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Conserved domains on  [gi|6324093|ref|NP_014163|]
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Sin4p [Saccharomyces cerevisiae S288C]

Protein Classification

mediator of RNA polymerase II transcription subunit 16( domain architecture ID 10569238)

mediator of RNA polymerase II transcription subunit 16 (MED16) is a component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes

Gene Ontology:  GO:0016592|GO:0061629
PubMed:  16263706|15175151

Graphical summary

 Zoom to residue level

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List of domain hits

Name Accession Description Interval E-value
Med16 pfam11635
Mediator complex subunit 16; Mediator is a large complex of up to 33 proteins that is ...
178-971 0e+00

Mediator complex subunit 16; Mediator is a large complex of up to 33 proteins that is conserved from plants through fungi to humans - the number and representation of individual subunits varying with species. It is arranged into four different sections, a core, a head, a tail and a kinase-activity part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function. Med16 is one of the subunits of the Tail portion of the Mediator complex and is required for lipopolysaccharide gene-expression. Several members including the human protein, Swiss:Q9Y2X0, have one or more WD40 domains on them, pfam00400.


:

Pssm-ID: 371639  Cd Length: 755  Bit Score: 675.71  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    178 ERKQTRKEYNTSILEFRWLTSSKSVIVSQFCAFDSSSNTYRSRAQQVPPYGVYHPPFIKYACLAIRKNGQIDFWYQFSNS 257
Cdd:pfam11635   1 QRKATPKEPGAQIVGFMWLNNGKPVIAFQAAAKDQTRNIYKYSVQQRRPIGVFHPASNKEACIAIRRSGQLDLWYQFSND 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    258 KDHKKITLQLLDTSNqrfkdlqWLEFARITPMNDDQCMLITTYSKLSKNISFYKLHVNWNLNATKPNVLND------PSL 331
Cdd:pfam11635  81 VSWKKISVQLKPVSE-------LLTHAAIAFTNGGQCILITAYSSVTNKIQFYKVQVNWNVNTTDPHQHTPinsekfPSL 153
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    332 KIQFILSTTLDPTDDE----GHVLKLENLHVVSKSSIEKDpSPEILVLYNVCDTSKSLVKRYRLAPTQlsaeylVILKPD 407
Cdd:pfam11635 154 FLRHIHGKTEDQCDIElrpnNKLLRLTHLDIISATPEPKS-GPEILAVYSIPGGNSSIIVRWQLTSEA------NILHPA 226
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    408 L-NIDRNNSTNQIFQsrRYNLRRHSDIVLDKKVTLITSEMFDAFVSFYFEDGTIESYNQNDWKLETERLISqsqlGKFKN 486
Cdd:pfam11635 227 FdELGSKKSQTQKKP--RSTLRLLDDLYLDRLVISITTTELDNFVAFYYDDGSIQFYDRNTMKVENETING----GYDPN 300
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    487 IIASPLSAGFNYGKLPlppSVEWMKVSPSMCGVI-------VKQYNKKWPQFYAAVQKNyadpekDSINATALAFGYVKS 559
Cdd:pfam11635 301 TITSLFQAGFKFPKIA---NVLWMAVSPSMCGAVyldtdgqLKLKCLELLKFSGVEQSD------LSITSAALALEYCRA 371
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    560 LHKQISAEDLTIAAKTHILRISFLDRKRAKEFITTLLKSLYSFFNISPDAPKEIMDKIITSRPLQKIMLLQLELGSCF-S 638
Cdd:pfam11635 372 TGSDLSSDDILLLIKTHILRVEKLSEKRTRNFITSVISLLHVSINFTLDAPKESLDKLLSSPALQKLLLLQLDLGPADrP 451
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    639 QENIEEMARVILYLKNVLFAFNGVARNFHFAIEQIsnnsnqqqnpklfqtiFSKQDLIHSLIPVAKWFVKFITYLTQEIL 718
Cdd:pfam11635 452 NESVSDIAWVILNLRSISFALNFVARNLQGAIEKA----------------FSRQELLQSLIGNIKWLLDFALYLLQELL 515
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    719 ILINDPTNKEYTLVHGIFGAKMSRTLILSILNEIKKVTQIVAKFPETSYPILNESSTFLKLVLSESPVDFEKFETFLVDV 798
Cdd:pfam11635 516 QLVNQPLKTDNSLVLGILLSKVPRAFLLKIIRALGRIHELLVKLPEDLYPLWGESKESLLPVYNNSPVNLDVFETFLREL 595
                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    799 NNKFIALCEQ--QPSQEREFSLLVKAEIPPEYAKVGDFLLQYANNAVISHANAAAVYFADTSGLKISNSEFFNPEIFHLL 876
Cdd:pfam11635 596 DNLVLKAYEPagFGDIEREPELLVECEIPPSLPQLVKFLLTTTSSSLLSEVDLSALYFYDTSWLGIGEDKRFENYVRTLL 675
                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    877 QPLEEGLIidtdklpiknrtSKSFSKLLYDDVTCDKLSVSEISDGK--LKRCSRCGSVTRAGNIISSDKTIVPTSiqtkr 954
Cdd:pfam11635 676 VDIIKGLV------------SSSFSKLGYDDSVYDTVRKLQLGKGKtqLRRCTRCGCVSEVGYPLVRKATAVKAS----- 738
                         810
                  ....*....|....*..
gi 6324093    955 WPTMYTRLCICSGMLFE 971
Cdd:pfam11635 739 WTMGWLRTCICGGAWYL 755
 
