Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	V	H	L	L	I	V	D	A	L	N	L	I	R	R	I	H	A	V	Q	G	S	P	C	V	E	T	C	Q	H	A	L	D	Q	L	I	M	H	S	Q	P	T	H	A	V	A	V	F	D	D	E	N	R	S	S	G	W	R	H
Secondary structure
SS confidence
Disorder		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Q	R	L	P	D	Y	K	A	G	R	P	P	M	P	E	E	L	H	D	E	M	P	A	L	R	A	A	F	E	Q	R	G	V	P	C	W	S	T	S	G	N	E	A	D	D	L	A	A	T	L	A	V	K	V	T	Q	A	G	H	Q
Secondary structure
SS confidence
Disorder									?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	T	I	V	S	T	D	K	G	Y	C	Q	L	L	S	P	T	L	R	I	R	D	Y	F	Q	K	R	W	L	D	A	P	F	I	D	K	E	F	G	V	Q	P	Q	Q	L	P	D	Y	W	G	L	A	G	I	S	S	S	K	V	P
Secondary structure
SS confidence
Disorder																										?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		G	V	A	G	I	G	P	K	S	A	T	Q	L	L	V	E	F	Q	S	L	E	G	I	Y	E	N	L	D	A	V	A	E	K	W	R	K	K	L	E	T	H	K	E	M	A	F	L	C	R	D	I	A	R	L	Q	T	D	L	H	I
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.
Sequence		D	G	N	L	Q	Q	L	R	L	V	R
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 1cmw chain A Region: 2 - 248 Aligned: 243 Modelled: 247 Confidence: 100.0% Identity: 31% PDB header:transferase Chain: A: PDB Molecule:protein (dna polymerase i); PDBTitle: crystal structure of taq dna-polymerase shows a new2 orientation for the structure-specific nuclease domain Phyre2 PDB 1ut8 chain B Region: 3 - 236 Aligned: 232 Modelled: 234 Confidence: 100.0% Identity: 24% PDB header:hydrolase Chain: B: PDB Molecule:exodeoxyribonuclease; PDBTitle: divalent metal ions (zinc) bound to t5 5'-exonuclease Phyre2 PDB 2ihn chain A Region: 2 - 250 Aligned: 241 Modelled: 244 Confidence: 100.0% Identity: 16% PDB header:hydrolase/dna Chain: A: PDB Molecule:ribonuclease h; PDBTitle: co-crystal of bacteriophage t4 rnase h with a fork dna2 substrate Phyre2 PDB 1rxv chain A Region: 1 - 247 Aligned: 231 Modelled: 242 Confidence: 100.0% Identity: 17% PDB header:hydrolase/dna Chain: A: PDB Molecule:flap structure-specific endonuclease; PDBTitle: crystal structure of a. fulgidus fen-1 bound to dna Phyre2 PDB 3q8l chain A Region: 2 - 237 Aligned: 225 Modelled: 236 Confidence: 100.0% Identity: 21% 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+ Phyre2 PDB 1a77 chain A Region: 1 - 218 Aligned: 207 Modelled: 217 Confidence: 100.0% Identity: 16% PDB header:5'-3' exo/endo nuclease Chain: A: PDB Molecule:flap endonuclease-1 protein; PDBTitle: flap endonuclease-1 from methanococcus jannaschii Phyre2 PDB 1b43 chain A Region: 1 - 218 Aligned: 207 Modelled: 218 Confidence: 100.0% Identity: 22% PDB header:transferase Chain: A: PDB Molecule:protein (fen-1); PDBTitle: fen-1 from p. furiosus Phyre2 PDB 3ory chain A Region: 2 - 248 Aligned: 233 Modelled: 247 Confidence: 100.0% Identity: 20% PDB header:hydrolase Chain: A: PDB Molecule:flap endonuclease 1; PDBTitle: crystal structure of flap endonuclease 1 from hyperthermophilic2 archaeon desulfurococcus amylolyticus Phyre2 PDB 1cmw chain A domain 2 Region: 2 - 159 Aligned: 154 Modelled: 158 Confidence: 100.0% Identity: 27% Fold: PIN domain-like Superfamily: PIN domain-like Family: 5' to 3' exonuclease catalytic domain Phyre2 PDB 2izo chain A Region: 2 - 213 Aligned: 178 Modelled: 187 Confidence: 100.0% Identity: 20% PDB header:hydrolase Chain: A: PDB Molecule:flap structure-specific endonuclease; PDBTitle: structure of an archaeal pcna1-pcna2-fen1 complex Phyre2 PDB 1ul1 chain Y Region: 1 - 248 Aligned: 227 Modelled: 237 Confidence: 100.0% Identity: 21% PDB header:hydrolase/dna binding protein Chain: Y: PDB Molecule:flap endonuclease-1; PDBTitle: crystal structure of the human fen1-pcna complex Phyre2 PDB 3qea chain Z Region: 1 - 250 Aligned: 