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 Protein Homology/analogY Recognition Engine V 2.0


 

New fold library entries added 2013 Jun 08

Fold library idPDB HeaderMoleculeTitle
c4hh3C_ flavoprotein/transcription Chain: C: appa protein; structure of the appa-ppsr2 core complex from rb. sphaeroides
c4khbE_ transcription/replication Chain: E: uncharacterized protein spt16d; structure of the spt16d pob3n heterodimer
c4bh6P_ cell cycle Chain: P: apc/c-cdh1 modulator 1; insights into degron recognition by apc coactivators from2 the structure of an acm1-cdh1 complex
c4kslW_ hydrolase Chain: W: protein fam105b; gumby/fam105b in complex with linear di-ubiquitin
c4jxuB_ transferase Chain: B: putative aminotransferase; structure of aminotransferase ilve2 from sinorhizobium meliloti2 complexed with plp
c4g9nB_ sugar binding protein Chain: B: agglutinin; crystal structure of the rhizoctonia solani agglutinin in complex with2 n'-acetyl-galactosamine
c4bh6H_ cell cycle Chain: H: apc/c activator protein cdh1; insights into degron recognition by apc coactivators from2 the structure of an acm1-cdh1 complex
c4jnjA_ protein binding Chain: A: streptavidin/rhizavidin hybrid; structure based engineering of streptavidin monomer with a reduced2 biotin dissociation rate
c4hh0B_ flavoprotein,signaling protein Chain: B: appa protein; dark-state structure of appa c20s without the cys-rich region from rb.2 sphaeroides
c4fe2B_ ligase Chain: B: phosphoribosylaminoimidazole-succinocarboxamide synthase; x-ray structure of saicar synthetase (purc) from streptococcus2 pneumoniae complexed with air, adp, asp and mg2+
c4jdxB_ protein binding Chain: B: slr1964 protein; structure of the fluorescence recovery protein from synechocystis sp2 pcc 6803
c4fd3D_ oxidoreductase Chain: D: 3-oxoacyl-[acyl-carrier-protein] reductase; crystal structure of apo-formed ymtoar1
c3w1hB_ transferase Chain: B: l-seryl-trna(sec) selenium transferase; crystal structure of the selenocysteine synthase sela from aquifex2 aeolicus
c4jdoG_ cell invasion Chain: G: virulence plasmid protein pgp3-d; secreted chlamydial protein pgp3, coiled-coil deletion
c4hwfB_ apoptosis Chain: B: bag family molecular chaperone regulator 3; crystal structure of atbag3
c4kunB_ unknown function Chain: B: hypothetical protein lpp1115; crystal structure of legionella pneumophila lpp1115
c4ku4B_ signaling protein Chain: B: ras-3 from cryphonectria parasitica; crystal structure of a ras-like protein from cryphonectria parasitica2 in complex with gdp
c4hh2D_ transcription Chain: D: transcriptional regulator, ppsr; structure of ppsr without the hth motif from rb. sphaeroides
c4hyeB_ transcription activator Chain: B: response regulator; crystal structure of a response regulator spr1814 from streptococcus2 pneumoniae reveals unique interdomain contacts among narl family3 proteins
c4g3kB_ transcription regulator Chain: B: transcriptional regulator nlh1; crystal structure of a. aeolicus nlh1 gaf domain in an inactive state
c4jgaA_ transferase Chain: A: 3-oxoacyl-[acyl-carrier-protein] synthase 2; x-ray crystal structure of 3-oxoacyl-[acyl-carrier-protein] synthase 22 from rickettsia rickettsii
c4hwhE_ apoptosis Chain: E: bag family molecular chaperone regulator 4; crystal structure of atbag4
c4jmrA_ viral protein/peptide Chain: A: gag protein; a unique spumavirus gag n-terminal domain with functional properties2 of orthoretroviral matrix and capsid
c4hq1A_ transferase Chain: A: probable receptor protein kinase tmk1; crystal structure of an lrr protein with two solenoids
c4kitC_ rna binding protein Chain: C: pre-mrna-processing-splicing factor 8; crystal structure of human brr2 in complex with the prp8 jab1/mpn2 domain
c4b03D_ virus Chain: D: dengue virus 1 prm protein; 6a electron cryomicroscopy structure of immature2 dengue virus serotype 1
c4j37A_ rna binding protein Chain: A: trna pseudouridine synthase a, mitochondrial; crystal structure of the catalytic domain of human pus1
c3vwaA_ hydrolase Chain: A: cytoplasmic export protein 1; crystal structure of cex1p
c4hu4B_ signaling protein,hydrolase Chain: B: oxygen sensor protein dosp; crystal structure of eal domain of the e. coli dosp - dimeric form
c4khpU_ ribosome/antibiotic Chain: U: 30s ribosomal protein thx; structure of the thermus thermophilus 30s ribosomal subunit in complex2 with de-6-msa-pactamycin
c4kv7A_ unknown function Chain: A: probable leucine/isoleucine/valine-binding protein; the crystal structure of a possible leucine/isoleucine/valine-binding2 protein from rhodopirellula baltica sh 1
c4jquB_ ligase/protein binding Chain: B: coupling of ubiquitin conjugation to er degradation protein crystal structure of ubc7p in complex with the u7br of cue1p
c4hwcF_ apoptosis Chain: F: bag family molecular chaperone regulator 1; structure of atbag1
c4g7aA_ lyase Chain: A: carbonate dehydratase; the crystal structure of an alpha carbonic anhydrase from the2 extremophilic bacterium sulfurihydrogenibium yellowstonense yo3aop1
c4ar9A_ hydrolase Chain: A: collagenase colt; crystal structure of the peptidase domain of collagenase t2 from clostridium tetani at 1.69 angstrom resolution.
