Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	D	H	R	L	L	E	I	I	A	C	P	V	C	N	G	K	L	W	Y	N	Q	E	K	Q	E	L	I	C	K	L	D	N	L	A	F	P	L	R	D	G	I	P	V	L	L	E	T	E	A	R	V	L	T	A	D	E	S	K	S
Secondary structure
SS confidence
Disorder		?	?																																																?		?	?	?	?	?	?	?	?	?
Disorder confidence
Sequence
Secondary structure
SS confidence
Disorder
Disorder confidence

Confidence Key
High(9)											Low (0)

?	Disordered
	Alpha helix
	Beta strand

Domain analysis

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

Rank Aligned region

PDB 2js4 chain A Region: 1 - 60 Aligned: 60 Modelled: 60 Confidence: 99.9% Identity: 50% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0434 protein bb2007; PDBTitle: solution nmr structure of bordetella bronchiseptica protein2 bb2007. northeast structural genomics consortium target3 bor54 Phyre2 PDB 2jr6 chain A Region: 1 - 60 Aligned: 60 Modelled: 60 Confidence: 99.9% Identity: 48% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0434 protein nma0874; PDBTitle: solution structure of upf0434 protein nma0874. northeast structural2 genomics target mr32 Phyre2 PDB 2jny chain A domain 1 Region: 1 - 57 Aligned: 57 Modelled: 57 Confidence: 99.9% Identity: 44% Fold: Trm112p-like Superfamily: Trm112p-like Family: Trm112p-like Phyre2 PDB 2hf1 chain A domain 1 Region: 2 - 57 Aligned: 56 Modelled: 56 Confidence: 99.9% Identity: 55% Fold: Trm112p-like Superfamily: Trm112p-like Family: Trm112p-like Phyre2 PDB 2pk7 chain A domain 1 Region: 4 - 57 Aligned: 54 Modelled: 54 Confidence: 99.9% Identity: 57% Fold: Trm112p-like Superfamily: Trm112p-like Family: Trm112p-like Phyre2 PDB 2k5r chain A Region: 1 - 55 Aligned: 55 Modelled: 55 Confidence: 99.8% Identity: 33% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein xf2673; PDBTitle: solution nmr structure of xf2673 from xylella fastidiosa.2 northeast structural genomics consortium target xfr39 Phyre2 PDB 2kpi chain A Region: 1 - 52 Aligned: 52 Modelled: 52 Confidence: 99.8% Identity: 44% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein sco3027; PDBTitle: solution nmr structure of streptomyces coelicolor sco30272 modeled with zn+2 bound, northeast structural genomics3 consortium target rr58 Phyre2 PDB 2j6a chain A Region: 18 - 46 Aligned: 29 Modelled: 29 Confidence: 98.5% Identity: 28% PDB header:transferase Chain: A: PDB Molecule:protein trm112; PDBTitle: crystal structure of s. cerevisiae ynr046w, a zinc finger2 protein from the erf1 methyltransferase complex. Phyre2 PDB 1p91 chain A Region: 9 - 47 Aligned: 37 Modelled: 37 Confidence: 97.6% Identity: 27% Fold: S-adenosyl-L-methionine-dependent methyltransferases Superfamily: S-adenosyl-L-methionine-dependent methyltransferases Family: rRNA methyltransferase RlmA Phyre2 PDB 1dl6 chain A Region: 4 - 35 Aligned: 32 Modelled: 32 Confidence: 95.7% Identity: 22% Fold: Rubredoxin-like Superfamily: Zinc beta-ribbon Family: Transcriptional factor domain Phyre2 PDB 3k7a chain M Region: 9 - 35 Aligned: 27 Modelled: 27 Confidence: 95.0% Identity: 26% PDB header:transcription Chain: M: PDB Molecule:transcription initiation factor iib; PDBTitle: crystal structure of an rna polymerase ii-tfiib complex Phyre2 PDB 1pft chain A Region: 10 - 35 Aligned: 26 Modelled: 26 Confidence: 94.5% Identity: 