Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	G	R	L	R	G	I	I	I	E	K	Q	P	P	L	V	L	I	E	V	G	G	V	G	Y	E	V	H	M	P	M	T	C	F	Y	E	L	P	E	A	G	Q	E	A	I	V	F	T	H	F	V	V	R	E	D	A	Q	L	L
Secondary structure
SS confidence
Disorder		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Y	G	F	N	N	K	Q	E	R	T	L	F	K	E	L	I	K	T	N	G	V	G	P	K	L	A	L	A	I	L	S	G	M	S	A	Q	Q	F	V	N	A	V	E	R	E	E	V	G	A	L	V	K	L	P	G	I	G	K	K	T
Secondary structure
SS confidence
Disorder																				?												?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	E	R	L	I	V	E	M	K	D	R	F	K	G	L	H	G	D	L	F	T	P	A	A	D	L	V	L	T	S	P	A	S	P	A	T	D	D	A	E	Q	E	A	V	A	A	L	V	A	L	G	Y	K	P	Q	E	A	S	R	M
Secondary structure
SS confidence
Disorder																?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.
Sequence		V	S	K	I	A	R	P	D	A	S	S	E	T	L	I	R	E	A	L	R	A	A	L
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 1hjp chain A Region: 1 - 203 Aligned: 186 Modelled: 186 Confidence: 100.0% Identity: 99% PDB header:dna recombination Chain: A: PDB Molecule:ruva; PDBTitle: holliday junction binding protein ruva from e. coli Phyre2 PDB 2h5x chain A Region: 1 - 202 Aligned: 178 Modelled: 179 Confidence: 100.0% Identity: 38% PDB header:dna binding protein Chain: A: PDB Molecule:holliday junction atp-dependent dna helicase ruva; PDBTitle: ruva from mycobacterium tuberculosis Phyre2 PDB 1d8l chain A Region: 1 - 139 Aligned: 139 Modelled: 139 Confidence: 100.0% Identity: 100% 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 Phyre2 PDB 1ixr chain A Region: 1 - 134 Aligned: 133 Modelled: 134 Confidence: 100.0% Identity: 34% PDB header:hydrolase Chain: A: PDB Molecule:holliday junction dna helicase ruva; PDBTitle: ruva-ruvb complex Phyre2 PDB 1cuk chain A domain 2 Region: 65 - 142 Aligned: 78 Modelled: 78 Confidence: 99.9% Identity: 100% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: DNA helicase RuvA subunit, middle domain Phyre2 PDB 1bvs chain A domain 2 Region: 65 - 135 Aligned: 71 Modelled: 71 Confidence: 99.9% Identity: 35% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: DNA helicase RuvA subunit, middle domain Phyre2 PDB 1ixr chain A domain 1 Region: 64 - 134 Aligned: 71 Modelled: 71 Confidence: 99.9% Identity: 31% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: DNA helicase RuvA subunit, middle domain Phyre2 PDB 1cuk chain A domain 3 Region: 1 - 64 Aligned: 64 Modelled: 64 Confidence: 99.8% Identity: 100% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: DNA helicase RuvA subunit, N-terminal domain Phyre2 PDB 1bvs chain A domain 3 Region: 1 - 64 Aligned: 63 Modelled: 64 Confidence: 99.8% Identity: 38% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: DNA helicase RuvA subunit, N-terminal domain Phyre2 PDB 1ixr chain A domain 2 Region: 1 - 63 Aligned: 62 Modelled: 63 Confidence: 99.8% Identity: 37% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: DNA helicase RuvA subunit, N-terminal domain Phyre2 PDB 1cuk chain A domain 1 Region: 156 - 203 Aligned: 48 Modelled: 48 Confidence: 98.9% Identity: 98% Fold: RuvA C-terminal domain-like Superfamily: DNA helicase RuvA subunit, C-terminal domain Family: DNA helicase RuvA subunit, C-terminal domain Phyre2 PDB 1x2i chain A domain 1 Region: 64 - 132 Aligned: 65 Modelled: 69 Confidence: 98.4% Identity: 25% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: Hef domain-like Phyre2 PDB 1kft chain A Region: 75 - 129 Aligned: 52 Modelled: 55 Confidence: 98.4% Identity: 31% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: Excinuclease UvrC C-terminal domain Phyre2 PDB 1kft chain A Region: 75 - 129 Aligned: 52 Modelled: 55 Confidence: 98.4% Identity: 31% 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 Phyre2 PDB 2bgw chain A domain 1 Region: 64 - 133 Aligned: 67 Modelled: 70 Confidence: 98.3% Identity: 21% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: Hef domain-like Phyre2 PDB 1dgs chain A domain 1 Region: 72 - 173 Aligned: 72 Modelled: 72 Confidence: 98.2% Identity: 19% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: NAD+-dependent DNA ligase, domain 3 