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 2YKO | pdb_00002yko

Structure of the human LINE-1 ORF1p trimer

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
CSCOP2B SuperfamilyL1 transposable element trimerization domain-like 8052169 3002097 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyL1ORF1p CTD-like 8052163 3002096 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyRNA-binding domain, RBD 8052166 3000110 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyL1 transposable element trimerization domain-like 8052169 3002097 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyRNA-binding domain, RBD 8052166 3000110 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyL1ORF1p CTD-like 8052163 3002096 SCOP2B (2022-06-29)
ASCOP2 FamilyL1 transposable element trimerization domain-like 8047046 4005419 SCOP2 (2022-06-29)
ASCOP2 FamilyL1 transposable element C-terminal dsRBD domain-like 8047047 4005420 SCOP2 (2022-06-29)
ASCOP2 FamilyL1 transposable element RRM domain-like 8051106 4007201 SCOP2 (2022-06-29)
ASCOP2 SuperfamilyL1 transposable element trimerization domain-like 8052169 3002097 SCOP2 (2022-06-29)
ASCOP2 SuperfamilyL1ORF1p CTD-like 8052163 3002096 SCOP2 (2022-06-29)
ASCOP2 SuperfamilyRNA-binding domain, RBD 8052166 3000110 SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
CLdh_1_Ne2ykoC2 A: alpha arraysX: beta-propeller-likeH: beta-pinwheelT: beta-pinwheelF: Ldh_1_NECOD (v295.2)
BLdh_1_Ne2ykoB2 A: alpha arraysX: beta-propeller-likeH: beta-pinwheelT: beta-pinwheelF: Ldh_1_NECOD (v295.2)
ATnp_22_dsRBDe2ykoA2 A: alpha arraysX: dsRBD-likeH: C-terminal domain in LINE-1 ORF1pT: C-terminal domain in LINE-1 ORF1pF: Tnp_22_dsRBDECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
C1.20.5.390 Mainly Alpha Up-down Bundle Single alpha-helices involved in coiled-coils or other helix-helix interfaces L1 transposable element, trimerization domainCATH (4.3.0)
C3.30.70.1820 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits L1 transposable element, RRM domainCATH (4.3.0)
C3.30.250.20 Alpha Beta 2-Layer Sandwich Rec A Protein domain 2CATH (4.3.0)
B1.20.5.390 Mainly Alpha Up-down Bundle Single alpha-helices involved in coiled-coils or other helix-helix interfaces L1 transposable element, trimerization domainCATH (4.3.0)
B3.30.70.1820 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits L1 transposable element, RRM domainCATH (4.3.0)
B3.30.250.20 Alpha Beta 2-Layer Sandwich Rec A Protein domain 2CATH (4.3.0)
A1.20.5.390 Mainly Alpha Up-down Bundle Single alpha-helices involved in coiled-coils or other helix-helix interfaces L1 transposable element, trimerization domainCATH (4.3.0)
A3.30.70.1820 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits L1 transposable element, RRM domainCATH (4.3.0)
A3.30.250.20 Alpha Beta 2-Layer Sandwich Rec A Protein domain 2CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B, C
PF17489L1 transposable element trimerization domain (Tnp_22_trimer)L1 transposable element trimerization domain- Coiled-coil
A, B, C
PF02994L1 transposable element RBD-like domain (Transposase_22)L1 transposable element RBD-like domainThis entry represents the RBD-like domain. Domain
A, B, C
PF17490L1 transposable element dsRBD-like domain (Tnp_22_dsRBD)L1 transposable element dsRBD-like domainThis entry represents the double stranded RNA-binding-like domain. Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B, C
LINE-1 ORF1P

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B, C
IPR035301L1 transposable element, trimerization domainDomain
A, B, C
IPR043636L1 transposable element, RRM domainDomain
A, B, C
IPR004244Transposase, L1Family
A, B, C
IPR042566L1 transposable element, C-terminal domainHomologous Superfamily
A, B, C
IPR035300L1 transposable element, dsRBD-like domainDomain