#=GF ID Phage_Cox
#=GF AC PF10743.13
#=GF DE Regulatory phage protein cox
#=GF AU Mistry J;0000-0003-2479-5322
#=GF AU Coggill P;0000-0001-5731-1588
#=GF SE PRODOM_PD064131
#=GF GA 27.50 27.50;
#=GF TC 27.50 29.00;
#=GF NC 27.40 27.40;
#=GF BM hmmbuild HMM.ann SEED.ann
#=GF SM hmmsearch --cpu 4 -Z 75585367 -E 1000 HMM pfamseq
#=GF TP Family
#=GF RN [1]
#=GF RM 7997180
#=GF RT Identification of an HP1 phage protein required for
#=GF RT site-specific excision.
#=GF RA Esposito D, Scocca JJ;
#=GF RL Mol Microbiol 1994;13:685-695.
#=GF RN [2]
#=GF RM 9079698
#=GF RT Purification and characterization of HP1 Cox and definition of
#=GF RT its role in controlling the direction of site-specific
#=GF RT recombination.
#=GF RA Esposito D, Scocca JJ;
#=GF RL J Biol Chem. 1997;272:8660-8670.
#=GF DR INTERPRO; IPR019679;
#=GF DR SO; 0100021; polypeptide_conserved_region;
#=GF CC This family of phage Cox proteins is expressed by Enterobacteria
#=GF CC phages. The Cox protein is a 79-residue basic protein with a
#=GF CC predicted strong helix-turn-helix DNA-binding motif. It inhibits
#=GF CC integrative recombination and it activates site-specific
#=GF CC excision of the HP1 genome from the Haemophilus influenzae
#=GF CC chromosome, Hp1. Cox appears to function as a tetramer. Cox
#=GF CC binding sites consist of two direct repeats of the consensus
#=GF CC motif 5'-GGTMAWWWWA, one Cox tetramer binding to each motif. Cox
#=GF CC binding interferes with the interaction of HP1 integrase with
#=GF CC one of its binding sites, IBS5. This competition is central to
#=GF CC directional control. Both Cox binding sites are needed for full
#=GF CC inhibition of integration and for activating excision, because
#=GF CC it plays a positive role in assembling the nucleoprotein
#=GF CC complexes that produce excisive recombination, by inducing the
#=GF CC formation of a critical conformation in those complexes [2].
#=GF SQ 57
#=GS A0A5P1M3K1_9CAUD/6-90 AC A0A5P1M3K1.1
#=GS M1T2M6_9CAUD/6-90 AC M1T2M6.1
#=GS D2U1I3_9GAMM/6-89 AC D2U1I3.1
#=GS A0A084ZUD7_9ENTR/1-87 AC A0A084ZUD7.1
#=GS A0A2A2GUR9_9GAMM/5-74 AC A0A2A2GUR9.1
#=GS A0A482IHW5_9CAUD/1-87 AC A0A482IHW5.1
#=GS A0A0A7NPS5_9CAUD/40-121 AC A0A0A7NPS5.1
