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

X: Tautomerase/MIF-like

X: Uncharacterized protein BTH I2711

X: Peptidase inhibitors family I69

X: Asparaginal-tRNA synthetase N-terminal domain

X: Flagellar hook protein FlgE D0 domain

X: Curli production assembly/transport component CsgF

X: Anti-LPS factor/recA domain

X: Obg GTP-binding protein C-terminal domain-like

X: Ribosomal protein L9 C-domain

X: Urease, gamma-subunit

X: C-terminal domain of nonstructural protein nsp4

X: Putative heterocyst differentiation inhibitor NpR1517

X: Head-to-tail joining protein W, gpW

X: XkdW-like

X: Hypothetical protein MTH677

X: GTF2I-like repeat

X: Ribosomal protein L35p

X: Archaea-specific ribosomal protein L46a

X: PB2 C-terminal domain-like

X: Peptidoglycan deacetylase N-terminal noncatalytic region

X: ERH-like

X: ssDNA binding protein VirE2

X: N-terminal a+b domain in urocanase (Pfam 01175)

X: CbiD-like (Pfam 01888) N-terminal domain

X: Prion-like

X: gp120 inner domain

X: Ribosomal protein L31e-like

X: SSHS domain

X: MTH1598-like

X: Reverse ferredoxin

X: Tetrapyrrole methylase C-terminal domain-like

X: ImmE5-like

X: Polycystin-mucolipin domain

X: UvrB-binding domain of UvrA

X: FAM3 superfamily

X: a+b domain in Ribosomal protein L1

X: Photosystem I subunit PsaD

X: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase

X: uncharacterized protein YP_926445.1

X: Insertion domain in phosphocholine transferase AnkX

X: HPr-like

X: EcoKMcrA modification binding domain

X: Allophycocyanin linker chain (domain)

X: Small outer capsid protein (Soc)

X: GYF/BRK domain-like

X: Pesticin N-terminal domain

X: Uncharacterized protein Q2S0R5

X: Tombusvirus P19 core protein, VP19

X: YjbQ-like (Pfam 01894)

X: SSo0622-like (Pfam 02676)

X: MTHFR SAM-binding regulatory domain

X: barrel domain in D-aminoacid aminotransferase-like PLP-dependent enzymes

X: Uncharacterized protein yibL

X: L9 N-domain-like

X: NosL/MerB-like

X: DUF2233 N-terminal domain

X: DNA helicase UvsW N-terminal a+b domain-related

X: EKC/KEOPS complex subunit GON7

X: Putative acetamidase tm0119 C-terminal domain

X: Csm1 ferredoxin-like domain

X: Uncharacterized protein VC_0899

X: ferredoxin-like domain in VP1

X: Seb1 domain 2

X: protein PCC1

X: HLTF protein HIRAN domain

X: Cof C2 cap domain

X: N-terminal domain of vibrio phospholipase

X: Alpha-beta plaits

H: RNA-binding domain, RBD

H: Ribosomal proteins S24e, L23 and L15e

H: Origin of replication-binding domains

H: Anticodon-binding domain of PheRS

H: O-phosphoseryl-tRNA synthetase C-terminal domain

H: Ribosomal protein S6

H: Ribosomal protein S10

H: SEA domain

H: eEF-1beta-like

H: PurS-like

H: HMA-related

H: Ferredoxin domains in multidrug efflux transporter

H: Dimeric alpha+beta barrel

H: Aldoxime dehydratase

H: YajQ-like

H: GlnB-like

H: FAD-linked oxidases, C-terminal domain

H: GHMP Kinase, C-terminal domain

H: Protease propeptides/inhibitors

H: RspWYL1 C-terminal domain

H: Sulfite reductase, domains 1 and 3

H: ACT-like

H: C-terminal domain of AcpS

H: RuBisCO, large subunit, small (N-terminal) domain

H: Probable ACP-binding domain of malonyl-CoA ACP transacylase

H: Hypothetical protein VC0424

H: Sporulation related repeat (SPOR)

H: Viral DNA-binding domain

H: N-utilization substance G protein NusG, N-terminal domain

H: eIF-2-alpha, C-terminal domain

H: PAP/Archaeal CCA-adding enzyme, C-terminal domain

H: Formylmethanofuran:tetrahydromethanopterin formyltransferase

H: Urease metallochaperone UreE, C-terminal domain

H: EF-G C-terminal domain-like

H: Translational regulator protein regA

H: Bacterial exopeptidase dimerisation domain

H: MTH1187/YkoF-like

H: Formiminotransferase domain of formiminotransferase-cyclodeaminase.

