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Conserved domains on  [gi|446951117|ref|WP_001028373|]
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MULTISPECIES: PIN/TRAM domain-containing protein [Staphylococcus]

Protein Classification

PIN/TRAM domain-containing protein( domain architecture ID 11471837)

PilT N terminus (PIN) domain and TRIF-related adaptor molecule (TRAM) domain-containing protein, where PIN domain is involved in growth inhibition by regulating translation and TRAM acts as a sorting adaptor for Toll-like receptors (TLRs)

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG4956 COG4956
Uncharacterized conserved protein YacL, contains PIN and TRAM domains [General function ...
 4-349 1.10e-141

Uncharacterized conserved protein YacL, contains PIN and TRAM domains [General function prediction only];


:

Pssm-ID: 443983 [Multi-domain]  Cd Length: 355  Bit Score: 405.69  E-value: 1.10e-141
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117   4 VKLMVIIIYLIIGSALGIIIIPEIANDLGLQNSSFLK--NHYVDGIIGSIFMFLIFGVFIRRVTNAIKGLEHFIMRRSAV 81
Cdd:COG4956    1 LKKIIRLLFLLLGAALGYLLGPLLPELLGLSSGPLNNivLPIVGALIGALIGFLLSPLLIKYVVRLIRRLEKRLRKLPLS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117  82 EILFATIGLIIGLLISVMVSFILESIGNSIFNHFIPVIITILLCYFGFQFGLKKRDEMLMFLPEN--IARSMSQHTKSAT 159
Cdd:COG4956   81 DLLAGTIGLILGLLIANLLSAPLSLLPIPIIGPLLPILLSILLGYLGISLGLKKREELLRLFNPIsrEGKEAKGSLRKAS 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117 160 PKIIDTSAIIDGRILEVIRCGFIDGNILIPQGVINELQIVADSNDSVKREKGKRGLDILNELYDLDYPTKVIHPT--KSH 237
Cdd:COG4956  161 PKILDTSVIIDGRIADIAKTGFLEGTLIVPRFVLEELQHIADSSDDLKRNRGRRGLDILNRLQKEPPIPVEIYEGdfEDI 240

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117 238 SDIDTMLLKLAKQYHANIITTDFNLNKVCHVHGIKALNVNDLSEAIKPNVHQGDQLHILLTKMGKEPGQAVGYLDDGTMV 317
Cdd:COG4956  241 KEVDSKLVKLAKELNGKIVTNDYNLNKVAELQGVPVLNINELANALKPVVLPGEEMTVKIIKEGKEPGQGVGYLDDGTMV 320

                        330       340       350
                 ....*....|....*....|....*....|..
gi 446951117 318 VVDNAKNLIGSHVNLEVVSLLQTSSGRIVFAK 349
Cdd:COG4956  321 VVEGGRKYIGETVEVVVTSVLQTSAGRMIFAK 352
 
Name Accession Description Interval E-value
COG4956 COG4956
Uncharacterized conserved protein YacL, contains PIN and TRAM domains [General function ...
 4-349 1.10e-141

Uncharacterized conserved protein YacL, contains PIN and TRAM domains [General function prediction only];


Pssm-ID: 443983 [Multi-domain]  Cd Length: 355  Bit Score: 405.69  E-value: 1.10e-141
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117   4 VKLMVIIIYLIIGSALGIIIIPEIANDLGLQNSSFLK--NHYVDGIIGSIFMFLIFGVFIRRVTNAIKGLEHFIMRRSAV 81
Cdd:COG4956    1 LKKIIRLLFLLLGAALGYLLGPLLPELLGLSSGPLNNivLPIVGALIGALIGFLLSPLLIKYVVRLIRRLEKRLRKLPLS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117  82 EILFATIGLIIGLLISVMVSFILESIGNSIFNHFIPVIITILLCYFGFQFGLKKRDEMLMFLPEN--IARSMSQHTKSAT 159
Cdd:COG4956   81 DLLAGTIGLILGLLIANLLSAPLSLLPIPIIGPLLPILLSILLGYLGISLGLKKREELLRLFNPIsrEGKEAKGSLRKAS 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117 160 PKIIDTSAIIDGRILEVIRCGFIDGNILIPQGVINELQIVADSNDSVKREKGKRGLDILNELYDLDYPTKVIHPT--KSH 237
Cdd:COG4956  161 PKILDTSVIIDGRIADIAKTGFLEGTLIVPRFVLEELQHIADSSDDLKRNRGRRGLDILNRLQKEPPIPVEIYEGdfEDI 240

