1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		V	A	L	R	P	E	D	R	L	L	S	V	H	D	V	L	G	P	V	R	V	R	L	L	G	G	S	V	L	A	E	L	T	A	R	F	G	V	A	A	R	A	K	V	L	A	G	E	V	V	D	D	D	G	A	V	V	D	S	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?		?					?																																												?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		T	V	L	P	P	G	S	V	V	H	L	Y	R	D	L	P	D	E	V	P	V	P	F	D	V	P	V	L	H	Q	D	A	D	I	V	V	V	D	K	P	H	F	L	A	T	M	P	R	G	R	H	V	A	Q	T	A	L	V	R	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		R	R	E	L	G	L	P	E	L	S	P	A	H	R	L	D	R	L	T	A	G	V	L	L	F	T	T	R	R	E	V	R	G	S	Y	Q	T	M	F	A	R	G	L	V	R	K	T	Y	L	A	R	A	P	V	A	P	G	L	A	L
Secondary structure
SS confidence
Disorder																																										?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		P	R	L	V	R	S	R	I	V	K	R	R	G	H	L	Q	A	V	C	E	P	G	V	P	N	A	E	T	L	V	E	R	I	A	R	D	G	L	Y	R	L	T	P	T	T	G	R	T	H	Q	L	R	V	H	M	A	A	L	G	I
Secondary structure
SS confidence
Disorder												?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		P	I	M	G	D	P	L	Y	P	N	V	I	S	V	A	A	H	D	F	S	T	P	L	Q	L	L	A	Q	R	I	E	F	D	D	P	L	T	G	S	H	R	E	F	A	S	T	R	T	L	T	G	A	T	L	P	T	W	S	A	A
Secondary structure
SS confidence
Disorder														?	?	?	?	?	?																																									?	?
Disorder confidence
		.	.	.	.	.
Sequence		A	D	C	R	P
Secondary structure
SS confidence
Disorder		?	?	?	?	?
Disorder confidence

Confidence Key High(9)                     Low (0)

? Disordered ( 9%) Alpha helix ( 20%) Beta strand ( 30%) TM helix ( 5%) (View membrane topology prediction)

Rank Aligned region

PDB 2ist chain A Region: 14 - 288 Aligned: 274 Modelled: 275 Confidence: 100.0% Identity: 23% PDB header:isomerase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase d; PDBTitle: crystal structure of rlud from e. coli Phyre2 PDB 1qyu chain A Region: 79 - 294 Aligned: 215 Modelled: 213 Confidence: 100.0% Identity: 23% PDB header:lyase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase d; PDBTitle: structure of the catalytic domain of 23s rrna pseudouridine2 synthase rlud Phyre2 PDB 1v9f chain A Region: 79 - 288 Aligned: 209 Modelled: 210 Confidence: 100.0% Identity: 24% Fold: Pseudouridine synthase Superfamily: Pseudouridine synthase Family: Pseudouridine synthase RsuA/RluD Phyre2 PDB 1v9f chain A Region: 79 - 288 Aligned: 209 Modelled: 210 Confidence: 100.0% Identity: 24% PDB header:lyase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase d; PDBTitle: crystal structure of catalytic domain of pseudouridine2 synthase rlud from escherichia coli Phyre2 PDB 2i82 chain D Region: 79 - 289 Aligned: 207 Modelled: 211 Confidence: 100.0% Identity: 29% PDB header:lyase/rna Chain: D: PDB Molecule:ribosomal large subunit pseudouridine synthase a; PDBTitle: crystal structure of pseudouridine synthase rlua: indirect2 sequence readout through protein-induced rna structure Phyre2 PDB 1v9k chain A Region: 87 - 288 Aligned: 202 Modelled: 198 Confidence: 100.0% Identity: 26% Fold: Pseudouridine synthase Superfamily: Pseudouridine synthase Family: Pseudouridine synthase RsuA/RluD Phyre2 PDB 5vbb chain A Region: 78 - 299 Aligned: 209 Modelled: 222 Confidence: 100.0% Identity: 24% PDB header:rna binding protein Chain: A: PDB Molecule:rna pseudouridylate synthase domain-containing protein 1; PDBTitle: human rna pseudouridylate synthase domain containing 1 Phyre2 PDB 5uba chain A Region: 85 - 297 Aligned: 205 Modelled: 213 Confidence: 100.0% Identity: 25% PDB header:rna binding protein Chain: A: PDB Molecule:rna pseudouridylate synthase domain-containing protein 4; PDBTitle: human rna pseudouridylate synthase domain containing 4 Phyre2 PDB 1ksk chain A Region: 24 - 250 Aligned: 204 Modelled: 224 Confidence: 100.0% Identity: 20% PDB header:lyase Chain: A: PDB Molecule:ribosomal small subunit pseudouridine synthase a; PDBTitle: structure of rsua Phyre2 PDB 1vio chain A Region: 27 - 250 Aligned: 199 Modelled: 224 Confidence: 100.0% Identity: 19% PDB header:lyase Chain: A: PDB Molecule:ribosomal small subunit pseudouridine synthase a; PDBTitle: crystal structure of pseudouridylate synthase Phyre2 PDB 3dh3 chain C Region: 25 - 248 Aligned: 198 Modelled: 224 Confidence: 100.0% Identity: 17% PDB header:isomerase/rna Chain: C: PDB Molecule:ribosomal large subunit pseudouridine synthase f; PDBTitle: crystal structure of rluf in complex with a 22 nucleotide rna2 substrate Phyre2 PDB 4lgt chain A Region: 26 - 247 Aligned: 206 Modelled: 222 Confidence: 100.0% Identity: 21% PDB header:isomerase/rna Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase b; PDBTitle: crystal structure of the catalytic domain of rlub in complex with a2 21-nucleotide rna substrate Phyre2 PDB 2oml chain A Region: 90 - 250 Aligned: 155 Modelled: 159 Confidence: 100.0% Identity: 16% PDB header:isomerase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase e; PDBTitle: crystal structure of e. coli pseudouridine synthase rlue Phyre2 PDB 2olw chain B Region: 94 - 250 Aligned: 151 Modelled: 156 Confidence: 100.0% Identity: 15% PDB header:isomerase Chain: B: PDB Molecule:ribosomal large subunit pseudouridine synthase e; PDBTitle: crystal structure of e. coli pseudouridine synthase rlue Phyre2 PDB 1vio chain A domain 1 Region: 90 - 256 Aligned: 152 Modelled: 167 Confidence: 100.0% Identity: 23% Fold: Pseudouridine synthase Superfamily: Pseudouridine synthase Family: Pseudouridine synthase RsuA/RluD Phyre2 PDB 1ksk chain A domain 4 Region: 92 - 248 Aligned: 144 Modelled: 157 Confidence: 100.0% Identity: 22% Fold: Pseudouridine synthase Superfamily: Pseudouridine synthase Family: Pseudouridine synthase RsuA/RluD Phyre2 PDB 2gml chain A Region: 91 - 248 Aligned: 141 Modelled: 158 Confidence: 100.0% Identity: 15% PDB header:isomerase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase f; PDBTitle: crystal structure of catalytic domain of e.coli rluf Phyre2 PDB 2k6p chain A Region: 26 - 101 Aligned: 76 Modelled: 76 Confidence: 99.2% Identity: 16% PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein hp_1423; PDBTitle: solution structure of hypothetical protein, hp1423 Phyre2 PDB 5z81 chain A Region: 24 - 92 Aligned: 69 Modelled: 69 Confidence: 98.2% Identity: 13% PDB header:chaperone Chain: A: PDB Molecule:heat shock protein 15; PDBTitle: trimeric structure of vibrio cholerae heat shock protein 15 at 2.32 angstrom resolution Phyre2 PDB 1dm9 chain A Region: 26 - 93 Aligned: 68 Modelled: 68 Confidence: 98.2% Identity: 12% Fold: Alpha-L RNA-binding motif Superfamily: Alpha-L RNA-binding motif Family: Heat shock protein 15 kD Phyre2 1 c2istA_ 2 c1qyuA_ 3 d1v9fa_ 4 c1v9fA_ 5 c2i82D_ 6 d1v9ka_ 7 c5vbbA_ 8 c5ubaA_ 9 c1kskA_ 10 c1vioA_ 11 c3dh3C_ 12 c4lgtA_ 13 c2omlA_ 14 c2olwB_ 15 d1vioa1 16 d1kska4 17 c2gmlA_ 18 c2k6pA_ 19 c5z81A_ 20 d1dm9a_ 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