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Conserved domains on  [gi|145334177|ref|NP_001078469|]
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Mnd1 family protein [Arabidopsis thaliana]

Protein Classification

meiotic nuclear division 1 family protein( domain architecture ID 1013224)

meiotic nuclear division 1 (MND1) family protein such as human MND1 homolog that is required for proper homologous chromosome pairing and efficient cross-over and intragenic recombination during meiosis

Gene Ontology:  GO:0003690|GO:0007131
PubMed:  11940665|25740648
SCOP:  4004373|4007688

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG5124 super family cl34914
Protein predicted to be involved in meiotic recombination [Cell division and chromosome ...
 1-193 6.63e-30

Protein predicted to be involved in meiotic recombination [Cell division and chromosome partitioning / General function prediction only];


The actual alignment was detected with superfamily member COG5124:

Pssm-ID: 227453 [Multi-domain]  Cd Length: 209  Bit Score: 110.04  E-value: 6.63e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145334177   1 MLQIFYESQDFFLLKELEKMGPKKGVISQSVKDVIQSLVDDDLVAKDKIGISIYFWSLPSCAGNQLRSVRQKLESDLQGS 80
Cdd:COG5124   15 LEAIFHDSKDFFQLKEVEKLGSKKQIVLMTVKDLLQQLVDDGVVSVEKCGTSNIYWSFKSQTLQKLYDSSELLKKKIQEV 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145334177  81 NKRLAELVDQCEALKKGRE------ESEERTEALTQLKDIEKkhKDLKNEMVQFADNDPATLEAKRNAIEVAHQSANRWT 154
Cdd:COG5124   95 KQDIATYKEEIDKEKATRRkkftegQKNYNREALLEKRKKEQ--DEIKKKLNSLQKIEPIRWDAAKIQEKKKKVHLNKTT 172

                        170       180       190
                 ....*....|....*....|....*....|....*....
gi 145334177 155 DNIFTLRQWCSNNFPQAKEQLEhlyTEAGITEDFDYIEL 193
Cdd:COG5124  173 DNIEILIDYLCKKFFLKPEQIR---KEFGIPEDLDEFQE 208
 
Name Accession Description Interval E-value
COG5124 COG5124
Protein predicted to be involved in meiotic recombination [Cell division and chromosome ...
 1-193 6.63e-30

Protein predicted to be involved in meiotic recombination [Cell division and chromosome partitioning / General function prediction only];


Pssm-ID: 227453 [Multi-domain]  Cd Length: 209  Bit Score: 110.04  E-value: 6.63e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145334177   1 MLQIFYESQDFFLLKELEKMGPKKGVISQSVKDVIQSLVDDDLVAKDKIGISIYFWSLPSCAGNQLRSVRQKLESDLQGS 80
Cdd:COG5124   15 LEAIFHDSKDFFQLKEVEKLGSKKQIVLMTVKDLLQQLVDDGVVSVEKCGTSNIYWSFKSQTLQKLYDSSELLKKKIQEV 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145334177  81 NKRLAELVDQCEALKKGRE------ESEERTEALTQLKDIEKkhKDLKNEMVQFADNDPATLEAKRNAIEVAHQSANRWT 154
Cdd:COG5124   95 KQDIATYKEEIDKEKATRRkkftegQKNYNREALLEKRKKEQ--DEIKKKLNSLQKIEPIRWDAAKIQEKKKKVHLNKTT 172

                        170       180       190
                 ....*....|....*....|....*....|....*....
gi 145334177 155 DNIFTLRQWCSNNFPQAKEQLEhlyTEAGITEDFDYIEL 193
Cdd:COG5124  173 DNIEILIDYLCKKFFLKPEQIR---KEFGIPEDLDEFQE 208
Mnd1 pfam03962
Mnd1 HTH domain; This family of proteins includes MND1 from S. cerevisiae. The mnd1 protein ...
 1-59 3.98e-27

Mnd1 HTH domain; This family of proteins includes MND1 from S. cerevisiae. The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair.


