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Conserved domains on  [gi|530401897|ref|XP_005266216|]
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ankyrin repeat and LEM domain-containing protein 2 isoform X1 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
LEM_ANKL2 cd12944
LEM (Lap2/Emerin/Man1) domain found in ankyrin repeat and LEM domain-containing protein 2 ...
 9-51 1.09e-20

LEM (Lap2/Emerin/Man1) domain found in ankyrin repeat and LEM domain-containing protein 2 (ANKL2); The family includes ANKL2 and similar proteins. Although their biological roles remain unclear, the family members share an N-terminal LEM domain and an ankyrin repeat region. The LEM domain, mainly found in inner nuclear membrane proteins, may be involved in protein- or DNA-binding. The ankyrin repeats are unique motifs mediating protein-protein interactions.


:

Pssm-ID: 240591  Cd Length: 43  Bit Score: 85.56  E-value: 1.09e-20
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 530401897   9 RLKLLNPDDLREEIVKAGLKCGPITSTTRFIFEKKLAQALLEQ 51
Cdd:cd12944    1 RLKKLSPDELREELRKAGLKCGPITSTTRFLFEKKLAQALLEQ 43
ANKYR super family cl34000
Ankyrin repeat [Signal transduction mechanisms];
241-405 3.83e-07

Ankyrin repeat [Signal transduction mechanisms];


The actual alignment was detected with superfamily member COG0666:

Pssm-ID: 440430 [Multi-domain]  Cd Length: 289  Bit Score: 52.65  E-value: 3.83e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530401897 241 NPRTQDLTAKLRKAVEKGEEDTFsdliwsnpRYLIGSGDNPTIVQEGcRYNVMHVAAKENQASICQLTLDVLENPDFMR- 319
Cdd:COG0666   81 NAKDDGGNTLLHAAARNGDLEIV--------KLLLEAGADVNARDKD-GETPLHLAAYNGNLEIVKLLLEAGADVNAQDn 151

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530401897 320 -----LMYpdddeAMLQKRIRyVVDLYL------NTPDKMGYdTPLHFACKFGNADVVNVLSSHHLIVkNSRNKYDKTPE 388
Cdd:COG0666  152 dgntpLHL-----AAANGNLE-IVKLLLeagadvNARDNDGE-TPLHLAAENGHLEIVKLLLEAGADV-NAKDNDGKTAL 223

                        170
                 ....*....|....*..
gi 530401897 389 DVICERSKNKSVELKER 405
Cdd:COG0666  224 DLAAENGNLEIVKLLLE 240
Cauli_VI pfam01693
Caulimovirus viroplasmin; This family consists of various caulimovirus viroplasmin proteins. ...
 137-187 1.59e-05

Caulimovirus viroplasmin; This family consists of various caulimovirus viroplasmin proteins. The viroplasmin protein is encoded by gene VI and is the main component of viral inclusion bodies or viroplasms. Inclusions are the site of viral assembly, DNA synthesis and accumulation. Two domains exist within gene VI corresponding approximately to the 5' third and middle third of gene VI, these influence systemic infection in a light-dependent manner.


:

Pssm-ID: 460297 [Multi-domain]  Cd Length: 44  Bit Score: 42.78  E-value: 1.59e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 530401897  137 YYGVcpvyedvpARNERIYVYENKKEALQAVKMIKGSRFKAFSTREDAEKF 187
Cdd:pfam01693   2 YYAV--------AKGRKPGIYTTWDECKAQVKGFPGAKYKSFKTREEAEAF 44
 
Name Accession Description Interval E-value
LEM_ANKL2 cd12944
LEM (Lap2/Emerin/Man1) domain found in ankyrin repeat and LEM domain-containing protein 2 ...
 9-51 1.09e-20

LEM (Lap2/Emerin/Man1) domain found in ankyrin repeat and LEM domain-containing protein 2 (ANKL2); The family includes ANKL2 and similar proteins. Although their biological roles remain unclear, the family members share an N-terminal LEM domain and an ankyrin repeat region. The LEM domain, mainly found in inner nuclear membrane proteins, may be involved in protein- or DNA-binding. The ankyrin repeats are unique motifs mediating protein-protein interactions.


