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

X: cradle loop barrel

Refs: Structure 14, 1489-1498; Current opinion in structural biology 18, 358-365

X: N-terminal domain of TAP-binding protein-related

X: P22 coat protein insertion domain

X: Catalytic domain of hepatitis C virus NS2-3 protease

X: N-terminal domain of minor coat protein pIII

X: uncharacterized protein RUMGNA_01417

X: Ribosomal protein L21p

X: Ribosomal protein L25-like

X: Uncharacterized protein from gene locus rrnAC0354

X: Replication foci-targeting sequence N-terminal domain

X: Protein CLP1 C-terminal domain

X: Glycoside hydrolase family 127 C-terminal domain

X: EV matrix protein

X: LigT-like

X: Urease metallochperone UreE-N

X: Target recognition domain of zoocin A

X: Polymyxin B resistance protein

X: Cuben fold of PcncAAAD

X: OB-fold

X: GroES-like

X: Uncharacterized protein Dsy0195

X: SH3

X: IL8-related

X: UL131A-like

X: UL128 C-terminal domain

X: Cell division protein ZapC N-terminal domain

X: hypothetical protein TTMA177

X: Hantavirus structural glycoprotein Gn ectodomain subdomain III

X: MutM N-terminal domain-like

X: Ribosomal protein L14-like

X: YopX, C-terminal domain-like

X: VC0467-like

X: MMP1218-like

X: MFPT repeat

X: Barrel domain in upper collar protein

X: barrel domain in putative modulator of DNA gyrase, PmbA/TldD

X: beta-barrel domain in acetyl-CoA synthetase-like proteins

X: FimD N-terminal domain-like

X: Micronemal adhesive repeat

X: Coronavirus NSP8-like

X: PDZ domain

X: all-beta domain in DNA topoisomerase IV alpha subunit

X: hypothetical protein PA3229

X: beta-clip

X: Cyclophilin-like

X: SPOC domain-like

X: Herpes virus serine proteinase, assemblin

X: Oncogene product-like

X: Mannose 6-phosphate receptor domain

X: FMT C-terminal domain-like

X: Sortase

X: XRCC4, N-terminal domain-like

H: XRCC4, N-terminal domain

T: XRCC4, N-terminal domain

F: PAXX

PF15384

F: SAS-6_N

PF16531

Representatives:

e3q0xA1[A:16-83,A:119-158] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CENTRIOLE PROTEIN ; X-RAY DIFFRACTION 3.02Å

e2y3wC2[C:2-66,C:102-144] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SPINDLE ASSEMBLY ABNORMAL PROTEIN 6 HOMOLOG ; X-RAY DIFFRACTION 1.98Å

e2y3wB2[B:1-64,B:100-144] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SPINDLE ASSEMBLY ABNORMAL PROTEIN 6 HOMOLOG ; X-RAY DIFFRACTION 1.98Å

e2y3wA2[A:-1-64,A:100-144] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SPINDLE ASSEMBLY ABNORMAL PROTEIN 6 HOMOLOG ; X-RAY DIFFRACTION 1.98Å

e2y3vC2[C:-1-66,C:102-144] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SPINDLE ASSEMBLY ABNORMAL PROTEIN 6 HOMOLOG ; X-RAY DIFFRACTION 1.92Å

e2y3vD2[D:1-66,D:102-154] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SPINDLE ASSEMBLY ABNORMAL PROTEIN 6 HOMOLOG ; X-RAY DIFFRACTION 1.92Å

e3q0xB2[B:15-83,B:119-158] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CENTRIOLE PROTEIN ; X-RAY DIFFRACTION 3.02Å

e4to7A1[A:21-85,A:121-159] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 1.25Å

e3q0yE1[E:14-85,E:121-159] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 2.100Å

e3q0yA1[A:15-85,A:121-159] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 2.100Å

e3q0yB2[B:14-85,B:121-158] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 2.100Å

