1THIOREDOXIN_1PS00194 Thioredoxin family active site.STOA_BACSU57-75
 
 
 
 
 
 
  7A:57-75
B:57-75
C:57-75
D:57-75
E:57-75
F:57-75
G:57-75
Biological Unit 1 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1THIOREDOXIN_1PS00194 Thioredoxin family active site.STOA_BACSU57-75
 
 
 
 
 
 
  1A:57-75
-
-
-
-
-
-
Biological Unit 2 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1THIOREDOXIN_1PS00194 Thioredoxin family active site.STOA_BACSU57-75
 
 
 
 
 
 
  1-
B:57-75
-
-
-
-
-
Biological Unit 3 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1THIOREDOXIN_1PS00194 Thioredoxin family active site.STOA_BACSU57-75
 
 
 
 
 
 
  1-
-
C:57-75
-
-
-
-
Biological Unit 4 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1THIOREDOXIN_1PS00194 Thioredoxin family active site.STOA_BACSU57-75
 
 
 
 
 
 
  1-
-
-
D:57-75
-
-
-
Biological Unit 5 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1THIOREDOXIN_1PS00194 Thioredoxin family active site.STOA_BACSU57-75
 
 
 
 
 
 
  1-
-
-
-
E:57-75
-
-
Biological Unit 6 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1THIOREDOXIN_1PS00194 Thioredoxin family active site.STOA_BACSU57-75
 
 
 
 
 
 
  1-
-
-
-
-
F:57-75
-
Biological Unit 7 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1THIOREDOXIN_1PS00194 Thioredoxin family active site.STOA_BACSU57-75
 
 
 
 
 
 
  1-
-
-
-
-
-
G:57-75

(-) Exons   (0, 0)

(no "Exon" information available for 3ERW)

(-) 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:134
 aligned with STOA_BACSU | O31687 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:134
                                    40        50        60        70        80        90       100       110       120       130       140       150       160    
           STOA_BACSU    31 PAVPAVFLMKTIEGEDISIPNKGQKTILHFWTSWCPPCKKELPQFQSFYDAHPSDSVKLVTVNLVNSEQNQQVVEDFIKANKLTFPIVLDSKGELMKEYHIITIPTSFLLNEKGEIEKTKIGPMTAEQLKEWTE 164
               SCOP domains d3erwa_ A: automated matches                                                                                                           SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee.....eeee.....eeeeeee...hhhhhhhhhhhhhhhhhh....eeeeeee.hhhh.hhhhhhhhhhhh.....eee...hhhhhhh...ee.eeeee.....eeeeee...hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------THIOREDOXIN_1      ----------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3erw A  31 PAVPAVFLmKTIEGEDISIPNKGQKTILHFWTSWCPPCKKELPQFQSFYDAHPSDSVKLVTVNLVNSEQNQQVVEDFIKANKLTFPIVLDSKGELmKEYHIITIPTSFLLNEKGEIEKTKIGPmTAEQLKEWTE 164
                                    40        50        60        70        80        90       100       110       120     | 130       140       150   |   160    
                                   39-MSE                                                                                126-MSE                     154-MSE      

Chain B from PDB  Type:PROTEIN  Length:134
 aligned with STOA_BACSU | O31687 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:134
                                    40        50        60        70        80        90       100       110       120       130       140       150       160    
           STOA_BACSU    31 PAVPAVFLMKTIEGEDISIPNKGQKTILHFWTSWCPPCKKELPQFQSFYDAHPSDSVKLVTVNLVNSEQNQQVVEDFIKANKLTFPIVLDSKGELMKEYHIITIPTSFLLNEKGEIEKTKIGPMTAEQLKEWTE 164
               SCOP domains d3erwb_ B: automated matches                                                                                                           SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeee.....eeee.....eeeeeee...hhhhhhhhhhhhhhhhhh....eeeeeee.hhhh.hhhhhhhhhhhh.....eee...hhhhhhh...ee.eeeee.....eeeeee...hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------THIOREDOXIN_1      ----------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3erw B  31 PAVPAVFLmKTIEGEDISIPNKGQKTILHFWTSWCPPCKKELPQFQSFYDAHPSDSVKLVTVNLVNSEQNQQVVEDFIKANKLTFPIVLDSKGELmKEYHIITIPTSFLLNEKGEIEKTKIGPmTAEQLKEWTE 164
                                    40        50        60        70        80        90       100       110       120     | 130       140       150   |   160    
                                   39-MSE                                                                                126-MSE                     154-MSE      