c4hwdA_ apoptosis Chain: A: bag family molecular chaperone regulator 2; crystal structure of atbag2
c4eqqA_ protein binding Chain: A: putative host cell surface-exposed lipoprotein; structure of ltp, a superinfection exclusion protein from the2 streptococcus thermophilus temperate phage tp-j34
c4kblA_ ligase Chain: A: e3 ubiquitin-protein ligase arih1; structure of hhari, a ring-ibr-ring ubiquitin ligase: autoinhibition2 of an ariadne-family e3 and insights into ligation mechanism
c4izbB_ hydrolase Chain: B: enoyl-coa hydratase/isomerase family protein; crystal structure of dmdd, a crotonase superfamily enzyme that2 catalyzes the hydration and hydrolysis of methylthioacryloyl-coa
c4bh6L_ cell cycle Chain: L: apc/c-cdh1 modulator 1; insights into degron recognition by apc coactivators from2 the structure of an acm1-cdh1 complex
c4fg5B_ hydrolase Chain: B: e3 alpha-esterase-7 caboxylesterase; crystal structure of the alpha-esterase-7 carboxylesterase, e3, from2 lucilia cuprina
c3zg8B_ penicillin-binding protein Chain: B: penicillin-binding protein 4; crystal structure of penicillin binding protein 4 from2 listeria monocytogenes in the ampicillin bound form
c4b3xA_ translation Chain: A: translation initiation factor if-2; bacterial translation initiation factor if2 (1-363), apo form
c3vtgA_ hydrolase Chain: A: high choriolytic enzyme 1; high choriolytic enzyme 1 (hce-1), a hatching enzyme zinc-protease2 from oryzias latipes (medaka fish)
c4b03A_ virus Chain: A: dengue virus 1 e protein; 6a electron cryomicroscopy structure of immature2 dengue virus serotype 1
c4j0xA_ rna binding protein Chain: A: ribosomal rna-processing protein 9; structure of rrp9
c4fr2A_ oxidoreductase, metal binding protein Chain: A: 1,3-propanediol dehydrogenase; alcohol dehydrogenase from oenococcus oeni
c4k22A_ oxidoreductase Chain: A: protein visc; structure of the c-terminal truncated form of e.coli c5-hydroxylase2 ubii involved in ubiquinone (q8) biosynthesis
c4idwA_ hormone Chain: A: insulin a chain; polycrystalline t6 bovine insulin: anisotropic lattice evolution and2 novel structure refinement strategy
c4g3vB_ transcription regulator Chain: B: transcriptional regulator nlh2; crystal structure of a. aeolicus nlh2 gaf domain in an inactive state
c4kt7A_ transferase Chain: A: 2-c-methyl-d-erythritol 4-phosphate cytidylyltransferase; the crystal structure of 4-diphosphocytidyl-2c-methyl-d-2 erythritolsynthase from anaerococcus prevotii dsm 20548
c3vm7A_ hydrolase Chain: A: alpha-amylase; structure of an alpha-amylase from malbranchea cinnamomea
c4hwiB_ chaperone/apoptosis Chain: B: bag family molecular chaperone regulator 1; crystal structure of atbag1 in complex with hsp70
c4ktbA_ unknown function Chain: A: putative uncharacterized protein; the crystal structure of posible asymmetric diadenosine tetraphosphate2 (ap(4)a) hydrolases from jonesia denitrificans dsm 20603
c4khbF_ transcription/replication Chain: F: uncharacterized protein pob3n; structure of the spt16d pob3n heterodimer
c4khaA_ chaperone/nuclear protein Chain: A: spt16m-histone h2b 1.1 chimera; structural basis of histone h2a-h2b recognition by the essential2 chaperone fact
c4hlnA_ transferase Chain: A: starch synthase i; structure of barley starch synthase i in complex with2 maltooligosaccharide
c4iwsD_ lyase Chain: D: pa0254; putative aromatic acid decarboxylase
c4kqcA_ transport protein Chain: A: periplasmic binding protein/laci transcriptional regulator; abc transporter, laci family transcriptional regulator from2 brachyspira murdochii
c4jwvA_ lyase Chain: A: short chain enoyl-coa hydratase; crystal structure of putative short chain enoyl-coa hydratase from2 novosphingobium aromaticivorans dsm 12444
c4bh6I_ cell cycle Chain: I: apc/c-cdh1 modulator 1; insights into degron recognition by apc coactivators from2 the structure of an acm1-cdh1 complex
