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Conserved domains on  [gi|1375383944|sp|Q8N1F8|]
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RecName: Full=Serine/threonine-protein kinase 11-interacting protein; AltName: Full=LKB1-interacting protein 1

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
LIP1 super family cl24471
LKB1 serine/threonine kinase interacting protein 1; LIP1 is a protein found in eukaryotes. It ...
 8-93 3.30e-30

LKB1 serine/threonine kinase interacting protein 1; LIP1 is a protein found in eukaryotes. It represents the N-terminus of a leucine-rich-repeat protein that is implicated in Peutz-Jeghers syndrome. LIP1 interacts with the TGF-beta-regulated transcription factor SMAD4 to form a LKB1-LIP1-SMAD4 ternary complex. Mutations in SMAD4 lead to juvenile polyposis, suggesting a mechanistic link between these two diseases.


The actual alignment was detected with superfamily member pfam15904:

Pssm-ID: 464931  Cd Length: 90  Bit Score: 114.51  E-value: 3.30e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944    8 SLLWKLAGLLRESGDVVLSGCSTLSLLTPTLQQLNHVFELHLGPWGPgQTGFVALPSHPADSPVILQLQFLFDVLQKTLS 87
Cdd:pfam15904    5 PLVHSLANLLRNNGDLVLDGSSTLTLSASSLQHLTRSFEQHLLPRSH-QHGFLALPSHPADTSSLLQLQFLFDMLQKTTS 83


                   ....*.
gi 1375383944   88 LKLVHV 93
Cdd:pfam15904   84 LKLIHV 89
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
100-291 1.73e-20

Leucine-rich repeat (LRR) protein [Transcription];


:

Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 95.39  E-value: 1.73e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  100 GPIKIFPFKSLRHLELRGVPLHCL-HGLRGIySQLETLICSRSlqALEELLSACGGdfCSALPWLallsaNFSYNALTAL 178
Cdd:COG4886    105 GNEELSNLTNLESLDLSGNQLTDLpEELANL-TNLKELDLSNN--QLTDLPEPLGN--LTNLKSL-----DLSNNQLTDL 174

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  179 DSSLRLLSALRFLNLSHNQVQDCQGFLMDLCELHHLDISYNRLHLVPRMGPSGAALGVLILRGNELRSLHGLEQLRNLRH 258
Cdd:COG4886    175 PEELGNLTNLKELDLSNNQITDLPEPLGNLTNLEELDLSGNQLTDLPEPLANLTNLETLDLSNNQLTDLPELGNLTNLEE 254

                          170       180       190
                   ....*....|....*....|....*....|...
gi 1375383944  259 LDLAYNLLEghrELSPLWLLAELRKLYLEGNPL 291
Cdd:COG4886    255 LDLSNNQLT---DLPPLANLTNLKTLDLSNNQL 284
Zn-ribbon_8 super family cl00993
Zinc ribbon domain; This entry represents a region of about 41 amino acids found in a number ...
 670-715 3.39e-03

Zinc ribbon domain; This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.


The actual alignment was detected with superfamily member TIGR02605:

Pssm-ID: 470024  Cd Length: 52  Bit Score: 36.55  E-value: 3.39e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 1375383944  670 FQCLRCGHEFkpeeprmgldseEGWRPLfqKTESPAVCPNCGSDHV 715
Cdd:TIGR02605    6 YRCTACGHRF------------EVLQKM--SDDPLATCPACGGTKL 37
 
Name Accession Description Interval E-value
LIP1 pfam15904
LKB1 serine/threonine kinase interacting protein 1; LIP1 is a protein found in eukaryotes. It ...
 8-93 3.30e-30

LKB1 serine/threonine kinase interacting protein 1; LIP1 is a protein found in eukaryotes. It represents the N-terminus of a leucine-rich-repeat protein that is implicated in Peutz-Jeghers syndrome. LIP1 interacts with the TGF-beta-regulated transcription factor SMAD4 to form a LKB1-LIP1-SMAD4 ternary complex. Mutations in SMAD4 lead to juvenile polyposis, suggesting a mechanistic link between these two diseases.


