Score = 127 bits (321), Expect = 8e-31
Identities = 44/92 (47%), Positives = 58/92 (63%)
Query: 1 LFLDKHNILIADEVQSRGTIDHVPVYIREIVQRCLELSATSIILVHNHPSGNPNPSDADI 60
L+LD N LIA E S GT++ V+ REI +R L L+A ++IL HNHPSG+P PS ADI
Sbjct: 27 LYLDTQNRLIAVEEVSEGTVNSASVHPREIFKRALRLNAAAVILAHNHPSGDPTPSQADI 86
Query: 61 NMTQNIITTLNPLNIIVHDHIIIGKDAFVSFK 92
+T+ + L I + DHIIIG + SF
Sbjct: 87 ELTKRLKEAGELLGIRLLDHIIIGDGGYFSFA 118
This family was named initially with reference to the E. coli radC102 mutation which suggested that RadC was involved in repair of DNA lesions. However the relevant mutation has subsequently been shown to be in recG, where radC is in fact an allele of recG. In addition, a personal communication from Claverys, J-P, et al, indicates a total failure of all attempts to characterize a radiation-related function for RadC in Streptococcus pneumoniae, suggesting that it is not involved in repair of DNA lesions, in recombination during transformation, in gene conversion, nor in mismatch repair. Length = 123
>gnl|CDD|161955 TIGR00608, radc, DNA repair protein radc
Score = 129 bits (326), Expect = 2e-31
Identities = 41/92 (44%), Positives = 55/92 (59%)
Query: 1 LFLDKHNILIADEVQSRGTIDHVPVYIREIVQRCLELSATSIILVHNHPSGNPNPSDADI 60
L LD N LIA E S GT++ V+ REI + L +A +IIL HNHPSG+P PS DI
Sbjct: 22 LLLDTKNRLIAVETISVGTLNSSLVHPREIFKEALRHNAAAIILAHNHPSGDPTPSREDI 81
Query: 61 NMTQNIITTLNPLNIIVHDHIIIGKDAFVSFK 92
+T+ + L I + DHII+G + SF+
Sbjct: 82 ELTKRLKEAGELLGIRLLDHIIVGDGGYFSFR 113
Mov34 DUF2466 (also known as DNA repair protein RadC) domain of unknown function contains the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity. However, to date, the name RadC has been misleading and no function has been determined. Length = 113
This family contains bacterial and archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These catalytically active domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site. Length = 101
Conserved Domains in CDD Database Detected by HHsearch
Probab=100.00 E-value=1.9e-39 Score=253.65 Aligned_cols=97 Identities=45% Similarity=0.711 Sum_probs=95.8
Q ss_pred CCCCCCCCEEEEEEEEECCCCEEEECHHHHHHHHHHHCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEE
Q ss_conf 95156887734899854046358932999999999731968999955689898814778999999999997649889979
Q 537021.9.peg.8 1 LFLDKHNILIADEVQSRGTIDHVPVYIREIVQRCLELSATSIILVHNHPSGNPNPSDADINMTQNIITTLNPLNIIVHDH 80 (97)
Q Consensus 1 l~Ld~~~~li~~e~i~~Gt~~~~~v~~r~i~~~al~~~A~~vilaHNHPsG~~~PS~~Di~~T~~l~~a~~~l~i~llDH 80 (97)
T Consensus 27 l~Ld~~~~li~~~~i~~Gt~~~~~v~pReI~~~Al~~~A~~iIl~HNHPSG~~~PS~~D~~~T~~l~~a~~~l~I~llDH 106 (123)
T pfam04002 27 LYLDTQNRLIAVEEVSEGTVNSASVHPREIFKRALRLNAAAVILAHNHPSGDPTPSQADIELTKRLKEAGELLGIRLLDH 106 (123)
T ss_pred EEECCCCCEEEEEEECCCCCCEEEECHHHHHHHHHHCCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEE
T ss_conf 99879998898999735788467887999999999838986999831899989958879999999999997689879738
Q ss_pred EEECCCCEEEHHHCCCC
Q ss_conf 99859959974525899
Q 537021.9.peg.8 81 IIIGKDAFVSFKGLRII 97 (97)
Q Consensus 81 iIv~~~~~~S~re~gll 97 (97)
T Consensus 107 iIv~~~~~~S~~e~g~l 123 (123)
T pfam04002 107 IIIGDGGYFSFAEEGLL 123 (123)
T ss_pred EEEECCCEEEHHHCCCC
T ss_conf 99969939985534789
This family was named initially with reference to the E. coli radC102 mutation which suggested that RadC was involved in repair of DNA lesions. However the relevant mutation has subsequently been shown to be in recG, where radC is in fact an allele of recG. In addition, a personal communication from Claverys, J-P, et al, indicates a total failure of all attempts to characterize a radiation-related function for RadC in Streptococcus pneumoniae, suggesting that it is not involved in repair of DNA lesions, in recombination during transformation, in gene conversion, nor in mismatch repair.
>COG2003 RadC DNA repair proteins [DNA replication, recombination, and repair]
>2qlc_A DNA repair protein RADC homolog; MCSG, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics; HET: DNA; 2.30A {Chlorobium tepidum tls}
>2qlc_A (A:) DNA repair protein RADC homolog; MCSG, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics; HET: DNA; 2.30A {Chlorobium tepidum tls}