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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

X: alpha-helical domain in nickel-iron hydrogenase, large subunit
H: alpha-helical domain in nickel-iron hydrogenase, large subunit
T: alpha-helical domain in nickel-iron hydrogenase, large subunit
F: Complex1_49kDa

PF00346

Representatives:

e2fug41[4:108-305] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase chain 4 ; ligands: SF4 ; X-RAY DIFFRACTION 3.300Å

e2fugV1[V:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase chain 4 ; ligands: SF4 ; X-RAY DIFFRACTION 3.300Å

e2fugD1[D:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase chain 4 ; ligands: SF4 ; X-RAY DIFFRACTION 3.300Å

e2fugM1[M:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase chain 4 ; ligands: SF4 ; X-RAY DIFFRACTION 3.300Å

e2ybb41[4:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-QUINONE OXIDOREDUCTASE SUBUNIT 4 ; ligands: MG,SF4 ; ELECTRON MICROSCOPY

e4hea41[4:107-299] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-QUINONE OXIDOREDUCTASE SUBUNIT 4 ; ligands: SF4 ; X-RAY DIFFRACTION 3.3Å

e3i9vD6[D:108-300] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-QUINONE OXIDOREDUCTASE SUBUNIT 4 ; ligands: MN,SF4 ; X-RAY DIFFRACTION 3.1Å

e3m9s46[4:108-300] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-QUINONE OXIDOREDUCTASE SUBUNIT 4 ; ligands: SF4 ; X-RAY DIFFRACTION 4.5Å

e3m9sD6[D:108-300] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-QUINONE OXIDOREDUCTASE SUBUNIT 4 ; ligands: SF4 ; X-RAY DIFFRACTION 4.5Å

e3iasM6[M:108-300] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-QUINONE OXIDOREDUCTASE SUBUNIT 4 ; ligands: SF4 ; X-RAY DIFFRACTION 3.15Å

e3ias46[4:108-300] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-QUINONE OXIDOREDUCTASE SUBUNIT 4 ; ligands: SF4 ; X-RAY DIFFRACTION 3.15Å

e3iasD6[D:108-300] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-QUINONE OXIDOREDUCTASE SUBUNIT 4 ; ligands: SF4 ; X-RAY DIFFRACTION 3.15Å

e3iasV6[V:108-300] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-QUINONE OXIDOREDUCTASE SUBUNIT 4 ; ligands: SF4 ; X-RAY DIFFRACTION 3.15Å

e4heaE6[E:108-300] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-QUINONE OXIDOREDUCTASE SUBUNIT 4 ; ligands: SF4 ; X-RAY DIFFRACTION 3.3Å

e3iam44[4:108-312] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-QUINONE OXIDOREDUCTASE SUBUNIT 4 ; ligands: MG,SF4 ; X-RAY DIFFRACTION 3.1Å

e3iamD4[D:108-312] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-QUINONE OXIDOREDUCTASE SUBUNIT 4 ; ligands: SF4 ; X-RAY DIFFRACTION 3.1Å

e3i9v41[4:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-QUINONE OXIDOREDUCTASE SUBUNIT 4 ; ligands: MN,SF4 ; X-RAY DIFFRACTION 3.1Å

e4wz7C1[C:164-361] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NUCM protein ; X-RAY DIFFRACTION 3.60Å

e5lnk42[4:129-326] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Mitochondrial complex I, 49 kDa subunit ; ligands: 3PE,SF4 ; ELECTRON MICROSCOPY

e5gpnZ1[Z:162-359] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2 ; ligands: SF4 ; ELECTRON MICROSCOPY

e5xtbQ1[Q:162-359] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: SF4 ; ELECTRON MICROSCOPY

e6cfwL1[L:89-292] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Membrane-bound hydrogenase subunit alpha ; ligands: SF4 ; ELECTRON MICROSCOPY

e6h8kC2[C:164-361] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NUCM protein ; X-RAY DIFFRACTION 3.79Å

e6humH2[H:93-286] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NAD(P)H-quinone oxidoreductase subunit H ; ELECTRON MICROSCOPY

e6nbqH1[H:93-286] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NAD(P)H-quinone oxidoreductase subunit H ; ELECTRON MICROSCOPY

