Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR) and similar domains; The restriction-modification (RM) system S subunit generally consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one heteromeric enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This superfamily represents a single TRD-CR unit; in addition to type I TRD-CR units, it includes RMtype1_S_TRD-CR_like domains of various putative Helicobacter type II restriction enzymes and methyltransferases, such as Hci611ORFHP and HfeORF12890P, as well as TRD-CR-like sequence-recognition domains of the M subunit of putative type I DNA methyltransferase such as M2.CinURNWORF2828P and M.Mae7806ORF3969P.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  24 VVFKALGEVC--YFRNGKGheKNISENGQYIVINSKFIStNGKIAKRSEK-------QISPLFINDILIVMSdlpngKAL 94
Cdd:cd17272     1 VEEKTLGDIAvdGFQNGPA--PNFDEKGEIPVITSKNIS-NGKIDFEYVKydflsisKNRKINKGDILITMI-----GTI 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  95 AKTFLVDKNNT--YTLNQRIGGLsikNKSEILPEFLNFFLNRTKQLTKYDNGID-QTNLRKEQILDVKIPIISLKEQQRI 171
Cdd:cd17272    73 GETAIVKCLDPkfYTLNLYLIRL---KKEKLLPSYLKYFLDSEKFLNKSISATSgQGYLKANQIDKLEIPLPPLEEQQRI 149

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1800604194 172 VTILDKFETLTNSIVDGLPKEIELRRKQYEYYREQLLSFP 211
Cdd:cd17272   150 VKILDKFDTLCNDITEGLPAEIEARQKQYEYYRDLLLSFP 189

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to S.Eco2747II TRD2-CR2 and S.Eco2747AII TRD2-CR2; Escherichia coli ST2747 S subunit (S.Eco2747II) and Escherichia coli ST2747A s SUBUNIT (S.Eco2747AII) recognize 5'... GAANNNNNNNTAAA ... 3'. Generally The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains mainly TRD2-CR2. It may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  24 VVFKALGEVC--YFRNGKGheKNISENGQYIVINSKFIStNGKIAKRSEK-------QISPLFINDILIVMSdlpngKAL 94
Cdd:cd17272     1 VEEKTLGDIAvdGFQNGPA--PNFDEKGEIPVITSKNIS-NGKIDFEYVKydflsisKNRKINKGDILITMI-----GTI 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  95 AKTFLVDKNNT--YTLNQRIGGLsikNKSEILPEFLNFFLNRTKQLTKYDNGID-QTNLRKEQILDVKIPIISLKEQQRI 171
Cdd:cd17272    73 GETAIVKCLDPkfYTLNLYLIRL---KKEKLLPSYLKYFLDSEKFLNKSISATSgQGYLKANQIDKLEIPLPPLEEQQRI 149

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1800604194 172 VTILDKFETLTNSIVDGLPKEIELRRKQYEYYREQLLSFP 211
Cdd:cd17272   150 VKILDKFDTLCNDITEGLPAEIEARQKQYEYYRDLLLSFP 189

Restriction endonuclease S subunit [Defense mechanisms];

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1800604194 136 KQLTKYDNGIDQTNLRKEQILDVKIPIISLKEQQRIVTILDKFETLTNSIVdglpKEIELRRKQYEYYREQLLS 209
Cdd:COG0732    13 EYLRSLATGSTQPNLNKKDLKKLPIPLPPLEEQKRIVEILDSLFDKIAALE----KEIEKLKELRDALLPKLFT 82

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to S.Eco2747II TRD2-CR2 and S.Eco2747AII TRD2-CR2; Escherichia coli ST2747 S subunit (S.Eco2747II) and Escherichia coli ST2747A s SUBUNIT (S.Eco2747AII) recognize 5'... GAANNNNNNNTAAA ... 3'. Generally The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains mainly TRD2-CR2. It may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  24 VVFKALGEVC--YFRNGKGheKNISENGQYIVINSKFIStNGKIAKRSEK-------QISPLFINDILIVMSdlpngKAL 94
Cdd:cd17272     1 VEEKTLGDIAvdGFQNGPA--PNFDEKGEIPVITSKNIS-NGKIDFEYVKydflsisKNRKINKGDILITMI-----GTI 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  95 AKTFLVDKNNT--YTLNQRIGGLsikNKSEILPEFLNFFLNRTKQLTKYDNGID-QTNLRKEQILDVKIPIISLKEQQRI 171
Cdd:cd17272    73 GETAIVKCLDPkfYTLNLYLIRL---KKEKLLPSYLKYFLDSEKFLNKSISATSgQGYLKANQIDKLEIPLPPLEEQQRI 149

