NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|446356447|ref|WP_000434302|]
View 

MULTISPECIES: site-specific tyrosine recombinase XerD [Salmonella]

Protein Classification

site-specific tyrosine recombinase XerD( domain architecture ID 11478438)

site-specific tyrosine recombinase XerD acts by catalyzing the cutting and rejoining of recombining DNA molecules

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

Name Accession Description Interval E-value
xerD PRK00283
tyrosine recombinase;
1-298 0e+00

tyrosine recombinase;


:

Pssm-ID: 234713 [Multi-domain]  Cd Length: 299  Bit Score: 547.48  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447   1 MEQDLARIEQFLDALWLERNLAENTLSAYRRDLSMVVAWLHHRGKTLATAQADDLQTLLAERVEGGYKATSSARLLSAMR 80
Cdd:PRK00283   2 MMADRALIEQFLDALWVERGLAENTLSSYRRDLELFAEWLAARGLSLAEATRDDLQAFLAELAEGGYKATSSARRLSALR 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  81 RFFQHLYREKYREDDPSAQLASPKLPQRLPKDLSEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDI 160
Cdd:PRK00283  82 RFFQFLLREGLREDDPSALLDSPKLPRRLPKTLSEAQVEALLDAPDIDTPLGLRDRAMLELLYATGLRVSELVGLTLDDV 161
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 161 SLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDSEK 240
Cdd:PRK00283 162 SLRQGVVRVTGKGNKERLVPLGEEAVYAIERYLERGRPALLNGRSSDALFPSARGGQLTRQTFWHRIKHYAKRAGIDPKK 241
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 446356447 241 LSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA 298
Cdd:PRK00283 242 LSPHVLRHAFATHLLNHGADLRVVQELLGHSDISTTQIYTHVATERLKELHAQHHPRA 299
 
Name Accession Description Interval E-value
xerD PRK00283
tyrosine recombinase;
1-298 0e+00

tyrosine recombinase;


Pssm-ID: 234713 [Multi-domain]  Cd Length: 299  Bit Score: 547.48  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447   1 MEQDLARIEQFLDALWLERNLAENTLSAYRRDLSMVVAWLHHRGKTLATAQADDLQTLLAERVEGGYKATSSARLLSAMR 80
Cdd:PRK00283   2 MMADRALIEQFLDALWVERGLAENTLSSYRRDLELFAEWLAARGLSLAEATRDDLQAFLAELAEGGYKATSSARRLSALR 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  81 RFFQHLYREKYREDDPSAQLASPKLPQRLPKDLSEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDI 160
Cdd:PRK00283  82 RFFQFLLREGLREDDPSALLDSPKLPRRLPKTLSEAQVEALLDAPDIDTPLGLRDRAMLELLYATGLRVSELVGLTLDDV 161
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 161 SLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDSEK 240
Cdd:PRK00283 162 SLRQGVVRVTGKGNKERLVPLGEEAVYAIERYLERGRPALLNGRSSDALFPSARGGQLTRQTFWHRIKHYAKRAGIDPKK 241
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 446356447 241 LSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA 298
Cdd:PRK00283 242 LSPHVLRHAFATHLLNHGADLRVVQELLGHSDISTTQIYTHVATERLKELHAQHHPRA 299
recomb_XerD TIGR02225
tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with ...
9-298 3.33e-161

tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with tyrosine active sites that transiently bind covalently to DNA. Many are associated with mobile DNA elements, including phage, transposons, and phase variation loci. This model represents XerD, one of two closely related chromosomal proteins along with XerC (TIGR02224). XerC and XerD are site-specific recombinases which help resolve chromosome dimers to monomers for cell division after DNA replication. In species with a large chromosome and with homologs of XerD on other replicons, the chomosomal copy was preferred for building this model. This model does not detect all XerD, as some apparent XerD examples score below the trusted and noise cutoff scores. XerC and XerD interact with cell division protein FtsK. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 274043 [Multi-domain]  Cd Length: 291  Bit Score: 450.11  E-value: 3.33e-161
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447    9 EQFLDALWLERNLAENTLSAYRRDLSMVVAWLHHRGKTLATAQADDLQTLLAERVEGGYKATSSARLLSAMRRFFQHLYR 88
Cdd:TIGR02225   1 EQFLDYLWVERGLSQNTLEAYRRDLEKFLEFLEERGIDLEEVDRGDIVDFLAELKEAGLSARSIARALSALRSFYRFLLR 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447   89 EKYREDDPSAQLASPKLPQRLPKDLSEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVR 168
Cdd:TIGR02225  81 EGIREDDPSALIEPPKVARKLPKVLTVEEVEALLAAPDVDTPLGLRDRAMLELLYATGLRVSELVGLRLEDVNLDEGFVR 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  169 VIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNG--VSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDsEKLSPHVL 246
Cdd:TIGR02225 161 VRGKGNKERLVPLGEEAIEALERYLKEARPLLLKKkvKESDALFLNRRGGPLSRQGVWKILKEYAKRAGIE-KPISPHTL 239
                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|..
gi 446356447  247 RHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA 298
Cdd:TIGR02225 240 RHSFATHLLENGADLRVVQELLGHADISTTQIYTHVARERLKEVHKKHHPRA 291
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
8-296 5.30e-110

Site-specific recombinase XerD [Replication, recombination and repair];


Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 320.40  E-value: 5.30e-110
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447   8 IEQFLDALWLERNLAENTLSAYRRDLSMVVAWLHHRGK-TLATAQADDLQTLLAERVEGGYKATSSARLLSAMRRFFQHL 86
Cdd:COG4974    7 LEAFLEELKREKGLSPNTIKAYRRDLRRFLRFLEELGKiPLAEITPEDIRAYLNYLRERGLSPSTINRYLAALRSFFRYA 86
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  87 YREKYREDDPSAQLASPKLPQRLPKDLSEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGV 166
Cdd:COG4974   87 VREGLLEDNPAAKVKLPKKPRKLPRVLTEEEIEALLEALDTETPEGLRDRALLLLLYATGLRVSELLGLKWSDIDLDRGT 166
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 167 VRVI-GKGNKERLVPLGEEAVYWLETYLEHGRPwllngVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDsEKLSPHV 245
Cdd:COG4974  167 IRVRrGKGGKERTVPLSPEALEALREYLEERRP-----RDSDYLFPTRRGRPLSRRAIRKILKRLAKRAGIP-KRVTPHS 240
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|.
gi 446356447 246 LRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHP 296
Cdd:COG4974  241 LRHTFATHLLEAGVDLRTVQELLGHSSISTTQIYTHVSDEELREAVEKLHP 291
INT_XerDC_C cd00798
XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in ...
115-287 1.40e-97

XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid inheritance. They share the same fold in their catalytic domain containing six conserved active site residues and the overall reaction mechanism with the DNA breaking-rejoining enzyme superfamily. In Escherichia coli, the Xer site-specific recombination system acts to convert dimeric chromosomes, which are formed by homologous recombination to monomers. Two related recombinases, XerC and XerD, bind cooperatively to a recombination site present in the E. coli chromosome. Each recombinase catalyzes the exchange of one pair of DNA strand in a reaction that proceeds through a Holliday junction intermediate. These enzymes can bridge two different and well-separated DNA sequences called arm- and core-sites. The C-terminal domain binds, cleaves, and re-ligates DNA strands at the core-sites, while the N-terminal domain is largely responsible for high-affinity binding to the arm-type sites.


Pssm-ID: 271179 [Multi-domain]  Cd Length: 172  Bit Score: 284.40  E-value: 1.40e-97
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 115 EAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLE 194
Cdd:cd00798    1 VDEVERLLDAPDTDTPLGLRDRAILELLYASGLRVSELVGLDLSDVDLDEGLVRVTGKGNKERLVPFGSYAVEALEEYLE 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 195 HGRPWLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIdSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLS 274
Cdd:cd00798   81 ERRPLLLKKKPPDALFLNKRGKRLSRRGVWRILKKYAERAGL-PKHVSPHTLRHSFATHLLEGGADLRVVQELLGHASLS 159
                        170
                 ....*....|...
gi 446356447 275 TTQIYTHVATERL 287
Cdd:cd00798  160 TTQIYTHVSFERL 172
Phage_integrase pfam00589
Phage integrase family; Members of this family cleave DNA substrates by a series of staggered ...
113-283 1.41e-64

Phage integrase family; Members of this family cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment. The catalytic site residues in CRE recombinase are Arg-173, His-289, Arg-292 and Tyr-324.