H: D-ribose-5-phosphate isomerase (RpiA), lid domain

H: HMG-CoA reductase

H: CheY-binding domain of CheA

H: Nucleoside diphosphate kinases

H: Methyl-coenzyme M reductase subunits

H: Aspartate carbamoyltransferase, Regulatory-chain, N-terminal domain

H: Mechanosensitive channel protein MscS (YggB), C-terminal domain

H: Glutamyl tRNA-reductase catalytic, N-terminal domain

H: Molybdenum cofactor biosynthesis protein C, MoaC

H: Hypothetical protein TT1725

H: 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK

H: eEF1-gamma domain

H: Adenylyl and guanylyl cyclase catalytic domain-like

H: TRADD, N-terminal domain/Dystroglycan, domain 2

H: Killer toxin KP6 subunit

H: CRISPR transcript (pre-crRNA) processing endoribonuclease-related

H: Cas7-related

H: CRISPR system Cas5 homologs

H: YbeD/HP0495-like

H: DOPA dioxygenase-like

H: CcmK-like

H: CRISPR associated protein Cas2-like

H: Rpp14/Pop5-like

H: FepE-like

H: MTH889-like

H: Ribosomal protein L10-like

H: Pseudouridine synthase

H: FMN-dependent nitroreductase-like

H: Sulfolobus fructose-1,6-bisphosphatase-like

H: Hypothetical protein Ta1353

H: Hypothetical protein PH1602

H: Aminomethyltransferase folate-binding domain

H: Monooxygenase (hydroxylase) regulatory protein

T: Monooxygenase (hydroxylase) regulatory protein

F: MmoB_DmpM

PF02406

Representatives:

e2bf5A1[A:11-102] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TOLUENE-4-MONOOXYGENASE SYSTEM PROTEIN D ; X-RAY DIFFRACTION 1.710Å

e1ckvA1[A:1-141] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PROTEIN (PROTEIN B) ; SOLUTION NMR

e2mobA1[A:35-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PROTEIN (METHANE MONOOXYGENASE REGULATORY PROTEIN B) ; SOLUTION NMR

e1g11A1[A:11-102] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TOLUENE-4-MONOOXYGENASE CATALYTIC EFFECTOR ; SOLUTION NMR

e1g10A1[A:11-102] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TOLUENE-4-MONOOXYGENASE CATALYTIC EFFECTOR ; SOLUTION NMR

e2bf2B1[B:11-102] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TOLUENE-4-MONOOXYGENASE SYSTEM PROTEIN D ; X-RAY DIFFRACTION 2.1Å

e2bf2A1[A:11-102] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TOLUENE-4-MONOOXYGENASE SYSTEM PROTEIN D ; X-RAY DIFFRACTION 2.1Å

e2bf5B1[B:11-102] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TOLUENE-4-MONOOXYGENASE SYSTEM PROTEIN D ; X-RAY DIFFRACTION 1.710Å

e3ge3E1[E:2-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; X-RAY DIFFRACTION 1.52Å

e3q14E1[E:2-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; ligands: PCR ; X-RAY DIFFRACTION 1.683Å

e3ri7E1[E:3-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; X-RAY DIFFRACTION 2.100Å

e3dhhE1[E:2-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system effector protein ; ligands: BML,BTB ; X-RAY DIFFRACTION 1.940Å

e2innL1[L:3-89] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Phenol hydroxylase component phM ; X-RAY DIFFRACTION 2.7Å