31% Fold: Rubredoxin-like Superfamily: Zinc beta-ribbon Family: Transcriptional factor domain Phyre2 PDB 2akl chain A Region: 10 - 37 Aligned: 27 Modelled: 28 Confidence: 92.9% Identity: 26% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:phna-like protein pa0128; PDBTitle: solution structure for phn-a like protein pa0128 from2 pseudomonas aeruginosa Phyre2 PDB 2gb5 chain B Region: 11 - 53 Aligned: 43 Modelled: 43 Confidence: 92.4% Identity: 9% PDB header:hydrolase Chain: B: PDB Molecule:nadh pyrophosphatase; PDBTitle: crystal structure of nadh pyrophosphatase (ec 3.6.1.22) (1790429) from2 escherichia coli k12 at 2.30 a resolution Phyre2 PDB 2akl chain A domain 2 Region: 10 - 37 Aligned: 27 Modelled: 28 Confidence: 92.4% Identity: 26% Fold: Rubredoxin-like Superfamily: Zinc beta-ribbon Family: PhnA zinc-binding domain Phyre2 PDB 3q87 chain A Region: 1 - 42 Aligned: 42 Modelled: 42 Confidence: 90.1% Identity: 50% PDB header:transferase activator/transferase Chain: A: PDB Molecule:putative uncharacterized protein ecu08_1170; PDBTitle: structure of eukaryotic translation termination complex2 methyltransferase mtq2-trm112 Phyre2 PDB 2fiy chain A domain 1 Region: 11 - 39 Aligned: 29 Modelled: 29 Confidence: 83.2% Identity: 21% Fold: FdhE-like Superfamily: FdhE-like Family: FdhE-like Phyre2 PDB 2jne chain A Region: 9 - 39 Aligned: 29 Modelled: 29 Confidence: 82.1% Identity: 17% PDB header:metal binding protein Chain: A: PDB Molecule:hypothetical protein yfgj; PDBTitle: nmr structure of e.coli yfgj modelled with two zn+2 bound.2 northeast structural genomics consortium target er317. Phyre2 PDB 2jne chain A domain 1 Region: 9 - 39 Aligned: 29 Modelled: 29 Confidence: 82.1% Identity: 17% Fold: Rubredoxin-like Superfamily: YfgJ-like Family: YfgJ-like Phyre2 PDB 2dcu chain B Region: 1 - 40 Aligned: 40 Modelled: 40 Confidence: 80.9% Identity: 23% PDB header:translation Chain: B: PDB Molecule:translation initiation factor 2 beta subunit; PDBTitle: crystal structure of translation initiation factor aif2betagamma2 heterodimer with gdp Phyre2 1 c2js4A_ 2 c2jr6A_ 3 d2jnya1 4 d2hf1a1 5 d2pk7a1 6 c2k5rA_ 7 c2kpiA_ 8 c2j6aA_ 9 d1p91a_ 10 d1dl6a_ 11 c3k7aM_ 12 d1pfta_ 13 c2aklA_ 14 c2gb5B_ 15 d2akla2 16 c3q87A_ 17 d2fiya1 18 c2jneA_ 19 d2jnea1 20 c2dcuB_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129

Detailed template information

# Template Alignment Coverage 3D Model Confidence % i.d. Template Information

1 c2js4A_ 99.9 50 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0434 protein bb2007; PDBTitle: solution nmr structure of bordetella bronchiseptica protein2 bb2007. northeast structural genomics consortium target3 bor54 2 c2jr6A_ 99.9 48 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0434 protein nma0874; PDBTitle: solution structure of upf0434 protein nma0874. northeast structural2 genomics target mr32 3 d2jnya1 99.9 44 Fold:Trm112p-like Superfamily:Trm112p-like Family:Trm112p-like 4 d2hf1a1 99.9 55 Fold:Trm112p-like Superfamily:Trm112p-like Family:Trm112p-like 5 d2pk7a1 99.9 57 Fold:Trm112p-like Superfamily:Trm112p-like Family:Trm112p-like 6 c2k5rA_ 99.8 33 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein xf2673; PDBTitle: solution nmr structure of xf2673 from xylella fastidiosa.2 northeast structural genomics consortium target xfr39 7 c2kpiA_ 99.8 44 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein sco3027; PDBTitle: solution nmr structure of streptomyces coelicolor sco30272 modeled with zn+2 bound, northeast structural genomics3 consortium target rr58 8 c2j6aA_ 98.5 28 PDB header:transferase Chain: A: PDB Molecule:protein trm112; PDBTitle: crystal structure of s. cerevisiae ynr046w, a zinc finger2 protein from the erf1 methyltransferase complex. 