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Conserved domains on  [gi|1018191537|ref|NP_001309828|]
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actin-binding LIM protein 1 isoform r [Homo sapiens]

Protein Classification

LIM domain-containing protein( domain architecture ID 10912200)

LIM domain-containing protein; LIM is a small protein-protein interaction domain containing two zinc fingers; similar to Homo sapiens leupaxin, a transcriptional coactivator for androgen receptor (AR) and serum response factor (SRF)

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AbLIM_anchor pfam16182
Putative adherens-junction anchoring region of AbLIM; AbLIM_anchor is a domain lying between ...
 33-330 2.16e-132

Putative adherens-junction anchoring region of AbLIM; AbLIM_anchor is a domain lying between the LIM actin-binding and the vilin-head domain of actin-binding LIM proteins. It is likely that this domain is involved in anchoring abLIMs to circumferential actin bundles in specific cell types.


:

Pssm-ID: 465046 [Multi-domain]  Cd Length: 319  Bit Score: 381.82  E-value: 2.16e-132
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1018191537  33 TRTSSESIYSRPGSSIPGSPGHTIYAKVDNEILDYKDLAAIPKVKAIYDIERPDLITYEPFYTSGYDDKQERQSLGESPR 112
Cdd:pfam16182   1 TRTSSESIISPPGSSISGSPSRVIYAKLDNEILDYKDLAALPKVKAIYDIERPDLISYEPYVSYSSDDRLERQSYGESLS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1018191537 113 TLSPtpSAEGYQDVRDRMIHRSTSQGSINSPVYSRHSYTPTTSRSPQHFHR----------------------------- 163
Cdd:pfam16182  81 TLSP--SSEDSYDSRELRQRRSSSPGSIGSPTYSRHGYTPTLSRSPQHFHRpgsesgrsspslsqpsdrkspptyvqapk 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1018191537 164 ----PDQGI--NIYRKPPIYKQHGP--------DMKRRSSGR--EEDDEELLRRRQLQEEQLMKLNSGLGQLILKEEMEK 227
Cdd:pfam16182 159 hfhvPDTGVkdNIYRKPPIYKQHGTsasasqssEDIIHSSRFpaSGGEEEGWNRRLLQEEELSKIQSGLGKLILKEEMEA 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1018191537 228 ES-RERSSLLASRYDSPINSA-SHIPSSKTASLPGYGRNGLHRPVSTDFAQYNSYGDVSGGvrdyqtlpdghmpamrmdr 305
Cdd:pfam16182 239 RSgSERRDPWSSPRSSPSGSSgSDSPYSKSASLPGYGRNGLHRPQSADFFQYGSDGDVSWG------------------- 299

                         330       340
                  ....*....|....*....|....*
gi 1018191537 306 gvsmpNMLEPKIFPYEMLMVTNRGR 330
Cdd:pfam16182 300 -----GMREYKIYPYEMLAVTNRGR 319
VHP smart00153
Villin headpiece domain;
345-380 2.78e-15

Villin headpiece domain;


:

Pssm-ID: 128458  Cd Length: 36  Bit Score: 68.88  E-value: 2.78e-15
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1018191537  345 HLAPEVFREIFGMSIQEFDRLPLWRRNDMKKKAKLF 380
Cdd:smart00153   1 YLSDEDFEEVFGMTREEFYKLPLWKQNQLKKKKGLF 36
LIM super family cl02475
LIM is a small protein-protein interaction domain, containing two zinc fingers; LIM domains ...
 1-24 1.77e-12

LIM is a small protein-protein interaction domain, containing two zinc fingers; LIM domains are identified in a diverse group of proteins with wide variety of biological functions, including gene expression regulation, cell fate determination, cytoskeleton organization, tumor formation and development. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. They perform their functions through interactions with other protein partners. LIM domains are 50-60 amino acids in size and share two characteristic highly conserved zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. The consensus sequence of LIM domain has been defined as C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] (where X denotes any amino acid).