e4gamD1[D:2-133] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

METHANE MONOOXYGENASE REGULATORY PROTEIN B ; X-RAY DIFFRACTION 2.9Å

e2bf3A1[A:11-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TOLUENE-4-MONOOXYGENASE SYSTEM PROTEIN D ; ligands: HTO ; X-RAY DIFFRACTION 1.96Å

e2bf3B1[B:11-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TOLUENE-4-MONOOXYGENASE SYSTEM PROTEIN D ; ligands: HTO ; X-RAY DIFFRACTION 1.96Å

e2inpL1[L:3-88] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHENOL HYDROXYLASE COMPONENT PHM ; X-RAY DIFFRACTION 2.3Å

e3dhiE1[E:1-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system effector protein ; X-RAY DIFFRACTION 1.680Å

e3ge8E1[E:2-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; X-RAY DIFFRACTION 2.15Å

e3ge8H1[H:3-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; X-RAY DIFFRACTION 2.15Å

e3i5jE1[E:2-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; X-RAY DIFFRACTION 1.90Å

e3i63E1[E:3-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; X-RAY DIFFRACTION 2.09Å

e3q2aE1[E:2-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; X-RAY DIFFRACTION 1.850Å

e3q3mE1[E:2-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; ligands: Z82 ; X-RAY DIFFRACTION 1.748Å

e3q3mH1[H:2-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; ligands: Z82 ; X-RAY DIFFRACTION 1.748Å

e3q3nE1[E:2-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; X-RAY DIFFRACTION 1.800Å

e3q3oE1[E:2-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; X-RAY DIFFRACTION 1.900Å

e4gamS2[S:2-133] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

METHANE MONOOXYGENASE REGULATORY PROTEIN B ; X-RAY DIFFRACTION 2.9Å

e4gamI2[I:2-133] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

METHANE MONOOXYGENASE REGULATORY PROTEIN B ; X-RAY DIFFRACTION 2.9Å

e4gamN2[N:2-133] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

METHANE MONOOXYGENASE REGULATORY PROTEIN B ; X-RAY DIFFRACTION 2.9Å

e5tdtE1[E:2-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; X-RAY DIFFRACTION 1.818Å

e5tdtH1[H:3-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; X-RAY DIFFRACTION 1.818Å

e5tduE1[E:2-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; X-RAY DIFFRACTION 1.74Å

e5tdvE1[E:2-102] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; X-RAY DIFFRACTION 2.001Å

e5tdvH1[H:1-102] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Toluene-4-monooxygenase system protein D ; X-RAY DIFFRACTION 2.001Å

e6vk5H1[H:2-138] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO ; X-RAY DIFFRACTION 1.86Å

e6vk8H1[H:2-138] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO ; X-RAY DIFFRACTION 2.03Å

e6yd0G1[G:3-138] Image Pymol Jmol Links: PDB, SCOP, CATH DOI

Methane monooxygenase regulatory protein B ; X-RAY DIFFRACTION 1.950Å

e6ydiG1[G:3-138] Image Pymol Jmol Links: PDB, SCOP, CATH DOI

Methane monooxygenase regulatory protein B ; X-RAY DIFFRACTION 1.950Å

e6yduG1[G:3-138] Image Pymol Jmol Links: PDB, SCOP, CATH DOI

Methane monooxygenase regulatory protein B ; X-RAY DIFFRACTION 1.950Å

e6yy3G1[G:3-138] Image Pymol Jmol Links: PDB, SCOP, CATH DOI

Methane monooxygenase regulatory protein B ; X-RAY DIFFRACTION 2.000Å

e7m8rH1[H:3-138] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO,W6X ; X-RAY DIFFRACTION 2.220Å

e6vk4D1[D:2-133] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; X-RAY DIFFRACTION 2.35Å

e6vk4H1[H:2-132] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; X-RAY DIFFRACTION 2.35Å

e6vk5D1[D:2-133] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO ; X-RAY DIFFRACTION 1.86Å

e6vk8D1[D:2-133] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO ; X-RAY DIFFRACTION 2.03Å

e7m8qD1[D:3-134] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO ; X-RAY DIFFRACTION 2.08Å