9 d1p91a_ 97.6 27 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:rRNA methyltransferase RlmA 10 d1dl6a_ 95.7 22 Fold:Rubredoxin-like Superfamily:Zinc beta-ribbon Family:Transcriptional factor domain 11 c3k7aM_ 95.0 26 PDB header:transcription Chain: M: PDB Molecule:transcription initiation factor iib; PDBTitle: crystal structure of an rna polymerase ii-tfiib complex 12 d1pfta_ 94.5 31 Fold:Rubredoxin-like Superfamily:Zinc beta-ribbon Family:Transcriptional factor domain 13 c2aklA_ 92.9 26 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:phna-like protein pa0128; PDBTitle: solution structure for phn-a like protein pa0128 from2 pseudomonas aeruginosa 14 c2gb5B_ 92.4 9 PDB header:hydrolase Chain: B: PDB Molecule:nadh pyrophosphatase; PDBTitle: crystal structure of nadh pyrophosphatase (ec 3.6.1.22) (1790429) from2 escherichia coli k12 at 2.30 a resolution 15 d2akla2 92.4 26 Fold:Rubredoxin-like Superfamily:Zinc beta-ribbon Family:PhnA zinc-binding domain 16 c3q87A_ 90.1 50 PDB header:transferase activator/transferase Chain: A: PDB Molecule:putative uncharacterized protein ecu08_1170; PDBTitle: structure of eukaryotic translation termination complex2 methyltransferase mtq2-trm112 17 d2fiya1 83.2 21 Fold:FdhE-like Superfamily:FdhE-like Family:FdhE-like 18 c2jneA_ 82.1 17 PDB header:metal binding protein Chain: A: PDB Molecule:hypothetical protein yfgj; PDBTitle: nmr structure of e.coli yfgj modelled with two zn+2 bound.2 northeast structural genomics consortium target er317. 19 d2jnea1 82.1 17 Fold:Rubredoxin-like Superfamily:YfgJ-like Family:YfgJ-like 20 c2dcuB_ 80.9 23 PDB header:translation Chain: B: PDB Molecule:translation initiation factor 2 beta subunit; PDBTitle: crystal structure of translation initiation factor aif2betagamma2 heterodimer with gdp 21 c1neeA_ not modelled 80.6 18 PDB header:translation Chain: A: PDB Molecule:probable translation initiation factor 2 beta PDBTitle: structure of archaeal translation factor aif2beta from2 methanobacterium thermoautrophicum 22 d2ct7a1 not modelled 77.7 27 Fold:RING/U-box Superfamily:RING/U-box Family:IBR domain 23 c2e9hA_ not modelled 77.2 26 PDB header:translation Chain: A: PDB Molecule:eukaryotic translation initiation factor 5; PDBTitle: solution structure of the eif-5_eif-2b domain from human2 eukaryotic translation initiation factor 5 24 c2jrpA_ not modelled 75.7 34 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative cytoplasmic protein; PDBTitle: solution nmr structure of yfgj from salmonella typhimurium2 modeled with two zn+2 bound, northeast structural genomics3 consortium target str86 25 c3cw2M_ not modelled 74.3 18 PDB header:translation Chain: M: PDB Molecule:translation initiation factor 2 subunit beta; PDBTitle: crystal structure of the intact archaeal translation2 initiation factor 2 from sulfolobus solfataricus . 