Psyllid ID: psy2814

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170------
Protein Sequence
MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ
Secondary Structure (PSIPRED)
cEEEEEEEEEEccccccHHHHHHHccccEEcccccEEEEEEEccccEEEEEEEccEEEEEccccHHHHHHHHHHHHHHHHHcccccccccEEEEEEEEEEEccccccHHHHHHHcccccEEcccccccEEEEEccccEEEEEEccccEEEEEcccHHHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
EEEEEEEEEEEccccccHHHHHHHcccEEEccccccEEEEEEEccEEEEEEEcccEEEEEccccHHHHHHHHHHHHHHHHHHccccccEEEEEEEEEEEEEccccEcHHHHHHHccccEEccccccccEEEEEccccEEEEEccccEEEEEccccHHHHHHHHHHHHHHHHccEcc
Coil and Loop (DISEMBL)
mhyqnmvgtisvgcpldlnqinsrvryseynpgkfhGLIMKIlnprttclafqsgklLILGAKHEHDCKLASRKFAKILKQLghpikyqgfkihnivctcdvrfpvklDALHhvhsqfssyepelfpgliyrmvkPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ
Flexible Loop (DISEMBL)
MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITgaksrselheafdniypvlksfkkq
Low Complexity Region (SEG)
MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ
Disordered region (IsUnstruct)
*****MVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVL******
Disordered Region (DISOPRED)
MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFK**
Disordered Region (DISEMBL)
MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ
Disordered Region (DISPRO)
MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	176	2.2.26 [Sep-21-2011]
Q1JPY4	312	TATA box-binding protein-	yes	N/A	0.994	0.560	0.582	6e-61
P53361	307	TATA-box-binding protein	N/A	N/A	0.994	0.570	0.594	3e-60
P29037	316	TATA-box-binding protein	yes	N/A	0.988	0.550	0.574	3e-60
P53360	318	TATA-box-binding protein	N/A	N/A	0.988	0.547	0.574	3e-60
O45211	307	TATA-box-binding protein	N/A	N/A	0.994	0.570	0.594	4e-60
O13270	302	TATA-box-binding protein	yes	N/A	0.988	0.576	0.574	4e-60
Q6SJ94	322	TATA box-binding protein-	N/A	N/A	0.982	0.537	0.578	5e-60
Q92146	302	TATA-box-binding protein	N/A	N/A	0.988	0.576	0.574	5e-60
Q92117	300	TATA-box-binding protein	N/A	N/A	0.988	0.58	0.574	5e-60
P20226	339	TATA-box-binding protein	yes	N/A	0.988	0.513	0.574	5e-60

>sp|Q1JPY4|TBPL2_DANRE TATA box-binding protein-like protein 2 OS=Danio rerio GN=tbpl2 PE=1 SV=1

 Score =  233 bits (593), Expect = 6e-61,   Method: Compositional matrix adjust.
 Identities = 102/175 (58%), Positives = 137/175 (78%)

Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+++ CPLDL  I  + R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 138 QLQNIVSTVNLACPLDLKSIALQARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 197

Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E   +LA+RK+A+++++LG P K+  FKI N+V +CDV FP++L+ L   H QFSSY
Sbjct: 198 AKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVCFPIRLEGLVLTHQQFSSY 257

Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ 176
           EPELFPGLIYRMVKPR+VLLIFV+G++V+TGAK RSE++EAF+NIYP+LK F+KQ
Sbjct: 258 EPELFPGLIYRMVKPRIVLLIFVSGKVVLTGAKERSEIYEAFENIYPILKGFRKQ 312

TATA box-binding transcription factor (By similarity). Members of the TBP family are differentially required to regulate transcription and development during early embryogenesis. Commits mesoderm to the hematopoietic lineage during hemopoiesis, acting via mespa. Binds to the mespa promoter.
Danio rerio (taxid: 7955)

>sp|P53361|TBP_SPOFR TATA-box-binding protein OS=Spodoptera frugiperda GN=Tbp PE=2 SV=1

 Score =  230 bits (587), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 104/175 (59%), Positives = 137/175 (78%)

Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+++ C LDL +I    R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 133 QLQNIVSTVNLNCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 192

Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E D +LA+RK+A+I+++LG   K+  FKI N+V +CDV+FP++L+ L   H QFSSY
Sbjct: 193 AKSEEDSRLAARKYARIIQKLGFTAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSY 252

Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ 176
           EPELFPGLIYRMVKPR+VLLIFV+G++V+TGAK R E++EAFDNIYP+LKSFKKQ
Sbjct: 253 EPELFPGLIYRMVKPRIVLLIFVSGKVVLTGAKVREEIYEAFDNIYPILKSFKKQ 307

General transcription factor that functions at the core of the DNA-binding multiprotein factor TFIID. Binding of TFIID to the TATA box is the initial transcriptional step of the pre-initiation complex (PIC), playing a role in the activation of eukaryotic genes transcribed by RNA polymerase II.

Spodoptera frugiperda (taxid: 7108)

>sp|P29037|TBP_MOUSE TATA-box-binding protein OS=Mus musculus GN=Tbp PE=1 SV=1

 Score =  230 bits (587), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 100/174 (57%), Positives = 137/174 (78%)

Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 141 QLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 200

Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSY
Sbjct: 201 AKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSY 260

Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           EPELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct: 261 EPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 314

General transcription factor that functions at the core of the DNA-binding multiprotein factor TFIID. Binding of TFIID to the TATA box is the initial transcriptional step of the pre-initiation complex (PIC), playing a role in the activation of eukaryotic genes transcribed by RNA polymerase II. Component of the transcription factor SL1/TIF-IB complex, which is involved in the assembly of the PIC (preinitiation complex) during RNA polymerase I-dependent transcription. The rate of PIC formation probably is primarily dependent on the rate of association of SL1 with the rDNA promoter. SL1 is involved in stabilization of nucleolar transcription factor 1/UBTF on rDNA.

Mus musculus (taxid: 10090)

>sp|P53360|TBP_MESAU TATA-box-binding protein OS=Mesocricetus auratus GN=TBP PE=2 SV=1

 Score =  230 bits (587), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 100/174 (57%), Positives = 137/174 (78%)

Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 143 QLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 202

Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSY
Sbjct: 203 AKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSY 262

Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           EPELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct: 263 EPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 316

General transcription factor that functions at the core of the DNA-binding multiprotein factor TFIID. Binding of TFIID to the TATA box is the initial transcriptional step of the pre-initiation complex (PIC), playing a role in the activation of eukaryotic genes transcribed by RNA polymerase II. Component of the transcription factor SL1/TIF-IB complex, which is involved in the assembly of the PIC (preinitiation complex) during RNA polymerase I-dependent transcription. The rate of PIC formation probably is primarily dependent on the rate of association of SL1 with the rDNA promoter. SL1 is involved in stabilization of nucleolar transcription factor 1/UBTF on rDNA.

Mesocricetus auratus (taxid: 10036)

>sp|O45211|TBP_BOMMO TATA-box-binding protein OS=Bombyx mori GN=Tbp PE=2 SV=1

 Score =  230 bits (586), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 104/175 (59%), Positives = 137/175 (78%)

Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+++ C LDL +I    R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 133 QLQNIVSTVNLDCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 192

Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E D +LA+RK+A+I+++LG   K+  FKI N+V +CDV+FP++L+ L   H QFSSY
Sbjct: 193 AKSEEDSRLAARKYARIIQKLGFTAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSY 252

Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ 176
           EPELFPGLIYRMVKPR+VLLIFV+G++V+TGAK R E++EAFDNIYP+LKSFKKQ
Sbjct: 253 EPELFPGLIYRMVKPRIVLLIFVSGKVVLTGAKVREEIYEAFDNIYPILKSFKKQ 307

General transcription factor that functions at the core of the DNA-binding multiprotein factor TFIID. Binding of TFIID to the TATA box is the initial transcriptional step of the pre-initiation complex (PIC), playing a role in the activation of eukaryotic genes transcribed by RNA polymerase II.

Bombyx mori (taxid: 7091)

>sp|O13270|TBP_CHICK TATA-box-binding protein OS=Gallus gallus GN=TBP PE=2 SV=1

 Score =  230 bits (586), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 100/174 (57%), Positives = 137/174 (78%)

Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 127 QLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 186

Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSY
Sbjct: 187 AKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSY 246

Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           EPELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct: 247 EPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 300

General transcription factor that functions at the core of the DNA-binding multiprotein factor TFIID. Binding of TFIID to the TATA box is the initial transcriptional step of the pre-initiation complex (PIC), playing a role in the activation of eukaryotic genes transcribed by RNA polymerase II.

Gallus gallus (taxid: 9031)

>sp|Q6SJ94|TBPL2_TAKRU TATA box-binding protein-like protein 2 OS=Takifugu rubripes GN=tbpl2 PE=2 SV=1

 Score =  229 bits (585), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 100/173 (57%), Positives = 138/173 (79%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++GCPLDL  I  + R +EYNP +F  +IM+I  PRTT L F SGK++  GAK
Sbjct: 150 QNIVSTVNLGCPLDLKFIALQARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAK 209

Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E   +LA+RK+A+++++LG P ++  FKI N+V +CDV FP++L+ L   H QFSSYEP
Sbjct: 210 SEEQSRLAARKYARVVQKLGFPARFMDFKIQNMVASCDVCFPIRLEGLVLTHQQFSSYEP 269

Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ 176
           ELFPGLIYRMVKPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+L+ F+KQ
Sbjct: 270 ELFPGLIYRMVKPRIVLLIFVSGKVVLTGAKERAEIYEAFENIYPILRGFRKQ 322

TATA box-binding transcription factor. Members of the TBP family are differentially required to regulate transcription and development during early embryogenesis.

Takifugu rubripes (taxid: 31033)

>sp|Q92146|TBP_TRIGA TATA-box-binding protein OS=Trimeresurus gramineus GN=TBP PE=3 SV=1

 Score =  229 bits (585), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 100/174 (57%), Positives = 136/174 (78%)

Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 127 QLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 186

Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSY
Sbjct: 187 AKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSY 246

Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           EPELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R E++EAF+NIYP+LK F+K
Sbjct: 247 EPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRGEIYEAFENIYPILKGFRK 300

General transcription factor that functions at the core of the DNA-binding multiprotein factor TFIID. Binding of TFIID to the TATA box is the initial transcriptional step of the pre-initiation complex (PIC), playing a role in the activation of eukaryotic genes transcribed by RNA polymerase II.

Trimeresurus gramineus (taxid: 8767)

>sp|Q92117|TBP_PROFL TATA-box-binding protein OS=Protobothrops flavoviridis GN=TBP PE=3 SV=1

 Score =  229 bits (585), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 100/174 (57%), Positives = 136/174 (78%)

Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 125 QLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 184

Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSY
Sbjct: 185 AKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSY 244

Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           EPELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R E++EAF+NIYP+LK F+K
Sbjct: 245 EPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRGEIYEAFENIYPILKGFRK 298

General transcription factor that functions at the core of the DNA-binding multiprotein factor TFIID. Binding of TFIID to the TATA box is the initial transcriptional step of the pre-initiation complex (PIC), playing a role in the activation of eukaryotic genes transcribed by RNA polymerase II.

Protobothrops flavoviridis (taxid: 88087)

>sp|P20226|TBP_HUMAN TATA-box-binding protein OS=Homo sapiens GN=TBP PE=1 SV=2

 Score =  229 bits (585), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 100/174 (57%), Positives = 137/174 (78%)

Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 164 QLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 223

Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSY
Sbjct: 224 AKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSY 283

Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           EPELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct: 284 EPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 337

General transcription factor that functions at the core of the DNA-binding multiprotein factor TFIID. Binding of TFIID to the TATA box is the initial transcriptional step of the pre-initiation complex (PIC), playing a role in the activation of eukaryotic genes transcribed by RNA polymerase II. Component of the transcription factor SL1/TIF-IB complex, which is involved in the assembly of the PIC (preinitiation complex) during RNA polymerase I-dependent transcription. The rate of PIC formation probably is primarily dependent on the rate of association of SL1 with the rDNA promoter. SL1 is involved in stabilization of nucleolar transcription factor 1/UBTF on rDNA.

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	176
383860592	241	PREDICTED: TATA-box-binding protein-like	0.982	0.717	0.647	1e-63
345492218	238	PREDICTED: TATA-box-binding protein-like	0.982	0.726	0.635	1e-61
380013265	241	PREDICTED: TATA-box-binding protein-like	0.982	0.717	0.624	3e-61
66498987	241	PREDICTED: TATA-box-binding protein-like	0.982	0.717	0.624	3e-61
340728982	241	PREDICTED: TATA-box-binding protein-like	0.982	0.717	0.630	3e-61
350425498	241	PREDICTED: TATA-box-binding protein-like	0.982	0.717	0.630	6e-61
170031575	236	TATA-box-binding protein [Culex quinquef	0.977	0.728	0.616	7e-61
225719098	323	TATA-box-binding protein [Caligus clemen	0.994	0.541	0.6	4e-60
383858146	318	PREDICTED: TATA-box-binding protein-like	0.994	0.550	0.6	2e-59
340727525	314	PREDICTED: TATA-box-binding protein-like	0.994	0.557	0.6	2e-59

>gi|383860592|ref|XP_003705773.1| PREDICTED: TATA-box-binding protein-like [Megachile rotundata]

 Score =  247 bits (631), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 112/173 (64%), Positives = 143/173 (82%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++G  L L QIN+R R SEYNP +F GLIM+I NPR T L F SGKL+  GA+
Sbjct: 69  QNVVSTVNLGTELKLMQINTRTRNSEYNPARFTGLIMRIRNPRATALIFHSGKLVCTGAR 128

Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E D  LA+RKFA+I+++LG P+K+  FKI NIV TCD++FP+KL+ L+H+H QFSSYEP
Sbjct: 129 CEEDSYLATRKFARIIQKLGFPVKFYNFKIQNIVATCDLKFPIKLENLNHIHGQFSSYEP 188

Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ 176
           EL+PGLIYRMV PRVVLLIFVNG+IV+TGAK+R+EL +A +NIYP+LKSF+KQ
Sbjct: 189 ELYPGLIYRMVSPRVVLLIFVNGKIVLTGAKNRTELQDALNNIYPILKSFRKQ 241

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345492218|ref|XP_001603648.2| PREDICTED: TATA-box-binding protein-like [Nasonia vitripennis]

 Score =  240 bits (613), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 110/173 (63%), Positives = 141/173 (81%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+S+GC L+L  IN+R R SEYNP +F GLIM+I NPR T L F+SGKL+  GA+
Sbjct: 66  QNVVSTVSLGCELNLTYINTRTRNSEYNPARFTGLIMRIRNPRVTALIFRSGKLVCTGAR 125

Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E D  LA++KFA+I++++G P+K++ FKI NIV T D++FP+KL+ L H H QFSSYEP
Sbjct: 126 CEEDSFLAAKKFARIIQKIGFPVKFRDFKIQNIVATADLKFPIKLENLSHKHGQFSSYEP 185

Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ 176
           EL+PGLIYRMV PRVVLLIFVNG+IV+TGAK+R EL +A  NIYP+LKSF+KQ
Sbjct: 186 ELYPGLIYRMVLPRVVLLIFVNGKIVLTGAKNRQELKDALHNIYPILKSFRKQ 238

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380013265|ref|XP_003690685.1| PREDICTED: TATA-box-binding protein-like [Apis florea]

 Score =  239 bits (611), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 108/173 (62%), Positives = 140/173 (80%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++G  L L  IN+R R SEYNP +F GLIM+I NPR T L F SGK++  GA+
Sbjct: 69  QNVVSTVNLGIELPLMYINTRTRNSEYNPARFMGLIMRIRNPRATALIFHSGKIVCTGAR 128

Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E D  LA+RKFA+I+++LG   K+  FKI NIV TCD++FP+KL+ L+H+H QFSSYEP
Sbjct: 129 SEEDSYLATRKFARIIQKLGFAAKFYNFKIQNIVATCDLKFPIKLENLNHIHGQFSSYEP 188

Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ 176
           EL+PGLIYRMV PRVVLLIFVNG++V+TGAK+R+EL +A +NIYP+LKSF+KQ
Sbjct: 189 ELYPGLIYRMVSPRVVLLIFVNGKVVLTGAKNRTELQDALNNIYPILKSFRKQ 241

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|66498987|ref|XP_394229.2| PREDICTED: TATA-box-binding protein-like [Apis mellifera]

 Score =  239 bits (610), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 108/173 (62%), Positives = 140/173 (80%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++G  L L  IN+R R SEYNP +F GLIM+I NPR T L F SGK++  GA+
Sbjct: 69  QNVVSTVNLGIELPLMYINTRTRNSEYNPARFMGLIMRIRNPRATALIFHSGKIVCTGAR 128

Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E D  LA+RKFA+I+++LG   K+  FKI NIV TCD++FP+KL+ L+H+H QFSSYEP
Sbjct: 129 SEEDSYLATRKFARIIQKLGFAAKFYNFKIQNIVATCDLKFPIKLENLNHIHGQFSSYEP 188

Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ 176
           EL+PGLIYRMV PRVVLLIFVNG++V+TGAK+R+EL +A +NIYP+LKSF+KQ
Sbjct: 189 ELYPGLIYRMVSPRVVLLIFVNGKVVLTGAKNRTELQDALNNIYPILKSFRKQ 241

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340728982|ref|XP_003402790.1| PREDICTED: TATA-box-binding protein-like [Bombus terrestris]

 Score =  239 bits (610), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 109/173 (63%), Positives = 141/173 (81%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++G  L L  IN+R R SEYNP +F GL+M+I NPR T L F SGKL+  GA+
Sbjct: 69  QNVVSTVNLGIQLPLMYINTRTRNSEYNPARFTGLVMRIRNPRATALIFHSGKLVCTGAR 128

Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E D  LA+RKFA+I+++LG  +K+  FKI NIV TCD++FP+KL+ L+H+H QFSSYEP
Sbjct: 129 CEEDSFLATRKFARIIQKLGFTVKFYNFKIQNIVATCDLKFPIKLENLNHIHGQFSSYEP 188

Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ 176
           EL+PGLIYRMV PRVVLLIFVNG+IV+TGAK+R+EL +A +NIYP+LKSF+KQ
Sbjct: 189 ELYPGLIYRMVSPRVVLLIFVNGKIVLTGAKNRAELQDALNNIYPILKSFRKQ 241

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350425498|ref|XP_003494140.1| PREDICTED: TATA-box-binding protein-like [Bombus impatiens]

 Score =  238 bits (607), Expect = 6e-61,   Method: Compositional matrix adjust.
 Identities = 109/173 (63%), Positives = 140/173 (80%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++G  L L  IN+R R SEYNP +F GL+M+I NPR T L F SGKL+  GA+
Sbjct: 69  QNVVSTVNLGIELPLMYINTRTRNSEYNPARFTGLVMRIRNPRATALIFHSGKLVCTGAR 128

Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E D  LA+RKFA+I+++LG  +K+  FKI NIV TCD++FP+KL+ L+H+H QFSSYEP
Sbjct: 129 CEEDSFLATRKFARIIQKLGFTVKFYNFKIQNIVATCDLKFPIKLENLNHIHGQFSSYEP 188

Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ 176
           EL+PGLIYRMV PRVVLLIFVNG+IV+TGAK+R EL +A +NIYP+LKSF+KQ
Sbjct: 189 ELYPGLIYRMVSPRVVLLIFVNGKIVLTGAKNRVELQDALNNIYPILKSFRKQ 241

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170031575|ref|XP_001843660.1| TATA-box-binding protein [Culex quinquefasciatus] gi|167870488|gb|EDS33871.1| TATA-box-binding protein [Culex quinquefasciatus]

 Score =  238 bits (607), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 106/172 (61%), Positives = 141/172 (81%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           +N V T+S+GC L+L  IN R R SEYNP +FHG++M+I +PR T L F+SGK++  GAK
Sbjct: 64  RNCVATVSLGCELNLQSINFRTRNSEYNPSRFHGVVMRIRDPRCTALVFRSGKIVCTGAK 123

Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
           +EHD  LA+RKFA+I++++G+ +K+  FK+ N+V T D+RFPV+L+ L+ VH QFSSYEP
Sbjct: 124 NEHDANLAARKFARIIQKVGYNVKFLEFKVQNLVATVDLRFPVRLENLNQVHGQFSSYEP 183

Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           ELFPGLIYRMVKPRVVLLIFVNG+IV TGAKS  E+ E+ +NIYP+L+SF+K
Sbjct: 184 ELFPGLIYRMVKPRVVLLIFVNGKIVFTGAKSEWEIRESLENIYPILQSFRK 235

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|225719098|gb|ACO15395.1| TATA-box-binding protein [Caligus clemensi]

 Score =  235 bits (600), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 105/175 (60%), Positives = 141/175 (80%)

Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+S+GC LDL +I    R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 149 QLQNIVSTVSLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 208

Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E D +LA+RK+A+I+++LG P +++ FKI N+V +CDV+FP++L+ L   HSQFSSY
Sbjct: 209 AKSEEDSRLAARKYARIVQKLGFPARFKDFKIQNMVGSCDVKFPIRLEGLVLTHSQFSSY 268

Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ 176
           EPELFPGLIYRMV+PR+VLLIFV+G++V+TGAK R E++EAFDNIYP+LK+FKKQ
Sbjct: 269 EPELFPGLIYRMVRPRIVLLIFVSGKVVLTGAKVRQEIYEAFDNIYPILKNFKKQ 323

Source: Caligus clemensi

Species: Caligus clemensi

Genus: Caligus

Family: Caligidae

Order: Siphonostomatoida

Class: Maxillopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383858146|ref|XP_003704563.1| PREDICTED: TATA-box-binding protein-like [Megachile rotundata]

 Score =  233 bits (595), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 105/175 (60%), Positives = 138/175 (78%)

Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+++ C LDL +I    R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 144 QLQNIVSTVNLNCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 203

Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E D +LA+RK+A+I+++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSY
Sbjct: 204 AKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSY 263

Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ 176
           EPELFPGLIYRMVKPR+VLLIFV+G++V+TGAK R E++EAFDNIYP+LKSFKKQ
Sbjct: 264 EPELFPGLIYRMVKPRIVLLIFVSGKVVLTGAKVRQEIYEAFDNIYPILKSFKKQ 318

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340727525|ref|XP_003402092.1| PREDICTED: TATA-box-binding protein-like [Bombus terrestris] gi|350422935|ref|XP_003493334.1| PREDICTED: TATA-box-binding protein-like [Bombus impatiens]

 Score =  233 bits (595), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 105/175 (60%), Positives = 138/175 (78%)

Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+++ C LDL +I    R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 140 QLQNIVSTVNLNCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 199

Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E D +LA+RK+A+I+++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSY
Sbjct: 200 AKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSY 259

Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ 176
           EPELFPGLIYRMVKPR+VLLIFV+G++V+TGAK R E++EAFDNIYP+LKSFKKQ
Sbjct: 260 EPELFPGLIYRMVKPRIVLLIFVSGKVVLTGAKVRQEIYEAFDNIYPILKSFKKQ 314

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	176
UNIPROTKB|Q6SJ94	322	tbpl2 "TATA box-binding protei	0.982	0.537	0.578	2.1e-54
UNIPROTKB|Q28DH2	322	tbpl2 "TATA box-binding protei	0.977	0.534	0.593	2.6e-54
UNIPROTKB|Q5UE94	320	tbpl2 "TATA box-binding protei	0.977	0.537	0.593	2.6e-54
UNIPROTKB|O13270	302	TBP "TATA-box-binding protein"	0.977	0.569	0.581	5.5e-54
UNIPROTKB|Q6JLB1	302	TBP "TATA-binding protein" [Ga	0.977	0.569	0.581	5.5e-54
UNIPROTKB|Q2HJ52	319	TBP "TATA-box-binding protein"	0.977	0.539	0.581	5.5e-54
UNIPROTKB|F1PQA5	324	TBP "Uncharacterized protein"	0.977	0.530	0.581	5.5e-54
UNIPROTKB|P20226	339	TBP "TATA-box-binding protein"	0.977	0.507	0.581	5.5e-54
UNIPROTKB|I3L7Z5	273	TBP "Uncharacterized protein"	0.977	0.630	0.581	5.5e-54
UNIPROTKB|I3LF81	273	TBP "Uncharacterized protein"	0.977	0.630	0.581	5.5e-54

UNIPROTKB|Q6SJ94 tbpl2 "TATA box-binding protein-like protein 2" [Takifugu rubripes (taxid:31033)]

 Score = 562 (202.9 bits), Expect = 2.1e-54, P = 2.1e-54
 Identities = 100/173 (57%), Positives = 138/173 (79%)

Query:     4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
             QN+V T+++GCPLDL  I  + R +EYNP +F  +IM+I  PRTT L F SGK++  GAK
Sbjct:   150 QNIVSTVNLGCPLDLKFIALQARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAK 209

Query:    64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
              E   +LA+RK+A+++++LG P ++  FKI N+V +CDV FP++L+ L   H QFSSYEP
Sbjct:   210 SEEQSRLAARKYARVVQKLGFPARFMDFKIQNMVASCDVCFPIRLEGLVLTHQQFSSYEP 269

Query:   124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ 176
             ELFPGLIYRMVKPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+L+ F+KQ
Sbjct:   270 ELFPGLIYRMVKPRIVLLIFVSGKVVLTGAKERAEIYEAFENIYPILRGFRKQ 322

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0009790 "embryo development" evidence=ISS

GO:0009880 "embryonic pattern specification" evidence=ISS

GO:0030097 "hemopoiesis" evidence=ISS

UNIPROTKB|Q28DH2 tbpl2 "TATA box-binding protein-like protein 2" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 561 (202.5 bits), Expect = 2.6e-54, P = 2.6e-54
 Identities = 102/172 (59%), Positives = 136/172 (79%)

Query:     4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
             QN+V T+++ C LDL +I    R +EYNP +F  +IM+I  PRTT L F SGK++  GAK
Sbjct:   149 QNIVSTVNLACKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAK 208

Query:    64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
              E   +LA+RK+A+++++LG P K+  FKI N+V +CDVRFP++L+ L   H QFSSYEP
Sbjct:   209 SEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVRFPIRLEGLVLTHQQFSSYEP 268

Query:   124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
             ELFPGLIYRMVKPR+VLLIFV+G++V+TGAK RSE++EAF+NIYP+LK FKK
Sbjct:   269 ELFPGLIYRMVKPRIVLLIFVSGKVVLTGAKERSEIYEAFENIYPILKGFKK 320

GO:0003677 "DNA binding" evidence=IDA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0006351 "transcription, DNA-dependent" evidence=ISS

GO:0006366 "transcription from RNA polymerase II promoter" evidence=ISS

GO:0007369 "gastrulation" evidence=ISS

GO:0009790 "embryo development" evidence=ISS

UNIPROTKB|Q5UE94 tbpl2 "TATA box-binding protein-like protein 2" [Xenopus laevis (taxid:8355)]

 Score = 561 (202.5 bits), Expect = 2.6e-54, P = 2.6e-54
 Identities = 102/172 (59%), Positives = 136/172 (79%)

Query:     4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
             QN+V T+++ C LDL +I    R +EYNP +F  +IM+I  PRTT L F SGK++  GAK
Sbjct:   147 QNIVSTVNLACKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAK 206

Query:    64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
              E   +LA+RK+A+++++LG P K+  FKI N+V +CDVRFP++L+ L   H QFSSYEP
Sbjct:   207 SEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVRFPIRLEGLVLTHQQFSSYEP 266

Query:   124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
             ELFPGLIYRMVKPR+VLLIFV+G++V+TGAK RSE++EAF+NIYP+LK FKK
Sbjct:   267 ELFPGLIYRMVKPRIVLLIFVSGKVVLTGAKERSEIYEAFENIYPILKGFKK 318

GO:0003677 "DNA binding" evidence=IDA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0006351 "transcription, DNA-dependent" evidence=IDA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IMP

GO:0007369 "gastrulation" evidence=IMP

GO:0009790 "embryo development" evidence=IMP

UNIPROTKB|O13270 TBP "TATA-box-binding protein" [Gallus gallus (taxid:9031)]

 Score = 558 (201.5 bits), Expect = 5.5e-54, P = 5.5e-54
 Identities = 100/172 (58%), Positives = 137/172 (79%)

Query:     4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  GAK
Sbjct:   129 QNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAK 188

Query:    64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
              E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSYEP
Sbjct:   189 SEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYEP 248

Query:   124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
             ELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct:   249 ELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 300

GO:0006352 "DNA-dependent transcription, initiation" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|Q6JLB1 TBP "TATA-binding protein" [Gallus gallus (taxid:9031)]

 Score = 558 (201.5 bits), Expect = 5.5e-54, P = 5.5e-54
 Identities = 100/172 (58%), Positives = 137/172 (79%)

Query:     4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  GAK
Sbjct:   129 QNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAK 188

Query:    64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
              E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSYEP
Sbjct:   189 SEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYEP 248

Query:   124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
             ELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct:   249 ELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 300

GO:0006352 "DNA-dependent transcription, initiation" evidence=IEA

GO:0001103 "RNA polymerase II repressing transcription factor binding" evidence=IEA

GO:0001939 "female pronucleus" evidence=IEA

GO:0001940 "male pronucleus" evidence=IEA

GO:0005672 "transcription factor TFIIA complex" evidence=IEA

GO:0005719 "nuclear euchromatin" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IEA

GO:0006383 "transcription from RNA polymerase III promoter" evidence=IEA

GO:0044212 "transcription regulatory region DNA binding" evidence=IEA

UNIPROTKB|Q2HJ52 TBP "TATA-box-binding protein" [Bos taurus (taxid:9913)]

 Score = 558 (201.5 bits), Expect = 5.5e-54, P = 5.5e-54
 Identities = 100/172 (58%), Positives = 137/172 (79%)

Query:     4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  GAK
Sbjct:   146 QNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAK 205

Query:    64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
              E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSYEP
Sbjct:   206 SEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYEP 265

Query:   124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
             ELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct:   266 ELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 317

GO:0005634 "nucleus" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0006352 "DNA-dependent transcription, initiation" evidence=IEA

UNIPROTKB|F1PQA5 TBP "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 558 (201.5 bits), Expect = 5.5e-54, P = 5.5e-54
 Identities = 100/172 (58%), Positives = 137/172 (79%)

Query:     4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  GAK
Sbjct:   151 QNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAK 210

Query:    64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
              E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSYEP
Sbjct:   211 SEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYEP 270

Query:   124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
             ELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct:   271 ELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 322

GO:0044212 "transcription regulatory region DNA binding" evidence=IEA

GO:0006383 "transcription from RNA polymerase III promoter" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005719 "nuclear euchromatin" evidence=IEA

GO:0005672 "transcription factor TFIIA complex" evidence=IEA

GO:0001940 "male pronucleus" evidence=IEA

GO:0001939 "female pronucleus" evidence=IEA

GO:0001103 "RNA polymerase II repressing transcription factor binding" evidence=IEA

GO:0006352 "DNA-dependent transcription, initiation" evidence=IEA

UNIPROTKB|P20226 TBP "TATA-box-binding protein" [Homo sapiens (taxid:9606)]

 Score = 558 (201.5 bits), Expect = 5.5e-54, P = 5.5e-54
 Identities = 100/172 (58%), Positives = 137/172 (79%)

Query:     4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  GAK
Sbjct:   166 QNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAK 225

Query:    64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
              E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSYEP
Sbjct:   226 SEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYEP 285

Query:   124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
             ELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct:   286 ELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 337

GO:0008219 "cell death" evidence=IEA

GO:0019048 "virus-host interaction" evidence=IEA

GO:0001103 "RNA polymerase II repressing transcription factor binding" evidence=IEA

GO:0001939 "female pronucleus" evidence=IEA

GO:0001940 "male pronucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0007283 "spermatogenesis" evidence=IEA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005669 "transcription factor TFIID complex" evidence=IDA

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IC;TAS

GO:0008134 "transcription factor binding" evidence=IPI

GO:0044212 "transcription regulatory region DNA binding" evidence=IDA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IC;IDA;TAS

GO:0006383 "transcription from RNA polymerase III promoter" evidence=IDA;TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006368 "transcription elongation from RNA polymerase II promoter" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0005672 "transcription factor TFIIA complex" evidence=IDA

GO:0005719 "nuclear euchromatin" evidence=IDA

GO:0070491 "repressing transcription factor binding" evidence=IPI

UNIPROTKB|I3L7Z5 TBP "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 558 (201.5 bits), Expect = 5.5e-54, P = 5.5e-54
 Identities = 100/172 (58%), Positives = 137/172 (79%)

Query:     4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  GAK
Sbjct:   100 QNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAK 159

Query:    64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
              E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSYEP
Sbjct:   160 SEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYEP 219

Query:   124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
             ELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct:   220 ELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 271

GO:0044212 "transcription regulatory region DNA binding" evidence=IEA

GO:0006383 "transcription from RNA polymerase III promoter" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005719 "nuclear euchromatin" evidence=IEA

GO:0005672 "transcription factor TFIIA complex" evidence=IEA

GO:0001940 "male pronucleus" evidence=IEA

GO:0001939 "female pronucleus" evidence=IEA

GO:0001103 "RNA polymerase II repressing transcription factor binding" evidence=IEA

GO:0006352 "DNA-dependent transcription, initiation" evidence=IEA

UNIPROTKB|I3LF81 TBP "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 558 (201.5 bits), Expect = 5.5e-54, P = 5.5e-54
 Identities = 100/172 (58%), Positives = 137/172 (79%)

Query:     4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  GAK
Sbjct:   100 QNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAK 159

Query:    64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
              E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSYEP
Sbjct:   160 SEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYEP 219

Query:   124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
             ELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct:   220 ELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 271

GO:0006352 "DNA-dependent transcription, initiation" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P13393	TBP_YEAST	No assigned EC number	0.5697	0.9772	0.7166	yes	N/A
P93348	TBP_TOBAC	No assigned EC number	0.5581	0.9772	0.86	N/A	N/A
P50158	TBP1_MAIZE	No assigned EC number	0.5639	0.9772	0.86	N/A	N/A
P91809	TBP_STRPU	No assigned EC number	0.5755	0.9772	0.6490	yes	N/A
P46272	TBP_ACECL	No assigned EC number	0.5433	0.9829	0.9057	N/A	N/A
P26357	TBP_SOLTU	No assigned EC number	0.5697	0.9772	0.86	N/A	N/A
P26355	TBP_DICDI	No assigned EC number	0.5406	0.9772	0.8390	yes	N/A
Q42808	TBP_SOYBN	No assigned EC number	0.5639	0.9772	0.86	yes	N/A
P28148	TBP2_ARATH	No assigned EC number	0.5813	0.9772	0.86	yes	N/A
P32085	TBP_CAEEL	No assigned EC number	0.5697	0.9772	0.5058	yes	N/A
Q8ZVR0	TBP_PYRAE	No assigned EC number	0.4210	0.9602	0.8492	yes	N/A
Q12731	TBP_EMENI	No assigned EC number	0.5639	0.9772	0.6417	yes	N/A
P50159	TBP2_MAIZE	No assigned EC number	0.5639	0.9772	0.86	N/A	N/A
P29037	TBP_MOUSE	No assigned EC number	0.5747	0.9886	0.5506	yes	N/A
P28147	TBP1_ARATH	No assigned EC number	0.5639	0.9772	0.86	no	N/A
Q27896	TRF_DROME	No assigned EC number	0.5657	0.9943	0.7812	yes	N/A
O13270	TBP_CHICK	No assigned EC number	0.5747	0.9886	0.5761	yes	N/A
Q8W0W4	TBP2_ORYSJ	No assigned EC number	0.5639	0.9772	0.8472	yes	N/A
Q02879	TBP2_WHEAT	No assigned EC number	0.5639	0.9772	0.8557	N/A	N/A
P17871	TBP_SCHPO	No assigned EC number	0.5755	0.9772	0.7445	yes	N/A
Q2HJ52	TBP_BOVIN	No assigned EC number	0.5747	0.9886	0.5454	yes	N/A
P48511	TBP_MESCR	No assigned EC number	0.5639	0.9772	0.86	N/A	N/A
Q1JPY4	TBPL2_DANRE	No assigned EC number	0.5828	0.9943	0.5608	yes	N/A
Q28DH2	TBPL2_XENTR	No assigned EC number	0.5862	0.9886	0.5403	yes	N/A
P20226	TBP_HUMAN	No assigned EC number	0.5747	0.9886	0.5132	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	176
cd04516	174	cd04516, TBP_eukaryotes, eukaryotic TATA box bindi	8e-94
PLN00062	179	PLN00062, PLN00062, TATA-box-binding protein; Prov	3e-89
cd00652	174	cd00652, TBP_TLF, TATA box binding protein (TBP):	5e-84
COG2101	185	COG2101, SPT15, TATA-box binding protein (TBP), co	8e-68
PRK00394	179	PRK00394, PRK00394, transcription factor; Reviewed	2e-50
cd04518	174	cd04518, TBP_archaea, archaeal TATA box binding pr	2e-47
cd04517	174	cd04517, TLF, TBP-like factors (TLF; also called T	5e-46
pfam00352	86	pfam00352, TBP, Transcription factor TFIID (or TAT	9e-40
pfam00352	86	pfam00352, TBP, Transcription factor TFIID (or TAT	2e-30
cd04518	174	cd04518, TBP_archaea, archaeal TATA box binding pr	1e-16
cd00652	174	cd00652, TBP_TLF, TATA box binding protein (TBP):	2e-16
COG2101	185	COG2101, SPT15, TATA-box binding protein (TBP), co	2e-16
cd00652	174	cd00652, TBP_TLF, TATA box binding protein (TBP):	1e-14
PRK00394	179	PRK00394, PRK00394, transcription factor; Reviewed	2e-14
cd04518	174	cd04518, TBP_archaea, archaeal TATA box binding pr	5e-14
cd04517	174	cd04517, TLF, TBP-like factors (TLF; also called T	1e-04

>gnl|CDD|239952 cd04516, TBP_eukaryotes, eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription

 Score =  269 bits (690), Expect = 8e-94
 Identities = 103/170 (60%), Positives = 137/170 (80%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++GC LDL +I  R R +EYNP +F  +IM+I  P+TT L F SGK++  GAK
Sbjct: 5   QNIVATVNLGCKLDLKKIALRARNAEYNPKRFAAVIMRIREPKTTALIFSSGKMVCTGAK 64

Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E D KLA+RK+A+I+++LG P K+  FKI NIV +CDV+FP++L+ L H H QFSSYEP
Sbjct: 65  SEDDSKLAARKYARIIQKLGFPAKFTDFKIQNIVGSCDVKFPIRLEGLAHAHKQFSSYEP 124

Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSF 173
           ELFPGLIYRMVKP++VLLIFV+G+IV+TGAKSR E+++AF+NIYP+L  F
Sbjct: 125 ELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKSREEIYQAFENIYPILLQF 174

TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. Length = 174

>gnl|CDD|177693 PLN00062, PLN00062, TATA-box-binding protein; Provisional

 Score =  258 bits (660), Expect = 3e-89
 Identities = 100/172 (58%), Positives = 136/172 (79%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++ C LDL +I  + R +EYNP +F  +IM+I  P+TT L F SGK++  GAK
Sbjct: 5   QNIVSTVNLDCKLDLKKIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAK 64

Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            EHD KLA+RK+A+I+++LG P K++ FKI NIV +CDV+FP++L+ L + H  FSSYEP
Sbjct: 65  SEHDSKLAARKYARIIQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYAHGAFSSYEP 124

Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           ELFPGLIYRM +P++VLLIFV+G+IVITGAK R E++ AF+NIYPVL  F+K
Sbjct: 125 ELFPGLIYRMKQPKIVLLIFVSGKIVITGAKVREEIYTAFENIYPVLTEFRK 176

Length = 179

>gnl|CDD|238352 cd00652, TBP_TLF, TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription

 Score =  244 bits (626), Expect = 5e-84
 Identities = 96/169 (56%), Positives = 133/169 (78%), Gaps = 1/169 (0%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++GC LDL +I    R +EYNP +F G+IM++  P+TT L F SGK++I GAK
Sbjct: 5   QNIVATVNLGCELDLRKIALAARNAEYNPKRFPGVIMRLREPKTTALIFSSGKMVITGAK 64