Pssm-ID: 395471 [Multi-domain]  Cd Length: 169  Bit Score: 200.24  E-value: 1.41e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  113 LSEAQVERLLQAPlIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRV-IGKGNKERLVPLGEEAVYWLET 191
Cdd:pfam00589   2 LTEDEVERLLDAA-ETGPLSIRDKALLELLYATGLRISELCSLRWSDIDFENGVIRVhRGKGNKERTVPLSDAALELLKE 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  192 YLEHGrpwLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDsEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHS 271
Cdd:pfam00589  81 WLSKR---LLEAPKSDYLFASKRGKPLSRQTVRKIFKRAGKEAGLE-LPLHPHMLRHSFATHLLEAGVDLRVVQKLLGHS 156
                         170
                  ....*....|..
gi 446356447  272 DLSTTQIYTHVA 283
Cdd:pfam00589 157 SISTTQIYTHVA 168
 
Name Accession Description Interval E-value
xerD PRK00283
tyrosine recombinase;
1-298 0e+00

tyrosine recombinase;


Pssm-ID: 234713 [Multi-domain]  Cd Length: 299  Bit Score: 547.48  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447   1 MEQDLARIEQFLDALWLERNLAENTLSAYRRDLSMVVAWLHHRGKTLATAQADDLQTLLAERVEGGYKATSSARLLSAMR 80
Cdd:PRK00283   2 MMADRALIEQFLDALWVERGLAENTLSSYRRDLELFAEWLAARGLSLAEATRDDLQAFLAELAEGGYKATSSARRLSALR 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  81 RFFQHLYREKYREDDPSAQLASPKLPQRLPKDLSEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDI 160
Cdd:PRK00283  82 RFFQFLLREGLREDDPSALLDSPKLPRRLPKTLSEAQVEALLDAPDIDTPLGLRDRAMLELLYATGLRVSELVGLTLDDV 161
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 161 SLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDSEK 240
Cdd:PRK00283 162 SLRQGVVRVTGKGNKERLVPLGEEAVYAIERYLERGRPALLNGRSSDALFPSARGGQLTRQTFWHRIKHYAKRAGIDPKK 241
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 446356447 241 LSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA 298
Cdd:PRK00283 242 LSPHVLRHAFATHLLNHGADLRVVQELLGHSDISTTQIYTHVATERLKELHAQHHPRA 299
recomb_XerD TIGR02225
tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with ...
9-298 3.33e-161

tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with tyrosine active sites that transiently bind covalently to DNA. Many are associated with mobile DNA elements, including phage, transposons, and phase variation loci. This model represents XerD, one of two closely related chromosomal proteins along with XerC (TIGR02224). XerC and XerD are site-specific recombinases which help resolve chromosome dimers to monomers for cell division after DNA replication. In species with a large chromosome and with homologs of XerD on other replicons, the chomosomal copy was preferred for building this model. This model does not detect all XerD, as some apparent XerD examples score below the trusted and noise cutoff scores. XerC and XerD interact with cell division protein FtsK. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 274043 [Multi-domain]  Cd Length: 291  Bit Score: 450.11  E-value: 3.33e-161
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447    9 EQFLDALWLERNLAENTLSAYRRDLSMVVAWLHHRGKTLATAQADDLQTLLAERVEGGYKATSSARLLSAMRRFFQHLYR 88
Cdd:TIGR02225   1 EQFLDYLWVERGLSQNTLEAYRRDLEKFLEFLEERGIDLEEVDRGDIVDFLAELKEAGLSARSIARALSALRSFYRFLLR 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447   89 EKYREDDPSAQLASPKLPQRLPKDLSEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVR 168
Cdd:TIGR02225  81 EGIREDDPSALIEPPKVARKLPKVLTVEEVEALLAAPDVDTPLGLRDRAMLELLYATGLRVSELVGLRLEDVNLDEGFVR 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  169 VIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNG--VSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDsEKLSPHVL 246
Cdd:TIGR02225 161 VRGKGNKERLVPLGEEAIEALERYLKEARPLLLKKkvKESDALFLNRRGGPLSRQGVWKILKEYAKRAGIE-KPISPHTL 239
                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|..
gi 446356447  247 RHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA 298
Cdd:TIGR02225 240 RHSFATHLLENGADLRVVQELLGHADISTTQIYTHVARERLKEVHKKHHPRA 291
xerC PRK00236
site-specific tyrosine recombinase XerC; Reviewed
1-298 1.20e-119

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234698 [Multi-domain]  Cd Length: 297  Bit Score: 345.22  E-value: 1.20e-119
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447   1 MEQDLARIEQFLDALWLERNLAENTLSAYRRDLSMVVAWLH-HRGKTLATAQADDLQTLLAERVEGGYKATSSARLLSAM 79
Cdd:PRK00236   3 DADLPAALEAFLEYLRVERGLSPHTLRAYRRDLRAFLAFLEeHGISSLQDLDAADLRSFLARRRRQGLSARSLARRLSAL 82
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  80 RRFFQHLYREKYREDDPSAQLASPKLPQRLPKDLSEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSD 159
Cdd:PRK00236  83 RSFYRWLVRRGLLKANPAAGLRAPKIPKRLPKPLDVDQAKRLLDAIDEDDPLALRDRAILELLYGSGLRLSELVGLDIDD 162
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 160 ISLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGvsiDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDSe 239
Cdd:PRK00236 163 LDLASGTLRVLGKGNKERTVPLGRAAREALEAYLALRPLFLPDD---DALFLGARGGRLSPRVVQRRVKKLGKKAGLPS- 238
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 446356447 240 KLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA 298
Cdd:PRK00236 239 HITPHKLRHSFATHLLESGGDLRAVQELLGHASLSTTQIYTHVDFQHLAEVYDAAHPRA 297
recomb_XerC TIGR02224
tyrosine recombinase XerC; The phage integrase family describes a number of recombinases with ...
9-298 4.86e-114

tyrosine recombinase XerC; The phage integrase family describes a number of recombinases with tyrosine active sites that transiently bind covalently to DNA. Many are associated with mobile DNA elements, including phage, transposons, and phase variation loci. This model represents XerC, one of two closely related chromosomal proteins along with XerD (TIGR02225). XerC and XerD are site-specific recombinases which help resolve chromosome dimers to monomers for cell division after DNA replication. In species with a large chromosome and homologs of XerC on other replicons, the chomosomal copy was preferred for building this model. This model does not detect all XerC, as some apparent XerC examples score in the gray zone between trusted (450) and noise (410) cutoffs, along with some XerD examples. XerC and XerD interact with cell division protein FtsK. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 274042 [Multi-domain]  Cd Length: 295  Bit Score: 330.72  E-value: 4.86e-114
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447    9 EQFLDALWLERNLAENTLSAYRRDLSMVVAWLHHRG--KTLATAQADDLQTLLAERVEGGYKATSSARLLSAMRRFFQHL 86
Cdd:TIGR02224   1 EAFLEYLRLERNYSPHTVRAYRRDLEAFLEFLEEEGglASLAEVTAADLRSFLAELHARGLSRRSLARKLSALRSFYRFL 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447   87 YREKYREDDPSAQLASPKLPQRLPKDLSEAQVERLLQAPLIDQ--PLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQ 164
Cdd:TIGR02224  81 LRRGLIDANPAAGVRAPKQPKKLPKFLSEDEMEALLDAPEEDDedWLALRDRAILELLYSSGLRVSELVGLDLSDLDLDF 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  165 GVVRVIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGiDSEKLSPH 244
Cdd:TIGR02224 161 GEVRVRGKGNKERIVPFGPYARDALQAYLEARRSPLLASEGQDALFLNRRGGRLTPRGVQYRLQQLRAKAG-LPKHVHPH 239
                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....
gi 446356447  245 VLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA 298
Cdd:TIGR02224 240 ALRHSFATHLLNNGADLRAVQELLGHASLSTTQIYTHVDFQHLAKVYDQAHPRA 293
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
8-296 5.30e-110

