Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	Q	T	S	P	L	L	T	Q	L	M	E	A	L	R	C	L	P	G	V	G	P	K	S	A	Q	R	M	A	F	T	L	L	Q	R	D	R	S	G	G	M	R	L	A	Q	A	L	T	R	A	M	S	E	I	G	H	C	A	D	C
Secondary structure
SS confidence
Disorder		?	?	?	?													?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		R	T	F	T	E	Q	E	V	C	N	I	C	S	N	P	R	R	Q	E	N	G	Q	I	C	V	V	E	S	P	A	D	I	Y	A	I	E	Q	T	G	Q	F	S	G	R	Y	F	V	L	M	G	H	L	S	P	L	D	G	I	G	P
Secondary structure
SS confidence
Disorder																	?																																								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		D	D	I	G	L	D	R	L	E	Q	R	L	A	E	E	K	I	T	E	V	I	L	A	T	N	P	T	V	E	G	E	A	T	A	N	Y	I	A	E	L	C	A	Q	Y	D	V	E	A	S	R	I	A	H	G	V	P	V	G	G	E
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.
Sequence		L	E	M	V	D	G	T	T	L	S	H	S	L	A	G	R	H	K	I	R	F
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 1vdd chain A Region: 1 - 200 Aligned: 197 Modelled: 200 Confidence: 100.0% Identity: 46% Fold: Recombination protein RecR Superfamily: Recombination protein RecR Family: Recombination protein RecR Phyre2 PDB 1vdd chain C Region: 2 - 200 Aligned: 196 Modelled: 197 Confidence: 100.0% Identity: 45% PDB header:recombination Chain: C: PDB Molecule:recombination protein recr; PDBTitle: crystal structure of recombinational repair protein recr Phyre2 PDB 2h5x chain A Region: 11 - 32 Aligned: 22 Modelled: 22 Confidence: 96.3% Identity: 41% PDB header:dna binding protein Chain: A: PDB Molecule:holliday junction atp-dependent dna helicase ruva; PDBTitle: ruva from mycobacterium tuberculosis Phyre2 PDB 1bvs chain A domain 2 Region: 11 - 32 Aligned: 22 Modelled: 22 Confidence: 95.9% Identity: 32% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: DNA helicase RuvA subunit, middle domain Phyre2 PDB 1ixr chain A domain 1 Region: 11 - 32 Aligned: 22 Modelled: 22 Confidence: 95.9% Identity: 36% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: DNA helicase RuvA subunit, middle domain Phyre2 PDB 1cuk chain A domain 2 Region: 11 - 32 Aligned: 22 Modelled: 22 Confidence: 95.7% Identity: 41% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: DNA helicase RuvA subunit, middle domain Phyre2 PDB 1gku chain B domain 3 Region: 81 - 200 Aligned: 107 Modelled: 120 Confidence: 95.4% Identity: 23% Fold: Prokaryotic type I DNA topoisomerase Superfamily: Prokaryotic type I DNA topoisomerase Family: Prokaryotic type I DNA topoisomerase Phyre2 PDB 2o59 chain B Region: 82 - 171 Aligned: 88 Modelled: 90 Confidence: 94.9% Identity: 20% PDB header:isomerase/dna Chain: B: PDB Molecule:dna topoisomerase 3; PDBTitle: structure of e. coli topoisomerase iii in complex with an 8-2 base single stranded oligonucleotide. frozen in glycerol3 ph 8.0 Phyre2 PDB 1i7d chain A Region: 82 - 171 Aligned: 85 Modelled: 90 Confidence: 94.8% Identity: 22% Fold: Prokaryotic type I DNA topoisomerase Superfamily: Prokaryotic type I DNA topoisomerase Family: Prokaryotic type I DNA topoisomerase Phyre2 PDB 2hr5 chain B Region: 21 - 76 Aligned: 56 Modelled: 56 Confidence: 94.8% Identity: 27% PDB header:metal binding protein Chain: B: PDB Molecule:rubrerythrin; PDBTitle: pf1283- rubrerythrin from pyrococcus furiosus iron bound form Phyre2 PDB 1hjp chain A Region: 14 - 32 Aligned: 19 Modelled: 19 Confidence: 94.4% Identity: 42% PDB header:dna recombination Chain: A: PDB Molecule:ruva; PDBTitle: holliday junction binding protein ruva from e. coli Phyre2 PDB 2au3 chain A Region: 79 - 182 Aligned: 88 Modelled: 104 Confidence: 94.4% Identity: 18% PDB