#=GS A0A653FSW7_9CAUD/1-52 AC A0A653FSW7.1
#=GS Q6D3V8_PECAS/24-105 AC Q6D3V8.1
#=GS B4F0M3_PROMH/4-87 AC B4F0M3.1
#=GS D4DZ78_SEROD/9-93 AC D4DZ78.1
#=GS A0A3B0JFR8_9GAMM/5-85 AC A0A3B0JFR8.1
#=GS A0A085GA32_9ENTR/1-87 AC A0A085GA32.1
#=GS A0A2Z2FFY9_9CAUD/7-91 AC A0A2Z2FFY9.1
#=GS A0A2A2GXD0_9GAMM/6-84 AC A0A2A2GXD0.1
#=GS A0A4P7L2Y3_9GAMM/35-115 AC A0A4P7L2Y3.1
#=GS D2TSL1_CITRI/9-95 AC D2TSL1.1
#=GS A0A0M3ULH0_9CAUD/9-93 AC A0A0M3ULH0.1
#=GS W1J446_9GAMM/9-100 AC W1J446.1
#=GS A0A653FSJ1_9CAUD/9-95 AC A0A653FSJ1.1
#=GS A0A2G8E6J3_9GAMM/9-93 AC A0A2G8E6J3.1
#=GS A0A5P1MAT5_9CAUD/6-90 AC A0A5P1MAT5.1
#=GS A0A0F7LDH8_9CAUD/30-111 AC A0A0F7LDH8.1
#=GS A0A5Q2KBA5_9ENTR/3-84 AC A0A5Q2KBA5.1
#=GS A0A8J7GZX8_9ENTR/5-90 AC A0A8J7GZX8.1
#=GS A0A8J7HAV7_9ENTR/6-90 AC A0A8J7HAV7.1
#=GS VCOX_BPP2/1-87 AC P07695.1
#=GS A0A653FUM7_9CAUD/6-89 AC A0A653FUM7.1
#=GS A0A5C0CGR1_9CAUD/6-90 AC A0A5C0CGR1.1
#=GS C0B372_9GAMM/1-84 AC C0B372.1
#=GS D3VKP4_XENNA/104-187 AC D3VKP4.1
#=GS A0A2A2GNL2_9GAMM/1-71 AC A0A2A2GNL2.1
#=GS A0A2A2GXL1_9GAMM/6-90 AC A0A2A2GXL1.1
#=GS A0A5C0CHD4_9CAUD/6-90 AC A0A5C0CHD4.1
#=GS A0A0M4RCW1_9CAUD/9-93 AC A0A0M4RCW1.1
#=GS A0A2U8I2Z9_9GAMM/5-91 AC A0A2U8I2Z9.1
#=GS Q858U1_9CAUD/11-95 AC Q858U1.1
#=GS A0A663AXE1_9ENTR/7-91 AC A0A663AXE1.1
#=GS A0A328TQW1_9GAMM/1-57 AC A0A328TQW1.1
#=GS A0A2A2GYA3_9GAMM/5-90 AC A0A2A2GYA3.1
#=GS A0A2A2H1W3_9GAMM/6-90 AC A0A2A2H1W3.1
#=GS A0A845SLE0_9GAMM/4-90 AC A0A845SLE0.1
#=GS A0A4P7KVU6_9GAMM/6-90 AC A0A4P7KVU6.1
#=GS W1J9X2_9GAMM/4-90 AC W1J9X2.1
#=GS A0A386K4U4_9CAUD/9-93 AC A0A386K4U4.1
#=GS A0A381H4S5_CITKO/25-106 AC A0A381H4S5.1
#=GS A0A097R2N5_HAFAL/1-86 AC A0A097R2N5.1
#=GS S4TRY1_9CAUD/6-90 AC S4TRY1.1
#=GS A0A653FRW5_9CAUD/1-87 AC A0A653FRW5.1
#=GS A0A7D3UHK8_9CAUD/25-106 AC A0A7D3UHK8.1
#=GS A0A0F7LDH4_9CAUD/25-106 AC A0A0F7LDH4.1
#=GS C4K4Y6_HAMD5/6-90 AC C4K4Y6.1
#=GS A0A8J7H074_9ENTR/12-76 AC A0A8J7H074.1
#=GS A0A2A2HGF9_9GAMM/6-90 AC A0A2A2HGF9.1
#=GS J7TCK7_MORMO/4-87 AC J7TCK7.1
#=GS A0A084ZQB7_9ENTR/8-93 AC A0A084ZQB7.1
#=GS D8MKG9_ERWBE/6-92 AC D8MKG9.1
A0A5P1M3K1_9CAUD/6-90 ....yvi---QYPI--DAVHTVKFAELLGKPETAVVKMVKENKLPVIELRDPS......KPNARVGEKWVFIPEFNRAVREAFYNRPVEQRDAW.L.LWMGL...........
