Protein : Qrob_P0647920.2 Q. robur
Protein Identifier  ? Qrob_P0647920.2 Organism . Name  Quercus robur
Score  98.0 Score Type  egn
Protein Description  (M=1) K03144 - transcription initiation factor TFIIH subunit 4 Gene Prediction Quality  validated
Protein length 

Sequence

Length: 508  
Kegg Orthology  K03144
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0 Synonyms

4 GO Terms

Identifier Name Description
GO:0005634 nucleus A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
GO:0006289 nucleotide-excision repair A DNA repair process in which a small region of the strand surrounding the damage is removed from the DNA helix as an oligonucleotide. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase. Nucleotide excision repair recognizes a wide range of substrates, including damage caused by UV irradiation (pyrimidine dimers and 6-4 photoproducts) and chemicals (intrastrand cross-links and bulky adducts).
GO:0004003 ATP-dependent DNA helicase activity Catalysis of the reaction: ATP + H2O = ADP + phosphate; this reaction drives the unwinding of the DNA helix.
GO:0000439 core TFIIH complex The 7 subunit core of TFIIH that is a part of either the general transcription factor holo-TFIIH or the nucleotide-excision repair factor 3 complex. In S. cerevisiae/humans the complex is composed of: Ssl2/XPB, Tfb1/p62, Tfb2/p52, Ssl1/p44, Tfb4/p34, Tfb5/p8 and Rad3/XPD.