header:transferase Chain: A: PDB Molecule:dna primase; PDBTitle: crystal structure of the aquifex aeolicus primase (zinc binding and2 rna polymerase domains) Phyre2 PDB 1dvb chain A Region: 21 - 76 Aligned: 56 Modelled: 56 Confidence: 94.2% Identity: 18% PDB header:electron transport Chain: A: PDB Molecule:rubrerythrin; PDBTitle: rubrerythrin Phyre2 PDB 1t6t chain 1 Region: 80 - 168 Aligned: 74 Modelled: 76 Confidence: 94.1% Identity: 18% Fold: Toprim domain Superfamily: Toprim domain Family: Toprim domain Phyre2 PDB 2noh chain A domain 1 Region: 6 - 37 Aligned: 32 Modelled: 32 Confidence: 93.8% Identity: 28% Fold: DNA-glycosylase Superfamily: DNA-glycosylase Family: DNA repair glycosylase, 2 C-terminal domains Phyre2 PDB 1nui chain A Region: 79 - 171 Aligned: 85 Modelled: 93 Confidence: 93.8% Identity: 13% PDB header:replication Chain: A: PDB Molecule:dna primase/helicase; PDBTitle: crystal structure of the primase fragment of bacteriophage t7 primase-2 helicase protein Phyre2 PDB 1nui chain A domain 1 Region: 79 - 168 Aligned: 82 Modelled: 90 Confidence: 93.5% Identity: 13% Fold: DNA primase core Superfamily: DNA primase core Family: Primase fragment of primase-helicase protein Phyre2 PDB 3f10 chain A Region: 7 - 37 Aligned: 31 Modelled: 31 Confidence: 93.5% Identity: 26% 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 Phyre2 PDB 1yuz chain B Region: 21 - 76 Aligned: 56 Modelled: 56 Confidence: 93.0% Identity: 20% PDB header:oxidoreductase Chain: B: PDB Molecule:nigerythrin; PDBTitle: partially reduced state of nigerythrin Phyre2 PDB 1yqm chain A Region: 6 - 37 Aligned: 32 Modelled: 32 Confidence: 93.0% Identity: 28% 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 Phyre2 1 d1vdda_ 2 c1vddC_ 3 c2h5xA_ 4 d1bvsa2 5 d1ixra1 6 d1cuka2 7 d1gkub3 8 c2o59B_ 9 d1i7da_ 10 c2hr5B_ 11 c1hjpA_ 12 c2au3A_ 13 c1dvbA_ 14 d1t6t1_ 15 d2noha1 16 c1nuiA_ 17 d1nuia1 18 c3f10A_ 19 c1yuzB_ 20 c1yqmA_ 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 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195

Detailed template information

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

1 d1vdda_ 100.0 46 Fold:Recombination protein RecR Superfamily:Recombination protein RecR Family:Recombination protein RecR 2 c1vddC_ 100.0 45 PDB header:recombination Chain: C: PDB Molecule:recombination protein recr; PDBTitle: crystal structure of recombinational repair protein recr 3 c2h5xA_ 96.3 41 PDB header:dna binding protein Chain: A: PDB Molecule:holliday junction atp-dependent dna helicase ruva; PDBTitle: ruva from mycobacterium tuberculosis 4 d1bvsa2 95.9 32 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:DNA helicase RuvA subunit, middle domain 5 d1ixra1 95.9 36 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:DNA helicase RuvA subunit, middle domain 6 d1cuka2 95.7 41 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:DNA helicase RuvA subunit, middle domain 7 d1gkub3 95.4 23 Fold:Prokaryotic type I DNA topoisomerase Superfamily:Prokaryotic type I DNA topoisomerase Family:Prokaryotic type I DNA topoisomerase 8 c2o59B_ 94.9 20 PDB header:isomerase/dna Chain: B: PDB Molecule:dna topoisomerase 3; PDBTitle: structure of e. coli topoisomerase iii in complex with an 8-2 base single stranded oligonucleotide. frozen in glycerol3 ph 8.0 9 d1i7da_ 94.8 22 Fold:Prokaryotic type I DNA topoisomerase Superfamily:Prokaryotic type I DNA topoisomerase Family:Prokaryotic type I DNA topoisomerase 10 c2hr5B_ 94.8 27 PDB header:metal