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1800604194 172 VTILDKFETLTNSIVDGLPKEIELRRKQYEYYREQLLSFP 211
Cdd:cd17272   150 VKILDKFDTLCNDITEGLPAEIEARQKQYEYYRDLLLSFP 189

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to S.Ara36733I TRD1-CR1 AND S.Ara36733I TRD2-CR2; Actinomyces radicidentis S subunit (S.Ara36733I) recognizes 5'... CGAGNNNNNCTG ... 3'. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. It may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  24 VVFKALGEVCYFRNGKGHEKN-ISENG-----------QYIVINSKFIS-TNGKIAKRSeKQISPlfiNDILIVMS---- 86
Cdd:cd17268     1 VEWKTLGEIGEFIRGKGITKKdFVESGvpcihygeiytKYGIYTTKTKSfISEELAKKL-RKAKP---GDLLIAGTgeti 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  87 -DLpnGKALAktFLVDKNnTYtlnqrIGGLSIKNKSEILPEFLNFFLNRT---KQLTKYDNGIDQTNLRKEQILDVKIPI 162
Cdd:cd17268    77 eDI--GKAVA--WLGDEE-VA-----AGGDIIIFRHSQNPKYLSYLLNSPafqKQKRKLGTGTKVVHISASDLAKIKIPV 146

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1800604194 163 ISLKEQQRIVTILDKFETLTnsivDGLPKEIELRRKQYEYYRE 205
Cdd:cd17268   147 PPLEEQERIVEILDKFDALI----AGLPAEIEARRKQYEYYRD 185

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to Methanococcus maripaludis C7 S subunit (S.MmaC7ORF19P) TRD1-CR1 and Mycoplasma gallinaceum S subunit (S3.Mme68BORF1125P) TRD2-CR; The recognition sequences of Methanococcus maripaludis C7 S subunit (S.MmaC7ORF19P) and Mycoplasma gallinaceum S subunit (S3.Mme68BORF1125P) are undetermined. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one heteromeric enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. It may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194 107 TLNQRIGGLSIkNKSEILPEFLNFFL-NRTKQLTKYDNGIDQTNLRKEQILDVKIPIISLKEQQRIVTILDKFETLTNSI 185
Cdd:cd17294    91 TTNQSLAAIEP-DEEIANSRFLYYNLsSRYEELRSLSGGGGRGGLNLKIIKSLPIPLPPLEEQKKIVAILDKFDALINDL 169

                          90
                  ....*....|....*....
gi 1800604194 186 VDGLPKEIELRRKQYEYYR 204
Cdd:cd17294   170 KEGLPALLELRQKQYEYLR 188

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to Photorhabdus luminescens S subunit (S.PluTORF4319P) TRD2-CR2; The recognition sequence of Photorhabdus luminescens S subunit (S.PluTORF4319P) is undetermined. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. It may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  27 KALGEVCYFRNGKGHEKNISENGQYIvinskFIStngkiakRSEKqisPLFIND-------ILIVmsdlPNGkalAKTFL 99
Cdd:cd17269     1 KTLGEVAEIKTGKLDANAANENGKYP-----FFT-------CSKE---PLRIDTyafdeeaILIA----GNG---SGVGN 58

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194 100 VDK-NNTYTLNQRIGGLSIkNKSEILPEFLNFFLNRT--KQLTKYDNGIDQTNLRKEQILDVKIPIISLKEQQRIVTILD 176
Cdd:cd17269    59 VKYyNGKFNAYQRTYVIHP-FKEEIDPKFLYYYLKSYfkKYIEKNSVGSSVPYIRLPMLENFKIPLPPLEEQKRIVRILD 137