Site-specific recombinase XerD [Replication, recombination and repair];


Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 320.40  E-value: 5.30e-110
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447   8 IEQFLDALWLERNLAENTLSAYRRDLSMVVAWLHHRGK-TLATAQADDLQTLLAERVEGGYKATSSARLLSAMRRFFQHL 86
Cdd:COG4974    7 LEAFLEELKREKGLSPNTIKAYRRDLRRFLRFLEELGKiPLAEITPEDIRAYLNYLRERGLSPSTINRYLAALRSFFRYA 86
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  87 YREKYREDDPSAQLASPKLPQRLPKDLSEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGV 166
Cdd:COG4974   87 VREGLLEDNPAAKVKLPKKPRKLPRVLTEEEIEALLEALDTETPEGLRDRALLLLLYATGLRVSELLGLKWSDIDLDRGT 166
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 167 VRVI-GKGNKERLVPLGEEAVYWLETYLEHGRPwllngVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDsEKLSPHV 245
Cdd:COG4974  167 IRVRrGKGGKERTVPLSPEALEALREYLEERRP-----RDSDYLFPTRRGRPLSRRAIRKILKRLAKRAGIP-KRVTPHS 240
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|.
gi 446356447 246 LRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHP 296
Cdd:COG4974  241 LRHTFATHLLEAGVDLRTVQELLGHSSISTTQIYTHVSDEELREAVEKLHP 291
INT_XerDC_C cd00798
XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in ...
115-287 1.40e-97

XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid inheritance. They share the same fold in their catalytic domain containing six conserved active site residues and the overall reaction mechanism with the DNA breaking-rejoining enzyme superfamily. In Escherichia coli, the Xer site-specific recombination system acts to convert dimeric chromosomes, which are formed by homologous recombination to monomers. Two related recombinases, XerC and XerD, bind cooperatively to a recombination site present in the E. coli chromosome. Each recombinase catalyzes the exchange of one pair of DNA strand in a reaction that proceeds through a Holliday junction intermediate. These enzymes can bridge two different and well-separated DNA sequences called arm- and core-sites. The C-terminal domain binds, cleaves, and re-ligates DNA strands at the core-sites, while the N-terminal domain is largely responsible for high-affinity binding to the arm-type sites.


Pssm-ID: 271179 [Multi-domain]  Cd Length: 172  Bit Score: 284.40  E-value: 1.40e-97
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 115 EAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLE 194
Cdd:cd00798    1 VDEVERLLDAPDTDTPLGLRDRAILELLYASGLRVSELVGLDLSDVDLDEGLVRVTGKGNKERLVPFGSYAVEALEEYLE 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 195 HGRPWLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIdSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLS 274
Cdd:cd00798   81 ERRPLLLKKKPPDALFLNKRGKRLSRRGVWRILKKYAERAGL-PKHVSPHTLRHSFATHLLEGGADLRVVQELLGHASLS 159
                        170
                 ....*....|...
gi 446356447 275 TTQIYTHVATERL 287
Cdd:cd00798  160 TTQIYTHVSFERL 172
XerC COG4973
Site-specific recombinase XerC [Replication, recombination and repair];
8-289 6.69e-83

Site-specific recombinase XerC [Replication, recombination and repair];


Pssm-ID: 443998 [Multi-domain]  Cd Length: 287  Bit Score: 251.42  E-value: 6.69e-83
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447   8 IEQFLDALwLERNLAENTLSAYRRDLSMVVAWLHHRGKTLATAQADDLQTLLAERVEGGYKATSSARLLSAMRRFFQHLY 87
Cdd:COG4973    8 LEAYLEHL-RERRLSPKTLEAYRRDLRRLIPLLGDADLPLEELTPADVRRFLARLHRRGLSPRTLNRRLSALRSFFNWAV 86
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  88 REKYREDDPSAQLASPKLPQRLPKDLSEAQVERLLQAPLiDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVV 167
Cdd:COG4973   87 REGLLEANPAAGVKAPKAPRKLPRALTVDELAQLLDALA-DDPLAVRDRAIVELLYSTGLRLGELVGLDWEDVDLDAGEV 165
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 168 RVIGKGNKERLVPLGEEAVYWLETYLEHgRPWLLNGVSiDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIdSEKLSPHVLR 247
Cdd:COG4973  166 RVRGKTGKSRTVPLGPKALAALREWLAV-RPELAAPDE-GALFPSRRGTRLSPRNVQKRLRRLAKKAGL-PKHVHPHDLR 242
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|..
gi 446356447 248 HAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQ 289
Cdd:COG4973  243 HSFATHLLESGGDLRAVQELLGHASISTTQIYTHLDFQHLAE 284
Phage_integrase pfam00589
Phage integrase family; Members of this family cleave DNA substrates by a series of staggered ...
113-283 1.41e-64

Phage integrase family; Members of this family cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment. The catalytic site residues in CRE recombinase are Arg-173, His-289, Arg-292 and Tyr-324.


Pssm-ID: 395471 [Multi-domain]  Cd Length: 169  Bit Score: 200.24  E-value: 1.41e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  113 LSEAQVERLLQAPlIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRV-IGKGNKERLVPLGEEAVYWLET 191
Cdd:pfam00589   2 LTEDEVERLLDAA-ETGPLSIRDKALLELLYATGLRISELCSLRWSDIDFENGVIRVhRGKGNKERTVPLSDAALELLKE 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  192 YLEHGrpwLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDsEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHS 271
Cdd:pfam00589  81 WLSKR---LLEAPKSDYLFASKRGKPLSRQTVRKIFKRAGKEAGLE-LPLHPHMLRHSFATHLLEAGVDLRVVQKLLGHS 156
                         170
                  ....*....|..
gi 446356447  272 DLSTTQIYTHVA 283
Cdd:pfam00589 157 SISTTQIYTHVA 168
xerC PRK01287
site-specific tyrosine recombinase XerC; Reviewed
9-296 5.26e-64

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234935 [Multi-domain]  Cd Length: 358  Bit Score: 205.37  E-value: 5.26e-64
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447   9 EQFLDALwLERNLAENTLSAYRRDLSMVVAWLHHRGKTlataQADDLQTLLAERVEG---GYKATSSARL--------LS 77
Cdd:PRK01287  26 ERFLAWL-QERNWSERTLKVYTEHLYPFILWCEERGLY----YAADVTLPVLERYQRylyGYRKANGEPLstrtqrtqLS 100
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  78 AMRRFFQHLYREKYREDDPSAQLASPKLPQRLPKD-LSEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLT 156
Cdd:PRK01287 101 PLRVWFRWLLKRHHILYNPAEDLELPKEEKRLPRQiLSEAETEQVLASPDLTTLQGLRDRALLELLWSTGIRRGELARLD 180
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 157 MSDISLRQGVVRVI-GKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAG 235
Cdd:PRK01287 181 LYDVDASRGVVTVRqGKGNKDRVVPVGERALAWLQRYLQDVRPQLAVRPDSGALFVAMDGDGLARNTLTNMVGRYIRAAG 260
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446356447 236 IDsEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHP 296
Cdd:PRK01287 261 IE-KAGACHLFRHAMATQMLENGADTRHIQAILGHAKLETTQIYTRVSIGHLQAVHASTHP 320
INT_IntI_C cd01193
Integron integrase and similar protiens, C-terminal catalytic domain; Integron integrases ...
108-282 1.27e-48

Integron integrase and similar protiens, C-terminal catalytic domain; Integron integrases mediate site-specific DNA recombination between a proximal primary site (attI) and a secondary target site (attC) found within mobile gene cassettes encoding resistance or virulence factors. Unlike other site specific recombinases, the attC sites lack sequence conservation. Integron integrase exhibits broader DNA specificity by recognizing the non-conserved attC sites. The structure shows that DNA target site recognition are not dependent on canonical DNA but on the position of two flipped-out bases that interact in cis and in trans with the integrase. Integron-integrases are present in many natural occurring mobile elements, including transposons and conjugative plasmids. Vibrio, Shewanella, Xanthomonas, and Pseudomonas species harbor chromosomal super-integrons. All integron-integrases carry large inserts unlike the TnpF ermF-like proteins also seen in this group.