241 Modelled: 249 Confidence: 100.0% Identity: 16% 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) Phyre2 PDB 1xo1 chain A domain 2 Region: 2 - 159 Aligned: 140 Modelled: 153 Confidence: 100.0% Identity: 21% Fold: PIN domain-like Superfamily: PIN domain-like Family: 5' to 3' exonuclease catalytic domain Phyre2 PDB 1tfr chain A domain 2 Region: 2 - 150 Aligned: 146 Modelled: 149 Confidence: 100.0% Identity: 18% Fold: PIN domain-like Superfamily: PIN domain-like Family: 5' to 3' exonuclease catalytic domain Phyre2 PDB 1cmw chain A domain 1 Region: 160 - 248 Aligned: 89 Modelled: 89 Confidence: 99.9% Identity: 38% Fold: SAM domain-like Superfamily: 5' to 3' exonuclease, C-terminal subdomain Family: 5' to 3' exonuclease, C-terminal subdomain Phyre2 PDB 1xo1 chain A domain 1 Region: 161 - 250 Aligned: 85 Modelled: 90 Confidence: 99.8% Identity: 22% Fold: SAM domain-like Superfamily: 5' to 3' exonuclease, C-terminal subdomain Family: 5' to 3' exonuclease, C-terminal subdomain Phyre2 PDB 1ul1 chain X domain 2 Region: 1 - 159 Aligned: 144 Modelled: 159 Confidence: 99.8% Identity: 17% Fold: PIN domain-like Superfamily: PIN domain-like Family: 5' to 3' exonuclease catalytic domain Phyre2 PDB 1b43 chain A domain 2 Region: 1 - 146 Aligned: 137 Modelled: 146 Confidence: 99.8% Identity: 20% Fold: PIN domain-like Superfamily: PIN domain-like Family: 5' to 3' exonuclease catalytic domain Phyre2 PDB 1rxw chain A domain 2 Region: 1 - 159 Aligned: 150 Modelled: 159 Confidence: 99.8% Identity: 19% Fold: PIN domain-like Superfamily: PIN domain-like Family: 5' to 3' exonuclease catalytic domain Phyre2 PDB 1a77 chain A domain 2 Region: 1 - 158 Aligned: 151 Modelled: 157 Confidence: 99.7% Identity: 13% Fold: PIN domain-like Superfamily: PIN domain-like Family: 5' to 3' exonuclease catalytic domain Phyre2 1 c1cmwA_ 2 c1ut8B_ 3 c2ihnA_ 4 c1rxvA_ 5 c3q8lA_ 6 c1a77A_ 7 c1b43A_ 8 c3oryA_ 9 d1cmwa2 10 c2izoA_ 11 c1ul1Y_ 12 c3qeaZ_ 13 d1xo1a2 14 d1tfra2 15 d1cmwa1 16 d1xo1a1 17 d1ul1x2 18 d1b43a2 19 d1rxwa2 20 d1a77a2 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

Detailed template information

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

1 c1cmwA_ 100.0 31 PDB header:transferase Chain: A: PDB Molecule:protein (dna polymerase i); PDBTitle: crystal structure of taq dna-polymerase shows a new2 orientation for the structure-specific nuclease domain 2 c1ut8B_ 100.0 24 PDB header:hydrolase Chain: B: PDB Molecule:exodeoxyribonuclease; PDBTitle: divalent metal ions (zinc) bound to t5 5'-exonuclease 3 c2ihnA_ 100.0 16 PDB header:hydrolase/dna Chain: A: PDB Molecule:ribonuclease h; PDBTitle: co-crystal of bacteriophage t4 rnase h with a fork dna2 substrate 4 c1rxvA_ 100.0 17 PDB header:hydrolase/dna Chain: A: PDB Molecule:flap structure-specific endonuclease; PDBTitle: crystal structure of a. fulgidus fen-1 bound to dna 5 c3q8lA_ 100.0 21 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+ 6 c1a77A_ 100.0 16 PDB header:5'-3' exo/endo nuclease Chain: A: PDB Molecule:flap endonuclease-1 protein; PDBTitle: flap endonuclease-1 from methanococcus jannaschii 7 c1b43A_ 100.0 22 PDB header:transferase Chain: A: PDB Molecule:protein (fen-1); PDBTitle: fen-1 from p. furiosus 8 c3oryA_ 100.0 20 PDB header:hydrolase Chain: A: PDB Molecule:flap endonuclease 1; PDBTitle: crystal structure of flap endonuclease 1 from hyperthermophilic2 archaeon desulfurococcus amylolyticus 9 d1cmwa2 100.0 27 Fold:PIN domain-like Superfamily:PIN domain-like Family:5' to 3' exonuclease catalytic domain 10 c2izoA_ 100.0 20 PDB header:hydrolase Chain: A: PDB Molecule:flap structure-specific