                         170       180       190
                  ....*....|....*....|....*....|....*
gi 1800604194 177 KFETLTNSivdgLPKEIELRRKQYEYYREQLLSFP 211
Cdd:cd17269   138 KFDALTAE----LPAELEARKKQYEYYRDALLSFA 168

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR) and similar domains; The restriction-modification (RM) system S subunit generally consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one heteromeric enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This superfamily represents a single TRD-CR unit; in addition to type I TRD-CR units, it includes RMtype1_S_TRD-CR_like domains of various putative Helicobacter type II restriction enzymes and methyltransferases, such as Hci611ORFHP and HfeORF12890P, as well as TRD-CR-like sequence-recognition domains of the M subunit of putative type I DNA methyltransferase such as M2.CinURNWORF2828P and M.Mae7806ORF3969P.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  27 KALGEVCYFRNGKG--HEKNISENGQYIVINSKFISTNGKIAKR--------SEKQISPLFINDILIVMSDlPNGKalak 96
Cdd:cd16961     1 KKLGEIAEIISGKTpsSSSEYWDNGIIPWIRISDINNGGIILTDekiteegaEKLKKKILPKGDILISRSG-TIGK---- 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  97 TFLVDKNNTYTLNQRIggLSIKNKSEILPEFLNFFLN--RTKQLTKYDNGIDQTNLRKEQILDVKIPIISLKEQQRIVTI 174
Cdd:cd16961    76 VAIVKENDKALLNQAV--IVIRPKDEVDSEFLYYFLKspFGKKLIEGSAGSTQPNLNKSDLKNLKIPLPPLEEQKKIANI 153

                         170       180
                  ....*....|....*....|....*
gi 1800604194 175 LDKFETLTNSIVDGLPKEIELRRKQ 199
Cdd:cd16961   154 LDKLDALIELLEQKLEKLEQLKQAL 178

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to Shewanella oneidensis MR-1 S subunit (S.SonII) TRD2-CR2; This model contains Shewanella oneidensis MR-1 S subunit (S.SonII) TRD2-CR2 and similar TRD-CR's. S.SonII recognizes 5'... GTCANNNNNNRTCA ... 3'. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. It may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases. S.SonII TRD1-CR1 does not belong to this subfamily.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  27 KALGEVCY-FRNGKGHEKNISENGqYIVINSKFIsTNGKIAKRSEKQISP-----------LFINDILIVMSDlpngkAL 94
Cdd:cd17246     4 VKLGEISSdITDGTHPTPKYVESG-IPFITSKNI-KNGKIDFSDVKYISEedhneilkrskLKKGDILFSIIG-----TI 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  95 AKTFLVDKNNTYTLNQRIGGLSIkNKSEILPEFLNFFLNR---TKQLTKYDNGIDQTNLRKEQILDVKIPIISLKEQQRI 171
Cdd:cd17246    77 GRVAIVPEDLPANINQAVALIRP-KKEKIDPKYLLYYLNSpiiQKQIEKNAVGGTQKNLSLGDLKNLKIPLPPLEEQKRI 155

                         170       180       190
                  ....*....|....*....|....*....|..
gi 1800604194 172 VTILDKFETLTNSIVDGLPKEIELRRKQYEYY 203
Cdd:cd17246   156 AAILDSLDALIDKLEQKLEKLEDLKKGLMQDL 187

Type I restriction modification DNA specificity domain; This domain is also known as the target recognition domain (TRD). Restriction-modification (R-M) systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one heteromeric enzyme complex composed of one DNA specificity subunit (this family), two modification (M) subunits and two restriction (R) subunits.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  21 NKKVVFKALGEVCYFRNGKGHEKN-ISENGQYIVINSKFisTNGKIAKRSEKQISPLFINDILIVMSDLPNGKALaktfl 99
Cdd:pfam01420   1 PEDWEVFKLGDVFEIKKGKTPKKKeLKNNGKYPYIRAGD--LNNVVKGGLGYIKKYILPKGDITISSRATIGYVF----- 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194 100 vDKNNTYTLNQRIGGLSIKNKSEILPEFLNFFLNRTKQLTKYDNGIDQTNLRKEQILDVKIPIISLKEQQRIVTILDKFE 179
Cdd:pfam01420  74 -YRDKPYYTNQHIIVLIPKNNIKITEFLYLYLLLKLKKLKSLKFGSTQPKLTKERLKEIKIPLPPLEEQKKIAKILSQLD 152