24 Blast

Analysis Hit Start End Strand Length Note Hit Coverage Hit Length Hit Pident E Val Hit Description
blastp_kegg lcl|csv:101206831 1 506 + 506 Gaps:55 100.00 451 85.37 0.0 general transcription factor IIH subunit 4-like
blastp_kegg lcl|pper:PRUPE_ppa005553mg 1 507 + 507 Gaps:58 100.00 455 85.49 0.0 hypothetical protein
blastp_kegg lcl|pmum:103324745 1 507 + 507 Gaps:58 100.00 455 85.05 0.0 general transcription factor IIH subunit 4
blastp_kegg lcl|mdm:103408851 1 507 + 507 Gaps:57 100.00 454 84.58 0.0 general transcription factor IIH subunit 4-like
blastp_kegg lcl|rcu:RCOM_0936010 1 506 + 506 Gaps:55 100.00 451 83.59 0.0 tfiih polypeptide putative
blastp_kegg lcl|pxb:103930366 1 507 + 507 Gaps:57 100.00 454 84.36 0.0 general transcription factor IIH subunit 4
blastp_kegg lcl|sot:102597627 1 507 + 507 Gaps:56 100.00 453 81.90 0.0 general transcription factor IIH subunit 4-like
blastp_kegg lcl|mdm:103446426 1 507 + 507 Gaps:57 100.00 454 82.82 0.0 general transcription factor IIH subunit 4
blastp_kegg lcl|sly:101244148 1 507 + 507 Gaps:56 100.00 453 81.46 0.0 general transcription factor IIH subunit 4-like
blastp_kegg lcl|tcc:TCM_029896 1 507 + 507 Gaps:56 100.00 451 82.48 0.0 Transcription factor-related isoform 1
blastp_uniprot_sprot sp|P60027|TF2H4_PANTR 4 507 + 504 Gaps:59 97.19 462 34.52 2e-74 General transcription factor IIH subunit 4 OS Pan troglodytes GN GTF2H4 PE 3 SV 1
blastp_uniprot_sprot sp|Q92759|TF2H4_HUMAN 4 507 + 504 Gaps:59 97.19 462 34.52 2e-74 General transcription factor IIH subunit 4 OS Homo sapiens GN GTF2H4 PE 2 SV 1
blastp_uniprot_sprot sp|O70422|TF2H4_MOUSE 9 507 + 499 Gaps:59 95.90 463 34.68 9e-74 General transcription factor IIH subunit 4 OS Mus musculus GN Gtf2h4 PE 2 SV 1
blastp_uniprot_sprot sp|Q6CLR2|TFB2_KLULA 13 503 + 491 Gaps:47 96.77 496 29.79 3e-67 RNA polymerase II transcription factor B subunit 2 OS Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) GN TFB2 PE 3 SV 1
blastp_uniprot_sprot sp|Q6BZX4|TFB2_YARLI 13 489 + 477 Gaps:71 92.51 467 33.10 7e-66 RNA polymerase II transcription factor B subunit 2 OS Yarrowia lipolytica (strain CLIB 122 / E 150) GN TFB2 PE 3 SV 1
blastp_uniprot_sprot sp|Q6BGW8|TFB2_DEBHA 17 493 + 477 Gaps:63 93.98 515 30.58 1e-65 RNA polymerase II transcription factor B subunit 2 OS Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) GN TFB2 PE 3 SV 2
blastp_uniprot_sprot sp|P87303|TFB2_SCHPO 13 489 + 477 Gaps:62 93.74 447 33.89 2e-61 RNA polymerase II transcription factor B subunit 2 OS Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN tfb2 PE 1 SV 2
blastp_uniprot_sprot sp|Q75B51|TFB2_ASHGO 18 499 + 482 Gaps:64 94.16 514 30.37 6e-59 RNA polymerase II transcription factor B subunit 2 OS Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN TFB2 PE 3 SV 1
blastp_uniprot_sprot sp|Q6FP41|TFB2_CANGA 18 493 + 476 Gaps:64 93.25 504 31.49 5e-58 RNA polymerase II transcription factor B subunit 2 OS Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) GN TFB2 PE 3 SV 1
blastp_uniprot_sprot sp|Q54C29|TF2H4_DICDI 15 503 + 489 Gaps:91 97.31 483 32.98 3e-57 General transcription factor IIH subunit 4 OS Dictyostelium discoideum GN gtf2h4 PE 3 SV 1
rpsblast_cdd gnl|CDD|146467 13 421 + 409 Gaps:46 100.00 365 44.66 1e-135 pfam03849 Tfb2 Transcription factor Tfb2.
rpsblast_cdd gnl|CDD|161964 10 506 + 497 Gaps:58 99.78 448 34.68 6e-79 TIGR00625 tfb2 Transcription factor tfb2. All proteins in this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair.This family is based on the phylogenomic analysis of JA Eisen (1999 Ph.D. Thesis Stanford University).
rpsblast_cdd gnl|CDD|34745 3 503 + 501 Gaps:65 97.99 447 30.82 3e-64 COG5144 TFB2 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH subunit TFB2 [Transcription / DNA replication recombination and repair].
rpsblast_kog gnl|CDD|38681 1 507 + 507 Gaps:62 98.71 465 37.25 7e-96 KOG3471 KOG3471 KOG3471 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH subunit TFB2 [Transcription Replication recombination and repair].

9 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
TIGRFAM 13 506 494 TIGR00625 none tfb2: transcription factor Tfb2 IPR004598
Phobius 297 316 20 TRANSMEMBRANE none Region of a membrane-bound protein predicted to be embedded in the membrane. none
Phobius 317 321 5 NON_CYTOPLASMIC_DOMAIN none Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. none
Phobius 322 342 21 TRANSMEMBRANE none Region of a membrane-bound protein predicted to be embedded in the membrane. none
Phobius 343 507 165 CYTOPLASMIC_DOMAIN none Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. none
PANTHER 1 293 293 PTHR13152 none none IPR004598
PANTHER 322 507 186 PTHR13152 none none IPR004598
Phobius 1 296 296 CYTOPLASMIC_DOMAIN none Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. none
Pfam 13 421 409 PF03849 none Transcription factor Tfb2 IPR004598

0 Localization

2 Qtllist

Qtl Name Chromosome Name Linkage Group Prox Marker Dist Marker Position QTL Pos One Pos Two Test Type Test Value R 2
Bourran2_2014_nSecLBD_3P Qrob_Chr08 8 s_1BN2OD_551 s_1B5AYF_599 17,17 0 43,51 lod 1,9229 4,4
Bourran2_2014_rEpiBC_3P Qrob_Chr05 5 s_2GDU0O_517 s_1BT8O3_239 25,81 0 55,45 lod 2,2101 5,5

0 Targeting