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117 238 SDIDTMLLKLAKQYHANIITTDFNLNKVCHVHGIKALNVNDLSEAIKPNVHQGDQLHILLTKMGKEPGQAVGYLDDGTMV 317
Cdd:COG4956  241 KEVDSKLVKLAKELNGKIVTNDYNLNKVAELQGVPVLNINELANALKPVVLPGEEMTVKIIKEGKEPGQGVGYLDDGTMV 320

                        330       340       350
                 ....*....|....*....|....*....|..
gi 446951117 318 VVDNAKNLIGSHVNLEVVSLLQTSSGRIVFAK 349
Cdd:COG4956  321 VVEGGRKYIGETVEVVVTSVLQTSAGRMIFAK 352
PIN_YacL-like cd09877
VapC-like PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and ...
 161-285 1.65e-58

VapC-like PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; PIN (PilT N terminus) domain of the conserved membrane protein of unknown function of Thermus Thermophilus Hb8, Bacillus subtilis YacL and other similar homologs are included in this family. This subgroup belongs to the VapC (virulence-associated protein C)-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. Other members of the VapC-like nuclease family include FitB toxin of the FitAB TA system, eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. The structural properties of the PIN domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions; in some members, additional metal coordinating residues can be found while some others lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons. Proteins in this group have a C-terminal TRAM domain whose function is unknown but predicted to be a RNA-binding domain common to tRNA uracil methylation and adenine thiolation enzymes.


Pssm-ID: 350225 [Multi-domain]  Cd Length: 127  Bit Score: 185.31  E-value: 1.65e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117 161 KIIDTSAIIDGRILEVIRCGFIDGNILIPQGVINELQIVADSNDSVKREKGKRGLDILNELYDLDYPTKVIHPT--KSHS 238
Cdd:cd09877    1 KVLDTSVLIDGRIADIAKTGFLDGTLVVPRFVLDELQLLADSSDPLKRARGRRGLDVLKKLQKLPGLDVRIVDTdfPEIK 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 446951117 239 DIDTMLLKLAKQYHANIITTDFNLNKVCHVHGIKALNVNDLSEAIKP 285
Cdd:cd09877   81 EVDAKLVRLAKELGAKLLTNDFNLNKVAKLQGVKVLNINELANALKP 127
PRK13764 PRK13764
ATPase; Provisional
 162-274 5.66e-11

ATPase; Provisional


Pssm-ID: 184311 [Multi-domain]  Cd Length: 602  Bit Score: 63.70  E-value: 5.66e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117 162 IIDTSAIIDGRILEVIRCG-FIDGNILIPQGVINELQivADSNDsvKREKGKRGLDILNELYDL------------DYPT 228
Cdd:PRK13764   4 VPDTSVVIDGRVSELIEKGeYIGGTIIIPEAVVAELE--AQANQ--GREIGFSGLEELKKLRELaeeglielefvgERPT 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 446951117 229 KVIHPTKSHSDIDTMLLKLAKQYHANIITTDFNLNKVCHVHGIKAL 274
Cdd:PRK13764  80 LEQIKLAKGGEIDALIREVAKELGATLVTSDRVQAEVARAKGIDVI 125
PINc smart00670
Large family of predicted nucleotide-binding domains; From similarities to 5'-exonucleases, ...
 161-264 4.31e-06

Large family of predicted nucleotide-binding domains; From similarities to 5'-exonucleases, these domains are predicted to be RNases. PINc domains in nematode SMG-5 and yeast NMD4p are predicted to be involved in RNAi.


Pssm-ID: 214771 [Multi-domain]  Cd Length: 111  Bit Score: 45.11  E-value: 4.31e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117   161 KIIDTSAIIDGRILEVIRCG-FIDGNILIPQGVINELQIVA---DSNDSVKREKGKRGLDILNELYDLDYPTKVIHPTKS 236
Cdd:smart00670   3 VVLDTNVLIDGLIRDALEKLlEKKGEVYIPQTVLEELEYLAlrsLKKLEELALEGKIILKVLKEERIEEEILERLSLKLE 82

                           90       100
                   ....*....|....*....|....*....
gi 446951117   237 HSDIDTMLLKLAKQYHANII-TTDFNLNK 264
Cdd:smart00670  83 LLPNDALILATAKELGNVVLvTNDRDLRR 111
PIN_3 pfam13470
PIN domain; Members of this family of bacterial domains are predicted to be RNases (from ...
 162-260 6.55e-03

PIN domain; Members of this family of bacterial domains are predicted to be RNases (from similarities to 5'-exonucleases).