Pssm-ID: 240591  Cd Length: 43  Bit Score: 85.56  E-value: 1.09e-20
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 530401897   9 RLKLLNPDDLREEIVKAGLKCGPITSTTRFIFEKKLAQALLEQ 51
Cdd:cd12944    1 RLKKLSPDELREELRKAGLKCGPITSTTRFLFEKKLAQALLEQ 43
ANKYR COG0666
Ankyrin repeat [Signal transduction mechanisms];
241-405 3.83e-07

Ankyrin repeat [Signal transduction mechanisms];


Pssm-ID: 440430 [Multi-domain]  Cd Length: 289  Bit Score: 52.65  E-value: 3.83e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530401897 241 NPRTQDLTAKLRKAVEKGEEDTFsdliwsnpRYLIGSGDNPTIVQEGcRYNVMHVAAKENQASICQLTLDVLENPDFMR- 319
Cdd:COG0666   81 NAKDDGGNTLLHAAARNGDLEIV--------KLLLEAGADVNARDKD-GETPLHLAAYNGNLEIVKLLLEAGADVNAQDn 151

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530401897 320 -----LMYpdddeAMLQKRIRyVVDLYL------NTPDKMGYdTPLHFACKFGNADVVNVLSSHHLIVkNSRNKYDKTPE 388
Cdd:COG0666  152 dgntpLHL-----AAANGNLE-IVKLLLeagadvNARDNDGE-TPLHLAAENGHLEIVKLLLEAGADV-NAKDNDGKTAL 223

                        170
                 ....*....|....*..
gi 530401897 389 DVICERSKNKSVELKER 405
Cdd:COG0666  224 DLAAENGNLEIVKLLLE 240
Cauli_VI pfam01693
Caulimovirus viroplasmin; This family consists of various caulimovirus viroplasmin proteins. ...
 137-187 1.59e-05

Caulimovirus viroplasmin; This family consists of various caulimovirus viroplasmin proteins. The viroplasmin protein is encoded by gene VI and is the main component of viral inclusion bodies or viroplasms. Inclusions are the site of viral assembly, DNA synthesis and accumulation. Two domains exist within gene VI corresponding approximately to the 5' third and middle third of gene VI, these influence systemic infection in a light-dependent manner.


Pssm-ID: 460297 [Multi-domain]  Cd Length: 44  Bit Score: 42.78  E-value: 1.59e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 530401897  137 YYGVcpvyedvpARNERIYVYENKKEALQAVKMIKGSRFKAFSTREDAEKF 187
Cdd:pfam01693   2 YYAV--------AKGRKPGIYTTWDECKAQVKGFPGAKYKSFKTREEAEAF 44
LEM pfam03020
LEM domain; The LEM domain is 50 residues long and is composed of two parallel alpha helices. ...
 13-44 3.32e-05

LEM domain; The LEM domain is 50 residues long and is composed of two parallel alpha helices. This domain is found in inner nuclear membrane proteins. It is called the LEM domain after LAP2, Emerin and Man1.


Pssm-ID: 460781  Cd Length: 40  Bit Score: 41.70  E-value: 3.32e-05
                          10        20        30
                  ....*....|....*....|....*....|..
gi 530401897   13 LNPDDLREEIVKAGLKCGPITSTTRFIFEKKL 44
Cdd:pfam03020   5 LSDEELREQLKEYGVSPGPITATTRKLYEKKL 36
LEM smart00540
in nuclear membrane-associated proteins; LEM, domain in nuclear membrane-associated proteins, ...
 13-44 1.58e-03

in nuclear membrane-associated proteins; LEM, domain in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 and emerin.