c4bnqA_ hydrolase Chain: A: non-canonical purine ntp pyrophosphatase; the structure of the staphylococcus aureus ham1 protein
c4igbC_ cell adhesion Chain: C: lpxtg cell wall surface protein; crystal structure of the n-terminal domain of the streptococcus2 gordonii adhesin sgo0707
c4i4m6_ ribosome Chain: 6: 50s ribosomal protein lx; the re-refined crystal structure of the haloarcula marismortui large2 ribosomal subunit at 2.4 angstrom resolution: more complete structure3 of the l7/l12 and l1 stalk, l5 and lx proteins. this entry contains4 lx protein and water molecules.
c4bgjA_ protein transport Chain: A: sorting nexin-14; crystal structure of the phox-homology domain of human2 sorting nexin 14
c3zgaA_ penicillin-binding protein Chain: A: penicillin-binding protein 4; crystal structure of peniscillin-binding protein 4 from2 listeria monocytogenes in the carbenicillin bound form
c4ig7A_ hydrolase/signaling protein Chain: A: ubiquitin c-terminal hydrolase 37; crystal structure of trichinella spiralis uch37 bound to ubiquitin2 vinyl methyl ester
c2lvwA_ transferase Chain: A: acetolactate synthase isozyme 1 small subunit; solution nmr studies of the dimeric regulatory subunit ilvn of the2 e.coli acetohydroxyacid synthase i (ahas i)
c4joiD_ dna binding protein Chain: D: cst complex subunit ten1; crystal structure of the human telomeric stn1-ten1 complex
c4jhrA_ signaling protein Chain: A: g-protein-signaling modulator 2; an auto-inhibited conformation of lgn reveals a distinct interaction2 mode between goloco motifs and tpr motifs
c4joiA_ dna binding protein Chain: A: cst complex subunit stn1; crystal structure of the human telomeric stn1-ten1 complex
c4kn5A_ hydrolase Chain: A: methylthioadenosine nucleosidase; crystal structure of a putative methylthioadenosine nucleosidase from2 weissella paramesenteroides atcc 33313 (target nysgrc-029342 )
c4fc3E_ oxygen transport/protein binding Chain: E: iron-regulated surface determinant protein h; crystal structure of human methaemoglobin complexed with the second2 neat domain of isdh from staphylococcus aureus
c4gkkV_ ribosome/antibiotic Chain: V: 30s ribosomal protein thx; structure of the thermus thermophilus 30s ribosomal subunit complexed2 with a human mitochondrial anticodon stem loop (asl) of transfer rna3 methionine (trnamet) bound to an mrna with an aua-codon in the a-site4 and paromomycin
c4kmqA_ structural genomics, unknown function Chain: A: lmo2446 protein; 1.9 angstrom resolution crystal structure of uncharacterized protein2 lmo2446 from listeria monocytogenes egd-e
c4g6tB_ chaperone Chain: B: type iii effector hopa1; structure of the hopa1-scha chaperone-effector complex
c3w38A_ hydrolase, carbohydrate Chain: A: alpha-glucosidase; sugar beet alpha-glucosidase
c4idwC_ hormone Chain: C: insulin a chain; polycrystalline t6 bovine insulin: anisotropic lattice evolution and2 novel structure refinement strategy
c4fazB_ isomerase Chain: B: 4-oxalocrotonate isomerase protein; kinetic and structural characterization of the 4-oxalocrotonate2 tautomerase isozymes from methylibium petroleiphilum
c4knaA_ oxidoreductase Chain: A: n-succinylglutamate 5-semialdehyde dehydrogenase; crystal structure of an n-succinylglutamate 5-semialdehyde2 dehydrogenase from burkholderia thailandensis
c4hubG_ ribosome Chain: G: 50s ribosomal protein l10e; the re-refined crystal structure of the haloarcula marismortui large2 ribosomal subunit at 2.4 angstrom resolution: more complete structure3 of the l7/l12 and l1 stalk, l5 and lx proteins
c4jyjA_ isomerase Chain: A: enoyl-coa hydratase/isomerase; crystal structure of putative enoyl-coa hydratase/isomerase from2 novosphingobium aromaticivorans dsm 12444
c4kmrB_ transcription regulator Chain: B: transcriptional regulator, laci family; structure of a putative transcriptional regulator of laci family from2 sanguibacter keddieii dsm 10542.
