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Conserved domains on  [gi|1907189331|ref|XP_036009942|]
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DNA-dependent metalloprotease SPRTN isoform X1 [Mus musculus]

Protein Classification

YgjP-like and ZnF_Rad18 domain-containing protein( domain architecture ID 10365199)

protein containing domains YgjP-like, RAD18, and ZnF_Rad18

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YgjP-like super family cl19237
YgjP-like, metallopeptidase domain; This is a conserved domain containing the catalytic ...
 44-170 2.26e-25

YgjP-like, metallopeptidase domain; This is a conserved domain containing the catalytic zinc-metallopeptidase (HExxH) catalytic motif. Proteins containing this domain are found in some archaebacteria, as well as Helicobacter pylori. The proteins are 190-240 amino acids long, with the C terminus being the most conserved region, containing three conserved histidines. This domain is found in YgjP from E. coli, a predicted metal-dependent hydrolase that hydrolyses UTP to UMP and diphosphate in vitro; and in MJ0123 from Methanocaldococcus jannaschii (also referred to as projannalysin).


The actual alignment was detected with superfamily member smart00731:

Pssm-ID: 473153 [Multi-domain]  Cd Length: 146  Bit Score: 100.86  E-value: 2.26e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907189331   44 PDLQALFLQFNDRFFWGQLEAVEVKWSVRMTLCAGICTYegrgGMCSIRLSEPLLKLRPRKDLVEV-------------- 109
Cdd:smart00731   1 QELTQRLEDASLRVFGRKLPHPKVVWNKRLRKTGGRCLL----KSAEIRLNPKLLTENGRDRLRETllhelchaalylfg 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907189331  110 -----------------------YHTFHDEVdeYRRHWWRCNGpCQHRqpyYGYVKRATNRapsvhdyWWADHQKtCGGT 166
Cdd:smart00731  77 rgyghgdewkrwmrqvnglfperCHTFLIES--VKKYPYRCTG-CGQR---YLRVRRSNNV-------SRYRCGK-CGGK 142


                   ....
gi 1907189331  167 YIKI 170
Cdd:smart00731 143 LILI 146
ZnF_Rad18 smart00734
Rad18-like CCHC zinc finger; Yeast Rad18p functions with Rad5p in error-free post-replicative ...
 419-442 4.86e-06

Rad18-like CCHC zinc finger; Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.


:

Pssm-ID: 128973 [Multi-domain]  Cd Length: 24  Bit Score: 42.98  E-value: 4.86e-06
                           10        20
                   ....*....|....*....|....
gi 1907189331  419 LVNCPVCQGVVVESQINEHLDRCL 442
Cdd:smart00734   1 LVQCPVCFREVPENLINSHLDSCL 24
RAD18 super family cl35000
RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms];
375-442 1.37e-04

RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms];


The actual alignment was detected with superfamily member COG5432:

Pssm-ID: 227719 [Multi-domain]  Cd Length: 391  Bit Score: 43.92  E-value: 1.37e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1907189331 375 KRPRLEDRTA-LDTIKEQTQSGGDLRSSSQPTAASAPQSLSSQ----------RRLVNCPVCQGVVVESQINEHLDRCL 442
Cdd:COG5432   105 PRPIKEERPCrWETVIAQDSASGDEEWEDDLASNSSPASIAKKtsrdskkrkrEDLVHCPACSNLVPHNQINQHLDSCL 183
 
Name Accession Description Interval E-value
SprT smart00731
SprT homologues; Predicted to have roles in transcription elongation. Contains a conserved ...
 44-170 2.26e-25

SprT homologues; Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.