e6nbxH1[H:93-286] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NAD(P)H-quinone oxidoreductase subunit H ; ligands: SF4 ; ELECTRON MICROSCOPY

e6nbyH2[H:93-286] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NAD(P)H-quinone oxidoreductase subunit H ; ELECTRON MICROSCOPY

e6q9dS22[S2:129-326] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH:ubiquinone oxidoreductase core subunit S2,NADH:ubiquinone oxidoreductase core subunit S2 ; ELECTRON MICROSCOPY

e6rfsC3[C:164-361] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Subunit NUCM of NADH:Ubiquinone Oxidoreductase (Complex I) ; ligands: SF4 ; ELECTRON MICROSCOPY

e6khiH1[H:93-286] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NAD(P)H-quinone oxidoreductase subunit H ; ligands: SF4 ; ELECTRON MICROSCOPY

e6khjH1[H:93-286] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NAD(P)H-quinone oxidoreductase subunit H ; ligands: PL9,SF4 ; ELECTRON MICROSCOPY

e6l7oH2[H:93-286] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NAD(P)H-quinone oxidoreductase subunit H ; ligands: LHG ; ELECTRON MICROSCOPY

e6l7pH3[H:93-286] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NAD(P)H-quinone oxidoreductase subunit H ; ligands: LHG ; ELECTRON MICROSCOPY

e6tjvH2[H:93-286] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NAD(P)H-quinone oxidoreductase subunit H ; ELECTRON MICROSCOPY

e6i0d41[4:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit 4 ; ligands: DCQ,SF4 ; X-RAY DIFFRACTION 3.6Å

e6i0dE3[E:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit 4 ; ligands: DCQ,SF4 ; X-RAY DIFFRACTION 3.6Å

e6i1p43[4:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit 4 ; ligands: SF4 ; X-RAY DIFFRACTION 3.2Å

e6i1pE2[E:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit 4 ; ligands: SF4 ; X-RAY DIFFRACTION 3.2Å

e6q8o41[4:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit 4 ; ligands: HQH,SF4 ; X-RAY DIFFRACTION 3.60Å

e6q8oE2[E:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit 4 ; ligands: HQH ; X-RAY DIFFRACTION 3.60Å

e6q8w42[4:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit 4 ; ligands: HQW,SF4 ; X-RAY DIFFRACTION 3.40Å

e6q8wE3[E:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit 4 ; ligands: HQW,SF4 ; X-RAY DIFFRACTION 3.40Å

e6q8x41[4:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit 4 ; ligands: HQK,SF4 ; X-RAY DIFFRACTION 3.50Å

e6q8xE1[E:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit 4 ; ligands: SF4 ; X-RAY DIFFRACTION 3.50Å

e6y1142[4:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit 4 ; ligands: SF4 ; X-RAY DIFFRACTION 3.10Å

e6y11E1[E:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit 4 ; ligands: SF4 ; X-RAY DIFFRACTION 3.10Å

e6ziy42[4:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit 4 ; ligands: SF4 ; ELECTRON MICROSCOPY

e6zjl41[4:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit 4 ; ligands: SF4 ; ELECTRON MICROSCOPY

e6zjn43[4:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit 4 ; ELECTRON MICROSCOPY

e6zjy42[4:107-304] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit 4 ; ELECTRON MICROSCOPY

e6x89S21[S2:93-290] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NDUS2 ; ligands: PC1 ; ELECTRON MICROSCOPY

e6u8yL1[L:106-305] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase subunit D ; ELECTRON MICROSCOPY

e6u8yl3[l:106-305] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase subunit D ; ELECTRON MICROSCOPY

e7a23G2[G:93-290] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Nad7m ; ligands: PEV,SF4 ; ELECTRON MICROSCOPY

e7a24G1[G:93-290] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Nad7m ; ligands: PEV,SF4 ; ELECTRON MICROSCOPY

e6zk942[4:129-326] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Mitochondrial complex I, 49 kDa subunit ; ligands: PC1,SF4 ; ELECTRON MICROSCOPY

e6zkv43[4:129-326] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Mitochondrial complex I, 49 kDa subunit ; ligands: PC1,SF4 ; ELECTRON MICROSCOPY

e7aqrD3[D:93-290] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase subunit 7 ; ligands: SF4 ; ELECTRON MICROSCOPY

e7arcD3[D:94-291] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ND7 ; ligands: SF4 ; ELECTRON MICROSCOPY

e7ar8D3[D:93-290] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase subunit 7 ; ligands: PTY,SF4 ; ELECTRON MICROSCOPY

e7f9oS1[S:93-285] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NAD(P)H-quinone oxidoreductase subunit H, chloroplastic ; ELECTRON MICROSCOPY

e7eu3H1[H:93-285] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NAD(P)H-quinone oxidoreductase subunit H, chloroplastic ; ELECTRON MICROSCOPY

e7arbD3[D:93-290] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase subunit 7 ; ligands: PTY,SF4 ; ELECTRON MICROSCOPY

e7ardD1[D:94-291] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ND7 ; ligands: PTY,SF4 ; ELECTRON MICROSCOPY

e7ar7D2[D:93-290] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2 ; ligands: PTY,SF4 ; ELECTRON MICROSCOPY

e7wfgH2[H:93-283] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NAD(P)H-quinone oxidoreductase subunit H, chloroplastic ; ELECTRON MICROSCOPY

e7dh0B1[B:162-359] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: 3PE ; ELECTRON MICROSCOPY

e7dkfB21[B2:162-359] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: 3PE ; ELECTRON MICROSCOPY

e7qsoD2[D:129-326] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: 3PE,SF4 ; ELECTRON MICROSCOPY

e7vb7Q1[Q:162-359] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: DCQ,SF4 ; ELECTRON MICROSCOPY

e7vbnQ1[Q:162-359] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: SF4 ; ELECTRON MICROSCOPY

e7vbzQ2[Q:162-359] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: 970,SF4 ; ELECTRON MICROSCOPY

e7vwjQ2[Q:162-359] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: SF4 ; ELECTRON MICROSCOPY

e7wg5H1[H:93-283] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NAD(P)H-quinone oxidoreductase subunit H, chloroplastic ; ELECTRON MICROSCOPY

e8e9gD2[D:122-321] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit D ; ligands: MQ9,SF4 ; ELECTRON MICROSCOPY

e8e9hD2[D:122-321] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit D ; ligands: MQ9,SF4 ; ELECTRON MICROSCOPY

e8e9iD2[D:122-321] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH-quinone oxidoreductase subunit D ; ligands: SF4 ; ELECTRON MICROSCOPY

e8beeD2[D:93-290] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase subunit 7 ; ligands: SF4 ; ELECTRON MICROSCOPY

e8bpxD2[D:93-290] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2 ; ligands: PTY,SF4 ; ELECTRON MICROSCOPY

e8e73S21[S2:93-290] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NDUS2 ; ligands: PC1,SF4 ; ELECTRON MICROSCOPY

e7r4fD1[D:129-326] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: 3PE,SF4 ; ELECTRON MICROSCOPY

e7r4gD1[D:129-326] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: 3PE,SF4 ; ELECTRON MICROSCOPY

e7vxpQ3[Q:162-359] Image Pymol Jmol Links: PDB, SCOP, CATH

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: SF4,UQ ; ELECTRON MICROSCOPY

e7vxuQ2[Q:162-359] Image Pymol Jmol Links: PDB, SCOP, CATH

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: SF4 ; ELECTRON MICROSCOPY

e7vy8Q2[Q:162-359] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: SF4 ; ELECTRON MICROSCOPY

e7vyaQ3[Q:162-359] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: SF4 ; ELECTRON MICROSCOPY

e7vyfQ1[Q:162-359] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: 970,SF4 ; ELECTRON MICROSCOPY

e7vyhQ1[Q:162-359] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: SF4 ; ELECTRON MICROSCOPY

e7vynQ1[Q:162-359] Image Pymol Jmol Links: PDB, SCOP, CATHDOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: SF4,UQ1 ; ELECTRON MICROSCOPY

e7vz1Q1[Q:162-359] Image Pymol Jmol Links: PDB, SCOP, CATHDOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial ; ligands: SF4 ; ELECTRON MICROSCOPY

e8bq5D1[D:93-290] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2 ; ligands: SF4 ; ELECTRON MICROSCOPY

e8bq6D3[D:93-290] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NADH dehydrogenase [ubiquinone] iron-sulfur protein 2 ; ligands: SF4 ; ELECTRON MICROSCOPY

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.

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

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