Pssm-ID: 464931  Cd Length: 90  Bit Score: 114.51  E-value: 3.30e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944    8 SLLWKLAGLLRESGDVVLSGCSTLSLLTPTLQQLNHVFELHLGPWGPgQTGFVALPSHPADSPVILQLQFLFDVLQKTLS 87
Cdd:pfam15904    5 PLVHSLANLLRNNGDLVLDGSSTLTLSASSLQHLTRSFEQHLLPRSH-QHGFLALPSHPADTSSLLQLQFLFDMLQKTTS 83


                   ....*.
gi 1375383944   88 LKLVHV 93
Cdd:pfam15904   84 LKLIHV 89
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
100-291 1.73e-20

Leucine-rich repeat (LRR) protein [Transcription];


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 95.39  E-value: 1.73e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  100 GPIKIFPFKSLRHLELRGVPLHCL-HGLRGIySQLETLICSRSlqALEELLSACGGdfCSALPWLallsaNFSYNALTAL 178
Cdd:COG4886    105 GNEELSNLTNLESLDLSGNQLTDLpEELANL-TNLKELDLSNN--QLTDLPEPLGN--LTNLKSL-----DLSNNQLTDL 174

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  179 DSSLRLLSALRFLNLSHNQVQDCQGFLMDLCELHHLDISYNRLHLVPRMGPSGAALGVLILRGNELRSLHGLEQLRNLRH 258
Cdd:COG4886    175 PEELGNLTNLKELDLSNNQITDLPEPLGNLTNLEELDLSGNQLTDLPEPLANLTNLETLDLSNNQLTDLPELGNLTNLEE 254

                          170       180       190
                   ....*....|....*....|....*....|...
gi 1375383944  259 LDLAYNLLEghrELSPLWLLAELRKLYLEGNPL 291
Cdd:COG4886    255 LDLSNNQLT---DLPPLANLTNLKTLDLSNNQL 284
PPP1R42 cd21340
protein phosphatase 1 regulatory subunit 42; Protein phosphatase 1 regulatory subunit 42 ...
 173-321 1.06e-10

protein phosphatase 1 regulatory subunit 42; Protein phosphatase 1 regulatory subunit 42 (PPP1R42), also known as leucine-rich repeat-containing protein 67 (lrrc67) or testis leucine-rich repeat (TLRR) protein, plays a role in centrosome separation. PPP1R42 has been shown to interact with the well-conserved signaling protein phosphatase-1 (PP1) and thereby increasing PP1's activity, which counters centrosome separation. Inhibition of PPP1R42 expression increases the number of centrosomes per cell while its depletion reduces the activity of PP1 leading to activation of NEK2, the kinase responsible for phosphorylation of centrosomal linker proteins promoting centrosome separation.


Pssm-ID: 411060 [Multi-domain]  Cd Length: 220  Bit Score: 62.50  E-value: 1.06e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  173 NALTALDSsLRLLSALRFLNLSHNQVQDCQGfLMDLCELHHLDISYNRL------HLVPRmgpSGAALG----VLILRGN 242
Cdd:cd21340     56 NQIEKIEN-LENLVNLKKLYLGGNRISVVEG-LENLTNLEELHIENQRLppgeklTFDPR---SLAALSnslrVLNISGN 130

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  243 ELRSLHGLEQLRNLRHLDLAYNLLEGHRELS-PLWLLAELRKLYLEGNPLwfhpehrAATAQYlspraRD---AATGFL- 317
Cdd:cd21340    131 NIDSLEPLAPLRNLEQLDASNNQISDLEELLdLLSSWPSLRELDLTGNPV-------CKKPKY-----RDkiiLASKSLe 198


                   ....*
gi 1375383944  318 -LDGK 321
Cdd:cd21340    199 vLDGK 203
LRR_8 pfam13855
Leucine rich repeat;
236-291 7.37e-07

Leucine rich repeat;