Pssm-ID: 461112  Cd Length: 60  Bit Score: 97.96  E-value: 3.98e-27
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 145334177    1 MLQIFYESQDFFLLKELEKMGPK-KGVISQSVKDVIQSLVDDDLVAKDKIGISIYFWSLP 59
Cdd:pfam03962   1 ILEIFHETKDFFTLKELEKLAPKeKGIVSQSVKDVLQSLVDDGLVDVEKIGSSNYYWSFP 60
 
Name Accession Description Interval E-value
COG5124 COG5124
Protein predicted to be involved in meiotic recombination [Cell division and chromosome ...
 1-193 6.63e-30

Protein predicted to be involved in meiotic recombination [Cell division and chromosome partitioning / General function prediction only];


Pssm-ID: 227453 [Multi-domain]  Cd Length: 209  Bit Score: 110.04  E-value: 6.63e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145334177   1 MLQIFYESQDFFLLKELEKMGPKKGVISQSVKDVIQSLVDDDLVAKDKIGISIYFWSLPSCAGNQLRSVRQKLESDLQGS 80
Cdd:COG5124   15 LEAIFHDSKDFFQLKEVEKLGSKKQIVLMTVKDLLQQLVDDGVVSVEKCGTSNIYWSFKSQTLQKLYDSSELLKKKIQEV 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145334177  81 NKRLAELVDQCEALKKGRE------ESEERTEALTQLKDIEKkhKDLKNEMVQFADNDPATLEAKRNAIEVAHQSANRWT 154
Cdd:COG5124   95 KQDIATYKEEIDKEKATRRkkftegQKNYNREALLEKRKKEQ--DEIKKKLNSLQKIEPIRWDAAKIQEKKKKVHLNKTT 172

                        170       180       190
                 ....*....|....*....|....*....|....*....
gi 145334177 155 DNIFTLRQWCSNNFPQAKEQLEhlyTEAGITEDFDYIEL 193
Cdd:COG5124  173 DNIEILIDYLCKKFFLKPEQIR---KEFGIPEDLDEFQE 208
Mnd1 pfam03962
Mnd1 HTH domain; This family of proteins includes MND1 from S. cerevisiae. The mnd1 protein ...
 1-59 3.98e-27

Mnd1 HTH domain; This family of proteins includes MND1 from S. cerevisiae. The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair.


Pssm-ID: 461112  Cd Length: 60  Bit Score: 97.96  E-value: 3.98e-27
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 145334177    1 MLQIFYESQDFFLLKELEKMGPK-KGVISQSVKDVIQSLVDDDLVAKDKIGISIYFWSLP 59
Cdd:pfam03962   1 ILEIFHETKDFFTLKELEKLAPKeKGIVSQSVKDVLQSLVDDGLVDVEKIGSSNYYWSFP 60
LZ3wCH pfam18517
Leucine zipper with capping helix domain; This domain is found at the C-terminal region of ...
 134-191 2.99e-17

Leucine zipper with capping helix domain; This domain is found at the C-terminal region of Hop2 and Mnd1 proteins. In meiotic DNA recombination, the Hop2-Mnd1 complex promotes Dmc1-mediated single-stranded DNA (ssDNA) invasion into homologous chromosomes to form a synaptic complex. Hop2 (for homologous pairing; also known as TBPIP) is expressed specifically during meiosis, same as Mnd1 (for meiotic nuclear divisions 1). The C-terminal region of both Hop2 and Mnd1, folds into three alpha-helices that are interrupted by two short non-helical regions. These alpha-helices of the two proteins together form a parallel coiled coil that provides the major interface for heterodimer formation. The non-helical regions form substantially kinked junctions between adjacent leucine zippers: the LZ1-LZ2 and LZ2-LZ3 junctions.This domain is the C-terminal segment of Hop2 and Mnd1 which folds back onto the C-terminal leucine zipper (LZ3) to form a helical bundle-like structure, hence designated LZ3wCH (for LZ3 with capping helices). The LZ3wCH region plays a role in interacting with the Dmc1 nucleofilament.


Pssm-ID: 465789  Cd Length: 55  Bit Score: 72.57  E-value: 2.99e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 145334177  134 ATLEAKRNAIEVAHQSANRWTDNIFTLRQWCSNNFPQAKEQLEHLYteaGITEDFDYI 191
Cdd:pfam18517   1 ETPEEKKKATKVAKEAANRWTDNIFDIKSWIKEKFPKSKKELNEEF---GIETDEDYG 55
 
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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