Pssm-ID: 128813  Cd Length: 44  Bit Score: 36.93  E-value: 1.58e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 530401897    13 LNPDDLREEIVKAGLKCGPITSTTRFIFEKKL 44
Cdd:smart00540   6 LSDAELRAELKQYGLPPGPITDTTRKLYEKKL 37
Ank_2 pfam12796
Ankyrin repeats (3 copies);
293-372 1.86e-03

Ankyrin repeats (3 copies);


Pssm-ID: 463710 [Multi-domain]  Cd Length: 91  Bit Score: 38.17  E-value: 1.86e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530401897  293 MHVAAKENQASICQLTLDVLENPDFMR------LMYpdddeAMLQKR---IRYVVDlYLNTPDKMGYDTPLHFACKFGNA 363
Cdd:pfam12796   1 LHLAAKNGNLELVKLLLENGADANLQDkngrtaLHL-----AAKNGHleiVKLLLE-HADVNLKDNGRTALHYAARSGHL 74


                  ....*....
gi 530401897  364 DVVNVLSSH 372
Cdd:pfam12796  75 EIVKLLLEK 83
 
Name Accession Description Interval E-value
LEM_ANKL2 cd12944
LEM (Lap2/Emerin/Man1) domain found in ankyrin repeat and LEM domain-containing protein 2 ...
 9-51 1.09e-20

LEM (Lap2/Emerin/Man1) domain found in ankyrin repeat and LEM domain-containing protein 2 (ANKL2); The family includes ANKL2 and similar proteins. Although their biological roles remain unclear, the family members share an N-terminal LEM domain and an ankyrin repeat region. The LEM domain, mainly found in inner nuclear membrane proteins, may be involved in protein- or DNA-binding. The ankyrin repeats are unique motifs mediating protein-protein interactions.


Pssm-ID: 240591  Cd Length: 43  Bit Score: 85.56  E-value: 1.09e-20
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 530401897   9 RLKLLNPDDLREEIVKAGLKCGPITSTTRFIFEKKLAQALLEQ 51
Cdd:cd12944    1 RLKKLSPDELREELRKAGLKCGPITSTTRFLFEKKLAQALLEQ 43
LEM cd12934
LEM (Lap2/Emerin/Man1) domain found in emerin, lamina-associated polypeptide 2 (LAP2), inner ...
 13-48 3.39e-09

LEM (Lap2/Emerin/Man1) domain found in emerin, lamina-associated polypeptide 2 (LAP2), inner nuclear membrane protein Man1 and similar proteins; The family corresponds to a group of inner nuclear membrane proteins containing LEM domain. Emerin occurs in four phosphorylated forms and plays a role in cell cycle-dependent events. It is absent from the inner nuclear membrane in most patients with X-linked muscular dystrophy. Emerin interacts with A-type and B-type lamins. Man1, also termed LEM domain-containing protein 3 (LEMD3) is an integral protein of the inner nuclear membrane that binds to nuclear lamins and emerin, thus playing a role in nuclear organization. LAP2, also termed thymopoietin (TP), or thymopoietin-related peptide (TPRP), is composed of isoform alpha and isoforms beta/gamma and may be involved in chromatin organization and post-mitotic reassembly. Some LAP2 isoforms are inner nuclear membrane proteins that can bind to nuclear lamins and chromatin, while others are non-membrane nuclear polypeptides. This family also contains LEM domain-containing protein LEMP-1 and LEM2. LEMP-1, also termed cancer/testis antigen 50 (CT50), is encoded by LEMD1, a novel testis-specific gene expressed in colorectal cancers. LEMP-1 may function as a cancer-testis antigen for immunotherapy of colorectal carcinoma (CRC). LEM2, also termed LEMD2, is a novel Man1-related ubiquitously expressed inner nuclear membrane protein required for normal nuclear envelope morphology. Association with lamin A is required for its proper nuclear envelope localization while its binding to lamin C plays an important role in the organization of lamin A/C complexes. Some uncharacterized LEM domain-containing proteins are also included in this family. Unlike other family members, these harbor an ankyrin repeat region that may mediate protein-protein interactions.