Query: 64  HEHDCKLASRKFAKILKQLGHPI-KYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYE 122
            E D KLA+RK+A+IL++LG P+ K+  FK+ NIV +CD+ FP++L+ L   H + +SYE
Sbjct: 65  SEEDAKLAARKYARILQKLGFPVEKFPEFKVQNIVASCDLGFPIRLEELALKHPENASYE 124

Query: 123 PELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLK 171
           PELFPGLIYRM +P+VVLLIFV+G+IVITGAKSR +++EA + IYP+LK
Sbjct: 125 PELFPGLIYRMDEPKVVLLIFVSGKIVITGAKSREDIYEAVEKIYPILK 173

TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many equivalent positions, suggesting similar structure. However, TLFs contain distinct, conserved amino acids at several positions that distinguish them from TBP. Length = 174

>gnl|CDD|225012 COG2101, SPT15, TATA-box binding protein (TBP), component of TFIID and TFIIIB [Transcription]

 Score =  204 bits (520), Expect = 8e-68
 Identities = 67/175 (38%), Positives = 105/175 (60%), Gaps = 2/175 (1%)

Query: 1   MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLIL 60
           +  +N+V ++ +G  LDL ++   +  +EYNP +F GL+ ++  P+T  L F+SGK++  
Sbjct: 8   ITIENIVASVDLGQELDLEEVALDLPGAEYNPEQFPGLVYRLEEPKTAALIFRSGKVVCT 67

Query: 61  GAKHEHDCKLASRKFAKILKQLGHPIKYQ-GFKIHNIVCTCDVRFPVKLDALHHVHSQF- 118
           GAK   D   A +K AK LK  G  I ++   K+ NIV + D+   + L+A+        
Sbjct: 68  GAKSVEDVHRAVKKLAKKLKDGGIDIDFEPEIKVQNIVASADLGVELNLNAIAIGLGLEN 127

Query: 119 SSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSF 173
             YEPE FPGL+YR+ +PRVVLL+F +G++VITGAKS  +  +A + I   L+  
Sbjct: 128 IEYEPEQFPGLVYRLDEPRVVLLLFGSGKLVITGAKSEEDAEQAVEKIQSRLEEL 182

Length = 185

>gnl|CDD|234746 PRK00394, PRK00394, transcription factor; Reviewed

 Score =  160 bits (406), Expect = 2e-50
 Identities = 62/172 (36%), Positives = 103/172 (59%), Gaps = 2/172 (1%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           +N+V +  +G  LDL ++   +  +EYNP +F GL+ ++ +P+   L F+SGK++  GAK
Sbjct: 4   ENIVASTDLGQELDLEKVAEDLPNAEYNPEQFPGLVYRLEDPKIAALIFRSGKVVCTGAK 63

Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQ-GFKIHNIVCTCDVRFPVKLDAL-HHVHSQFSSY 121
              D   A +   K LK+LG  +  +   K+ NIV + D+   + L+A+   +  +   Y
Sbjct: 64  SVEDLHEAVKIIIKKLKELGIKVIDEPEIKVQNIVASADLGVELNLNAIAIGLGLENIEY 123

Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSF 173
           EPE FPGL+YR+  P+VV+L+F +G++VITGAKS  +  +A + I   L+  
Sbjct: 124 EPEQFPGLVYRLDDPKVVVLLFGSGKLVITGAKSEEDAEKAVEKILEKLEEL 175

Length = 179

>gnl|CDD|239954 cd04518, TBP_archaea, archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription

 Score =  152 bits (385), Expect = 2e-47
 Identities = 64/168 (38%), Positives = 103/168 (61%), Gaps = 2/168 (1%)

Query: 5   NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 64
           N+V ++ +G  LDL ++ + +  +EYNP +F GL+ ++ +P+   L F+SGK++  GAK 
Sbjct: 6   NIVASVDLGQELDLEKVAAELPNAEYNPDQFPGLVYRLEDPKIAALIFRSGKMVCTGAKS 65

Query: 65  EHDCKLASRKFAKILKQLGHPIKYQ-GFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
             D   A ++  K LK  G  +  +   K+ NIV + D+   V LDA+  +    + YEP
Sbjct: 66  VEDLHRAVKEIIKKLKDYGIKVIEKPEIKVQNIVASADLGREVNLDAIA-IGLPNAEYEP 124

Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLK 171
           E FPGL+YR+ +P+VVLL+F +G++VITGAKS  +   A + +   LK
Sbjct: 125 EQFPGLVYRLDEPKVVLLLFSSGKMVITGAKSEEDAKRAVEKLLSRLK 172

TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. Length = 174

>gnl|CDD|239953 cd04517, TLF, TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans

 Score =  148 bits (375), Expect = 5e-46
 Identities = 63/168 (37%), Positives = 105/168 (62%), Gaps = 2/168 (1%)

Query: 5   NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 64
           N+V   S+ C +DL ++    R  EYNP ++  + M++  PR T   + SGK+ I GA  
Sbjct: 7   NVVCQFSLRCHIDLRKLALAGRNVEYNP-RYPKVTMRLREPRATASVWSSGKITITGATS 65

Query: 65  EHDCKLASRKFAKILKQLGHP-IKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
           E + K A+R+ A++L++LG   +++  F++ N++ TC + FP++LD L   +   +SYEP
Sbjct: 66  EEEAKQAARRAARLLQKLGFKVVRFSNFRVVNVLATCSMPFPIRLDELAAKNRSSASYEP 125

Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLK 171
           EL PG++YR+  PR  L IF  G + +TGA+S  ++ EA + IYP++ 
Sbjct: 126 ELHPGVVYRITGPRATLSIFSTGSVTVTGARSMEDVREAVEKIYPIVF 173

TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the basal transcription machinery. Yet, in contrast to TBPs, TLFs seem not to interact with the TATA-box and even have a negative effect on the transcription of TATA-containing promoters. Recent results indicate that TLFs are involved in the transcription via TATA-less promoters. Length = 174

>gnl|CDD|201174 pfam00352, TBP, Transcription factor TFIID (or TATA-binding protein, TBP)

 Score =  129 bits (327), Expect = 9e-40
 Identities = 36/84 (42%), Positives = 53/84 (63%), Gaps = 1/84 (1%)

Query: 91  FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVI 150
            KI NIV + D+ FP+ L+ +     + + YEPE FPGL+YR+ +P+   LIF +G++VI
Sbjct: 4   IKIQNIVASADLGFPIDLEKIALKL-RNAEYEPEQFPGLVYRLREPKATALIFSSGKVVI 62

Query: 151 TGAKSRSELHEAFDNIYPVLKSFK 174
           TGAKS  +  +A   I P+LK   
Sbjct: 63  TGAKSEEDAKKAVRKIAPILKKLG 86

Length = 86

>gnl|CDD|201174 pfam00352, TBP, Transcription factor TFIID (or TATA-binding protein, TBP)

 Score =  106 bits (266), Expect = 2e-30
 Identities = 38/80 (47%), Positives = 54/80 (67%)

Query: 4  QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
          QN+V +  +G P+DL +I  ++R +EY P +F GL+ ++  P+ T L F SGK++I GAK
Sbjct: 7  QNIVASADLGFPIDLEKIALKLRNAEYEPEQFPGLVYRLREPKATALIFSSGKVVITGAK 66

Query: 64 HEHDCKLASRKFAKILKQLG 83
           E D K A RK A ILK+LG
Sbjct: 67 SEEDAKKAVRKIAPILKKLG 86

Length = 86

>gnl|CDD|239954 cd04518, TBP_archaea, archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription

 Score = 73.1 bits (180), Expect = 1e-16
 Identities = 30/79 (37%), Positives = 46/79 (58%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V +  +G  ++L+ I   +  +EY P +F GL+ ++  P+   L F SGK++I GAK
Sbjct: 96  QNIVASADLGREVNLDAIAIGLPNAEYEPEQFPGLVYRLDEPKVVLLLFSSGKMVITGAK 155

Query: 64  HEHDCKLASRKFAKILKQL 82
            E D K A  K    LK+L
Sbjct: 156 SEEDAKRAVEKLLSRLKEL 174

TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. Length = 174

>gnl|CDD|238352 cd00652, TBP_TLF, TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription

 Score = 72.2 bits (178), Expect = 2e-16
 Identities = 31/75 (41%), Positives = 44/75 (58%), Gaps = 9/75 (12%)

Query: 92  KIHNIVCTCDVRFPVKLD----ALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGR 147
           KI NIV T  V    +LD    AL   +++   Y P+ FPG+I R+ +P+   LIF +G+
Sbjct: 3   KIQNIVAT--VNLGCELDLRKIALAARNAE---YNPKRFPGVIMRLREPKTTALIFSSGK 57

Query: 148 IVITGAKSRSELHEA 162
           +VITGAKS  +   A
Sbjct: 58  MVITGAKSEEDAKLA 72

TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many equivalent positions, suggesting similar structure. However, TLFs contain distinct, conserved amino acids at several positions that distinguish them from TBP. Length = 174

>gnl|CDD|225012 COG2101, SPT15, TATA-box binding protein (TBP), component of TFIID and TFIIIB [Transcription]

 Score = 72.4 bits (178), Expect = 2e-16
 Identities = 33/84 (39%), Positives = 46/84 (54%), Gaps = 2/84 (2%)

Query: 2   HYQNMVGTISVGCPLDLNQINSRV--RYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLI 59
             QN+V +  +G  L+LN I   +     EY P +F GL+ ++  PR   L F SGKL+I
Sbjct: 100 KVQNIVASADLGVELNLNAIAIGLGLENIEYEPEQFPGLVYRLDEPRVVLLLFGSGKLVI 159

Query: 60  LGAKHEHDCKLASRKFAKILKQLG 83
            GAK E D + A  K    L++LG
Sbjct: 160 TGAKSEEDAEQAVEKIQSRLEELG 183

Length = 185

>gnl|CDD|238352 cd00652, TBP_TLF, TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription

 Score = 67.6 bits (166), Expect = 1e-14
 Identities = 28/79 (35%), Positives = 42/79 (53%), Gaps = 1/79 (1%)

Query: 4   QNMVGTISVGCPLDLNQINSRVR-YSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGA 62
           QN+V +  +G P+ L ++  +    + Y P  F GLI ++  P+   L F SGK++I GA
Sbjct: 96  QNIVASCDLGFPIRLEELALKHPENASYEPELFPGLIYRMDEPKVVLLIFVSGKIVITGA 155

Query: 63  KHEHDCKLASRKFAKILKQ 81
           K   D   A  K   ILK+
Sbjct: 156 KSREDIYEAVEKIYPILKE 174

TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many equivalent positions, suggesting similar structure. However, TLFs contain distinct, conserved amino acids at several positions that distinguish them from TBP. Length = 174

>gnl|CDD|234746 PRK00394, PRK00394, transcription factor; Reviewed

 Score = 67.2 bits (165), Expect = 2e-14
 Identities = 32/82 (39%), Positives = 48/82 (58%), Gaps = 2/82 (2%)

Query: 4   QNMVGTISVGCPLDLNQI--NSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
           QN+V +  +G  L+LN I     +   EY P +F GL+ ++ +P+   L F SGKL+I G
Sbjct: 95  QNIVASADLGVELNLNAIAIGLGLENIEYEPEQFPGLVYRLDDPKVVVLLFGSGKLVITG 154

Query: 62  AKHEHDCKLASRKFAKILKQLG 83
           AK E D + A  K  + L++LG
Sbjct: 155 AKSEEDAEKAVEKILEKLEELG 176

Length = 179

>gnl|CDD|239954 cd04518, TBP_archaea, archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription

 Score = 65.7 bits (161), Expect = 5e-14
 Identities = 35/83 (42%), Positives = 49/83 (59%), Gaps = 5/83 (6%)

Query: 92  KIHNIVCTCDVRFPVKLDALHHVHSQF--SSYEPELFPGLIYRMVKPRVVLLIFVNGRIV 149
           KI NIV +  V    +LD L  V ++   + Y P+ FPGL+YR+  P++  LIF +G++V
Sbjct: 3   KIENIVAS--VDLGQELD-LEKVAAELPNAEYNPDQFPGLVYRLEDPKIAALIFRSGKMV 59

Query: 150 ITGAKSRSELHEAFDNIYPVLKS 172
            TGAKS  +LH A   I   LK 
Sbjct: 60  CTGAKSVEDLHRAVKEIIKKLKD 82

TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. Length = 174

>gnl|CDD|239953 cd04517, TLF, TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans

 Score = 40.4 bits (95), Expect = 1e-04
 Identities = 21/78 (26%), Positives = 41/78 (52%), Gaps = 1/78 (1%)

Query: 5   NMVGTISVGCPLDLNQINSRVR-YSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           N++ T S+  P+ L+++ ++ R  + Y P    G++ +I  PR T   F +G + + GA+
Sbjct: 97  NVLATCSMPFPIRLDELAAKNRSSASYEPELHPGVVYRITGPRATLSIFSTGSVTVTGAR 156

Query: 64  HEHDCKLASRKFAKILKQ 81
              D + A  K   I+ +
Sbjct: 157 SMEDVREAVEKIYPIVFE 174

TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the basal transcription machinery. Yet, in contrast to TBPs, TLFs seem not to interact with the TATA-box and even have a negative effect on the transcription of TATA-containing promoters. Recent results indicate that TLFs are involved in the transcription via TATA-less promoters. Length = 174

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	176
PLN00062	179	TATA-box-binding protein; Provisional	100.0
cd04516	174	TBP_eukaryotes eukaryotic TATA box binding protein	100.0
COG2101	185	SPT15 TATA-box binding protein (TBP), component of	100.0
PRK00394	179	transcription factor; Reviewed	100.0
KOG3302|consensus	200		100.0
cd04518	174	TBP_archaea archaeal TATA box binding protein (TBP	100.0
cd00652	174	TBP_TLF TATA box binding protein (TBP): Present in	100.0
cd04517	174	TLF TBP-like factors (TLF; also called TLP, TRF, T	100.0
PF00352	86	TBP: Transcription factor TFIID (or TATA-binding p	99.98
PF00352	86	TBP: Transcription factor TFIID (or TATA-binding p	99.97
COG2101	185	SPT15 TATA-box binding protein (TBP), component of	99.96
PRK00394	179	transcription factor; Reviewed	99.96
cd04518	174	TBP_archaea archaeal TATA box binding protein (TBP	99.96
cd04516	174	TBP_eukaryotes eukaryotic TATA box binding protein	99.95
PLN00062	179	TATA-box-binding protein; Provisional	99.94
cd00652	174	TBP_TLF TATA box binding protein (TBP): Present in	99.94
cd04517	174	TLF TBP-like factors (TLF; also called TLP, TRF, T	99.93
KOG3302|consensus	200		99.86
PF11858	81	DUF3378: Domain of unknown function (DUF3378); Int	96.93
PF11858	81	DUF3378: Domain of unknown function (DUF3378); Int	96.89
COG4871	193	Uncharacterized protein conserved in archaea [Func	96.88
COG4871	193	Uncharacterized protein conserved in archaea [Func	95.54
COG1039	297	RnhC Ribonuclease HIII [DNA replication, recombina	94.98
PRK00996	304	ribonuclease HIII; Provisional	94.71
COG1039	297	RnhC Ribonuclease HIII [DNA replication, recombina	94.56
TIGR00716	284	rnhC ribonuclease HIII. Two types of ribonuclease	94.35
TIGR00716	284	rnhC ribonuclease HIII. Two types of ribonuclease	93.92
PRK00996	304	ribonuclease HIII; Provisional	93.83
PRK12475	338	thiamine/molybdopterin biosynthesis MoeB-like prot	88.74
PRK12475	338	thiamine/molybdopterin biosynthesis MoeB-like prot	88.35
PRK11509	132	hydrogenase-1 operon protein HyaE; Provisional	84.68
TIGR02187	215	GlrX_arch Glutaredoxin-like domain protein. This f	84.05
PRK07688	339	thiamine/molybdopterin biosynthesis ThiF/MoeB-like	82.68

>PLN00062 TATA-box-binding protein; Provisional

Probab=100.00  E-value=5.4e-69  Score=427.25  Aligned_cols=176  Identities=57%  Similarity=1.019  Sum_probs=173.1

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+|||||++++|++||++||..++|++|||++|||++||+++|+++++||+||||+||||+|+++++.|+++++++|+
T Consensus         2 ~~I~NvVas~~l~~~idL~~la~~~~n~eYePe~fpgli~Rl~~Pk~t~lIF~SGKiviTGaks~e~a~~a~~~~~~~L~   81 (179)
T PLN00062          2 PTLQNIVSTVNLDCKLDLKKIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAKSEHDSKLAARKYARIIQ   81 (179)
T ss_pred             cEEEEEEEEEEcCCcccHHHHHhhCCCCEECCccCcEEEEEeCCCcEEEEEECCCeEEEEecCCHHHHHHHHHHHHHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCcccceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHH
Q psy2814          81 QLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELH  160 (176)
Q Consensus        81 ~~g~~~~~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~  160 (176)
                      ++|+++++.+|+|+|||||+|++++|||+.|+..|+++++||||+||||+||+.+|+++++||+||||+|||||+++|++
T Consensus        82 ~lg~~~~~~~f~v~NIvas~~l~~~i~L~~la~~~~~~~~YePE~fPgliyr~~~pk~~~liF~sGkvvitGaks~~~~~  161 (179)
T PLN00062         82 KLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYAHGAFSSYEPELFPGLIYRMKQPKIVLLIFVSGKIVITGAKVREEIY  161 (179)
T ss_pred             HcCCCcCCCccEEEEEEEEEECCCcccHHHHHHhchhhcccCcccCceEEEEeCCCcEEEEEeCCCEEEEEecCCHHHHH
Confidence            99999999999999999999999999999999888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcC
Q psy2814         161 EAFDNIYPVLKSFKKQ  176 (176)
Q Consensus       161 ~a~~~i~~~L~~~r~~  176 (176)
                      +|++.|+|+|.+||++
T Consensus       162 ~ai~~i~p~L~~~~~~  177 (179)
T PLN00062        162 TAFENIYPVLTEFRKR  177 (179)
T ss_pred             HHHHHHHHHHHHhccC
Confidence            9999999999999975

>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription

Probab=100.00  E-value=2.8e-68  Score=421.71  Aligned_cols=173  Identities=60%  Similarity=1.065  Sum_probs=170.2

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+|||||++++|++||++||..++|++|||++|||++||+++|+++++||+||||+||||+|+|+++.|+++++++|+
T Consensus         2 ~~I~NvVas~~l~~~idL~~la~~~~n~eYePe~fpgli~Rl~~Pk~t~lIF~SGKiviTGaks~e~a~~a~~~i~~~L~   81 (174)
T cd04516           2 PKIQNIVATVNLGCKLDLKKIALRARNAEYNPKRFAAVIMRIREPKTTALIFSSGKMVCTGAKSEDDSKLAARKYARIIQ   81 (174)
T ss_pred             CEEEEEEEEEEcCCeecHHHHHhhCCCCEECCccCcEEEEEeCCCcEEEEEECCCeEEEEecCCHHHHHHHHHHHHHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCcccceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHH
Q psy2814          81 QLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELH  160 (176)
Q Consensus        81 ~~g~~~~~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~  160 (176)
                      ++|+++++.+|+|+|||||+|++++|||++|+..++++++||||+||||+||+.+|+++++||+||||+|||+||++|++
T Consensus        82 ~~g~~~~~~~~~v~Nivat~~l~~~i~L~~la~~~~~~~~YePE~fPgliyr~~~pk~~~liF~sGkvvitGaks~~~~~  161 (174)
T cd04516          82 KLGFPAKFTDFKIQNIVGSCDVKFPIRLEGLAHAHKQFSSYEPELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKSREEIY  161 (174)
T ss_pred             HcCCCCCCCceEEEEEEEEEECCCcccHHHHHHhChhccEeCCccCceEEEEecCCcEEEEEeCCCEEEEEecCCHHHHH
Confidence            99999999999999999999999999999999888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhh
Q psy2814         161 EAFDNIYPVLKSF  173 (176)
Q Consensus       161 ~a~~~i~~~L~~~  173 (176)
                      +|+++|+|+|.+|
T Consensus       162 ~a~~~i~p~L~~~  174 (174)
T cd04516         162 QAFENIYPILLQF  174 (174)
T ss_pred             HHHHHHHHHHhhC
Confidence            9999999999986

TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.