Pssm-ID: 404697 [Multi-domain]  Cd Length: 61  Bit Score: 47.13  E-value: 7.37e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  236 VLILRGNELRSLHG--LEQLRNLRHLDLAYNLLEGhreLSP--LWLLAELRKLYLEGNPL 291
Cdd:pfam13855    5 SLDLSNNRLTSLDDgaFKGLSNLKVLDLSNNLLTT---LSPgaFSGLPSLRYLDLSGNRL 61
CxxC_CxxC_SSSS TIGR02605
putative regulatory protein, FmdB family; This model represents a region of about 50 amino ...
 670-715 3.39e-03

putative regulatory protein, FmdB family; This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (SP:Q50229, ). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors. [Regulatory functions, DNA interactions]


Pssm-ID: 274226  Cd Length: 52  Bit Score: 36.55  E-value: 3.39e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 1375383944  670 FQCLRCGHEFkpeeprmgldseEGWRPLfqKTESPAVCPNCGSDHV 715
Cdd:TIGR02605    6 YRCTACGHRF------------EVLQKM--SDDPLATCPACGGTKL 37
HybF COG0375
Hydrogenase maturation factor HypA/HybF, metallochaperone involved in Ni insertion ...
 668-719 3.97e-03

Hydrogenase maturation factor HypA/HybF, metallochaperone involved in Ni insertion [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440144  Cd Length: 113  Bit Score: 38.22  E-value: 3.97e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 1375383944  668 GRFQCLRCGHEFKPEEPRMgldseegwrplfqktespaVCPNCGSDHVVLLA 719
Cdd:COG0375     69 ARARCRDCGKEFELEELFL-------------------RCPKCGSPDLEILS 101
Zn-ribbon_8 pfam09723
Zinc ribbon domain; This entry represents a region of about 41 amino acids found in a number ...
 670-716 6.17e-03

Zinc ribbon domain; This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.


Pssm-ID: 462856  Cd Length: 41  Bit Score: 35.66  E-value: 6.17e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 1375383944  670 FQCLRCGHEFkpeeprmgldseEGWRPLFqkTESPAVCPNCGSDHVV 716
Cdd:pfam09723    6 YRCEECGHEF------------EVLQKIS--DPPLTTCPECGSGDVR 38
 
Name Accession Description Interval E-value
LIP1 pfam15904
LKB1 serine/threonine kinase interacting protein 1; LIP1 is a protein found in eukaryotes. It ...
 8-93 3.30e-30

LKB1 serine/threonine kinase interacting protein 1; LIP1 is a protein found in eukaryotes. It represents the N-terminus of a leucine-rich-repeat protein that is implicated in Peutz-Jeghers syndrome. LIP1 interacts with the TGF-beta-regulated transcription factor SMAD4 to form a LKB1-LIP1-SMAD4 ternary complex. Mutations in SMAD4 lead to juvenile polyposis, suggesting a mechanistic link between these two diseases.


Pssm-ID: 464931  Cd Length: 90  Bit Score: 114.51  E-value: 3.30e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944    8 SLLWKLAGLLRESGDVVLSGCSTLSLLTPTLQQLNHVFELHLGPWGPgQTGFVALPSHPADSPVILQLQFLFDVLQKTLS 87
Cdd:pfam15904    5 PLVHSLANLLRNNGDLVLDGSSTLTLSASSLQHLTRSFEQHLLPRSH-QHGFLALPSHPADTSSLLQLQFLFDMLQKTTS 83


                   ....*.
gi 1375383944   88 LKLVHV 93
Cdd:pfam15904   84 LKLIHV 89
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
100-291 1.73e-20

Leucine-rich repeat (LRR) protein [Transcription];


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 95.39  E-value: 1.73e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  100 GPIKIFPFKSLRHLELRGVPLHCL-HGLRGIySQLETLICSRSlqALEELLSACGGdfCSALPWLallsaNFSYNALTAL 178
Cdd:COG4886    105 GNEELSNLTNLESLDLSGNQLTDLpEELANL-TNLKELDLSNN--QLTDLPEPLGN--LTNLKSL-----DLSNNQLTDL 174