binding protein Chain: B: PDB Molecule:rubrerythrin; PDBTitle: pf1283- rubrerythrin from pyrococcus furiosus iron bound form 11 c1hjpA_ 94.4 42 PDB header:dna recombination Chain: A: PDB Molecule:ruva; PDBTitle: holliday junction binding protein ruva from e. coli 12 c2au3A_ 94.4 18 PDB header:transferase Chain: A: PDB Molecule:dna primase; PDBTitle: crystal structure of the aquifex aeolicus primase (zinc binding and2 rna polymerase domains) 13 c1dvbA_ 94.2 18 PDB header:electron transport Chain: A: PDB Molecule:rubrerythrin; PDBTitle: rubrerythrin 14 d1t6t1_ 94.1 18 Fold:Toprim domain Superfamily:Toprim domain Family:Toprim domain 15 d2noha1 93.8 28 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:DNA repair glycosylase, 2 C-terminal domains 16 c1nuiA_ 93.8 13 PDB header:replication Chain: A: PDB Molecule:dna primase/helicase; PDBTitle: crystal structure of the primase fragment of bacteriophage t7 primase-2 helicase protein 17 d1nuia1 93.5 13 Fold:DNA primase core Superfamily:DNA primase core Family:Primase fragment of primase-helicase protein 18 c3f10A_ 93.5 26 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 19 c1yuzB_ 93.0 20 PDB header:oxidoreductase Chain: B: PDB Molecule:nigerythrin; PDBTitle: partially reduced state of nigerythrin 20 c1yqmA_ 93.0 28 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 21 c3n0uB_ not modelled 93.0 21 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 22 c3lpeF_ not modelled 92.9 25 PDB header:transferase Chain: F: PDB Molecule:dna-directed rna polymerase subunit e''; PDBTitle: crystal structure of spt4/5ngn heterodimer complex from methanococcus2 jannaschii 23 d1pu6a_ not modelled 92.9 19 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:3-Methyladenine DNA glycosylase III (MagIII) 24 c3s6iA_ not modelled 92.8 25 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. 25 d1mw9x_ not modelled 92.5 33 Fold:Prokaryotic type I DNA topoisomerase Superfamily:Prokaryotic type I DNA topoisomerase Family:Prokaryotic type I DNA topoisomerase 26 d1mpga1 not modelled 92.5 29 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:DNA repair glycosylase, 2 C-terminal domains 27 c3fhgA_ not modelled 92.4 21 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) 28 c1q57G_ not modelled 92.4 11 PDB header:transferase Chain: G: PDB Molecule:dna primase/helicase; PDBTitle: the crystal structure of the bifunctional primase-helicase of2 bacteriophage t7 29 c1ko9A_ not modelled 92.2 31 PDB header:hydrolase Chain: A: PDB Molecule:8-oxoguanine dna glycosylase; PDBTitle: native structure of the human 8-oxoguanine dna glycosylase2 hogg1 30 d2fcja1 not modelled 92.0 21 Fold:Toprim domain Superfamily:Toprim domain Family:Toprim domain 31 c2yg8B_ not modelled 91.9 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 32 c1mpgB_ not modelled 91.8 30 PDB header:hydrolase Chain: B: PDB Molecule:3-methyladenine dna glycosylase ii; PDBTitle: 3-methyladenine dna glycosylase ii from escherichia coli 33 c2jhnB_ not modelled 91.7 21 PDB header:hydrolase Chain: B: PDB Molecule:3-methyladenine dna-glycosylase; PDBTitle: 3-methyladenine dna-glycosylase from archaeoglobus fulgidus 34 c1gl9B_ not modelled 91.6 25 PDB header:topoisomerase Chain: B: PDB Molecule:reverse gyrase; PDBTitle: archaeoglobus fulgidus reverse gyrase complexed with adpnp 35 d2fmpa1 not modelled 90.9 24 Fold:SAM domain-like Superfamily:DNA polymerase beta, N-terminal domain-like Family:DNA polymerase beta, N-terminal domain-like 36 