Name Accession Description Interval E-value
Med16 pfam11635
Mediator complex subunit 16; Mediator is a large complex of up to 33 proteins that is ...
178-971 0e+00

Mediator complex subunit 16; Mediator is a large complex of up to 33 proteins that is conserved from plants through fungi to humans - the number and representation of individual subunits varying with species. It is arranged into four different sections, a core, a head, a tail and a kinase-activity part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function. Med16 is one of the subunits of the Tail portion of the Mediator complex and is required for lipopolysaccharide gene-expression. Several members including the human protein, Swiss:Q9Y2X0, have one or more WD40 domains on them, pfam00400.


Pssm-ID: 371639  Cd Length: 755  Bit Score: 675.71  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    178 ERKQTRKEYNTSILEFRWLTSSKSVIVSQFCAFDSSSNTYRSRAQQVPPYGVYHPPFIKYACLAIRKNGQIDFWYQFSNS 257
Cdd:pfam11635   1 QRKATPKEPGAQIVGFMWLNNGKPVIAFQAAAKDQTRNIYKYSVQQRRPIGVFHPASNKEACIAIRRSGQLDLWYQFSND 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    258 KDHKKITLQLLDTSNqrfkdlqWLEFARITPMNDDQCMLITTYSKLSKNISFYKLHVNWNLNATKPNVLND------PSL 331
Cdd:pfam11635  81 VSWKKISVQLKPVSE-------LLTHAAIAFTNGGQCILITAYSSVTNKIQFYKVQVNWNVNTTDPHQHTPinsekfPSL 153
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    332 KIQFILSTTLDPTDDE----GHVLKLENLHVVSKSSIEKDpSPEILVLYNVCDTSKSLVKRYRLAPTQlsaeylVILKPD 407
Cdd:pfam11635 154 FLRHIHGKTEDQCDIElrpnNKLLRLTHLDIISATPEPKS-GPEILAVYSIPGGNSSIIVRWQLTSEA------NILHPA 226
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    408 L-NIDRNNSTNQIFQsrRYNLRRHSDIVLDKKVTLITSEMFDAFVSFYFEDGTIESYNQNDWKLETERLISqsqlGKFKN 486
Cdd:pfam11635 227 FdELGSKKSQTQKKP--RSTLRLLDDLYLDRLVISITTTELDNFVAFYYDDGSIQFYDRNTMKVENETING----GYDPN 300
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    487 IIASPLSAGFNYGKLPlppSVEWMKVSPSMCGVI-------VKQYNKKWPQFYAAVQKNyadpekDSINATALAFGYVKS 559
Cdd:pfam11635 301 TITSLFQAGFKFPKIA---NVLWMAVSPSMCGAVyldtdgqLKLKCLELLKFSGVEQSD------LSITSAALALEYCRA 371
