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Conserved domains on  [gi|1034644241|ref|XP_016864729|]
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RNA polymerase II elongation factor ELL2 isoform X3 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
ELL super family cl28770
RNA polymerase II elongation factor ELL; ELL is a family of RNA polymerase II elongation ...
 1-159 6.71e-92

RNA polymerase II elongation factor ELL; ELL is a family of RNA polymerase II elongation factors. It is bound stably to elongation-associated factors 1 and 2, EAFs, and together these act as a strong regulator of transcription activity. by direct interaction with Pol II. ELL binds to pol II on its own but the affinity is greatly increased by the cooperation of EAF. Some members carry an Occludin domain pfam07303 just downstream. There is no S. cerevisiae member.


The actual alignment was detected with superfamily member pfam10390:

Pssm-ID: 463068  Cd Length: 281  Bit Score: 281.48  E-value: 6.71e-92
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034644241   1 MTRERMTQAEEESRNRSTKVIKPGGPYVGKRVQIRKAPQAVSDTVPERKRSTPMNPANTIRKTHSSSTISQRPYRDRVIH 80
Cdd:pfam10390 123 KTRERMAQAEEETRSRSAIVIKPGGTYIGKKVQIRKPAPAASDAAPSRKRSSPSNPASTIRKTNSSSDVSQRPLRERVIH 202

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1034644241  81 LLALKAYKKPELLARLQKDGVNQKDKNSLGAILQQVANLNSKDLSYTLKDYVFKELQRDWPGYSEIDRRSLESVLSRKL 159
Cdd:pfam10390 203 LLALKPYKKPELLLRLQKDGLSQKDKNSLGSILQEVANLNPKDNTYTLKDHLYKEVQKDWPGYSEGDRQLLKRILVRKL 281
Occludin_ELL pfam07303
Occludin homology domain; This domain represents a conserved region approximately 100 residues ...
 400-501 2.11e-46

Occludin homology domain; This domain represents a conserved region approximately 100 residues long within eukaryotic occludin proteins and the RNA polymerase II elongation factor ELL. Occludin is an integral membrane protein that localizes to tight junctions, while ELL is an elongation factor that can increase the catalytic rate of RNA polymerase II transcription by suppressing transient pausing by polymerase at multiple sites along the DNA. This shared domain is thought to mediate protein interactions.


:

Pssm-ID: 462140 [Multi-domain]  Cd Length: 101  Bit Score: 156.92  E-value: 2.11e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034644241 400 YIAIVSYEQRQNYKDDFNAEYDEYRALHARMETVARRFIKLDAQRKRLSPGSKEYQNVHEEVLQEYQKIKQsSPNYHEEK 479
Cdd:pfam07303   1 YPPITSDEQRQRYKQEFNAEYDEYKELHAELDAVSRKFQKLDRELKSLPEGSKEYQDIAEEILQEYKKKKK-DPEYQEKK 79

                          90       100
                  ....*....|....*....|..
gi 1034644241 480 YRCEYLHNKLAHIKRLIGEFDQ 501
Cdd:pfam07303  80 KRCEYLHNKLSHIKRLILEYDQ 101
 
Name Accession Description Interval E-value
ELL pfam10390
RNA polymerase II elongation factor ELL; ELL is a family of RNA polymerase II elongation ...
 1-159 6.71e-92

RNA polymerase II elongation factor ELL; ELL is a family of RNA polymerase II elongation factors. It is bound stably to elongation-associated factors 1 and 2, EAFs, and together these act as a strong regulator of transcription activity. by direct interaction with Pol II. ELL binds to pol II on its own but the affinity is greatly increased by the cooperation of EAF. Some members carry an Occludin domain pfam07303 just downstream. There is no S. cerevisiae member.


Pssm-ID: 463068  Cd Length: 281  Bit Score: 281.48  E-value: 6.71e-92
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034644241   1 MTRERMTQAEEESRNRSTKVIKPGGPYVGKRVQIRKAPQAVSDTVPERKRSTPMNPANTIRKTHSSSTISQRPYRDRVIH 80
Cdd:pfam10390 123 KTRERMAQAEEETRSRSAIVIKPGGTYIGKKVQIRKPAPAASDAAPSRKRSSPSNPASTIRKTNSSSDVSQRPLRERVIH 202