                         170
                  ....*....|....*.
gi 1800604194 180 TlTNSIVDGLPKEIEL 195
Cdd:pfam01420 153 N-TIELEKGILNELER 167

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to Staphylococcus aureus subsp. aureus MSHR1132 S subunit (S.Sau1132ORF3780P) TRD2-CR2; Staphylococcus aureus subsp. aureus MSHR1132 S subunit (S.Sau1132ORF3780P) recognizes 5'... CAAGNNNNNRTC ... 3'. The RM system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. For example S.Sau1132ORF3780P-TRD1 recognizes CAAG/CTTG and S.Sau1132ORF3780P-TRD2 recognizes GAY/RTC. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. It may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  27 KALGEVCYFRNGKG-HEKNISENGQYIVINSkfistNGKIAKRSEKQISPLFIndiLIvmsdlpnGK--ALA-KTFLVDK 102
Cdd:cd17266     1 VKLGELCKIKSGKSiTASKISEEGDYPVYGG-----NGIIGYTDEYNHEGEYI---LI-------GRvgALCgNVHYVEG 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194 103 N-----NTytlnqriggLSIKNKSEILPEFLNFFLnRTKQLTKYDNGIDQTNLRKEQILDVKIPIISLKEQQRIVTILDK 177
Cdd:cd17266    66 KfwvtdNA---------LVVTPKKENNIKFLYYLL-KSLNLNQYATGSAQPLITVSKLKKLKIPLPPLEEQKKIAAILDS 135

                         170       180
                  ....*....|....*....|....
gi 1800604194 178 FETLTNSIVDGLPKEIELRRKQYE 201
Cdd:cd17266   136 LDAKIDLLEKKLEKLIELKKELMQ 159

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to the S subunit TRD2-CR2 regions of Lactococcus lactis subsp. cremoris A17 (S.LlaA17I), Haemophilus influenzae Rd (S.HindORF215P) ; Lactococcus lactis subsp. cremoris A17 S subunit (S.LlaA17I) recognizes 5'... CAANNNNNNNNTAYG... 3', while the recognition sequences of Clostridium species ASF502 S subunit (S.Csp502ORF478P) and Haemophilus influenzae Rd S subunit (S.HindORF215P) are undetermined. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one heteromeric enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. It also includes TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases, such as Porphyromonas species COT-108 OH1349 Type IIG restriction enzyme/N6-adenine DNA methyltransferase (RM.Psp1349ORF730P) of unknown recognition sequence. It may also include type I DNA methyltransferases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194 117 IKNK-SEILPEFLNFFLnrtkQLTKYD--NGIDQTNLRKEQILDVKIPIISLKEQQRIVTILDKFETLTNSIVDGLPKEI 193
Cdd:cd17292    63 LDNDeSKVLNKFLYYFY----QIIKWKktEGSTIKRLYNDNLLNTKIPVPSLDEQRKIAEFLSLLDALIALLQKKLEKLI 138

                          90
                  ....*....|.
gi 1800604194 194 ELRRKQYEYYR 204
Cdd:cd17292   139 ALKKGLMQYLF 149

Type I restriction-modification system specificity (S) subunit TRD-CR, similar to Staphylococcus aureus NCTC 13435 S subunit (S.Sau13435ORF2165P) TRD2-CR2, Escherichia coli E24377A S subunit (S.EcoE24377ORF286P) TRD1-CR1 and Pseudoalteromonas species P1-1; Staphylococcus aureus NCTC 13435 S subunit (S.Sau13435ORF2165P) recognizes 5'... TCTANNNNNNRTTC ... 3', and the recognition sequences of Escherichia coli E24377A S subunit (S.EcoE24377ORF286P) and Pseudoalteromonas species P1-13-1a S subunit (S.Psp1bORF2093P) are undetermined. The restriction-modification (RM) system S subunit generally consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. For example, Staphylococcus aureus NCTC 13435 S subunit (S.Sau13435ORF2165P) TRD1 recognizes TCTA/TAGA, and -TRD2 recognizes GAAY/RTTC. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one heteromeric enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. In addition, this family includes RMtype1_S_TRD-CR_like domains of various putative Helicobacter type II restriction enzymes and methyltransferases, such as Hci611ORFHP and HfeORF12890P.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194 119 NKSEILPEFLNFFLNRT---KQLTKYDNGIDQTNLRKEQILDVKIPIISLKEQQRIVTILDKFETLTNSIVDGLPKEIEL 195
Cdd:cd17521   100 NKKKVLPKYLFYFTQSSlywKQIKSISSGSAQPNINAEKLKSLKIPLPPLEEQKRIVAILDALDAKIDALEELLEKLEEL 179

