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Conserved domains on  [gi|19115416|ref|NP_594504|]
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iron-sulfur cluster biogenesis IBA57-like protein [Schizosaccharomyces pombe]

Protein Classification

YgfZ/GcvT domain-containing protein( domain architecture ID 11417472)

YgfZ/GcvT domain-containing protein with similarity to Escherichia coli tRNA-modifying protein YgfZ and GcvT family member, mitochondrial putative transferase CAF17

CATH:  3.30.1360.120
Gene Ontology:  GO:0016740|GO:0005739|GO:0016226

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YgfZ COG0354
Folate-binding protein YgfZ, synthesis and repair of Fe-S clusters [Posttranslational ...
 27-292 1.44e-37

Folate-binding protein YgfZ, synthesis and repair of Fe-S clusters [Posttranslational modification, protein turnover, chaperones];


:

Pssm-ID: 440123 [Multi-domain]  Cd Length: 317  Bit Score: 136.17  E-value: 1.44e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115416  27 SSKSLIRVEGVDAVKFLQGLTTNKITL---DNPVYTGFLNTQGRVLFDSFIYPkvsnngteneRSDELYVEIDKVAESDF 103
Cdd:COG0354  21 SDRGVIRVSGPDALKFLQGQLTNDVRAlapGQARLAALLTPKGRVLADFRVFR----------DGDGYLLDVPADLAEAL 90

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115416 104 LKHLKKYNLRSRCSIAKIpSEELSIKVIWDVKEESRLKDTVAYAkDP-----------RFSKQRL-LRMIVPTSTCTSSS 171
Cdd:COG0354  91 LKRLKKYRLRSKVEIEDA-SDDLAVLGLAGPAAAAALAALGALA-DPaahavadggtiRLPRPAPgYLLIVPAAAAAALW 168

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115416 172 SGS--------LDDYKVFRYRNGIPEGPQEIIPSiSFPLESNMDWMKGIDFHKGCYLGQELTVRTYYTGVTRKRIFPFII 243
Cdd:COG0354 169 EALaagaapagSAAWEALRIAAGIPRIGADTDED-FIPQELNLDALGGVSFKKGCYPGQETVARMHYRGKVKRRLVLLHL 247

                       250       260       270       280       290
                ....*....|....*....|....*....|....*....|....*....|....
gi 19115416 244 PNyednpSQVIEPSAPlsiVAKQGEPVsrrspGKIIAI-----LGKVGLALVRL 292
Cdd:COG0354 248 DG-----SALPAPGTE---LLAGGRPV-----GTVTSAarhpeGGPIALAVLRR 288
 
Name Accession Description Interval E-value
YgfZ COG0354
Folate-binding protein YgfZ, synthesis and repair of Fe-S clusters [Posttranslational ...
 27-292 1.44e-37

Folate-binding protein YgfZ, synthesis and repair of Fe-S clusters [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440123 [Multi-domain]  Cd Length: 317  Bit Score: 136.17  E-value: 1.44e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115416  27 SSKSLIRVEGVDAVKFLQGLTTNKITL---DNPVYTGFLNTQGRVLFDSFIYPkvsnngteneRSDELYVEIDKVAESDF 103
Cdd:COG0354  21 SDRGVIRVSGPDALKFLQGQLTNDVRAlapGQARLAALLTPKGRVLADFRVFR----------DGDGYLLDVPADLAEAL 90

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115416 104 LKHLKKYNLRSRCSIAKIpSEELSIKVIWDVKEESRLKDTVAYAkDP-----------RFSKQRL-LRMIVPTSTCTSSS 171
Cdd:COG0354  91 LKRLKKYRLRSKVEIEDA-SDDLAVLGLAGPAAAAALAALGALA-DPaahavadggtiRLPRPAPgYLLIVPAAAAAALW 168

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115416 172 SGS--------LDDYKVFRYRNGIPEGPQEIIPSiSFPLESNMDWMKGIDFHKGCYLGQELTVRTYYTGVTRKRIFPFII 243
Cdd:COG0354 169 EALaagaapagSAAWEALRIAAGIPRIGADTDED-FIPQELNLDALGGVSFKKGCYPGQETVARMHYRGKVKRRLVLLHL 247