Phyre2 PDB 2i1q chain A domain 1 Region: 75 - 130 Aligned: 53 Modelled: 56 Confidence: 98.1% Identity: 30% Fold: SAM domain-like Superfamily: Rad51 N-terminal domain-like Family: DNA repair protein Rad51, N-terminal domain Phyre2 PDB 1pzn chain A domain 1 Region: 75 - 130 Aligned: 53 Modelled: 56 Confidence: 98.1% Identity: 25% Fold: SAM domain-like Superfamily: Rad51 N-terminal domain-like Family: DNA repair protein Rad51, N-terminal domain Phyre2 PDB 2a1j chain B domain 1 Region: 70 - 130 Aligned: 58 Modelled: 61 Confidence: 98.0% Identity: 17% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: Hef domain-like Phyre2 PDB 1szp chain A domain 1 Region: 75 - 129 Aligned: 52 Modelled: 52 Confidence: 97.8% Identity: 21% Fold: SAM domain-like Superfamily: Rad51 N-terminal domain-like Family: DNA repair protein Rad51, N-terminal domain Phyre2 1 c1hjpA_ 2 c2h5xA_ 3 c1d8lA_ 4 c1ixrA_ 5 d1cuka2 6 d1bvsa2 7 d1ixra1 8 d1cuka3 9 d1bvsa3 10 d1ixra2 11 d1cuka1 12 d1x2ia1 13 d1kfta_ 14 c1kftA_ 15 d2bgwa1 16 d1dgsa1 17 d2i1qa1 18 d1pzna1 19 d2a1jb1 20 d1szpa1 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

Detailed template information

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

1 c1hjpA_ 100.0 99 PDB header:dna recombination Chain: A: PDB Molecule:ruva; PDBTitle: holliday junction binding protein ruva from e. coli 2 c2h5xA_ 100.0 38 PDB header:dna binding protein Chain: A: PDB Molecule:holliday junction atp-dependent dna helicase ruva; PDBTitle: ruva from mycobacterium tuberculosis 3 c1d8lA_ 100.0 100 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 4 c1ixrA_ 100.0 34 PDB header:hydrolase Chain: A: PDB Molecule:holliday junction dna helicase ruva; PDBTitle: ruva-ruvb complex 5 d1cuka2 99.9 100 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:DNA helicase RuvA subunit, middle domain 6 d1bvsa2 99.9 35 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:DNA helicase RuvA subunit, middle domain 7 d1ixra1 99.9 31 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:DNA helicase RuvA subunit, middle domain 8 d1cuka3 99.8 100 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:DNA helicase RuvA subunit, N-terminal domain 9 d1bvsa3 99.8 38 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:DNA helicase RuvA subunit, N-terminal domain 10 d1ixra2 99.8 37 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:DNA helicase RuvA subunit, N-terminal domain 11 d1cuka1 98.9 98 Fold:RuvA C-terminal domain-like Superfamily:DNA helicase RuvA subunit, C-terminal domain Family:DNA helicase RuvA subunit, C-terminal domain 12 d1x2ia1 98.4 25 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 13 d1kfta_ 98.4 31 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Excinuclease UvrC C-terminal domain 14 c1kftA_ 98.4 31 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 15 d2bgwa1 98.3 21 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 16 d1dgsa1 98.2 19 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:NAD+-dependent DNA ligase, domain 3 17 d2i1qa1 98.1 30 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 18 d1pzna1 98.1 25 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 19 d2a1jb1 98.0 17 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 20 d1szpa1 97.8 21 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 21 d1ixsa_ not modelled 97.5 44 Fold:RuvA C-terminal domain-like Superfamily:DNA helicase RuvA subunit, C-terminal domain Family:DNA helicase RuvA subunit, C-terminal domain 22 c2bhnD_ not modelled 97.4 25 PDB header:hydrolase Chain: D: PDB Molecule:xpf endonuclease; PDBTitle: xpf from aeropyrum pernix 23 c1dgsB_ not modelled 97.4 29 PDB header:ligase Chain: B: PDB Molecule:dna ligase; PDBTitle: crystal structure of nad+-dependent dna ligase from t.2 filiformis 24 c2nrzB_ not modelled 97.4 14 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 25 c1b22A_ not modelled 97.4 18 PDB header:dna binding protein Chain: A: PDB Molecule:dna repair protein rad51; PDBTitle: rad51 (n-terminal domain) 26 d1b22a_ not modelled 97.4 18 