Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	R	I	A	G	I	N	I	P	D	H	K	H	A	V	I	A	L	T	S	I	Y	G	V	G	K	T	R	S	K	A	I	L	A	A	A	G	I	A	E	D	V	K	I	S	E	L	S	E	G	Q	I	D	T	L	R	D	E	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																																?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.
Sequence		A	K	F	V	V	E	G	D	L	R	R	E	I	S	M	S	I	K	R	L	M	D	L	G	C	Y	R	G	L	R	H	R	R	G	L	P	V	R	G	Q	R	T	K	T	N	A	R	T	R	K	G	P	R	K	P	I	K	K
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 2gy9 chain M domain 1 Region: 2 - 115 Aligned: 114 Modelled: 114 Confidence: 100.0% Identity: 100% Fold: S13-like H2TH domain Superfamily: S13-like H2TH domain Family: Ribosomal protein S13 Phyre2 PDB 2uub chain M domain 1 Region: 2 - 118 Aligned: 117 Modelled: 117 Confidence: 100.0% Identity: 57% Fold: S13-like H2TH domain Superfamily: S13-like H2TH domain Family: Ribosomal protein S13 Phyre2 PDB 2xzn chain M Region: 1 - 118 Aligned: 117 Modelled: 117 Confidence: 100.0% Identity: 33% PDB header:ribosome Chain: M: PDB Molecule:rps18e; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 2 Phyre2 PDB 3iz6 chain M Region: 1 - 118 Aligned: 118 Modelled: 118 Confidence: 100.0% Identity: 33% PDB header:ribosome Chain: M: PDB Molecule:40s ribosomal protein s18 (s13p); PDBTitle: localization of the small subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome Phyre2 PDB 2zkq chain M Region: 2 - 118 Aligned: 117 Modelled: 117 Confidence: 100.0% Identity: 34% PDB header:ribosomal protein/rna Chain: M: PDB Molecule: PDBTitle: structure of a mammalian ribosomal 40s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map Phyre2 PDB 3bbn chain M Region: 2 - 111 Aligned: 99 Modelled: 110 Confidence: 100.0% Identity: 45% PDB header:ribosome Chain: M: PDB Molecule:ribosomal protein s13; PDBTitle: homology model for the spinach chloroplast 30s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome. Phyre2 PDB 1i94 chain M Region: 2 - 93 Aligned: 92 Modelled: 92 Confidence: 100.0% Identity: 51% Fold: S13-like H2TH domain Superfamily: S13-like H2TH domain Family: Ribosomal protein S13 Phyre2 PDB 2hkj chain A domain 1 Region: 10 - 64 Aligned: 55 Modelled: 55 Confidence: 97.6% Identity: 24% Fold: S13-like H2TH domain Superfamily: S13-like H2TH domain Family: Topoisomerase VI-B subunit middle domain Phyre2 PDB 1ee8 chain A Region: 10 - 62 Aligned: 53 Modelled: 53 Confidence: 97.3% Identity: 17% PDB header:dna binding protein Chain: A: PDB Molecule:mutm (fpg) protein; PDBTitle: crystal structure of mutm (fpg) protein from thermus thermophilus hb8 Phyre2 PDB 1ee8 chain A domain 1 Region: 10 - 62 Aligned: 53 Modelled: 53 Confidence: 97.2% Identity: 17% Fold: S13-like H2TH domain Superfamily: S13-like H2TH domain Family: Middle domain of MutM-like DNA repair proteins Phyre2 PDB 1tdz chain A domain 1 Region: 22 - 62 Aligned: 41 Modelled: 41 Confidence: 97.1% Identity: 24% Fold: S13-like H2TH domain Superfamily: S13-like H2TH domain Family: Middle domain of MutM-like DNA repair proteins Phyre2 PDB 3a46 chain B Region: 22 - 60 Aligned: 39 Modelled: 39 Confidence: 97.0% Identity: 28% PDB header:hydrolase Chain: B: PDB Molecule:formamidopyrimidine-dna glycosylase; PDBTitle: crystal structure of mvnei1/thf complex Phyre2 PDB 1k82 chain A domain 1 Region: 10 - 60 Aligned: 51 Modelled: 51 Confidence: 97.0% Identity: 27% Fold: S13-like H2TH domain Superfamily: S13-like H2TH domain Family: Middle domain of MutM-like DNA repair proteins Phyre2 PDB 2f5q chain A Region: 10 - 60 Aligned: 51 Modelled: 51 Confidence: 97.0% Identity: 24% PDB header:hydrolase/dna Chain: A: PDB Molecule:formamidopyrimidine-dna glycosidase; PDBTitle: catalytically inactive (e3q) mutm crosslinked to oxog:c2 containing dna cc2 Phyre2 PDB 1k82 chain D Region: 10 - 60 Aligned: 51 Modelled: 51 Confidence: 96.9% Identity: 27% 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 Phyre2 PDB 1nnj chain A Region: 10 - 62 Aligned: 53 Modelled: 53 Confidence: 96.9% Identity: 23% 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 Phyre2 PDB 1r2z chain A domain 1 Region: 22 - 64 Aligned: 43 Modelled: 43 Confidence: 96.9% Identity: 26% Fold: S13-like H2TH domain Superfamily: S13-like H2TH domain Family: Middle domain of MutM-like DNA repair proteins Phyre2 PDB 2opf chain A Region: 12 - 62 Aligned: 51 Modelled: 51 Confidence: 96.7% Identity: 22% 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 Phyre2 PDB 1k3x chain A domain 1 Region: 22 - 62 Aligned: 41 Modelled: 41 Confidence: 96.7% Identity: 24% Fold: S13-like H2TH domain Superfamily: S13-like H2TH domain Family: Middle domain of MutM-like DNA repair proteins Phyre2 PDB 2i0z chain A domain 2 Region: 10 - 66 Aligned: 55 Modelled: 57 Confidence: 94.7% Identity: 20% Fold: HI0933 insert domain-like Superfamily: HI0933 insert domain-like Family: HI0933 insert domain-like Phyre2 1 d2gy9m1 2 d2uubm1 3 c2xznM_ 4 c3iz6M_ 5 c2zkqm_ 6 c3bbnM_ 7 d1i94m_ 8 d2hkja1 9 c1ee8A_ 10 d1ee8a1 11 d1tdza1 12 c3a46B_ 13 d1k82a1 14 c2f5qA_ 15 c1k82D_ 16 c1nnjA_ 17 d1r2za1 18 c2opfA_ 19 d1k3xa1 20 d2i0za2 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

Detailed template information

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

1 d2gy9m1 100.0 100 Fold:S13-like H2TH domain Superfamily:S13-like H2TH domain Family:Ribosomal protein S13 2 d2uubm1 100.0 57 Fold:S13-like H2TH domain Superfamily:S13-like H2TH domain Family:Ribosomal protein S13 3 c2xznM_ 100.0 33 PDB header:ribosome Chain: M: PDB Molecule:rps18e; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 2 4 c3iz6M_ 100.0 33 PDB header:ribosome Chain: M: PDB Molecule:40s ribosomal protein s18 (s13p); PDBTitle: localization of the small subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 5 c2zkqm_ 100.0 34 PDB header:ribosomal protein/rna Chain: M: PDB Molecule: PDBTitle: structure of a mammalian ribosomal 40s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map 6 c3bbnM_ 100.0 45 PDB header:ribosome Chain: M: PDB Molecule:ribosomal protein s13; PDBTitle: homology model for the spinach chloroplast 30s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome. 7 d1i94m_ 100.0 51 Fold:S13-like H2TH domain Superfamily:S13-like H2TH domain Family:Ribosomal protein S13 8 d2hkja1 97.6 24 Fold:S13-like H2TH domain Superfamily:S13-like H2TH domain Family:Topoisomerase VI-B subunit middle domain 9 c1ee8A_ 97.3 17 PDB header:dna binding protein Chain: A: PDB Molecule:mutm (fpg) protein; PDBTitle: crystal structure of mutm (fpg) protein from thermus thermophilus hb8 10 d1ee8a1 97.2 17 Fold:S13-like H2TH domain Superfamily:S13-like H2TH domain Family:Middle domain of MutM-like DNA repair proteins 11 d1tdza1 97.1 24 Fold:S13-like H2TH domain Superfamily:S13-like H2TH domain Family:Middle domain of MutM-like DNA repair proteins 12 c3a46B_ 97.0 28 PDB header:hydrolase Chain: B: PDB Molecule:formamidopyrimidine-dna glycosylase; PDBTitle: crystal structure of mvnei1/thf complex 13 d1k82a1 97.0 27 Fold:S13-like H2TH domain Superfamily:S13-like H2TH domain Family:Middle domain of MutM-like DNA repair proteins 14 c2f5qA_ 97.0 24 PDB header:hydrolase/dna Chain: A: PDB Molecule:formamidopyrimidine-dna glycosidase; PDBTitle: catalytically inactive (e3q) mutm crosslinked to oxog:c2 containing dna cc2 15 c1k82D_ 96.9 27 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 16 c1nnjA_ 96.9 23 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 17 d1r2za1 96.9 26 Fold:S13-like H2TH domain Superfamily:S13-like H2TH domain Family:Middle domain of MutM-like DNA repair