>COG2101 SPT15 TATA-box binding protein (TBP), component of TFIID and TFIIIB [Transcription]

Probab=100.00  E-value=3.1e-67  Score=408.86  Aligned_cols=174  Identities=39%  Similarity=0.665  Sum_probs=169.3

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      |+|+|||||.+|++++||.+++..+++++|||++||||+||+.+|+++++||+|||++||||||+++++.|+++++++|+
T Consensus         8 i~IeNIVAS~~L~~elDL~~~~~~l~~aeYnP~qFpGlv~Rl~ePk~a~LIF~SGK~VcTGaKs~ed~~~av~~~~~~L~   87 (185)
T COG2101           8 ITIENIVASVDLGQELDLEEVALDLPGAEYNPEQFPGLVYRLEEPKTAALIFRSGKVVCTGAKSVEDVHRAVKKLAKKLK   87 (185)
T ss_pred             cEEEEEEEEechhhhccHHHHHhhCCCCccCHhHCCeeEEEecCCcceEEEEecCcEEEeccCcHHHHHHHHHHHHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCccc-ceeeeeeEEEEeeeCcccCHHHHHHHcC-CCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHH
Q psy2814          81 QLGHPIKY-QGFKIHNIVCTCDVRFPVKLDALHHVHS-QFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSE  158 (176)
Q Consensus        81 ~~g~~~~~-~~~~i~nIvas~~l~~~i~L~~l~~~~~-~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~  158 (176)
                      +.|+++.+ ++++|||||||+|++.++||+.+|..++ ++++|||||||||+||+.+|+++++||.|||+||||||+++|
T Consensus        88 ~~g~~~~~~p~i~iQNIVaSadL~~~lnL~~iA~~lg~e~~eYEPEqFPGLVYRl~~P~VV~LiF~SGK~ViTGaK~~ed  167 (185)
T COG2101          88 DGGIDIDFEPEIKVQNIVASADLGVELNLNAIAIGLGLENIEYEPEQFPGLVYRLDEPRVVLLLFGSGKLVITGAKSEED  167 (185)
T ss_pred             hcCcCcCCCCceEEEEEEEEeccCccccHHHHHHhccccccccccccCCeeEEEcCCCCEEEEEecCCcEEEecCCCHHH
Confidence            99999987 7999999999999999999999998765 569999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhh
Q psy2814         159 LHEAFDNIYPVLKSFK  174 (176)
Q Consensus       159 ~~~a~~~i~~~L~~~r  174 (176)
                      +++|+++|++.|.++.
T Consensus       168 ~~~Av~~i~~~L~elg  183 (185)
T COG2101         168 AEQAVEKIQSRLEELG  183 (185)
T ss_pred             HHHHHHHHHHHHHHhc
Confidence            9999999999999875

>PRK00394 transcription factor; Reviewed

Probab=100.00  E-value=4.7e-66  Score=410.78  Aligned_cols=174  Identities=36%  Similarity=0.626  Sum_probs=168.9

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      |+|+|||||+++++++||++||..++|++|||++|||++||+++|+++++||+||||+||||+|+++++.|+++++++|+
T Consensus         1 i~i~NvVas~~l~~~ldL~~la~~~~n~eYePe~fpgli~Rl~~Pk~t~lIf~sGKiv~tGa~S~~~a~~a~~~~~~~l~   80 (179)
T PRK00394          1 IKIENIVASTDLGQELDLEKVAEDLPNAEYNPEQFPGLVYRLEDPKIAALIFRSGKVVCTGAKSVEDLHEAVKIIIKKLK   80 (179)
T ss_pred             CEEEEEEEEEEcCCCcCHHHHHhhCCCceeCcccCceEEEEecCCceEEEEEcCCcEEEEccCCHHHHHHHHHHHHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCcc-cceeeeeeEEEEeeeCcccCHHHHHHHc-CCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHH
Q psy2814          81 QLGHPIK-YQGFKIHNIVCTCDVRFPVKLDALHHVH-SQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSE  158 (176)
Q Consensus        81 ~~g~~~~-~~~~~i~nIvas~~l~~~i~L~~l~~~~-~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~  158 (176)
                      ++|+++. ..+|+|+|||||+|++++|||++++..+ .++++||||+||||+||+.+|+++++||+||||+||||||++|
T Consensus        81 ~~g~~~~~~~~~~i~NiVas~~l~~~i~L~~la~~~~~~~~~YePe~fPglvyR~~~pk~~~lIF~SGKvvitGaks~~~  160 (179)
T PRK00394         81 ELGIKVIDEPEIKVQNIVASADLGVELNLNAIAIGLGLENIEYEPEQFPGLVYRLDDPKVVVLLFGSGKLVITGAKSEED  160 (179)
T ss_pred             HcCCCccCCCceEEEEEEEEEEcCCeEcHHHHHHhcCcCCcEECcccCceEEEEecCCcEEEEEEcCCEEEEEecCCHHH
Confidence            9999986 5899999999999999999999999765 3789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhh
Q psy2814         159 LHEAFDNIYPVLKSFK  174 (176)
Q Consensus       159 ~~~a~~~i~~~L~~~r  174 (176)
                      +++|+++|+|.|+++.
T Consensus       161 ~~~a~~~i~~~l~~~g  176 (179)
T PRK00394        161 AEKAVEKILEKLEELG  176 (179)
T ss_pred             HHHHHHHHHHHHHHcC
Confidence            9999999999999875

>KOG3302|consensus

Probab=100.00  E-value=3.3e-66  Score=409.02  Aligned_cols=176  Identities=56%  Similarity=0.992  Sum_probs=173.6

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      +.++||||+++++|++||.+||...+|++|||++|++++||++.|++|++||+||||+||||+|+++++.|+++++++||
T Consensus        23 ~~l~nivc~~~~~c~ldLk~ial~~~N~ey~Pk~~~aVimrir~P~~ta~I~ssGKi~ctgA~se~~ar~aark~aRilq  102 (200)
T KOG3302|consen   23 PTLQNIVCTVNLNCKLDLKEIALHARNAEYNPKRFAAVIMRIRSPRTTALIFSSGKIVCTGAKSEDSARLAARKYARILQ  102 (200)
T ss_pred             eEEEeEEEEEeccceecHHHHhhhccccccCcccccEEEEEEcCCceEEEEecCCcEEEeccCCHHHHHHHHHHHHHHHH
Confidence            36899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCcccceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHH
Q psy2814          81 QLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELH  160 (176)
Q Consensus        81 ~~g~~~~~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~  160 (176)
                      ++||++++.||++|||+||||++|+|+||.|+..|+.+++||||+||||+|||.+|+++++||+||||++|||++.+|+.
T Consensus       103 kLgf~~~f~~fki~nv~asc~vpF~IrLe~~~~~h~~~ssYepel~PgliYrm~~pkv~l~IF~tG~VvvtgA~~~~~i~  182 (200)
T KOG3302|consen  103 KLGFPVKFRDFKINNVVASCDVPFPIRLEGLALRHPVFSSYEPELFPGLIYRMVKPKVVLLIFVTGKVVVTGAKVREETY  182 (200)
T ss_pred             HcCCCceehheeeEEEEEEEeccceeehhHhhhhCCcccccCcccCceeEEEecCCcEEEEEecCCEEEEEecccHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcC
Q psy2814         161 EAFDNIYPVLKSFKKQ  176 (176)
Q Consensus       161 ~a~~~i~~~L~~~r~~  176 (176)
                      +|+++|+|+|.+|||+
T Consensus       183 ~Ai~~IyPil~~frk~  198 (200)
T KOG3302|consen  183 EAIENIYPILLEFRKK  198 (200)
T ss_pred             HHHHHHhHHHHHhhhc
Confidence            9999999999999985

>cd04518 TBP_archaea archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription

Probab=100.00  E-value=1.3e-65  Score=406.58  Aligned_cols=172  Identities=37%  Similarity=0.669  Sum_probs=166.9

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+|||||++++++|||++||..++|++|||++|||++||+++|+++++||+||||+||||+|+++++.|+++++++|+
T Consensus         2 ~~I~NvVas~~l~~~ldL~~la~~~~n~eY~P~~fpgli~Rl~~Pk~t~lIF~SGKiv~tGaks~~~a~~a~~~~~~~L~   81 (174)
T cd04518           2 LKIENIVASVDLGQELDLEKVAAELPNAEYNPDQFPGLVYRLEDPKIAALIFRSGKMVCTGAKSVEDLHRAVKEIIKKLK   81 (174)
T ss_pred             cEEEEEEEEEEcCCeecHHHHHhhCCCcEECCCcCcEEEEEccCCcEEEEEECCCeEEEEccCCHHHHHHHHHHHHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCcc-cceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHH
Q psy2814          81 QLGHPIK-YQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSEL  159 (176)
Q Consensus        81 ~~g~~~~-~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~  159 (176)
                      ++|++.. ..+|+|+|||||++++++|||++++..++ +++||||+||||+||+.+|+++++||+||||+||||||++|+
T Consensus        82 ~~g~~~~~~~~~~i~NIVas~~l~~~i~L~~la~~~~-~~~YePe~fpglvyR~~~pk~~~lIF~SGKvvitGaks~~~~  160 (174)
T cd04518          82 DYGIKVIEKPEIKVQNIVASADLGREVNLDAIAIGLP-NAEYEPEQFPGLVYRLDEPKVVLLLFSSGKMVITGAKSEEDA  160 (174)
T ss_pred             hcCCCccCCCceEEEEEEEEEEcCCccCHHHHHhhCC-CCccCcccCceEEEEecCCcEEEEEeCCCEEEEEecCCHHHH
Confidence            9999876 47999999999999999999999998775 899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q psy2814         160 HEAFDNIYPVLKSF  173 (176)
Q Consensus       160 ~~a~~~i~~~L~~~  173 (176)
                      ++|+++|+|.|+++
T Consensus       161 ~~a~~~i~~~l~~~  174 (174)
T cd04518         161 KRAVEKLLSRLKEL  174 (174)
T ss_pred             HHHHHHHHHHHhhC
Confidence            99999999999874

TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.

>cd00652 TBP_TLF TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription

Probab=100.00  E-value=1.3e-65  Score=406.76  Aligned_cols=172  Identities=56%  Similarity=1.004  Sum_probs=168.3

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+||||+++++|++||.+||..++|++|||++|||++||+++|+++++||+||||+||||+|+++++.|+++++++|+
T Consensus         2 ~~i~NvVas~~l~~~idL~~la~~~~n~~YePe~fpgli~R~~~P~~t~lIf~sGKivitGaks~~~~~~a~~~~~~~L~   81 (174)
T cd00652           2 PKIQNIVATVNLGCELDLRKIALAARNAEYNPKRFPGVIMRLREPKTTALIFSSGKMVITGAKSEEDAKLAARKYARILQ   81 (174)
T ss_pred             cEEEEEEEEEEcCCccCHHHHHhhCCCcEECCCccceEEEEcCCCcEEEEEECCCEEEEEecCCHHHHHHHHHHHHHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCc-ccceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHH
Q psy2814          81 QLGHPI-KYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSEL  159 (176)
Q Consensus        81 ~~g~~~-~~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~  159 (176)
                      ++|+++ ++.+|+|+|||||++++++|||++|+..++++++||||+||||+||+.+|++|++||+||||+||||||++|+
T Consensus        82 ~~g~~~~~~~~~~v~NIvas~~l~~~i~L~~la~~~~~~~~YePe~fpgli~r~~~pk~t~lIF~sGkvvitGaks~~~~  161 (174)
T cd00652          82 KLGFPVEKFPEFKVQNIVASCDLGFPIRLEELALKHPENASYEPELFPGLIYRMDEPKVVLLIFVSGKIVITGAKSREDI  161 (174)
T ss_pred             HcCCCccccCceEEEEEEEEEECCCcccHHHHHhhhhcccEECCccCceEEEEecCCcEEEEEEcCCEEEEEecCCHHHH
Confidence            999987 7899999999999999999999999998878999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy2814         160 HEAFDNIYPVLKS  172 (176)
Q Consensus       160 ~~a~~~i~~~L~~  172 (176)
                      ++|+++|+|+|.+
T Consensus       162 ~~a~~~i~~~L~~  174 (174)
T cd00652         162 YEAVEKIYPILKE  174 (174)
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999999974

TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many

>cd04517 TLF TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans

Probab=100.00  E-value=1.2e-64  Score=401.12  Aligned_cols=171  Identities=37%  Similarity=0.742  Sum_probs=167.2

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+|||||+++++++||+++|..++|++||| +|||++||+++|+++++||+|||++|||++|+++++.|+++++++|+
T Consensus         3 ~~i~Nvvas~~l~~~idL~~la~~l~n~eYeP-~fpgli~R~~~Pk~t~lIF~sGKiviTGaks~~~~~~a~~~~~~~l~   81 (174)
T cd04517           3 ILIVNVVCQFSLRCHIDLRKLALAGRNVEYNP-RYPKVTMRLREPRATASVWSSGKITITGATSEEEAKQAARRAARLLQ   81 (174)
T ss_pred             cEEEEEEEEEEcCCcccHHHHHhhCCCCEEeC-CCCEEEEEecCCcEEEEEECCCeEEEEccCCHHHHHHHHHHHHHHHH
Confidence            58999999999999999999999999999999 99999999999999999999999999999999999999999999999


Q ss_pred             hcCCCc-ccceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHH
Q psy2814          81 QLGHPI-KYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSEL  159 (176)
Q Consensus        81 ~~g~~~-~~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~  159 (176)
                      ++|++. ++.+|+|+||||++|++++|||++|+..+.++++||||+||||+||+.+|++|++||+||||+|||+|+++|+
T Consensus        82 ~~g~~~~~~~~f~v~nIvat~~~~~~i~L~~la~~~~~~~~YePE~fPgliyr~~~p~~t~lIF~sGkivitGaks~~~~  161 (174)
T cd04517          82 KLGFKVVRFSNFRVVNVLATCSMPFPIRLDELAAKNRSSASYEPELHPGVVYRITGPRATLSIFSTGSVTVTGARSMEDV  161 (174)
T ss_pred             HcCCCcccCCceEEEEEEEEEeCCCcccHHHHHHhchhhcEeCCccCCEEEEEECCCcEEEEEeCCCEEEEEecCCHHHH
Confidence            999987 7899999999999999999999999988888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy2814         160 HEAFDNIYPVLKS  172 (176)
Q Consensus       160 ~~a~~~i~~~L~~  172 (176)
                      ++|+++|+|+|.+
T Consensus       162 ~~a~~~i~pil~~  174 (174)
T cd04517         162 REAVEKIYPIVFE  174 (174)
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999999974

TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the basal transcription machinery. Yet, in contrast to TBPs, TLFs seem not to interact with the TATA-box and even have a negative effect on the transcription of TATA-containing promoters. Recent results indicate that TLFs are involved in the transcription via TATA-less promoters.

>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]

Probab=99.98  E-value=4.3e-32  Score=192.19  Aligned_cols=86  Identities=45%  Similarity=0.817  Sum_probs=80.8

Q ss_pred             cceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHHHH
Q psy2814          88 YQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIY  167 (176)
Q Consensus        88 ~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~i~  167 (176)
                      |++++|+||||+++++++|||++|+..+ ++++||||+|||++||+.+|+++++||+||||+||||+|++++++|+++++
T Consensus         1 ~~~~~i~NIva~~~l~~~idL~~la~~~-~~~~YePe~fpgl~~r~~~p~~t~~IF~sGki~itGaks~~~~~~a~~~i~   79 (86)
T PF00352_consen    1 FPDFKIVNIVASFDLPFEIDLEELAEEL-ENVEYEPERFPGLIYRLRNPKATVLIFSSGKIVITGAKSEEEAKKAIEKIL   79 (86)
T ss_dssp             -EEEEEEEEEEEEE-SSEB-HHHHHHHS-TTEEEETTTESSEEEEETTTTEEEEEETTSEEEEEEESSHHHHHHHHHHHH
T ss_pred             CCccEEEEEEEEEECCCccCHHHHHhhc-cCcEEeeccCCeEEEeecCCcEEEEEEcCCEEEEEecCCHHHHHHHHHHHH
Confidence            4789999999999999999999999877 899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhh
Q psy2814         168 PVLKSFK  174 (176)
Q Consensus       168 ~~L~~~r  174 (176)
                      |+|++++
T Consensus        80 ~~L~~~~   86 (86)
T PF00352_consen   80 PILQKLG   86 (86)
T ss_dssp             HHHHHTT
T ss_pred             HHHHHcC
Confidence            9999985

TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....

>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]

Probab=99.97  E-value=1.1e-31  Score=190.10  Aligned_cols=83  Identities=37%  Similarity=0.670  Sum_probs=79.2

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+||||+++++++|||.+||..++|++|||++|||++||+++|+++++||+||||+|||++|+++++.|+++++++|+
T Consensus         4 ~~i~NIva~~~l~~~idL~~la~~~~~~~YePe~fpgl~~r~~~p~~t~~IF~sGki~itGaks~~~~~~a~~~i~~~L~   83 (86)
T PF00352_consen    4 FKIVNIVASFDLPFEIDLEELAEELENVEYEPERFPGLIYRLRNPKATVLIFSSGKIVITGAKSEEEAKKAIEKILPILQ   83 (86)
T ss_dssp             EEEEEEEEEEE-SSEB-HHHHHHHSTTEEEETTTESSEEEEETTTTEEEEEETTSEEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred             cEEEEEEEEEECCCccCHHHHHhhccCcEEeeccCCeEEEeecCCcEEEEEEcCCEEEEEecCCHHHHHHHHHHHHHHHH
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcC
Q psy2814          81 QLG   83 (176)
Q Consensus        81 ~~g   83 (176)
                      ++|
T Consensus        84 ~~~   86 (86)
T PF00352_consen   84 KLG   86 (86)
T ss_dssp             HTT
T ss_pred             HcC
Confidence            986

TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....