d2abka_ not modelled 90.6 38 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Endonuclease III 37 d1rrqa1 not modelled 90.3 20 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 38 d1kg2a_ not modelled 90.1 31 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 39 c3kntC_ not modelled 89.7 16 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 40 d1orna_ not modelled 89.6 31 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Endonuclease III 41 c2w9mB_ not modelled 89.5 12 PDB header:dna replication Chain: B: PDB Molecule:polymerase x; PDBTitle: structure of family x dna polymerase from deinococcus2 radiodurans 42 d1keaa_ not modelled 89.4 23 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 43 c3n5nX_ not modelled 89.3 28 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 44 d2a1jb1 not modelled 89.1 17 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 45 c8iczA_ not modelled 88.9 21 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) 46 c1rrqA_ not modelled 88.4 19 PDB header:hydrolase/dna Chain: A: PDB Molecule:muty; PDBTitle: muty adenine glycosylase in complex with dna containing an2 a:oxog pair 47 d2bcqa1 not modelled 88.0 23 Fold:SAM domain-like Superfamily:DNA polymerase beta, N-terminal domain-like Family:DNA polymerase beta, N-terminal domain-like 48 d1jmsa1 not modelled 87.6 15 Fold:SAM domain-like Superfamily:DNA polymerase beta, N-terminal domain-like Family:DNA polymerase beta, N-terminal domain-like 49 c2csdB_ not modelled 87.5 29 PDB header:isomerase Chain: B: PDB Molecule:topoisomerase v; PDBTitle: crystal structure of topoisomerase v (61 kda fragment) 50 c2ihmA_ not modelled 87.5 38 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 51 c2gb5B_ not modelled 87.5 18 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 52 d2edua1 not modelled 87.2 38 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:ComEA-like 53 d1nzpa_ not modelled 86.4 23 Fold:SAM domain-like Superfamily:DNA polymerase beta, N-terminal domain-like Family:DNA polymerase beta, N-terminal domain-like 54 d2bgwa1 not modelled 86.3 24 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 55 c1ixrA_ not modelled 85.9 43 PDB header:hydrolase Chain: A: PDB Molecule:holliday junction dna helicase ruva; PDBTitle: ruva-ruvb complex 56 d1kfta_ not modelled 84.9 23 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Excinuclease UvrC C-terminal domain 57 c1kftA_ not modelled 84.9 23 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 58 c1kdhA_ not modelled 84.2 22 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 59 d1x2ia1 not modelled 83.3 20 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 60 c2gajA_ not modelled 83.0 28 PDB header:isomerase Chain: A: PDB Molecule:dna topoisomerase i; PDBTitle: structure of full length topoisomerase i from thermotoga maritima in2 monoclinic crystal form 61 c1nomA_ not modelled 82.9 25 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) 62 c2kp7A_ not modelled 82.2 14 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 63 d2duya1 not modelled 81.8 43 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:ComEA-like 64 d2aq0a1 not modelled 81.6 24 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 65 c2bcuA_ not modelled 81.6 20 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 66 d1dk2a_ not modelled 81.3 36 Fold:SAM domain-like Superfamily:DNA polymerase beta, N-terminal domain-like Family:DNA polymerase beta, N-terminal domain-like 67 c1s5lu_ not modelled 