                       250       260       270       280       290
                ....*....|....*....|....*....|....*....|....*....|....
gi 19115416 244 PNyednpSQVIEPSAPlsiVAKQGEPVsrrspGKIIAI-----LGKVGLALVRL 292
Cdd:COG0354 248 DG-----SALPAPGTE---LLAGGRPV-----GTVTSAarhpeGGPIALAVLRR 288
ygfZ_signature TIGR03317
folate-binding protein YgfZ; YgfZ is a protein from Escherichia coli, homologous to the ...
 176-243 2.55e-26

folate-binding protein YgfZ; YgfZ is a protein from Escherichia coli, homologous to the glycine cleavage system T protein, or aminomethyltransferase, GcvT (TIGR00528). Homologs of YgfZ other than members of the GcvT family share a well-conserved signature region that includes the motif, KGCYxGQE. Elsewhere, sequence diverge and length variation are substantial. Members of this family are mostly bacterial, largely absent from the Firmicutes and otherwise usually present. A few eukaryotic examples are found among the Apicomplexa, and a few archaeal sequences are found. Two functions implicated for this folate-binding protein are RNA modification (a function likely to be conserved) and replication initiation (a function likely to be highly variable). Many members of this family are, at the time of construction of this model, misnamed as the glycine cleavage system T protein. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]


Pssm-ID: 274518 [Multi-domain]  Cd Length: 67  Bit Score: 99.15  E-value: 2.55e-26
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 19115416   176 DDYKVFRYRNGIPEGPQEIIPSiSFPLESNMDWMKGIDFHKGCYLGQELTVRTYYTGVTRKRIFPFII 243
Cdd:TIGR03317   1 EAWELLRIAAGIPEGGAETSGE-FIPQELNLDALGGVSFDKGCYVGQEVVARMHYRGKVKRRLVPLSL 67
GCV_T pfam01571
Aminomethyltransferase folate-binding domain; This is a family of glycine cleavage T-proteins, ...
 32-75 2.48e-05

Aminomethyltransferase folate-binding domain; This is a family of glycine cleavage T-proteins, part of the glycine cleavage multienzyme complex (GCV) found in bacteria and the mitochondria of eukaryotes. GCV catalyzes the catabolism of glycine in eukaryotes. The T-protein is an aminomethyl transferase.


Pssm-ID: 460255  Cd Length: 254  Bit Score: 44.89  E-value: 2.48e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 19115416    32 IRVEGVDAVKFLQGLTTNKITLDNP---VYTGFLNTQGRVLFDSFIY 75
Cdd:pfam01571  50 IEVSGPDAAAFLQRLTTNDVSKLKPgraTYTLMLNERGGVIDDLTVY 96
gcvT PRK00389
glycine cleavage system aminomethyltransferase GcvT;
32-81 9.52e-04

glycine cleavage system aminomethyltransferase GcvT;


Pssm-ID: 234742 [Multi-domain]  Cd Length: 359  Bit Score: 40.49  E-value: 9.52e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 19115416   32 IRVEGVDAVKFLQGLTTN---KITLDNPVYTGFLNTQGRVLFDSFIYpKVSNN 81
Cdd:PRK00389  55 VDVTGPDALAFLQYLLANdvsKLKPGKAQYTCMLNEDGGVIDDLIVY-KLSED 106
 
Name Accession Description Interval E-value
YgfZ COG0354
Folate-binding protein YgfZ, synthesis and repair of Fe-S clusters [Posttranslational ...
 27-292 1.44e-37

Folate-binding protein YgfZ, synthesis and repair of Fe-S clusters [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440123 [Multi-domain]  Cd Length: 317  Bit Score: 136.17  E-value: 1.44e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115416  27 SSKSLIRVEGVDAVKFLQGLTTNKITL---DNPVYTGFLNTQGRVLFDSFIYPkvsnngteneRSDELYVEIDKVAESDF 103
Cdd:COG0354  21 SDRGVIRVSGPDALKFLQGQLTNDVRAlapGQARLAALLTPKGRVLADFRVFR----------DGDGYLLDVPADLAEAL 90

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115416 104 LKHLKKYNLRSRCSIAKIpSEELSIKVIWDVKEESRLKDTVAYAkDP-----------RFSKQRL-LRMIVPTSTCTSSS 171
Cdd:COG0354  91 LKRLKKYRLRSKVEIEDA-SDDLAVLGLAGPAAAAALAALGALA-DPaahavadggtiRLPRPAPgYLLIVPAAAAAALW 168

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115416 172 SGS--------LDDYKVFRYRNGIPEGPQEIIPSiSFPLESNMDWMKGIDFHKGCYLGQELTVRTYYTGVTRKRIFPFII 243
Cdd:COG0354 169 EALaagaapagSAAWEALRIAAGIPRIGADTDED-FIPQELNLDALGGVSFKKGCYPGQETVARMHYRGKVKRRLVLLHL 247