proteins 18 c2opfA_ 96.7 22 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 19 d1k3xa1 96.7 24 Fold:S13-like H2TH domain Superfamily:S13-like H2TH domain Family:Middle domain of MutM-like DNA repair proteins 20 d2i0za2 94.7 20 Fold:HI0933 insert domain-like Superfamily:HI0933 insert domain-like Family:HI0933 insert domain-like 21 d1tdha1 not modelled 93.5 20 Fold:S13-like H2TH domain Superfamily:S13-like H2TH domain Family:Middle domain of MutM-like DNA repair proteins 22 c1tdhA_ not modelled 92.7 24 PDB header:hydrolase Chain: A: PDB Molecule:nei endonuclease viii-like 1; PDBTitle: crystal structure of human endonuclease viii-like 1 (neil1) 23 c3fuxB_ not modelled 92.2 29 PDB header:transferase Chain: B: PDB Molecule:dimethyladenosine transferase; PDBTitle: t. thermophilus 16s rrna a1518 and a1519 methyltransferase (ksga) in2 complex with 5'-methylthioadenosine in space group p212121 24 c1mx0D_ not modelled 89.5 26 PDB header:isomerase Chain: D: PDB Molecule:type ii dna topoisomerase vi subunit b; PDBTitle: structure of topoisomerase subunit 25 d2gqfa2 not modelled 88.0 13 Fold:HI0933 insert domain-like Superfamily:HI0933 insert domain-like Family:HI0933 insert domain-like 26 c1s5lu_ not modelled 86.3 26 PDB header:photosynthesis Chain: U: PDB Molecule:photosystem ii 12 kda extrinsic protein; PDBTitle: architecture of the photosynthetic oxygen evolving center 27 d1qyra_ not modelled 85.8 20 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:rRNA adenine dimethylase-like 28 d2axtu1 not modelled 84.5 25 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:PsbU-like 29 d1pzna1 not modelled 83.1 18 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 30 c2zbkB_ not modelled 82.5 22 PDB header:isomerase Chain: B: PDB Molecule:type 2 dna topoisomerase 6 subunit b; PDBTitle: crystal structure of an intact type ii dna topoisomerase:2 insights into dna transfer mechanisms 31 d2i1qa1 not modelled 82.4 27 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 32 d2bgwa1 not modelled 82.3 24 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 33 c3tqsB_ not modelled 80.0 14 PDB header:transferase Chain: B: PDB Molecule:ribosomal rna small subunit methyltransferase a; PDBTitle: structure of the dimethyladenosine transferase (ksga) from coxiella2 burnetii 34 d2a1jb1 not modelled 79.7 22 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 35 c1kftA_ not modelled 77.6 27 PDB header:dna binding protein Chain: A: PDB Molecule:excinuclease abc subunit c; PDBTitle: solution structure of the c-terminal domain of uvrc from e-2 coli 36 d1kfta_ not modelled 77.6 27 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Excinuclease UvrC C-terminal domain 37 d1x2ia1 not modelled 76.8 20 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 38 d1bvsa2 not modelled 75.3 25 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:DNA helicase RuvA subunit, middle domain 39 c1vddC_ not modelled 73.4 30 PDB header:recombination Chain: C: PDB Molecule:recombination protein recr; PDBTitle: crystal structure of recombinational repair protein recr 40 d1ixra1 not modelled 73.4 33 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:DNA helicase RuvA subunit, middle domain 41 d1cuka2 not modelled 72.6 32 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:DNA helicase RuvA subunit, middle domain 42 c1d8lA_ not modelled 72.3 25 PDB header:gene regulation Chain: A: PDB Molecule:protein (holliday junction dna helicase ruva); PDBTitle: e. coli holliday junction binding protein ruva nh2 region2 lacking domain iii 43 c3fhgA_ not modelled 69.5 26 PDB header:dna repair, hydrolase, lyase Chain: A: PDB Molecule:n-glycosylase/dna lyase; PDBTitle: crystal structure of sulfolobus solfataricus 8-oxoguanine dna2 glycosylase (ssogg) 44 c2h5xA_ not modelled 69.3 30 PDB header:dna binding protein Chain: A: PDB Molecule:holliday junction atp-dependent dna helicase ruva; PDBTitle: ruva from mycobacterium tuberculosis 45 c3fteA_ not modelled 68.9 24 PDB header:transferase/rna Chain: A: PDB Molecule:dimethyladenosine transferase; PDBTitle: crystal structure of a. aeolicus ksga in complex with rna 46 c1nomA_ not modelled 68.0 23 PDB header:nucleotidyltransferase Chain: A: PDB Molecule:dna polymerase beta; PDBTitle: dna polymerase beta (pol b) (e.c.2.7.7.7), 31-kd domain; soaked in the2 presence of mncl2 (5 millimolar) 47 d2fmpa2 not modelled 67.8 30 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:DNA polymerase beta-like, second domain 48 d2aq0a1 not modelled 67.1 14 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 49 c1ixrA_ not modelled 65.6 36 PDB header:hydrolase Chain: A: PDB Molecule:holliday junction dna helicase ruva; PDBTitle: ruva-ruvb complex 50 d1jmsa3 not modelled 65.0 30 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:DNA polymerase beta-like, second domain 51 c3mr2A_ not modelled 63.7 15 PDB header:transferase/dna Chain: A: PDB Molecule:dna polymerase eta; PDBTitle: human dna polymerase eta in complex with normal dna and incoming2 nucleotide (nrm) 52 d2vana1 not modelled 62.9 30 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:DNA polymerase beta-like, second domain 53 d2bcqa2 not modelled 62.5 20 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:DNA polymerase beta-like, second domain 54 d2duya1 not modelled 61.4 19 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:ComEA-like 55 c3kntC_ not modelled 60.7 22 PDB header:hydrolase, lyase/dna Chain: C: PDB Molecule:n-glycosylase/dna lyase; PDBTitle: crystal structure of methanocaldococcus jannaschii 8-2 oxoguanine glycosylase/lyase in complex with 15mer dna3 containing 8-oxoguanine 56 c3uzuA_ not modelled 60.4 14 PDB header:transferase Chain: A: PDB Molecule:ribosomal rna small subunit methyltransferase a; PDBTitle: the structure of the ribosomal rna small subunit methyltransferase a2 from burkholderia pseudomallei 57 d1dgsa1 not modelled 59.3 18 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:NAD+-dependent DNA ligase, domain 3 58 c1hjpA_ not modelled 57.3 24 PDB header:dna recombination Chain: A: PDB Molecule:ruva; PDBTitle: holliday junction binding protein ruva from e. coli 59 c2nrzB_ not modelled 55.8 24 PDB header:hydrolase Chain: B: PDB Molecule:uvrabc system protein c; PDBTitle: crystal structure of the c-terminal half of uvrc bound to2 its catalytic divalent cation 60 d2edua1 not modelled 55.7 15 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:ComEA-like 61 d2noha1 not modelled 52.7 31 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:DNA repair glycosylase, 2 C-terminal domains 62 d1gm5a2 not modelled 51.3 32 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:RecG "wedge" domain 63 c1ko9A_ not modelled 50.2 35 PDB header:hydrolase Chain: A: PDB Molecule:8-oxoguanine dna glycosylase; PDBTitle: native structure of the human 8-oxoguanine dna glycosylase2 hogg1 64 c8iczA_ not modelled 50.1 24 PDB header:transferase/dna Chain: A: PDB Molecule:protein (dna polymerase beta (e.c.2.7.7.7)); PDBTitle: dna polymerase beta (pol b) (e.c.2.7.7.7) complexed with2 seven base pairs of dna; soaked in the presence of of datp3 (1 millimolar), mncl2 (5 millimolar), and lithium sulfate4 (75 millimolar) 65 c3n0uB_ not modelled 49.6 15 PDB header:hydrolase, lyase Chain: B: PDB Molecule:probable n-glycosylase/dna lyase; PDBTitle: crystal structure of tm1821, the 8-oxoguanine dna glycosylase of2 thermotoga maritima 66 c2ihmA_ not modelled 48.7 24 PDB header:transferase/dna Chain: A: PDB Molecule:dna polymerase