>COG2101 SPT15 TATA-box binding protein (TBP), component of TFIID and TFIIIB [Transcription]

Probab=99.96  E-value=1.2e-29  Score=198.18  Aligned_cols=84  Identities=39%  Similarity=0.636  Sum_probs=80.5

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCC--cEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRY--SEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKI   78 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n--~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~   78 (176)
                      |+|||||||++|+.++||+.+|..+.+  ++||||+||||+||+.+|++.++||+|||+||||+|+++|++.|++++.+.
T Consensus        99 i~iQNIVaSadL~~~lnL~~iA~~lg~e~~eYEPEqFPGLVYRl~~P~VV~LiF~SGK~ViTGaK~~ed~~~Av~~i~~~  178 (185)
T COG2101          99 IKVQNIVASADLGVELNLNAIAIGLGLENIEYEPEQFPGLVYRLDEPRVVLLLFGSGKLVITGAKSEEDAEQAVEKIQSR  178 (185)
T ss_pred             eEEEEEEEEeccCccccHHHHHHhccccccccccccCCeeEEEcCCCCEEEEEecCCcEEEecCCCHHHHHHHHHHHHHH
Confidence            689999999999999999999987654  999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCC
Q psy2814          79 LKQLGH   84 (176)
Q Consensus        79 L~~~g~   84 (176)
                      |+++|.
T Consensus       179 L~elgl  184 (185)
T COG2101         179 LEELGL  184 (185)
T ss_pred             HHHhcc
Confidence            999874

>PRK00394 transcription factor; Reviewed

Probab=99.96  E-value=4.3e-29  Score=198.71  Aligned_cols=84  Identities=38%  Similarity=0.638  Sum_probs=81.5

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcC--CCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRV--RYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKI   78 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~--~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~   78 (176)
                      ++|+|||||++++++|||+.+|...  +|++||||+||||+||+.+|+++++||+||||+||||||+++++.|+++++++
T Consensus        92 ~~i~NiVas~~l~~~i~L~~la~~~~~~~~~YePe~fPglvyR~~~pk~~~lIF~SGKvvitGaks~~~~~~a~~~i~~~  171 (179)
T PRK00394         92 IKVQNIVASADLGVELNLNAIAIGLGLENIEYEPEQFPGLVYRLDDPKVVVLLFGSGKLVITGAKSEEDAEKAVEKILEK  171 (179)
T ss_pred             eEEEEEEEEEEcCCeEcHHHHHHhcCcCCcEECcccCceEEEEecCCcEEEEEEcCCEEEEEecCCHHHHHHHHHHHHHH
Confidence            4799999999999999999999876  89999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCC
Q psy2814          79 LKQLGH   84 (176)
Q Consensus        79 L~~~g~   84 (176)
                      |+++|+
T Consensus       172 l~~~g~  177 (179)
T PRK00394        172 LEELGL  177 (179)
T ss_pred             HHHcCC
Confidence            999985

>cd04518 TBP_archaea archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription

Probab=99.96  E-value=1.2e-28  Score=195.31  Aligned_cols=82  Identities=37%  Similarity=0.620  Sum_probs=79.5

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+|||||++++++|||+.+|...+|++||||+||||+||+.+|+++++||+||||+|||+||+++++.|+++++++|+
T Consensus        93 ~~i~NIVas~~l~~~i~L~~la~~~~~~~YePe~fpglvyR~~~pk~~~lIF~SGKvvitGaks~~~~~~a~~~i~~~l~  172 (174)
T cd04518          93 IKVQNIVASADLGREVNLDAIAIGLPNAEYEPEQFPGLVYRLDEPKVVLLLFSSGKMVITGAKSEEDAKRAVEKLLSRLK  172 (174)
T ss_pred             eEEEEEEEEEEcCCccCHHHHHhhCCCCccCcccCceEEEEecCCcEEEEEeCCCEEEEEecCCHHHHHHHHHHHHHHHh
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             hc
Q psy2814          81 QL   82 (176)
Q Consensus        81 ~~   82 (176)
                      ++
T Consensus       173 ~~  174 (174)
T cd04518         173 EL  174 (174)
T ss_pred             hC
Confidence            64

TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.

>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription

Probab=99.95  E-value=3.3e-27  Score=187.08  Aligned_cols=82  Identities=29%  Similarity=0.487  Sum_probs=78.5

Q ss_pred             eeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHHHHHHH
Q psy2814          91 FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVL  170 (176)
Q Consensus        91 ~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~i~~~L  170 (176)
                      ++|+|||||++++++|||++|+..+ ++++||||+||||+||+.+|+++++||+||||+||||+|+++++.|+++++++|
T Consensus         2 ~~I~NvVas~~l~~~idL~~la~~~-~n~eYePe~fpgli~Rl~~Pk~t~lIF~SGKiviTGaks~e~a~~a~~~i~~~L   80 (174)
T cd04516           2 PKIQNIVATVNLGCKLDLKKIALRA-RNAEYNPKRFAAVIMRIREPKTTALIFSSGKMVCTGAKSEDDSKLAARKYARII   80 (174)
T ss_pred             CEEEEEEEEEEcCCeecHHHHHhhC-CCCEECCccCcEEEEEeCCCcEEEEEECCCeEEEEecCCHHHHHHHHHHHHHHH
Confidence            6899999999999999999999654 779999999999999999999999999999999999999999999999999999


Q ss_pred             Hhh
Q psy2814         171 KSF  173 (176)
Q Consensus       171 ~~~  173 (176)
                      +++
T Consensus        81 ~~~   83 (174)
T cd04516          81 QKL   83 (174)
T ss_pred             HHc
Confidence            875

TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.

>PLN00062 TATA-box-binding protein; Provisional

Probab=99.94  E-value=6.1e-27  Score=186.23  Aligned_cols=82  Identities=27%  Similarity=0.474  Sum_probs=78.3

Q ss_pred             eeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHHHHHHH
Q psy2814          91 FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVL  170 (176)
Q Consensus        91 ~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~i~~~L  170 (176)
                      ++|+|||||++++++|||++|+... ++++||||+||||+||+.+|+++++||+||||+||||||+++++.|++++.++|
T Consensus         2 ~~I~NvVas~~l~~~idL~~la~~~-~n~eYePe~fpgli~Rl~~Pk~t~lIF~SGKiviTGaks~e~a~~a~~~~~~~L   80 (179)
T PLN00062          2 PTLQNIVSTVNLDCKLDLKKIALQA-RNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAKSEHDSKLAARKYARII   80 (179)
T ss_pred             cEEEEEEEEEEcCCcccHHHHHhhC-CCCEECCccCcEEEEEeCCCcEEEEEECCCeEEEEecCCHHHHHHHHHHHHHHH
Confidence            5899999999999999999999654 789999999999999999999999999999999999999999999999999999


Q ss_pred             Hhh
Q psy2814         171 KSF  173 (176)
Q Consensus       171 ~~~  173 (176)
                      ++.
T Consensus        81 ~~l   83 (179)
T PLN00062         81 QKL   83 (179)
T ss_pred             HHc
Confidence            874

>cd00652 TBP_TLF TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription

Probab=99.94  E-value=6.8e-27  Score=185.39  Aligned_cols=81  Identities=35%  Similarity=0.575  Sum_probs=77.9

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCC-CcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVR-YSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKIL   79 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~-n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L   79 (176)
                      .+|+|||||++++++|||++||...+ +++||||+|||++||+.+|++|++||+||||+|||+||+++++.|++++.++|
T Consensus        93 ~~v~NIvas~~l~~~i~L~~la~~~~~~~~YePe~fpgli~r~~~pk~t~lIF~sGkvvitGaks~~~~~~a~~~i~~~L  172 (174)
T cd00652          93 FKVQNIVASCDLGFPIRLEELALKHPENASYEPELFPGLIYRMDEPKVVLLIFVSGKIVITGAKSREDIYEAVEKIYPIL  172 (174)
T ss_pred             eEEEEEEEEEECCCcccHHHHHhhhhcccEECCccCceEEEEecCCcEEEEEEcCCEEEEEecCCHHHHHHHHHHHHHHH
Confidence            37999999999999999999999875 99999999999999999999999999999999999999999999999999998


Q ss_pred             Hh
Q psy2814          80 KQ   81 (176)
Q Consensus        80 ~~   81 (176)
                      ++
T Consensus       173 ~~  174 (174)
T cd00652         173 KE  174 (174)
T ss_pred             hC
Confidence            64

TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many

>cd04517 TLF TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans

Probab=99.93  E-value=1.2e-25  Score=178.13  Aligned_cols=82  Identities=28%  Similarity=0.500  Sum_probs=78.3

Q ss_pred             eeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHHHHHH
Q psy2814          90 GFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPV  169 (176)
Q Consensus        90 ~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~i~~~  169 (176)
                      +++|+||||+++++++|||++++..+ ++++||| +||||+||+.+|+++++||+|||++|||+||+++++.|++++.++
T Consensus         2 ~~~i~Nvvas~~l~~~idL~~la~~l-~n~eYeP-~fpgli~R~~~Pk~t~lIF~sGKiviTGaks~~~~~~a~~~~~~~   79 (174)
T cd04517           2 DILIVNVVCQFSLRCHIDLRKLALAG-RNVEYNP-RYPKVTMRLREPRATASVWSSGKITITGATSEEEAKQAARRAARL   79 (174)
T ss_pred             ccEEEEEEEEEEcCCcccHHHHHhhC-CCCEEeC-CCCEEEEEecCCcEEEEEECCCeEEEEccCCHHHHHHHHHHHHHH
Confidence            68999999999999999999999654 7899999 999999999999999999999999999999999999999999999


Q ss_pred             HHhh
Q psy2814         170 LKSF  173 (176)
Q Consensus       170 L~~~  173 (176)
                      |++.
T Consensus        80 l~~~   83 (174)
T cd04517          80 LQKL   83 (174)
T ss_pred             HHHc
Confidence            9874

TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the basal transcription machinery. Yet, in contrast to TBPs, TLFs seem not to interact with the TATA-box and even have a negative effect on the transcription of TATA-containing promoters. Recent results indicate that TLFs are involved in the transcription via TATA-less promoters.

>KOG3302|consensus

Probab=99.86  E-value=2e-21  Score=154.29  Aligned_cols=85  Identities=32%  Similarity=0.527  Sum_probs=80.7

Q ss_pred             cceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHHHH
Q psy2814          88 YQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIY  167 (176)
Q Consensus        88 ~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~i~  167 (176)
                      ..++.++||||++++++++||.+|+. +..|++|||+.|+++++|++.|++|++||+||||+||||+|+++.+.|.+++.
T Consensus        20 ~i~~~l~nivc~~~~~c~ldLk~ial-~~~N~ey~Pk~~~aVimrir~P~~ta~I~ssGKi~ctgA~se~~ar~aark~a   98 (200)
T KOG3302|consen   20 GLDPTLQNIVCTVNLNCKLDLKEIAL-HARNAEYNPKRFAAVIMRIRSPRTTALIFSSGKIVCTGAKSEDSARLAARKYA   98 (200)
T ss_pred             ccceEEEeEEEEEeccceecHHHHhh-hccccccCcccccEEEEEEcCCceEEEEecCCcEEEeccCCHHHHHHHHHHHH
Confidence            36788999999999999999999994 56899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhh
Q psy2814         168 PVLKSF  173 (176)
Q Consensus       168 ~~L~~~  173 (176)
                      ++|++.
T Consensus        99 RilqkL  104 (200)
T KOG3302|consen   99 RILQKL  104 (200)
T ss_pred             HHHHHc
Confidence            999874

>PF11858 DUF3378: Domain of unknown function (DUF3378); InterPro: IPR024568 Ribonuclease HIII 3

Probab=96.93  E-value=0.00092  Score=46.82  Aligned_cols=35  Identities=23%  Similarity=0.301  Sum_probs=28.9

Q ss_pred             CCceEEEEEcCCeEEEEEecCccEEEEcccCHHHH
Q psy2814          34 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDC   68 (176)
Q Consensus        34 ~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~   68 (176)
                      .=|+.+++.+.+.|++++|.|||++.-|...+..|
T Consensus        27 ~~p~~~f~aK~~~~tIt~Y~SGKV~FQG~~Ae~~A   61 (81)
T PF11858_consen   27 KPPYAVFQAKYNGVTITAYKSGKVVFQGKNAEQEA   61 (81)
T ss_dssp             --TTEEEEEEETTEEEEEETTSEEEEESTTHHHHH
T ss_pred             CCCCEEEEEeCCCeEEEEEeCCeEEEECCCHHHHH
Confidence            33899999999999999999999999999444433

1.26 from EC cleaves RNA from DNA-RNA hybrids. It catalyses endonucleolytic cleavage to 5'-phospho-monoesters. Two types of ribonuclease H in Bacillus subtilis, RNase HII (rnhB) and RNase HIII (rnhC), are both known experimentally and are quite similar to each other []. The only RNase H homologue in the Mycoplasmas resembles rnhC. Archaeal forms resemble HII more closely than HIII. This entry represents the uncharacterised N-terminal domain of bacterial RNase HIII.; PDB: 3ASM_A 2D0C_A 2D0B_A 2D0A_A.

>PF11858 DUF3378: Domain of unknown function (DUF3378); InterPro: IPR024568 Ribonuclease HIII 3

Probab=96.89  E-value=0.0011  Score=46.49  Aligned_cols=35  Identities=17%  Similarity=0.358  Sum_probs=28.9

Q ss_pred             CCCceeEEEEcCCeEEEEEeccceEEEEecCCHHH
Q psy2814         124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSE  158 (176)
Q Consensus       124 e~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~  158 (176)
                      ..-|+..|+...+.+|+++|.||||++-|...+.+
T Consensus        26 ~~~p~~~f~aK~~~~tIt~Y~SGKV~FQG~~Ae~~   60 (81)
T PF11858_consen   26 SKPPYAVFQAKYNGVTITAYKSGKVVFQGKNAEQE   60 (81)
T ss_dssp             S--TTEEEEEEETTEEEEEETTSEEEEESTTHHHH
T ss_pred             CCCCCEEEEEeCCCeEEEEEeCCeEEEECCCHHHH
Confidence            33489999999999999999999999999954433

1.26 from EC cleaves RNA from DNA-RNA hybrids. It catalyses endonucleolytic cleavage to 5'-phospho-monoesters. Two types of ribonuclease H in Bacillus subtilis, RNase HII (rnhB) and RNase HIII (rnhC), are both known experimentally and are quite similar to each other []. The only RNase H homologue in the Mycoplasmas resembles rnhC. Archaeal forms resemble HII more closely than HIII. This entry represents the uncharacterised N-terminal domain of bacterial RNase HIII.; PDB: 3ASM_A 2D0C_A 2D0B_A 2D0A_A.

>COG4871 Uncharacterized protein conserved in archaea [Function unknown]

Probab=96.88  E-value=0.0075  Score=47.49  Aligned_cols=63  Identities=19%  Similarity=0.205  Sum_probs=53.8

Q ss_pred             ChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHHhc
Q psy2814          17 DLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQL   82 (176)
Q Consensus        17 dL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~~~   82 (176)
                      =|..||..++++.|..++ .+++++.-+  .-++||.|||+.+|-.+++++|+..+..+..++++.
T Consensus        47 ilplla~l~P~anY~~kk-~~l~~~kge--rIitiy~sGkVsm~~ikdedEAkeilgel~d~ineA  109 (193)
T COG4871          47 ILPLLAPLFPRANYSDKK-NILILQKGE--RIITIYGSGKVSMTMIKDEDEAKEILGELMDIINEA  109 (193)
T ss_pred             hHHHhHhhCCCccccccc-ceEEEeecc--EEEEEccCCeEEeeeecCHHHHHHHHHHHHHHHHHH
Confidence            356677788999999887 788888665  556799999999999999999999999999998874

>COG4871 Uncharacterized protein conserved in archaea [Function unknown]

Probab=95.54  E-value=0.1  Score=41.16  Aligned_cols=73  Identities=16%  Similarity=0.268  Sum_probs=55.0

Q ss_pred             EEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHHHHHHHHh
Q psy2814          96 IVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKS  172 (176)
Q Consensus        96 Ivas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~i~~~L~~  172 (176)
                      |.+..|=+++=-|..|+..+ +++.|... -..|+++.-+.  -++||.||||.+|--|+++++++++..+..++.+
T Consensus        36 Vi~~md~~lg~ilplla~l~-P~anY~~k-k~~l~~~kger--Iitiy~sGkVsm~~ikdedEAkeilgel~d~ine  108 (193)
T COG4871          36 VIANMDPPLGGILPLLAPLF-PRANYSDK-KNILILQKGER--IITIYGSGKVSMTMIKDEDEAKEILGELMDIINE  108 (193)
T ss_pred             EEeecCCCcchhHHHhHhhC-CCcccccc-cceEEEeeccE--EEEEccCCeEEeeeecCHHHHHHHHHHHHHHHHH
Confidence            34444545555566677666 45889854 46777775554  4669999999999999999999999999888765

>COG1039 RnhC Ribonuclease HIII [DNA replication, recombination, and repair]

Probab=94.98  E-value=0.067  Score=45.73  Aligned_cols=42  Identities=21%  Similarity=0.377  Sum_probs=35.4

Q ss_pred             CCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHH
Q psy2814         124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDN  165 (176)
Q Consensus       124 e~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~  165 (176)
                      .+.|+..|....|.+|+.+|.|||+++-|--.++.+++-...
T Consensus        27 ~~~~~~~f~ak~~gvtv~~Y~Sgk~~~QG~~ae~~~~~~l~~   68 (297)
T COG1039          27 SNPPYTVFAAKSPGVTVTIYKSGKVVIQGKGAEAFAKEFLNP   68 (297)
T ss_pred             cCCCceEEEeeCCCeEEEEEccceEEEecCCHHHHHHHHhhh
Confidence            367899999999999999999999999999766666655443

>PRK00996 ribonuclease HIII; Provisional

Probab=94.71  E-value=0.069  Score=46.01  Aligned_cols=33  Identities=30%  Similarity=0.681  Sum_probs=28.9

Q ss_pred             CCCCceeEEEEcCCeEEEEEeccceEEEEecCC
Q psy2814         123 PELFPGLIYRMVKPRVVLLIFVNGRIVITGAKS  155 (176)
Q Consensus       123 Pe~fpgl~~r~~~~~~t~~IF~sGkivitGaks  155 (176)
                      +..-|+..|+...+.+|+.+|.||||++.|...
T Consensus        26 ~~~~~~~~f~~k~~~~~it~Y~SGKv~~QG~~a   58 (304)
T PRK00996         26 PSLPPGAVFAAKKPGVTITAYKSGKVVFQGKGA   58 (304)
T ss_pred             cCCCCceEEEEcCCCeEEEEEeCCEEEEeCCCH
Confidence            345689999999999999999999999999643

>COG1039 RnhC Ribonuclease HIII [DNA replication, recombination, and repair]

Probab=94.56  E-value=0.095  Score=44.83  Aligned_cols=46  Identities=22%  Similarity=0.215  Sum_probs=38.8

Q ss_pred             CCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHH
Q psy2814          34 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKIL   79 (176)
Q Consensus        34 ~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L   79 (176)
                      ..|+.+++.+.|.+|+++|.|||+++-|--+++-++.-...++..+
T Consensus        28 ~~~~~~f~ak~~gvtv~~Y~Sgk~~~QG~~ae~~~~~~l~~~~~~~   73 (297)
T COG1039          28 NPPYTVFAAKSPGVTVTIYKSGKVVIQGKGAEAFAKEFLNPIAQTV   73 (297)
T ss_pred             CCCceEEEeeCCCeEEEEEccceEEEecCCHHHHHHHHhhhhhhhh
Confidence            5689999999999999999999999999988887777666544443

>TIGR00716 rnhC ribonuclease HIII

Probab=94.35  E-value=0.072  Score=45.49  Aligned_cols=35  Identities=29%  Similarity=0.395  Sum_probs=29.8

Q ss_pred             ccCCCceEEEEEcCCeEEEEEecCccEEEEcccCH
Q psy2814          31 NPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHE   65 (176)
Q Consensus        31 ~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~   65 (176)
                      .+..=|+.+++.+.|.+|+++|.|||++..|...+
T Consensus        22 ~~~~~~~~~f~~k~~~~~it~Y~SgKv~fQG~~ae   56 (284)
T TIGR00716        22 TKSNPPYTVFQLEGPGVKVTYYQSGKLLIQGKNSE   56 (284)
T ss_pred             ccCCCCCeEEEEeCCCeEEEEEeCCEEEEeCCCHH
Confidence            44555899999999999999999999999995443

Two types of ribonuclease H in Bacillus subtilis, RNase HII (rnhB) and RNase HIII (rnhC), are both known experimentally and are quite similar to each other. The only RNase H homolog in the Mycoplasmas resembles rnhC. Archaeal forms resemble HII more closely than HIII. This model describes bacterial RNase III.

>TIGR00716 rnhC ribonuclease HIII

Probab=93.92  E-value=0.11  Score=44.34  Aligned_cols=33  Identities=18%  Similarity=0.425  Sum_probs=29.3

Q ss_pred             CCCCCceeEEEEcCCeEEEEEeccceEEEEecC
Q psy2814         122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAK  154 (176)
Q Consensus       122 ePe~fpgl~~r~~~~~~t~~IF~sGkivitGak  154 (176)
                      ++..=|+..|+...+.+|+++|.||||++.|..
T Consensus        22 ~~~~~~~~~f~~k~~~~~it~Y~SgKv~fQG~~   54 (284)
T TIGR00716        22 TKSNPPYTVFQLEGPGVKVTYYQSGKLLIQGKN   54 (284)
T ss_pred             ccCCCCCeEEEEeCCCeEEEEEeCCEEEEeCCC
Confidence            455568999999999999999999999999953

Two types of ribonuclease H in Bacillus subtilis, RNase HII (rnhB) and RNase HIII (rnhC), are both known experimentally and are quite similar to each other. The only RNase H homolog in the Mycoplasmas resembles rnhC. Archaeal forms resemble HII more closely than HIII. This model describes bacterial RNase III.

