Pseudomonas plecoglossicida NyZ12, RK21_RS04025

Cytoplasmic
Cytoplasmic Membrane
Periplasmic
Outer Membrane
Extracellular
Unknown

Gene Ontology

Ontology Accession Term GO Evidence Evidence Ontology (ECO) Code Reference Comments
Biological Process GO:0006260 DNA replication
ISM
Inferred from Sequence Model
Term mapped from: InterPro:PF03120
 ECO:0000259
match to InterPro signature evidence used in automatic assertion
Biological Process GO:0006281 DNA repair
ISM
Inferred from Sequence Model
Term mapped from: InterPro:PF03120
 ECO:0000259
match to InterPro signature evidence used in automatic assertion
Molecular Function GO:0003911 DNA ligase (NAD+) activity
ISM
Inferred from Sequence Model
Term mapped from: InterPro:PF01653
 ECO:0000259
match to InterPro signature evidence used in automatic assertion
Molecular Function GO:0003677 DNA binding
ISM
Inferred from Sequence Model
Term mapped from: InterPro:SM00278
 ECO:0000259
match to InterPro signature evidence used in automatic assertion

Functional Classifications Manually Assigned by PseudoCAP

Pathways

Database Xref Pathway Version Evidence PMID
KEGG ppj03430 Mismatch repair 81.0+/01-23, Jan 17 ECO:0000249
sequence similarity evidence used in automatic assertion
KEGG ppj03410 Base excision repair 81.0+/01-23, Jan 17 ECO:0000249
sequence similarity evidence used in automatic assertion
KEGG ppj03420 Nucleotide excision repair 81.0+/01-23, Jan 17 ECO:0000249
sequence similarity evidence used in automatic assertion
KEGG ppj03030 DNA replication 81.0+/01-23, Jan 17 ECO:0000249
sequence similarity evidence used in automatic assertion

Functional Predictions from Interpro

Analysis Accession Description Interpro Accession Interpro Description Amino Acid Start Amino Acid Stop E-value
FunFam G3DSA:2.40.50.140:FF:000012 DNA ligase - - 315 388 5.9E-35
Gene3D G3DSA:3.40.50.10190 BRCT domain IPR036420 BRCT domain superfamily 686 770 7.6E-24
SUPERFAMILY SSF47781 RuvA domain 2-like IPR010994 RuvA domain 2-like 601 686 1.07E-9
NCBIfam TIGR00575 JCVI: DNA ligase (NAD(+)) LigA IPR001679 NAD-dependent DNA ligase 10 604 0.0
Gene3D G3DSA:1.10.150.20 - - - 515 595 6.5E-24
Pfam PF01653 NAD-dependent DNA ligase adenylation domain IPR013839 NAD-dependent DNA ligase, adenylation 2 315 2.1E-129
Pfam PF03120 NAD-dependent DNA ligase OB-fold domain IPR004150 NAD-dependent DNA ligase, OB-fold 320 396 1.3E-35
Gene3D G3DSA:1.10.287.610 Helix hairpin bin - - 1 64 8.4E-29
Gene3D G3DSA:3.30.470.30 DNA ligase/mRNA capping enzyme - - 65 313 2.5E-101
SMART SM00292 BRCT_7 IPR001357 BRCT domain 695 772 3.2E-9
FunFam G3DSA:1.10.287.610:FF:000002 DNA ligase - - 1 63 8.8E-29
PIRSF PIRSF001604 LigA IPR001679 NAD-dependent DNA ligase 602 773 8.4E-33
SMART SM00278 HhH1_4 IPR003583 Helix-hairpin-helix DNA-binding motif, class 1 490 509 820.0
SUPERFAMILY SSF47781 RuvA domain 2-like IPR010994 RuvA domain 2-like 402 593 1.22E-50
Gene3D G3DSA:1.10.150.20 - - - 440 514 5.4E-27
SUPERFAMILY SSF56091 DNA ligase/mRNA capping enzyme, catalytic domain - - 2 314 1.98E-120
Pfam PF03119 NAD-dependent DNA ligase C4 zinc finger domain IPR004149 Zinc-finger, NAD-dependent DNA ligase C4-type 405 444 3.5E-10
SUPERFAMILY SSF50249 Nucleic acid-binding proteins IPR012340 Nucleic acid-binding, OB-fold 317 398 7.37E-29
Pfam PF14520 Helix-hairpin-helix domain - - 456 509 0.003
Gene3D G3DSA:1.10.150.20 - - - 608 685 2.0E-7
FunFam G3DSA:1.10.150.20:FF:000007 DNA ligase - - 440 514 3.9E-28
CDD cd17748 BRCT_DNA_ligase_like - - 698 765 6.28244E-24
PIRSF PIRSF001604 LigA IPR001679 NAD-dependent DNA ligase 1 612 0.0
Gene3D G3DSA:2.40.50.140 - IPR012340 Nucleic acid-binding, OB-fold 315 388 8.1E-34
Gene3D G3DSA:6.20.10.30 - - - 389 439 7.7E-14
PANTHER PTHR23389 CHROMOSOME TRANSMISSION FIDELITY FACTOR 18 - - 16 749 1.5E-47
Pfam PF12826 Helix-hairpin-helix motif IPR041663 DisA/LigA, helix-hairpin-helix motif 520 583 3.0E-19
SMART SM00532 ligaN3 IPR013840 NAD-dependent DNA ligase, N-terminal 2 458 0.0
Pfam PF00533 BRCA1 C Terminus (BRCT) domain IPR001357 BRCT domain 695 763 1.4E-10
Hamap MF_01588 DNA ligase [ligA]. IPR001679 NAD-dependent DNA ligase 1 769 52.62075
FunFam G3DSA:1.10.150.20:FF:000006 DNA ligase - - 515 593 3.8E-23
FunFam G3DSA:3.30.470.30:FF:000001 DNA ligase - - 64 313 1.0E-109
SMART SM00278 HhH1_4 IPR003583 Helix-hairpin-helix DNA-binding motif, class 1 456 475 3.0
CDD cd00114 LIGANc IPR013839 NAD-dependent DNA ligase, adenylation 5 315 0.0
SUPERFAMILY SSF52113 BRCT domain IPR036420 BRCT domain superfamily 696 770 3.92E-17
SMART SM00278 HhH1_4 IPR003583 Helix-hairpin-helix DNA-binding motif, class 1 522 541 140.0

Search for additional functional domains at the NCBI CDD database website. Go to this protein's amino acid sequence and follow the link.