The actual alignment was detected with superfamily member cd09330:

Pssm-ID: 413332  Cd Length: 56  Bit Score: 61.61  E-value: 1.77e-12
                          10        20
                  ....*....|....*....|....
gi 1018191537   1 MFTEGEEMYLQGSTVWHPDCKQST 24
Cdd:cd09330    33 MFGEGEEMYLQGSEIWHPDCRQAA 56
 
Name Accession Description Interval E-value
AbLIM_anchor pfam16182
Putative adherens-junction anchoring region of AbLIM; AbLIM_anchor is a domain lying between ...
 33-330 2.16e-132

Putative adherens-junction anchoring region of AbLIM; AbLIM_anchor is a domain lying between the LIM actin-binding and the vilin-head domain of actin-binding LIM proteins. It is likely that this domain is involved in anchoring abLIMs to circumferential actin bundles in specific cell types.


Pssm-ID: 465046 [Multi-domain]  Cd Length: 319  Bit Score: 381.82  E-value: 2.16e-132
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1018191537  33 TRTSSESIYSRPGSSIPGSPGHTIYAKVDNEILDYKDLAAIPKVKAIYDIERPDLITYEPFYTSGYDDKQERQSLGESPR 112
Cdd:pfam16182   1 TRTSSESIISPPGSSISGSPSRVIYAKLDNEILDYKDLAALPKVKAIYDIERPDLISYEPYVSYSSDDRLERQSYGESLS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1018191537 113 TLSPtpSAEGYQDVRDRMIHRSTSQGSINSPVYSRHSYTPTTSRSPQHFHR----------------------------- 163
Cdd:pfam16182  81 TLSP--SSEDSYDSRELRQRRSSSPGSIGSPTYSRHGYTPTLSRSPQHFHRpgsesgrsspslsqpsdrkspptyvqapk 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1018191537 164 ----PDQGI--NIYRKPPIYKQHGP--------DMKRRSSGR--EEDDEELLRRRQLQEEQLMKLNSGLGQLILKEEMEK 227
Cdd:pfam16182 159 hfhvPDTGVkdNIYRKPPIYKQHGTsasasqssEDIIHSSRFpaSGGEEEGWNRRLLQEEELSKIQSGLGKLILKEEMEA 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1018191537 228 ES-RERSSLLASRYDSPINSA-SHIPSSKTASLPGYGRNGLHRPVSTDFAQYNSYGDVSGGvrdyqtlpdghmpamrmdr 305
Cdd:pfam16182 239 RSgSERRDPWSSPRSSPSGSSgSDSPYSKSASLPGYGRNGLHRPQSADFFQYGSDGDVSWG------------------- 299

                         330       340
                  ....*....|....*....|....*
gi 1018191537 306 gvsmpNMLEPKIFPYEMLMVTNRGR 330
Cdd:pfam16182 300 -----GMREYKIYPYEMLAVTNRGR 319
VHP smart00153
Villin headpiece domain;
345-380 2.78e-15

Villin headpiece domain;


Pssm-ID: 128458  Cd Length: 36  Bit Score: 68.88  E-value: 2.78e-15
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1018191537  345 HLAPEVFREIFGMSIQEFDRLPLWRRNDMKKKAKLF 380
Cdd:smart00153   1 YLSDEDFEEVFGMTREEFYKLPLWKQNQLKKKKGLF 36
VHP pfam02209
Villin headpiece domain;
345-380 2.17e-13

Villin headpiece domain;


Pssm-ID: 460493  Cd Length: 36  Bit Score: 63.55  E-value: 2.17e-13
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1018191537 345 HLAPEVFREIFGMSIQEFDRLPLWRRNDMKKKAKLF 380
Cdd:pfam02209   1 YLSDEDFEEVFGMSREEFYKLPKWKQNNLKKKAGLF 36
LIM4_abLIM cd09330
The fourth LIM domain of actin binding LIM (abLIM) proteins; The fourth LIM domain of actin ...
 1-24 1.77e-12