>PRK00996 ribonuclease HIII; Provisional

Probab=93.83  E-value=0.11  Score=44.72  Aligned_cols=34  Identities=29%  Similarity=0.464  Sum_probs=29.1

Q ss_pred             cCCCceEEEEEcCCeEEEEEecCccEEEEcccCH
Q psy2814          32 PGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHE   65 (176)
Q Consensus        32 P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~   65 (176)
                      +..-|+..++.+.+.+++++|.|||+++.|...+
T Consensus        26 ~~~~~~~~f~~k~~~~~it~Y~SGKv~~QG~~ae   59 (304)
T PRK00996         26 PSLPPGAVFAAKKPGVTITAYKSGKVVFQGKGAE   59 (304)
T ss_pred             cCCCCceEEEEcCCCeEEEEEeCCEEEEeCCCHH
Confidence            3445799999999999999999999999996433

>PRK12475 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional

Probab=88.74  E-value=1.6  Score=37.96  Aligned_cols=59  Identities=17%  Similarity=0.341  Sum_probs=42.0

Q ss_pred             CccChhhHhhcCC-CcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHH
Q psy2814          14 CPLDLNQINSRVR-YSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKF   75 (176)
Q Consensus        14 ~~idL~~la~~~~-n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i   75 (176)
                      ..+|+++++..+. -.+++...| .+.++..+  -.+.+|.+|++.+.|++++++|+.-..++
T Consensus       277 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~--~~~~~f~~gr~~~~g~~~~~~a~~~~~~~  336 (338)
T PRK12475        277 RRLNLEEIKKRLQKIGKVDANPY-LLSFQLDE--YRFVLFTDGRAFIHGTNDIKKAKRLYARY  336 (338)
T ss_pred             CccCHHHHHHHHhhcCEEEeccc-EEEEEECC--EEEEEEcCCcEEEECCCCHHHHHHHHHHh
Confidence            5788888876543 123433322 34455544  78889999999999999999999876665

>PRK12475 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional

Probab=88.35  E-value=1.4  Score=38.42  Aligned_cols=35  Identities=14%  Similarity=0.413  Sum_probs=28.7

Q ss_pred             EEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHHH
Q psy2814         130 IYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNI  166 (176)
Q Consensus       130 ~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~i  166 (176)
                      .++..+  -.+.+|+.|++.|-|.+++++++.-+.++
T Consensus       302 ~~~~~~--~~~~~f~~gr~~~~g~~~~~~a~~~~~~~  336 (338)
T PRK12475        302 SFQLDE--YRFVLFTDGRAFIHGTNDIKKAKRLYARY  336 (338)
T ss_pred             EEEECC--EEEEEEcCCcEEEECCCCHHHHHHHHHHh
Confidence            366555  46789999999999999999998877664

>PRK11509 hydrogenase-1 operon protein HyaE; Provisional

Probab=84.68  E-value=1.6  Score=33.28  Aligned_cols=61  Identities=15%  Similarity=0.212  Sum_probs=39.9

Q ss_pred             cCHHHHHHHcC-C---CcccCCCCCceeE--EEEcCCeEEEEEeccceEE--EEecCCHHHHHHHHHHHH
Q psy2814         106 VKLDALHHVHS-Q---FSSYEPELFPGLI--YRMVKPRVVLLIFVNGRIV--ITGAKSRSELHEAFDNIY  167 (176)
Q Consensus       106 i~L~~l~~~~~-~---~~~YePe~fpgl~--~r~~~~~~t~~IF~sGkiv--itGaks~~~~~~a~~~i~  167 (176)
                      +=|++|+..++ .   .+.-|-+..|.+-  |++.. --|+++|+.|+.+  +.|..+.+++.+-++.++
T Consensus        56 vvleELa~e~~~~~v~~akVDiD~~~~LA~~fgV~s-iPTLl~FkdGk~v~~i~G~~~k~~l~~~I~~~L  124 (132)
T PRK11509         56 VMIGELLREFPDYTWQVAIADLEQSEAIGDRFGVFR-FPATLVFTGGNYRGVLNGIHPWAELINLMRGLV  124 (132)
T ss_pred             HHHHHHHHHhcCCceEEEEEECCCCHHHHHHcCCcc-CCEEEEEECCEEEEEEeCcCCHHHHHHHHHHHh
Confidence            33666666543 1   3344444445443  44433 2389999999996  889999999888877664

>TIGR02187 GlrX_arch Glutaredoxin-like domain protein

Probab=84.05  E-value=5.1  Score=32.19  Aligned_cols=116  Identities=15%  Similarity=0.085  Sum_probs=66.4

Q ss_pred             eEEEEEecCccEE---EEcccCHHHHHHHHHHHHHHHHhcCC--Ccc--------cceeeeeeEEEEeeeCcc---cCHH
Q psy2814          46 RTTCLAFQSGKLL---ILGAKHEHDCKLASRKFAKILKQLGH--PIK--------YQGFKIHNIVCTCDVRFP---VKLD  109 (176)
Q Consensus        46 ~~t~~If~sGKiv---itGaks~~~~~~a~~~i~~~L~~~g~--~~~--------~~~~~i~nIvas~~l~~~---i~L~  109 (176)
                      -.|+.+|.+|+.+   ..|..+.++...-++.+... ..-+.  +..        .....|.-..+..+-+|+   --++
T Consensus        78 ~Pt~~~f~~g~~~~~~~~G~~~~~~l~~~i~~~~~~-~~~~~~L~~~~~~~l~~~~~pv~I~~F~a~~C~~C~~~~~~l~  156 (215)
T TIGR02187        78 VPTTIILEEGKDGGIRYTGIPAGYEFAALIEDIVRV-SQGEPGLSEKTVELLQSLDEPVRIEVFVTPTCPYCPYAVLMAH  156 (215)
T ss_pred             cCEEEEEeCCeeeEEEEeecCCHHHHHHHHHHHHHh-cCCCCCCCHHHHHHHHhcCCCcEEEEEECCCCCCcHHHHHHHH
Confidence            3588999999885   47998888877766665422 21111  110        012233334444333333   1234


Q ss_pred             HHHHHcC--CCcccCCCCCceeE--EEEcCCeEEEEEeccceEEEEecCCHHHHHHHHH
Q psy2814         110 ALHHVHS--QFSSYEPELFPGLI--YRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFD  164 (176)
Q Consensus       110 ~l~~~~~--~~~~YePe~fpgl~--~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~  164 (176)
                      +++...+  ....+|++.+|.+.  |.+.. --|+.+|..|+. +.|..+.+++.+.+.
T Consensus       157 ~l~~~~~~i~~~~vD~~~~~~~~~~~~V~~-vPtl~i~~~~~~-~~G~~~~~~l~~~l~  213 (215)
T TIGR02187       157 KFALANDKILGEMIEANENPDLAEKYGVMS-VPKIVINKGVEE-FVGAYPEEQFLEYIL  213 (215)
T ss_pred             HHHHhcCceEEEEEeCCCCHHHHHHhCCcc-CCEEEEecCCEE-EECCCCHHHHHHHHH
Confidence            4443322  12346777777665  44322 236778988875 889999888877664

This family of archaeal proteins contains a C-terminal domain with homology to bacterial and eukaryotic glutaredoxins, including a CPYC motif. There is an N-terminal domain which has even more distant homology to glutaredoxins. The name "glutaredoxin" may be inappropriate in the sense of working in tandem with glutathione and glutathione reductase which may not be present in the archaea. The overall domain structure appears to be related to bacterial alkylhydroperoxide reductases, but the homology may be distant enough that the function of this family is wholly different.

>PRK07688 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated

Probab=82.68  E-value=3.4  Score=36.03  Aligned_cols=59  Identities=17%  Similarity=0.337  Sum_probs=42.6

Q ss_pred             CccChhhHhhcCCCc--EEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHH
Q psy2814          14 CPLDLNQINSRVRYS--EYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKF   75 (176)
Q Consensus        14 ~~idL~~la~~~~n~--~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i   75 (176)
                      ..+++.+++..+...  ++..   +...++.+.+.-.+..|.+|+++|.|++++.+|+.-..++
T Consensus       277 ~~i~~~~~~~~l~~~~~~~~~---~~~ll~vr~~~~~~~~~~~gr~~i~g~~~~~~a~~~~~~~  337 (339)
T PRK07688        277 EEYDLEELAELLRDRGLDVNV---NPYLLSFSLEEKRLVLFKDGRVLVHGTKDISEAKTIYHRY  337 (339)
T ss_pred             CccCHHHHHHHHHhcccccCC---CcEEEEEecCCeEEEEEcCCCEEEECCCCHHHHHHHHHHh
Confidence            356777777655322  3333   3445566666689999999999999999999998876654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	176
1nvp_A	181	Human TfiiaTBPDNA COMPLEX Length = 181		4e-61
1tgh_A	185	Tata Binding Protein (Tbp)DNA COMPLEX Length = 185		5e-61
1cdw_A	179	Human Tbp Core Domain Complexed With Dna Length = 1		5e-61
1c9b_B	180	Crystal Structure Of A Human Tbp Core Domain-Human		7e-61
1jfi_C	185	Crystal Structure Of The Nc2-Tbp-Dna Ternary Comple		7e-61
1rm1_A	240	Structure Of A Yeast TfiiaTBPTATA-Box Dna Complex L		2e-59
1tbp_A	180	Crystal Structure Of Yeast Tata-Binding Protein And		5e-59
1ytb_A	180	Crystal Structure Of A Yeast TbpTATA-Box Complex Le		5e-59
1vtl_E	186	Co-Crystal Structure Of Tbp Recognizing The Minor G		1e-56
1vok_A	200	Arabidopsis Thaliana Tbp (Dimer) Length = 200		1e-56
1vto_A	190	1.9 A Resolution Refined Structure Of Tbp Recognizi		1e-56
3oc3_C	218	Crystal Structure Of The Mot1 N-Terminal Domain In		1e-53
3eik_A	218	Double Stranded Dna Binding Protein Length = 218		1e-53
1mp9_A	198	Tbp From A Mesothermophilic Archaeon, Sulfolobus Ac		5e-30
1mp9_A	198	Tbp From A Mesothermophilic Archaeon, Sulfolobus Ac		3e-10
2z8u_A	188	Methanococcus Jannaschii Tbp Length = 188		3e-26
1pcz_A	191	Structure Of Tata-Binding Protein Length = 191		9e-24
1pcz_A	191	Structure Of Tata-Binding Protein Length = 191		5e-09
1ais_A	182	Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BTATA-		9e-24
1ais_A	182	Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BTATA-		5e-09
1d3u_A	181	Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BBRE+T		1e-23
1d3u_A	181	Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BBRE+T		5e-09

>pdb|1NVP|A Chain A, Human TfiiaTBPDNA COMPLEX Length = 181

Iteration: 1
 Score =  229 bits (585), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 100/174 (57%), Positives = 137/174 (78%)
Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 6   QLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 65
Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSY
Sbjct: 66  AKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSY 125
Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           EPELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct: 126 EPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 179

>pdb|1TGH|A Chain A, Tata Binding Protein (Tbp)DNA COMPLEX Length = 185

Iteration: 1
 Score =  229 bits (585), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 100/174 (57%), Positives = 137/174 (78%)
Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 10  QLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 69
Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSY
Sbjct: 70  AKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSY 129
Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           EPELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct: 130 EPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 183

>pdb|1CDW|A Chain A, Human Tbp Core Domain Complexed With Dna Length = 179

Iteration: 1
 Score =  229 bits (585), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 100/174 (57%), Positives = 138/174 (79%)
Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 6   QLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 65
Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E + +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSY
Sbjct: 66  AKSEENSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSY 125
Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           EPELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct: 126 EPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 179

>pdb|1C9B|B Chain B, Crystal Structure Of A Human Tbp Core Domain-Human Tfiib Core Domain Complex Bound To An Extended, Modified Adenoviral Major Late Promoter (Admlp) Length = 180

Iteration: 1
 Score =  229 bits (584), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 100/174 (57%), Positives = 137/174 (78%)
Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 7   QLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 66
Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSY
Sbjct: 67  AKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSY 126
Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           EPELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct: 127 EPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 180

>pdb|1JFI|C Chain C, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex Length = 185

Iteration: 1
 Score =  229 bits (583), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 100/174 (57%), Positives = 137/174 (78%)
Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V T+++GC LDL  I  R R +EYNP +F  +IM+I  PRTT L F SGK++  G
Sbjct: 10  QLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 69
Query: 62  AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
           AK E   +LA+RK+A+++++LG P K+  FKI N+V +CDV+FP++L+ L   H QFSSY
Sbjct: 70  AKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSY 129
Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           EPELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct: 130 EPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 183

>pdb|1RM1|A Chain A, Structure Of A Yeast TfiiaTBPTATA-Box Dna Complex Length = 240

Iteration: 1
 Score =  224 bits (571), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 98/172 (56%), Positives = 133/172 (77%)
Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++GC LDL  +    R +EYNP +F  +IM+I  P+TT L F SGK+++ GAK
Sbjct: 68  QNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAK 127
Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E D KLASRK+A+I++++G   K+  FKI NIV +CDV+FP++L+ L   H  FSSYEP
Sbjct: 128 SEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEP 187
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           ELFPGLIYRMVKP++VLLIFV+G+IV+TGAK R E+++AF+ IYPVL  F+K
Sbjct: 188 ELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEFRK 239

>pdb|1TBP|A Chain A, Crystal Structure Of Yeast Tata-Binding Protein And Model For Interaction With Dna Length = 180

Iteration: 1
 Score =  223 bits (568), Expect = 5e-59,   Method: Compositional matrix adjust.
 Identities = 98/172 (56%), Positives = 133/172 (77%)
Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++GC LDL  +    R +EYNP +F  +IM+I  P+TT L F SGK+++ GAK
Sbjct: 8   QNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAK 67
Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E D KLASRK+A+I++++G   K+  FKI NIV +CDV+FP++L+ L   H  FSSYEP
Sbjct: 68  SEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEP 127
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           ELFPGLIYRMVKP++VLLIFV+G+IV+TGAK R E+++AF+ IYPVL  F+K
Sbjct: 128 ELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEFRK 179

>pdb|1YTB|A Chain A, Crystal Structure Of A Yeast TbpTATA-Box Complex Length = 180

Iteration: 1
 Score =  223 bits (567), Expect = 5e-59,   Method: Compositional matrix adjust.
 Identities = 98/172 (56%), Positives = 133/172 (77%)
Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++GC LDL  +    R +EYNP +F  +IM+I  P+TT L F SGK+++ GAK
Sbjct: 8   QNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAK 67
Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E D KLASRK+A+I++++G   K+  FKI NIV +CDV+FP++L+ L   H  FSSYEP
Sbjct: 68  SEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEP 127
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           ELFPGLIYRMVKP++VLLIFV+G+IV+TGAK R E+++AF+ IYPVL  F+K
Sbjct: 128 ELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEFRK 179

>pdb|1VTL|E Chain E, Co-Crystal Structure Of Tbp Recognizing The Minor Groove Of A Tata Element Length = 186

Iteration: 1
 Score =  215 bits (548), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 97/172 (56%), Positives = 133/172 (77%)
Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++ C LDL  I  + R +EYNP +F  +IM+I  P+TT L F SGK++  GAK
Sbjct: 14  QNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAK 73
Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E   K+A+RK+A+I+++LG P K++ FKI NIV +CDV+FP++L+ L + H+ FSSYEP
Sbjct: 74  SEDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYSHAAFSSYEP 133
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           ELFPGLIYRM  P++VLLIFV+G+IVITGAK R E ++AF+NIYPVL  F+K
Sbjct: 134 ELFPGLIYRMKVPKIVLLIFVSGKIVITGAKMRDETYKAFENIYPVLSEFRK 185

>pdb|1VOK|A Chain A, Arabidopsis Thaliana Tbp (Dimer) Length = 200

Iteration: 1
 Score =  215 bits (548), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 97/172 (56%), Positives = 133/172 (77%)
Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++ C LDL  I  + R +EYNP +F  +IM+I  P+TT L F SGK++  GAK
Sbjct: 26  QNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAK 85
Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E   K+A+RK+A+I+++LG P K++ FKI NIV +CDV+FP++L+ L + H+ FSSYEP
Sbjct: 86  SEDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYSHAAFSSYEP 145
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           ELFPGLIYRM  P++VLLIFV+G+IVITGAK R E ++AF+NIYPVL  F+K
Sbjct: 146 ELFPGLIYRMKVPKIVLLIFVSGKIVITGAKMRDETYKAFENIYPVLSEFRK 197

>pdb|1VTO|A Chain A, 1.9 A Resolution Refined Structure Of Tbp Recognizing The Minor Groove Of Tataaaag Length = 190

Iteration: 1
 Score =  215 bits (547), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 97/172 (56%), Positives = 133/172 (77%)
Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++ C LDL  I  + R +EYNP +F  +IM+I  P+TT L F SGK++  GAK
Sbjct: 16  QNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAK 75
Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E   K+A+RK+A+I+++LG P K++ FKI NIV +CDV+FP++L+ L + H+ FSSYEP
Sbjct: 76  SEDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYSHAAFSSYEP 135
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           ELFPGLIYRM  P++VLLIFV+G+IVITGAK R E ++AF+NIYPVL  F+K
Sbjct: 136 ELFPGLIYRMKVPKIVLLIFVSGKIVITGAKMRDETYKAFENIYPVLSEFRK 187

>pdb|3OC3|C Chain C, Crystal Structure Of The Mot1 N-Terminal Domain In Complex With Tbp Length = 218

Iteration: 1
 Score =  205 bits (522), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 91/172 (52%), Positives = 130/172 (75%)
Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++ C LDL  I  R R +EYNP +F  +IM+I  P+TT L F SGK++I GAK
Sbjct: 46  QNVVATVNLSCKLDLKNIALRARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVITGAK 105
Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E   ++A++++AKI+ +LG    +  FKI NIV +CD++F ++L+ L + HS + SYEP
Sbjct: 106 SEKSSRMAAQRYAKIIHKLGFNATFDDFKIQNIVSSCDIKFSIRLEGLAYAHSNYCSYEP 165
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           ELFPGLIYRMVKP++VLLIFV+G+IV+TGAK R ++++AF+NIYPVL   +K
Sbjct: 166 ELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKVRDDIYQAFNNIYPVLIQHRK 217

>pdb|3EIK|A Chain A, Double Stranded Dna Binding Protein Length = 218

Iteration: 1
 Score =  205 bits (522), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 91/172 (52%), Positives = 130/172 (75%)
Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++ C LDL  I  R R +EYNP +F  +IM+I  P+TT L F SGK++I GAK
Sbjct: 46  QNVVATVNLSCKLDLKNIALRARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVITGAK 105
Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E   ++A++++AKI+ +LG    +  FKI NIV +CD++F ++L+ L + HS + SYEP
Sbjct: 106 SEKSSRMAAQRYAKIIHKLGFNATFDDFKIQNIVSSCDIKFSIRLEGLAYAHSNYCSYEP 165
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           ELFPGLIYRMVKP++VLLIFV+G+IV+TGAK R ++++AF+NIYPVL   +K
Sbjct: 166 ELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKVRDDIYQAFNNIYPVLIQHRK 217

>pdb|1MP9|A Chain A, Tbp From A Mesothermophilic Archaeon, Sulfolobus Acidocaldarius Length = 198

Iteration: 1
 Score =  127 bits (318), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 67/168 (39%), Positives = 104/168 (61%), Gaps = 2/168 (1%)
Query: 1   MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLIL 60
           ++ +N+V T+++   LDL  +   V   EY+P +F GLI ++ +P+ T L F+SGK+++ 
Sbjct: 13  VNIENIVATVTLDQTLDLYAMERSVPNVEYDPDQFPGLIFRLESPKITSLIFKSGKMVVT 72
Query: 61  GAKHEHDCKLASRKFAKILKQLGHPIKYQ-GFKIHNIVCTCDVRFPVKLDALHHVHSQFS 119
           GAK   +   A ++  K LK+ G  +  +   +I NIV + ++   V LD    +    +
Sbjct: 73  GAKSTDELIKAVKRIIKTLKKYGMQLTGKPKIQIQNIVASANLHVIVNLDKAAFLLEN-N 131
Query: 120 SYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIY 167
            YEPE FPGLIYRM +PRVVLLIF +G++VITGAK   E+H+A   I+
Sbjct: 132 MYEPEQFPGLIYRMDEPRVVLLIFSSGKMVITGAKREDEVHKAVKKIF 179