Pssm-ID: 271193 [Multi-domain]  Cd Length: 176  Bit Score: 159.75  E-value: 1.27e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 108 RLPKDLSEAQVERLLQAPLidqplELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRV-IGKGNKERLVPLGEEAV 186
Cdd:cd01193    1 KLPVVLSPDEVRRILGALT-----ELRHRLILSLLYGAGLRISELLRLRVKDIDFERGVIRVrQGKGGKDRVVPLPEKLL 75
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 187 YWLETYLEHGRPW------LLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDSEkLSPHVLRHAFATHLLNHGAD 260
Cdd:cd01193   76 EPLRRYLKSARPKeeldpaEGRAGVLDPRTGVERRHHISETTVQRALKKAVEQAGITKR-VTPHTLRHSFATHLLEAGTD 154
                        170       180
                 ....*....|....*....|..
gi 446356447 261 LRVVQMLLGHSDLSTTQIYTHV 282
Cdd:cd01193  155 IRTIQELLGHSDLSTTMIYTHV 176
DNA_BRE_C cd00397
DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme ...
117-280 3.52e-44

DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine based site-specific recombinases (integrases) that share the same fold in their catalytic domain containing conserved active site residues. The best-studied members of this diverse superfamily include Human topoisomerase I, the bacteriophage lambda integrase, the bacteriophage P1 Cre recombinase, the yeast Flp recombinase, and the bacterial XerD/C recombinases. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. The enzymes differ in that topoisomerases cleave and then rejoin the same 5' and 3' termini, whereas a site-specific recombinase transfers a 5' hydroxyl generated by recombinase cleavage to a new 3' phosphate partner located in a different duplex region. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271175 [Multi-domain]  Cd Length: 167  Bit Score: 148.01  E-value: 3.52e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 117 QVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVIGKG---NKERLVPLGEEAVYWLETYL 193
Cdd:cd00397    1 ELEKLLDAIDEDKKIDLRDRAILLLLLETGLRISELLALKVKDIDLDNGTIRVRGKKtkgGKERTVPLPKELAEELKEYL 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 194 EH---GRPWLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIdseKLSPHVLRHAFATHLLNHGADLRVVQMLLGH 270
Cdd:cd00397   81 KErrdKRGPLLKSLYLNKLFGTKLGERLSRRTLRRIFKKAGIEAGR---KITPHSLRHTFATNLLENGVDIKVVQKLLGH 157
                        170
                 ....*....|
gi 446356447 271 SDLSTTQIYT 280
Cdd:cd00397  158 SSISTTQRYL 167
INT_RitC_C_like cd01182
C-terminal catalytic domain of recombinase RitC, a component of the recombinase trio; ...
113-289 2.72e-40

C-terminal catalytic domain of recombinase RitC, a component of the recombinase trio; Recombinases belonging to the RitA (also known as pAE1 due to its presence in the deletion prone region of plasmid pAE1 of Alcaligenes eutrophus H1), RitB, and RitC families are associated in a complex referred to as a Recombinase in Trio (RIT) element. These RIT elements consist of three adjacent and unidirectional overlapping genes, one from each family (ritABC in order of transcription). All three integrases contain a catalytic motif, suggesting that they are all active enzymes. However, their specific roles are not yet fully understood. All three families belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism.


Pssm-ID: 271183 [Multi-domain]  Cd Length: 186  Bit Score: 138.56  E-value: 2.72e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 113 LSEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISL-RQGVVRVIGKGNKERLVPLGEEAVYWLET 191
Cdd:cd01182    1 LTREEMKALLAAPDRNTSLGRRDHALLLLLYDTGARVQELADLTIRDLRLdDPATVRLHGKGRKERTVPLWKETVAALKA 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 192 YLE--HGRPWLLNGVsidVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDSE----KLSPHVLRHAFATHLLNHGADLRVVQ 265
Cdd:cd01182   81 YLQefHLTPDPKQLF---PLFPNRRGQPLTRDGVAYILNKYVALASNRCPslpkRITPHTLRHTKAMHLLQAGVDLTVIR 157
                        170       180
                 ....*....|....*....|....
gi 446356447 266 MLLGHSDLSTTQIYTHVATERLRQ 289
Cdd:cd01182  158 DWLGHESVETTQIYAEADLEMKRE 181
INT_RitA_C_like cd01188
C-terminal catalytic domain of recombinase RitA, a component of the recombinase trio; ...
114-290 1.80e-38

C-terminal catalytic domain of recombinase RitA, a component of the recombinase trio; Recombinases RitA (also known as pAE1), RitB, and RitC are encoded by three adjacent and overlapping genes. Collectively they are known as the Recombinase in Trio (RIT). This RitA family includes various bacterial integrases and integrases from the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus H1. All three integrases contain a catalytic motif, suggesting that they are all active enzymes. However, their specific roles are not fully understood. All three families belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271188 [Multi-domain]  Cd Length: 179  Bit Score: 133.91  E-value: 1.80e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 114 SEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVIG-KGNKERLVPLGEEAVYWLETY 192
Cdd:cd01188    1 SPDEVRRLLAAIDRLTPVGLRDYAILLLLARLGLRAGDVAGLRLDDIDWRSGTITVRQkKTGRPVELPLTEPVGEALADY 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 193 LEHGRPWLlngvSIDVLFPSQRA--QQMTRQ-TFWHRIKHYAVLAGIDSEKLSPHVLRHAFATHLLNHGADLRVVQMLLG 269
Cdd:cd01188   81 LRDGRPRT----DSREVFLRARApyRPLSSTsQISSIVRRYLRKAGIEPSHRGTHSLRHSLATRMLRAGTSLKVIADLLG 156
                        170       180
                 ....*....|....*....|.
gi 446356447 270 HSDLSTTQIYTHVATERLRQL 290
Cdd:cd01188  157 HRSIETTAIYAKIDVDDLREV 177
integrase_gron TIGR02249
integron integrase; Members of this family are integrases associated with integrons (and ...
103-282 8.47e-29

integron integrase; Members of this family are integrases associated with integrons (and super-integrons), which are systems for incorporating and expressing cassettes of laterally transferred DNA. Incorporation occurs at an attI site. A super-integron, as in Vibrio sp., may include over 100 cassettes. This family belongs to the phage integrase family (pfam00589) that also includes recombinases XerC (TIGR02224) and XerD (TIGR02225), which are bacterial housekeeping proteins. Within this family of integron integrases, some are designated by class, e.g. IntI4, a class 4 integron integrase from Vibrio cholerae N16961. [DNA metabolism, DNA replication, recombination, and repair, Mobile and extrachromosomal element functions, Other]


Pssm-ID: 131303 [Multi-domain]  Cd Length: 315  Bit Score: 112.10  E-value: 8.47e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  103 PKLPQRLPKDLSEAQVERLLQAplidqpLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRV-IGKGNKERLVPL 181
Cdd:TIGR02249  92 AKRPRKLPVVLTREEVRRLLEH------LEGKYRLIAKLLYGSGMRLMECLRLRIQDIDFDYGEIRIrQGKGGKDRTVTL 165
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  182 GEEAVYWLETYLEHGRPWLLN-------GVSI-----------------DVLFPS-----------QRAQQMTRQTFWHR 226
Cdd:TIGR02249 166 PKELIPPLREQIELARAYHEAdlaegygGVYLphalarkypnapkewgwQYLFPShrlsrdpesgvIRRHHINETTIQRA 245
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 446356447  227 IKHYAVLAGIDsEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHV 282
Cdd:TIGR02249 246 VRRAVERAGIE-KPVTCHTLRHSFATHLLESGADIRTVQELLGHSDVKTTQIYTHV 300
INT_C_like_4 cd01194
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
113-281 6.39e-27