M1T2M6_9CAUD/6-90 ....yvi---QYPL--DAVHVDKFADLLGKPKTAVSEMVKANKLPIIELRDPC......KPKARAGEKWVFIPEFNRAVREAFYNRPVEQRDAW.L.LWMGL...........
D2U1I3_9GAMM/6-89 ..yeiry-------PIDAVNIKKFADLIGKTPSAVKDMAEDQKLPVIFLKDPT......KPNA-RSERWIYLPEFNRIVREAYFNRPAEERDAW.I.KWF--kk.........
A0A084ZUD7_9ENTR/1-87 ......m-SRQLVSITDAVPYQEFAKLIGKTPAAVKGMIEKRKLPIIEMTDPQ......STSGRAGEYWIYLPAWNKGLKLAYESRPKEIRDGW.L.MWLG-v..........
A0A2A2GUR9_9GAMM/5-74 ...dyev---KYP--LDAISVEKFSELFGKSEIAVRKMILNNKLPVVDMGDPD......KPNARVAYYHACRS---------------------.-.-----pnnidgdqlit
A0A482IHW5_9CAUD/1-87 ......m-SKQLVSSTDAVPYQEFARLIGKTPAAVKGMIEKGKLPVIEMTDPQ......STSGRAGEYWVYLPAWNNGMKLAYESRPKEIREGW.L.MWLGL...........
A0A0A7NPS5_9CAUD/40-121 ......e-IRLSENPSHLLSKEGFAMYIGKTVDAIVSMAKAGKLPAVYMADPL......KPGG-NAELYINRKAWDEACDRLIENAPQE----W.H.DWEN-r..........
A0A653FSW7_9CAUD/1-52 .......------------------------------MAKAGKLPAFYMTDPL......KPRG-KAELWINRCEWDKYAAQLVDEAPTE----W.H.DWKNR...........
Q6D3V8_PECAS/24-105 .......QIRLSEKPADLLSKEGFALYVGKTTSAIVAMAKAGKLPAFYMADPL......KPGG-NAELWIHRLEWDKYAKQLVETAPPE----W.H.GWKDR...........
B4F0M3_PROMH/4-87 ....eie---IHNIGSEFVTETKFAGYIGKTPKAVSDMRKDGKLPYVEVKHPD......---NSRGEYYIDVTDWNKGLRMARKRMPKELRDGW.L.IWLG-m..........
D4DZ78_SEROD/9-93 ..fievr------HAVDAVPYPKFAELIGKKAATVKSMIEDGKLPIIPWKNPE......SLGA-RAENWIYIPEFNRAMRDAYFNRPKEQRDAW.L.LWIGL...........
A0A3B0JFR8_9GAMM/5-85 ...dyev---KY--PLDAVSVEKFSELLGKPETAVRKMIINNKLPVVELTDPE......VAAARVGERWVVISEFNHRVLEAYYNRPAEERDAW.-.-----a..........
A0A085GA32_9ENTR/1-87 ......m-SKQVVSISDAVPYPEFARLIGKTPSAVRGMIEKGKLPVIEMTDPL......SATKRAGEYWVYLPAWNNGMKMAYESRPKEIREGW.L.MWLGL...........
A0A2Z2FFY9_9CAUD/7-91 .salfki--------PDPITADEFSRRTGKTESAVRHMMDRRLLPMVTEREVL......GPDGSTRRLLILWNEWLEMVHEATSKLPPE-RQDW.RaGW---ikk........
A0A2A2GXD0_9GAMM/6-84 ......y-TGQYPV--DAVTIEKFAELIGKTDEAVRLMIKREKLPVVDFQDPN......KPNSRVSETWIYLPEFNRIVREAR-QFPNEMQ---.-.-----qsks.......