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    560 LHKQISAEDLTIAAKTHILRISFLDRKRAKEFITTLLKSLYSFFNISPDAPKEIMDKIITSRPLQKIMLLQLELGSCF-S 638
Cdd:pfam11635 372 TGSDLSSDDILLLIKTHILRVEKLSEKRTRNFITSVISLLHVSINFTLDAPKESLDKLLSSPALQKLLLLQLDLGPADrP 451
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    639 QENIEEMARVILYLKNVLFAFNGVARNFHFAIEQIsnnsnqqqnpklfqtiFSKQDLIHSLIPVAKWFVKFITYLTQEIL 718
Cdd:pfam11635 452 NESVSDIAWVILNLRSISFALNFVARNLQGAIEKA----------------FSRQELLQSLIGNIKWLLDFALYLLQELL 515
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    719 ILINDPTNKEYTLVHGIFGAKMSRTLILSILNEIKKVTQIVAKFPETSYPILNESSTFLKLVLSESPVDFEKFETFLVDV 798
Cdd:pfam11635 516 QLVNQPLKTDNSLVLGILLSKVPRAFLLKIIRALGRIHELLVKLPEDLYPLWGESKESLLPVYNNSPVNLDVFETFLREL 595
                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    799 NNKFIALCEQ--QPSQEREFSLLVKAEIPPEYAKVGDFLLQYANNAVISHANAAAVYFADTSGLKISNSEFFNPEIFHLL 876
Cdd:pfam11635 596 DNLVLKAYEPagFGDIEREPELLVECEIPPSLPQLVKFLLTTTSSSLLSEVDLSALYFYDTSWLGIGEDKRFENYVRTLL 675
                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    877 QPLEEGLIidtdklpiknrtSKSFSKLLYDDVTCDKLSVSEISDGK--LKRCSRCGSVTRAGNIISSDKTIVPTSiqtkr 954
Cdd:pfam11635 676 VDIIKGLV------------SSSFSKLGYDDSVYDTVRKLQLGKGKtqLRRCTRCGCVSEVGYPLVRKATAVKAS----- 738
                         810
                  ....*....|....*..
gi 6324093    955 WPTMYTRLCICSGMLFE 971
Cdd:pfam11635 739 WTMGWLRTCICGGAWYL 755
 
Name Accession Description Interval E-value
Med16 pfam11635
Mediator complex subunit 16; Mediator is a large complex of up to 33 proteins that is ...
178-971 0e+00

Mediator complex subunit 16; Mediator is a large complex of up to 33 proteins that is conserved from plants through fungi to humans - the number and representation of individual subunits varying with species. It is arranged into four different sections, a core, a head, a tail and a kinase-activity part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function. Med16 is one of the subunits of the Tail portion of the Mediator complex and is required for lipopolysaccharide gene-expression. Several members including the human protein, Swiss:Q9Y2X0, have one or more WD40 domains on them, pfam00400.


