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Conserved domains on  [gi|499484950|ref|WP_011171590|]
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multiprotein bridging factor aMBF1 [Methanococcus maripaludis]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
TIGR00270 super family cl42868
TIGR00270 family protein; [Hypothetical proteins, Conserved]
 1-156 1.02e-30

TIGR00270 family protein; [Hypothetical proteins, Conserved]


The actual alignment was detected with superfamily member TIGR00270:

Pssm-ID: 129371 [Multi-domain]  Cd Length: 154  Bit Score: 108.46  E-value: 1.02e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499484950    1 MQCELCGKEVKN-IIKTRVEGVEMNVCEACAKFGmspKGYSRKPRAvfkneTKQKQAKRP---RKDMFDNLKTLVEDYGS 76
Cdd:TIGR00270   1 MNCEICGRKIKGkGFKIVIEGSEMTVCGECRKFG---KEIIKKPTV-----ASQKGARKPvkrKRRKIDTTEELVEDYGI 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499484950   77 LVKEAREKKNMTLEELSRAVGIKESLIHKIERNEIEPEEKYVKILEKALGISFYEE-GDLNYETSNEDSE-FTLGDFIKV 154
Cdd:TIGR00270  73 IIRREREKRGWSQEQLAKKIQEKESLIKKIENAEIEPEPKVVEKLEKLLKIKLREQvPEIKIEKSGRKSLgPTLGDFIKI 152


                  ..
gi 499484950  155 KK 156
Cdd:TIGR00270 153 KK 154
 
Name Accession Description Interval E-value
TIGR00270 TIGR00270
TIGR00270 family protein; [Hypothetical proteins, Conserved]
 1-156 1.02e-30

TIGR00270 family protein; [Hypothetical proteins, Conserved]


Pssm-ID: 129371 [Multi-domain]  Cd Length: 154  Bit Score: 108.46  E-value: 1.02e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499484950    1 MQCELCGKEVKN-IIKTRVEGVEMNVCEACAKFGmspKGYSRKPRAvfkneTKQKQAKRP---RKDMFDNLKTLVEDYGS 76
Cdd:TIGR00270   1 MNCEICGRKIKGkGFKIVIEGSEMTVCGECRKFG---KEIIKKPTV-----ASQKGARKPvkrKRRKIDTTEELVEDYGI 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499484950   77 LVKEAREKKNMTLEELSRAVGIKESLIHKIERNEIEPEEKYVKILEKALGISFYEE-GDLNYETSNEDSE-FTLGDFIKV 154
Cdd:TIGR00270  73 IIRREREKRGWSQEQLAKKIQEKESLIKKIENAEIEPEPKVVEKLEKLLKIKLREQvPEIKIEKSGRKSLgPTLGDFIKI 152


                  ..
gi 499484950  155 KK 156
Cdd:TIGR00270 153 KK 154
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 67-131 4.34e-18

Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and HTH domains [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441418 [Multi-domain]  Cd Length: 70  Bit Score: 73.43  E-value: 4.34e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 499484950  67 LKTLVEDYGSLVKEAREKKNMTLEELSRAVGIKESLIHKIERNEIEPEEKYVKILEKALGISFYE 131
Cdd:COG1813    6 TGELVEDYGERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISLAE 70
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
78-131 1.62e-11

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 55.99  E-value: 1.62e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 499484950    78 VKEAREKKNMTLEELSRAVGIKESLIHKIERNEIEPEEKYVKILEKALGISFYE 131
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDE 55
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 75-131 4.02e-11

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 55.25  E-value: 4.02e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 499484950  75 GSLVKEAREKKNMTLEELSRAVGIKESLIHKIERNEIEPEEKYVKILEKALGISFYE 131
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDE 57
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 78-131 1.89e-10

Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and CI. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteriztic of the whole family.


Pssm-ID: 460181 [Multi-domain]  Cd Length: 55  Bit Score: 53.31  E-value: 1.89e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 499484950   78 VKEAREKKNMTLEELSRAVGIKESLIHKIERNEIEPEEKYVKILEKALGISFYE 131
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDE 54
 
Name Accession Description Interval E-value
TIGR00270 TIGR00270
TIGR00270 family protein; [Hypothetical proteins, Conserved]
 1-156 1.02e-30

TIGR00270 family protein; [Hypothetical proteins, Conserved]