Pssm-ID: 240585  Cd Length: 37  Bit Score: 52.79  E-value: 3.39e-09
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 530401897  13 LNPDDLREEIVKAGLKCGPITSTTRFIFEKKLAQAL 48
Cdd:cd12934    1 LSDDELRRELKELGEPPGPITDTTRKVYLKKLAKLL 36
LEM_LAP2_LEMD1 cd12940
LEM (Lap2/Emerin/Man1) domain found in lamina-associated polypeptide 2 (LAP2), LEM ...
 10-51 7.09e-08

LEM (Lap2/Emerin/Man1) domain found in lamina-associated polypeptide 2 (LAP2), LEM domain-containing protein 1 (LEMP-1) and similar proteins; This CD corresponds to the LEM domain of LAP2, LEMP-1 and similar proteins. LAP2, also termed thymopoietin (TP), or thymopoietin-related peptide (TPRP), is composed of isoform alpha and isoforms beta/gamma and may be involved in chromatin organization and post-mitotic reassembly. Some of LAP2 isoforms are inner nuclear membrane proteins that can bind to nuclear lamins and chromatin, while others are non-membrane nuclear polypeptides. All LAP2 isoforms contain an N-terminal LEM domain that is connected to a highly divergent LEM-like domain by an unstructured linker. Although LEM and LEM-like domains share the same structural fold composed of two large parallel alpha helices, the biochemical nature of the solvent-accessible residues is completely different, indicating that the two domains may target different protein surfaces. The LEM domain interacts with the nonspecific DNA binding protein barrier-to-autointegration factor (BAF) while the LEM-like domain is involved in chromosome binding. LEMP-1, also termed cancer/testis antigen 50 (CT50), is encoded by LEMD1, a novel testis-specific gene expressed in colorectal cancers. It may function as a cancer-testis antigen for immunotherapy of colorectal carcinoma (CRC). LEMP-1 contains an N-terminal LEM domain.


Pssm-ID: 240587  Cd Length: 42  Bit Score: 49.22  E-value: 7.09e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 530401897  10 LKLLNPDDLREEIVKAGLKCGPITSTTRFIFEKKLaQALLEQ 51
Cdd:cd12940    2 VTELSDEELKAQLLKYGVKPGPITASTRKLYEKKL-QKLLDQ 42
ANKYR COG0666
Ankyrin repeat [Signal transduction mechanisms];
241-405 3.83e-07

Ankyrin repeat [Signal transduction mechanisms];


Pssm-ID: 440430 [Multi-domain]  Cd Length: 289  Bit Score: 52.65  E-value: 3.83e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530401897 241 NPRTQDLTAKLRKAVEKGEEDTFsdliwsnpRYLIGSGDNPTIVQEGcRYNVMHVAAKENQASICQLTLDVLENPDFMR- 319
Cdd:COG0666   81 NAKDDGGNTLLHAAARNGDLEIV--------KLLLEAGADVNARDKD-GETPLHLAAYNGNLEIVKLLLEAGADVNAQDn 151

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530401897 320 -----LMYpdddeAMLQKRIRyVVDLYL------NTPDKMGYdTPLHFACKFGNADVVNVLSSHHLIVkNSRNKYDKTPE 388
Cdd:COG0666  152 dgntpLHL-----AAANGNLE-IVKLLLeagadvNARDNDGE-TPLHLAAENGHLEIVKLLLEAGADV-NAKDNDGKTAL 223

                        170
                 ....*....|....*..
gi 530401897 389 DVICERSKNKSVELKER 405
Cdd:COG0666  224 DLAAENGNLEIVKLLLE 240
Cauli_VI pfam01693
Caulimovirus viroplasmin; This family consists of various caulimovirus viroplasmin proteins. ...
 137-187 1.59e-05

Caulimovirus viroplasmin; This family consists of various caulimovirus viroplasmin proteins. The viroplasmin protein is encoded by gene VI and is the main component of viral inclusion bodies or viroplasms. Inclusions are the site of viral assembly, DNA synthesis and accumulation. Two domains exist within gene VI corresponding approximately to the 5' third and middle third of gene VI, these influence systemic infection in a light-dependent manner.