Pssm-ID: 371639  Cd Length: 755  Bit Score: 675.71  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    178 ERKQTRKEYNTSILEFRWLTSSKSVIVSQFCAFDSSSNTYRSRAQQVPPYGVYHPPFIKYACLAIRKNGQIDFWYQFSNS 257
Cdd:pfam11635   1 QRKATPKEPGAQIVGFMWLNNGKPVIAFQAAAKDQTRNIYKYSVQQRRPIGVFHPASNKEACIAIRRSGQLDLWYQFSND 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    258 KDHKKITLQLLDTSNqrfkdlqWLEFARITPMNDDQCMLITTYSKLSKNISFYKLHVNWNLNATKPNVLND------PSL 331
Cdd:pfam11635  81 VSWKKISVQLKPVSE-------LLTHAAIAFTNGGQCILITAYSSVTNKIQFYKVQVNWNVNTTDPHQHTPinsekfPSL 153
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    332 KIQFILSTTLDPTDDE----GHVLKLENLHVVSKSSIEKDpSPEILVLYNVCDTSKSLVKRYRLAPTQlsaeylVILKPD 407
Cdd:pfam11635 154 FLRHIHGKTEDQCDIElrpnNKLLRLTHLDIISATPEPKS-GPEILAVYSIPGGNSSIIVRWQLTSEA------NILHPA 226
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    408 L-NIDRNNSTNQIFQsrRYNLRRHSDIVLDKKVTLITSEMFDAFVSFYFEDGTIESYNQNDWKLETERLISqsqlGKFKN 486
Cdd:pfam11635 227 FdELGSKKSQTQKKP--RSTLRLLDDLYLDRLVISITTTELDNFVAFYYDDGSIQFYDRNTMKVENETING----GYDPN 300
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    487 IIASPLSAGFNYGKLPlppSVEWMKVSPSMCGVI-------VKQYNKKWPQFYAAVQKNyadpekDSINATALAFGYVKS 559
Cdd:pfam11635 301 TITSLFQAGFKFPKIA---NVLWMAVSPSMCGAVyldtdgqLKLKCLELLKFSGVEQSD------LSITSAALALEYCRA 371
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    560 LHKQISAEDLTIAAKTHILRISFLDRKRAKEFITTLLKSLYSFFNISPDAPKEIMDKIITSRPLQKIMLLQLELGSCF-S 638
Cdd:pfam11635 372 TGSDLSSDDILLLIKTHILRVEKLSEKRTRNFITSVISLLHVSINFTLDAPKESLDKLLSSPALQKLLLLQLDLGPADrP 451
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    639 QENIEEMARVILYLKNVLFAFNGVARNFHFAIEQIsnnsnqqqnpklfqtiFSKQDLIHSLIPVAKWFVKFITYLTQEIL 718
Cdd:pfam11635 452 NESVSDIAWVILNLRSISFALNFVARNLQGAIEKA----------------FSRQELLQSLIGNIKWLLDFALYLLQELL 515
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    719 ILINDPTNKEYTLVHGIFGAKMSRTLILSILNEIKKVTQIVAKFPETSYPILNESSTFLKLVLSESPVDFEKFETFLVDV 798
Cdd:pfam11635 516 QLVNQPLKTDNSLVLGILLSKVPRAFLLKIIRALGRIHELLVKLPEDLYPLWGESKESLLPVYNNSPVNLDVFETFLREL 595
                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    799 NNKFIALCEQ--QPSQEREFSLLVKAEIPPEYAKVGDFLLQYANNAVISHANAAAVYFADTSGLKISNSEFFNPEIFHLL 876
Cdd:pfam11635 596 DNLVLKAYEPagFGDIEREPELLVECEIPPSLPQLVKFLLTTTSSSLLSEVDLSALYFYDTSWLGIGEDKRFENYVRTLL 675
                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324093    877 QPLEEGLIidtdklpiknrtSKSFSKLLYDDVTCDKLSVSEISDGK--LKRCSRCGSVTRAGNIISSDKTIVPTSiqtkr 954
Cdd:pfam11635 676 VDIIKGLV------------SSSFSKLGYDDSVYDTVRKLQLGKGKtqLRRCTRCGCVSEVGYPLVRKATAVKAS----- 738
                         810
                  ....*....|....*..
gi 6324093    955 WPTMYTRLCICSGMLFE 971
Cdd:pfam11635 739 WTMGWLRTCICGGAWYL 755
 
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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