mu; PDBTitle: polymerase mu in ternary complex with gapped 11mer dna2 duplex and bound incoming nucleotide 67 c3f10A_ not modelled 47.5 29 PDB header:hydrolase, lyase Chain: A: PDB Molecule:8-oxoguanine-dna-glycosylase; PDBTitle: crystal structure of clostridium acetobutylicum 8-2 oxoguanine dna glycosylase in complex with 8-oxoguanosine 68 c1yqmA_ not modelled 47.5 35 PDB header:hydrolase/dna Chain: A: PDB Molecule:n-glycosylase/dna lyase; PDBTitle: catalytically inactive human 8-oxoguanine glycosylase2 crosslinked to 7-deazaguanine containing dna 69 c2yg8B_ not modelled 46.7 25 PDB header:hydrolase Chain: B: PDB Molecule:dna-3-methyladenine glycosidase ii, putative; PDBTitle: structure of an unusual 3-methyladenine dna glycosylase ii (2 alka) from deinococcus radiodurans 70 c3s6iA_ not modelled 45.7 35 PDB header:hydrolase/dna Chain: A: PDB Molecule:dna-3-methyladenine glycosylase 1; PDBTitle: schizosaccaromyces pombe 3-methyladenine dna glycosylase (mag1) in2 complex with abasic-dna. 71 d2abka_ not modelled 45.0 32 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Endonuclease III 72 c2jhnB_ not modelled 44.7 35 PDB header:hydrolase Chain: B: PDB Molecule:3-methyladenine dna-glycosylase; PDBTitle: 3-methyladenine dna-glycosylase from archaeoglobus fulgidus 73 c2w9mB_ not modelled 44.5 29 PDB header:dna replication Chain: B: PDB Molecule:polymerase x; PDBTitle: structure of family x dna polymerase from deinococcus2 radiodurans 74 c1kdhA_ not modelled 44.4 29 PDB header:transferase/dna Chain: A: PDB Molecule:terminal deoxynucleotidyltransferase short PDBTitle: binary complex of murine terminal deoxynucleotidyl2 transferase with a primer single stranded dna 75 d1kg2a_ not modelled 43.0 32 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 76 d1szpa1 not modelled 42.7 26 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 77 d1mpga1 not modelled 42.1 19 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:DNA repair glycosylase, 2 C-terminal domains 78 d1pu6a_ not modelled 41.8 44 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:3-Methyladenine DNA glycosylase III (MagIII) 79 d1keaa_ not modelled 41.5 35 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 80 c2hnhA_ not modelled 41.0 26 PDB header:transferase Chain: A: PDB Molecule:dna polymerase iii alpha subunit; PDBTitle: crystal structure of the catalytic alpha subunit of e. coli2 replicative dna polymerase iii 81 c2q2eB_ not modelled 40.8 18 PDB header:isomerase Chain: B: PDB Molecule:type 2 dna topoisomerase 6 subunit b; PDBTitle: crystal structure of the topoisomerase vi holoenzyme from2 methanosarcina mazei 82 d1orna_ not modelled 40.5 25 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Endonuclease III 83 c3doaA_ not modelled 38.4 9 PDB header:protein binding Chain: A: PDB Molecule:fibrinogen binding protein; PDBTitle: the crystal structure of the fibrinogen binding protein from2 staphylococcus aureus 84 d1a77a1 not modelled 38.2 18 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 85 c2h1rA_ not modelled 37.8 18 PDB header:transferase Chain: A: PDB Molecule:dimethyladenosine transferase, putative; PDBTitle: crystal structure of a dimethyladenosine transferase from2 plasmodium falciparum 86 c2bcuA_ not modelled 37.4 16 PDB header:transferase, lyase/dna Chain: A: PDB Molecule:dna polymerase lambda; PDBTitle: dna polymerase lambda in complex with a dna duplex2 containing an unpaired damp and a t:t mismatch 87 c1rrqA_ not modelled 37.1 32 PDB header:hydrolase/dna Chain: A: PDB Molecule:muty; PDBTitle: muty adenine glycosylase in complex with dna containing an2 a:oxog pair 88 d1vdda_ not modelled 35.8 17 Fold:Recombination protein RecR Superfamily:Recombination protein RecR Family:Recombination protein