Pssm-ID: 463888  Cd Length: 115  Bit Score: 36.16  E-value: 6.55e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117  162 IIDTSAIIDG-----------RILEVIRCGFIDGniLIPQGVINELQIVADSnDSVKREKGKRGLDILNELYDLDYPTKV 230
Cdd:pfam13470   3 VLDTNVLLDAllfrspfsasaKLLDLLARGRIQL--VVSAAILDEYEYVLTR-PLAKPRLALSIEERLLLLALVAAVVDP 79

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 446951117  231 IHPTKSHSDI----DTMLLKLAKQYHAN-IITTDF 260
Cdd:pfam13470  80 DLPLAPVSACrdpeDAHFLEAAVAGQADfIVTRNR 114
 
Name Accession Description Interval E-value
COG4956 COG4956
Uncharacterized conserved protein YacL, contains PIN and TRAM domains [General function ...
 4-349 1.10e-141

Uncharacterized conserved protein YacL, contains PIN and TRAM domains [General function prediction only];


Pssm-ID: 443983 [Multi-domain]  Cd Length: 355  Bit Score: 405.69  E-value: 1.10e-141
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117   4 VKLMVIIIYLIIGSALGIIIIPEIANDLGLQNSSFLK--NHYVDGIIGSIFMFLIFGVFIRRVTNAIKGLEHFIMRRSAV 81
Cdd:COG4956    1 LKKIIRLLFLLLGAALGYLLGPLLPELLGLSSGPLNNivLPIVGALIGALIGFLLSPLLIKYVVRLIRRLEKRLRKLPLS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117  82 EILFATIGLIIGLLISVMVSFILESIGNSIFNHFIPVIITILLCYFGFQFGLKKRDEMLMFLPEN--IARSMSQHTKSAT 159
Cdd:COG4956   81 DLLAGTIGLILGLLIANLLSAPLSLLPIPIIGPLLPILLSILLGYLGISLGLKKREELLRLFNPIsrEGKEAKGSLRKAS 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117 160 PKIIDTSAIIDGRILEVIRCGFIDGNILIPQGVINELQIVADSNDSVKREKGKRGLDILNELYDLDYPTKVIHPT--KSH 237
Cdd:COG4956  161 PKILDTSVIIDGRIADIAKTGFLEGTLIVPRFVLEELQHIADSSDDLKRNRGRRGLDILNRLQKEPPIPVEIYEGdfEDI 240

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117 238 SDIDTMLLKLAKQYHANIITTDFNLNKVCHVHGIKALNVNDLSEAIKPNVHQGDQLHILLTKMGKEPGQAVGYLDDGTMV 317
Cdd:COG4956  241 KEVDSKLVKLAKELNGKIVTNDYNLNKVAELQGVPVLNINELANALKPVVLPGEEMTVKIIKEGKEPGQGVGYLDDGTMV 320

                        330       340       350
                 ....*....|....*....|....*....|..
gi 446951117 318 VVDNAKNLIGSHVNLEVVSLLQTSSGRIVFAK 349
Cdd:COG4956  321 VVEGGRKYIGETVEVVVTSVLQTSAGRMIFAK 352
PIN_YacL-like cd09877
VapC-like PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and ...
 161-285 1.65e-58

VapC-like PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; PIN (PilT N terminus) domain of the conserved membrane protein of unknown function of Thermus Thermophilus Hb8, Bacillus subtilis YacL and other similar homologs are included in this family. This subgroup belongs to the VapC (virulence-associated protein C)-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. Other members of the VapC-like nuclease family include FitB toxin of the FitAB TA system, eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. The structural properties of the PIN domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions; in some members, additional metal coordinating residues can be found while some others lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons. Proteins in this group have a C-terminal TRAM domain whose function is unknown but predicted to be a RNA-binding domain common to tRNA uracil methylation and adenine thiolation enzymes.