Chain C from PDB  Type:PROTEIN  Length:130
 aligned with STOA_BACSU | O31687 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:130
                                    44        54        64        74        84        94       104       114       124       134       144       154       164
           STOA_BACSU    35 AVFLMKTIEGEDISIPNKGQKTILHFWTSWCPPCKKELPQFQSFYDAHPSDSVKLVTVNLVNSEQNQQVVEDFIKANKLTFPIVLDSKGELMKEYHIITIPTSFLLNEKGEIEKTKIGPMTAEQLKEWTE 164
               SCOP domains d3erwc_ C: automated matches                                                                                                       SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.....eeee.....eeeeeee...hhhhhhhhhhhhhhhhhh....eeeeeee.hhhh.hhhhhhhhhhhh.....eee...hhhhhhh......eeeee.....eeeeee...hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------THIOREDOXIN_1      ----------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3erw C  35 AVFLmKTIEGEDISIPNKGQKTILHFWTSWCPPCKKELPQFQSFYDAHPSDSVKLVTVNLVNSEQNQQVVEDFIKANKLTFPIVLDSKGELmKEYHIITIPTSFLLNEKGEIEKTKIGPmTAEQLKEWTE 164
                                |   44        54        64        74        84        94       104       114       124 |     134       144       154       164
                               39-MSE                                                                                126-MSE                     154-MSE      

Chain D from PDB  Type:PROTEIN  Length:134
 aligned with STOA_BACSU | O31687 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:134
                                    40        50        60        70        80        90       100       110       120       130       140       150       160    
           STOA_BACSU    31 PAVPAVFLMKTIEGEDISIPNKGQKTILHFWTSWCPPCKKELPQFQSFYDAHPSDSVKLVTVNLVNSEQNQQVVEDFIKANKLTFPIVLDSKGELMKEYHIITIPTSFLLNEKGEIEKTKIGPMTAEQLKEWTE 164
               SCOP domains d3erwd_ D: automated matches                                                                                                           SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee.....eeee.....eeeeeee...hhhhhhhhhhhhhhhhhh....eeeeeee.hhhh.hhhhhhhhhhhh.....eee...hhhhhhh......eeeee.....eeeeee...hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------THIOREDOXIN_1      ----------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3erw D  31 PAVPAVFLmKTIEGEDISIPNKGQKTILHFWTSWCPPCKKELPQFQSFYDAHPSDSVKLVTVNLVNSEQNQQVVEDFIKANKLTFPIVLDSKGELmKEYHIITIPTSFLLNEKGEIEKTKIGPmTAEQLKEWTE 164
                                    40        50        60        70        80        90       100       110       120     | 130       140       150   |   160    
                                   39-MSE                                                                                126-MSE                     154-MSE      

Chain E from PDB  Type:PROTEIN  Length:134
 aligned with STOA_BACSU | O31687 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:134
                                    40        50        60        70        80        90       100       110       120       130       140       150       160    
           STOA_BACSU    31 PAVPAVFLMKTIEGEDISIPNKGQKTILHFWTSWCPPCKKELPQFQSFYDAHPSDSVKLVTVNLVNSEQNQQVVEDFIKANKLTFPIVLDSKGELMKEYHIITIPTSFLLNEKGEIEKTKIGPMTAEQLKEWTE 164
               SCOP domains d3erwe_ E: automated matches                                                                                                           SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee.....eeee.....eeeeeee...hhhhhhhhhhhhhhhhhh....eeeeeee.hhhh.hhhhhhhhhhhh.....eee...hhhhhhh...ee.eeeee.....eeeeee...hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------THIOREDOXIN_1      ----------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3erw E  31 PAVPAVFLmKTIEGEDISIPNKGQKTILHFWTSWCPPCKKELPQFQSFYDAHPSDSVKLVTVNLVNSEQNQQVVEDFIKANKLTFPIVLDSKGELmKEYHIITIPTSFLLNEKGEIEKTKIGPmTAEQLKEWTE 164
                                    40        50        60        70        80        90       100       110       120     | 130       140       150   |   160    
                                   39-MSE                                                                                126-MSE                     154-MSE      