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 27 c2csdB_ not modelled 97.3 25 PDB header:isomerase Chain: B: PDB Molecule:topoisomerase v; PDBTitle: crystal structure of topoisomerase v (61 kda fragment) 28 c8iczA_ not modelled 97.3 27 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) 29 c2w9mB_ not modelled 97.3 25 PDB header:dna replication Chain: B: PDB Molecule:polymerase x; PDBTitle: structure of family x dna polymerase from deinococcus2 radiodurans 30 c2owoA_ not modelled 97.2 19 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 31 d1szpb1 not modelled 97.1 23 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 32 c1kdhA_ not modelled 97.1 23 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 33 c2ihmA_ not modelled 97.1 21 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 34 c2ziuA_ not modelled 96.8 21 PDB header:hydrolase Chain: A: PDB Molecule:mus81 protein; PDBTitle: crystal structure of the mus81-eme1 complex 35 c1vddC_ not modelled 96.8 45 PDB header:recombination Chain: C: PDB Molecule:recombination protein recr; PDBTitle: crystal structure of recombinational repair protein recr 36 d1vdda_ not modelled 96.8 45 Fold:Recombination protein RecR Superfamily:Recombination protein RecR Family:Recombination protein RecR 37 c1v9pB_ not modelled 96.7 19 PDB header:ligase Chain: B: PDB Molecule:dna ligase; PDBTitle: crystal structure of nad+-dependent dna ligase 38 d2aq0a1 not modelled 96.6 15 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 39 c3f10A_ not modelled 96.4 24 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 40 c2bcuA_ not modelled 96.3 22 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 41 d2axtu1 not modelled 96.0 26 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:PsbU-like 42 c1s5lu_ not modelled 95.8 26 PDB header:photosynthesis Chain: U: PDB Molecule:photosystem ii 12 kda extrinsic protein; PDBTitle: architecture of the photosynthetic oxygen evolving center 43 c1ko9A_ not modelled 95.7 28 PDB header:hydrolase Chain: A: PDB Molecule:8-oxoguanine dna glycosylase; PDBTitle: native structure of the human 8-oxoguanine dna glycosylase2 hogg1 44 d2duya1 not modelled 95.7 43 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:ComEA-like 45 d1rxwa1 not modelled 95.7 17 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 46 d1a77a1 not modelled 95.6 19 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 47 c2jhnB_ not modelled 95.5 27 PDB header:hydrolase Chain: B: PDB Molecule:3-methyladenine dna-glycosylase; PDBTitle: 3-methyladenine dna-glycosylase from archaeoglobus fulgidus 48 c1yqmA_ not modelled 95.5 24 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 49 d1b43a1 not modelled 95.3 13 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 50 d2edua1 not modelled 95.2 25 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:ComEA-like 51 d3bzka1 not modelled 95.0 26 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Tex HhH-containing domain-like 52 d1mc8a1 not modelled 95.0 16 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 53 c2yg8B_ not modelled 94.7 26 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 54 c3fhgA_ not modelled 94.6 25 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) 55 c2zixA_ not modelled 94.5 19 PDB header:hydrolase Chain: A: PDB Molecule:crossover junction endonuclease mus81; PDBTitle: crystal structure of the mus81-eme1 complex 56 d1mpga1 not modelled 94.3 28 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:DNA repair glycosylase, 2 C-terminal domains 57 d2noha1 not modelled 93.9 27 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:DNA repair glycosylase, 2 C-terminal domains 58 c1rxvA_ not modelled 93.8 16 PDB header:hydrolase/dna Chain: A: PDB Molecule:flap structure-specific endonuclease; PDBTitle: crystal structure of a. fulgidus fen-1 bound to dna 59 d1xo1a1 not modelled 93.6 15 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 60 c1nomA_ not modelled 93.5 22 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) 61 c3c1zA_ not modelled 93.5 16 PDB header:dna binding