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Conserved domains on  [gi|2244985505|ref|NP_001393930|]
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lamin isoform M [Homo sapiens]

Protein Classification

intermediate filament family protein( domain architecture ID 11755560)

intermediate filament family protein such as lamins, which are a major component of the nuclear lamina, a fibrous layer on the nucleoplasmic side of the inner nuclear membrane

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Filament super family cl25641
Intermediate filament protein;
104-178 3.34e-30

Intermediate filament protein;


The actual alignment was detected with superfamily member pfam00038:

Pssm-ID: 459643 [Multi-domain]  Cd Length: 313  Bit Score: 119.25  E-value: 3.34e-30
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2244985505 104 QLAAKEAKLRDLEDSLARERDTSRRLLAEKEREMAEMRARMQQQLDEYQELLDIKLALDMEIHAYRKLLEGEEER 178
Cdd:pfam00038 239 QKASLERQLAETEERYELQLADYQELISELEAELQETRQEMARQLREYQELLNVKLALDIEIATYRKLLEGEECR 313
LTD pfam00932
Lamin Tail Domain; The lamin-tail domain (LTD), which has an immunoglobulin (Ig) fold, is ...
 226-333 1.85e-21

Lamin Tail Domain; The lamin-tail domain (LTD), which has an immunoglobulin (Ig) fold, is found in Nuclear Lamins, Chlo1887 from Chloroflexus, and several bacterial proteins where it occurs with membrane associated hydrolases of the metallo-beta-lactamase,synaptojanin, and calcineurin-like phosphoesterase superfamilies.


:

Pssm-ID: 460003 [Multi-domain]  Cd Length: 108  Bit Score: 89.02  E-value: 1.85e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2244985505 226 ARTSGRVAVEEVDEEG-----KFVRLRNKSNEDQSMGNWQIKRQNGDdpllTYRFPPKFTLKAGQVVTIWAAG----AGA 296
Cdd:pfam00932   1 SSATGDVVISEVVYDGsggndEFIELYNTGSKAVDLSGWKLQDASGG----TYTFPNGTTLAPGQTVVVWTGSgtnsATA 76

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2244985505 297 THSPPTDLVWKAQNTWgcgnslrTALINSTGEEVAMR 333
Cdd:pfam00932  77 GYWGPSNAVWNNGGDA-------VALYDANGELVDSV 106
 
Name Accession Description Interval E-value
Filament pfam00038
Intermediate filament protein;
104-178 3.34e-30

Intermediate filament protein;


Pssm-ID: 459643 [Multi-domain]  Cd Length: 313  Bit Score: 119.25  E-value: 3.34e-30
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2244985505 104 QLAAKEAKLRDLEDSLARERDTSRRLLAEKEREMAEMRARMQQQLDEYQELLDIKLALDMEIHAYRKLLEGEEER 178
Cdd:pfam00038 239 QKASLERQLAETEERYELQLADYQELISELEAELQETRQEMARQLREYQELLNVKLALDIEIATYRKLLEGEECR 313
LTD pfam00932
Lamin Tail Domain; The lamin-tail domain (LTD), which has an immunoglobulin (Ig) fold, is ...
 226-333 1.85e-21

Lamin Tail Domain; The lamin-tail domain (LTD), which has an immunoglobulin (Ig) fold, is found in Nuclear Lamins, Chlo1887 from Chloroflexus, and several bacterial proteins where it occurs with membrane associated hydrolases of the metallo-beta-lactamase,synaptojanin, and calcineurin-like phosphoesterase superfamilies.


Pssm-ID: 460003 [Multi-domain]  Cd Length: 108  Bit Score: 89.02  E-value: 1.85e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2244985505 226 ARTSGRVAVEEVDEEG-----KFVRLRNKSNEDQSMGNWQIKRQNGDdpllTYRFPPKFTLKAGQVVTIWAAG----AGA 296
Cdd:pfam00932   1 SSATGDVVISEVVYDGsggndEFIELYNTGSKAVDLSGWKLQDASGG----TYTFPNGTTLAPGQTVVVWTGSgtnsATA 76

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2244985505 297 THSPPTDLVWKAQNTWgcgnslrTALINSTGEEVAMR 333
Cdd:pfam00932  77 GYWGPSNAVWNNGGDA-------VALYDANGELVDSV 106
DR0291 COG1579
Predicted nucleic acid-binding protein DR0291, contains C4-type Zn-ribbon domain [General ...
 102-179 2.14e-04

Predicted nucleic acid-binding protein DR0291, contains C4-type Zn-ribbon domain [General function prediction only];