A0A4P7L2Y3_9GAMM/35-115 lsyqgpl--------AKLVTIDRFAAYAGFTTGAIRKMCLRGILPAHQMKNPN......NPEG-KGTWYINRDLWDKLSEQLPKIEPQE----W.H.SWKD-y..........
D2TSL1_CITRI/9-95 ...fiqv----APYPLEAVPYQLFAKMIGRKESTVRTMIDAAKLPTIDFVKPG......SVKTRASENWVYLPAFNAGMRKAFFDQPKERRDAW.L.LWLGL...........
A0A0M3ULH0_9CAUD/9-93 ..fievr------HAVDAVPYPKFAELIGKKPATVKSMIDDGKLPIIPWKNPE......SLGA-RAENWIYIPEFNRAMRDAYYNRPREQRDAW.L.LWIGL...........
W1J446_9GAMM/9-100 ....ymq----VYYPVDAVPYQKFADLIGKTHGAVKGMVDKGKLPTVFWQNPDvkeiggMPAKVRGENWVYIPEFNRGMRDAFLNRPKEQRDAW.L.LWIGL...........
A0A653FSJ1_9CAUD/9-95 ...fiqv----APYPLEAVPYQLFAKMIGRKESTVRTMIDAAKLPTIDFVKPG......SVKTRASENWVYLPAFNEGMRKAFFEQPKERRDAW.L.LWLGL...........
A0A2G8E6J3_9GAMM/9-93 ..fievr------HAVDAVPYPKFAELIGKKPATVKSMIEDGKLPIIPWKNPE......SLGA-RAENWIYIPEFNRAMRDAYYNRPREQRDAW.L.LWIGL...........
A0A5P1MAT5_9CAUD/6-90 ....yvi---QYPL--DAVHVDKFADLLGKPKTAVSEMVKANKLPIIELRDPC......KPKARAGEKWVFIPEFNRAVREAFYNRPVEQRDAW.L.LWMGL...........
A0A0F7LDH8_9CAUD/30-111 .....si--QISERPSDLLSKEGFALYIGKTPRAVAEMAKAGKLPAFYMTDPL......KPRG-KAELWINRREWDKYAAQLVDEAPTE----W.H.DWKNR...........
A0A5Q2KBA5_9ENTR/3-84 ..epaen------ALSDLVTPELFASYIGKTPAAIRKMAMAGKLPVIRMKDPL......NPSKKGGEIYIHRGEWDAYAAHLAQIAPPE----W.H.DWKNR...........
A0A8J7GZX8_9ENTR/5-90 ..nyeik----YP--IDVMPVNKFAELIGKTPIAVREMIDNNKLPIIPLQDPS......KPNSRVRERLIYLPEFNRGLRAAYFNRPADERDAW.L.KWLGL...........
A0A8J7HAV7_9ENTR/6-90 ......y-TGQYPV--DAVTIEKFAELIGNTDEAVRLMIKREKLPVVDFKDPN......KPNSRVSETWIYLPEFNRIVREAYFNRPAEERDAW.L.KWLGL...........
VCOX_BPP2/1-87 .......MSKQVTLMTDAIPYQEFAKLIGKSTGAVRRMIDKGKLPVIDMTDPQ......SASGRAGEYWVYLPAWNNGLKLAYESRPKEIRDGW.L.MWLGL...........
A0A653FUM7_9CAUD/6-89 ..lliky-------PLEGVTTEKFAELLGKSKNAVDMMVKADKIPFIEIQDPE......KPGA-RTEKLICIEEFNKGIRLAFAKKPKAQRDAW.L.MWLGL...........
A0A5C0CGR1_9CAUD/6-90 ....yvi---QYPL--DAVHTDKFAELLGKPKTAVEAMAKANKLPLIELRDPS......KPAARAGDKWVFIPEFNRGVREAFYNRPVEQRDAW.L.LWMGL...........