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  179 DSSLRLLSALRFLNLSHNQVQDCQGFLMDLCELHHLDISYNRLHLVPRMGPSGAALGVLILRGNELRSLHGLEQLRNLRH 258
Cdd:COG4886    175 PEELGNLTNLKELDLSNNQITDLPEPLGNLTNLEELDLSGNQLTDLPEPLANLTNLETLDLSNNQLTDLPELGNLTNLEE 254

                          170       180       190
                   ....*....|....*....|....*....|...
gi 1375383944  259 LDLAYNLLEghrELSPLWLLAELRKLYLEGNPL 291
Cdd:COG4886    255 LDLSNNQLT---DLPPLANLTNLKTLDLSNNQL 284
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
101-291 2.74e-16

Leucine-rich repeat (LRR) protein [Transcription];


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 82.67  E-value: 2.74e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  101 PIKIFPFKSLRHLELRGVPLHCLH-GLRGIySQLETLICSR-SLQALEELLSACggdfcSALPWLallsaNFSYNALTAL 178
Cdd:COG4886    129 PEELANLTNLKELDLSNNQLTDLPePLGNL-TNLKSLDLSNnQLTDLPEELGNL-----TNLKEL-----DLSNNQITDL 197

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  179 DSSLRLLSALRFLNLSHNQVQDCQGFLMDLCELHHLDISYNRLHLVPRMGpSGAALGVLILRGNELRSLHGLEQLRNLRH 258
Cdd:COG4886    198 PEPLGNLTNLEELDLSGNQLTDLPEPLANLTNLETLDLSNNQLTDLPELG-NLTNLEELDLSNNQLTDLPPLANLTNLKT 276

                          170       180       190
                   ....*....|....*....|....*....|...
gi 1375383944  259 LDLAYNLLEGhRELSPLWLLAELRKLYLEGNPL 291
Cdd:COG4886    277 LDLSNNQLTD-LKLKELELLLGLNSLLLLLLLL 308
PPP1R42 cd21340
protein phosphatase 1 regulatory subunit 42; Protein phosphatase 1 regulatory subunit 42 ...
 173-321 1.06e-10

protein phosphatase 1 regulatory subunit 42; Protein phosphatase 1 regulatory subunit 42 (PPP1R42), also known as leucine-rich repeat-containing protein 67 (lrrc67) or testis leucine-rich repeat (TLRR) protein, plays a role in centrosome separation. PPP1R42 has been shown to interact with the well-conserved signaling protein phosphatase-1 (PP1) and thereby increasing PP1's activity, which counters centrosome separation. Inhibition of PPP1R42 expression increases the number of centrosomes per cell while its depletion reduces the activity of PP1 leading to activation of NEK2, the kinase responsible for phosphorylation of centrosomal linker proteins promoting centrosome separation.


Pssm-ID: 411060 [Multi-domain]  Cd Length: 220  Bit Score: 62.50  E-value: 1.06e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  173 NALTALDSsLRLLSALRFLNLSHNQVQDCQGfLMDLCELHHLDISYNRL------HLVPRmgpSGAALG----VLILRGN 242
Cdd:cd21340     56 NQIEKIEN-LENLVNLKKLYLGGNRISVVEG-LENLTNLEELHIENQRLppgeklTFDPR---SLAALSnslrVLNISGN 130

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  243 ELRSLHGLEQLRNLRHLDLAYNLLEGHRELS-PLWLLAELRKLYLEGNPLwfhpehrAATAQYlspraRD---AATGFL- 317
Cdd:cd21340    131 NIDSLEPLAPLRNLEQLDASNNQISDLEELLdLLSSWPSLRELDLTGNPV-------CKKPKY-----RDkiiLASKSLe 198


                   ....*
gi 1375383944  318 -LDGK 321
Cdd:cd21340    199 vLDGK 203
LRR_8 pfam13855
Leucine rich repeat;
236-291 7.37e-07

Leucine rich repeat;