e3q0yC2[C:13-85,C:121-159] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 2.100Å

e3q0yD2[D:21-85,D:121-159] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 2.100Å

e3q0yF2[F:14-85,F:121-159] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 2.100Å

e6z4aA1[A:-1-64,A:100-149] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spindle assembly abnormal protein 6 homolog ; ligands: GOL ; X-RAY DIFFRACTION 1.46Å

e6zz8A1[A:7-83,A:119-158] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 3.73Å

e6zz8C2[C:11-83,C:119-158] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 3.73Å

e6zz8D1[D:13-83,D:119-158] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 3.73Å

e6zz8E3[E:15-83,E:119-158] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 3.73Å

e6zz8F2[F:13-83,F:119-158] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 3.73Å

e6zzcA1[A:13-83,A:119-158] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 2.93Å

e6zzcB0001[B000:15-83,B000:119-158] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 2.93Å

e6zz8B1[B:7-83,B:119-158] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 3.73Å

e6zzcC2[C:12-83,C:119-158] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 2.93Å

e6zzdA1[A:11-84,A:120-157] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 2.05Å

e6zzdB1[B:12-84,B:120-158] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 2.05Å

e6zzgA2[A:15-85,A:121-159] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; ligands: ACT ; X-RAY DIFFRACTION 2.93Å

e6zzgB2[B:15-85,B:121-159] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; ligands: ACT ; X-RAY DIFFRACTION 2.93Å

e6zzgC2[C:15-85,C:121-159] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 2.93Å

e6zzgD1[D:15-85,D:121-159] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; ligands: ACT ; X-RAY DIFFRACTION 2.93Å

e6zzgE1[E:15-85,E:121-159] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 2.93Å

e6zzgF2[F:15-85,F:121-159] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Centriole protein ; X-RAY DIFFRACTION 2.93Å

e2y3vA2[A:-1-66,A:102-156] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SPINDLE ASSEMBLY ABNORMAL PROTEIN 6 HOMOLOG ; X-RAY DIFFRACTION 1.92Å

e2y3vB2[B:-2-66,B:102-156] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SPINDLE ASSEMBLY ABNORMAL PROTEIN 6 HOMOLOG ; X-RAY DIFFRACTION 1.92Å

F: XLF

PF09302

F: XRCC4

PF06632

F: Unmapped domains

Pseudo group of domains that do not map to PFam family profiles. Domains inside should not be considered as in one family.

H: NE0471 N-terminal domain-like

X: Virulence associated protein B (Vapb)

X: BH3618-like

X: GspC HR domain/PilP-like

X: CRISPR-Cas effector Cas13d N-terminal domain

X: Lipocalins/Streptavidin

X: YmcC-like

X: Lysosome membrane protein 2 lumenal domain

X: Handle domain in transferrin-binding protein B

X: Rubella virus capsid protein C-terminal domain

X: Single-stranded DNA-binding protein DdrB

X: Allergen Alt a 1

X: FomD-like

X: Outer membrane meander beta-barrels

X: secretin domain

X: Factor H-binding protein (fHbp) N-terminal beta-barrel domain

X: STT3/PglB/AglB beta-barrel domain

X: Acetoacetate decarboxylase-like

X: AttH-like

X: Barrel domain in heme-dependent catalases

X: WWE domain

X: GFP-like

X: Transcriptional factor tubby, C-terminal domain

X: Oxysterol-binding protein

X: CBF-like

X: NifT/FixU

X: barrel domain in CV3147-like proteins

X: Pfam PF06938 (DUF1285)

X: PH domain-like

X: Internal protein I

X: LARA domain

X: Restriction endonuclease PabI

X: N-terminal domain in DUF2118 family

X: Pestivirus Npro endopeptidase C53

X: Repulsive guidance molecule (RGM) family

X: V1/V2 domain in HIV gp120

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

extended segmentsextended, non-globular segments, frequently bind to other proteins to form complexes

special