                  ....*...
gi 1800604194 196 RRKQYEYY 203
Cdd:cd17521   180 LKELLQSL 187

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to Aminobacterium colombiense DSM 12261 S subunit (S.Aco12261I) TRD2-CR2 and Moraxella catarrhalis S subunit (S.Mca353ORF290P) TRD2; Aminobacterium colombiense DSM 12261 S subunit (S.Aco12261I) recognizes 5'... GCANNNNNNTGT ... 3', and Moraxella catarrhalis S subunit (S.Mca353ORF290P) recognizes 5'... CAAGNNNNNNTGT ... 3'. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. It may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194 117 IKNKSEILPEFLNFFLNRTKqLTKYDNG-----IDQTNLRKeqildVKIPIISLKEQQRIVTILDKFETLTNSIVDGLPK 191
Cdd:cd17262    87 LKGKNGISTEFLYYYLNSID-ISPYVTGaaqpkLNQANLNS-----IPIPLPPLEEQKKIVAILDKLDALIDLLEEELEK 160

                          90
                  ....*....|..
gi 1800604194 192 EIELRRKQYEYY 203
Cdd:cd17262   161 LIELKKALLQKL 172

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to Helicobacter pylori SJM180 S subunit (S.Hpy180ORF7835P) TRD2-CR2 and Haemophilus influenzae PittGG S subunit (S.HinGGORF3080P) T; The recognition sequences of Helicobacter pylori SJM180 S subunit (S.Hpy180ORF7835P) and Haemophilus influenzae PittGG S subunit (S.HinGGORF3080P) are undetermined. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one heteromeric enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. It may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194 113 GGLSIKNKSE-ILPEFL-NFFLNRTKQLTKYDN-GIDQTNLRKEQILDVKIPIISLKEQQRIVTILDKFETLTNSIVDGL 189
Cdd:cd17283    90 GWLVFSDLKKkLDKDFLyYLLSSITVQLQFSAQaGGGTKNLNTDIVKNLKIPLPPLEEQKRIAEILDSLDALIDALEEKL 169

                          90
                  ....*....|..
gi 1800604194 190 PKEIELRRKQYE 201
Cdd:cd17283   170 EKLEELKKGLMQ 181

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR),similar to Escherichia coli str. K-12 substr. MG1655 S subunit (S.EcoKI) TRD2-CR2, Salmonella enterica subsp. enterica serovar Potsdam S sub; Escherichia coli str. K-12 substr. MG1655 S subunit (S.EcoKI) recognizes 5'... AACNNNNNNGTGC ... 3' and Salmonella enterica subsp. enterica serovar Potsdam S subunit (S.StySPI) recognizes 5'... AACNNNNNNGTRC ... 3'. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. For example, S.EcoKI-TRD1 and S.StySPI-TRD1 both recognize AAC/GTT, S.EcoKI-TRD2 recognizes GCAC/GTGC and S.StySPI-TRD2 recognizes GYAC/GTRC. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2.It also includes TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases, such as Pseudomonas putida Jo 4-731 Type IIG restriction enzyme/N6-adenine DNA methyltransferase (RM.PpiI), and type I DNA methyltransferases such as Bacillus cereus BDRD-ST24 M subunit of Type I N6-adenine DNA methyltransferase (M.Bce24ORF51270P). RM.PpiI recognizes 5' ... GAACNNNNNCTC ... 3'.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  27 KALGEVCY-FRNGKGHEKNISENGqYIVINSKFISTNGKI-------AKRSEKQISPLF--INDILIVMSdlpNGKA--L 94
Cdd:cd17517     4 VKLGDLLEdPRYGTSKKSSYDGSG-TPVLRIPNIYDGGIDlddlkkrVDLSEKELEKYLlkKGDILFNRS---NGSPelV 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  95 AKTFLVDKNNTYTLnqrIGGLSIK---NKSEILPEFLNFFLN---RTKQLTKYDNG-IDQTNLRKEQILDVKIPIISLKE 167
Cdd:cd17517    80 GKCALVDEEDEPAI---FASYLIRlrlDKKKILPEFLYYYLNsplGRKQIEKIAKSaAGQANINQKDLKKLPIPLPPLEE 156