Pssm-ID: 350225 [Multi-domain]  Cd Length: 127  Bit Score: 185.31  E-value: 1.65e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117 161 KIIDTSAIIDGRILEVIRCGFIDGNILIPQGVINELQIVADSNDSVKREKGKRGLDILNELYDLDYPTKVIHPT--KSHS 238
Cdd:cd09877    1 KVLDTSVLIDGRIADIAKTGFLDGTLVVPRFVLDELQLLADSSDPLKRARGRRGLDVLKKLQKLPGLDVRIVDTdfPEIK 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 446951117 239 DIDTMLLKLAKQYHANIITTDFNLNKVCHVHGIKALNVNDLSEAIKP 285
Cdd:cd09877   81 EVDAKLVRLAKELGAKLLTNDFNLNKVAKLQGVKVLNINELANALKP 127
PIN_VapC_VirB11L-ATPase-like cd09878
VapC-like PIN domain of an uncharacterized AAA+, VirB11-like ATPase-, KH- and PIN-domain ...
 164-274 1.55e-13

VapC-like PIN domain of an uncharacterized AAA+, VirB11-like ATPase-, KH- and PIN-domain containing protein MJ1533 from Methanocaldococcus jannaschii DSM 2661, and other similar archaeal homologs; PIN (PilT N terminus) domain present N-terminal of AAA+, VirB11-like ATPases. Several members of this subfamily possess an AAA+, VirB11-like ATPase domain, flanked by PIN and KH nucleic acid-binding domains. VirB11-ATPase is a type IV secretory pathway component required for T-pilus biogenesis and virulence. This subgroup belongs to the VapC (virulence-associated protein C)-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. Other members of the VapC-like nuclease family include FitB toxin of the FitAB TA system, eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. The structural properties of the PIN domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions; in some members, additional metal coordinating residues can be found while some others lack several of these key catalytic residues. PIN domains within this subgroup contain four of these highly conserved residues which cluster at the C-terminal end of the beta-sheet and form a negatively charged pocket near the center of the molecule. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons.


Pssm-ID: 350226 [Multi-domain]  Cd Length: 125  Bit Score: 66.75  E-value: 1.55e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117 164 DTSAIIDGRILEVIRCGFI-DGNILIPQGVINELQIVAdsndSVKREKGKRGLDILNELYDL------------DYPTKV 230
Cdd:cd09878    4 DTSVIIDGRISKLIEEGELkGGEIIIPEAVVAELEHQA----NKGREIGFAGLEELKKLRELakeggiklefvgERPTLE 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 446951117 231 IHPTKSHSDIDTMLLKLAKQYHANIITTDFNLNKVCHVHGIKAL 274
Cdd:cd09878   80 EIKLAKSGEIDALIRDVAREEGATLVTSDRVQAEVAEAEGIEVI 123
PRK13764 PRK13764
ATPase; Provisional
 162-274 5.66e-11

ATPase; Provisional


Pssm-ID: 184311 [Multi-domain]  Cd Length: 602  Bit Score: 63.70  E-value: 5.66e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117 162 IIDTSAIIDGRILEVIRCG-FIDGNILIPQGVINELQivADSNDsvKREKGKRGLDILNELYDL------------DYPT 228
Cdd:PRK13764   4 VPDTSVVIDGRVSELIEKGeYIGGTIIIPEAVVAELE--AQANQ--GREIGFSGLEELKKLRELaeeglielefvgERPT 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 446951117 229 KVIHPTKSHSDIDTMLLKLAKQYHANIITTDFNLNKVCHVHGIKAL 274
Cdd:PRK13764  80 LEQIKLAKGGEIDALIREVAKELGATLVTSDRVQAEVARAKGIDVI 125
PINc smart00670
Large family of predicted nucleotide-binding domains; From similarities to 5'-exonucleases, ...
 161-264 4.31e-06

Large family of predicted nucleotide-binding domains; From similarities to 5'-exonucleases, these domains are predicted to be RNases. PINc domains in nematode SMG-5 and yeast NMD4p are predicted to be involved in RNAi.