Chain F from PDB  Type:PROTEIN  Length:131
 aligned with STOA_BACSU | O31687 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:131
                                    43        53        63        73        83        93       103       113       123       133       143       153       163 
           STOA_BACSU    34 PAVFLMKTIEGEDISIPNKGQKTILHFWTSWCPPCKKELPQFQSFYDAHPSDSVKLVTVNLVNSEQNQQVVEDFIKANKLTFPIVLDSKGELMKEYHIITIPTSFLLNEKGEIEKTKIGPMTAEQLKEWTE 164
               SCOP domains d3erwf_ F: automated matches                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee.....eeee.....eeeeeee...hhhhhhhhhhhhhhhhhh....eeeeeee.hhhh.hhhhhhhhhhhh.....eee...hhhhhhh...ee.eeeee.....eeeeee...hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------THIOREDOXIN_1      ----------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3erw F  34 PAVFLmKTIEGEDISIPNKGQKTILHFWTSWCPPCKKELPQFQSFYDAHPSDSVKLVTVNLVNSEQNQQVVEDFIKANKLTFPIVLDSKGELmKEYHIITIPTSFLLNEKGEIEKTKIGPmTAEQLKEWTE 164
                                 |  43        53        63        73        83        93       103       113       123  |    133       143       153|      163 
                                39-MSE                                                                                126-MSE                     154-MSE      

Chain G from PDB  Type:PROTEIN  Length:133
 aligned with STOA_BACSU | O31687 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:133
                                    41        51        61        71        81        91       101       111       121       131       141       151       161   
           STOA_BACSU    32 AVPAVFLMKTIEGEDISIPNKGQKTILHFWTSWCPPCKKELPQFQSFYDAHPSDSVKLVTVNLVNSEQNQQVVEDFIKANKLTFPIVLDSKGELMKEYHIITIPTSFLLNEKGEIEKTKIGPMTAEQLKEWTE 164
               SCOP domains d3erwg_ G: automated matches                                                                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee.....eeee.....eeeeeee...hhhhhhhhhhhhhhhhhh....eeeeeee.hhhh.hhhhhhhhhhhh.....eee...hhhhhhh......eeeee.....eeeeee...hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------THIOREDOXIN_1      ----------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3erw G  32 AVPAVFLmKTIEGEDISIPNKGQKTILHFWTSWCPPCKKELPQFQSFYDAHPSDSVKLVTVNLVNSEQNQQVVEDFIKANKLTFPIVLDSKGELmKEYHIITIPTSFLLNEKGEIEKTKIGPmTAEQLKEWTE 164
                                   |41        51        61        71        81        91       101       111       121    |  131       141       151  |    161   
                                  39-MSE                                                                                126-MSE                     154-MSE      

   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  (1, 7)

Asymmetric Unit

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F,G   (STOA_BACSU | O31687)
molecular function
    GO:0016209    antioxidant activity    Inhibition of the reactions brought about by dioxygen (O2) or peroxides. Usually the antioxidant is effective because it can itself be more easily oxidized than the substance protected. The term is often applied to components that can trap free radicals, thereby breaking the chain reaction that normally leads to extensive biological damage.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0045454    cell redox homeostasis    Any process that maintains the redox environment of a cell or compartment within a cell.
    GO:0098869    cellular oxidant detoxification    Any process carried out at the cellular level that reduces or removes the toxicity superoxide radicals or hydrogen peroxide.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0030435    sporulation resulting in formation of a cellular spore    The process in which a relatively unspecialized cell acquires the specialized features of a cellular spore, a cell form that can be used for dissemination, for survival of adverse conditions because of its heat and dessication resistance, and/or for reproduction.
cellular component
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0043594    outer endospore membrane    The outer membrane around a bacterial endospore, located between the endospore cortex and endospore coat.

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    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 3ERW)

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 3ERW)