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1034644241  81 LLALKAYKKPELLARLQKDGVNQKDKNSLGAILQQVANLNSKDLSYTLKDYVFKELQRDWPGYSEIDRRSLESVLSRKL 159
Cdd:pfam10390 203 LLALKPYKKPELLLRLQKDGLSQKDKNSLGSILQEVANLNPKDNTYTLKDHLYKEVQKDWPGYSEGDRQLLKRILVRKL 281
Occludin_ELL pfam07303
Occludin homology domain; This domain represents a conserved region approximately 100 residues ...
 400-501 2.11e-46

Occludin homology domain; This domain represents a conserved region approximately 100 residues long within eukaryotic occludin proteins and the RNA polymerase II elongation factor ELL. Occludin is an integral membrane protein that localizes to tight junctions, while ELL is an elongation factor that can increase the catalytic rate of RNA polymerase II transcription by suppressing transient pausing by polymerase at multiple sites along the DNA. This shared domain is thought to mediate protein interactions.


Pssm-ID: 462140 [Multi-domain]  Cd Length: 101  Bit Score: 156.92  E-value: 2.11e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034644241 400 YIAIVSYEQRQNYKDDFNAEYDEYRALHARMETVARRFIKLDAQRKRLSPGSKEYQNVHEEVLQEYQKIKQsSPNYHEEK 479
Cdd:pfam07303   1 YPPITSDEQRQRYKQEFNAEYDEYKELHAELDAVSRKFQKLDRELKSLPEGSKEYQDIAEEILQEYKKKKK-DPEYQEKK 79

                          90       100
                  ....*....|....*....|..
gi 1034644241 480 YRCEYLHNKLAHIKRLIGEFDQ 501
Cdd:pfam07303  80 KRCEYLHNKLSHIKRLILEYDQ 101
 
Name Accession Description Interval E-value
ELL pfam10390
RNA polymerase II elongation factor ELL; ELL is a family of RNA polymerase II elongation ...
 1-159 6.71e-92

RNA polymerase II elongation factor ELL; ELL is a family of RNA polymerase II elongation factors. It is bound stably to elongation-associated factors 1 and 2, EAFs, and together these act as a strong regulator of transcription activity. by direct interaction with Pol II. ELL binds to pol II on its own but the affinity is greatly increased by the cooperation of EAF. Some members carry an Occludin domain pfam07303 just downstream. There is no S. cerevisiae member.


Pssm-ID: 463068  Cd Length: 281  Bit Score: 281.48  E-value: 6.71e-92
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034644241   1 MTRERMTQAEEESRNRSTKVIKPGGPYVGKRVQIRKAPQAVSDTVPERKRSTPMNPANTIRKTHSSSTISQRPYRDRVIH 80
Cdd:pfam10390 123 KTRERMAQAEEETRSRSAIVIKPGGTYIGKKVQIRKPAPAASDAAPSRKRSSPSNPASTIRKTNSSSDVSQRPLRERVIH 202

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1034644241  81 LLALKAYKKPELLARLQKDGVNQKDKNSLGAILQQVANLNSKDLSYTLKDYVFKELQRDWPGYSEIDRRSLESVLSRKL 159
Cdd:pfam10390 203 LLALKPYKKPELLLRLQKDGLSQKDKNSLGSILQEVANLNPKDNTYTLKDHLYKEVQKDWPGYSEGDRQLLKRILVRKL 281
Occludin_ELL pfam07303
Occludin homology domain; This domain represents a conserved region approximately 100 residues ...
 400-501 2.11e-46

Occludin homology domain; This domain represents a conserved region approximately 100 residues long within eukaryotic occludin proteins and the RNA polymerase II elongation factor ELL. Occludin is an integral membrane protein that localizes to tight junctions, while ELL is an elongation factor that can increase the catalytic rate of RNA polymerase II transcription by suppressing transient pausing by polymerase at multiple sites along the DNA. This shared domain is thought to mediate protein interactions.


Pssm-ID: 462140 [Multi-domain]  Cd Length: 101  Bit Score: 156.92  E-value: 2.11e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034644241 400 YIAIVSYEQRQNYKDDFNAEYDEYRALHARMETVARRFIKLDAQRKRLSPGSKEYQNVHEEVLQEYQKIKQsSPNYHEEK 479
Cdd:pfam07303   1 YPPITSDEQRQRYKQEFNAEYDEYKELHAELDAVSRKFQKLDRELKSLPEGSKEYQDIAEEILQEYKKKKK-DPEYQEKK 79

                          90       100
                  ....*....|....*....|..
gi 1034644241 480 YRCEYLHNKLAHIKRLIGEFDQ 501
Cdd:pfam07303  80 KRCEYLHNKLSHIKRLILEYDQ 101
 
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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