Pssm-ID: 460297 [Multi-domain]  Cd Length: 44  Bit Score: 42.78  E-value: 1.59e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 530401897  137 YYGVcpvyedvpARNERIYVYENKKEALQAVKMIKGSRFKAFSTREDAEKF 187
Cdd:pfam01693   2 YYAV--------AKGRKPGIYTTWDECKAQVKGFPGAKYKSFKTREEAEAF 44
LEM pfam03020
LEM domain; The LEM domain is 50 residues long and is composed of two parallel alpha helices. ...
 13-44 3.32e-05

LEM domain; The LEM domain is 50 residues long and is composed of two parallel alpha helices. This domain is found in inner nuclear membrane proteins. It is called the LEM domain after LAP2, Emerin and Man1.


Pssm-ID: 460781  Cd Length: 40  Bit Score: 41.70  E-value: 3.32e-05
                          10        20        30
                  ....*....|....*....|....*....|..
gi 530401897   13 LNPDDLREEIVKAGLKCGPITSTTRFIFEKKL 44
Cdd:pfam03020   5 LSDEELREQLKEYGVSPGPITATTRKLYEKKL 36
LEM smart00540
in nuclear membrane-associated proteins; LEM, domain in nuclear membrane-associated proteins, ...
 13-44 1.58e-03

in nuclear membrane-associated proteins; LEM, domain in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 and emerin.


Pssm-ID: 128813  Cd Length: 44  Bit Score: 36.93  E-value: 1.58e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 530401897    13 LNPDDLREEIVKAGLKCGPITSTTRFIFEKKL 44
Cdd:smart00540   6 LSDAELRAELKQYGLPPGPITDTTRKLYEKKL 37
Ank_2 pfam12796
Ankyrin repeats (3 copies);
293-372 1.86e-03

Ankyrin repeats (3 copies);


Pssm-ID: 463710 [Multi-domain]  Cd Length: 91  Bit Score: 38.17  E-value: 1.86e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530401897  293 MHVAAKENQASICQLTLDVLENPDFMR------LMYpdddeAMLQKR---IRYVVDlYLNTPDKMGYDTPLHFACKFGNA 363
Cdd:pfam12796   1 LHLAAKNGNLELVKLLLENGADANLQDkngrtaLHL-----AAKNGHleiVKLLLE-HADVNLKDNGRTALHYAARSGHL 74


                  ....*....
gi 530401897  364 DVVNVLSSH 372
Cdd:pfam12796  75 EIVKLLLEK 83
LEM_LEMD2 cd12941
LEM (Lap2/Emerin/Man1) domain found in LEM domain-containing protein 2 (LEM2); This CD ...
 13-44 5.95e-03

LEM (Lap2/Emerin/Man1) domain found in LEM domain-containing protein 2 (LEM2); This CD corresponds to the LEM domain that is responsible for the interaction with chromatin protein barrier-to-autointegration factor (BAF). LEM2, also termed LEMD2, is a novel Man1-related ubiquitously expressed inner nuclear membrane protein required for normal nuclear envelope morphology. Association with lamin A is required for its proper nuclear envelope localization. It also binds to lamin C and plays an important role in the organization of lamin A/C complexes. LEM2 contains an N-terminal LEM domain, two putative transmembrane domains and a MAN1-Src1p C-terminal (MSC) domain, but lacks the Man1-specific C-terminal RNA recognition motif (RRM).


Pssm-ID: 240588  Cd Length: 38  Bit Score: 35.27  E-value: 5.95e-03
                         10        20        30
                 ....*....|....*....|....*....|..
gi 530401897  13 LNPDDLREEIVKAGLKCGPITSTTRFIFEKKL 44
Cdd:cd12941    1 LTDAELRRELLALGFRPGPITETTRKVYIKKL 32
Ank_5 pfam13857
Ankyrin repeats (many copies);
342-387 7.67e-03

Ankyrin repeats (many copies);


Pssm-ID: 433530 [Multi-domain]  Cd Length: 56  Bit Score: 35.40  E-value: 7.67e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 530401897  342 LNTPDKMGYdTPLHFACKFGNADVVNVLSSHHLiVKNSRNKYDKTP 387
Cdd:pfam13857   9 LNRLDGEGY-TPLHVAAKYGALEIVRVLLAYGV-DLNLKDEEGLTA 52
 
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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