26 c3gceA_ not modelled 73.5 29 PDB header:oxidoreductase Chain: A: PDB Molecule:ferredoxin component of carbazole 1,9a- PDBTitle: ferredoxin of carbazole 1,9a-dioxygenase from nocardioides2 aromaticivorans ic177 27 c2k5cA_ not modelled 70.7 30 PDB header:metal binding protein Chain: A: PDB Molecule:uncharacterized protein pf0385; PDBTitle: nmr structure for pf0385 28 c3cngC_ not modelled 69.6 19 PDB header:hydrolase Chain: C: PDB Molecule:nudix hydrolase; PDBTitle: crystal structure of nudix hydrolase from nitrosomonas europaea 29 d1k81a_ not modelled 67.8 24 Fold:Zinc-binding domain of translation initiation factor 2 beta Superfamily:Zinc-binding domain of translation initiation factor 2 beta Family:Zinc-binding domain of translation initiation factor 2 beta 30 c2f9iD_ not modelled 66.7 21 PDB header:transferase Chain: D: PDB Molecule:acetyl-coenzyme a carboxylase carboxyl PDBTitle: crystal structure of the carboxyltransferase subunit of acc2 from staphylococcus aureus 31 d1vm9a_ not modelled 66.6 22 Fold:ISP domain Superfamily:ISP domain Family:Rieske iron-sulfur protein (ISP) 32 d1dgsa1 not modelled 65.5 26 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:NAD+-dependent DNA ligase, domain 3 33 c1i3qI_ not modelled 63.3 18 PDB header:transcription Chain: I: PDB Molecule:dna-directed rna polymerase ii 14.2kd PDBTitle: rna polymerase ii crystal form i at 3.1 a resolution 34 c2i7fB_ not modelled 60.7 22 PDB header:oxidoreductase Chain: B: PDB Molecule:ferredoxin component of dioxygenase; PDBTitle: sphingomonas yanoikuyae b1 ferredoxin 35 c2owoA_ not modelled 59.7 24 PDB header:ligase/dna Chain: A: PDB Molecule:dna ligase; PDBTitle: last stop on the road to repair: structure of e.coli dna ligase bound2 to nicked dna-adenylate 36 c2f9yB_ not modelled 58.9 16 PDB header:ligase Chain: B: PDB Molecule:acetyl-coenzyme a carboxylase carboxyl transferase subunit PDBTitle: the crystal structure of the carboxyltransferase subunit of acc from2 escherichia coli 37 d2f9yb1 not modelled 58.9 16 Fold:ClpP/crotonase Superfamily:ClpP/crotonase Family:Biotin dependent carboxylase carboxyltransferase domain 38 c3h0gI_ not modelled 58.7 19 PDB header:transcription Chain: I: PDB Molecule:dna-directed rna polymerase ii subunit rpb9; PDBTitle: rna polymerase ii from schizosaccharomyces pombe 39 d1l1oc_ not modelled 57.7 37 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 40 d3c0da1 not modelled 56.5 16 Fold:ISP domain Superfamily:ISP domain Family:NirD-like 41 d1bora_ not modelled 55.8 21 Fold:RING/U-box Superfamily:RING/U-box Family:RING finger domain, C3HC4 42 c2f5qA_ not modelled 55.4 13 PDB header:hydrolase/dna Chain: A: PDB Molecule:formamidopyrimidine-dna glycosidase; PDBTitle: catalytically inactive (e3q) mutm crosslinked to oxog:c2 containing dna cc2 43 d1jm7b_ not modelled 55.2 21 Fold:RING/U-box Superfamily:RING/U-box Family:RING finger domain, C3HC4 44 d1rfsa_ not modelled 54.6 12 Fold:ISP domain Superfamily:ISP domain Family:Rieske iron-sulfur protein (ISP) 45 c2opfA_ not modelled 54.6 13 PDB header:hydrolase/dna Chain: A: PDB Molecule:endonuclease viii; PDBTitle: crystal structure of the dna repair enzyme endonuclease-viii (nei)2 from e. coli (r252a) in complex with ap-site containing dna substrate 