endonuclease; PDBTitle: structure of an archaeal pcna1-pcna2-fen1 complex 11 c1ul1Y_ 100.0 21 PDB header:hydrolase/dna binding protein Chain: Y: PDB Molecule:flap endonuclease-1; PDBTitle: crystal structure of the human fen1-pcna complex 12 c3qeaZ_ 100.0 16 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) 13 d1xo1a2 100.0 21 Fold:PIN domain-like Superfamily:PIN domain-like Family:5' to 3' exonuclease catalytic domain 14 d1tfra2 100.0 18 Fold:PIN domain-like Superfamily:PIN domain-like Family:5' to 3' exonuclease catalytic domain 15 d1cmwa1 99.9 38 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 16 d1xo1a1 99.8 22 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 17 d1ul1x2 99.8 17 Fold:PIN domain-like Superfamily:PIN domain-like Family:5' to 3' exonuclease catalytic domain 18 d1b43a2 99.8 20 Fold:PIN domain-like Superfamily:PIN domain-like Family:5' to 3' exonuclease catalytic domain 19 d1rxwa2 99.8 19 Fold:PIN domain-like Superfamily:PIN domain-like Family:5' to 3' exonuclease catalytic domain 20 d1a77a2 99.7 13 Fold:PIN domain-like Superfamily:PIN domain-like Family:5' to 3' exonuclease catalytic domain 21 d1mc8a2 not modelled 99.7 19 Fold:PIN domain-like Superfamily:PIN domain-like Family:5' to 3' exonuclease catalytic domain 22 d1rxwa1 not modelled 99.6 19 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 23 d1ul1x1 not modelled 99.6 25 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 24 d1a77a1 not modelled 99.6 22 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 25 d1b43a1 not modelled 99.5 20 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 26 d1mc8a1 not modelled 99.5 23 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 27 d1x2ia1 not modelled 97.2 23 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 28 d2bgwa1 not modelled 97.0 26 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 29 c2y35A_ not modelled 96.8 18 PDB header:hydrolase/dna Chain: A: PDB Molecule:ld22664p; PDBTitle: crystal structure of xrn1-substrate complex 30 c1kftA_ not modelled 96.8 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 31 d1kfta_ not modelled 96.8 23 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Excinuclease UvrC C-terminal domain 32 c2nrzB_ not modelled 96.7 26 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 33 c3fqdA_ not modelled 96.6 18 PDB header:hydrolase/protein binding Chain: A: PDB Molecule:5'-3' exoribonuclease 2; PDBTitle: crystal structure of the s. pombe rat1-rai1 complex 34 d2a1jb1 not modelled 96.5 19 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 35 d1dgsa1 not modelled 96.5 20 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:NAD+-dependent DNA ligase, domain 3 36 d1cuka2 not modelled 95.8 24 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:DNA helicase RuvA subunit, middle domain 37 d2i1qa1 not modelled 95.7 19 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 38 d1pzna1 not modelled 95.6 25 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 39 d1ixra1 not modelled 95.3 32 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:DNA helicase RuvA subunit, middle domain 40 c3pifD_ not modelled 94.9 15 PDB header:hydrolase Chain: D: PDB Molecule:5'->3' exoribonuclease (xrn1); PDBTitle: crystal structure of the 5'->3' exoribonuclease xrn1, e178q mutant in2 complex with manganese 41 c1hjpA_ not modelled 94.9 27 PDB header:dna recombination Chain: A: PDB Molecule:ruva; PDBTitle: holliday junction binding protein ruva from e. coli 42 d2aq0a1 not modelled 94.8 12 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 43 c1ixrA_ not modelled 94.8 18 PDB header:hydrolase