Evolutionary classification of protein domain structures

alpha arraysalpha-helix arrays with mainly perpendicular helices

alpha bundlesalpha-helix bundles with mainly parallel helices

alpha superhelicesrepeating alpha-helix hairpins form a superhelix

alpha duplicates or obligate multimersalpha duplicates or monomers associate together to form a compact domain

alpha complex topologyalpha domain with complex and unique topology that cannot be described as array or bundle or superhelix

beta barrelssingle beta-sheet folded upon itself to form a barrel

beta meanderssingle beta-sheet with mainly meander topology

beta sandwichestwo beta-sheets stacked together to form a sandwich

beta duplicates or obligate multimersbeta duplicates or monomers associate together to form a compact domain

beta complex topologybeta domains with complex and unique topology that cannot be described as barrel or sandwich or meander

a+b two layersone alpha-helix layer and one beta-sheet layer

a+b three layersone mainly antiparallel beta-sheet layer sandwiched between two alpha-helix layers

a+b four layerstwo beta-sheet layers sandwiched between two alpha-helix layers

a+b complex topologyalpha and beta domain with complex and unique topology that cannot be described in layers

a+b duplicates or obligate multimersalpha and beta duplicates or monomers associated together to form a compact domain

a/b barrelsrepeating beta-alpha units form a barrel

a/b three-layered sandwichesrepeating beta-alpha units form a sandwich with a mainly parallel beta-sheet layer stacked between two alpha-helix layers

mixed a+b and a/balpha and beta domain consists of both a+b and a/b regions

few secondary structure elementsstabilized by cofactors or disulfides

X: barrettide A

X: Leech antihemostatic protein

X: Plant proteinase inhibitors

X: Embryo surrounding factor (ESF) peptides

X: Type AII lantibiotic bovicin HJ50

X: PSCD domain of pleuralin-1

X: Sea anemone toxin k-like

X: Trefoil/Plexin domain-like

X: Variant surface glycoprotein MITAT 1.2, VSG 221, C-terminal domain

X: PMP inhibitors

X: Ectatomin/elicitin

X: Bowman-Birk inhibitor, BBI-like

X: DnaJ/Hsp40 cysteine-rich domain

X: P-domain of calnexin/calreticulin

X: Thyroglobulin type-1 domain

X: Shisa 3 N-terminal domain

X: TAZ domain

X: Zn-binding domain in DNA polymerase III subunits

X: N-terminal domain of helicase-loading protein DnaI

X: Tim10/DDP

X: Sec-C motif

X: Vanabin-like

X: Crambin-like

X: Blood coagulation inhibitor (disintegrin)

X: Insulin-like

X: Cellophane-induced 1 (cin1) repeats

X: Conotoxin im17a

X: Conotoxin F14

X: con-ikot-ikot toxin

X: TB module/8-cys domain

X: Phospholipase A2, PLA2

X: Zn2/Cys6 DNA-binding domain

X: HIPIP (high potential iron protein)

X: Ezh2 MCSS domain

X: C-P lyase subunit PhnJ C-terminal Zn-binding domain

X: Pre-mRNA-splicing factor BUD31

X: Protein-only RNase P Zn-binding domain

X: RelA zinc-finger domain

X: Rubredoxin-like

binds one zinc with two CxxC motifs on two beta-hairpins

X: Zinc-binding domain in Junin virus envelope glycoprotein

X: FusB family Zn-binding domain

X: Zinc finger domain in hydrogenase maturation protein HypF

X: Ribosomal protein L36

X: Btk/CHORD zinc fingers

X: CHY zinc finger

X: Trm112p-like

X: beta-barrel domain in Capz

X: Zinc hairpin stack

X: HSP33 redox switch-like

X: Coronavirus NSP10-like

X: T-antigen specific domain-like

X: Late competence protein ComFB

X: RING/U-box-like

binds two zincs. one in the same way as rubredoxin, probably related to rubredoxin. the other in a similar way as glucocorticoid receptor