                         170       180
                  ....*....|....*....|....*...
gi 1800604194 168 QQRIVTILDKFETLTNSIVDGLPKEIEL 195
Cdd:cd17517   157 QKEIVEILESLDSKIDLLEKKLEKLEQL 184

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to Thermoanaerobacter tengcongensis S subunit (S.TteMORF1547P) TRD2-CR2 and Aminobacterium colombiense DSM 12261 S subunit (S.Aco12; The S.Aco12261I S subunit recognizes 5'... GCANNNNNNTGT ... 3', while the recognition sequence is undetermined for S.TteMORF1547P TRD2-CR2. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. S.TteMORF1547P TRD1-CR1 and S.Aco12261I TRD2-CR2 do not belong to this family. This family may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194 112 IG-GL-SIKNKSEILPEFLNFFLNRTK-QLTKYDNGIDQTNLRKEQILDVKIPIISLKEQQRIVTILDKfetltnsiVDg 188
Cdd:cd17245    79 IGrGLaAIRANKDIDNLFLYYYLKYNKpELEKLGTGSTFKAINKKDLEELKIPLPPLEEQQKIAEILST--------VD- 149

                          90
                  ....*....|....*....
gi 1800604194 189 lpKEIELRRKQYEYYREQL 207
Cdd:cd17245   150 --EAIEKTKALIEKLDELK 166

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to Lactococcus lactis S subunit (S.LlaAI06ORF1089P) TRD1-CR1 and Bacillus subtilis B4071 S subunit (S2.BsuCC16ORF609P) TRD2-CR2; The recognition sequences of Lactococcus lactis S subunit (S.LlaAI06ORF1089P) and Bacillus subtilis B4071 S subunit (S2.BsuCC16ORF609P) are undetermined. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one heteromeric enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. It may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194 118 KNKSEILPEFLNFFLNrTKQLTKYDNGIDQTNLRKEQILDVKIPIISLKEQQRIVTILDKFETLTNSIvdGLPKEIELRR 197
Cdd:cd17288    76 EIKKNNDPKFLYYLLK-TIDFKKYNEATGVPSLTQTTLNKIKIPIPPLEEQQKIASILDKLDAKDALI--ELQEKLLEKL 152

                          90
                  ....*....|.
gi 1800604194 198 KQYEYYREQLL 208
Cdd:cd17288   153 KQYKLALMQEL 163

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to TRD2-CR2's of StySKI, S.EcoAI, S.EcoJA17PI, and S.EcoJA23PI; Salmonella kaduna CDC-388 S subunit (StySKI) recognizes 5'... CGATNNNNNNNGTTA ... 3' while Escherichia coli Type-1 restriction enzyme EcoAI specificity protein (S.EcoAI), Escherichia coli UCD_JA17_pb S subunit (S.EcoJA17PI) and Escherichia coli UCD_JA23_pb S subunit (S.EcoJA23PI) recognize 5'... GAGNNNNNNNGTCA ... 3'. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. It may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  76 LFINDILIVM--SDLPNGKALAKtfLVDKNNTYTLNQRIGglSIKNKSEILPEFLNFFLNrTKQLTKY----DNGIDQTN 149
Cdd:cd17259    62 LKEGDIVIALdrPIISGGLKVAR--IPKSDLPALLVQRVA--RIRPKDELNSDFLYYLLQ-SDFFLNYvepvLTGTDVPH 136