e7m8qH1[H:2-133] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO ; X-RAY DIFFRACTION 2.08Å

e7m8rD1[D:4-133] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: CL,EDO,W6X ; X-RAY DIFFRACTION 2.220Å

e7s6qD1[D:4-133] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO ; X-RAY DIFFRACTION 1.960Å

e7s6qH1[H:3-132] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO ; X-RAY DIFFRACTION 1.960Å

e7s6rD1[D:2-133] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO ; X-RAY DIFFRACTION 1.890Å

e7s6rH1[H:2-133] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO ; X-RAY DIFFRACTION 1.890Å

e7s6sD1[D:3-133] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO ; X-RAY DIFFRACTION 1.980Å

e7s6sH1[H:3-138] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO ; X-RAY DIFFRACTION 1.980Å

e7s6tD1[D:3-133] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO ; X-RAY DIFFRACTION 1.820Å

e7s6tH1[H:3-138] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO ; X-RAY DIFFRACTION 1.820Å

e7s7hD1[D:3-133] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO ; X-RAY DIFFRACTION 2.400Å

e7s7hH1[H:3-132] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methane monooxygenase regulatory protein B ; ligands: EDO ; X-RAY DIFFRACTION 2.400Å

e1hqiA1[A:1-90] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHENOL HYDROXYLASE P2 PROTEIN ; SOLUTION NMR

H: Acylphosphatase-like

H: PurM C-terminal domain-like

H: PF0523-like

H: Argonaute, N-terminal domain

H: Alpha subunit of glutamate synthase, insertion domain

H: Family B DNA polymerase insertion domain

H: Ferredoxin-like domain in DAHP synthase

H: Ferredoxin-like domain in release factor

H: Ferredoxin-like domain in YebC

H: Ferredoxin-like domain in ThiI

H: SP0830-like

H: Nitrogen repressor-like proteins

H: Phage tail protein-like

H: ferredoxin-like domain in Api92-like proteins

H: ferredoxin-like domain in vacuolar ATP synthase subunit C

H: Notch heterodimerization domain

H: Nup54 ferredoxin-like domain

H: ferredoxin-like domain in periplasmic region of MacB

H: Middle domain in a putative metallopeptidase YP_676511.1

H: Uncharacterized protein MK0293 N-terminal domain

H: Phosphonoacetate hydrolase insertion domain

H: ferredoxin-like domain in 2,3-bisphosphoglycerate-independent phosphoglycerate mutase

H: 26 kDa periplasmic immunogenic protein

H: MJ1480-like

H: Oligo-peptide binding protein (OPPA) insertion domain

H: NOL1/NOP2/sun N-terminal ferredoxin-like domain

H: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain

H: Putative lipoprotein BA_5634 ferredoxin-like domain

H: Avirulence Effector AvrLm4-7

H: Hypothetical protein TTHA0061

H: Hypothetical protein PF1455

H: WSSV VP9

H: Pfam PF12112

H: Uncharacterized protein yjdK

H: Tetrahydrodipicolinate acetyltransferase N-terminal domain

H: Uncharacterized protein Rv1825/MT1873

H: Ycf54 protein

H: Adapter protein mecA 2 C-terminal domain

H: Ferredoxin-like domain of receptor-type protein tyrosine phosphatase

H: E4-ORF3

H: Collagenase G catalytic helper subdomain

H: Regulator of polyketide synthase expression N-terminal domain

H: Ferredoxin-like domain in putative transcriptional regulator Jann_0659-related proteins

