Conserved Protein Domain Family
OBF_DNA_ligase_LigC

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cd07970: OBF_DNA_ligase_LigC 
The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigC is a DNA-binding module that is part of the catalytic core unit.
ATP-dependent polynucleotide ligases catalyze phosphodiester bond formation using nicked nucleic acid substrates with the high energy nucleotide of ATP as a cofactor in a three step reaction mechanism. DNA ligases play a vital role in the diverse processes of DNA replication, recombination and repair. ATP-dependent ligases are present in many organisms such as viruses, bacteriohages, eukarya, archaea and bacteria. Bacterial DNA ligases are divided into two broad classes: NAD-dependent and ATP-dependent. All bacterial species have a NAD-dependent DNA ligase (LigA). Some bacterial genomes contain multiple genes for DNA ligases that are predicted to use ATP as their cofactor, including Mycobacterium tuberculosis LigB, LigC, and LigD. This group is composed of Mycobacterium tuberculosis LigC and similar bacterial proteins. ATP dependent DNA ligases have a highly modular architecture consisting of a unique arrangement of two or more discrete domains including a DNA-binding domain, an adenylation (nucleotidyltransferase (NTase)) domain, and an oligonucleotide/oligosaccharide binding (OB)-fold domain. The adenylation and C-terminal OB-fold domains comprise a catalytic core unit that is common to most members of the ATP-dependent DNA ligase family. The catalytic core unit contains six conserved sequence motifs (I, III, IIIa, IV, V and VI) that define this family of related nucleotidyltransferases. The OB-fold domain contacts the nicked DNA substrate and is required for the ATP-dependent DNA ligase nucleotidylation step. The RxDK motif (motif VI), which is essential for ATP hydrolysis, is located in the OB-fold domain.
Statistics
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PSSM-Id: 153439
View PSSM: cd07970
Aligned: 21 rows
Threshold Bit Score: 116.648
Threshold Setting Gi: 227378046
Created: 27-Aug-2009
Updated: 2-Oct-2020
Structure
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Aligned Rows:
 
DNA binding
Feature 1:DNA binding site [nucleic acid binding site]
Evidence:

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                            #               ## ######                                   
O69698       204 RTADCVVAGYRVHKsgsDAIGSLLLGLYQEDgqLASVGVIGAFPMAERRRLLTELQPLVTSFddhpwnwaa--------- 274 Mycobacterium t...
ZP_03890627  235 ETTEVLAGGVIGPL---ERPSQLVAGRYRDGe-LVVVGRTSPLSPAQSAELADVLTPAGPDHpw---------------- 294 Geodermatophilu...
YP_003116565 203 RTADVVVAGYRLHKt-gPIVGSLMLGLYGEDgiLNYVGGSSAFTMARRKELIDELAPYLLPEgeshpwvdapdegdgdsg 281 Catenulispora a...
NP_828839    200 ETSEAIVGAVTGSP---ASPRTLLLGRYDDQgrLQYVGRTTTLARTAGAAVAGLLAPARRGHpw---------------- 260 Streptomyces av...
YP_001661618 195 ESTEGVVGAVTGPL---SAPDTLLLGRWDAEarFRMIARTTPLPATARREVGAVLTAAGDDHpw---------------- 255 Streptomyces sp...
ZP_05511490  211 DTTEGIVGAVTGTL---ARPQLLVLGRRDEAgrLHAIGRTVPLAPEVSRSVGEHLAPAGERHpw---------------- 271 Streptomyces sp. C
ZP_05004940  203 ITAEGIIGAVTGAV---TAPQSLLLGRLDTAgrLRLVGRSTPLPGKAAAELGGVLRPAGAEHpw---------------- 263 Streptomyces cl...
YP_002478427 212 ETLDIICGAVIGPI---TQPSEVVAGLILDGe-LRIVGRSTPLKMRESRELARWLQPPMGAHpwpa-------------- 273 Arthrobacter ch...
ZP_03864415  122 DSVEVIVGGVIGPI---ERPEVVIAGRYRDGe-LVVVGRTVPLNPAQSAELGTMLRPARCGHqw---------------- 181 Kribbella flavi...
CBG70354     211 DTTEAIVGGITGSP---DRPRTAFLGRYDQGgtLRLVARTTPLHPEVARGLSERLTAAGPAHpw---------------- 271 Streptomyces sc...
Feature 1                                                         # ## #               
O69698       275 --hvagqrtprKNEFSRWNVG-KDLSFVPLRPERVVEVRYDRMEGA--RFRHTAQFNRWRPDRDPRSCSY 339 Mycobacterium tuberculosis
ZP_03890627  295 ---------peRIGTGAFGGGrLSVPLTRVRPDVVVEVSADAALQAg-VFRHPLRFVRVRPDLTPEDVPA 354 Geodermatophilus obscurus...
YP_003116565 282 sgsgsdsehrrPGTLNRWNAG-KDVSFIALRPELVCEVRYDQLQGD--RFRHNGRFVRWRPDRDAASCSY 348 Catenulispora acidiphila ...
NP_828839    261 ---------tgWSFSAGWGTR-ETLNVTLVEPELVAEVGVDVARDTsgRWRHPARWHRARPDLSPADIPH 320 Streptomyces avermitilis ...
YP_001661618 256 ---------hgVTFSAGWGTR-LPLPHVPVEPALVAEVTADTSVDDagRYRHPVKFLRLRDDIGPGSVPP 315 Streptomyces sp. HK1
ZP_05511490  272 ---------tgVRFASAWGTR-DVLDVTLVRPHLVAEVSADTSIDRggVFRHPMRFQRLRLDVSAEDVAG 331 Streptomyces sp. C
ZP_05004940  264 ---------wgRTFSARWGTK-EPLVFRPVVPDLVAEVEADTARDLg-RHRHPVRYLRLRNDMSPGDVRT 322 Streptomyces clavuligerus...
YP_002478427 274 --------ivkGRALDRFNRD-KEPVALTLVEPVVIEVSADTSWSGk-SFRHPLRILRARPELSPADVIS 333 Arthrobacter chlorophenol...
ZP_03864415  182 ---------pdEIASQRWGGKdSKKPLTKVRPEVVVEVSADAAIQAg-QWRHPLRLLRPRADLQPEDVSA 241 Kribbella flavida DSM 17836
CBG70354     272 ---------agARFTTSWGSR-TPLDVILVEPDTVTEIDVDTARDRg-AWRHPVGVLRIRYDMRPGDVAA 330 Streptomyces scabiei 87.22

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