Chain: A: PDB Molecule:holliday junction dna helicase ruva; PDBTitle: ruva-ruvb complex 44 c1d8lA_ not modelled 94.7 21 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 45 c2owoA_ not modelled 94.5 18 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 46 d1bvsa2 not modelled 94.5 16 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:DNA helicase RuvA subunit, middle domain 47 c2h5xA_ not modelled 94.4 24 PDB header:dna binding protein Chain: A: PDB Molecule:holliday junction atp-dependent dna helicase ruva; PDBTitle: ruva from mycobacterium tuberculosis 48 c2w9mB_ not modelled 94.4 30 PDB header:dna replication Chain: B: PDB Molecule:polymerase x; PDBTitle: structure of family x dna polymerase from deinococcus2 radiodurans 49 c1dgsB_ not modelled 94.3 20 PDB header:ligase Chain: B: PDB Molecule:dna ligase; PDBTitle: crystal structure of nad+-dependent dna ligase from t.2 filiformis 50 c1v9pB_ not modelled 94.2 18 PDB header:ligase Chain: B: PDB Molecule:dna ligase; PDBTitle: crystal structure of nad+-dependent dna ligase 51 d2p6ra2 not modelled 92.6 17 Fold:Sec63 N-terminal domain-like Superfamily:Sec63 N-terminal domain-like Family:Achaeal helicase C-terminal domain 52 c8iczA_ not modelled 92.4 30 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) 53 c1nomA_ not modelled 92.2 33 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) 54 d2vana1 not modelled 92.0 33 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:DNA polymerase beta-like, second domain 55 d2fmpa2 not modelled 91.7 30 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:DNA polymerase beta-like, second domain 56 c2bhnD_ not modelled 91.6 28 PDB header:hydrolase Chain: D: PDB Molecule:xpf endonuclease; PDBTitle: xpf from aeropyrum pernix 57 c2ihmA_ not modelled 91.0 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 58 d1szpa1 not modelled 90.8 18 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 59 c2qipA_ not modelled 90.6 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein of unknown function vpa0982; PDBTitle: crystal structure of a protein of unknown function vpa0982 from vibrio2 parahaemolyticus rimd 2210633 60 c2ziuA_ not modelled 90.5 11 PDB header:hydrolase Chain: A: PDB Molecule:mus81 protein; PDBTitle: crystal structure of the mus81-eme1 complex 61 c3majA_ not modelled 89.6 25 PDB header:dna binding protein Chain: A: PDB Molecule:dna processing chain a; PDBTitle: crystal structure of putative dna processing protein dpra from2 rhodopseudomonas palustris cga009 62 d2bcqa2 not modelled 89.2 35 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:DNA polymerase beta-like, second domain 63 c1s5lu_ not modelled 89.0 22 PDB header:photosynthesis Chain: U: PDB Molecule:photosystem ii 12 kda extrinsic protein; PDBTitle: architecture of the photosynthetic oxygen evolving center 64 d1jmsa3 not modelled 88.1 19 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:DNA polymerase beta-like, second domain 65 d2axtu1 not modelled 86.2 19 Fold:SAM domain-like Superfamily:PsbU/PolX domain-like Family:PsbU-like 66 c1kdhA_ not modelled 85.7 31 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 67 c2va8A_ not modelled 85.5 24 PDB header:hydrolase Chain: A: PDB Molecule:ski2-type helicase; PDBTitle: dna repair helicase hel308 68 c2bcuA_ not modelled 85.3 35 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 69 c3c1zA_ not modelled 85.1 18 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 70 c2csdB_ not modelled 83.7 35 PDB header:isomerase Chain: B: PDB Molecule:topoisomerase v; PDBTitle: crystal structure of topoisomerase v (61 kda fragment) 