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Conserved domains on  [gi|1229805309|ref|XP_022156590|]
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putative lysine-specific demethylase JMJ16 [Momordica charantia]

Protein Classification

lysine-specific demethylase family protein( domain architecture ID 10650807)

lysine-specific demethylase family protein is a jumonji C domain-containing (JMJD) protein and may have histone demethylase activity; contains a C5HC2 zinc finger

CATH:  2.60.120.10
EC:  1.14.11.-
Gene Ontology:  GO:0046872|GO:0032452|GO:0006355|GO:0008270
PubMed:  25372754|37832177|35558079|19478949|14697267|17210253|12665246
SCOP:  3001825

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
JmjC pfam02373
JmjC domain, hydroxylase; The JmjC domain belongs to the Cupin superfamily. JmjC-domain ...
 375-490 9.93e-36

JmjC domain, hydroxylase; The JmjC domain belongs to the Cupin superfamily. JmjC-domain proteins may be protein hydroxylases that catalyze a novel histone modification. This is confirmed to be a hydroxylase: the human JmjC protein named Tyw5p unexpectedly acts in the biosynthesis of a hypermodified nucleoside, hydroxy-wybutosine, in tRNA-Phe by catalysing hydroxylation.


:

Pssm-ID: 396791  Cd Length: 114  Bit Score: 130.88  E-value: 9.93e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1229805309 375 QVYVGMCFSSTCWRVEEHHLPLLCYLHLGAPKIWYGIPGRYIGQFDVAMKnlPEFFVEQKRFHRGMVSQPSIAMLKREGL 454
Cdd:pfam02373   1 WLYLGMPFSTTPWHIEDQGLYSINYLHFGAPKVWYIIPPEYAEKFEKVLS--DHFGGEQPDDLLHLNTIISPKQLRENGI 78

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1229805309 455 PVYRCIQNPGEFVLVFPGACHSGFNCGFSITEEANF 490
Cdd:pfam02373  79 PVYRFVQKPGEFVFTFPGWYHQVFNLGFNIAEAVNF 114
JmjN smart00545
Small domain found in the jumonji family of transcription factors; To date, this domain always ...
 132-173 8.51e-21

Small domain found in the jumonji family of transcription factors; To date, this domain always co-occurs with the JmjC domain (although the reverse is not true).


:

Pssm-ID: 128818  Cd Length: 42  Bit Score: 85.78  E-value: 8.51e-21
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
gi 1229805309  132 EAPVFYPTEEEFADTLQYIERIRPRAESCGICRIVPPPSWLP 173
Cdd:smart00545   1 EIPVFYPTMEEFKDPLAYISKIRPQAEKYGICKVVPPKSWKP 42
zf-C5HC2 pfam02928
C5HC2 zinc finger; Predicted zinc finger with eight potential zinc ligand binding residues. ...
 597-641 5.99e-11

C5HC2 zinc finger; Predicted zinc finger with eight potential zinc ligand binding residues. This domain is found in Jumonji. This domain may have a DNA binding function.


:

Pssm-ID: 460750  Cd Length: 54  Bit Score: 58.41  E-value: 5.99e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1229805309 597 CSICLYDLHLSAAGCPCSADRYSCLNHAKQLCS-CAWGDKFFVVRY 641
Cdd:pfam02928   1 CSFCKAYCYLSAVTCSKCSGKVVCLRHAKELCSdCPPSKRTLLYRY 46
 
Name Accession Description Interval E-value
JmjC pfam02373
JmjC domain, hydroxylase; The JmjC domain belongs to the Cupin superfamily. JmjC-domain ...
 375-490 9.93e-36

JmjC domain, hydroxylase; The JmjC domain belongs to the Cupin superfamily. JmjC-domain proteins may be protein hydroxylases that catalyze a novel histone modification. This is confirmed to be a hydroxylase: the human JmjC protein named Tyw5p unexpectedly acts in the biosynthesis of a hypermodified nucleoside, hydroxy-wybutosine, in tRNA-Phe by catalysing hydroxylation.


Pssm-ID: 396791  Cd Length: 114  Bit Score: 130.88  E-value: 9.93e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1229805309 375 QVYVGMCFSSTCWRVEEHHLPLLCYLHLGAPKIWYGIPGRYIGQFDVAMKnlPEFFVEQKRFHRGMVSQPSIAMLKREGL 454
Cdd:pfam02373   1 WLYLGMPFSTTPWHIEDQGLYSINYLHFGAPKVWYIIPPEYAEKFEKVLS--DHFGGEQPDDLLHLNTIISPKQLRENGI 78

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1229805309 455 PVYRCIQNPGEFVLVFPGACHSGFNCGFSITEEANF 490
Cdd:pfam02373  79 PVYRFVQKPGEFVFTFPGWYHQVFNLGFNIAEAVNF 114
JmjN smart00545
Small domain found in the jumonji family of transcription factors; To date, this domain always ...
 132-173 8.51e-21

Small domain found in the jumonji family of transcription factors; To date, this domain always co-occurs with the JmjC domain (although the reverse is not true).


Pssm-ID: 128818  Cd Length: 42  Bit Score: 85.78  E-value: 8.51e-21
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
gi 1229805309  132 EAPVFYPTEEEFADTLQYIERIRPRAESCGICRIVPPPSWLP 173
Cdd:smart00545   1 EIPVFYPTMEEFKDPLAYISKIRPQAEKYGICKVVPPKSWKP 42
JmjN pfam02375
jmjN domain;
134-167 2.40e-16

jmjN domain;


Pssm-ID: 460542  Cd Length: 34  Bit Score: 73.09  E-value: 2.40e-16
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1229805309 134 PVFYPTEEEFADTLQYIERIRPRAESCGICRIVP 167
Cdd:pfam02375   1 PVFYPTEEEFKDPLKYIEKIRPLGEKYGICKIVP 34
zf-C5HC2 pfam02928
C5HC2 zinc finger; Predicted zinc finger with eight potential zinc ligand binding residues. ...
 597-641 5.99e-11

C5HC2 zinc finger; Predicted zinc finger with eight potential zinc ligand binding residues. This domain is found in Jumonji. This domain may have a DNA binding function.