C0B372_9GAMM/1-84 .mrekiv------SLSDGVTEEKFAELIGKPVSAVSDMRKAGKLPIIQMKKPG......---SSRAENYVYLPAWNNGLKMAYESLPKEMRDGW.L.VWLGL...........
D3VKP4_XENNA/104-187 iqllfdt--------PDPITVREFCRRTGKSESSIRKLTSSGRLPIRSERTPK......---GNRVHLVIMWNEWLEMVYEANNKIPSFERMGW.K.T----swfkr......
A0A2A2GNL2_9GAMM/1-71 ......m-SKQVISLSDALPYQEFAKKIGKSPEAVKGMINKGKLPVVQMKEFP......--DSHRSEYWVYLPAWNECQ---------------.-.-----cqlnsdp....
A0A2A2GXL1_9GAMM/6-90 ...yemr----YP--IDVMHVKKFAELIGKTPSAVQEMIENNKLPVIPLQDPS......KPNSRVRERLIYLPEFNRGLRAAYLNRPAEERDAW.L.KWLGL...........
A0A5C0CHD4_9CAUD/6-90 ....yvi---QYPL--DAVHTDKFAELLGKPKTAVEAMAKANKLPLIELRDPS......KPAARAGDKWVFIPEFNRGVREAFYNRPVEQRDAW.L.LWMGL...........
A0A0M4RCW1_9CAUD/9-93 ..fievr------HAVDAVPYPKFAELIGKKPATVKSMIDDGKLPIIPWKNPE......SLGA-RAENWIYIPEFNRAMRDAYYNRPREQRDAW.L.LWIGL...........
A0A2U8I2Z9_9GAMM/5-91 qlehlfk-------IPDGITVSEFARRTGKTETSVRHMMDRRLLPMVTEREII......GATGSSRRIYILWNEWLEMVHMATISRPVESY-GWkH.TWI--kr.........
Q858U1_9CAUD/11-95 ....yvi---QYPL--DAVHVDKFADLLGKPKTAVSEMVKANKLPIIELRDPC......KLKARAGEKWVFIPEFNRAVREAFYNRPVEQRDAW.L.LWMGL...........
A0A663AXE1_9ENTR/7-91 .salfki--------PDPITADEFSRRTGKTESAVRHMMDRRLLPMVTEREVL......GPDGSTRRLLILWNEWLEMVHEATSKLPPE-RQDW.RaGW---ikk........
A0A328TQW1_9GAMM/1-57 .......------------------------------MIEKGKLPVVEITDPQ......STSGRAGEYWVYLPAWNNGMKLAYESRPKKIREGW.L.MWLGL...........
A0A2A2GYA3_9GAMM/5-90 ...dyev---KY--PLDAVSVEKFSELLGKPETAVRKMITNNKLPVVELTDPE......AAAARVGERWVVISEFNRRVLEAYYNRPAEERDAW.L.KWLGL...........
A0A2A2H1W3_9GAMM/6-90 ...yemr----YP--IDVMHAKKFAELIGKTPSAVQEMIENNKLPVIRLQDPS......KPNSRVRERLIYLPEFHRGLRAAYFNRPAEERDAW.L.KWLGL...........
A0A845SLE0_9GAMM/4-90 .eayeir------YPLDAVPLRKFAELIGKTETAVKNMVEDGKLPLIPWKNPD......NPAPRRGEQWVFLPEFNRAMHDAFANRPKEQRDAW.L.LWLGL...........
A0A4P7KVU6_9GAMM/6-90 ......y-TGQYPV--DAVTIEKFAELIGKTDEAVRVMIKREKLPVVDFQDPN......KPNSRVSETWIYLPEFNRIVREAYFNRPAEERDAW.I.KWF--kk.........
W1J9X2_9GAMM/4-90 ......e-IYKVEYPVAAVPYKKFAELIGKKEGAVQEMVKQNKLPLIEWRDPS......KPNVRVGESWVYLPEFNRAMEEAFYNRPKEQRDAW.L.LWIGL...........