46 d1g8kb_ not modelled 53.5 14 Fold:ISP domain Superfamily:ISP domain Family:Rieske iron-sulfur protein (ISP) 47 d2jzaa1 not modelled 52.7 25 Fold:ISP domain Superfamily:ISP domain Family:NirD-like 48 d1wiia_ not modelled 52.2 23 Fold:Rubredoxin-like Superfamily:Zinc beta-ribbon Family:Putative zinc binding domain 49 c1nnjA_ not modelled 51.9 12 PDB header:hydrolase Chain: A: PDB Molecule:formamidopyrimidine-dna glycosylase; PDBTitle: crystal structure complex between the lactococcus lactis fpg and an2 abasic site containing dna 50 c1ee8A_ not modelled 51.8 17 PDB header:dna binding protein Chain: A: PDB Molecule:mutm (fpg) protein; PDBTitle: crystal structure of mutm (fpg) protein from thermus thermophilus hb8 51 c2kdxA_ not modelled 48.1 34 PDB header:metal-binding protein Chain: A: PDB Molecule:hydrogenase/urease nickel incorporation protein PDBTitle: solution structure of hypa protein 52 c1k82D_ not modelled 48.0 21 PDB header:hydrolase/dna Chain: D: PDB Molecule:formamidopyrimidine-dna glycosylase; PDBTitle: crystal structure of e.coli formamidopyrimidine-dna2 glycosylase (fpg) covalently trapped with dna 53 c2yu4A_ not modelled 48.0 17 PDB header:apoptosis Chain: A: PDB Molecule:e3 sumo-protein ligase nse2; PDBTitle: solution structure of the sp-ring domain in non-smc element2 2 homolog (mms21, s. cerevisiae) 54 c2gajA_ not modelled 47.8 22 PDB header:isomerase Chain: A: PDB Molecule:dna topoisomerase i; PDBTitle: structure of full length topoisomerase i from thermotoga maritima in2 monoclinic crystal form 55 d1q90c_ not modelled 46.9 6 Fold:ISP domain Superfamily:ISP domain Family:Rieske iron-sulfur protein (ISP) 56 c3ztgA_ not modelled 46.2 10 PDB header:ligase Chain: A: PDB Molecule:e3 ubiquitin-protein ligase rbbp6; PDBTitle: solution structure of the ring finger-like domain of2 retinoblastoma binding protein-6 (rbbp6) 57 d1vd4a_ not modelled 46.1 21 Fold:Rubredoxin-like Superfamily:Zinc beta-ribbon Family:Transcriptional factor domain 58 d1ibia2 not modelled 46.0 26 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LIM domain 59 c3bvoA_ not modelled 44.9 13 PDB header:chaperone Chain: A: PDB Molecule:co-chaperone protein hscb, mitochondrial precursor; PDBTitle: crystal structure of human co-chaperone protein hscb 60 d2jo6a1 not modelled 44.6 28 Fold:ISP domain Superfamily:ISP domain Family:NirD-like 61 c2ba1B_ not modelled 44.3 19 PDB header:rna binding protein Chain: B: PDB Molecule:archaeal exosome rna binding protein csl4; PDBTitle: archaeal exosome core 62 c2riqA_ not modelled 44.3 24 PDB header:transferase Chain: A: PDB Molecule:poly [adp-ribose] polymerase 1; PDBTitle: crystal structure of the third zinc-binding domain of human parp-1 63 c2jvnA_ not modelled 44.0 24 PDB header:transferase Chain: A: PDB Molecule:poly [adp-ribose] polymerase 1; PDBTitle: domain c of human parp-1 64 c3lrqB_ not modelled 43.3 21 PDB header:ligase Chain: B: PDB Molecule:e3 ubiquitin-protein ligase trim37; PDBTitle: crystal structure of the u-box domain of human ubiquitin-2 protein ligase (e3), northeast structural genomics3 consortium target hr4604d. 65 c2de7E_ not modelled 42.7 19 PDB header:oxidoreductase Chain: E: PDB Molecule:ferredoxin component of carbazole; PDBTitle: the substrate-bound complex between oxygenase