Pssm-ID: 404697 [Multi-domain]  Cd Length: 61  Bit Score: 47.13  E-value: 7.37e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  236 VLILRGNELRSLHG--LEQLRNLRHLDLAYNLLEGhreLSP--LWLLAELRKLYLEGNPL 291
Cdd:pfam13855    5 SLDLSNNRLTSLDDgaFKGLSNLKVLDLSNNLLTT---LSPgaFSGLPSLRYLDLSGNRL 61
PPP1R42 cd21340
protein phosphatase 1 regulatory subunit 42; Protein phosphatase 1 regulatory subunit 42 ...
 236-289 7.16e-06

protein phosphatase 1 regulatory subunit 42; Protein phosphatase 1 regulatory subunit 42 (PPP1R42), also known as leucine-rich repeat-containing protein 67 (lrrc67) or testis leucine-rich repeat (TLRR) protein, plays a role in centrosome separation. PPP1R42 has been shown to interact with the well-conserved signaling protein phosphatase-1 (PP1) and thereby increasing PP1's activity, which counters centrosome separation. Inhibition of PPP1R42 expression increases the number of centrosomes per cell while its depletion reduces the activity of PP1 leading to activation of NEK2, the kinase responsible for phosphorylation of centrosomal linker proteins promoting centrosome separation.


Pssm-ID: 411060 [Multi-domain]  Cd Length: 220  Bit Score: 48.24  E-value: 7.16e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 1375383944  236 VLILRGNELRSLHGLEQLRNLRHLDLAYNLLEghrELSPLWLLAELRKLYLEGN 289
Cdd:cd21340     28 VLYLYDNKITKIENLEFLTNLTHLYLQNNQIE---KIENLENLVNLKKLYLGGN 78
LRR_8 pfam13855
Leucine rich repeat;
210-266 1.10e-04

Leucine rich repeat;


Pssm-ID: 404697 [Multi-domain]  Cd Length: 61  Bit Score: 40.97  E-value: 1.10e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  210 ELHHLDISYNRLHLV-PRMGPSGAALGVLILRGNELRSLHG--LEQLRNLRHLDLAYNLL 266
Cdd:pfam13855    2 NLRSLDLSNNRLTSLdDGAFKGLSNLKVLDLSNNLLTTLSPgaFSGLPSLRYLDLSGNRL 61
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
101-319 6.51e-04

Leucine-rich repeat (LRR) protein [Transcription];


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 43.38  E-value: 6.51e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  101 PIKIFPFKSLRHLELRG-------VPLHCLHGLRGIY---SQLETLICS-RSLQALEEL-LSACGGdfcSALPWLALLSA 168
Cdd:COG4886    175 PEELGNLTNLKELDLSNnqitdlpEPLGNLTNLEELDlsgNQLTDLPEPlANLTNLETLdLSNNQL---TDLPELGNLTN 251

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  169 ----NFSYNALTALDSSLRLlSALRFLNLSHNQVQDCQ----GFLMDLCELHHLDISYNRLHLVPRMGPSGAALGVLILR 240
Cdd:COG4886    252 leelDLSNNQLTDLPPLANL-TNLKTLDLSNNQLTDLKlkelELLLGLNSLLLLLLLLNLLELLILLLLLTTLLLLLLLL 330

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1375383944  241 GNELRSLHGLEQLRNLRHLDLAYNLLEGHRELSPLWLLAELRKLYLEGNPLWFHPEHRAATAQYLSPRARDAATGFLLD 319
Cdd:COG4886    331 KGLLVTLTTLALSLSLLALLTLLLLLNLLSLLLTLLLTLGLLGLLEATLLTLALLLLTLLLLLLTTTAGVLLLTLALLD 409
CxxC_CxxC_SSSS TIGR02605
putative regulatory protein, FmdB family; This model represents a region of about 50 amino ...
 670-715 3.39e-03

putative regulatory protein, FmdB family; This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (SP:Q50229, ). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors. [Regulatory functions, DNA interactions]


Pssm-ID: 274226  Cd Length: 52  Bit Score: 36.55  E-value: 3.39e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 1375383944  670 FQCLRCGHEFkpeeprmgldseEGWRPLfqKTESPAVCPNCGSDHV 715
Cdd:TIGR02605    6 YRCTACGHRF------------EVLQKM--SDDPLATCPACGGTKL 37
LRR_4 pfam12799
Leucine Rich repeats (2 copies); Leucine rich repeats are short sequence motifs present in a ...
 234-264 3.46e-03

Leucine Rich repeats (2 copies); Leucine rich repeats are short sequence motifs present in a number of proteins with diverse functions and cellular locations. These repeats are usually involved in protein-protein interactions. Each Leucine Rich Repeat is composed of a beta-alpha unit. These units form elongated non-globular structures. Leucine Rich Repeats are often flanked by cysteine rich domains.