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271194 [Multi-domain]  Cd Length: 174  Bit Score: 103.61  E-value: 6.39e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 113 LSEAQVERLLQAPLIDQPLE-LRDKAMLEVLYATGLRVSELVGLTMSDISLRQG--VVRVIGKG--NKERLVPLGEEAVY 187
Cdd:cd01194    1 LTLEQARQLLASLPIDDSIIgLRDRAIISLMVTEGLRTVEIVRADVGDLRQEGEgtILYVQGKGktSKDDFVYLRPDVLK 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 188 WLETYLEhGRPWLLNGvsiDVLFPS----QRAQQMTRQTFWHRIKHYAVLAGIDSEKLSPHVLRHAFATHLLNHGADLRV 263
Cdd:cd01194   81 ALQAYLK-ARGKLDFE---EPLFTSlsnnSKGQRLTTRSIRRIIKKYLRKAGLDDDRLTAHSLRHTAGTLALKAGKSLRE 156
                        170
                 ....*....|....*...
gi 446356447 264 VQMLLGHSDLSTTQIYTH 281
Cdd:cd01194  157 VQQLLRHSDPNTTMIYAH 174
xerS PRK05084
site-specific tyrosine recombinase XerS; Reviewed
134-282 4.00e-26

site-specific tyrosine recombinase XerS; Reviewed


Pssm-ID: 235339 [Multi-domain]  Cd Length: 357  Bit Score: 105.77  E-value: 4.00e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 134 RDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGVSIDVLF--- 210
Cdd:PRK05084 196 RDLAIIALILGSGLRVSELVNLDLSDLNLKQMTIDVTRKGGKRDSVNIAPFALPYLEEYLKIRASRYKAEKQEKALFltk 275
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446356447 211 PSQRAQQMTRQTFWHRIKHYAVLAGIdseKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHV 282
Cdd:PRK05084 276 YRGKPNRISARAIEKMVAKYSEAFGV---RLTPHKLRHTLATRLYDATKDQVLVADQLGHTSTETTDLYTHI 344
INT_Rci_Hp1_C cd00796
Shufflon-specific DNA recombinase Rci and Bacteriophage Hp1_like integrase, C-terminal ...
113-281 6.52e-26

Shufflon-specific DNA recombinase Rci and Bacteriophage Hp1_like integrase, C-terminal catalytic domain; Rci protein is a tyrosine recombinase specifically involved in Shufflon type of DNA rearrangement in bacteria. The shufflon of plasmid R64 consists of four invertible DNA segments which are separated and flanked by seven 19-bp repeat sequences. RCI recombinase facilitates the site-specific recombination between any inverted repeats results in an inversion of the DNA segment(s) either independently or in groups. HP1 integrase promotes site-specific recombination of the HP1 genome into that of Haemophilus influenza. Bacteriophage Hp1_like integrases are tyrosine based site specific recombinases. They belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271177 [Multi-domain]  Cd Length: 162  Bit Score: 100.48  E-value: 6.52e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 113 LSEAQVERLLQAplIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVR-VIGKGNKERLVPLGEEAVYWLET 191
Cdd:cd00796    5 LTEDEEARLLAA--LEESTNPHLRLIVLLALYTGARRGEILSLRWDDIDLEVGLIVlPETKNGKPRTVPLSDEAIAILKE 82
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 192 YLEHGRPWLLNGVSIDvlfpsQRAQQMTRQTFWHRIKHyavLAGIdsEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHS 271
Cdd:cd00796   83 LKRKRGKDGFFVDGRF-----FGIPIASLRRAFKKARK---RAGL--EDLRFHDLRHTFASRLVQAGVPIKTVAKILGHS 152
                        170
                 ....*....|
gi 446356447 272 DLSTTQIYTH 281
Cdd:cd00796  153 SIKMTMRYAH 162
INTN1_C_like cd01185
Integrase IntN1 of Bacteroides mobilizable transposon NBU1 and similar proteins, C-terminal ...
118-287 1.67e-25

Integrase IntN1 of Bacteroides mobilizable transposon NBU1 and similar proteins, C-terminal catalytic domain; IntN1 is a tyrosine recombinase for the integration and excision of Bacteroides mobilizable transposon NBU1 from the host chromosome. IntN1 does not require strict homology between the recombining sites seen with other tyrosine recombinases. This family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271185 [Multi-domain]  Cd Length: 161  Bit Score: 99.26  E-value: 1.67e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 118 VERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVIG---KGNKERLVPLGEEAVYWLETYLE 194
Cdd:cd01185    3 LKRLMALELSDTSRLELVRDMFLFSCYTGLRFSDLKNLTWKNIVEASGRTWIRYrrkKTGKPVTVPLLPVAREILEKYKD 82
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 195 HGRPwllngvsiDVLFPsqraqQMTRQTFWHRIKHYAVLAGIDsEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLS 274
Cdd:cd01185   83 DRSE--------GKLFP-----VLSNQKINRYLKEIAKIAGID-KHLTFHVARHTFATLLLLKGVDIETISKLLGHSSIK 148
                        170
                 ....*....|...
gi 446356447 275 TTQIYTHVATERL 287
Cdd:cd01185  149 TTQIYAKIVDSKK 161
Phage_int_SAM_1 pfam02899
Phage integrase, N-terminal SAM-like domain;
8-90 1.44e-24

Phage integrase, N-terminal SAM-like domain;


Pssm-ID: 427047 [Multi-domain]  Cd Length: 83  Bit Score: 94.25  E-value: 1.44e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447    8 IEQFLDALWLERNLAENTLSAYRRDLSMVVAWLHHRGKTLATAQADDLQTLLAERVEGGYKATSSARLLSAMRRFFQHLY 87
Cdd:pfam02899   1 IDQFLEYLSLERGLSPHTLRAYRRDLLAFLKFLSEGGSSLEQITTSDVRAFLAELRAQGLSASSLARRLSALRSFYQFLI 80

                  ...
gi 446356447   88 REK 90
Cdd:pfam02899  81 REG 83
INT_FimBE_like cd01197
FimB and FimE and related proteins, integrase/recombinases; This CD includes proteins similar ...
111-290 2.70e-24

FimB and FimE and related proteins, integrase/recombinases; This CD includes proteins similar to E.coli FimE and FimB and Proteus mirabilis MrpI. FimB and FimE are the regulatory proteins during expression of type 1 fimbriae in Escherichia coli. The fimB and fimE proteins direct the phase switch into the 'on' and 'off' position. MrpI is the regulatory protein of proteus mirabilis fimbriae expression. This family belongs to the integrase/recombinase superfamily.


Pssm-ID: 271197 [Multi-domain]  Cd Length: 181  Bit Score: 96.81  E-value: 2.70e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 111 KDLSEAQVERLLQAPLIDQPLElRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVIG-KGNKERLVPLGEEAVYWL 189
Cdd:cd01197    5 KYLTGKEVQALLQAACRGRTPA-RDYCLLLLAFRHGFRVSELCDLHLSDVDLESRRLHIRRlKNGFSTTHPLRFDEREAL 83
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 190 ETYLEHGRPWllNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDSEKlSPHVLRHAFATHLLNHGADLRVVQMLLG 269
Cdd:cd01197   84 EAWLKERANW--KGADTDWIFLSRRGGPLSRQQAYRIIRDLGKEAGTVTQT-HPHMLRHACGYALADRGADTRLIQDYLG 160
                        170       180
                 ....*....|....*....|.
gi 446356447 270 HSDLSTTQIYTHVATERLRQL 290
Cdd:cd01197  161 HRNIRHTVIYTASNAARFANL 181
FimB COG0582
Integrase/recombinase, includes phage integrase [Replication, recombination and repair, ...
16-281 3.15e-23

Integrase/recombinase, includes phage integrase [Replication, recombination and repair, Mobilome: prophages, transposons];