Pssm-ID: 460750  Cd Length: 54  Bit Score: 58.41  E-value: 5.99e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1229805309 597 CSICLYDLHLSAAGCPCSADRYSCLNHAKQLCS-CAWGDKFFVVRY 641
Cdd:pfam02928   1 CSFCKAYCYLSAVTCSKCSGKVVCLRHAKELCSdCPPSKRTLLYRY 46
JmjC smart00558
A domain family that is part of the cupin metalloenzyme superfamily; Probable enzymes, but of ...
 349-405 1.06e-06

A domain family that is part of the cupin metalloenzyme superfamily; Probable enzymes, but of unknown functions, that regulate chromatin reorganisation processes (Clissold and Ponting, in press).


Pssm-ID: 214721  Cd Length: 58  Bit Score: 46.48  E-value: 1.06e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1229805309  349 NLNNLRRLP--GSLLSFDSFKTCSI-LLPQVYVGMCFSSTCWRVEEHHlpLLCYLHLGAP 405
Cdd:smart00558   1 QLWNLAKLPfkLNLLSDLPEDIPGPdVGPYLYMGMAGSTTPWHIDDYD--LVNYLHQGAG 58
 
Name Accession Description Interval E-value
JmjC pfam02373
JmjC domain, hydroxylase; The JmjC domain belongs to the Cupin superfamily. JmjC-domain ...
 375-490 9.93e-36

JmjC domain, hydroxylase; The JmjC domain belongs to the Cupin superfamily. JmjC-domain proteins may be protein hydroxylases that catalyze a novel histone modification. This is confirmed to be a hydroxylase: the human JmjC protein named Tyw5p unexpectedly acts in the biosynthesis of a hypermodified nucleoside, hydroxy-wybutosine, in tRNA-Phe by catalysing hydroxylation.


Pssm-ID: 396791  Cd Length: 114  Bit Score: 130.88  E-value: 9.93e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1229805309 375 QVYVGMCFSSTCWRVEEHHLPLLCYLHLGAPKIWYGIPGRYIGQFDVAMKnlPEFFVEQKRFHRGMVSQPSIAMLKREGL 454
Cdd:pfam02373   1 WLYLGMPFSTTPWHIEDQGLYSINYLHFGAPKVWYIIPPEYAEKFEKVLS--DHFGGEQPDDLLHLNTIISPKQLRENGI 78

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1229805309 455 PVYRCIQNPGEFVLVFPGACHSGFNCGFSITEEANF 490
Cdd:pfam02373  79 PVYRFVQKPGEFVFTFPGWYHQVFNLGFNIAEAVNF 114
JmjN smart00545
Small domain found in the jumonji family of transcription factors; To date, this domain always ...
 132-173 8.51e-21

Small domain found in the jumonji family of transcription factors; To date, this domain always co-occurs with the JmjC domain (although the reverse is not true).


Pssm-ID: 128818  Cd Length: 42  Bit Score: 85.78  E-value: 8.51e-21
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
gi 1229805309  132 EAPVFYPTEEEFADTLQYIERIRPRAESCGICRIVPPPSWLP 173
Cdd:smart00545   1 EIPVFYPTMEEFKDPLAYISKIRPQAEKYGICKVVPPKSWKP 42
JmjN pfam02375
jmjN domain;
134-167 2.40e-16

jmjN domain;


Pssm-ID: 460542  Cd Length: 34  Bit Score: 73.09  E-value: 2.40e-16
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1229805309 134 PVFYPTEEEFADTLQYIERIRPRAESCGICRIVP 167
Cdd:pfam02375   1 PVFYPTEEEFKDPLKYIEKIRPLGEKYGICKIVP 34
zf-C5HC2 pfam02928
C5HC2 zinc finger; Predicted zinc finger with eight potential zinc ligand binding residues. ...
 597-641 5.99e-11

C5HC2 zinc finger; Predicted zinc finger with eight potential zinc ligand binding residues. This domain is found in Jumonji. This domain may have a DNA binding function.


Pssm-ID: 460750  Cd Length: 54  Bit Score: 58.41  E-value: 5.99e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1229805309 597 CSICLYDLHLSAAGCPCSADRYSCLNHAKQLCS-CAWGDKFFVVRY 641
Cdd:pfam02928   1 CSFCKAYCYLSAVTCSKCSGKVVCLRHAKELCSdCPPSKRTLLYRY 46
JmjC smart00558
A domain family that is part of the cupin metalloenzyme superfamily; Probable enzymes, but of ...
 349-405 1.06e-06

A domain family that is part of the cupin metalloenzyme superfamily; Probable enzymes, but of unknown functions, that regulate chromatin reorganisation processes (Clissold and Ponting, in press).


Pssm-ID: 214721  Cd Length: 58  Bit Score: 46.48  E-value: 1.06e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1229805309  349 NLNNLRRLP--GSLLSFDSFKTCSI-LLPQVYVGMCFSSTCWRVEEHHlpLLCYLHLGAP 405
Cdd:smart00558   1 QLWNLAKLPfkLNLLSDLPEDIPGPdVGPYLYMGMAGSTTPWHIDDYD--LVNYLHQGAG 58
 
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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