>pdb|1MP9|A Chain A, Tbp From A Mesothermophilic Archaeon, Sulfolobus Acidocaldarius Length = 198

Iteration: 1
 Score = 61.2 bits (147), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 33/84 (39%), Positives = 48/84 (57%), Gaps = 1/84 (1%)
Query: 93  IHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITG 152
           I NIV T  +   + L A+         Y+P+ FPGLI+R+  P++  LIF +G++V+TG
Sbjct: 15  IENIVATVTLDQTLDLYAMERSVPNVE-YDPDQFPGLIFRLESPKITSLIFKSGKMVVTG 73
Query: 153 AKSRSELHEAFDNIYPVLKSFKKQ 176
           AKS  EL +A   I   LK +  Q
Sbjct: 74  AKSTDELIKAVKRIIKTLKKYGMQ 97

>pdb|2Z8U|A Chain A, Methanococcus Jannaschii Tbp Length = 188

Iteration: 1
 Score =  114 bits (285), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 61/172 (35%), Positives = 99/172 (57%), Gaps = 2/172 (1%)
Query: 5   NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 64
           N+V +  +G  +DL ++   +  +EY P +F GL+ ++  P+   L F+SGK+   GAK 
Sbjct: 17  NVVVSTKIGDNIDLEEVAMILENAEYEPEQFPGLVCRLSVPKVALLIFRSGKVNCTGAKS 76
Query: 65  EHDCKLASRKFAKILKQLG-HPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
           + + ++A +K  K LK  G   I+    KI N+V T D+     LD +  +  + + YEP
Sbjct: 77  KEEAEIAIKKIIKELKDAGIDVIENPEIKIQNMVATADLGIEPNLDDIA-LMVEGTEYEP 135
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           E FPGL+YR+  P+VV+LIF +G++VITG KS  +   A   I   +K  ++
Sbjct: 136 EQFPGLVYRLDDPKVVVLIFGSGKVVITGLKSEEDAKRALKKILDTIKEVQE 187

>pdb|1PCZ|A Chain A, Structure Of Tata-Binding Protein Length = 191

Iteration: 1
 Score =  105 bits (263), Expect = 9e-24,   Method: Compositional matrix adjust.
 Identities = 58/163 (35%), Positives = 93/163 (57%), Gaps = 2/163 (1%)
Query: 1   MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLIL 60
           +  +N+V ++ +   LDL ++      S+YNP +F G+I  + +P+   L F SGKL++ 
Sbjct: 9   LRIENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVT 68
Query: 61  GAKHEHDCKLASRKFAKILKQLGHPIKYQ-GFKIHNIVCTCDVRFPVKLDALHHVHSQFS 119
           GAK   D + A  K A+ LK +G   K      + N+V + D+     LD +        
Sbjct: 69  GAKSVQDIERAVAKLAQKLKSIGVKFKRAPQIDVQNMVFSGDIGREFNLDVVALTLPN-C 127
Query: 120 SYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEA 162
            YEPE FPG+IYR+ +P+ V+L+F +G+IV +GAKS ++  EA
Sbjct: 128 EYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEA 170

>pdb|1PCZ|A Chain A, Structure Of Tata-Binding Protein Length = 191

Iteration: 1
 Score = 57.0 bits (136), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 31/83 (37%), Positives = 48/83 (57%), Gaps = 1/83 (1%)
Query: 91  FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVI 150
            +I NIV + D+   + L+ +  +    S Y PE FPG+I  +  P+V LLIF +G++V+
Sbjct: 9   LRIENIVASVDLFAQLDLEKVLDLCPN-SKYNPEEFPGIICHLDDPKVALLIFSSGKLVV 67
Query: 151 TGAKSRSELHEAFDNIYPVLKSF 173
           TGAKS  ++  A   +   LKS 
Sbjct: 68  TGAKSVQDIERAVAKLAQKLKSI 90

>pdb|1AIS|A Chain A, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BTATA-Box Complex From Pyrococcus Woesei Length = 182

Iteration: 1
 Score =  105 bits (263), Expect = 9e-24,   Method: Compositional matrix adjust.
 Identities = 58/163 (35%), Positives = 93/163 (57%), Gaps = 2/163 (1%)
Query: 1   MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLIL 60
           +  +N+V ++ +   LDL ++      S+YNP +F G+I  + +P+   L F SGKL++ 
Sbjct: 9   LRIENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVT 68
Query: 61  GAKHEHDCKLASRKFAKILKQLGHPIKYQ-GFKIHNIVCTCDVRFPVKLDALHHVHSQFS 119
           GAK   D + A  K A+ LK +G   K      + N+V + D+     LD +        
Sbjct: 69  GAKSVQDIERAVAKLAQKLKSIGVKFKRAPQIDVQNMVFSGDIGREFNLDVVALTLPN-C 127
Query: 120 SYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEA 162
            YEPE FPG+IYR+ +P+ V+L+F +G+IV +GAKS ++  EA
Sbjct: 128 EYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEA 170

>pdb|1AIS|A Chain A, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BTATA-Box Complex From Pyrococcus Woesei Length = 182

Iteration: 1
 Score = 57.0 bits (136), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 31/83 (37%), Positives = 48/83 (57%), Gaps = 1/83 (1%)
Query: 91  FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVI 150
            +I NIV + D+   + L+ +  +    S Y PE FPG+I  +  P+V LLIF +G++V+
Sbjct: 9   LRIENIVASVDLFAQLDLEKVLDLCPN-SKYNPEEFPGIICHLDDPKVALLIFSSGKLVV 67
Query: 151 TGAKSRSELHEAFDNIYPVLKSF 173
           TGAKS  ++  A   +   LKS 
Sbjct: 68  TGAKSVQDIERAVAKLAQKLKSI 90

>pdb|1D3U|A Chain A, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BBRE+TATA- Box Complex From Pyrococcus Woesei Length = 181

Iteration: 1
 Score =  105 bits (263), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 58/163 (35%), Positives = 93/163 (57%), Gaps = 2/163 (1%)
Query: 1   MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLIL 60
           +  +N+V ++ +   LDL ++      S+YNP +F G+I  + +P+   L F SGKL++ 
Sbjct: 9   LRIENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVT 68
Query: 61  GAKHEHDCKLASRKFAKILKQLGHPIKYQ-GFKIHNIVCTCDVRFPVKLDALHHVHSQFS 119
           GAK   D + A  K A+ LK +G   K      + N+V + D+     LD +        
Sbjct: 69  GAKSVQDIERAVAKLAQKLKSIGVKFKRAPQIDVQNMVFSGDIGREFNLDVVALTLPN-C 127
Query: 120 SYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEA 162
            YEPE FPG+IYR+ +P+ V+L+F +G+IV +GAKS ++  EA
Sbjct: 128 EYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEA 170

>pdb|1D3U|A Chain A, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BBRE+TATA- Box Complex From Pyrococcus Woesei Length = 181

Iteration: 1
 Score = 57.0 bits (136), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 31/83 (37%), Positives = 48/83 (57%), Gaps = 1/83 (1%)
Query: 91  FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVI 150
            +I NIV + D+   + L+ +  +    S Y PE FPG+I  +  P+V LLIF +G++V+
Sbjct: 9   LRIENIVASVDLFAQLDLEKVLDLCPN-SKYNPEEFPGIICHLDDPKVALLIFSSGKLVV 67
Query: 151 TGAKSRSELHEAFDNIYPVLKSF 173
           TGAKS  ++  A   +   LKS 
Sbjct: 68  TGAKSVQDIERAVAKLAQKLKSI 90

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	176
3eik_A	218	Tata-box-binding protein; DNA-binding, initiation	5e-69
3eik_A	218	Tata-box-binding protein; DNA-binding, initiation	2e-18
3eik_A	218	Tata-box-binding protein; DNA-binding, initiation	3e-17
1rm1_A	240	Tata-box binding protein; yeast TFIIA, TBP protein	1e-68
1rm1_A	240	Tata-box binding protein; yeast TFIIA, TBP protein	2e-22
1mp9_A	198	Tata-binding protein; transcription regulation, DN	4e-66
1mp9_A	198	Tata-binding protein; transcription regulation, DN	4e-18
1mp9_A	198	Tata-binding protein; transcription regulation, DN	5e-18
1ytb_A	180	Protein (tata binding protein (TBP)); protein-DNA	8e-66
1ytb_A	180	Protein (tata binding protein (TBP)); protein-DNA	6e-17
1ytb_A	180	Protein (tata binding protein (TBP)); protein-DNA	2e-16
1ais_A	182	TBP, protein (tata-binding protein); hyperthermoph	2e-64
1ais_A	182	TBP, protein (tata-binding protein); hyperthermoph	1e-18
1ais_A	182	TBP, protein (tata-binding protein); hyperthermoph	1e-18
2z8u_A	188	Tata-box-binding protein; transcription, DNA-bindi	3e-63
2z8u_A	188	Tata-box-binding protein; transcription, DNA-bindi	9e-20
2z8u_A	188	Tata-box-binding protein; transcription, DNA-bindi	3e-18

>3eik_A Tata-box-binding protein; DNA-binding, initiation factor, nucleus, transcription; 1.90A {Encephalitozoon cuniculi} PDB: 3oci_A 3oc3_C Length = 218

 Score =  208 bits (529), Expect = 5e-69
 Identities = 91/172 (52%), Positives = 130/172 (75%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++ C LDL  I  R R +EYNP +F  +IM+I  P+TT L F SGK++I GAK
Sbjct: 46  QNVVATVNLSCKLDLKNIALRARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVITGAK 105

Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E   ++A++++AKI+ +LG    +  FKI NIV +CD++F ++L+ L + HS + SYEP
Sbjct: 106 SEKSSRMAAQRYAKIIHKLGFNATFDDFKIQNIVSSCDIKFSIRLEGLAYAHSNYCSYEP 165

Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           ELFPGLIYRMVKP++VLLIFV+G+IV+TGAK R ++++AF+NIYPVL   +K
Sbjct: 166 ELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKVRDDIYQAFNNIYPVLIQHRK 217

>3eik_A Tata-box-binding protein; DNA-binding, initiation factor, nucleus, transcription; 1.90A {Encephalitozoon cuniculi} PDB: 3oci_A 3oc3_C Length = 218

 Score = 78.2 bits (192), Expect = 2e-18
 Identities = 22/85 (25%), Positives = 41/85 (48%), Gaps = 1/85 (1%)

Query: 92  KIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVIT 151
            + N+V T ++   + L  +    ++ + Y P+ F  +I R+ +P+   LIF +G++VIT
Sbjct: 44  TLQNVVATVNLSCKLDLKNIAL-RARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVIT 102

Query: 152 GAKSRSELHEAFDNIYPVLKSFKKQ 176
           GAKS      A      ++      
Sbjct: 103 GAKSEKSSRMAAQRYAKIIHKLGFN 127

>3eik_A Tata-box-binding protein; DNA-binding, initiation factor, nucleus, transcription; 1.90A {Encephalitozoon cuniculi} PDB: 3oci_A 3oc3_C Length = 218

 Score = 74.8 bits (183), Expect = 3e-17
 Identities = 24/82 (29%), Positives = 38/82 (46%), Gaps = 1/82 (1%)

Query: 1   MHYQNMVGTISVGCPLDLNQIN-SRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLI 59
              QN+V +  +   + L  +  +   Y  Y P  F GLI +++ P+   L F SGK+++
Sbjct: 133 FKIQNIVSSCDIKFSIRLEGLAYAHSNYCSYEPELFPGLIYRMVKPKIVLLIFVSGKIVL 192

Query: 60  LGAKHEHDCKLASRKFAKILKQ 81
            GAK   D   A      +L Q
Sbjct: 193 TGAKVRDDIYQAFNNIYPVLIQ 214

>1rm1_A Tata-box binding protein; yeast TFIIA, TBP protein, ATA-box DNA, transcription/DNA complex; 2.50A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 Length = 240

 Score =  207 bits (528), Expect = 1e-68
 Identities = 98/175 (56%), Positives = 133/175 (76%)

Query: 1   MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLIL 60
              QN+V T+++GC LDL  +    R +EYNP +F  +IM+I  P+TT L F SGK+++ 
Sbjct: 65  PTLQNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVT 124

Query: 61  GAKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSS 120
           GAK E D KLASRK+A+I++++G   K+  FKI NIV +CDV+FP++L+ L   H  FSS
Sbjct: 125 GAKSEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSS 184

Query: 121 YEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           YEPELFPGLIYRMVKP++VLLIFV+G+IV+TGAK R E+++AF+ IYPVL  F+K
Sbjct: 185 YEPELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEFRK 239

>1rm1_A Tata-box binding protein; yeast TFIIA, TBP protein, ATA-box DNA, transcription/DNA complex; 2.50A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 Length = 240

 Score = 89.4 bits (221), Expect = 2e-22
 Identities = 29/125 (23%), Positives = 54/125 (43%), Gaps = 5/125 (4%)

Query: 52  FQSGKLLILGAKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDAL 111
            + G       + E D K A+ +  K        +      + NIV T  +   + L  +
Sbjct: 30  NRDGTKPATTFQSEEDIKRAAPESEKDTSATSGIV----PTLQNIVATVTLGCRLDLKTV 85

Query: 112 HHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLK 171
              H++ + Y P+ F  +I R+ +P+   LIF +G++V+TGAKS  +   A      +++
Sbjct: 86  AL-HARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAKSEDDSKLASRKYARIIQ 144

Query: 172 SFKKQ 176
                
Sbjct: 145 KIGFA 149

>1mp9_A Tata-binding protein; transcription regulation, DNA-binding protein, transcription factor, DNA binding protein; 2.00A {Sulfolobus acidocaldarius} SCOP: d.129.1.1 d.129.1.1 Length = 198

 Score =  199 bits (508), Expect = 4e-66
 Identities = 68/174 (39%), Positives = 103/174 (59%), Gaps = 2/174 (1%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           +N+V T+++   LDL  +   V   EY+P +F GLI ++ +P+ T L F+SGK+++ GAK
Sbjct: 16  ENIVATVTLDQTLDLYAMERSVPNVEYDPDQFPGLIFRLESPKITSLIFKSGKMVVTGAK 75

Query: 64  HEHDCKLASRKFAKILKQLGHPIKY-QGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYE 122
              +   A ++  K LK+ G  +      +I NIV + ++   V LD    +  + + YE
Sbjct: 76  STDELIKAVKRIIKTLKKYGMQLTGKPKIQIQNIVASANLHVIVNLDKAAFLL-ENNMYE 134

Query: 123 PELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKKQ 176
           PE FPGLIYRM +PRVVLLIF +G++VITGAK   E+H+A   I+  L      
Sbjct: 135 PEQFPGLIYRMDEPRVVLLIFSSGKMVITGAKREDEVHKAVKKIFDKLVELDCV 188

>1mp9_A Tata-binding protein; transcription regulation, DNA-binding protein, transcription factor, DNA binding protein; 2.00A {Sulfolobus acidocaldarius} SCOP: d.129.1.1 d.129.1.1 Length = 198

 Score = 77.0 bits (189), Expect = 4e-18
 Identities = 32/83 (38%), Positives = 47/83 (56%), Gaps = 1/83 (1%)

Query: 91  FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVI 150
             I NIV T  +   + L A+         Y+P+ FPGLI+R+  P++  LIF +G++V+
Sbjct: 13  VNIENIVATVTLDQTLDLYAMER-SVPNVEYDPDQFPGLIFRLESPKITSLIFKSGKMVV 71

Query: 151 TGAKSRSELHEAFDNIYPVLKSF 173
           TGAKS  EL +A   I   LK +
Sbjct: 72  TGAKSTDELIKAVKRIIKTLKKY 94

>1mp9_A Tata-binding protein; transcription regulation, DNA-binding protein, transcription factor, DNA binding protein; 2.00A {Sulfolobus acidocaldarius} SCOP: d.129.1.1 d.129.1.1 Length = 198

 Score = 76.6 bits (188), Expect = 5e-18
 Identities = 26/82 (31%), Positives = 44/82 (53%)

Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QN+V + ++   ++L++    +  + Y P +F GLI ++  PR   L F SGK++I G
Sbjct: 105 QIQNIVASANLHVIVNLDKAAFLLENNMYEPEQFPGLIYRMDEPRVVLLIFSSGKMVITG 164

Query: 62  AKHEHDCKLASRKFAKILKQLG 83
           AK E +   A +K    L +L 
Sbjct: 165 AKREDEVHKAVKKIFDKLVELD 186

>1ytb_A Protein (tata binding protein (TBP)); protein-DNA complex, transcription/DNA complex; HET: DNA; 1.80A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 PDB: 1ngm_A* 1tba_B 1nh2_A* 1ytf_A* 1tbp_A 1qna_A* 1qn3_A* 1qn5_A* 1qn6_A* 1qn7_A* 1qn8_A* 1qn9_A* 1qn4_A* 1qnb_A* 1qnc_A* 1qne_A* 1vok_A 1vol_B* 1vto_A* 1vtl_E* ... Length = 180

 Score =  198 bits (505), Expect = 8e-66
 Identities = 98/172 (56%), Positives = 133/172 (77%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           QN+V T+++GC LDL  +    R +EYNP +F  +IM+I  P+TT L F SGK+++ GAK
Sbjct: 8   QNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAK 67

Query: 64  HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
            E D KLASRK+A+I++++G   K+  FKI NIV +CDV+FP++L+ L   H  FSSYEP
Sbjct: 68  SEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEP 127

Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           ELFPGLIYRMVKP++VLLIFV+G+IV+TGAK R E+++AF+ IYPVL  F+K
Sbjct: 128 ELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEFRK 179

>1ytb_A Protein (tata binding protein (TBP)); protein-DNA complex, transcription/DNA complex; HET: DNA; 1.80A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 PDB: 1ngm_A* 1tba_B 1nh2_A* 1ytf_A* 1tbp_A 1qna_A* 1qn3_A* 1qn5_A* 1qn6_A* 1qn7_A* 1qn8_A* 1qn9_A* 1qn4_A* 1qnb_A* 1qnc_A* 1qne_A* 1vok_A 1vol_B* 1vto_A* 1vtl_E* ... Length = 180

 Score = 73.1 bits (179), Expect = 6e-17
 Identities = 23/85 (27%), Positives = 44/85 (51%), Gaps = 1/85 (1%)

Query: 92  KIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVIT 151
            + NIV T  +   + L  +  +H++ + Y P+ F  +I R+ +P+   LIF +G++V+T
Sbjct: 6   TLQNIVATVTLGCRLDLKTVA-LHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVT 64

Query: 152 GAKSRSELHEAFDNIYPVLKSFKKQ 176
           GAKS  +   A      +++     
Sbjct: 65  GAKSEDDSKLASRKYARIIQKIGFA 89

>1ytb_A Protein (tata binding protein (TBP)); protein-DNA complex, transcription/DNA complex; HET: DNA; 1.80A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 PDB: 1ngm_A* 1tba_B 1nh2_A* 1ytf_A* 1tbp_A 1qna_A* 1qn3_A* 1qn5_A* 1qn6_A* 1qn7_A* 1qn8_A* 1qn9_A* 1qn4_A* 1qnb_A* 1qnc_A* 1qne_A* 1vok_A 1vol_B* 1vto_A* 1vtl_E* ... Length = 180

 Score = 71.6 bits (175), Expect = 2e-16
 Identities = 25/83 (30%), Positives = 40/83 (48%), Gaps = 1/83 (1%)

Query: 1   MHYQNMVGTISVGCPLDLNQINSR-VRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLI 59
              QN+VG+  V  P+ L  +      +S Y P  F GLI +++ P+   L F SGK+++
Sbjct: 95  FKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEPELFPGLIYRMVKPKIVLLIFVSGKIVL 154

