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X - Possible homology level

H - Homology level

T - Topology level

F - Family level

* - Provisional representative

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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: SH3
H: SH3
T: SH3
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.

Representatives:

e7ur7A1[A:1-63] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

17_bp_sh3 ; X-RAY DIFFRACTION 1.21Å

e5ftbA3[A:254-357] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TPR DOMAIN PROTEIN ; ligands: K ; X-RAY DIFFRACTION 1.38Å

e6bimA2[A:-2-80] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Clan CA, family C40, NlpC/P60 superfamily cysteine peptidase ; X-RAY DIFFRACTION 1.54Å

e4ytlA1[A:534-583] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Transcription elongation factor SPT5 ; ligands: SO4 ; X-RAY DIFFRACTION 1.60Å

e5ohoA2[A:534-580] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Transcription elongation factor SPT5 ; ligands: GOL ; X-RAY DIFFRACTION 1.600Å

e6iluA1[A:205-279] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Lysin ; ligands: EDO,SO4 ; X-RAY DIFFRACTION 1.601Å

e6iluA2[A:280-339] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Lysin ; ligands: EDO,SO4 ; X-RAY DIFFRACTION 1.601Å

e3kbgA9[A:170-227] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

30S ribosomal protein S4e ; X-RAY DIFFRACTION 1.75Å

e3h41A3[A:130-209] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NLP/P60 family protein ; ligands: ALA,PG4,PO4 ; X-RAY DIFFRACTION 1.79Å

e4l0jA2[A:627-634,A:707-773] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA helicase I ; ligands: MG ; X-RAY DIFFRACTION 1.85Å

e5zwxA2[A:105-173] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DUF724 domain-containing protein 6-like ; X-RAY DIFFRACTION 1.9Å

e5i4aA3[A:153-207] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Argonaute protein ; X-RAY DIFFRACTION 1.949Å

e1t0hA1[A:41-136] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

VOLTAGE-GATED CALCIUM CHANNEL SUBUNIT BETA2A ; ligands: CL ; X-RAY DIFFRACTION 1.97Å

e6jhuA2[A:217-259] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATHDOI

Biotin/lipoate protein ligase-like protein ; ligands: SO4 ; X-RAY DIFFRACTION 1.97Å

e1phtA1[A:3-85] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHOSPHATIDYLINOSITOL 3-KINASE P85-ALPHA SUBUNIT ; X-RAY DIFFRACTION 2.0Å

e1w7jA1[A:5-62] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MYOSIN VA ; X-RAY DIFFRACTION 2.0Å

e5zwzA2[A:287-351] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Agenet domain-containing protein ; X-RAY DIFFRACTION 2.00Å

e5awhA3[A:182-242] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Uncharacterized protein ; X-RAY DIFFRACTION 2.000Å

e5ondA2[A:118-155] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Transcription antitermination protein RfaH ; X-RAY DIFFRACTION 2.1Å

e4zzfA2[A:127-140,A:235-272] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Flagellar basal body rod modification protein ; X-RAY DIFFRACTION 2.1673Å

e5ftcA3[A:251-354] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TPR DOMAIN PROTEIN ; X-RAY DIFFRACTION 2.27Å

e5hmpB1[B:5-60] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Unconventional myosin-Vc ; X-RAY DIFFRACTION 2.39Å

e2bkhA4[A:4-50] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

UNCONVENTIONAL MYOSIN ; X-RAY DIFFRACTION 2.4Å

e3gplA4[A:575-640] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EXODEOXYRIBONUCLEASE V, SUBUNIT RECD, PUTATIVE ; X-RAY DIFFRACTION 2.5Å

e6dueA2[A:33-101] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Myosin A ; ligands: GOL ; X-RAY DIFFRACTION 2.60Å

e1ycyA1[A:5-70] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Conserved hypothetical protein ; X-RAY DIFFRACTION 2.670Å

e6ie4A1[A:82-147] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Agenet domain-containing protein ; X-RAY DIFFRACTION 2.696Å

e6f3hB7[B:92-170] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Exoribonuclease II, mitochondrial ; X-RAY DIFFRACTION 2.7Å

e3pvlA5[A:1567-1648] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Myosin VIIa isoform 1 ; X-RAY DIFFRACTION 2.80Å

e6i7dC1[C:2-99] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Myosin-A ; X-RAY DIFFRACTION 2.82Å

e4epcA2[A:774-847] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

N-ACETYLMURAMOYL-L-ALANINE AMIDASE ; X-RAY DIFFRACTION 2.9Å

e1vyvA1[A:73-168] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CALCIUM CHANNEL BETA-4SUBUNIT ; X-RAY DIFFRACTION 3.0Å

e1w7iA1[A:5-62] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MYOSIN VA ; X-RAY DIFFRACTION 3.000Å

e2y35A4[A:802-867,A:1007-1048] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

LD22664P ; X-RAY DIFFRACTION 3.2Å

e6y3zC1[C:2-64] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Enhancer of mRNA-decapping protein 3 ; X-RAY DIFFRACTION 3.49Å

e6qzkA3[A:178-276] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Clostridium butyricum Argonaute ; X-RAY DIFFRACTION 3.548Å

e1ug1A1[A:1-92] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

KIAA1010 protein ; SOLUTION NMR

e1wfwA1[A:1-74] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Kalirin-9a ; SOLUTION NMR

e2dfsA2[A:5-62] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Myosin-5A ; ELECTRON CRYSTALLOGRAPHY

e2joyA1[A:1-96] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

50S ribosomal protein L14e ; SOLUTION NMR

e2xk0A1[A:7-75] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

POLYCOMB PROTEIN PCL ; SOLUTION NMR

e5xonW4[W:657-705] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Protein that forms a complex with Spt4p ; ELECTRON MICROSCOPY

e6mspA1[A:1-97] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

De novo Designed Protein Foldit3 ; SOLUTION NMR

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