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1800604194 150 LRKEQILDVKIPIISLKEQQRIVTILDKFETLtnsivdglpkeIELRRKQYEYYREQLLSFPQ 212
Cdd:cd17259   137 ISTKQIKNFKIPLPPLEEQKKIAEFLSSLDAL-----------IDLLEQKLEKLQQLKKGLMQ 188

Type I restriction-modification system specificity (S) subunit TRD-CR, similar to Escherichia coli UTI89 S subunit (S.EcoUTORF5051P) TRD2-CR2 and Archaeoglobus fulgidus VC-16 S subunit (S.AfuORF1715P) TRD2-CR2; Escherichia coli UTI89 S subunit (S.EcoUTORF5051P) recognizes 5'... CCANNNNNNNCTTC ... 3' and the recognition sequence of Archaeoglobus fulgidus VC-16 S subunit (S.AfuORF1715P) is undetermined. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. It also includes TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases, such as Pseudomonas putida Jo 4-731 Type IIG restriction enzyme/N6-adenine DNA methyltransferase (RM.PpiI), and type I DNA methyltransferases such as Bacillus cereus BDRD-ST24 M subunit of Type I N6-adenine DNA methyltransferase (M.Bce24ORF51270P). RM.PpiI recognizes 5' ... GAACNNNNNCTC ... 3'.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194 119 NKSEILPEFLNFFLN---RTKQLTKY-DNGIDQTNLRKEQILDVKIPIISLKEQQRIVTILDKFETLtnsiVDGLPKEIE 194
Cdd:cd17524   101 NEEKILPEYLNYFLNspyGRKQIKSVaTQGVGQANINATKLKAIPIPLPPLEEQKEIVEKLDELDAL----IDRLEALLE 176

                          90
                  ....*....|...
gi 1800604194 195 LRRKQYEYYREQL 207
Cdd:cd17524   177 EAEELLESLLQSL 189

Type I restriction-modification system specificity (S) subunit TRD-CR, similar to Methanocaldococcus jannaschii DSM 2661 S subunit (S.MjaORF1531P/MjaXIIP) TRD1-CR1; The recognition sequence of Methanocaldococcus jannaschii DSM 2661 S subunit (S.MjaORF1531P, also called MjaXIIP) is undetermined. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one heteromeric enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. It may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  25 VFKALGEVCYF-RNGKGHEKNISENG---------QYIVINSKFISTNGKIAKRSEKQIspLFINDILivMSDLPNGKAL 94
Cdd:cd17522     2 KVVKLGDVLEEiRNGTTVKQNKEGGGypvtrietiSNGTIDLNRVGYAITNEEKIEKYK--LQKGDIL--FSHINSIEHI 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  95 AKTFLVDKNNtYTLNQRIGGLSIK-NKSEILPEFLNFFLNRT---KQLTKYDN------GIDQTNLRKeqildVKIPIIS 164
Cdd:cd17522    78 GKTAIYDGDP-EPLIHGMNLLRLRpNKNIVDPKYLYYLLKSDrfrNQFRSIAKkavnqaSINQTELKK-----IKIPLPP 151

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1800604194 165 LKEQQRIVTILDKFEtltnsivdglpKEIELRRKQYEYYREQL 207
Cdd:cd17522   152 LEEQQKIASILEKLD-----------KKIEKRKEKIEKLKELK 183

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to Escherichia coli O118:H16 07-4255 S subunit (S.Eco4255II) TRD2-CR2 and Shewanella oneidensis MR-1 S subunit (S.SonIV) TRD1-CR1; Escherichia coli O118:H16 07-4255 S subunit (S.Eco4255II) recognizes 5'... TACNNNNNNNRTRTC ... 3 while Shewanella oneidensis MR-1 S subunit (S.SonIV) recognizes 5'... TACNNNNNNGTNGT ... 3'. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. For example, S.SonIV-TRD1 recognizes TAC/GTA and S.SonIV-TRD2 recognizes ACNAC/GTNGT. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. It may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  29 LGEVCYFRNGKG--HEKNISENGQYIVI---------NSKFIST-----NGKIAKRSEKQISPlfINDIL---IVMSDLP 89
Cdd:cd17250     3 LGDVCDFKAGSGfpEKYQGKEDGEYPFYkvgdmnnsgNEKYLSTaenyiSEEIVKELKAKLFP--KGTIIfakIGEAIKL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194  90 NGKALAKT-FLVDKNntytlnqrIGGLsiKNKSEILPEFLNFFLNrTKQLTKYDNGIDQTNLRKEQILDVKIPIISLKEQ 168
Cdd:cd17250    81 NRRAILSKdSCIDNN--------VMGL--IPNEGIDSEYLYYWLK-KVDLYKYSQATTVPSIRKSTLESIPIPLPPLEEQ 149