The fourth LIM domain of actin binding LIM (abLIM) proteins; The fourth LIM domain of actin binding LIM (abLIM) proteins: Three homologous members of the abLIM protein family have been identified; abLIM-1, abLIM-2 and abLIM-3. The N-terminal of abLIM consists of four tandem repeats of LIM domains and the C-terminal of acting binding LIM protein is a villin headpiece domain, which has strong actin binding activity. The abLIM-1, which is expressed in retina, brain, and muscle tissue, has been indicated to function as a tumor suppressor. AbLIM-2 and -3, mainly expressed in muscle and neuronal tissue, bind to F-actin strongly. They may serve as a scaffold for signaling modules of the actin cytoskeleton and thereby modulate transcription. It has shown that LIM domains of abLIMs interact with STARS (striated muscle activator of Rho signaling), which directly binds actin and stimulates serum-response factor (SRF)-dependent transcription. All LIM domains are 50-60 amino acids in size and share two characteristic highly conserved zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes.


Pssm-ID: 188716  Cd Length: 56  Bit Score: 61.61  E-value: 1.77e-12
                          10        20
                  ....*....|....*....|....
gi 1018191537   1 MFTEGEEMYLQGSTVWHPDCKQST 24
Cdd:cd09330    33 MFGEGEEMYLQGSEIWHPDCRQAA 56
RIFIN TIGR01477
variant surface antigen, rifin family; This model represents the rifin branch of the rifin ...
 144-242 2.40e-03

variant surface antigen, rifin family; This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.


Pssm-ID: 273647  Cd Length: 353  Bit Score: 39.72  E-value: 2.40e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1018191537 144 VYSRHSYTPTTSRSPQHFHRPdqginIYR-------KPPIYkQHGPDMK-------RRSSGR-EEDDEELLRRRQLQEEQ 208
Cdd:TIGR01477  19 VNSQRNHKNTPHHTSNTTPTK-----TSRslcecelYSSNY-DNDPEMKsvmeqfdRQTSQRfEEYDERMQEKRQKCKEQ 92

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1018191537 209 LMKlnsGLGQLILKEEMEKESRERSSLLASRYDS 242
Cdd:TIGR01477  93 CDK---EIQKIILKDKLEKELTEKFSTLQTDIQT 123
 
Name Accession Description Interval E-value
AbLIM_anchor pfam16182
Putative adherens-junction anchoring region of AbLIM; AbLIM_anchor is a domain lying between ...
 33-330 2.16e-132

Putative adherens-junction anchoring region of AbLIM; AbLIM_anchor is a domain lying between the LIM actin-binding and the vilin-head domain of actin-binding LIM proteins. It is likely that this domain is involved in anchoring abLIMs to circumferential actin bundles in specific cell types.


Pssm-ID: 465046 [Multi-domain]  Cd Length: 319  Bit Score: 381.82  E-value: 2.16e-132
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1018191537  33 TRTSSESIYSRPGSSIPGSPGHTIYAKVDNEILDYKDLAAIPKVKAIYDIERPDLITYEPFYTSGYDDKQERQSLGESPR 112
Cdd:pfam16182   1 TRTSSESIISPPGSSISGSPSRVIYAKLDNEILDYKDLAALPKVKAIYDIERPDLISYEPYVSYSSDDRLERQSYGESLS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1018191537 113 TLSPtpSAEGYQDVRDRMIHRSTSQGSINSPVYSRHSYTPTTSRSPQHFHR----------------------------- 163
Cdd:pfam16182  81 TLSP--SSEDSYDSRELRQRRSSSPGSIGSPTYSRHGYTPTLSRSPQHFHRpgsesgrsspslsqpsdrkspptyvqapk 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1018191537 164 ----PDQGI--NIYRKPPIYKQHGP--------DMKRRSSGR--EEDDEELLRRRQLQEEQLMKLNSGLGQLILKEEMEK 227
Cdd:pfam16182 159 hfhvPDTGVkdNIYRKPPIYKQHGTsasasqssEDIIHSSRFpaSGGEEEGWNRRLLQEEELSKIQSGLGKLILKEEMEA 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1018191537 228 ES-RERSSLLASRYDSPINSA-SHIPSSKTASLPGYGRNGLHRPVSTDFAQYNSYGDVSGGvrdyqtlpdghmpamrmdr 305
Cdd:pfam16182 239 RSgSERRDPWSSPRSSPSGSSgSDSPYSKSASLPGYGRNGLHRPQSADFFQYGSDGDVSWG------------------- 299