71 d1b22a_ not modelled 83.6 18 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 72 c1b22A_ not modelled 83.6 18 PDB header:dna binding protein Chain: A: PDB Molecule:dna repair protein rad51; PDBTitle: rad51 (n-terminal domain) 73 c2p6uA_ not modelled 83.5 17 PDB header:dna binding protein Chain: A: PDB Molecule:afuhel308 helicase; PDBTitle: apo structure of the hel308 superfamily 2 helicase 74 d2duya1 not modelled 81.8 18 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:ComEA-like 75 d2i5ha1 not modelled 81.5 19 Fold:AF1531-like Superfamily:AF1531-like Family:AF1531-like 76 c2i5hA_ not modelled 81.5 19 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein af1531; PDBTitle: crystal structure of af1531 from archaeoglobus fulgidus,2 pfam duf655 77 d2csba3 not modelled 81.2 30 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Topoisomerase V repeat domain 78 d2edua1 not modelled 79.5 24 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:ComEA-like 79 c3d4oA_ not modelled 79.5 22 PDB header:oxidoreductase Chain: A: PDB Molecule:dipicolinate synthase subunit a; PDBTitle: crystal structure of dipicolinate synthase subunit a (np_243269.1)2 from bacillus halodurans at 2.10 a resolution 80 c3r2jC_ not modelled 79.2 12 PDB header:hydrolase Chain: C: PDB Molecule:alpha/beta-hydrolase-like protein; PDBTitle: crystal structure of pnc1 from l. infantum in complex with nicotinate 81 c1vddC_ not modelled 77.9 32 PDB header:recombination Chain: C: PDB Molecule:recombination protein recr; PDBTitle: crystal structure of recombinational repair protein recr 82 d1vdda_ not modelled 73.7 32 Fold:Recombination protein RecR Superfamily:Recombination protein RecR Family:Recombination protein RecR 83 c3fhgA_ not modelled 72.3 28 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) 84 c3kntC_ not modelled 71.3 28 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 85 c2zixA_ not modelled 70.3 19 PDB header:hydrolase Chain: A: PDB Molecule:crossover junction endonuclease mus81; PDBTitle: crystal structure of the mus81-eme1 complex 86 c2vg2C_ not modelled 69.2 25 PDB header:transferase Chain: C: PDB Molecule:undecaprenyl pyrophosphate synthetase; PDBTitle: rv2361 with ipp 87 c3n0uB_ not modelled 67.7 33 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 88 c1jp3A_ not modelled 64.7 10 PDB header:transferase Chain: A: PDB Molecule:undecaprenyl pyrophosphate synthase; PDBTitle: structure of e.coli undecaprenyl pyrophosphate synthase 89 d1pu6a_ not modelled 63.8 43 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:3-Methyladenine DNA glycosylase III (MagIII) 90 d1ueha_ not modelled 62.8 10 Fold:Undecaprenyl diphosphate synthase Superfamily:Undecaprenyl diphosphate synthase Family:Undecaprenyl diphosphate synthase 91 c2fq1A_ not modelled 62.5 17 PDB header:hydrolase Chain: A: PDB Molecule:isochorismatase; PDBTitle: crystal structure of the two-domain non-ribosomal peptide synthetase2 entb containing isochorismate lyase and aryl-carrier protein domains 92 c1yzvA_ not modelled 61.0 12 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: hypothetical protein from trypanosoma cruzi 93 c3s6iA_ not modelled 60.1 36 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. 94 c3irvA_ not modelled 59.7 14 PDB header:hydrolase Chain: A: PDB Molecule:cysteine hydrolase; PDBTitle: crystal structure of cysteine hydrolase pspph_2384 from pseudomonas2 syringae pv. phaseolicola 1448a 95 d1szpb1 not modelled 56.9 17 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 96 d2noha1 not modelled 56.7 21 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:DNA repair glycosylase, 2 C-terminal domains 97 c2d2rA_ not modelled 56.4 12 PDB header:transferase Chain: A: PDB Molecule:undecaprenyl pyrophosphate synthase; PDBTitle: crystal structure of helicobacter pylori undecaprenyl pyrophosphate2 synthase 98 d3bzka1 not modelled 56.2 12 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Tex HhH-containing domain-like 99 d1jmsa1 not modelled 55.3 17 Fold:SAM domain-like Superfamily:DNA polymerase beta, N-terminal domain-like Family:DNA polymerase beta, N-terminal domain-like 100 d1keaa_ not modelled 55.2 14 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 101 d1f75a_ not modelled 54.8 16 Fold:Undecaprenyl diphosphate synthase Superfamily:Undecaprenyl diphosphate synthase Family:Undecaprenyl diphosphate synthase 102 d1orna_ not modelled 54.6 18 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Endonuclease III 103 d1nf9a_ not modelled 53.9 17 Fold:Isochorismatase-like hydrolases Superfamily:Isochorismatase-like hydrolases Family:Isochorismatase-like hydrolases 104 d1yaca_ not modelled 52.7 16 Fold:Isochorismatase-like hydrolases Superfamily:Isochorismatase-like hydrolases Family:Isochorismatase-like hydrolases 105 d1kg2a_ not modelled 52.7 27 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 106 d1im5a_ not modelled 52.6 14 Fold:Isochorismatase-like hydrolases Superfamily:Isochorismatase-like hydrolases Family:Isochorismatase-like hydrolases 107 c2j4dA_ not modelled 52.6 17 PDB header:dna-binding protein Chain: A: PDB Molecule:cryptochrome dash; PDBTitle: cryptochrome 3 from arabidopsis thaliana 108 c3o93A_ not modelled 52.1 24 PDB header:hydrolase Chain: A: PDB Molecule:nicotinamidase; PDBTitle: high resolution crystal structures of streptococcus pneumoniae2 nicotinamidase with trapped intermediates provide insights into3 catalytic mechanism and inhibition by aldehydes 109 d1mpga1 not modelled 51.8 29 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:DNA repair glycosylase, 2 C-terminal domains 110 c3n5nX_ not modelled 51.8 23 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 111 d1j2ra_ not modelled 50.8 17 Fold:Isochorismatase-like hydrolases Superfamily:Isochorismatase-like hydrolases Family:Isochorismatase-like hydrolases 112 d2abka_ not modelled 50.4 38 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Endonuclease III 113 c3eefA_ not modelled 50.4 17 PDB header:hydrolase Chain: A: PDB Molecule:n-carbamoylsarcosine amidase related protein; PDBTitle: crystal structure of n-carbamoylsarcosine amidase from thermoplasma2 acidophilum 114 c3hu5B_ not modelled 50.2 19 PDB header:hydrolase Chain: B: PDB Molecule:isochorismatase family protein; PDBTitle: crystal structure of isochorismatase family protein from desulfovibrio2 vulgaris subsp. vulgaris str. hildenborough 115 c3f10A_ not modelled 49.9 22 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 116 c3mcwA_ not modelled 48.7 12 PDB header:hydrolase Chain: A: PDB Molecule:putative hydrolase; PDBTitle: crystal structure of an a putative hydrolase of the isochorismatase2 family (cv_1320) from chromobacterium violaceum atcc 12472 at 1.06 a3 resolution 117 c2jhnB_ not modelled 48.4 36 PDB header:hydrolase Chain: B: PDB Molecule:3-methyladenine dna-glycosylase; PDBTitle: 3-methyladenine dna-glycosylase from archaeoglobus fulgidus 118 d2a1ja1 not modelled 48.3 16 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 119 d1rrqa1 not modelled 48.2 29 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 120 c2yg8B_ not modelled 47.1 38 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

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