c3zppA_ cell adhesion Chain: A: cell wall surface anchor family protein; structure of the streptococcus pneumoniae surface protein2 and adhesin pfba
c4km5A_ transferase Chain: A: cyclic gmp-amp synthase; x-ray crystal structure of human cyclic gmp-amp synthase (cgas)
c4bgdA_ transcription Chain: A: pre-mrna-splicing helicase brr2; crystal structure of brr2 in complex with the jab1/mpn domain of prp8
c4ar1A_ hydrolase Chain: A: colh protein; crystal structure of the peptidase domain of collagenase h from2 clostridium histolyticum at 2.01 angstrom resolution.
c2m6nA_ cell cycle Chain: A: f-box only protein 5; 3d solution structure of emi1 (early mitotic inhibitor 1)
c4he4A_ fluorescent protein Chain: A: yellow fluorescent protein; crystal structure of the yellow fluorescent protein phiyfp (phialidium2 sp.)
c4g6tA_ chaperone Chain: A: type iii chaperone protein shca; structure of the hopa1-scha chaperone-effector complex
c4aogA_ structural protein Chain: A: nc2; solution structure of the class ii hydrophobin nc2
c4hyqA_ hydrolase Chain: A: phospholipase a1; crystal structure of phospholipase a1 from streptomyces albidoflavus2 na297
c4hubI_ ribosome Chain: I: 50s ribosomal protein l11p; the re-refined crystal structure of the haloarcula marismortui large2 ribosomal subunit at 2.4 angstrom resolution: more complete structure3 of the l7/l12 and l1 stalk, l5 and lx proteins
c4jqfA_ dna binding protein Chain: A: cst complex subunit stn1; structure of the c-terminal domain of human telomeric stn1
c4kq9A_ transport protein Chain: A: ribose abc transporter, substrate binding protein; crystal structure of periplasmic ribose abc transporter from2 conexibacter woesei dsm 14684
c4iauA_ unknown function Chain: A: beta-gamma-crystallin; atomic resolution structure of geodin, a beta-gamma crystallin from2 geodia cydonium
c4kvfA_ transport protein Chain: A: rhamnose abc transporter, periplasmic rhamnose-binding the crystal structure of a rhamnose abc transporter, periplasmic2 rhamnose-binding protein from kribbella flavida dsm 17836
c4gkjV_ ribosome/antibiotic Chain: V: 30s ribosomal protein thx; structure of the thermus thermophilus 30s ribosomal subunit complexed2 with a human mitochondrial anticodon stem loop (asl) of transfer rna3 methionine (trnamet) bound to an mrna with an aug-codon in the a-site4 and paromomycin.
c2m7xA_ membrane protein Chain: A: na(+)/h(+) antiporter; structural and functional analysis of transmembrane segment iv of the2 salt tolerance protein sod2
c2m7lA_ structural protein Chain: A: calponin homology domain protein, putative; alfa-actinin from parasite entamoeba histolytica
c4bdtA_ hydrolase/inhibitor Chain: A: acetylcholinesterase; human acetylcholinesterase in complex with huprine w and2 fasciculin 2


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Please cite: The Phyre2 web portal for protein modeling, prediction and analysis
Kelley LA et al. Nature Protocols 10, 845-858 (2015) [paper] [Citation link]
 
© Structural Bioinformatics Group, Imperial College, London
Lawrence Kelley, Michael Sternberg 
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