Conserved Protein Domain Family
OBF_DNA_ligase_IV

?
cd07968: OBF_DNA_ligase_IV 
The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase IV 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. There are three classes of ATP-dependent DNA ligases in eukaryotic cells (I, III and IV). DNA ligase IV is required for DNA non-homologous end joining pathways, including recombination of the V(D)J immunoglobulin gene segments in cells of the mammalian immune system. DNA ligase IV is stabilized by forming a complex with XRCC4, a nuclear phosphoprotein, which is phosphorylated by DNA-dependent protein kinase. DNA ligases have a highly modular architecture consisting of a unique arrangement of two or more discrete domains. The adenylation and C-terminal oligouncleotide/oligosaccharide binding (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
?
PSSM-Id: 153437
View PSSM: cd07968
Aligned: 45 rows
Threshold Bit Score: 148.862
Threshold Setting Gi: 91089809
Created: 27-Aug-2009
Updated: 2-Oct-2020
Structure
?
Aligned Rows:
 
DNA binding
Feature 1:DNA binding site [nucleic acid binding site]
Evidence:
  • Comment:based on similarity to other members of the family

Sequence Alignment
?
Format: Row Display: Color Bits: Type Selection:
Feature 1                                        #                        ## ######               
NP_001025987  464 MDELDLLIVGGYWgkg---------srgGMMSHFLCAVAETPApne--kptVFHSICRVGSGYTMKELYDLGLKLAKHWK 532  chicken
CAI39049      486 TDNCDLLVIGGYFgtqshrv--etfdefDRITHFLMGLAQKIDknqp-tnsVILPFVKVGTGFTDNELSTIRNKLRNHWI 562  Paramecium te...
XP_001019308  539 IDTLDLIVIGGYFgeksyki-ngigdwtDHITHYLVAVAKKIDlqnp-snsILVPFAKVGAGFTARDYADIKARMRDQWV 616  Tetrahymena t...
Q9LL84        449 GADLDVLIIGGYYgsg---------rrgGEVAQFLVALADRAEanv--yprRFMSFCRVGTGLSDDELNTVVSKLKPYFR 517  thale cress
CAL55777      537 SEDLDVLLIGGYYgage--------lrgGKISQFLVGIIESTNdptsahgiKIMSFCKVGTGISATELDDLRNRLGDYMH 608  Ostreococcus ...
EEH52394      593 TEDLDVVIIGGFYgtgr--------qrgGKIAEYLLGIVETPTrega-rptRVMSFSKVGTGMSVDVMQRLREKLGPHML 663  Micromonas pu...
XP_968774     429 VHDLDVILMGGCYs-------------sGKLNSFFVGVSSGAN--------TYLSFGRISSGLSDEQLDLLAEKFQSKGV 487  red flour beetle
CAJ20429      525 PDTLDLIAIGAFFaegqrrrevnsshliDHCSHFLLGVLEGDGgpe---akCVKSFCKVGTGFSLETLREIRDYLRLHCC 601  Toxoplasma go...
XP_310455     456 VVDFDLLVLGGFYnq-----------rrTYVNAFLVGVAARTTpr-----pEYLSVAKVSMGLGTLEWQQLNQTLRPHWR 519  Anopheles gam...
AAM51029      469 ITEFDVLIIGAFYnr-----------krTFVDSFLLGVLQPAPpgs---snRPEVFSIGVVANNTKQRGVLNHTLKPHWH 534  fruit fly
Feature 1                                                     # ## #      #### #                
NP_001025987  533 p--YNRKDPPcn----iLCGTEKPEMYIEPC-NSVIVQIKAAEIVNSDMYK--TDCTLRFPRIEKIREDKEWYECMTL 601  chicken
CAI39049      563 k-kQKPNYIPqn---wnPGVNDRPDVYINNPaHSIIFEVKAAEITKSNTFP--TDYTLRFPRCYKTRMDKDWYEMMTT 634  Paramecium tetr...
XP_001019308  617 rtnHSNKTPSfiiqnwkPGEKDKPDAYILSPqNSLILEIRATEIIQSSQYP--TNYTLRFPRFEKFRRDKDWFDCMKF 692  Tetrahymena the...
Q9LL84        518 kneHPKKAPPsfy-qvtNHSKERPDVWIDSPeKSIILSITSDIRTIRSEVFv-APYSLRFPRIDKVRYDKPWHECLDV 593  thale cress
CAL55777      609 r-eKPREMDYnv----tDAYSERPDVWIWPPqRSVVVRVKGDIRCIRSMTYa-TGYSLRFPRVTGIRYDKTWSDILTN 680  Ostreococcus tauri
EEH52394      664 p-aGKGYNPPtmy-dvtGAAAETPDVWIDRPeNSVVLTVKADIRLVRTMTFr-ADVSLRFPRVTGVRWDKPWHDALSN 738  Micromonas pusi...
XP_968774     488 d--FKSFSTEseg--klQFGRDRPDLYIEPH-NSCILQIRATELIRTTNDTvkCPYTLRFPRVLKIRDDKPVDECFSI 560  red flour beetle
CAJ20429      602 r--FQATQPPpwfdastGSATSRLDVTWPPS-CSFVMEVKGAELSQGKEFDm-GATLRFPVAVRPFRRDKAWHEAMSE 675  Toxoplasma gond...
XP_310455     520 tgpVDGGDGGav----vQCGQTAPDVWIAPA-DSITLQLRGSELVRSDSYA--AGYTIRFPRIVTVRPDKLPDEVCTL 590  Anopheles gambi...
AAM51029      535 d--VVNEPPPlwfhykpKERSGCPDLWIEPQ-NSVILQVKAADLAPNGAFF--TRKSLHFPRTEMKRDDKTWSECMTL 607  fruit fly

| Disclaimer | Privacy statement | Accessibility |
NCBI Home NCBI Search NCBI SiteMap