and2 ferredoxin in carbazole 1,9a-dioxygenase 66 d1fqta_ not modelled 42.4 23 Fold:ISP domain Superfamily:ISP domain Family:Rieske iron-sulfur protein (ISP) 67 c2qpzA_ not modelled 42.1 20 PDB header:metal binding protein Chain: A: PDB Molecule:naphthalene 1,2-dioxygenase system ferredoxin PDBTitle: naphthalene 1,2-dioxygenase rieske ferredoxin 68 c3d89A_ not modelled 41.3 18 PDB header:electron transport Chain: A: PDB Molecule:rieske domain-containing protein; PDBTitle: crystal structure of a soluble rieske ferredoxin from mus musculus 69 d2baya1 not modelled 40.8 9 Fold:RING/U-box Superfamily:RING/U-box Family:U-box 70 c3cc4Z_ not modelled 40.5 26 PDB header:ribosome Chain: Z: PDB Molecule:50s ribosomal protein l37ae; PDBTitle: co-crystal structure of anisomycin bound to the 50s ribosomal subunit 71 c4a17Y_ not modelled 39.9 19 PDB header:ribosome Chain: Y: PDB Molecule:rpl37a; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 5s rrna,3 5.8s rrna and proteins of molecule 2. 72 d1ffkw_ not modelled 39.0 19 Fold:Rubredoxin-like Superfamily:Zn-binding ribosomal proteins Family:Ribosomal protein L37ae 73 d1tdza3 not modelled 38.9 12 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins 74 d1weva_ not modelled 38.6 22 Fold:FYVE/PHD zinc finger Superfamily:FYVE/PHD zinc finger Family:PHD domain 75 c2nn6I_ not modelled 38.5 8 PDB header:hydrolase/transferase Chain: I: PDB Molecule:3'-5' exoribonuclease csl4 homolog; PDBTitle: structure of the human rna exosome composed of rrp41, rrp45,2 rrp46, rrp43, mtr3, rrp42, csl4, rrp4, and rrp40 76 d1k82a3 not modelled 38.5 21 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins 77 c2qa4Z_ not modelled 38.2 26 PDB header:ribosome Chain: Z: PDB Molecule:50s ribosomal protein l37ae; PDBTitle: a more complete structure of the the l7/l12 stalk of the2 haloarcula marismortui 50s large ribosomal subunit 78 d1k3xa3 not modelled 37.6 13 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins 79 c1dgsB_ not modelled 37.6 23 PDB header:ligase Chain: B: PDB Molecule:dna ligase; PDBTitle: crystal structure of nad+-dependent dna ligase from t.2 filiformis 80 d1r2za3 not modelled 37.4 13 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins 81 d2k4xa1 not modelled 37.4 15 Fold:Rubredoxin-like Superfamily:Zn-binding ribosomal proteins Family:Ribosomal protein S27a 82 d1z01a1 not modelled 37.3 22 Fold:ISP domain Superfamily:ISP domain Family:Ring hydroxylating alpha subunit ISP domain 83 d1l1ta3 not modelled 37.0 13 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins 84 c2e76D_ not modelled 36.4 12 PDB header:photosynthesis Chain: D: PDB Molecule:cytochrome b6-f complex iron-sulfur subunit; PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus 85 c2qkdA_ not modelled 35.6 27 PDB header:signaling protein, cell cycle Chain: A: PDB Molecule:zinc finger protein zpr1; PDBTitle: crystal structure of tandem zpr1 domains 86 c2y43B_ not modelled 35.2 14 PDB header:ligase Chain: B: PDB Molecule:e3 ubiquitin-protein ligase rad18; PDBTitle: rad18 ubiquitin ligase ring domain structure 87 c3floD_ not modelled 35.1 34 PDB header:transferase Chain: D: PDB Molecule:dna polymerase alpha catalytic subunit a; PDBTitle: crystal structure of the carboxyl-terminal domain of yeast2 dna polymerase alpha in