A0A386K4U4_9CAUD/9-93 ..fievr------HAVDAVPYPKFAELIGKKPATVKSMIEDGKLPIIPWKNPE......SLGA-RAENWIYIPEFNRAMRDAYYNRPREQRDAW.L.LWIGL...........
A0A381H4S5_CITKO/25-106 ......a-IQLAEKPSDLLSKEGFALYIGKTPRAVAEMAKAGKLPAFYMTDPL......KPGG-NAELWINRREWDKHAANLVDEAPTD----W.H.DWKNR...........
A0A097R2N5_HAFAL/1-86 ......m-SKQVVSVSDALPAHEFAKVIGKTPTAVTKMIEKGKLPYVDMKDPQ......SPSA-RPEKWVYLPAWNAGMKLAYESRPKEIREGW.L.QWLGL...........
S4TRY1_9CAUD/6-90 ....yvi---QYPL--DAVHVDKFADLLGKPKTAVSEMVKANKLPIIELRDPC......KPKARAGEKWVFIPEFNRAVREAFYNRPVEQRDAW.L.LWMGL...........
A0A653FRW5_9CAUD/1-87 .......MSKQVTLMTDAIPYQEFAKLIGKSTGAVRRMIDKGKLPVIDMTDPQ......SASGRAGEYWVYLPAWNNGLKLAYESRPKEIRDGW.L.MWLGL...........
A0A7D3UHK8_9CAUD/25-106 .....si--QISERPSDLLSKEGFALYIGKTPRAVAEMAKAGKLPAFYMTDPL......KPRG-KAELWINRREWDKYAAQLVDEAPTE----W.H.DWKNR...........
A0A0F7LDH4_9CAUD/25-106 ......d-IKLAAAPSDLLSKEGFALYIGKTPRAVAEMAKAGKLPAFYMTDPL......KPGG-HAELWINRREWDKYAAQLVDEAPTE----W.H.DWKNR...........
C4K4Y6_HAMD5/6-90 ......y-TGQYPV--EAVTIEKFAELIGKPETAVRKMITNNKLPVVELTDPE......AAAARVGERWVVISEFNCIVREAYFNRPAKERGAW.L.KWLGL...........
A0A8J7H074_9ENTR/12-76 ...ydvr------YPVDAVPYQKFAELIGKSEAAVKGMVDNGKLPLIPWINPE......NPNPRRGENWVYIPEFNRAMR--------------.-.-----...........
A0A2A2HGF9_9GAMM/6-90 .....ht--GQYPV--DAVTIEKFSELIGKTDEAVRLMIKREKLPVVDFKDPN......KPNSRVSETWIYLPEFNRIVQEAYFNRPAEERDAW.L.KWLGL...........
J7TCK7_MORMO/4-87 ......e-IVKTPIASDCVTEAKFAEMIGKTKQAISDMRKDGKLPVVEMKDPK......---GKRGEYYVYLPAWNAGLKLAYESLPEEMRDGW.L.AWLGL...........
A0A084ZQB7_9ENTR/8-93 ..kfiev-----RHPVDAVPYIKFAELIGKTPSMVKSMIEEGKLPIIQWRNPA......AL-TNRSENWIYIPEFNRAMREAYYNRPREQRDAW.L.LWIGL...........
D8MKG9_ERWBE/6-92 ..dvsev-----KSLIDAVTYQRFGEMIGKPTSAIKAMAENNKLPLIEWRNPE......NPNARAGEKMVYLPEFNRAMRDAYYSRPTEQRDAW.L.LWLG-i..........
#=GC seq_cons ......h.........DAVshp+FAcLIGKo.sAVcpMlcssKLPllphpDPp......pssupsuEhWlalPEaN+uh+pAa.sRPtE.RDuW.L.hWhGh...........
//