Pssm-ID: 440347 [Multi-domain]  Cd Length: 391  Bit Score: 98.19  E-value: 3.15e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  16 WLERNLAENTLSAYRRDLSM----VVAWLHHRgkTLATAQADDLQTLLaERVEGGYKATSSARLLSAMRRFFQHLYREKY 91
Cdd:COG0582  106 WLEEKKPEWKEKTAAQVRRTlekhIFPVLGDR--PIAEITPPDLLAVL-RPIEARGAPETARRVRQRLRQVFRYAVARGL 182
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  92 REDDPSAQLASPKLPQRLPKD--LSEAQVERLLQApLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRV 169
Cdd:COG0582  183 IERNPAADLKGALPKPKVKHHpaLTPEELPELLRA-LDAYRGSPVTRLALRLLLLTGVRPGELRGARWSEIDLEAALWTI 261
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 170 IG---KGNKERLVPLGEEAVYWLETYLEhgrpwlLNGVSiDVLFPSQRAQQ--MTRQTFwhrikhYAVLAGIDSEKLSPH 244
Cdd:COG0582  262 PAermKTRRPHIVPLSRQALEILKELKP------LTGDS-EYVFPSRRGPKkpMSENTL------NKALRRMGYGRFTPH 328
                        250       260       270
                 ....*....|....*....|....*....|....*...
gi 446356447 245 VLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQ-IYTH 281
Cdd:COG0582  329 GFRHTASTLLNEAGFPPDVIERQLAHKDGNKVRaAYNR 366
INT_ICEBs1_C_like cd01189
C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons; ...
115-281 7.92e-22

C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons; This family of tyrosine based site-specific integrases is has origins in bacterial phages and conjugate transposons. One member is the integrase from Bacillus subtilis conjugative transposon ICEBs1. ICEBs1 can be excised and transfered to various recipients in response to DNA damage or high concentrations of potential mating partners. The family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271189 [Multi-domain]  Cd Length: 147  Bit Score: 89.16  E-value: 7.92e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 115 EAQVERLLQApliDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVigkgnKERLVPLGEEAVYWLETYle 194
Cdd:cd01189    1 PEELKKLLEA---LKKRGDRYYLLFLLALLTGLRRGELLALTWSDIDFENGTIRI-----NRTLVRKKKGGYVIKPPK-- 70
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 195 hgrpwllNGVSIDVLFPSQRAQQMTRQtfWHRIKHYAVLAGIDseKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLS 274
Cdd:cd01189   71 -------TKSSIRTIPLPDELIELLKE--LKAFKKLLKKAGLP--RITPHDLRHTFASLLLEAGVPLKVIAERLGHSDIS 139

                 ....*...
gi 446356447 275 TT-QIYTH 281
Cdd:cd01189  140 TTlDVYAH 147
PRK15417 PRK15417
integron integrase;
99-283 4.10e-20

integron integrase;


Pssm-ID: 185315 [Multi-domain]  Cd Length: 337  Bit Score: 88.56  E-value: 4.10e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  99 QLASPKLPQRLPKDLSEAQVERLLQAplidqpLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVI-GKGNKER 177
Cdd:PRK15417 103 EIGRPRPSRRLPVVLTPDEVVRILGF------LEGEHRLFAQLLYGTGMRISEGLQLRVKDLDFDHGTIIVReGKGSKDR 176
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 178 LVPLGEEAVYWLETYLEHGRPWLL-------NGVSI-DVL---FPSQ------------------------RAQQMTRQT 222
Cdd:PRK15417 177 ALMLPESLAPSLREQLSRARAWWLkdqaegrSGVALpDALerkYPRAghswpwfwvfaqhthstdprsgvvRRHHMYDQT 256
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446356447 223 FWHRIKHYAVLAGIdSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVA 283
Cdd:PRK15417 257 FQRAFKRAVEQAGI-TKPATPHTLRHSFATALLRSGYDIRTVQDLLGHSDVSTTMIYTHVL 316
INT_C_like_5 cd01195
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
114-281 4.24e-20

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271195 [Multi-domain]  Cd Length: 170  Bit Score: 85.22  E-value: 4.24e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 114 SEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVIGKGNKER-LVPLGEEAVYWLETY 192
Cdd:cd01195    1 SREEARQRLDAADRHTAKGKRDEALVRLLLDNALRRSEAVALDVEDLEKEHRRLRILGKGKKQReVVTLPPTTREALAAW 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 193 LEHGRPwlLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDsEKLSPHVLRHAFATHLLNHGADL-RVVQMLLGHS 271
Cdd:cd01195   81 LAARGE--AEGPLFVSLDRASRGRRLSPQAVYRIVRRLAERIGLG-KRLSPHGLRHSAITLALDAGAGLiRKVQDFSRHA 157
                        170
                 ....*....|
gi 446356447 272 DLSTTQIYTH 281
Cdd:cd01195  158 DLRTLQVYDD 167
INT_RitB_C_like cd00797
C-terminal catalytic domain of recombinase RitB, a component of the recombinase trio; ...
113-289 5.82e-20

C-terminal catalytic domain of recombinase RitB, a component of the recombinase trio; Recombinases belonging to the RitA (also known as pAE1 due to its presence in the deletion prone region of plasmid pAE1 of Alcaligenes eutrophus H1), RitB, and RitC families are associated in a complex referred to as a Recombinase in Trio (RIT) element. These RIT elements consist of three adjacent and unidirectional overlapping genes, one from each family (ritABC in order of transcription). All three integrases contain a catalytic motif, suggesting that they are all active enzymes. However, their specific roles are not yet fully understood. All three families belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism.


Pssm-ID: 271178 [Multi-domain]  Cd Length: 198  Bit Score: 85.44  E-value: 5.82e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 113 LSEAQVERLLQAPLIDQPL-ELRDKAMLEV---LYATGLRVSELVGLTMSDISLRQGVVRV-IGKGNKERLVPLGEEAVY 187
Cdd:cd00797    1 YTDAEIRRLLAAADQLPPEsPLRPLTYATLfglLYATGLRVGEALRLRLEDVDLDSGILTIrQTKFGKSRLVPLHPSTVG 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 188 WLETYLeHGRPWLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGI----DSEKLSPHVLRHAFATHLLNH----GA 259
Cdd:cd00797   81 ALRDYL-ARRDRLLPSPSSSYFFVSQQGGRLTGGGVYRVFRRLLRRIGLrgagDGRGPRLHDLRHTFAVNRLTRwyreGA 159
                        170       180       190
                 ....*....|....*....|....*....|....
gi 446356447 260 D----LRVVQMLLGHSDLSTTQIYTHVATERLRQ 289
Cdd:cd00797  160 DverkLPVLSTYLGHVNVTDTYWYLTATPELMEL 193
int PHA02601
integrase; Provisional
4-289 3.15e-15

integrase; Provisional


Pssm-ID: 222904 [Multi-domain]  Cd Length: 333  Bit Score: 74.76  E-value: 3.15e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447   4 DLARIEQFLDALWlerNLAENTLSAYRRDLSMVVAWLHHRGKTLATA-QADDLQTLLAERVEGGYKATSSA--------- 73
Cdd:PHA02601  57 DRRRLSELLQIWW---DLHGQTLEDGKARLAKLLILCKGLGDPIASEfTAKDFADYRARRLSGEFKVNKGRpikpatvnr 133
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  74 --RLLSAMrrfFQHLYR-EKYREDDPSAQLASPKLPQRLPKDLSEAQVERLLQAPLIDQPLELRDKAMLevLYATGLRVS 150
Cdd:PHA02601 134 elAYLSAV---FNELIKlGKWSGPNPLDGIRPFKEAEPELAFLTKEEIERLLDACDGSRSPDLGLIAKI--CLATGARWS 208
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 151 ELVGLTMSDISLRQgVVRVIGKGNKERLVPLGEeavyWLETYLEHGRpwllngvsiDVLFPSqraqqmTRQTFWHRIKhy 230
Cdd:PHA02601 209 EAETLKRSQISPYK-ITFVKTKGKKNRTVPISE----ELYKMLPKRR---------GRLFKD------AYESFERAVK-- 266
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 231 avLAGID-SEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQ 289
Cdd:PHA02601 267 --RAGIDlPEGQATHVLRHTFASHFMMNGGNILVLQRILGHATIEMTMAYAHFAPDHLED 324
INT_Cre_C cd00799
C-terminal catalytic domain of Cre recombinase (also called integrase); Cre-like recombinases ...
118-294 1.97e-14

C-terminal catalytic domain of Cre recombinase (also called integrase); Cre-like recombinases are tyrosine based site specific recombinases. They belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre recombinase maintains the circular phage replicon in a monomeric state by catalyzing a site-specific recombination between two loxP sites. The catalytic core domain of Cre recombinase is linked to a more divergent helical N-terminal domain, which interacts primarily with the DNA major groove proximal to the crossover region.


