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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: Tudor_2

PF18104 CL0010

Representatives:

e2qqrA1[A:897-955] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

JMJC DOMAIN-CONTAINING HISTONE DEMETHYLATION PROTEIN 3A ; ligands: SO4 ; X-RAY DIFFRACTION 1.8Å

e2qqrA2[A:956-1011] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

JMJC DOMAIN-CONTAINING HISTONE DEMETHYLATION PROTEIN 3A ; ligands: SO4 ; X-RAY DIFFRACTION 1.8Å

e5xfoA1[A:26-84] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; X-RAY DIFFRACTION 1.90Å

e7yt9A4[A:223-284] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AGD1-4 of Arabidopsis AGDP3 ; X-RAY DIFFRACTION 2.600Å

e8h43C1[C:29-83] Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: 1HI ; X-RAY DIFFRACTION 2.300Å

e7yt9B4[B:223-284] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AGD1-4 of Arabidopsis AGDP3 ; X-RAY DIFFRACTION 2.600Å

e8h43B1[B:28-83] Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: 1HI ; X-RAY DIFFRACTION 2.300Å

e2e5pA1[A:1-68] Image Pymol Jmol Links: PDB, SCOP, CATH

PHD finger protein 1 ; SOLUTION NMR

e2m0oA2[A:27-83] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD FINGER PROTEIN 1 ; SOLUTION NMR

e4bd3A1[A:38-95] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD FINGER PROTEIN 19 ; SOLUTION NMR

e2e5qA1[A:1-63] Image Pymol Jmol Links: PDB, SCOP, CATH

PHD finger protein 19 ; SOLUTION NMR

e2eqjA1[A:1-66] Image Pymol Jmol Links: PDB, SCOP, CATH

Metal-response element-binding transcription factor 2 ; SOLUTION NMR

e4hczA1[A:28-85] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD FINGER PROTEIN 1 ; X-RAY DIFFRACTION 1.85Å

e5xfpA2[A:29-86] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: TRS ; X-RAY DIFFRACTION 2.30Å

e5xfpB3[B:30-86] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: TRS ; X-RAY DIFFRACTION 2.30Å

e5xfpE3[E:30-86] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; X-RAY DIFFRACTION 2.30Å

e5xfqA2[A:28-86] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; X-RAY DIFFRACTION 2.40Å

e5xfqB2[B:30-86] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; X-RAY DIFFRACTION 2.40Å

e4hczB1[B:28-84] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD FINGER PROTEIN 1 ; X-RAY DIFFRACTION 1.85Å

e5xfnA2[A:26-84] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; X-RAY DIFFRACTION 1.9Å

e5xfrA4[A:44-96] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Metal-response element-binding transcription factor 2 ; X-RAY DIFFRACTION 2.25Å

e5xfrB4[B:45-96] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Metal-response element-binding transcription factor 2 ; X-RAY DIFFRACTION 2.25Å

e6wauA1[A:38-94] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 19 ; ligands: UNX ; X-RAY DIFFRACTION 1.710Å

e6wauB1[B:39-94] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 19 ; ligands: UNX ; X-RAY DIFFRACTION 1.710Å

e6wauC1[C:38-93] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 19 ; ligands: UNX ; X-RAY DIFFRACTION 1.710Å

e6wauD1[D:39-93] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 19 ; ligands: UNX ; X-RAY DIFFRACTION 1.710Å

e6wauF1[F:39-93] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 19 ; X-RAY DIFFRACTION 1.710Å

e6wauE1[E:42-93] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 19 ; X-RAY DIFFRACTION 1.710Å

e6watAA1[AA:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watAC1[AC:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watBA1[BA:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watBC1[BC:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watCA1[CA:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watCC1[CC:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watDA1[DA:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watDC1[DC:27-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watEA1[EA:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watEC1[EC:28-86] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watFA1[FA:27-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watFC1[FC:28-86] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watGA1[GA:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watGC1[GC:28-86] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watHA1[HA:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watHC1[HC:28-86] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watIA1[IA:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watIC1[IC:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watJA1[JA:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watJC1[JC:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watKA1[KA:28-86] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watKC1[KC:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watLA1[LA:27-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watLC1[LC:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watMA1[MA:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watMC1[MC:28-86] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watNA1[NA:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watNC1[NC:28-86] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watOA1[OA:28-87] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6watOC1[OC:28-86] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.800Å

e6wavA1[A:27-85] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: SO4,UNX ; X-RAY DIFFRACTION 1.700Å

e6wavC1[C:27-86] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.700Å

e6wavD1[D:27-86] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.700Å

e6wavB1[B:27-84] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHD finger protein 1 ; ligands: UNX ; X-RAY DIFFRACTION 1.700Å

e7lkyA1[A:29-84] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Isoform 1 of PHD finger protein 1 ; ligands: DMS,ZN ; X-RAY DIFFRACTION 1.85Å

e7lkyB1[B:30-84] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Isoform 1 of PHD finger protein 1 ; ligands: DMS,ZN ; X-RAY DIFFRACTION 1.85Å

e7lkyC1[C:30-84] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Isoform 1 of PHD finger protein 1 ; ligands: DMS,ZN ; X-RAY DIFFRACTION 1.85Å

e7lkyD1[D:29-84] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Isoform 1 of PHD finger protein 1 ; ligands: DMS,ZN ; X-RAY DIFFRACTION 1.85Å

e7lkyE1[E:29-84] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Isoform 1 of PHD finger protein 1 ; ligands: DMS,ZN ; X-RAY DIFFRACTION 1.85Å

e7lkyF1[F:30-84] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Isoform 1 of PHD finger protein 1 ; X-RAY DIFFRACTION 1.85Å

e7lkyG1[G:30-84] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Isoform 1 of PHD finger protein 1 ; ligands: DMS ; X-RAY DIFFRACTION 1.85Å

e7lkyH1[H:29-84] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Isoform 1 of PHD finger protein 1 ; ligands: DMS,ZN ; X-RAY DIFFRACTION 1.85Å

e8h43A1[A:27-86] Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: 1HI ; X-RAY DIFFRACTION 2.300Å

e2equA1[A:78-151] Image Pymol Jmol Links: PDB, SCOP, CATH

PHD finger protein 20-like 1 ; SOLUTION NMR

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 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