H: DNA translocase FtsK N-terminal domain

H: uncharacterized protein 201phi2-1p060

H: Alpha-beta plait domain in NisB

H: Gas vesicle protein GvpF

H: Alpha-beta plait domain in TMEM16 lipid scramblase

H: Competence or damage-inducible protein CinA middle domain

H: ATP-binding protein TM_1403 insertion domain

H: Hypothetical protein NegoA.19184.a C-terminal domain

H: Uncharacterized protein Ta1207

H: uncharacterized protein YejG

X: DNA Mimic Protein Arn

X: Ribosomal protein L22e

X: 60S ribosomal export protein NMD3 a+b domain

X: uncharacterized protein lpg1496 N-terminal domain

X: ferredoxin-like domain in flagellar biosynthesis protein flhA

X: Uncharacterized protein VC_A0919

X: PHP14-like

X: N-terminal domain of chitin biosynthesis protein CHS6

X: ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit

X: permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit

X: Translation initiation factor eIF4e and phosphothreonine lyase

X: uncharacterized protein SAMEA2273162_06031

X: Ribosomal protein L30p/L7e

X: Insertion domain in 60S ribosomal protein rpP0 (L10P)

X: a+b domain in PB2

X: tRNA pseudouridine synthase TruD insertion domain

X: Barrel domain in dedicator of cytokinesis protein 9

X: YcgL/NE1680-like

X: L,D-transpeptidase C-terminal domain

X: Oxalate Biosynthetic Component A (ObcA) insertion domains

X: GP2-like

X: SdbC C-terminal domain

X: Formate dehydrogenase/DMSO reductase, domain 1

X: 4Fe-4S ferredoxin

X: Diedel

X: Uncharacterized protein MXAN_0049

X: LuxS, MPP, ThrRS/AlaRS common domain

looks like an elaborated ferredoxin

X: Glutamine synthetase-like

X: Cytoplasmic domain of BfpC

X: Ribosomal protein L5

X: hypothetical protein TA0743

X: DCoH-like

X: Prokaryotic AspRS, insert domain

X: Thymidylate synthase-complementing protein Thy1

X: Chorismate synthase, AroC

X: a+b domain in type II DNA topoisomerase

X: TRCF domain

X: Homing endonucleases-like

X: Endonuclease PI-TkoII domain IV

X: C-terminal domain in some PLP-dependent transferases

X: BtrG-like (Pfam 03674)

X: Glucose permease domain IIB-like

X: Putative oxidoreductase

X: Hedgehog/DD-peptidase

X: RRF/tRNA synthetase additional domain-like

X: AFV1-102

X: N-terminal subdomain in UbiD middle domain

X: Dodecin subunit-like

X: Tp47 lipoprotein N-terminal domain

X: DLC

X: Factor H binding protein B (FhbB)

X: ClpS-like

contains a HTH motif

X: R3H domain-like

X: hydrogenase expression protein-like

X: Chromosome partition protein mukE N-terminal domain

X: Ribosomal protein S8, C-terminal domain

X: IF3-like

X: BLIP-like

X: yfeY-like

X: Ribosomal protein S16

X: Ribosomal protein S19

X: RPB5-like RNA polymerase subunit

X: Subtilisin inhibitor

X: Putative lipoprotein CPF_1278-related

X: The spindle assembly checkpoint protein mad2

X: C-terminal functional domain of REDD1

X: MesJ substrate recognition domain-like

X: AMMECR1-like

X: THUMP domain-like

X: Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase

X: C-terminal domain in a functionally unknown conserved protein

X: Spliceosomal helicase Aquarius insert domain

X: Integrin beta tail domain

X: NSFL1 (p97 ATPase) cofactor p47, SEP domain

X: Hypothetical protein Yml108w

X: a+b domain in YebC-like proteins

X: Nqo5-like

X: Baseplate structural protein gp6 C-terminal domain III

X: T-fold

X: Ribonuclease PH domain 2-like

X: Rrs1

X: MotY N-terminal domain

X: ssDNA-binding transcriptional regulator domain-like

X: N-terminal domain of effector protein PipB2

X: Bacterial protein-export protein SecB

X: mRNA decapping enzyme DcpS N-terminal domain

X: PipX

X: uncharacterized protein PA1076

X: Immunity protein NMB0503

X: Uncharacterized protein MK0293 C-terminal domain

X: Hypothetical protein TM0160

X: Methane monooxygenase hydroxylase, MmoD

X: dsRBD-like

X: C-terminal domain in RNA helicases

X: C-P lyase subunit PhnG

X: Beta domain of DivIB/FtsQ

X: Giardia Dicer N-terminal domain

X: FlaG-like

X: NMB0488-like

X: Enolase-N/ribosomal protein

X: Serine/threonine-protein kinase GCN2 C-terminal domain

X: Carboxyl terminal domain of human deltex 3-like

X: a+b domain in Capz

X: Bacterial conjugation factor PsiB

X: a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523)

