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Conserved domains on  [gi|936354371|gb|JAI63371|]
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hypothetical protein PF13384.2 [Scylla olivacea]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 10596854)

helix-turn-helix domain-containing protein functions in DNA binding; HTH domains are often found in transcriptional regulators

Gene Ontology:  GO:0003677|GO:0043565|GO:0006355|GO:0003700
PubMed:  15808743|19076237|10473770|8831795

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_23 pfam13384
Homeodomain-like domain;
14-54 7.50e-11

Homeodomain-like domain;


:

Pssm-ID: 433164 [Multi-domain]  Cd Length: 50  Bit Score: 54.20  E-value: 7.50e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 936354371   14 ERAGFVWLWASGMPVRDIAVRSGTSVTTVYRWIRRWQREGH 54
Cdd:pfam13384   6 RRARALLLLAEGLSVKEIAELLGVSRRTVYRWLKRYNEEGL 46
PRK13042 super family cl32851
superantigen-like protein SSL4; Reviewed;
68-127 6.93e-04

superantigen-like protein SSL4; Reviewed;


The actual alignment was detected with superfamily member PRK13042:

Pssm-ID: 183854 [Multi-domain]  Cd Length: 291  Bit Score: 38.46  E-value: 6.93e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 936354371  68 TTPPPHKQLSPPGEPVATSFASSCASVPSPAPRPGVAPGIQTGTPNFPHPQHARTVTTPR 127
Cdd:PRK13042  43 STPPSTKVEAPQSKPNATTPPSTKVEAPQQTPNATTPSSTKVETPQSPTTKQVPTEINPK 102
 
Name Accession Description Interval E-value
HTH_23 pfam13384
Homeodomain-like domain;
14-54 7.50e-11

Homeodomain-like domain;


Pssm-ID: 433164 [Multi-domain]  Cd Length: 50  Bit Score: 54.20  E-value: 7.50e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 936354371   14 ERAGFVWLWASGMPVRDIAVRSGTSVTTVYRWIRRWQREGH 54
Cdd:pfam13384   6 RRARALLLLAEGLSVKEIAELLGVSRRTVYRWLKRYNEEGL 46
Csa3 COG3415
CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein ...
 5-53 1.66e-08

CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein Csa3, CARF domain is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 442641 [Multi-domain]  Cd Length: 325  Bit Score: 52.16  E-value: 1.66e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 936354371   5 RSFRPTEGHERAGFVWLWASGMPVRDIAVRSGTSVTTVYRWIRRWQREG 53
Cdd:COG3415   18 RKTKDAREARRLRAVLLLAEGLSVREIAERLGVSRSTVYRWLKRYREGG 66
transpos_IS630 NF033545
IS630 family transposase;
14-53 3.92e-06

IS630 family transposase;


Pssm-ID: 468076 [Multi-domain]  Cd Length: 298  Bit Score: 44.94  E-value: 3.92e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 936354371  14 ERAGFVWLWASGMPVRDIAVRSGTSVTTVYRWIRRWQREG 53
Cdd:NF033545   1 RRARILLLAAEGLSITEIAERLGVSRSTVYRWLKRFNEGG 40
transpos_IS481 NF033577
IS481 family transposase; null
 15-53 2.57e-04

IS481 family transposase; null


Pssm-ID: 468094 [Multi-domain]  Cd Length: 283  Bit Score: 39.88  E-value: 2.57e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 936354371  15 RAGFVWLWAS-GMPVRDIAVRSGTSVTTVYRWIRRWQREG 53
Cdd:NF033577   2 RLELVRLVLEdGWSVREAARRFGISRKTVYKWLKRYRAGG 41
PRK13042 PRK13042
superantigen-like protein SSL4; Reviewed;
68-127 6.93e-04

superantigen-like protein SSL4; Reviewed;


Pssm-ID: 183854 [Multi-domain]  Cd Length: 291  Bit Score: 38.46  E-value: 6.93e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 936354371  68 TTPPPHKQLSPPGEPVATSFASSCASVPSPAPRPGVAPGIQTGTPNFPHPQHARTVTTPR 127
Cdd:PRK13042  43 STPPSTKVEAPQSKPNATTPPSTKVEAPQQTPNATTPSSTKVETPQSPTTKQVPTEINPK 102
 
Name Accession Description Interval E-value
HTH_23 pfam13384
Homeodomain-like domain;
14-54 7.50e-11

Homeodomain-like domain;


Pssm-ID: 433164 [Multi-domain]  Cd Length: 50  Bit Score: 54.20  E-value: 7.50e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 936354371   14 ERAGFVWLWASGMPVRDIAVRSGTSVTTVYRWIRRWQREGH 54
Cdd:pfam13384   6 RRARALLLLAEGLSVKEIAELLGVSRRTVYRWLKRYNEEGL 46
HTH_28 pfam13518
Helix-turn-helix domain; This helix-turn-helix domain is often found in transposases and is ...
 14-53 1.36e-08

Helix-turn-helix domain; This helix-turn-helix domain is often found in transposases and is likely to be DNA-binding.


Pssm-ID: 463908 [Multi-domain]  Cd Length: 52  Bit Score: 48.36  E-value: 1.36e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 936354371   14 ERAGFVWLWASGMPVRDIAVRSGTSVTTVYRWIRRWQREG 53
Cdd:pfam13518   1 ERLKIVLLALEGESIKEAARLFGISRSTVYRWIRRYREGG 40
Csa3 COG3415
CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein ...
 5-53 1.66e-08

CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein Csa3, CARF domain is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 442641 [Multi-domain]  Cd Length: 325  Bit Score: 52.16  E-value: 1.66e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 936354371   5 RSFRPTEGHERAGFVWLWASGMPVRDIAVRSGTSVTTVYRWIRRWQREG 53
Cdd:COG3415   18 RKTKDAREARRLRAVLLLAEGLSVREIAERLGVSRSTVYRWLKRYREGG 66
transpos_IS630 NF033545
IS630 family transposase;
14-53 3.92e-06

IS630 family transposase;


Pssm-ID: 468076 [Multi-domain]  Cd Length: 298  Bit Score: 44.94  E-value: 3.92e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 936354371  14 ERAGFVWLWASGMPVRDIAVRSGTSVTTVYRWIRRWQREG 53
Cdd:NF033545   1 RRARILLLAAEGLSITEIAERLGVSRSTVYRWLKRFNEGG 40
HTH_29 pfam13551
Winged helix-turn helix; This helix-turn-helix domain is often found in transferases and is ...
 15-53 7.87e-05

Winged helix-turn helix; This helix-turn-helix domain is often found in transferases and is likely to be DNA-binding.


Pssm-ID: 433301 [Multi-domain]  Cd Length: 64  Bit Score: 38.50  E-value: 7.87e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 936354371   15 RAGFVWLWASGMP-VRDIAVRSGTSVTTVYRWIRRWQREG 53
Cdd:pfam13551   1 RALALLLLAEGVStVSQAARLLGLSRRTVYRWLKRFNEGG 40
transpos_IS481 NF033577
IS481 family transposase; null
 15-53 2.57e-04

IS481 family transposase; null


Pssm-ID: 468094 [Multi-domain]  Cd Length: 283  Bit Score: 39.88  E-value: 2.57e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 936354371  15 RAGFVWLWAS-GMPVRDIAVRSGTSVTTVYRWIRRWQREG 53
Cdd:NF033577   2 RLELVRLVLEdGWSVREAARRFGISRKTVYKWLKRYRAGG 41
PRK13042 PRK13042
superantigen-like protein SSL4; Reviewed;
68-127 6.93e-04

superantigen-like protein SSL4; Reviewed;


Pssm-ID: 183854 [Multi-domain]  Cd Length: 291  Bit Score: 38.46  E-value: 6.93e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 936354371  68 TTPPPHKQLSPPGEPVATSFASSCASVPSPAPRPGVAPGIQTGTPNFPHPQHARTVTTPR 127
Cdd:PRK13042  43 STPPSTKVEAPQSKPNATTPPSTKVEAPQQTPNATTPSSTKVETPQSPTTKQVPTEINPK 102
HTH_7 pfam02796
Helix-turn-helix domain of resolvase;
21-49 9.45e-04

Helix-turn-helix domain of resolvase;


Pssm-ID: 397088 [Multi-domain]  Cd Length: 45  Bit Score: 35.41  E-value: 9.45e-04
                          10        20
                  ....*....|....*....|....*....
gi 936354371   21 LWASGMPVRDIAVRSGTSVTTVYRWIRRW 49
Cdd:pfam02796  17 LLEEGISIKQIAKIFGISRSTVYRYLAAS 45
Tra8 COG2826
Transposase and inactivated derivatives, IS30 family [Mobilome: prophages, transposons];
21-48 1.32e-03

Transposase and inactivated derivatives, IS30 family [Mobilome: prophages, transposons];


Pssm-ID: 442074 [Multi-domain]  Cd Length: 325  Bit Score: 37.55  E-value: 1.32e-03
                         10        20
                 ....*....|....*....|....*...
gi 936354371  21 LWASGMPVRDIAVRSGTSVTTVYRWIRR 48
Cdd:COG2826   18 LLKAGLSVREIARRLGRSPSTISRELKR 45
HTH_38 pfam13936
Helix-turn-helix domain; This helix-turn-helix domain is often found in transferases and is ...
 21-48 5.65e-03

Helix-turn-helix domain; This helix-turn-helix domain is often found in transferases and is likely to be DNA-binding.


Pssm-ID: 433591 [Multi-domain]  Cd Length: 44  Bit Score: 33.25  E-value: 5.65e-03
                          10        20
                  ....*....|....*....|....*...
gi 936354371   21 LWASGMPVRDIAVRSGTSVTTVYRWIRR 48
Cdd:pfam13936  16 LLAEGLSLREIARRLGRSPSTISRELRR 43
 
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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