H: RING/U-box-like

T: RING/U-box

F: zf-C3HC4_2

F: COPI_C

F: CoV_NSP13_ZBD

F: Prok-RING_4

F: zf-rbx1

F: zf-RING_6

F: zf-RING_4

F: TRAF3_RING

F: zf-UBP_var

F: zf-RING_14

F: zf-UDP

F: SLX1_C

F: RINGv

F: zf-RING_2

F: zf-RING_10

F: zf-RING-like

F: zf-ANAPC11

F: zf-UBP

F: zf-P11

F: U-box

F: ZZ

F: zf-C3HC4

F: FANCL_C

F: zf-Nse

F: zf-RING_UBOX

Representatives:

e8a38A1[A:16-90] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: ZN ; X-RAY DIFFRACTION 2.196Å

e8a38C1[C:17-90] Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: ZN ; X-RAY DIFFRACTION 2.196Å

e8amsC1[C:10-92] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ligands: GOL,PE8,ZN ; X-RAY DIFFRACTION 2.295Å

e8amsD1[D:9-92] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ligands: GOL,PE8,ZN ; X-RAY DIFFRACTION 2.295Å

e8eazA2[A:257-347] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RanBP-type and C3HC4-type zinc finger-containing protein 1 ; ligands: ZN ; X-RAY DIFFRACTION 3.08Å

e8eazB2[B:266-347] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RanBP-type and C3HC4-type zinc finger-containing protein 1 ; ligands: ZN ; X-RAY DIFFRACTION 3.08Å

e2ct2A1[A:1-88] Image Pymol Jmol Links: PDB, SCOP, CATH

Tripartite motif protein 32 ; ligands: ZN ; SOLUTION NMR

e5feyA1[A:7-90] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

E3 ubiquitin-protein ligase TRIM32 ; ligands: ZN ; X-RAY DIFFRACTION 2.23Å

e5feyB1[B:7-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

E3 ubiquitin-protein ligase TRIM32 ; ligands: ZN ; X-RAY DIFFRACTION 2.23Å

e5jw7B1[B:18-78] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

E3 ubiquitin-protein ligase TRIM56 ; ligands: ZN ; X-RAY DIFFRACTION 2.849Å

e5vzvB1[B:28-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

E3 ubiquitin-protein ligase TRIM23 ; ligands: ZN ; X-RAY DIFFRACTION 1.80Å

e5vzvA1[A:28-104] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

E3 ubiquitin-protein ligase TRIM23 ; ligands: ZN ; X-RAY DIFFRACTION 1.80Å

e5vzvC1[C:28-104] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

E3 ubiquitin-protein ligase TRIM23 ; ligands: ZN ; X-RAY DIFFRACTION 1.80Å

e5vzwF1[F:28-104] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

E3 ubiquitin-protein ligase TRIM23 ; ligands: ZN ; X-RAY DIFFRACTION 2.278Å

e5vzwG1[G:28-104] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

E3 ubiquitin-protein ligase TRIM23 ; ligands: ZN ; X-RAY DIFFRACTION 2.278Å

e5eyaF1[F:6-81] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tripartite motif-containing 25 variant ; ligands: ZN ; X-RAY DIFFRACTION 2.400Å

e5eyaG1[G:-2-83] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tripartite motif-containing 25 variant ; ligands: ZN ; X-RAY DIFFRACTION 2.400Å

e2ecvA1[A:1-85] Image Pymol Jmol Links: PDB, SCOP, CATH

Tripartite motif-containing protein 5 ; ligands: ZN ; SOLUTION NMR

e2ecwA1[A:1-85] Image Pymol Jmol Links: PDB, SCOP, CATH

Tripartite motif-containing protein 30 ; ligands: ZN ; SOLUTION NMR

e4tkpB1[B:5-82] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tripartite motif-containing protein 5 ; ligands: ZN ; X-RAY DIFFRACTION 2.08Å

e5ferA1[A:1-79] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

E3 ubiquitin/ISG15 ligase TRIM25 ; ligands: ZN ; X-RAY DIFFRACTION 2.34Å

e5ferD1[D:3-82] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

E3 ubiquitin/ISG15 ligase TRIM25 ; ligands: ZN ; X-RAY DIFFRACTION 2.34Å

e5olmA1[A:-2-84] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

E3 ubiquitin-protein ligase TRIM21 ; ligands: ZN ; X-RAY DIFFRACTION 1.95Å

e5olmB2[B:-2-84] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

E3 ubiquitin-protein ligase TRIM21 ; ligands: ZN ; X-RAY DIFFRACTION 1.95Å

e6fgaC1[C:4-82] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI