1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		L	W	V	A	D	I	T	F	V	R	T	W	Q	G	F	C	Y	T	A	F	V	T	D	V	C	T	R	K	I	V	V	W	A	V	S	A	T	M	R	T	E	D	L	P	V	Q	V	F	N	H	A	V	W	Q	S	N	S	D	L	S
Secondary structure
SS confidence
Disorder		?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.
Sequence		E	L	V	H	H	S	D	P	G	S	Q
Secondary structure
SS confidence
Disorder										?	?	?
Disorder confidence

Confidence Key High(9)                     Low (0)

? Disordered ( 8%) Alpha helix ( 23%) Beta strand ( 42%)

Rank Aligned region

PDB 1c0m chain A Region: 1 - 71 Aligned: 66 Modelled: 71 Confidence: 99.1% Identity: 20% PDB header:transferase Chain: A: PDB Molecule:protein (integrase); PDBTitle: crystal structure of rsv two-domain integrase Phyre2 PDB 1asu chain A Region: 1 - 71 Aligned: 66 Modelled: 71 Confidence: 99.0% Identity: 20% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: Retroviral integrase, catalytic domain Phyre2 PDB 1cxq chain A Region: 1 - 71 Aligned: 66 Modelled: 71 Confidence: 99.0% Identity: 20% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: Retroviral integrase, catalytic domain Phyre2 PDB 1c0m chain A domain 2 Region: 1 - 71 Aligned: 66 Modelled: 71 Confidence: 99.0% Identity: 20% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: Retroviral integrase, catalytic domain Phyre2 PDB 5ejk chain G Region: 1 - 71 Aligned: 66 Modelled: 71 Confidence: 98.9% Identity: 20% PDB header:transferase/dna Chain: G: PDB Molecule:gag-pro-pol polyprotein; PDBTitle: crystal structure of the rous sarcoma virus intasome Phyre2 PDB 1bco chain A domain 2 Region: 1 - 71 Aligned: 69 Modelled: 71 Confidence: 98.9% Identity: 26% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: mu transposase, core domain Phyre2 PDB 5cz1 chain B Region: 1 - 71 Aligned: 62 Modelled: 71 Confidence: 98.7% Identity: 15% PDB header:hydrolase Chain: B: PDB Molecule:integrase; PDBTitle: crystal structure of the catalytic core domain of mmtv integrase Phyre2 PDB 4mq3 chain A Region: 1 - 71 Aligned: 61 Modelled: 71 Confidence: 98.7% Identity: 21% PDB header:viral protein Chain: A: PDB Molecule:integrase; PDBTitle: the 1.1 angstrom structure of catalytic core domain of fiv integrase Phyre2 PDB 3nf9 chain A Region: 1 - 71 Aligned: 61 Modelled: 71 Confidence: 98.6% Identity: 18% PDB header:hydrolase/hydrolase inhibitor Chain: A: PDB Molecule:integrase; PDBTitle: structural basis for a new mechanism of inhibition of hiv integrase2 identified by fragment screening and structure based design Phyre2 PDB 4fcy chain A Region: 1 - 70 Aligned: 68 Modelled: 70 Confidence: 98.5% Identity: 24% PDB header:dna binding protein/dna Chain: A: PDB Molecule:transposase; PDBTitle: crystal structure of the bacteriophage mu transpososome Phyre2 PDB 3jca chain E Region: 1 - 71 Aligned: 66 Modelled: 71 Confidence: 98.5% Identity: 17% PDB header:viral protein Chain: E: PDB Molecule:integrase; PDBTitle: core model of the mouse mammary tumor virus intasome Phyre2 PDB 1c6v chain A Region: 1 - 71 Aligned: 61 Modelled: 71 Confidence: 98.4% Identity: 15% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: Retroviral integrase, catalytic domain Phyre2 PDB 5u1c chain D Region: 1 - 71 Aligned: 61 Modelled: 71 Confidence: 98.3% Identity: 18% PDB header:viral protein Chain: D: PDB Molecule:hiv-1 integrase, sso7d chimera; PDBTitle: structure of tetrameric hiv-1 strand transfer complex intasome Phyre2 PDB 1exq chain A Region: 1 - 71 Aligned: 61 Modelled: 71 Confidence: 98.3% Identity: 18% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: Retroviral integrase, catalytic domain Phyre2 PDB 3kks chain B Region: 1 - 71 Aligned: 61 Modelled: 71 Confidence: 98.3% Identity: 20% PDB header:dna binding protein Chain: B: PDB Molecule:integrase; PDBTitle: crystal structure of catalytic core domain of biv integrase in crystal2 form ii Phyre2 PDB 1ex4 chain A Region: 1 - 71 Aligned: 61 Modelled: 71 Confidence: 98.3% Identity: 18% PDB header:viral protein Chain: A: PDB Molecule:integrase; PDBTitle: hiv-1 integrase catalytic core and c-terminal domain Phyre2 PDB 1bco chain A Region: 14 - 71 Aligned: 56 Modelled: 58 Confidence: 98.1% Identity: 23% PDB header:transposase Chain: A: PDB Molecule:bacteriophage mu transposase; PDBTitle: bacteriophage mu transposase core domain Phyre2 PDB 3f9k chain V Region: 1 - 71 Aligned: 61 Modelled: 67 Confidence: 98.1% Identity: 13% PDB header:viral protein, recombination Chain: V: PDB Molecule:integrase; PDBTitle: two domain fragment of hiv-2 integrase in complex with ledgf ibd Phyre2 PDB 1hyv chain A Region: 1 - 71 Aligned: 60 Modelled: 71 Confidence: 97.9% Identity: 18% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: Retroviral integrase, catalytic domain Phyre2 PDB 5u1c chain A Region: 1 - 71 Aligned: 61 Modelled: 71 Confidence: 97.9% Identity: 18% PDB header:viral protein Chain: A: PDB Molecule:hiv-1 integrase, sso7d chimera; PDBTitle: structure of tetrameric hiv-1 strand transfer complex intasome Phyre2 1 c1c0mA_ 2 d1asua_ 3 d1cxqa_ 4 d1c0ma2 5 c5ejkG_ 6 d1bcoa2 7 c5cz1B_ 8 c4mq3A_ 9 c3nf9A_ 10 c4fcyA_ 11 c3jcaE_ 12 d1c6va_ 13 c5u1cD_ 14 d1exqa_ 15 c3kksB_ 16 c1ex4A_ 17 c1bcoA_ 18 c3f9kV_ 19 d1hyva_ 20 c5u1cA_ 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