                       250       260       270       280       290
                ....*....|....*....|....*....|....*....|....*....|....
gi 19115416 244 PNyednpSQVIEPSAPlsiVAKQGEPVsrrspGKIIAI-----LGKVGLALVRL 292
Cdd:COG0354 248 DG-----SALPAPGTE---LLAGGRPV-----GTVTSAarhpeGGPIALAVLRR 288
ygfZ_signature TIGR03317
folate-binding protein YgfZ; YgfZ is a protein from Escherichia coli, homologous to the ...
 176-243 2.55e-26

folate-binding protein YgfZ; YgfZ is a protein from Escherichia coli, homologous to the glycine cleavage system T protein, or aminomethyltransferase, GcvT (TIGR00528). Homologs of YgfZ other than members of the GcvT family share a well-conserved signature region that includes the motif, KGCYxGQE. Elsewhere, sequence diverge and length variation are substantial. Members of this family are mostly bacterial, largely absent from the Firmicutes and otherwise usually present. A few eukaryotic examples are found among the Apicomplexa, and a few archaeal sequences are found. Two functions implicated for this folate-binding protein are RNA modification (a function likely to be conserved) and replication initiation (a function likely to be highly variable). Many members of this family are, at the time of construction of this model, misnamed as the glycine cleavage system T protein. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]


Pssm-ID: 274518 [Multi-domain]  Cd Length: 67  Bit Score: 99.15  E-value: 2.55e-26
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 19115416   176 DDYKVFRYRNGIPEGPQEIIPSiSFPLESNMDWMKGIDFHKGCYLGQELTVRTYYTGVTRKRIFPFII 243
Cdd:TIGR03317   1 EAWELLRIAAGIPEGGAETSGE-FIPQELNLDALGGVSFDKGCYVGQEVVARMHYRGKVKRRLVPLSL 67
GCV_T pfam01571
Aminomethyltransferase folate-binding domain; This is a family of glycine cleavage T-proteins, ...
 32-75 2.48e-05

Aminomethyltransferase folate-binding domain; This is a family of glycine cleavage T-proteins, part of the glycine cleavage multienzyme complex (GCV) found in bacteria and the mitochondria of eukaryotes. GCV catalyzes the catabolism of glycine in eukaryotes. The T-protein is an aminomethyl transferase.


Pssm-ID: 460255  Cd Length: 254  Bit Score: 44.89  E-value: 2.48e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 19115416    32 IRVEGVDAVKFLQGLTTNKITLDNP---VYTGFLNTQGRVLFDSFIY 75
Cdd:pfam01571  50 IEVSGPDAAAFLQRLTTNDVSKLKPgraTYTLMLNERGGVIDDLTVY 96
GcvT COG0404
Glycine cleavage system protein T (aminomethyltransferase) [Amino acid transport and ...
 32-75 2.26e-04

Glycine cleavage system protein T (aminomethyltransferase) [Amino acid transport and metabolism]; Glycine cleavage system protein T (aminomethyltransferase) is part of the Pathway/BioSystem: Glycine cleavage


Pssm-ID: 440173 [Multi-domain]  Cd Length: 372  Bit Score: 42.38  E-value: 2.26e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*..
gi 19115416  32 IRVEGVDAVKFLQGLTTNKITLDNP---VYTGFLNTQGRVLFDSFIY 75
Cdd:COG0404  58 IEVTGPDAAAFLDRLVTNDVSKLKPgraRYTLMLNEDGGIIDDLTVY 104
gcvT PRK00389
glycine cleavage system aminomethyltransferase GcvT;
32-81 9.52e-04

glycine cleavage system aminomethyltransferase GcvT;


Pssm-ID: 234742 [Multi-domain]  Cd Length: 359  Bit Score: 40.49  E-value: 9.52e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 19115416   32 IRVEGVDAVKFLQGLTTN---KITLDNPVYTGFLNTQGRVLFDSFIYpKVSNN 81
Cdd:PRK00389  55 VDVTGPDALAFLQYLLANdvsKLKPGKAQYTCMLNEDGGVIDDLIVY-KLSED 106
PRK09559 PRK09559
putative global regulator; Reviewed
 201-236 1.16e-03

putative global regulator; Reviewed


Pssm-ID: 236567 [Multi-domain]  Cd Length: 327  Bit Score: 40.05  E-value: 1.16e-03
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 19115416  201 PLESNMDWMKGIDFHKGCYLGQELTVRTYYTGVTRK 236
Cdd:PRK09559 211 PQATNLQALGGISFKKGCYTGQEMVARAKFRGANKR 246
 
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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