Pssm-ID: 463713 [Multi-domain]  Cd Length: 44  Bit Score: 36.45  E-value: 3.46e-03
                           10        20        30
                   ....*....|....*....|....*....|.
gi 1375383944  234 LGVLILRGNELRSLHGLEQLRNLRHLDLAYN 264
Cdd:pfam12799    3 LEVLDLSNNQITDIPPLAKLPNLETLDLSGN 33
HybF COG0375
Hydrogenase maturation factor HypA/HybF, metallochaperone involved in Ni insertion ...
 668-719 3.97e-03

Hydrogenase maturation factor HypA/HybF, metallochaperone involved in Ni insertion [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440144  Cd Length: 113  Bit Score: 38.22  E-value: 3.97e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 1375383944  668 GRFQCLRCGHEFKPEEPRMgldseegwrplfqktespaVCPNCGSDHVVLLA 719
Cdd:COG0375     69 ARARCRDCGKEFELEELFL-------------------RCPKCGSPDLEILS 101
LRR_4 pfam12799
Leucine Rich repeats (2 copies); Leucine rich repeats are short sequence motifs present in a ...
 255-291 5.44e-03

Leucine Rich repeats (2 copies); Leucine rich repeats are short sequence motifs present in a number of proteins with diverse functions and cellular locations. These repeats are usually involved in protein-protein interactions. Each Leucine Rich Repeat is composed of a beta-alpha unit. These units form elongated non-globular structures. Leucine Rich Repeats are often flanked by cysteine rich domains.


Pssm-ID: 463713 [Multi-domain]  Cd Length: 44  Bit Score: 35.68  E-value: 5.44e-03
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 1375383944  255 NLRHLDLAYNLLEghrELSPLWLLAELRKLYLEGNPL 291
Cdd:pfam12799    2 NLEVLDLSNNQIT---DIPPLAKLPNLETLDLSGNNK 35
LRR_RI cd00116
Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 ...
 110-289 5.50e-03

Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).


Pssm-ID: 238064 [Multi-domain]  Cd Length: 319  Bit Score: 40.03  E-value: 5.50e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  110 LRHLELRGVPLhCLHGLRGIYSQLEtlicSRSLQAL---EELLSACGGDF-CSAL--PWLALLSANFSYNALT-----AL 178
Cdd:cd00116     83 LQELDLSDNAL-GPDGCGVLESLLR----SSSLQELklnNNGLGDRGLRLlAKGLkdLPPALEKLVLGRNRLEgasceAL 157

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1375383944  179 DSSLRLLSALRFLNLSHNQVQD------CQGFLMdLCELHHLDISYNRLhlvprMGPSGAALGvlilrgnelrslHGLEQ 252
Cdd:cd00116    158 AKALRANRDLKELNLANNGIGDagiralAEGLKA-NCNLEVLDLNNNGL-----TDEGASALA------------ETLAS 219

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|.
gi 1375383944  253 LRNLRHLDLAYNLL--EGHRELSP--LWLLAELRKLYLEGN 289
Cdd:cd00116    220 LKSLEVLNLGDNNLtdAGAAALASalLSPNISLLTLSLSCN 260
Zn-ribbon_8 pfam09723
Zinc ribbon domain; This entry represents a region of about 41 amino acids found in a number ...
 670-716 6.17e-03

Zinc ribbon domain; This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.


Pssm-ID: 462856  Cd Length: 41  Bit Score: 35.66  E-value: 6.17e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 1375383944  670 FQCLRCGHEFkpeeprmgldseEGWRPLFqkTESPAVCPNCGSDHVV 716
Cdd:pfam09723    6 YRCEECGHEF------------EVLQKIS--DPPLTTCPECGSGDVR 38
 
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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