Pssm-ID: 214771 [Multi-domain]  Cd Length: 111  Bit Score: 45.11  E-value: 4.31e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117   161 KIIDTSAIIDGRILEVIRCG-FIDGNILIPQGVINELQIVA---DSNDSVKREKGKRGLDILNELYDLDYPTKVIHPTKS 236
Cdd:smart00670   3 VVLDTNVLIDGLIRDALEKLlEKKGEVYIPQTVLEELEYLAlrsLKKLEELALEGKIILKVLKEERIEEEILERLSLKLE 82

                           90       100
                   ....*....|....*....|....*....
gi 446951117   237 HSDIDTMLLKLAKQYHANII-TTDFNLNK 264
Cdd:smart00670  83 LLPNDALILATAKELGNVVLvTNDRDLRR 111
PIN_Nob1-like cd09876
VapC-like PIN domain of eukaryotic ribosome assembly factor Nob1 and archaeal UPF0129 protein ...
 161-272 2.86e-04

VapC-like PIN domain of eukaryotic ribosome assembly factor Nob1 and archaeal UPF0129 protein Ta0041-like homologs; PIN (PilT N terminus) domain of the Saccharomyces cerevisiae ribosome assembly factor, Nob1 (Nin one binding) protein, the Thermoplasma acidophilum DSM 1728, UPF0129 protein Ta0041, and similar eukaryotic and archaeal homologs are included in this family. The Nob1 PIN domain binds the single-stranded cleavage site D at the 3-prime end of 18S rRNA. Recombinant Nob1 binds as a tetramer to pre-18S rRNA fragments containing cleavage site D and believed to cleave at this site. This subgroup belongs to the VapC (virulence-associated protein C)-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. Other members of the VapC-like nuclease family include FitB toxin of the FitAB TA system, eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. The structural properties of the PIN domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions; in some members, additional metal coordinating residues can be found while some others lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons. Matelska et al. recently classified PIN-like domains into distinct groups; this subgroup includes some sequences belonging to one of these, PIN_6.


Pssm-ID: 350224  Cd Length: 112  Bit Score: 39.80  E-value: 2.86e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117 161 KIIDTSAIIDGRILEvircgFIDGNILIPQGVINElqivadsndsVKREKGKRGLDILneLYDLdyptKVIHPTK----- 235
Cdd:cd09876    1 LVLDTSAFISGAPLD-----GLAEKLYTTPEVLEE----------IRDKKSRLRLELL--PGKL----KVREPSEesika 59

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 446951117 236 --------------SHSDIDtmLLKLAKQYHANIITTDFNLNKVCHVHGIK 272
Cdd:cd09876   60 vkefakktgdygslSATDIK--VLALALELEAEIVTDDYAIQNVAKHLGIK 108
PIN_3 pfam13470
PIN domain; Members of this family of bacterial domains are predicted to be RNases (from ...
 162-260 6.55e-03

PIN domain; Members of this family of bacterial domains are predicted to be RNases (from similarities to 5'-exonucleases).


Pssm-ID: 463888  Cd Length: 115  Bit Score: 36.16  E-value: 6.55e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117  162 IIDTSAIIDG-----------RILEVIRCGFIDGniLIPQGVINELQIVADSnDSVKREKGKRGLDILNELYDLDYPTKV 230
Cdd:pfam13470   3 VLDTNVLLDAllfrspfsasaKLLDLLARGRIQL--VVSAAILDEYEYVLTR-PLAKPRLALSIEERLLLLALVAAVVDP 79

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 446951117  231 IHPTKSHSDI----DTMLLKLAKQYHAN-IITTDF 260
Cdd:pfam13470  80 DLPLAPVSACrdpeDAHFLEAAVAGQADfIVTRNR 114
PRK12496 PRK12496
hypothetical protein; Provisional
 161-277 9.71e-03

hypothetical protein; Provisional


Pssm-ID: 237118 [Multi-domain]  Cd Length: 164  Bit Score: 36.52  E-value: 9.71e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446951117 161 KIIDTSAIIDGRILEvircgfiDGNILIPQGVINE------------------LQIVADSNDSVKREKgkrglDILNELY 222
Cdd:PRK12496   4 KVLDASAFIHGYNPE-------DGEHYTTPSVVEEvkdkesrlilesaisagkLKILEPSPESIEKVE-----EAAIKTG 71

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 446951117 223 DLDyptkvihpTKSHSDIDtmLLKLAKQYHANIITTDFNLNKVCHVHGIKALNVN 277
Cdd:PRK12496  72 DLM--------RLSNTDIE--VLALALELNGTLYTDDYGIQNVAKKLNIKFENIK 116
 
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.
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