X: Ribosomal protein L6

X: OsmC-like

X: hypothetical protein RUMGNA_01148-related

X: GerBC protein

X: Insertion domain of carboxypeptidase dacD

X: Alpha-lytic protease prodomain-like

X: Transactivation domain (TAD) of FoxM1

X: DNA polymerase D large subunit DP2 N-terminal domain

X: amino-terminal domain of OmpATb

X: DNA mismatch repair protein MutL dimerization subdomain

X: TrkA C-terminal domain-like

X: putative secreted protein PA3611

X: Uncharacterized protein yciN

X: hypothetical protein DESPIG_00776

X: RumA insert domain

X: Sex pheromone staph-cAM373

X: TolA/TonB C-terminal domain

X: Chorismate lyase

X: hypothetical protein TTHB210

X: Chromosomal protein MC1

X: DNA topoisomerase I domain

X: DNA-binding protein Tfx

X: FYSH domain

X: DNA-binding domain

X: Domain 2 in immunoglobulin A protease

X: CI-2 family of serine protease inhibitors-like

X: DNA clamp

X: Cdc48 domain 2-like

X: Ribosomal protein S5 domain 2-like

X: Proteasome assembling chaperone 3 (PAC3)-related

X: MocoBD/DmpA-related

X: Thioesterase/thiol ester dehydrase-isomerase-like

X: beta-Grasp

X: beta-grasp domain in anthrax protective antigen

X: GTP-binding protein lepA C-terminal domain-like

X: ubiquitin-binding domain from PLAA

X: C-terminal domain of OAT (ornithine acetyltransferase)