Pssm-ID: 214794 [Multi-domain]  Cd Length: 146  Bit Score: 100.86  E-value: 2.26e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907189331   44 PDLQALFLQFNDRFFWGQLEAVEVKWSVRMTLCAGICTYegrgGMCSIRLSEPLLKLRPRKDLVEV-------------- 109
Cdd:smart00731   1 QELTQRLEDASLRVFGRKLPHPKVVWNKRLRKTGGRCLL----KSAEIRLNPKLLTENGRDRLRETllhelchaalylfg 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907189331  110 -----------------------YHTFHDEVdeYRRHWWRCNGpCQHRqpyYGYVKRATNRapsvhdyWWADHQKtCGGT 166
Cdd:smart00731  77 rgyghgdewkrwmrqvnglfperCHTFLIES--VKKYPYRCTG-CGQR---YLRVRRSNNV-------SRYRCGK-CGGK 142


                   ....
gi 1907189331  167 YIKI 170
Cdd:smart00731 143 LILI 146
SprT-like pfam10263
SprT-like family; This family represents a domain found in eukaryotes and prokaryotes. The ...
 46-109 8.85e-19

SprT-like family; This family represents a domain found in eukaryotes and prokaryotes. The domain contains a characteriztic motif of the zinc metallopeptidases. This family includes the bacterial SprT protein.


Pssm-ID: 463033  Cd Length: 106  Bit Score: 81.16  E-value: 8.85e-19
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1907189331  46 LQALFLQFNDRFFWGQL-EAVEVKWSVRMTLCAGICTYEGRggmCSIRLSEPLLKLRPRKDLVEV 109
Cdd:pfam10263   1 LEELFQQLNDEFFRGFLlPGVSVRWSKRLRTTAGRAHLKRK---NEIRLSEPLLDENPEEFLRET 62
ZnF_Rad18 smart00734
Rad18-like CCHC zinc finger; Yeast Rad18p functions with Rad5p in error-free post-replicative ...
 419-442 4.86e-06

Rad18-like CCHC zinc finger; Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.


Pssm-ID: 128973 [Multi-domain]  Cd Length: 24  Bit Score: 42.98  E-value: 4.86e-06
                           10        20
                   ....*....|....*....|....
gi 1907189331  419 LVNCPVCQGVVVESQINEHLDRCL 442
Cdd:smart00734   1 LVQCPVCFREVPENLINSHLDSCL 24
RAD18 COG5432
RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms];
375-442 1.37e-04

RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms];


Pssm-ID: 227719 [Multi-domain]  Cd Length: 391  Bit Score: 43.92  E-value: 1.37e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1907189331 375 KRPRLEDRTA-LDTIKEQTQSGGDLRSSSQPTAASAPQSLSSQ----------RRLVNCPVCQGVVVESQINEHLDRCL 442
Cdd:COG5432   105 PRPIKEERPCrWETVIAQDSASGDEEWEDDLASNSSPASIAKKtsrdskkrkrEDLVHCPACSNLVPHNQINQHLDSCL 183
rad18 TIGR00599
DNA repair protein rad18; All proteins in this family for which functions are known are ...
 333-442 7.34e-03

DNA repair protein rad18; All proteins in this family for which functions are known are involved in nucleotide excision repair.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273165 [Multi-domain]  Cd Length: 397  Bit Score: 38.45  E-value: 7.34e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907189331 333 SRASLRNTSKVTAPASATVTSAAGTSAT-----ISREESGSEDQfLNKRPRLEDRTALDTIKEQTQSGGDLRSSSQPTAA 407
Cdd:TIGR00599  91 LRPSLLEFLRIPKTTPVENPDLAGPENSskielIEESESDGVDA-EDEDLQRSATSSRALAARSTADILQLSSDPSKRND 169

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1907189331 408 SAPQSLSSQRRLVNCPVCQGVVVESQINEHLD-RCL 442
Cdd:TIGR00599 170 ADYRSEPPNEGLVQCPICQQRMPEKAVERHLDsECL 205
 
Name Accession Description Interval E-value
SprT smart00731
SprT homologues; Predicted to have roles in transcription elongation. Contains a conserved ...
 44-170 2.26e-25

SprT homologues; Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.