Pssm-ID: 271180  Cd Length: 188  Bit Score: 70.02  E-value: 1.97e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 118 VERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDIS--LRQGVVRVIG--KGN---KERLVPLGEEAVY--- 187
Cdd:cd00799    1 LKAMLATLDDTTLRGLRDRALLLLGFAGALRRSELVALRVEDLTrfVDGGLLIRLRrsKTDqdgEGEIKALPYGPETcpv 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 188 -----WLETYLEHGRPwllngvsidvLFPSQRAQQMTRQTFWHR------IKHYAVLAGIDSEKLSPHVLRHAFATHLLN 256
Cdd:cd00799   81 ralraWLEAAGIPSGP----------LFRRIRRGGSVGTTRLSDrsvariVKRRAALAGLDPGDFSGHSLRRGFATEAAR 150
                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 446356447 257 HGADLRVVQMLLGHSDLSTTQIYThvateRLRQLHQQH 294
Cdd:cd00799  151 AGASLPEIMAQGGHKSVATVMRYI-----READRFKDN 183
INT_tnpA_C_Tn554 cd01186
Putative Transposase A from transposon Tn554, C-terminal catalytic domain; This family ...
126-290 7.07e-14

Putative Transposase A from transposon Tn554, C-terminal catalytic domain; This family includes putative Transposase A from transposon Tn554. It belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271186 [Multi-domain]  Cd Length: 184  Bit Score: 68.60  E-value: 7.07e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 126 LIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVIGKGN----------KERLVPLGEEAVYWLETYL-- 193
Cdd:cd01186   10 LINACNNLRDKFLLALLYETGLRIGEALGLRIEDIDMADNQIELVPREDntnearaksmRERRIPVSQDLIDLYADYLty 89
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 194 EHGRPWLLNG-VSIDVLFPSQrAQQMTRQTFWHRIKHYAVLAGIDsekLSPHVLRHAFATHLLNHGADLRVVQMLLGHSD 272
Cdd:cd01186   90 IYCEEAEFSItVFVNVKGGNQ-GKAMNYSDVYDLVRRLKKRTGID---FTPHMFRHTHATALIRAGWSIEVVARRLGHAH 165
                        170
                 ....*....|....*....
gi 446356447 273 LSTT-QIYTHVATERLRQL 290
Cdd:cd01186  166 VQTTlNTYGHLSEEDIRRE 184
INT_P4_C cd00801
Bacteriophage P4 integrase, C-terminal catalytic domain; P4-like integrases are found in ...
114-272 7.13e-13

Bacteriophage P4 integrase, C-terminal catalytic domain; P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. The P4 integrase mediates integrative and excisive site-specific recombination between two sites, called attachment sites, located on the phage genome and the bacterial chromosome. The phage attachment site is often found adjacent to the integrase gene, while the host attachment sites are typically situated near tRNA genes. This family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271182 [Multi-domain]  Cd Length: 180  Bit Score: 65.75  E-value: 7.13e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 114 SEAQVERLLQApLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVIG---KGNKERLVPLGEEAVYWLE 190
Cdd:cd00801    1 SPDELPELWRA-LDTANLSPPTKLALRLLLLTGQRIGELARARWSEIDLEEKTWTIPAertKNKRPHRVPLSDQALEILE 79
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 191 TYLEHGRPWLLngvsidvLFPSQR--AQQMTRQTFWHRIKHYAVlagiDSEKLSPHVLRHAFATHLLNHGADLRVVQMLL 268
Cdd:cd00801   80 ELKEFTGDSGY-------LFPSRRkkKKPISENTINKALKRLGY----KGKEFTPHDLRRTFSTLLNELGIDPEVIERLL 148

                 ....
gi 446356447 269 GHSD 272
Cdd:cd00801  149 NHVL 152
PRK09870 PRK09870
tyrosine recombinase; Provisional
113-280 7.59e-13

tyrosine recombinase; Provisional


Pssm-ID: 182125  Cd Length: 200  Bit Score: 66.12  E-value: 7.59e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 113 LSEAQVERLLQAPLIDqPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRV--IGKGNKERLvPLGEEAVYWLE 190
Cdd:PRK09870  13 LTHSEIESLLKAANTG-PHAARNYCLTLLCFIHGFRASEICRLRISDIDLKAKCIYIhrLKKGFSTTH-PLLNKEIQALK 90
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 191 TYLEHGRPWllNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDSEkLSPHVLRHAFATHLLNHGADLRVVQMLLGH 270
Cdd:PRK09870  91 NWLSIRTSY--PHAESEWVFLSRKGNPLSRQQFYHIISTSGGNAGLSLE-IHPHMLRHSCGFALANMGIDTRLIQDYLGH 167
                        170
                 ....*....|
gi 446356447 271 SDLSTTQIYT 280
Cdd:PRK09870 168 RNIRHTVWYT 177
INT_C_like_6 cd01196
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
117-279 1.21e-11

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271196  Cd Length: 183  Bit Score: 62.11  E-value: 1.21e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 117 QVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISL--RQGVVRVIGKGNKERLVPLGEEAVYWLETYLE 194
Cdd:cd01196    4 EARRLLESIDSTHPVGLRDRALIALMVYSFARIGAVLAMRVEDVYDqgRRLWVRLAEKGGKQHEMPCHHDLEEYLRAYLE 83
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 195 HGRPWLLNGVSidvLFPSQRAQQ-------MTRQTFWHRIKHYAVLAGIDSeKLSPHVLRHAFATHLLNHGADLRVVQML 267
Cdd:cd01196   84 AAEIEEDPKGP---LFRTTRGGTrklthnpLTQANAYRMVRRRAIAADIPT-AIGNHSFRATGITAYLKNGGTLEDAQNM 159
                        170
                 ....*....|..
gi 446356447 268 LGHSDLSTTQIY 279
Cdd:cd01196  160 ANHASTRTTQLY 171
INT_C_like_3 cd01192
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
134-279 1.58e-11

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271192 [Multi-domain]  Cd Length: 178  Bit Score: 61.92  E-value: 1.58e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 134 RDKAMLEVLYATGLRVSELVGLTMSDISLRQgVVRVI-GKGNKERLVPLGEEAVYWLETYLE--HGRPWLlngvSIDVLF 210
Cdd:cd01192   25 RNYLLFIVGINTGLRISDLLSLKVEDVTNKD-KLSIKeQKTGKQKTFPLNPTLVKALKEYIDdlDLKRND----YLFKSL 99
                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446356447 211 PSQRAQQMTRQTFWHRIKHYAVLAGIdSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIY 279
Cdd:cd01192  100 KQGPEKPISRKQAYKILKKAADDLGL-NYNIGTHSLRKTFGYHVYKQGKDIELLMKLLNHSSPSITLRY 167
PRK09871 PRK09871
tyrosine recombinase; Provisional
113-296 5.38e-11

tyrosine recombinase; Provisional


Pssm-ID: 182126  Cd Length: 198  Bit Score: 60.77  E-value: 5.38e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 113 LSEAQVERLLQAPLIDQPLElRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVIGKGNKERLV-PLGEEAVYWLET 191
Cdd:PRK09871   7 LTGKEVQAMMQAVCYGATGA-RDYCLILLAYRHGMRISELLDLHYQDLDLNEGRINIRRLKNGFSTVhPLRFDEREAVER 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 192 YLEHGRPWLlNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIdSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHS 271
Cdd:PRK09871  86 WTQERANWK-GADRTDAIFISRRGSRLSRQQAYRIIRDAGIEAGT-VTQTHPHMLRHACGYELAERGADTRLIQDYLGHR 163
                        170       180
                 ....*....|....*....|....*
gi 446356447 272 DLSTTQIYTHVATERLRQLHQQHHP 296
Cdd:PRK09871 164 NIRHTVRYTASNAARFAGLWERNNL 188
xerD PRK02436
site-specific tyrosine recombinase XerD;
7-269 3.08e-10

site-specific tyrosine recombinase XerD;