Pssm-ID: 129371 [Multi-domain]  Cd Length: 154  Bit Score: 108.46  E-value: 1.02e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499484950    1 MQCELCGKEVKN-IIKTRVEGVEMNVCEACAKFGmspKGYSRKPRAvfkneTKQKQAKRP---RKDMFDNLKTLVEDYGS 76
Cdd:TIGR00270   1 MNCEICGRKIKGkGFKIVIEGSEMTVCGECRKFG---KEIIKKPTV-----ASQKGARKPvkrKRRKIDTTEELVEDYGI 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499484950   77 LVKEAREKKNMTLEELSRAVGIKESLIHKIERNEIEPEEKYVKILEKALGISFYEE-GDLNYETSNEDSE-FTLGDFIKV 154
Cdd:TIGR00270  73 IIRREREKRGWSQEQLAKKIQEKESLIKKIENAEIEPEPKVVEKLEKLLKIKLREQvPEIKIEKSGRKSLgPTLGDFIKI 152


                  ..
gi 499484950  155 KK 156
Cdd:TIGR00270 153 KK 154
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 67-131 4.34e-18

Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and HTH domains [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441418 [Multi-domain]  Cd Length: 70  Bit Score: 73.43  E-value: 4.34e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 499484950  67 LKTLVEDYGSLVKEAREKKNMTLEELSRAVGIKESLIHKIERNEIEPEEKYVKILEKALGISFYE 131
Cdd:COG1813    6 TGELVEDYGERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISLAE 70
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
78-131 1.62e-11

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 55.99  E-value: 1.62e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 499484950    78 VKEAREKKNMTLEELSRAVGIKESLIHKIERNEIEPEEKYVKILEKALGISFYE 131
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDE 55
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 75-131 4.02e-11

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 55.25  E-value: 4.02e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 499484950  75 GSLVKEAREKKNMTLEELSRAVGIKESLIHKIERNEIEPEEKYVKILEKALGISFYE 131
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDE 57
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 78-131 1.89e-10

Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and CI. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteriztic of the whole family.


Pssm-ID: 460181 [Multi-domain]  Cd Length: 55  Bit Score: 53.31  E-value: 1.89e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 499484950   78 VKEAREKKNMTLEELSRAVGIKESLIHKIERNEIEPEEKYVKILEKALGISFYE 131
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDE 54
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
68-128 2.82e-10

Transcriptional regulator, contains XRE-family HTH domain [Transcription];


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 53.46  E-value: 2.82e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 499484950  68 KTLVEDYGSLVKEAREKKNMTLEELSRAVGIKESLIHKIERNEIEPEEKYVKILEKALGIS 128
Cdd:COG1396    2 STLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVS 62
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
75-131 1.25e-08

DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 49.08  E-value: 1.25e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 499484950  75 GSLVKEAREKKNMTLEELSRAVGIKESLIHKIERNEIEPEEKYVKILEKALGISFYE 131
Cdd:COG1476    6 GNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEE 62
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 75-127 1.72e-08

Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441035 [Multi-domain]  Cd Length: 71  Bit Score: 48.65  E-value: 1.72e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 499484950  75 GSLVKEAREKKNMTLEELSRAVGIKESLIHKIERNEIE--PEEKY----VKILEKALGI 127
Cdd:COG1426    7 GELLRQAREAKGLSLEDVAERTKISVSYLEAIEEGDFDalPGPVYvrgfLRSYARALGL 65
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 75-128 1.51e-06

Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. This family contains many example antitoxins from bacterial toxin-antitoxin systems. These antitoxins are likely to be DNA-binding domains.


Pssm-ID: 463728 [Multi-domain]  Cd Length: 64  Bit Score: 43.43  E-value: 1.51e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 499484950   75 GSLVKEAREKKNMTLEELSRAVGIKESLIHKIERNEIEPEEKYVKILEKALGIS 128
Cdd:pfam12844   1 GERLRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVP 54
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 75-135 4.32e-06

Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain CBS pair) [Transcription];


Pssm-ID: 442838 [Multi-domain]  Cd Length: 95  Bit Score: 42.70  E-value: 4.32e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 499484950  75 GSLVKEAREKKNMTLEELSRAVGIKESLIHKIERNEIEPE----EKYVKILEKAL-GISFYEEGDL 135
Cdd:COG3620   19 GEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTvstlEKIAEALGKELsAVLVVDDGKL 84
HTH_25 pfam13413
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 79-127 5.37e-06

Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433187 [Multi-domain]  Cd Length: 62  Bit Score: 41.71  E-value: 5.37e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 499484950   79 KEAREKKNMTLEELSRAVGIKESLIHKIERNEIE--PEEKYV----KILEKALGI 127
Cdd:pfam13413   3 RAAREARGLSLEDVAERTKIRPRYLEALEEDDFDalPEPVYArgflRSYARALGL 57
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 73-108 2.35e-04

Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433309 [Multi-domain]  Cd Length: 64  Bit Score: 37.51  E-value: 2.35e-04
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 499484950   73 DYGSLVKEAREKKNMTLEELSRAVGIKESLIHKIER 108
Cdd:pfam13560   1 ELGARLRRLRERAGLSQEALARRLGVSRSTLSRLET 36
 
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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