                         330       340
                  ....*....|....*....|....*
gi 1018191537 306 gvsmpNMLEPKIFPYEMLMVTNRGR 330
Cdd:pfam16182 300 -----GMREYKIYPYEMLAVTNRGR 319
VHP smart00153
Villin headpiece domain;
345-380 2.78e-15

Villin headpiece domain;


Pssm-ID: 128458  Cd Length: 36  Bit Score: 68.88  E-value: 2.78e-15
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1018191537  345 HLAPEVFREIFGMSIQEFDRLPLWRRNDMKKKAKLF 380
Cdd:smart00153   1 YLSDEDFEEVFGMTREEFYKLPLWKQNQLKKKKGLF 36
VHP pfam02209
Villin headpiece domain;
345-380 2.17e-13

Villin headpiece domain;


Pssm-ID: 460493  Cd Length: 36  Bit Score: 63.55  E-value: 2.17e-13
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1018191537 345 HLAPEVFREIFGMSIQEFDRLPLWRRNDMKKKAKLF 380
Cdd:pfam02209   1 YLSDEDFEEVFGMSREEFYKLPKWKQNNLKKKAGLF 36
LIM4_abLIM cd09330
The fourth LIM domain of actin binding LIM (abLIM) proteins; The fourth LIM domain of actin ...
 1-24 1.77e-12

The fourth LIM domain of actin binding LIM (abLIM) proteins; The fourth LIM domain of actin binding LIM (abLIM) proteins: Three homologous members of the abLIM protein family have been identified; abLIM-1, abLIM-2 and abLIM-3. The N-terminal of abLIM consists of four tandem repeats of LIM domains and the C-terminal of acting binding LIM protein is a villin headpiece domain, which has strong actin binding activity. The abLIM-1, which is expressed in retina, brain, and muscle tissue, has been indicated to function as a tumor suppressor. AbLIM-2 and -3, mainly expressed in muscle and neuronal tissue, bind to F-actin strongly. They may serve as a scaffold for signaling modules of the actin cytoskeleton and thereby modulate transcription. It has shown that LIM domains of abLIMs interact with STARS (striated muscle activator of Rho signaling), which directly binds actin and stimulates serum-response factor (SRF)-dependent transcription. All LIM domains are 50-60 amino acids in size and share two characteristic highly conserved zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes.


Pssm-ID: 188716  Cd Length: 56  Bit Score: 61.61  E-value: 1.77e-12
                          10        20
                  ....*....|....*....|....
gi 1018191537   1 MFTEGEEMYLQGSTVWHPDCKQST 24
Cdd:cd09330    33 MFGEGEEMYLQGSEIWHPDCRQAA 56
RIFIN TIGR01477
variant surface antigen, rifin family; This model represents the rifin branch of the rifin ...
 144-242 2.40e-03

variant surface antigen, rifin family; This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.


Pssm-ID: 273647  Cd Length: 353  Bit Score: 39.72  E-value: 2.40e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1018191537 144 VYSRHSYTPTTSRSPQHFHRPdqginIYR-------KPPIYkQHGPDMK-------RRSSGR-EEDDEELLRRRQLQEEQ 208
Cdd:TIGR01477  19 VNSQRNHKNTPHHTSNTTPTK-----TSRslcecelYSSNY-DNDPEMKsvmeqfdRQTSQRfEEYDERMQEKRQKCKEQ 92

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1018191537 209 LMKlnsGLGQLILKEEMEKESRERSSLLASRYDS 242
Cdd:TIGR01477  93 CDK---EIQKIILKDKLEKELTEKFSTLQTDIQT 123
 
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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