X: Central kinetochore subunit CHL4 C-terminal domain

X: Cas3 C-terminal domain

X: POZ domain

X: uncharacterized protein Svir_20580

X: Uncharacterized protein PA1075

X: Microbial ribonucleases-like

X: C-terminal domain of CdiA toxin

X: Yeast killer toxin-like

X: N-terminal domain of alcaligin biosynthesis protein C

X: Uncharacterized protein yohN

X: C-terminal domain in CigR

X: RelE-like

X: Nuclease domain of PRRSV nonstructural protein Nsp1

X: Uncharacterized protein Atu1219

X: PX domain

X: Cpn0803

X: Shew3726-like

X: Ornithine cyclodeaminase-like enzymes dimerization domain

X: Methylcrotonyl-CoA carboxylase alpha-subunit BT domain-related

X: TBP-like

X: Recombination-associated protein rdgC

X: Putative lipoprotein LppA

X: hypothetical protein BPSL2088

X: Uncharacterized Protein Rru_A0810

X: Lp2179-like

X: Sm-Like archaeal protein Smap3, C-terminal domain

X: Cystatin-like

X: Csd3 N-terminal domain

X: RNase inhibitor Dip

X: hypotheical protein Lreu_0056

X: Uncharacterized protein YPO2434

X: hypothetical protein SAV0303

X: PH1570-like

X: N-terminal a+b domain in DNA primase core

X: AF0104/ALDC/Ptd012-like

X: Cellular targeting domain in sucrose synthase-1

X: LEE-encoded effector EspG N-terminal domain-related

X: LEE-encoded effector EspG C-terminal domain-related

X: RIP/Polo-box domain

X: DUF4479

X: a+b domain in carbohydrate phosphatases

X: OxsB N-terminal domain

X: SpoVG-like

X: Uncharacterized protein gp49

X: FKBP-like

X: Heparin lyase I insertion domain

X: Domain in small RNA methyltransferase HEN1

X: N-terminal domain in xanthine dehydrogenase

X: Sterol carrier protein-like

X: Fragilysin-3 prodomain-like

X: RNA bacteriophage capsid protein

X: UBC-like

X: FYR domain

X: Kinetochore globular domain-like

X: Ribonuclease Rh-like

X: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like

X: a+b domain in D-aminoacid aminotransferase-like PLP-dependent enzymes

X: Hypothetical protein YjiA, C-terminal domain

X: SRP9/14-like

X: Cell wall binding protein cwp8 domain 2

X: TTHA1528-like

X: Paratox

X: Uncharacterized protein ATC0905

X: MHC antigen-recognition domain

X: BH3703-like

X: Acidic mitochondrial matrix protein p32-like

X: Hypothetical Protein Vc0508

X: Nuclease AFV1-157

X: SH2

X: Ribosome-associated factor Y

X: Integron cassette protein VCH_CASS14

X: Virion infectivity factor Vif

X: Uncharacterized protein TGAM_1934

X: Uncharacterized protein EF_1977

X: Uncharacterized protein Rv3902c

X: Type III secretory system chaperone-like

X: N-terminal domain of PprA

X: TEN domain of telomerase reverse transcriptase

X: NAP-like

X: PG1388-like

X: BPSL1050

X: BACOVA_05496-like

X: Meander beta sheet domain in fatty acid synthase subunit beta

X: Omega-3 polyunsaturated fatty acid synthase subunit PfaD N-terminal domain

X: XisI-like

X: YehR-like

X: SMI1/KNR4-like

X: YkuJ-like

X: A hypothetical protein from Neisseria gonorrhoeae

X: Middle domain of ribosomal protein S2-related protein

X: Nitrogen fixation protein

X: Insertion domain in adenylylcyclase toxin (the edema factor)

X: Thymidylate synthase/dCMP hydroxymethylase

X: C-terminal domain of FliK

X: Pili subunits

X: Bacteriochlorophyll A protein

X: Chalcone isomerase

X: Cytochrome P460

X: Heme-binding protein A (HasA)

X: N-terminal domain of colicin N

X: Mago nashi protein

X: WGR domain

X: Escherichia coli HybE

X: FAD-linked reductases, C-terminal domain-like

X: Hypothetical virulence protein

X: putative RnfG subunit of electron transport complex

X: RPL28

X: AMPKBI-like

X: Probable 30S ribosomal protein PSRP-3

X: FwdE/GAPDH domain-like

X: N-terminal domain of DC-UbP

X: a functionally unknown protein from Leptospirillum sp. Group II UBA

X: 40S ribosomal protein rpS21 (S21e)

X: Alr2454 protein

X: C-terminal domain in putative protease YP_001302526.1

X: a+b domain in heme oxygenase

X: N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2

X: PafA/Dop C-terminal domain

X: Glycoprotein E3

X: Nonstructural protein 7 alpha

X: Laminaripentaose-producing beta-1,3-glucanase insertion domain

X: uncharacterised protein rbstp2171

X: DNA polymerase III C-terminal domain

X: XPD arch domain

X: putative cell adhesion protein BACOVA_01548 insertion domain

X: Salmon anemia virus nucleoprotein N-terminal domain

X: ESX-1 secretion system protein eccB1 linker domains

X: Lon-like protease MtaLonC helical domain

X: Photosystem II antenna protein PsbB insertion domain

X: Ribosomal protein L11/L12e N-terminal domain-like

X: Hypothetical protein Q4D059

X: N-terminal domain of spumavirus gag protein

X: Meiosis-expressed gene 1 protein

X: Hypothetical protein TA0938

X: Domain 1 of outer membrane lipoprotein Wza

X: C-terminal domain of bypass of forespore C, BofC

X: DUF3222-like

X: DUF1107-like

X: DUF960-like

X: Phage tail assembly chaperone

X: TT1592-like

X: Pro-domain of Hemolysin hlyA

X: KS-MAT linker domain in fatty acid synthase

X: Dimerization domain of erythronate-4-phosphate dehydrogenase PdxB

X: a+b domain in platelet binding protein GspB

X: Uncharacterized virus protein A-100

X: Hypothetical protein RPA3313

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