Pssm-ID: 214794 [Multi-domain]  Cd Length: 146  Bit Score: 100.86  E-value: 2.26e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907189331   44 PDLQALFLQFNDRFFWGQLEAVEVKWSVRMTLCAGICTYegrgGMCSIRLSEPLLKLRPRKDLVEV-------------- 109
Cdd:smart00731   1 QELTQRLEDASLRVFGRKLPHPKVVWNKRLRKTGGRCLL----KSAEIRLNPKLLTENGRDRLRETllhelchaalylfg 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907189331  110 -----------------------YHTFHDEVdeYRRHWWRCNGpCQHRqpyYGYVKRATNRapsvhdyWWADHQKtCGGT 166
Cdd:smart00731  77 rgyghgdewkrwmrqvnglfperCHTFLIES--VKKYPYRCTG-CGQR---YLRVRRSNNV-------SRYRCGK-CGGK 142


                   ....
gi 1907189331  167 YIKI 170
Cdd:smart00731 143 LILI 146
SprT-like pfam10263
SprT-like family; This family represents a domain found in eukaryotes and prokaryotes. The ...
 46-109 8.85e-19

SprT-like family; This family represents a domain found in eukaryotes and prokaryotes. The domain contains a characteriztic motif of the zinc metallopeptidases. This family includes the bacterial SprT protein.


Pssm-ID: 463033  Cd Length: 106  Bit Score: 81.16  E-value: 8.85e-19
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1907189331  46 LQALFLQFNDRFFWGQL-EAVEVKWSVRMTLCAGICTYEGRggmCSIRLSEPLLKLRPRKDLVEV 109
Cdd:pfam10263   1 LEELFQQLNDEFFRGFLlPGVSVRWSKRLRTTAGRAHLKRK---NEIRLSEPLLDENPEEFLRET 62
ZnF_Rad18 smart00734
Rad18-like CCHC zinc finger; Yeast Rad18p functions with Rad5p in error-free post-replicative ...
 419-442 4.86e-06

Rad18-like CCHC zinc finger; Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.


Pssm-ID: 128973 [Multi-domain]  Cd Length: 24  Bit Score: 42.98  E-value: 4.86e-06
                           10        20
                   ....*....|....*....|....
gi 1907189331  419 LVNCPVCQGVVVESQINEHLDRCL 442
Cdd:smart00734   1 LVQCPVCFREVPENLINSHLDSCL 24
RAD18 COG5432
RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms];
375-442 1.37e-04

RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms];


Pssm-ID: 227719 [Multi-domain]  Cd Length: 391  Bit Score: 43.92  E-value: 1.37e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1907189331 375 KRPRLEDRTA-LDTIKEQTQSGGDLRSSSQPTAASAPQSLSSQ----------RRLVNCPVCQGVVVESQINEHLDRCL 442
Cdd:COG5432   105 PRPIKEERPCrWETVIAQDSASGDEEWEDDLASNSSPASIAKKtsrdskkrkrEDLVHCPACSNLVPHNQINQHLDSCL 183
rad18 TIGR00599
DNA repair protein rad18; All proteins in this family for which functions are known are ...
 333-442 7.34e-03

DNA repair protein rad18; All proteins in this family for which functions are known are involved in nucleotide excision repair.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273165 [Multi-domain]  Cd Length: 397  Bit Score: 38.45  E-value: 7.34e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907189331 333 SRASLRNTSKVTAPASATVTSAAGTSAT-----ISREESGSEDQfLNKRPRLEDRTALDTIKEQTQSGGDLRSSSQPTAA 407
Cdd:TIGR00599  91 LRPSLLEFLRIPKTTPVENPDLAGPENSskielIEESESDGVDA-EDEDLQRSATSSRALAARSTADILQLSSDPSKRND 169

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1907189331 408 SAPQSLSSQRRLVNCPVCQGVVVESQINEHLD-RCL 442
Cdd:TIGR00599 170 ADYRSEPPNEGLVQCPICQQRMPEKAVERHLDsECL 205
 
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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