complex with its b subunit 88 d1vqoz1 not modelled 34.9 26 Fold:Rubredoxin-like Superfamily:Zn-binding ribosomal proteins Family:Ribosomal protein L37ae 89 c1rmdA_ not modelled 34.6 17 PDB header:dna-binding protein Chain: A: PDB Molecule:rag1; PDBTitle: rag1 dimerization domain 90 c1yshD_ not modelled 34.6 15 PDB header:structural protein/rna Chain: D: PDB Molecule:ribosomal protein l37a; PDBTitle: localization and dynamic behavior of ribosomal protein l30e 91 c1v9pB_ not modelled 33.7 23 PDB header:ligase Chain: B: PDB Molecule:dna ligase; PDBTitle: crystal structure of nad+-dependent dna ligase 92 c2zkrz_ not modelled 33.7 11 PDB header:ribosomal protein/rna Chain: Z: PDB Molecule:e site t-rna; PDBTitle: structure of a mammalian ribosomal 60s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map 93 d1jj2y_ not modelled 33.6 22 Fold:Rubredoxin-like Superfamily:Zn-binding ribosomal proteins Family:Ribosomal protein L37ae 94 c3a44D_ not modelled 33.6 14 PDB header:metal binding protein Chain: D: PDB Molecule:hydrogenase nickel incorporation protein hypa; PDBTitle: crystal structure of hypa in the dimeric form 95 d2de6a1 not modelled 33.1 19 Fold:ISP domain Superfamily:ISP domain Family:Ring hydroxylating alpha subunit ISP domain 96 c3ndjA_ not modelled 33.0 33 PDB header:transferase Chain: A: PDB Molecule:methyltransferase; PDBTitle: x-ray structure of a c-3'-methyltransferase in complex with s-2 adenosyl-l-homocysteine and sugar product 97 c2hl7A_ not modelled 32.7 29 PDB header:oxidoreductase Chain: A: PDB Molecule:cytochrome c-type biogenesis protein ccmh; PDBTitle: crystal structure of the periplasmic domain of ccmh from pseudomonas2 aeruginosa 98 c2f6nA_ not modelled 32.4 20 PDB header:transcription Chain: A: PDB Molecule:bromodomain phd finger transcription factor; PDBTitle: crystal structure of phd finger-linker-bromodomain fragment2 of human bptf in the free form 99 d1ee8a3 not modelled 31.1 19 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins 100 d1jm7a_ not modelled 30.4 25 Fold:RING/U-box Superfamily:RING/U-box Family:RING finger domain, C3HC4 101 c2cklA_ not modelled 30.3 17 PDB header:transcription Chain: A: PDB Molecule:polycomb group ring finger protein 4; PDBTitle: ring1b-bmi1 e3 catalytic domain structure 102 c2ct2A_ not modelled 29.5 18 PDB header:ligase Chain: A: PDB Molecule:tripartite motif protein 32; PDBTitle: solution structure of the ring domain of the tripartite2 motif protein 32 103 c2ecwA_ not modelled 28.9 19 PDB header:apoptosis Chain: A: PDB Molecule:tripartite motif-containing protein 30; PDBTitle: solution structure of the zinc finger, c3hc4 type (ring2 finger) domain tripartite motif protein 30 104 d1p3ja2 not modelled 28.8 20 Fold:Rubredoxin-like Superfamily:Microbial and mitochondrial ADK, insert "zinc finger" domain Family:Microbial and mitochondrial ADK, insert "zinc finger" domain 105 c1nuiA_ not modelled 28.7 8 PDB header:replication Chain: A: PDB Molecule:dna primase/helicase; PDBTitle: crystal structure of the primase fragment of bacteriophage t7 primase-2 helicase protein 106 c3dqyA_ not modelled 28.4 20 PDB header:oxidoreductase Chain: A: PDB Molecule:toluene 1,2-dioxygenase system ferredoxin PDBTitle: crystal structure of toluene 2,3-dioxygenase ferredoxin 107 d1akya2 not