81.3 21 PDB header:photosynthesis Chain: U: PDB Molecule:photosystem ii 12 kda extrinsic protein; PDBTitle: architecture of the photosynthetic oxygen evolving center 68 d2axtu1 not modelled 80.5 21 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:PsbU-like 69 d1ngna_ not modelled 80.3 20 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 70 d1a77a1 not modelled 78.5 33 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 71 d1pzna1 not modelled 78.5 27 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 72 d3bzka1 not modelled 78.4 19 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Tex HhH-containing domain-like 73 c1d8lA_ not modelled 78.1 28 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 74 d2vana1 not modelled 77.3 21 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:DNA polymerase beta-like, second domain 75 d1dgsa1 not modelled 77.0 36 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:NAD+-dependent DNA ligase, domain 3 76 c1b22A_ not modelled 77.0 17 PDB header:dna binding protein Chain: A: PDB Molecule:dna repair protein rad51; PDBTitle: rad51 (n-terminal domain) 77 d1b22a_ not modelled 77.0 17 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 78 d1mc8a1 not modelled 75.6 42 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 79 c2h56C_ not modelled 74.8 17 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 80 d1rxwa1 not modelled 74.8 42 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 81 d1o98a1 not modelled 74.6 21 Fold:2,3-Bisphosphoglycerate-independent phosphoglycerate mutase, substrate-binding domain Superfamily:2,3-Bisphosphoglycerate-independent phosphoglycerate mutase, substrate-binding domain Family:2,3-Bisphosphoglycerate-independent phosphoglycerate mutase, substrate-binding domain 82 d2a1ja1 not modelled 74.5 17 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 83 d2i1qa1 not modelled 74.5 28 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 84 c3cngC_ not modelled 74.3 14 PDB header:hydrolase Chain: C: PDB Molecule:nudix hydrolase; PDBTitle: crystal structure of nudix hydrolase from nitrosomonas europaea 85 d2csba3 not modelled 73.8 29 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Topoisomerase V repeat domain 86 c3qeaZ_ not modelled 73.6 12 PDB header:hydrolase/dna Chain: Z: PDB Molecule:exonuclease 1; PDBTitle: crystal structure of human exonuclease 1 exo1 (wt) in complex with dna2 (complex ii) 87 d2fmpa2 not modelled 73.5 28 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:DNA polymerase beta-like, second domain 88 d1b43a1 not modelled 72.4 33 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 89 d1szpa1 not modelled 72.3 18 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 90 d1xo1a1 not modelled 70.6 25 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 91 c2r8kB_ not modelled 70.2 7 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 92 d1ul1x1 not modelled 69.2 42 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 93 d2i5ha1 not modelled 69.1 44 Fold:AF1531-like Superfamily:AF1531-like Family:AF1531-like 94 c2i5hA_ not modelled 69.1 44 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein af1531; PDBTitle: crystal structure of af1531 from archaeoglobus fulgidus,2 pfam duf655 95 c2nrzB_ not modelled 68.5 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 96 d2apob1 not modelled 67.8 24 Fold:Rubredoxin-like Superfamily:Nop10-like SnoRNP Family:Nucleolar RNA-binding protein Nop10-like 97 d1ryqa_ not modelled 67.8 