Pssm-ID: 441187 [Multi-domain]  Cd Length: 236  Bit Score: 42.60  E-value: 2.14e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2244985505 102 PLQLAAKEAKLRDLEDSLAR---ERDTSRRLLAEKEREMAEMRARM---QQQLD------EYQELL-------------- 155
Cdd:COG1579    30 PAELAELEDELAALEARLEAaktELEDLEKEIKRLELEIEEVEARIkkyEEQLGnvrnnkEYEALQkeieslkrrisdle 109

                          90       100
                  ....*....|....*....|....
gi 2244985505 156 DIKLALDMEIHAYRKLLEGEEERL 179
Cdd:COG1579   110 DEILELMERIEELEEELAELEAEL 133
OmpH smart00935
Outer membrane protein (OmpH-like); This family includes outer membrane proteins such as OmpH ...
 104-155 7.82e-04

Outer membrane protein (OmpH-like); This family includes outer membrane proteins such as OmpH among others. Skp (OmpH) has been characterized as a molecular chaperone that interacts with unfolded proteins as they emerge in the periplasm from the Sec translocation machinery.


Pssm-ID: 214922 [Multi-domain]  Cd Length: 140  Bit Score: 39.49  E-value: 7.82e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|...
gi 2244985505  104 QLAAKEAKLRDLEDSLARERDT-SRRLLAEKEREMAEMRARMQQQLDEYQELL 155
Cdd:smart00935  33 ELEKLEKELQKLKEKLQKDAATlSEAAREKKEKELQKKVQEFQRKQQKLQQDL 85
PRK03918 PRK03918
DNA double-strand break repair ATPase Rad50;
103-179 9.13e-03

DNA double-strand break repair ATPase Rad50;


Pssm-ID: 235175 [Multi-domain]  Cd Length: 880  Bit Score: 38.51  E-value: 9.13e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2244985505 103 LQLAAKEAKLRDLEDSLARERDT---SRRLLAEKEREMAEMRARMQQQL-----DEYQELLDIKLALDMEIHAYRKLLEG 174
Cdd:PRK03918  605 LELKDAEKELEREEKELKKLEEEldkAFEELAETEKRLEELRKELEELEkkyseEEYEELREEYLELSRELAGLRAELEE 684


                  ....*
gi 2244985505 175 EEERL 179
Cdd:PRK03918  685 LEKRR 689
 
Name Accession Description Interval E-value
Filament pfam00038
Intermediate filament protein;
104-178 3.34e-30

Intermediate filament protein;


Pssm-ID: 459643 [Multi-domain]  Cd Length: 313  Bit Score: 119.25  E-value: 3.34e-30
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2244985505 104 QLAAKEAKLRDLEDSLARERDTSRRLLAEKEREMAEMRARMQQQLDEYQELLDIKLALDMEIHAYRKLLEGEEER 178
Cdd:pfam00038 239 QKASLERQLAETEERYELQLADYQELISELEAELQETRQEMARQLREYQELLNVKLALDIEIATYRKLLEGEECR 313
LTD pfam00932
Lamin Tail Domain; The lamin-tail domain (LTD), which has an immunoglobulin (Ig) fold, is ...
 226-333 1.85e-21

Lamin Tail Domain; The lamin-tail domain (LTD), which has an immunoglobulin (Ig) fold, is found in Nuclear Lamins, Chlo1887 from Chloroflexus, and several bacterial proteins where it occurs with membrane associated hydrolases of the metallo-beta-lactamase,synaptojanin, and calcineurin-like phosphoesterase superfamilies.


Pssm-ID: 460003 [Multi-domain]  Cd Length: 108  Bit Score: 89.02  E-value: 1.85e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2244985505 226 ARTSGRVAVEEVDEEG-----KFVRLRNKSNEDQSMGNWQIKRQNGDdpllTYRFPPKFTLKAGQVVTIWAAG----AGA 296
Cdd:pfam00932   1 SSATGDVVISEVVYDGsggndEFIELYNTGSKAVDLSGWKLQDASGG----TYTFPNGTTLAPGQTVVVWTGSgtnsATA 76

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2244985505 297 THSPPTDLVWKAQNTWgcgnslrTALINSTGEEVAMR 333
Cdd:pfam00932  77 GYWGPSNAVWNNGGDA-------VALYDANGELVDSV 106
DR0291 COG1579
Predicted nucleic acid-binding protein DR0291, contains C4-type Zn-ribbon domain [General ...
 102-179 2.14e-04

Predicted nucleic acid-binding protein DR0291, contains C4-type Zn-ribbon domain [General function prediction only];


Pssm-ID: 441187 [Multi-domain]  Cd Length: 236  Bit Score: 42.60  E-value: 2.14e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2244985505 102 PLQLAAKEAKLRDLEDSLAR---ERDTSRRLLAEKEREMAEMRARM---QQQLD------EYQELL-------------- 155
Cdd:COG1579    30 PAELAELEDELAALEARLEAaktELEDLEKEIKRLELEIEEVEARIkkyEEQLGnvrnnkEYEALQkeieslkrrisdle 109

                          90       100
                  ....*....|....*....|....
gi 2244985505 156 DIKLALDMEIHAYRKLLEGEEERL 179
Cdd:COG1579   110 DEILELMERIEELEEELAELEAEL 133
OmpH smart00935
Outer membrane protein (OmpH-like); This family includes outer membrane proteins such as OmpH ...
 104-155 7.82e-04

Outer membrane protein (OmpH-like); This family includes outer membrane proteins such as OmpH among others. Skp (OmpH) has been characterized as a molecular chaperone that interacts with unfolded proteins as they emerge in the periplasm from the Sec translocation machinery.


Pssm-ID: 214922 [Multi-domain]  Cd Length: 140  Bit Score: 39.49  E-value: 7.82e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|...
gi 2244985505  104 QLAAKEAKLRDLEDSLARERDT-SRRLLAEKEREMAEMRARMQQQLDEYQELL 155
Cdd:smart00935  33 ELEKLEKELQKLKEKLQKDAATlSEAAREKKEKELQKKVQEFQRKQQKLQQDL 85
Apolipoprotein pfam01442
Apolipoprotein A1/A4/E domain; These proteins contain several 22 residue repeats which form a ...
 110-239 1.25e-03

Apolipoprotein A1/A4/E domain; These proteins contain several 22 residue repeats which form a pair of alpha helices. This family includes: Apolipoprotein A-I. Apolipoprotein A-IV. Apolipoprotein E.


Pssm-ID: 460211 [Multi-domain]  Cd Length: 175  Bit Score: 39.55  E-value: 1.25e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2244985505 110 AKLRDLEDSLARE-RDTSRRLLAEKE-------REMAEMRARMQQQLDEYQELL-----DIKLALDMEIHAYRKLLEGEE 176
Cdd:pfam01442  11 TYAEELQEQLGPVaQELVDRLEKETEalrerlqKDLEEVRAKLEPYLEELQAKLgqnveELRQRLEPYTEELRKRLNADA 90

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2244985505 177 ERLRLSPSPTSQRSRGRASSHSSQTQGggsvtkkrKLE--STESRSSFSQHARTSGRVAVEEVDE 239
Cdd:pfam01442  91 EELQEKLAPYGEELRERLEQNVDALRA--------RLApyAEELRQKLAERLEELKESLAPYAEE 147
EnvC COG4942
Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ...
 104-193 1.90e-03

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 443969 [Multi-domain]  Cd Length: 377  Bit Score: 40.52  E-value: 1.90e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2244985505 104 QLAAKEAKLRDLEDSLARERDTSRRLLAEKEREMAEMRARMQQQLDEYQELLDIKLALDMEIhayRKLLEGEEERLRLSP 183
Cdd:COG4942   168 ELEAERAELEALLAELEEERAALEALKAERQKLLARLEKELAELAAELAELQQEAEELEALI---ARLEAEAAAAAERTP 244

                          90
                  ....*....|
gi 2244985505 184 SPTSQRSRGR 193
Cdd:COG4942   245 AAGFAALKGK 254
OmpH pfam03938
Outer membrane protein (OmpH-like); This family includes outer membrane proteins such as OmpH ...
 104-155 2.29e-03

Outer membrane protein (OmpH-like); This family includes outer membrane proteins such as OmpH among others. Skp (OmpH) has been characterized as a molecular chaperone that interacts with unfolded proteins as they emerge in the periplasm from the Sec translocation machinery.


Pssm-ID: 461098 [Multi-domain]  Cd Length: 140  Bit Score: 38.33  E-value: 2.29e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2244985505 104 QLAAKEAKLRDLEDSLARERDTSRRLLAEKEREMAEMRARMQQQLDEYQELL 155
Cdd:pfam03938  34 ELEAKQKELQKLYEELQKDGALLEEEREEKEQELQKKEQELQQLQQKAQQEL 85
CALCOCO1 pfam07888
Calcium binding and coiled-coil domain (CALCOCO1) like; Proteins found in this family are ...
 115-156 3.29e-03

Calcium binding and coiled-coil domain (CALCOCO1) like; Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein coexpressed by Mus musculus (CoCoA/CALCOCO1). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1, and thus enhances transcriptional activation by a number of nuclear receptors. CALCOCO1 has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region.