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1800604194 169 QRIVTILDKFETLTNSIVDglpkEIELRRKQYEYYREQLL 208
Cdd:cd17250   150 KRIAAKLDELFEKLDKLKQ----ALEAAKEQLKGLRQSLL 185

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to Cecembia lonarensis LW9 S subunit (S.CloLW9ORF3270P) TRD1-CR1 and Bacillus licheniformis 9945A S subunit (S.Bli9945ORF10320P) TR; The recognition sequences for Cecembia lonarensis LW9 S subunit (S.CloLW9ORF3270P) and Bacillus licheniformis 9945A S subunit (S.Bli9945ORF10320P) are undetermined. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. This subfamily of TRD-CR's shows similarity to TRD1-CR1 of Aminobacterium colombiense DSM 12261 S subunit (S.Aco12261I), which recognizes 5'... GCANNNNNNTGT ... 3'. This subfamily also includes TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases such as Helicobacter bizzozeronii CIII-1 putative Type IIG restriction enzyme/N6-adenine DNA methyltransferase RM.HbiCORF8670P, and may also contain type I DNA methyltransferases.

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1800604194 112 IG-GL-SIKNKSEILPEFLNFFLN-RTKQLTKYDNGIDQTNLRKEQILDVKIPIISLKEQQRIVTILDKFETL 181
Cdd:cd17499    80 IGrGLaAIRAKKNIDKKYLFYFLLsNKDYFKGKSGGSTFKSINKNQIKNIKIPLPPLEEQKRIVSELDKLFKL 152

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to Thermoanaerobacter tengcongensis S subunit (S.TteMORF1547P) TRD2-CR2; The recognition sequence is undetermined for Thermoanaerobacter tengcongensis S subunit (S.TteMORF1547P). The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This CD contains both TRD1-CR1 and TRD2-CR2. This subfamily of TRD-CR's shows similarity to TRD1-CR1 of Aminobacterium colombiense DSM 12261 S subunit (S.Aco12261I), which recognizes 5'... GCANNNNNNTGT ... 3'. This subfamily may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases. S.TteMORF1547P TRD1-CR1 does not belong to this subfamily.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194 112 IG-GL-SIKNKSEILPEFLNFFL-NRTKQLTKYDNGIDQTNLRKEQILDVKIPIISLKEQQRIVTILDKfETltnSIVDG 188
Cdd:cd17497    79 IGrGLaAIRPKKGLDKKYLLYYLkSIENELSSLGTGSTFKAISKEDLENLLIPLPPLAEQKRIAAFLDE-LT---AKIDQ 154

                          90       100
                  ....*....|....*....|
gi 1800604194 189 LPKEIELRRKQYEYYREQLL 208
Cdd:cd17497   155 LIALLEKAIELLKEYRQAVL 174

Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to Aminobacterium colombiense DSM 12261 S subunit (S.Aco12261I) TRD1-CR1; The S.Aco12261I S subunit recognizes 5'... GCANNNNNNTGT ... 3'. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. This subfamily may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases. S.Aco12261I TRD2-CR2 does not belong to this subfamily.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800604194 112 IGGLSIKNKSEilpEFLNFFL-NRTKQLTKYDNGIDQTNLRKEQILDVKIPIISLKEQQRIVTILDKFETLTNSIVDGLP 190
Cdd:cd17498    83 LCSIRMKNGNN---SFLYYLLkNNIKNLINKSSGTVFGSINKDDIENLEVDIPEDEEQKRIANILSKIDDKIEINNQINK 159

                          90
                  ....*....|....
gi 1800604194 191 KEIELRRKQYEYYR 204
Cdd:cd17498   160 NLEELAQAIFKHWF 173