protein Chain: A: PDB Molecule:dna integrity scanning protein disa; PDBTitle: structure of the ligand-free form of a bacterial dna damage2 sensor protein 62 d1ngna_ not modelled 93.4 19 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 63 d2abka_ not modelled 93.2 31 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Endonuclease III 64 d2p6ra2 not modelled 93.2 17 Fold:Sec63 N-terminal domain-like Superfamily:Sec63 N-terminal domain-like Family:Achaeal helicase C-terminal domain 65 d1orna_ not modelled 93.0 29 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Endonuclease III 66 c1b43A_ not modelled 93.0 14 PDB header:transferase Chain: A: PDB Molecule:protein (fen-1); PDBTitle: fen-1 from p. furiosus 67 c3s6iA_ not modelled 92.8 37 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. 68 c2izoA_ not modelled 92.7 11 PDB header:hydrolase Chain: A: PDB Molecule:flap structure-specific endonuclease; PDBTitle: structure of an archaeal pcna1-pcna2-fen1 complex 69 d1pu6a_ not modelled 92.6 28 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:3-Methyladenine DNA glycosylase III (MagIII) 70 d1rrqa1 not modelled 92.4 18 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 71 d1keaa_ not modelled 92.3 25 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 72 d1ul1x1 not modelled 92.2 28 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 73 d1bvsa1 not modelled 91.9 24 Fold:RuvA C-terminal domain-like Superfamily:DNA helicase RuvA subunit, C-terminal domain Family:DNA helicase RuvA subunit, C-terminal domain 74 d1kg2a_ not modelled 91.8 32 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 75 c1ut8B_ not modelled 91.7 11 PDB header:hydrolase Chain: B: PDB Molecule:exodeoxyribonuclease; PDBTitle: divalent metal ions (zinc) bound to t5 5'-exonuclease 76 c1mpgB_ not modelled 91.5 33 PDB header:hydrolase Chain: B: PDB Molecule:3-methyladenine dna glycosylase ii; PDBTitle: 3-methyladenine dna glycosylase ii from escherichia coli 77 c2p6uA_ not modelled 91.2 28 PDB header:dna binding protein Chain: A: PDB Molecule:afuhel308 helicase; PDBTitle: apo structure of the hel308 superfamily 2 helicase 78 c2oceA_ not modelled 91.0 27 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein pa5201; PDBTitle: crystal structure of tex family protein pa5201 from2 pseudomonas aeruginosa 79 d2csba3 not modelled 90.9 27 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Topoisomerase V repeat domain 80 c2va8A_ not modelled 90.9 24 PDB header:hydrolase Chain: A: PDB Molecule:ski2-type helicase; PDBTitle: dna repair helicase hel308 81 c3oryA_ not modelled 90.5 18 PDB header:hydrolase Chain: A: PDB Molecule:flap endonuclease 1; PDBTitle: crystal structure of flap endonuclease 1 from hyperthermophilic2 archaeon desulfurococcus amylolyticus 82 c1rrqA_ not modelled 90.2 18 PDB header:hydrolase/dna Chain: A: PDB Molecule:muty; PDBTitle: muty adenine glycosylase in complex with dna containing an2 a:oxog pair 83 d1veka_ not modelled 90.1 21 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 84 c3n0uB_ not modelled 89.5 25 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 85 d2bcqa1 not modelled 89.0 35 Fold:SAM domain-like Superfamily:DNA polymerase beta, N-terminal domain-like Family:DNA polymerase beta, N-terminal domain-like 86 c1ul1Y_ not modelled 88.7 28 PDB header:hydrolase/dna binding protein Chain: Y: PDB Molecule:flap endonuclease-1; PDBTitle: crystal structure of the human fen1-pcna complex 87 d2fmpa1 not modelled 88.5 42 Fold:SAM domain-like Superfamily:DNA polymerase beta, N-terminal domain-like Family:DNA polymerase beta, N-terminal domain-like 88 c3psiA_ not modelled 88.4 19 PDB header:transcription Chain: A: PDB Molecule:transcription elongation factor spt6; PDBTitle: crystal structure of the spt6 core domain from saccharomyces2 cerevisiae, form spt6(239-1451) 89 d1cmwa1 not modelled 88.3 28 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 90 c1a77A_ not modelled 88.2 22 PDB header:5'-3' exo/endo nuclease Chain: A: PDB Molecule:flap endonuclease-1 protein; PDBTitle: flap endonuclease-1 from methanococcus jannaschii 91 c3kntC_ not modelled 87.6 21 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 92 d2i5ha1 not modelled 87.6 39 Fold:AF1531-like Superfamily:AF1531-like Family:AF1531-like 93 c2i5hA_ not modelled 87.6 39 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein af1531; PDBTitle: crystal structure of af1531 from archaeoglobus fulgidus,2 pfam duf655 94 d1nzpa_ not modelled 87.4 35 Fold:SAM domain-like Superfamily:DNA polymerase beta, N-terminal domain-like Family:DNA polymerase beta, N-terminal domain-like 95 d1wiva_ not modelled 87.2 21 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 96 c3q8lA_ not modelled 87.2 20 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+ 97 c3n5nX_ not modelled 87.0 32 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 98 c3psfA_ not modelled 86.2 22 PDB header:transcription Chain: A: PDB Molecule:transcription elongation factor spt6; PDBTitle: crystal structure of the spt6 core domain from saccharomyces2 cerevisiae, form spt6(236-1259) 99 d1ifya_ not modelled 85.4 9 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 100 c2zixB_ not modelled 85.3 26 PDB header:hydrolase Chain: B: PDB Molecule:crossover junction endonuclease eme1; PDBTitle: crystal structure of the mus81-eme1 complex 101 c2dagA_ not modelled 85.2 12 PDB header:hydrolase Chain: A: PDB Molecule:ubiquitin carboxyl-terminal hydrolase 5; PDBTitle: solution structure of the first uba domain in the human2 ubiquitin specific protease 5 (isopeptidase 5) 102 c3qeaZ_ not modelled 85.0 18 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) 103 d1jmsa1 not modelled 84.0 16 Fold:SAM domain-like Superfamily:DNA polymerase beta, N-terminal domain-like Family:DNA polymerase beta, N-terminal domain-like 104 d1oqya1 not modelled 83.6 7 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 105 d1cooa_ not modelled 83.2 17 Fold:SAM domain-like Superfamily:C-terminal domain of RNA polymerase alpha subunit Family:C-terminal domain of RNA polymerase alpha subunit 106 c2dakA_ not modelled 82.9 15 PDB header:hydrolase Chain: A: PDB Molecule:ubiquitin carboxyl-terminal hydrolase 5; PDBTitle: solution structure of the second uba domain in the human2 ubiquitin specific protease 5 (isopeptidase 5) 107 d2crna1 not modelled 82.8 13 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 108 d1whca_ not modelled 82.6 16 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 109 d2g3qa1 not modelled 82.6 26 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 110 c2kp7A_ not modelled 81.6 15 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 111 c2crnA_ not modelled 81.5 12 PDB header:immune system Chain: A: PDB Molecule:ubash3a protein; PDBTitle: solution structure of the uba domain of human ubash3a2 protein 112 d1i94m_ not modelled 81.2 35 Fold:S13-like H2TH domain Superfamily:S13-like H2TH domain Family:Ribosomal protein S13 113 d2fmpa2 not modelled 81.2 26 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:DNA polymerase beta-like, second domain 114 c2cpwA_ not modelled 80.8 11 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:cbl-interacting protein sts-1 variant; PDBTitle: solution structure of rsgi ruh-031, a uba domain from human2 cdna 115 c2h56C_ not modelled 80.2 29 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 116 d2vana1 not modelled 80.1 20 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:DNA polymerase beta-like, second domain 117 d1dk2a_ not modelled 80.1 42 Fold:SAM domain-like Superfamily:DNA polymerase beta, N-terminal domain-like Family:DNA polymerase beta, N-terminal domain-like 118 d1lb2b_ not modelled 79.7 24 Fold:SAM domain-like Superfamily:C-terminal domain of RNA polymerase alpha subunit Family:C-terminal domain of RNA polymerase alpha subunit 119 d1vega_ not modelled 79.2 12 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 120 d2bcqa2 not modelled 79.1 16 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:DNA polymerase beta-like, second 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