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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

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

X: Rossmann-like
H: Rossmann-related
T: Activating enzymes of the ubiquitin-like proteins
F: ThiF

PF00899 CL0063

Representatives:

e1jw9B1[B:2-248] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MOLYBDOPTERIN BIOSYNTHESIS MOEB PROTEIN ; ligands: SO4,ZN ; X-RAY DIFFRACTION 1.7Å

e1y8qB1[B:6-167,B:383-444] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-like 2 activating enzyme E1B ; ligands: ATP,MG,ZN ; X-RAY DIFFRACTION 2.20Å

e1yovA3[A:6-171,A:391-534] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Amyloid protein-binding protein 1 ; X-RAY DIFFRACTION 2.6Å

e2nvuA1[A:6-534] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NEDD8-activating enzyme E1 regulatory subunit ; ligands: ATP ; X-RAY DIFFRACTION 2.800Å

e3kycA2[A:9-180,A:205-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SUMO-activating enzyme subunit 1 ; X-RAY DIFFRACTION 2.45Å

e1y8qC1[C:9-177,C:204-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-like 1 activating enzyme E1A ; ligands: ATP ; X-RAY DIFFRACTION 2.20Å

e1y8rD1[D:9-177,D:204-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-like 1 activating enzyme E1A ; ligands: ATP ; X-RAY DIFFRACTION 2.75Å

e1y8rA2[A:9-179,A:203-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-like 1 activating enzyme E1A ; ligands: ATP ; X-RAY DIFFRACTION 2.75Å

e1y8qA2[A:10-179,A:203-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-like 1 activating enzyme E1A ; ligands: ATP ; X-RAY DIFFRACTION 2.20Å

e3kydA2[A:25-183,A:204-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SUMO-activating enzyme subunit 1 ; ligands: EDO ; X-RAY DIFFRACTION 2.6Å

e5l6hA1[A:10-174,A:261-284,A:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: CL,GOL,SO4 ; X-RAY DIFFRACTION 2.3Å

e5l6hC4[C:11-174,C:261-284,C:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: ACT,GOL,SO4 ; X-RAY DIFFRACTION 2.3Å

e5l6iA1[A:10-174,A:261-284,A:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: CL,GOL,SO4 ; X-RAY DIFFRACTION 2.76Å

e5l6iC3[C:11-174,C:261-284,C:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: CL,GOL,SO4 ; X-RAY DIFFRACTION 2.76Å

e5l6jC2[C:11-174,C:261-284,C:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1 1 ; ligands: CL,GOL,SO4 ; X-RAY DIFFRACTION 2.68Å

e5tr4C3[C:14-174,C:261-284,C:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH

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

e6cwzC1[C:10-179,C:204-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SUMO-activating enzyme subunit 1 ; X-RAY DIFFRACTION 3.100Å

e6cwyC1[C:17-178,C:205-346] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SUMO-activating enzyme subunit 1 ; ligands: FHJ,GOL ; X-RAY DIFFRACTION 2.450Å

e6nyaA1[A:11-174,A:261-284,A:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e6nyaD4[D:11-174,D:261-284,D:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e6zqhA3[A:12-174,A:261-284,A:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e6zqhC4[C:12-174,C:261-284,C:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e6xogA1[A:9-178,A:205-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SUMO-activating enzyme subunit 1 ; ligands: SO4 ; X-RAY DIFFRACTION 1.98Å

e6xohA1[A:9-178,A:205-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SUMO-activating enzyme subunit 1 ; ligands: SO4 ; X-RAY DIFFRACTION 2.226Å

e7k5jD4[D:12-174,D:261-284,D:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e6xoiA1[A:9-178,A:205-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SUMO-activating enzyme subunit 1 ; ligands: SO4 ; X-RAY DIFFRACTION 2.0Å

e7k5jA5[A:12-174,A:261-284,A:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e7k5jC4[C:12-174,C:261-284,C:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e7k5jG5[G:12-174,G:261-284,G:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e7k5jI5[I:12-174,I:261-284,I:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e7k5jK2[K:12-174,K:261-284,K:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e7k5jS4[S:12-174,S:261-284,S:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e7k5jU1[U:12-174,U:261-284,U:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e6zhtC5[C:24-174,C:261-284,C:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH

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

e6zhsA1[A:10-174,A:261-284,A:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH

Ubiquitin-activating enzyme E1 1 ; ligands: GOL,SO4 ; X-RAY DIFFRACTION 2.350Å

e6zhuA3[A:10-174,A:261-284,A:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH

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

e6zhuE1[E:10-174,E:261-284,E:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH

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

e6zhuC4[C:10-174,C:261-284,C:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH

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

e6zhuG4[G:10-174,G:261-284,G:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH

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

e7zh9A3[A:10-174,A:261-284,A:357-405] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e7pvnA1[A:35-206,A:294-428] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e7pvnB3[B:37-206,B:294-428] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e7pyvA2[A:52-206,A:294-428] 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

e7pyvB1[B:50-206,B:294-428] 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

e7solA3[A:40-206,A:294-428] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e7solC1[C:59-206,C:294-428] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e8seaA4[A:21-169,A:259-402] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ELECTRON MICROSCOPY

e1yovB4[B:12-210,B:289-346] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-activating enzyme E1C ; ligands: ZN ; X-RAY DIFFRACTION 2.6Å

e3cmmA1[A:12-174,A:261-284,A:357-405] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e3cmmA2[A:406-593,A:863-913] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e2nvuB2[B:2012-2210,B:2289-2346] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Maltose binding protein/NEDD8-activating enzyme E1 catalytic subunit chimera ; ligands: ATP,MG,ZN ; X-RAY DIFFRACTION 2.800Å

e3vh2A3[A:294-605] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

UBIQUITIN-LIKE MODIFIER-ACTIVATING ENZYME ATG7 ; ligands: ZN ; X-RAY DIFFRACTION 3.3Å

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.

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