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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

H: RIFT-related
T: acid protease

126354, 3-crossover-4

T: double psi

152436, 2-crossover-3, 5-crossover-6

T: AbrB

122'1'344'3', 2-crossover-3, 2'-crossover-3'

T: Bacterial fluorinating enzyme-C

1265437, 2-crossover-3, 6-crossover-7

T: FMN-binding split barrel

123654, 3-crossover-4

T: Surface presentation of antigens (SPOA)

123654, 3-crossover-4, swapping

T: Alanine racemase-C

125436, 2-crossover-3, 5-crossover-6

F: E1_FCCH

PF16190 CL0105

Representatives:

e3cmmA4[A:175-260] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 2.700Å

e8se9A4[A:169-258] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ELECTRON MICROSCOPY

e8sebA4[A:169-258] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ELECTRON MICROSCOPY

e8sv8A3[A:169-258] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ELECTRON MICROSCOPY

e2v31A1[A:201-312] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

UBIQUITIN-ACTIVATING ENZYME E1 X ; SOLUTION NMR

e2lzjA1[A:201-312] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

UBIQUITIN-LIKE MODIFIER-ACTIVATING ENZYME 1 ; SOLUTION NMR

e4p22A2[A:209-297] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; X-RAY DIFFRACTION 2.748Å

e4p22B2[B:209-297] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; X-RAY DIFFRACTION 2.748Å

e3cmmC2[C:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 2.700Å

e4nnjA3[A:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: GOL ; X-RAY DIFFRACTION 2.4Å

e4nnjC3[C:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: GOL,SO4 ; X-RAY DIFFRACTION 2.4Å

e4ii2A3[A:174-259] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 2.200Å

e5knlA3[A:174-259] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: SO4 ; X-RAY DIFFRACTION 2.5Å

e5knlD1[D:171-259] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 2.5Å

e5l6jA4[A:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: CL,GOL ; X-RAY DIFFRACTION 2.68Å

e5l6hA2[A:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 2.3Å

e5l6hC2[C:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 2.3Å

e5l6iA6[A:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: CL ; X-RAY DIFFRACTION 2.76Å

e5l6iC4[C:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: CL,GOL ; X-RAY DIFFRACTION 2.76Å

e5l6jC5[C:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: GOL ; X-RAY DIFFRACTION 2.68Å

e5um6A2[A:174-259] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 2.794Å

e5tr4A1[A:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 2.200Å

e5tr4C2[C:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 2.200Å

e6dc6A4[A:209-297] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-like modifier-activating enzyme 1 ; X-RAY DIFFRACTION 3.150Å

e6dc6C2[C:209-297] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-like modifier-activating enzyme 1 ; X-RAY DIFFRACTION 3.150Å

e6o82A3[A:173-259] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: SO4 ; X-RAY DIFFRACTION 2.60Å

e6o82C3[C:174-259] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 2.60Å

e6o83A3[A:174-259] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: MPD ; X-RAY DIFFRACTION 3.15Å

e6o83C3[C:174-259] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 3.15Å

e6nyaA5[A:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: EDO,SO4 ; X-RAY DIFFRACTION 2.07Å

e6nyaD1[D:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: EDO,SO4 ; X-RAY DIFFRACTION 2.07Å

e4ii3C1[C:174-259] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 2.900Å

e6zqhA6[A:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 2.026Å

e6zqhC6[C:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: PG4 ; X-RAY DIFFRACTION 2.026Å

e7k5jD6[D:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 3.42Å

e7k5jA6[A:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 3.42Å

e7k5jC2[C:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 3.42Å

e7k5jG1[G:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 3.42Å

e7k5jI6[I:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 3.42Å

e7k5jK1[K:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 3.42Å

e7k5jS5[S:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 3.42Å

e7k5jU3[U:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 3.42Å

e6zhtC3[C:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH

Ubiquitin-activating enzyme E1 1 ; ligands: CL ; X-RAY DIFFRACTION 2.300Å

e6zhsA5[A:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH

Ubiquitin-activating enzyme E1 1 ; ligands: GOL ; X-RAY DIFFRACTION 2.350Å

e6zhuA6[A:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 3.18Å

e6zhuE5[E:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 3.18Å

e6zhuC3[C:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 3.18Å

e6zhuG1[G:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH

Ubiquitin-activating enzyme E1 1 ; X-RAY DIFFRACTION 3.18Å

e7zh9A5[A:175-260] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: GOL,MG,SO4 ; X-RAY DIFFRACTION 1.705Å

e7pvnA4[A:206-293] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-like modifier-activating enzyme 6 ; ligands: GOL ; X-RAY DIFFRACTION 2.71Å

e7pvnB2[B:206-293] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-like modifier-activating enzyme 6 ; ligands: GOL ; X-RAY DIFFRACTION 2.71Å

e7pyvA3[A:206-293] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-like modifier-activating enzyme 6,Ubiquitin-like modifier-activating enzyme 1,Ubiquitin-like modifier-activating enzyme 6 ; X-RAY DIFFRACTION 3.268Å

e7pyvB3[B:206-293] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-like modifier-activating enzyme 6,Ubiquitin-like modifier-activating enzyme 1,Ubiquitin-like modifier-activating enzyme 6 ; X-RAY DIFFRACTION 3.268Å

e7solA4[A:206-293] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-like modifier-activating enzyme 6 ; X-RAY DIFFRACTION 2.25Å

e7solC4[C:206-293] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-like modifier-activating enzyme 6 ; X-RAY DIFFRACTION 2.25Å

e8seaA3[A:169-258] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ELECTRON MICROSCOPY

e4ii3A1[A:173-259] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: CA ; X-RAY DIFFRACTION 2.900Å

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.

T: Aminomethyltransferase beta-barrel domain

143256, 1-crossover-2, 4-crossover-5

T: PUA domain

12543, 2-crossover-3

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