modelled 27.8 16 Fold:Rubredoxin-like Superfamily:Microbial and mitochondrial ADK, insert "zinc finger" domain Family:Microbial and mitochondrial ADK, insert "zinc finger" domain 108 d1s3ga2 not modelled 27.8 27 Fold:Rubredoxin-like Superfamily:Microbial and mitochondrial ADK, insert "zinc finger" domain Family:Microbial and mitochondrial ADK, insert "zinc finger" domain 109 d1lv3a_ not modelled 27.5 19 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:Hypothetical zinc finger protein YacG 110 c3hi2C_ not modelled 26.8 29 PDB header:dna binding protein/toxin Chain: C: PDB Molecule:hth-type transcriptional regulator mqsa(ygit); PDBTitle: structure of the n-terminal domain of the e. coli antitoxin mqsa2 (ygit/b3021) in complex with the e. coli toxin mqsr (ygiu/b3022) 111 c2kw0A_ not modelled 26.5 36 PDB header:oxidoreductase Chain: A: PDB Molecule:ccmh protein; PDBTitle: solution structure of n-terminal domain of ccmh from escherichia.coli 112 c2xb1A_ not modelled 26.4 19 PDB header:transcription Chain: A: PDB Molecule:pygopus homolog 2, b-cell cll/lymphoma 9-like protein; PDBTitle: crystal structure of the human pygo2 phd finger in complex with the2 b9l hd1 domain 113 c3nw0A_ not modelled 26.4 20 PDB header:metal binding protein Chain: A: PDB Molecule:non-structural maintenance of chromosomes element 1 PDBTitle: crystal structure of mageg1 and nse1 complex 114 c1s1i9_ not modelled 26.4 15 PDB header:ribosome Chain: 9: PDB Molecule:60s ribosomal protein l43; PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from2 yeast obtained by docking atomic models for rna and protein3 components into a 11.7 a cryo-em map. this file, 1s1i,4 contains 60s subunit. the 40s ribosomal subunit is in file5 1s1h. 115 d1g25a_ not modelled 24.9 13 Fold:RING/U-box Superfamily:RING/U-box Family:RING finger domain, C3HC4 116 c3u50C_ not modelled 24.9 8 PDB header:dna binding protein Chain: C: PDB Molecule:telomerase-associated protein 82; PDBTitle: crystal structure of the tetrahymena telomerase processivity factor2 teb1 ob-c 117 d1e4va2 not modelled 24.5 5 Fold:Rubredoxin-like Superfamily:Microbial and mitochondrial ADK, insert "zinc finger" domain Family:Microbial and mitochondrial ADK, insert "zinc finger" domain 118 c3jyw9_ not modelled 24.5 15 PDB header:ribosome Chain: 9: PDB Molecule:60s ribosomal protein l43; PDBTitle: structure of the 60s proteins for eukaryotic ribosome based on cryo-em2 map of thermomyces lanuginosus ribosome at 8.9a resolution 119 d2dkta1 not modelled 24.1 12 Fold:CHY zinc finger-like Superfamily:CHY zinc finger-like Family:CHY zinc finger 120 c3gn5B_ not modelled 23.8 37 PDB header:dna binding protein Chain: B: PDB Molecule:hth-type transcriptional regulator mqsa (ygit/b3021); PDBTitle: structure of the e. coli protein mqsa (ygit/b3021)

Binding site prediction

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite

---

Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
© Structural Bioinformatics Group Imperial College London Lawrence Kelley, Benjamin Jefferys Disclaimer Terms and Conditions	Component software Template detection: HHpred 1.51 Secondary structure prediction: Psi-pred 2.5 Disorder prediction: Disopred 2.4 Transmembrane prediction: Memsat_SVM Multi-template modelling and ab initio: Poing 1.0