Pssm-ID: 235038 [Multi-domain]  Cd Length: 245  Bit Score: 59.23  E-value: 3.08e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447   7 RIEQFLDalwlERNLAENTLSAYRRDLSMVVAWLHHR--GKTLATAQAdDLQTLlaerveggyKATSSARLLSAMRRFFQ 84
Cdd:PRK02436   4 YIEPFLA----SKQLSENSQKSYRYDLQQFLQLVGERvsQEKLKLYQQ-SLANL---------KPSAQKRKISAVNQFLY 69
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447  85 HLYREKYRE------DDPSAQLASPKLPQRLpkDLSEAQVE------RLLqAPLIdqpLELrdkamlevlyatGLRVSEL 152
Cdd:PRK02436  70 FLYQKGELDsffklkETAKLPESKKEKLEIL--DLSSFYQEtpfpegQLI-ALLI---LEL------------GLTPSEI 131
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 153 VGLTMSDISLRQGVVRvIGKGNKERLVPLGEEavywLETYLEHgrpwLLNGVSidvLFpSQRAQQMTRQTFWHRIKHYav 232
Cdd:PRK02436 132 AGLKVADIDLDFQVLT-IEKAGGKRVLTLPEA----LLPFLEA----ILNQTY---LF-EHKGKPYSRQWFFNQLKSF-- 196
                        250       260       270
                 ....*....|....*....|....*....|....*..
gi 446356447 233 LAGIDSEKLSPHVLRHAFATHLLNHGADLRVVQMLLG 269
Cdd:PRK02436 197 VKSIGYPGLSAQKLREQFILKQKEAGKSIYELARLLG 233
INT_C_like_2 cd01191
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
142-279 5.03e-10

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271191  Cd Length: 176  Bit Score: 57.43  E-value: 5.03e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 142 LYATGLRVSELVGLTMSDISLrqGVVRVIGKGNKER--LVP--LGEEAVYWLETylehgrpwllNGVSIDVLFPSQRAQQ 217
Cdd:cd01191   29 LAATGARVSELIKIKVEHVEL--GYFDIYSKGGKLRrlYIPkkLRNEALEWLKS----------TNRKSGYIFLNRFGER 96
                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446356447 218 MTRQTFWHRIKHYAVLAGIDSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIY 279
Cdd:cd01191   97 ITTRGIAQQLKNYARKYGLNPKVVYPHSFRHRFAKNFLEKYNDIALLADLMGHESIETTRIY 158
INT_C_like_1 cd01184
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
113-281 2.47e-09

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain containing six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271184 [Multi-domain]  Cd Length: 180  Bit Score: 55.78  E-value: 2.47e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 113 LSEAQVERLLQAPLIDQPLELRDK---AMLEVLYaTGLRVSELVGLTMSDISLRQGV----VRVIGKGNK------ERLV 179
Cdd:cd01184    1 FTPEELAKIFSSPLYTGCKKKDPAlywLPLIGLY-TGARLNEICQLRVDDIKEEDGIwcidINDDAEGRRlktkasRRLV 79
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 180 PLGEEAV-YWLETYLE----HGRPWLlngvsidvLFPSQRAQQMTRQTFWHRIKHYAVLAGI-DSEKLSPHVLRHAFATH 253
Cdd:cd01184   80 PIHPRLIeLGFLDYVEalraDGKLFL--------FPEKRDKDGKYSKAASKWFNRLLRKLGIkDDERKSFHSFRHTFITA 151
                        170       180
                 ....*....|....*....|....*....
gi 446356447 254 LLNHGADLRVVQMLLGHSDLS-TTQIYTH 281
Cdd:cd01184  152 LKRAGVPEELIAQIVGHSRGGvTHDTYGK 180
INT_tnpB_C_Tn554 cd01187
Putative Transposase B from transposon Tn554, C-terminal catalytic domain; This family ...
241-281 1.42e-04

Putative Transposase B from transposon Tn554, C-terminal catalytic domain; This family includes putative Transposase B from transposon Tn554. It belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain containing six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271187 [Multi-domain]  Cd Length: 142  Bit Score: 41.26  E-value: 1.42e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 446356447 241 LSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTH 281
Cdd:cd01187  102 FHTHRFRHTVATRLANSGMGILVLQQLLGHSSPEMTLRYAL 142
INT_StrepXerD_C_like cd01190
Putative XerD in Streptococcus pneumonia and similar proteins, C-terminal catalytic domain; ...
146-269 1.64e-03

Putative XerD in Streptococcus pneumonia and similar proteins, C-terminal catalytic domain; This family includes a putative XerD recombinase in Streptococcus pneumonia and similar tyrosine recombinases. However, the members of this family contain unusual active site motifs from the XerD from Escherichia coli. E. coli XerD and homologous enzymes show four conserved amino acids R-H-R-H that are spaced along the C-terminal domain. The putative S. pneumoniae XerD contains three unique replacements at the conserved positions resulting in L-Q-R-L. Severe growth defects in a loss-of-function xerD mutant demonstrate an important in vivo function of the S. pneumoniae XerD protein. This family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271190  Cd Length: 150  Bit Score: 38.10  E-value: 1.64e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 146 GLRVSELVGLTMSDISLRQGVVRvIGKGNKERLVPLGEEAVywletylehgrPWLLNGVSIDVLFPSQRAQQMTRQTFWH 225
Cdd:cd01190   30 GLTPSEIANLKWADFDLDFQVLT-IEKGGIKRVLPLPKKLL-----------PFLEQHIKADYLEFDHEGKAYSRQWLFN 97
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 446356447 226 RIKHYavLAGIDSEKLSPHVLRHAFATHLLNHGADLRVVQMLLG 269
Cdd:cd01190   98 QLKKF--LNSIGLSGLTAQKLREQYILKQKEAGKSIYELAKLLG 139
INT_Lambda_C cd00800
C-terminal catalytic domain of Lambda integrase, a tyrosine-based site-specific recombinase; ...
137-283 1.74e-03

C-terminal catalytic domain of Lambda integrase, a tyrosine-based site-specific recombinase; Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They are tyrosine-based site-specific recombinase and belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The phage lambda integrase can bridge two different and well-separated DNA sequences called arm- and core-sites. The C-terminal domain binds, cleaves and re-ligates DNA strands at the core-sites, while the N-terminal domain is largely responsible for high-affinity binding to the arm-type sites.


Pssm-ID: 271181 [Multi-domain]  Cd Length: 161  Bit Score: 38.48  E-value: 1.74e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446356447 137 AMlEVLYATGLRVSELVGLTMSDISlRQGVVRVIGKGNKERLVPLGEEavywLETYLEHGRPwlLNGVSIDVLFPSQRAQ 216
Cdd:cd00800   17 AM-ELALLTGQRQGDLLRLKWSDIT-DGGLLVEQSKTGKKLLIPWTPS----LRALVDRIRA--LPRKRSEYLINSRKGG 88
                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446356447 217 QMTRQTFWHRIKHYAVLAGIDSEKLSP--HVLRHAFAThLLNHGADLRVVQMLLGHSDLSTTQIYTHVA 283
Cdd:cd00800   89 PLSYDTLKSAWRRARKAAGLKGETEGFtfHDLRAKAAT-DYAEQGGSTDAQALLGHKSDAMTERYTRKR 156
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH