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Conserved domains on  [gi|446504415|ref|WP_000582269|]
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MULTISPECIES: SPASM domain-containing protein [Bacillus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AslB super family cl33987
Sulfatase maturation enzyme AslB, radical SAM superfamily [Posttranslational modification, ...
 2-222 2.14e-21

Sulfatase maturation enzyme AslB, radical SAM superfamily [Posttranslational modification, protein turnover, chaperones];


The actual alignment was detected with superfamily member COG0641:

Pssm-ID: 440406 [Multi-domain]  Cd Length: 349  Bit Score: 91.20  E-value: 2.14e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446504415   2 IIAANISLALERGFAVGLRTNVNKDNLAYVKELATFIEDQHWNtypnfGWQVSPVtdhygdnLPNHLPEHELLSEIYNIF 81
Cdd:COG0641  138 RVMRNIKLLKEHGVEVNIRCTVTRENLDDPEELYDFLKELGFR-----SIQFNPV-------VEEGEADYSLTPEDYGEF 205

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446504415  82 gdLEEFMDKFnaklgtdlnIRTSRIRQAIRTFDWEKVSELDSCSSVmhslpyfkeCSAREQRFYAFGAEGLIYACPEAVG 161
Cdd:COG0641  206 --LIELFDEW---------LERDGGKIFVREFDILLAGLLPPCSSP---------CVGAGGNYLVVDPDGDIYPCDEFVG 265

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446504415 162 KPETAVGSFFPEYNLDADKHAIWDQ-----DITDSEQCSSCSISLFCGGGCAYANLMRNGAINKPY 222
Cdd:COG0641  266 DPEFRLGNVFDGSLAELLDSPKLRAfgrekNVLLDEECRSCPYLPLCGGGCPANRYAETGDGFKPY 331
 
Name Accession Description Interval E-value
AslB COG0641
Sulfatase maturation enzyme AslB, radical SAM superfamily [Posttranslational modification, ...
 2-222 2.14e-21

Sulfatase maturation enzyme AslB, radical SAM superfamily [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440406 [Multi-domain]  Cd Length: 349  Bit Score: 91.20  E-value: 2.14e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446504415   2 IIAANISLALERGFAVGLRTNVNKDNLAYVKELATFIEDQHWNtypnfGWQVSPVtdhygdnLPNHLPEHELLSEIYNIF 81
Cdd:COG0641  138 RVMRNIKLLKEHGVEVNIRCTVTRENLDDPEELYDFLKELGFR-----SIQFNPV-------VEEGEADYSLTPEDYGEF 205

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446504415  82 gdLEEFMDKFnaklgtdlnIRTSRIRQAIRTFDWEKVSELDSCSSVmhslpyfkeCSAREQRFYAFGAEGLIYACPEAVG 161
Cdd:COG0641  206 --LIELFDEW---------LERDGGKIFVREFDILLAGLLPPCSSP---------CVGAGGNYLVVDPDGDIYPCDEFVG 265

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446504415 162 KPETAVGSFFPEYNLDADKHAIWDQ-----DITDSEQCSSCSISLFCGGGCAYANLMRNGAINKPY 222
Cdd:COG0641  266 DPEFRLGNVFDGSLAELLDSPKLRAfgrekNVLLDEECRSCPYLPLCGGGCPANRYAETGDGFKPY 331
SPASM_CteB-like cd21124
Iron-sulfur cluster-binding SPASM domain of sactionine bond-forming enzyme CteB and similar ...
 143-222 1.83e-13

Iron-sulfur cluster-binding SPASM domain of sactionine bond-forming enzyme CteB and similar proteins; Clostridium thermocellum sactionine bond-forming enzyme CteB is a radical S-adenosylmethionine (SAM) enzyme that catalyzes the formation of the requisite thioether bridge between a cysteine and the alpha-carbon of an opposing amino acid that is required in sactipeptide biosynthesis. Radical SAM enzymes are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster that is involved in the reductive cleavage of SAM and generates a 5'-deoxyadenosyl radical, which in turn abstracts a hydrogen from the appropriately positioned carbon atom of the substrate. Radical SAM (RS) enzymes with a C-terminal SPASM domain contain at least one other iron-sulfur cluster. CteB contains two auxillary 4Fe-4S clusters in its SPASM domain; the auxillary cluster nearest the RS site, called AuxI, exhibits an open coordination site in the absence of peptide substrate, which is coordinated by a peptidyl-cysteine residue in the bound state.


Pssm-ID: 410615 [Multi-domain]  Cd Length: 96  Bit Score: 64.30  E-value: 1.83e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446504415 143 RFYAFGAEGLIYACPEAVGKPETAVGSFFPEYNLDADKHAIWDQDITDSEQCSSCSISLFCGGGCAYANLMRNGAINKPY 222
Cdd:cd21124    9 EYFAVDPDGDIYPCHRFVGMEEYRMGNVYDGSSLMELQSEFWKRHVENKEECRECWARFYCGGGCPANSYAENGDIRTPY 88
rSAM_more_4Fe4S TIGR04085
radical SAM additional 4Fe4S-binding SPASM domain; This domain contains regions binding ...
 137-223 1.21e-09

radical SAM additional 4Fe4S-binding SPASM domain; This domain contains regions binding additional 4Fe4S clusters found in various radical SAM proteins C-terminal to the domain described by model pfam04055. Radical SAM enzymes with this domain tend to be involved in protein modification, including anaerobic sulfatase maturation proteins, a quinohemoprotein amine dehydrogenase biogenesis protein, the Pep1357-cyclizing radical SAM enzyme, and various bacteriocin biosynthesis proteins. The motif CxxCxxxxxCxxxC is nearly invariant for members of this family, although PqqE has a variant form. We name this domain SPASM for Subtilosin, PQQ, Anaerobic Sulfatase, and Mycofactocin.


Pssm-ID: 274968 [Multi-domain]  Cd Length: 93  Bit Score: 53.73  E-value: 1.21e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446504415  137 CSAReQRFYAFGAEGLIYACPEAVgKPETAVGSFF-----PEYNLDADKHAIWDQDITDSEQCSSCSISLFCGGGCAYAN 211
Cdd:TIGR04085   1 CGAG-RNSLVVDPDGDVYPCDHFV-YPEYKLGNIRedsleEILNSSKQLEFGRWKSPKLPEECRSCKYLPLCGGGCPANR 78

                          90
                  ....*....|....*
gi 446504415  212 LMRNGAINK---PYC 223
Cdd:TIGR04085  79 YLKTGDINGpknPLC 93
 
Name Accession Description Interval E-value
AslB COG0641
Sulfatase maturation enzyme AslB, radical SAM superfamily [Posttranslational modification, ...
 2-222 2.14e-21

Sulfatase maturation enzyme AslB, radical SAM superfamily [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440406 [Multi-domain]  Cd Length: 349  Bit Score: 91.20  E-value: 2.14e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446504415   2 IIAANISLALERGFAVGLRTNVNKDNLAYVKELATFIEDQHWNtypnfGWQVSPVtdhygdnLPNHLPEHELLSEIYNIF 81
Cdd:COG0641  138 RVMRNIKLLKEHGVEVNIRCTVTRENLDDPEELYDFLKELGFR-----SIQFNPV-------VEEGEADYSLTPEDYGEF 205

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446504415  82 gdLEEFMDKFnaklgtdlnIRTSRIRQAIRTFDWEKVSELDSCSSVmhslpyfkeCSAREQRFYAFGAEGLIYACPEAVG 161
Cdd:COG0641  206 --LIELFDEW---------LERDGGKIFVREFDILLAGLLPPCSSP---------CVGAGGNYLVVDPDGDIYPCDEFVG 265

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446504415 162 KPETAVGSFFPEYNLDADKHAIWDQ-----DITDSEQCSSCSISLFCGGGCAYANLMRNGAINKPY 222
Cdd:COG0641  266 DPEFRLGNVFDGSLAELLDSPKLRAfgrekNVLLDEECRSCPYLPLCGGGCPANRYAETGDGFKPY 331
SPASM_CteB-like cd21124
Iron-sulfur cluster-binding SPASM domain of sactionine bond-forming enzyme CteB and similar ...
 143-222 1.83e-13

Iron-sulfur cluster-binding SPASM domain of sactionine bond-forming enzyme CteB and similar proteins; Clostridium thermocellum sactionine bond-forming enzyme CteB is a radical S-adenosylmethionine (SAM) enzyme that catalyzes the formation of the requisite thioether bridge between a cysteine and the alpha-carbon of an opposing amino acid that is required in sactipeptide biosynthesis. Radical SAM enzymes are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster that is involved in the reductive cleavage of SAM and generates a 5'-deoxyadenosyl radical, which in turn abstracts a hydrogen from the appropriately positioned carbon atom of the substrate. Radical SAM (RS) enzymes with a C-terminal SPASM domain contain at least one other iron-sulfur cluster. CteB contains two auxillary 4Fe-4S clusters in its SPASM domain; the auxillary cluster nearest the RS site, called AuxI, exhibits an open coordination site in the absence of peptide substrate, which is coordinated by a peptidyl-cysteine residue in the bound state.