17 Fold:Rubredoxin-like Superfamily:RNA polymerase subunits Family:RpoE2-like 98 d2bcqa2 not modelled 67.6 30 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:DNA polymerase beta-like, second domain 99 c1jihA_ not modelled 67.1 7 PDB header:translation Chain: A: PDB Molecule:dna polymerase eta; PDBTitle: yeast dna polymerase eta 100 d1jiha2 not modelled 67.0 7 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 101 c1ut8B_ not modelled 66.5 25 PDB header:hydrolase Chain: B: PDB Molecule:exodeoxyribonuclease; PDBTitle: divalent metal ions (zinc) bound to t5 5'-exonuclease 102 d2ey4e1 not modelled 66.2 32 Fold:Rubredoxin-like Superfamily:Nop10-like SnoRNP Family:Nucleolar RNA-binding protein Nop10-like 103 d1jmsa3 not modelled 64.6 25 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:DNA polymerase beta-like, second domain 104 d1nnqa2 not modelled 64.5 23 Fold:Rubredoxin-like Superfamily:Rubredoxin-like Family:Rubredoxin 105 c1dd9A_ not modelled 64.2 26 PDB header:transferase Chain: A: PDB Molecule:dna primase; PDBTitle: structure of the dnag catalytic core 106 d1dd9a_ not modelled 64.2 26 Fold:DNA primase core Superfamily:DNA primase core Family:DNA primase DnaG catalytic core 107 d2gy9m1 not modelled 63.5 18 Fold:S13-like H2TH domain Superfamily:S13-like H2TH domain Family:Ribosomal protein S13 108 c1jr3E_ not modelled 62.4 18 PDB header:transferase Chain: E: PDB Molecule:dna polymerase iii, delta' subunit; PDBTitle: crystal structure of the processivity clamp loader gamma2 complex of e. coli dna polymerase iii 109 d1vk2a_ not modelled 61.9 10 Fold:Uracil-DNA glycosylase-like Superfamily:Uracil-DNA glycosylase-like Family:Mug-like 110 c2aq4A_ not modelled 61.6 44 PDB header:transferase Chain: A: PDB Molecule:dna repair protein rev1; PDBTitle: ternary complex of the catalytic core of rev1 with dna and dctp. 111 d1d8ba_ not modelled 61.4 23 Fold:SAM domain-like Superfamily:HRDC-like Family:HRDC domain from helicases 112 c2izoA_ not modelled 60.3 33 PDB header:hydrolase Chain: A: PDB Molecule:flap structure-specific endonuclease; PDBTitle: structure of an archaeal pcna1-pcna2-fen1 complex 113 c3fblA_ not modelled 59.7 18 PDB header:structural protein Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of orf132 of the archaeal virus acidianus2 filamentous virus 1 (afv1) 114 c1o98A_ not modelled 59.6 21 PDB header:isomerase Chain: A: PDB Molecule:2,3-bisphosphoglycerate-independent PDBTitle: 1.4a crystal structure of phosphoglycerate mutase from2 bacillus stearothermophilus complexed with3 2-phosphoglycerate 115 c2owoA_ not modelled 57.0 33 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 116 d1yuza2 not modelled 57.0 27 Fold:Rubredoxin-like Superfamily:Rubredoxin-like Family:Rubredoxin 117 c1a77A_ not modelled 56.8 33 PDB header:5'-3' exo/endo nuclease Chain: A: PDB Molecule:flap endonuclease-1 protein; PDBTitle: flap endonuclease-1 from methanococcus jannaschii 118 c3q8lA_ not modelled 55.4 42 PDB header:hydrolase/dna Chain: A: PDB Molecule:flap endonuclease 1; PDBTitle: crystal structure of human flap endonuclease fen1 (wt) in complex with2 substrate 5'-flap dna, sm3+, and k+ 119 d1lb2b_ not modelled 54.8 29 Fold:SAM domain-like Superfamily:C-terminal domain of RNA polymerase alpha subunit Family:C-terminal domain of RNA polymerase alpha subunit 120 d1gm5a2 not modelled 54.3 25 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:RecG "wedge" domain

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