Pssm-ID: 462303 [Multi-domain]  Cd Length: 488  Bit Score: 39.88  E-value: 3.29e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 2244985505 115 LEDSLARERDTSRRLLAEKEREMAEMRARMQ-------QQLDEYQELLD 156
Cdd:pfam07888 344 LEVELGREKDCNRVQLSESRRELQELKASLRvaqkekeQLQAEKQELLE 392
ClpA COG0542
ATP-dependent Clp protease, ATP-binding subunit ClpA [Posttranslational modification, protein ...
 101-180 3.91e-03

ATP-dependent Clp protease, ATP-binding subunit ClpA [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440308 [Multi-domain]  Cd Length: 836  Bit Score: 39.68  E-value: 3.91e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2244985505 101 TPLQLAAKEAKLRDLE---DSLARERDTS--------RRLLAEKEREMAEMRARMQQQLDEYQELLDIKLALD---MEIH 166
Cdd:COG0542   409 KPEELDELERRLEQLEiekEALKKEQDEAsferlaelRDELAELEEELEALKARWEAEKELIEEIQELKEELEqryGKIP 488

                          90
                  ....*....|....
gi 2244985505 167 AYRKLLEGEEERLR 180
Cdd:COG0542   489 ELEKELAELEEELA 502
Myosin_tail_1 pfam01576
Myosin tail; The myosin molecule is a multi-subunit complex made up of two heavy chains and ...
 105-180 5.64e-03

Myosin tail; The myosin molecule is a multi-subunit complex made up of two heavy chains and four light chains it is a fundamental contractile protein found in all eukaryote cell types. This family consists of the coiled-coil myosin heavy chain tail region. The coiled-coil is composed of the tail from two molecules of myosin. These can then assemble into the macromolecular thick filament. The coiled-coil region provides the structural backbone the thick filament.


Pssm-ID: 460256 [Multi-domain]  Cd Length: 1081  Bit Score: 39.39  E-value: 5.64e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2244985505  105 LAAKEAKLRDLEDSL---ARERDTSRRLLAEKEREMAEMRARMQ---QQLDEYQELLDiKLALDMEiHAYRKLLEGEEER 178
Cdd:pfam01576  969 IAALEAKIAQLEEQLeqeSRERQAANKLVRRTEKKLKEVLLQVEderRHADQYKDQAE-KGNSRMK-QLKRQLEEAEEEA 1046


                   ..
gi 2244985505  179 LR 180
Cdd:pfam01576 1047 SR 1048
LCD1 pfam09798
DNA damage checkpoint protein; This is a family of proteins which regulate checkpoint kinases. ...
 112-220 7.28e-03

DNA damage checkpoint protein; This is a family of proteins which regulate checkpoint kinases. In Schizosaccharomyces pombe this protein is called Rad26 and in Saccharomyces cerevisiae it is called LCD1.


Pssm-ID: 462906  Cd Length: 615  Bit Score: 38.84  E-value: 7.28e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2244985505 112 LRDLEDSLARERDTSRRLLAEKEremAEMRARMQQQLD----EYQELLDIKLALDMEIhayRKLLegeeerlrlSPSPTS 187
Cdd:pfam09798   2 LRDKLELLQQEKEKELEKLKNSY---EELKSSHEEELEklkqEVQKLEDEKKFLLNEL---RSLS---------ATSPAS 66

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2244985505 188 QRSRGRASSHSSQtqgggSVTKKRKLESTESRS 220
Cdd:pfam09798  67 SQSHETDTDDSSS-----VSLKKRKIEESTAES 94
PRK03918 PRK03918
DNA double-strand break repair ATPase Rad50;
103-179 9.13e-03

DNA double-strand break repair ATPase Rad50;


Pssm-ID: 235175 [Multi-domain]  Cd Length: 880  Bit Score: 38.51  E-value: 9.13e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2244985505 103 LQLAAKEAKLRDLEDSLARERDT---SRRLLAEKEREMAEMRARMQQQL-----DEYQELLDIKLALDMEIHAYRKLLEG 174
Cdd:PRK03918  605 LELKDAEKELEREEKELKKLEEEldkAFEELAETEKRLEELRKELEELEkkyseEEYEELREEYLELSRELAGLRAELEE 684


                  ....*
gi 2244985505 175 EEERL 179
Cdd:PRK03918  685 LEKRR 689
 
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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