RecR 89 d1jiha2 not modelled 35.7 18 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 90 d1rrqa1 not modelled 35.4 32 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 91 c2h56C_ not modelled 33.6 4 PDB header:hydrolase Chain: C: PDB Molecule:dna-3-methyladenine glycosidase; PDBTitle: crystal structure of dna-3-methyladenine glycosidase (10174367) from2 bacillus halodurans at 2.55 a resolution 92 c3n5nX_ not modelled 32.0 30 PDB header:hydrolase Chain: X: PDB Molecule:a/g-specific adenine dna glycosylase; PDBTitle: crystal structure analysis of the catalytic domain and interdomain2 connector of human muty homologue 93 d1zq9a1 not modelled 31.7 11 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:rRNA adenine dimethylase-like 94 d1rxwa1 not modelled 31.7 24 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 95 d1mc8a1 not modelled 30.2 18 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 96 d1b43a1 not modelled 29.7 24 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 97 c1mpgB_ not modelled 29.2 19 PDB header:hydrolase Chain: B: PDB Molecule:3-methyladenine dna glycosylase ii; PDBTitle: 3-methyladenine dna glycosylase ii from escherichia coli 98 d1xo1a1 not modelled 28.6 29 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 99 c3grrA_ not modelled 28.5 26 PDB header:transferase Chain: A: PDB Molecule:dimethyladenosine transferase; PDBTitle: crystal structure of the complex between s-adenosyl homocysteine and2 methanocaldococcus jannaschi dim1. 100 d3bzka1 not modelled 28.2 31 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Tex HhH-containing domain-like 101 c3fydA_ not modelled 26.6 26 PDB header:transferase Chain: A: PDB Molecule:probable dimethyladenosine transferase; PDBTitle: crystal structure of dim1 from the thermophilic archeon,2 methanocaldococcus jannaschi 102 c2zkri_ not modelled 23.6 20 PDB header:ribosomal protein/rna Chain: I: PDB Molecule:rna expansion segment es15 part i; 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 103 c2oceA_ not modelled 22.6 25 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein pa5201; PDBTitle: crystal structure of tex family protein pa5201 from2 pseudomonas aeruginosa 104 c2r8kB_ not modelled 22.4 19 PDB header:replication, transferase/dna Chain: B: PDB Molecule:dna polymerase eta; PDBTitle: structure of the eukaryotic dna polymerase eta in complex with 1,2-2 d(gpg)-cisplatin containing dna 105 c2kp7A_ not modelled 22.2 5 PDB header:hydrolase Chain: A: PDB Molecule:crossover junction endonuclease mus81; PDBTitle: solution nmr structure of the mus81 n-terminal hhh.2 northeast structural genomics consortium target mmt1a 106 d1ul1x1 not modelled 22.2 24 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 107 c1jihA_ not modelled 21.6 19 PDB header:translation Chain: A: PDB Molecule:dna polymerase eta; PDBTitle: yeast dna polymerase eta 108 c2csdB_ not modelled 21.5 38 PDB header:isomerase Chain: B: PDB Molecule:topoisomerase v; PDBTitle: crystal structure of topoisomerase v (61 kda fragment) 109 d1b22a_ not modelled 21.3 14 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 110 c1b22A_ not modelled 21.3 14 PDB header:dna binding protein Chain: A: PDB Molecule:dna repair protein rad51; PDBTitle: rad51 (n-terminal domain) 111 c1ut8B_ not modelled 20.8 25 PDB header:hydrolase Chain: B: PDB Molecule:exodeoxyribonuclease; PDBTitle: divalent metal ions (zinc) bound to t5 5'-exonuclease 112 d2fmpa1 not modelled 20.3 21 Fold:SAM domain-like Superfamily:DNA polymerase beta, N-terminal domain-like Family:DNA polymerase beta, N-terminal domain-like

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

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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