Pssm-ID: 410615 [Multi-domain]  Cd Length: 96  Bit Score: 64.30  E-value: 1.83e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446504415 143 RFYAFGAEGLIYACPEAVGKPETAVGSFFPEYNLDADKHAIWDQDITDSEQCSSCSISLFCGGGCAYANLMRNGAINKPY 222
Cdd:cd21124    9 EYFAVDPDGDIYPCHRFVGMEEYRMGNVYDGSSLMELQSEFWKRHVENKEECRECWARFYCGGGCPANSYAENGDIRTPY 88
rSAM_more_4Fe4S TIGR04085
radical SAM additional 4Fe4S-binding SPASM domain; This domain contains regions binding ...
 137-223 1.21e-09

radical SAM additional 4Fe4S-binding SPASM domain; This domain contains regions binding additional 4Fe4S clusters found in various radical SAM proteins C-terminal to the domain described by model pfam04055. Radical SAM enzymes with this domain tend to be involved in protein modification, including anaerobic sulfatase maturation proteins, a quinohemoprotein amine dehydrogenase biogenesis protein, the Pep1357-cyclizing radical SAM enzyme, and various bacteriocin biosynthesis proteins. The motif CxxCxxxxxCxxxC is nearly invariant for members of this family, although PqqE has a variant form. We name this domain SPASM for Subtilosin, PQQ, Anaerobic Sulfatase, and Mycofactocin.


Pssm-ID: 274968 [Multi-domain]  Cd Length: 93  Bit Score: 53.73  E-value: 1.21e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446504415  137 CSAReQRFYAFGAEGLIYACPEAVgKPETAVGSFF-----PEYNLDADKHAIWDQDITDSEQCSSCSISLFCGGGCAYAN 211
Cdd:TIGR04085   1 CGAG-RNSLVVDPDGDVYPCDHFV-YPEYKLGNIRedsleEILNSSKQLEFGRWKSPKLPEECRSCKYLPLCGGGCPANR 78

                          90
                  ....*....|....*
gi 446504415  212 LMRNGAINK---PYC 223
Cdd:TIGR04085  79 YLKTGDINGpknPLC 93
SPASM_AlbA-like cd21125
Iron-sulfur cluster-binding SPASM domain of antilisterial bacteriocin subtilosin biosynthesis ...
 148-224 3.03e-06

Iron-sulfur cluster-binding SPASM domain of antilisterial bacteriocin subtilosin biosynthesis protein AlbA and similar proteins; Bacillus subtilis antilisterial bacteriocin subtilosin biosynthesis protein AlbA is a radical S-adenosylmethionine (SAM) enzyme that catalyzes the formation of three thioether bonds in the post-translational modification of a linear peptide into the cyclic peptide subtilosin A. The thioether bonds formed are between the sulfur of three cysteine residues and the alpha-carbons of two phenylalanines and one threonine to produce a rigid cyclic peptide. Radical SAM enzymes are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster that is involved in the reductive cleavage of SAM and generates a 5'-deoxyadenosyl radical, which in turn abstracts a hydrogen from the appropriately positioned carbon atom of the substrate. Radical SAM enzymes with a C-terminal SPASM domain contain at least one other iron-sulfur cluster. AlbA appears to contain one auxillary Fe-S cluster, similar to the auxillary 4Fe-4S cluster in Bacillus circulans butirosin biosynthetic enzyme BtrN.


Pssm-ID: 410616 [Multi-domain]  Cd Length: 97  Bit Score: 44.40  E-value: 3.03e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446504415 148 GAEGLIYACpEAVGKPETAVGSFFPEYNLDA---DKHAIW-DQDITDSEQCSSCSISLFCGGGCAYANLMRNGAIN--KP 221
Cdd:cd21125   13 DPDGEVYPC-HLLHPTEFKLGNIFEDSLASIlknPVLEIWqTYDPRFSEHCKKCPFYGICGGGCIAKSLISYGRFDkpDP 91


                 ...
gi 446504415 222 YCN 224
Cdd:cd21125   92 YCS 94
rSAM_pep_methan TIGR04083
putative peptide-modifying radical SAM enzyme, Mhun_1560 family; Members of this family are ...
 145-209 2.93e-03

putative peptide-modifying radical SAM enzyme, Mhun_1560 family; Members of this family are radical SAM enzymes, homologous to a variety of other peptide-modifying radical SAM, and found primarily in methanogenic archaea.


Pssm-ID: 274966 [Multi-domain]  Cd Length: 376  Bit Score: 38.17  E-value: 2.93e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446504415  145 YAFGAEGLIYACPEAVGKPETAVGSFFPEYNLD------ADKHAIWDQDITDSEqCSSCSISLFCGGGCAY 209
Cdd:TIGR04083 243 FAVGPDGSIYPCYRFVGMPEYVMGNVRDRPTMEdlmesdAGKLMLAFKEYVDTH-CAKCSHIKYCRGGCPY 312
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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