Query: 60  LGAKHEHDCKLASRKFAKILKQL 82
            GAK   +   A      +L + 
Sbjct: 155 TGAKQREEIYQAFEAIYPVLSEF 177

>1ais_A TBP, protein (tata-binding protein); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: d.129.1.1 d.129.1.1 PDB: 1d3u_A* 1pcz_A Length = 182

 Score =  195 bits (496), Expect = 2e-64
 Identities = 59/171 (34%), Positives = 95/171 (55%), Gaps = 2/171 (1%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
           +N+V ++ +   LDL ++      S+YNP +F G+I  + +P+   L F SGKL++ GAK
Sbjct: 12  ENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGAK 71

Query: 64  HEHDCKLASRKFAKILKQLGHPIKY-QGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYE 122
              D + A  K A+ LK +G   K      + N+V + D+     LD +         YE
Sbjct: 72  SVQDIERAVAKLAQKLKSIGVKFKRAPQIDVQNMVFSGDIGREFNLDVVALTL-PNCEYE 130

Query: 123 PELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSF 173
           PE FPG+IYR+ +P+ V+L+F +G+IV +GAKS ++  EA   +   L  +
Sbjct: 131 PEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEAVRKLLRELDKY 181

>1ais_A TBP, protein (tata-binding protein); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: d.129.1.1 d.129.1.1 PDB: 1d3u_A* 1pcz_A Length = 182

 Score = 77.7 bits (191), Expect = 1e-18
 Identities = 27/80 (33%), Positives = 43/80 (53%)

Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QNMV +  +G   +L+ +   +   EY P +F G+I ++  P++  L F SGK++  G
Sbjct: 101 DVQNMVFSGDIGREFNLDVVALTLPNCEYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSG 160

Query: 62  AKHEHDCKLASRKFAKILKQ 81
           AK E D   A RK  + L +
Sbjct: 161 AKSEADAWEAVRKLLRELDK 180

>1ais_A TBP, protein (tata-binding protein); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: d.129.1.1 d.129.1.1 PDB: 1d3u_A* 1pcz_A Length = 182

 Score = 77.7 bits (191), Expect = 1e-18
 Identities = 31/83 (37%), Positives = 47/83 (56%), Gaps = 1/83 (1%)

Query: 91  FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVI 150
            +I NIV + D+   + L+ +       S Y PE FPG+I  +  P+V LLIF +G++V+
Sbjct: 9   LRIENIVASVDLFAQLDLEKVLD-LCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVV 67

Query: 151 TGAKSRSELHEAFDNIYPVLKSF 173
           TGAKS  ++  A   +   LKS 
Sbjct: 68  TGAKSVQDIERAVAKLAQKLKSI 90

>2z8u_A Tata-box-binding protein; transcription, DNA-binding protein, transcription factor, transcription regulation; 1.90A {Methanococcus jannaschii} Length = 188

 Score =  192 bits (489), Expect = 3e-63
 Identities = 61/173 (35%), Positives = 99/173 (57%), Gaps = 2/173 (1%)

Query: 4   QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
            N+V +  +G  +DL ++   +  +EY P +F GL+ ++  P+   L F+SGK+   GAK
Sbjct: 16  VNVVVSTKIGDNIDLEEVAMILENAEYEPEQFPGLVCRLSVPKVALLIFRSGKVNCTGAK 75

Query: 64  HEHDCKLASRKFAKILKQLGHP-IKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYE 122
            + + ++A +K  K LK  G   I+    KI N+V T D+     LD +  +  + + YE
Sbjct: 76  SKEEAEIAIKKIIKELKDAGIDVIENPEIKIQNMVATADLGIEPNLDDIALMV-EGTEYE 134

Query: 123 PELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
           PE FPGL+YR+  P+VV+LIF +G++VITG KS  +   A   I   +K  ++
Sbjct: 135 PEQFPGLVYRLDDPKVVVLIFGSGKVVITGLKSEEDAKRALKKILDTIKEVQE 187

>2z8u_A Tata-box-binding protein; transcription, DNA-binding protein, transcription factor, transcription regulation; 1.90A {Methanococcus jannaschii} Length = 188

 Score = 80.8 bits (199), Expect = 9e-20
 Identities = 30/81 (37%), Positives = 46/81 (56%)

Query: 2   HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
             QNMV T  +G   +L+ I   V  +EY P +F GL+ ++ +P+   L F SGK++I G
Sbjct: 105 KIQNMVATADLGIEPNLDDIALMVEGTEYEPEQFPGLVYRLDDPKVVVLIFGSGKVVITG 164

Query: 62  AKHEHDCKLASRKFAKILKQL 82
            K E D K A +K    +K++
Sbjct: 165 LKSEEDAKRALKKILDTIKEV 185

>2z8u_A Tata-box-binding protein; transcription, DNA-binding protein, transcription factor, transcription regulation; 1.90A {Methanococcus jannaschii} Length = 188

 Score = 77.0 bits (189), Expect = 3e-18
 Identities = 31/86 (36%), Positives = 46/86 (53%), Gaps = 1/86 (1%)

Query: 91  FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVI 150
            KI N+V +  +   + L+ +     + + YEPE FPGL+ R+  P+V LLIF +G++  
Sbjct: 13  IKIVNVVVSTKIGDNIDLEEVAM-ILENAEYEPEQFPGLVCRLSVPKVALLIFRSGKVNC 71

Query: 151 TGAKSRSELHEAFDNIYPVLKSFKKQ 176
           TGAKS+ E   A   I   LK     
Sbjct: 72  TGAKSKEEAEIAIKKIIKELKDAGID 97

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	176
1ytb_A	180	Protein (tata binding protein (TBP)); protein-DNA	100.0
3eik_A	218	Tata-box-binding protein; DNA-binding, initiation	100.0
1rm1_A	240	Tata-box binding protein; yeast TFIIA, TBP protein	100.0
2z8u_A	188	Tata-box-binding protein; transcription, DNA-bindi	100.0
1ais_A	182	TBP, protein (tata-binding protein); hyperthermoph	100.0
1mp9_A	198	Tata-binding protein; transcription regulation, DN	100.0
1rm1_A	240	Tata-box binding protein; yeast TFIIA, TBP protein	100.0
2z8u_A	188	Tata-box-binding protein; transcription, DNA-bindi	99.96
1mp9_A	198	Tata-binding protein; transcription regulation, DN	99.96
1ais_A	182	TBP, protein (tata-binding protein); hyperthermoph	99.96
1ytb_A	180	Protein (tata binding protein (TBP)); protein-DNA	99.95
3eik_A	218	Tata-box-binding protein; DNA-binding, initiation	99.94
2d0b_A	310	RNAse HIII, ribonuclease HIII; RNA/DNA hybrid, hyd	94.27
3vn5_A	257	RNAse HIII, ribonuclease HIII; hydrolase; 1.98A {A	93.49
2d0b_A	310	RNAse HIII, ribonuclease HIII; RNA/DNA hybrid, hyd	93.48
3vn5_A	257	RNAse HIII, ribonuclease HIII; hydrolase; 1.98A {A	93.39
3krm_A	163	Insulin-like growth factor 2 mRNA-binding protein	91.4
2jzx_A	160	Poly(RC)-binding protein 2; PCBP2, KH domains, RNA	83.23
2av4_A	160	Thioredoxin-like protein 4A (DIM1); U5 snRNP-SPECI	81.02

>1ytb_A Protein (tata binding protein (TBP)); protein-DNA complex, transcription/DNA complex; HET: DNA; 1.80A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 PDB: 1ngm_A* 1tba_B 1nh2_A* 1ytf_A* 1tbp_A 1qna_A* 1qn3_A* 1qn5_A* 1qn6_A* 1qn7_A* 1qn8_A* 1qn9_A* 1qn4_A* 1qnb_A* 1qnc_A* 1qne_A* 1vok_A 1vol_B* 1vto_A* 1vtl_E* ...

Probab=100.00  E-value=4.5e-70  Score=432.80  Aligned_cols=176  Identities=56%  Similarity=1.013  Sum_probs=173.1

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+|||||++++++|||++||..++|++||||+||||+||+++|+++++||+||||+||||||+++++.|+++++++|+
T Consensus         5 ~~I~NiVas~~l~~~ldL~~ia~~~~n~eYePe~fpgli~R~~~Pk~~~lIF~SGKiv~TGaks~e~~~~a~~~i~~~L~   84 (180)
T 1ytb_A            5 PTLQNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAKSEDDSKLASRKYARIIQ   84 (180)
T ss_dssp             CEEEEEEEEEECCSCCCHHHHHHHSSSEECCTTTCSSEEEEETTTTEEEEECTTSEEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred             eEEEEEEEEEEcCCccCHHHHHhhCCCCEECccccCCEEEEeCCCcEEEEEECCCeEEEEecCCHHHHHHHHHHHHHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCcccceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHH
Q psy2814          81 QLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELH  160 (176)
Q Consensus        81 ~~g~~~~~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~  160 (176)
                      ++|+++++.+|+|||||||+|++++|||++|+..|+++++||||+||||+||+.+|+++++||+||||+|||||+++|++
T Consensus        85 ~lg~~~~~~~~~i~NIvas~dl~~~I~Le~la~~~~~~~~YEPE~fPGliyR~~~pkv~~lIF~SGkivitGak~~~~~~  164 (180)
T 1ytb_A           85 KIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEPELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIY  164 (180)
T ss_dssp             HHTCCCCCEEEEEEEEEEEEECSSCBCHHHHHHHTTTTEECCTTTCSSEEEECSSSCCEEEECTTSEEEEEEESSHHHHH
T ss_pred             HcCCCcccccceEEEEEEEEECCCccCHHHHHHhcccceEECCccCCcEEEEeCCCcEEEEEecCCeEEEEecCCHHHHH
Confidence            99999999999999999999999999999999988899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcC
Q psy2814         161 EAFDNIYPVLKSFKKQ  176 (176)
Q Consensus       161 ~a~~~i~~~L~~~r~~  176 (176)
                      +|++.|+|+|.+||+.
T Consensus       165 ~a~~~i~p~L~~~~~~  180 (180)
T 1ytb_A          165 QAFEAIYPVLSEFRKM  180 (180)
T ss_dssp             HHHHHHHHHHHHTBCC
T ss_pred             HHHHHHHHHHHHHhcC
Confidence            9999999999999974

>3eik_A Tata-box-binding protein; DNA-binding, initiation factor, nucleus, transcription; 1.90A {Encephalitozoon cuniculi} PDB: 3oci_A 3oc3_C

Probab=100.00  E-value=2.3e-68  Score=432.34  Aligned_cols=175  Identities=52%  Similarity=0.969  Sum_probs=172.2

Q ss_pred             eEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHHh
Q psy2814           2 HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQ   81 (176)
Q Consensus         2 ~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~~   81 (176)
                      +|+|||||++++|+|||++||..++|++|||++||||+||+++|+++++||+||||+||||+|+++++.|+++++++|++
T Consensus        44 ~I~NIVas~~l~~~ldL~~ia~~~~n~eYePe~Fpglv~Rl~~Pk~t~LIF~SGKiV~TGAkS~e~a~~A~~ki~~~L~~  123 (218)
T 3eik_A           44 TLQNVVATVNLSCKLDLKNIALRARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVITGAKSEKSSRMAAQRYAKIIHK  123 (218)
T ss_dssp             EEEEEEEEEECSSCCCHHHHHHHCTTEECCTTTCSSEEEEETTTTEEEEECTTSEEEEEEESSHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEEEEECCCccCHHHHHhhCCCcEEcCccCceEEEEecCCcEEEEEECCCeEEEEecCCHHHHHHHHHHHHHHHHH
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCcccceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHH
Q psy2814          82 LGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHE  161 (176)
Q Consensus        82 ~g~~~~~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~  161 (176)
                      +|+++++.+|+|||||||||++|+|||++|+..++++++||||+||||+||+.+|++|++||+||||+|||||+++|+++
T Consensus       124 lG~~v~~~~fkIqNIvas~dl~f~I~Le~la~~~~~~~~YEPE~fPGliyR~~~pkvt~lIF~SGKiviTGaks~~d~~~  203 (218)
T 3eik_A          124 LGFNATFDDFKIQNIVSSCDIKFSIRLEGLAYAHSNYCSYEPELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKVRDDIYQ  203 (218)
T ss_dssp             TTCCCCCEEEEEEEEEEEEECSSCBCHHHHHHHSTTTEECCTTTSSSEEEEETTTTEEEEECTTSEEEEEEESSHHHHHH
T ss_pred             cCCCcccccceEEEEEEEEECCCcCcHHHHHHhccCCcEECCccCceEEEEcCCCCEEEEEeCCCeEEEEecCCHHHHHH
Confidence            99999999999999999999999999999998888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhcC
Q psy2814         162 AFDNIYPVLKSFKKQ  176 (176)
Q Consensus       162 a~~~i~~~L~~~r~~  176 (176)
                      |++.|+|+|.+|||.
T Consensus       204 A~~~I~p~L~~frk~  218 (218)
T 3eik_A          204 AFNNIYPVLIQHRKA  218 (218)
T ss_dssp             HHHHHHHHHHHTBC-
T ss_pred             HHHHHHHHHHHhhcC
Confidence            999999999999984

>1rm1_A Tata-box binding protein; yeast TFIIA, TBP protein, ATA-box DNA, transcription/DNA complex; 2.50A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1

Probab=100.00  E-value=1.2e-67  Score=434.30  Aligned_cols=176  Identities=56%  Similarity=1.013  Sum_probs=173.1

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+|||||++++|+|||++||..++|++|||++||||+||+++|+++++||+||||+||||||+++++.|+++++++|+
T Consensus        65 ~~I~NIVas~~l~~~ldL~~ia~~~~n~eYePe~Fpgli~Rl~~Pk~t~lIF~SGKiV~TGaks~e~a~~A~~~i~~~L~  144 (240)
T 1rm1_A           65 PTLQNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAKSEDDSKLASRKYARIIQ  144 (240)
T ss_dssp             CEEEEEEEEEECCSCCCHHHHHHHBTTEEECTTTCSEEEEEEETTEEEEEEETTSEEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred             eEEEEEEEEEEcCCccCHHHHHhhCCCcEEcCcccceEEEEeCCCcEEEEEECCCeEEEEecCCHHHHHHHHHHHHHHHH
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCcccceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHH
Q psy2814          81 QLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELH  160 (176)
Q Consensus        81 ~~g~~~~~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~  160 (176)
                      ++|+++++.+|+|||||||+|++++|||++|+..|+++++||||+||||+||+.+|+++++||+||||+|||+|+++|++
T Consensus       145 ~lg~~~~~~~f~IqNIVas~dl~f~I~Le~la~~~~~~~~YEPE~fPGLiyR~~~pkvvllIF~SGKIviTGaK~~~~~~  224 (240)
T 1rm1_A          145 KIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEPELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIY  224 (240)
T ss_dssp             HHTCCCCCEEEEEEEEEEEEECSSCBCHHHHHHHTTTTEEEETTTEEEEEEEETTTTEEEEECTTSEEEEEEESSHHHHH
T ss_pred             HcCCCcccCcceEEEEEEEEeCCCccCHHHHHHhchhccEECCccCCceEEEeCCCcEEEEEecCCEEEEEecCCHHHHH
Confidence            99999999999999999999999999999999988899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcC
Q psy2814         161 EAFDNIYPVLKSFKKQ  176 (176)
Q Consensus       161 ~a~~~i~~~L~~~r~~  176 (176)
                      +|++.|+|+|.+||++
T Consensus       225 ~Ai~~i~p~L~~~~~~  240 (240)
T 1rm1_A          225 QAFEAIYPVLSEFRKM  240 (240)
T ss_dssp             HHHHHHHHHHHHTBCC
T ss_pred             HHHHHHHHHHHHhccC
Confidence            9999999999999984

>2z8u_A Tata-box-binding protein; transcription, DNA-binding protein, transcription factor, transcription regulation; 1.90A {Methanococcus jannaschii}

Probab=100.00  E-value=6.1e-67  Score=417.33  Aligned_cols=174  Identities=35%  Similarity=0.618  Sum_probs=162.3

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+|||||++++|+|||++||..++|++|||++|||++||+++|+++++||+||||+||||+|+++++.|+++++++|+
T Consensus        13 ~~i~NvVas~~l~~~ldL~~ia~~~~n~eY~P~~fpgli~Rl~~Pk~t~lIF~SGKiv~TGAkS~e~a~~a~~~~~~~L~   92 (188)
T 2z8u_A           13 IKIVNVVVSTKIGDNIDLEEVAMILENAEYEPEQFPGLVCRLSVPKVALLIFRSGKVNCTGAKSKEEAEIAIKKIIKELK   92 (188)
T ss_dssp             CEEEEEEEEEECCSSCCHHHHHHHSSCCC-------CEEEEETTTTEEEEECTTSEEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred             cEEEEEEEEEEeCCeeCHHHHHhhCCCCEECCCCcccEEEEcCCCcEEEEEeCCCeEEEecCCCHHHHHHHHHHHHHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCC-cccceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHH
Q psy2814          81 QLGHP-IKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSEL  159 (176)
Q Consensus        81 ~~g~~-~~~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~  159 (176)
                      ++|++ .++.+|+|+|||||+|++++|||++|+.. .++++||||+||||+||+.+|+++++||+||||+||||||++++
T Consensus        93 ~lg~~~~~~~~~~I~NIVas~~l~~~i~L~~la~~-~~~~eYePe~fPgliyR~~~Pk~t~lIF~SGKiviTGaks~~~~  171 (188)
T 2z8u_A           93 DAGIDVIENPEIKIQNMVATADLGIEPNLDDIALM-VEGTEYEPEQFPGLVYRLDDPKVVVLIFGSGKVVITGLKSEEDA  171 (188)
T ss_dssp             HTTCCCCSSCCCEEEEEEEEEECSSCCCHHHHHHH-STTEEECTTTSSSEEEEEETTEEEEEECTTSEEEEESCSCHHHH
T ss_pred             hcCCCccccCceEEEEEEEEEecCCccCHHHHHhh-CcCcEECCccCceEEEEeCCCcEEEEEeCCCEEEEEecCCHHHH
Confidence            99998 67899999999999999999999999976 48899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhc
Q psy2814         160 HEAFDNIYPVLKSFKK  175 (176)
Q Consensus       160 ~~a~~~i~~~L~~~r~  175 (176)
                      +.|+++|+|+|+++++
T Consensus       172 ~~A~~~i~~~L~~~~~  187 (188)
T 2z8u_A          172 KRALKKILDTIKEVQE  187 (188)
T ss_dssp             HHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHhcc
Confidence            9999999999999986

>1ais_A TBP, protein (tata-binding protein); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: d.129.1.1 d.129.1.1 PDB: 1d3u_A* 1pcz_A

Probab=100.00  E-value=3.3e-66  Score=411.47  Aligned_cols=172  Identities=34%  Similarity=0.592  Sum_probs=167.5

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+|||||++++|+|||++||..++|++|||++|||++||+++|+++++||+||||+||||+|+++++.|+++++++|+
T Consensus         9 ~~I~NvVas~~l~~~ldL~~ia~~~~n~eY~P~~fpgli~Rl~~P~~t~lIF~SGKiv~TGakS~~~~~~a~~~i~~~L~   88 (182)
T 1ais_A            9 LRIENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGAKSVQDIERAVAKLAQKLK   88 (182)
T ss_dssp             EEEEEEEEEEECCSCCCHHHHTTTSTTCBCCTTTCSSEEEECSSSCCEEEECTTSEEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred             eEEEEEEEEEEcCCeeCHHHHHhhCCCcEECCCccccEEEEcCCCcEEEEEeCCCeEEEecCCCHHHHHHHHHHHHHHHH
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCC-cccceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHH
Q psy2814          81 QLGHP-IKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSEL  159 (176)
Q Consensus        81 ~~g~~-~~~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~  159 (176)
                      ++|++ .++.+|+|+|||||++++++|||++|+..+ ++++||||+||||+||+.+|+++++||+||||+||||||++++
T Consensus        89 ~lG~~~~~~~~~~I~NIVas~~l~~~i~L~~la~~~-~~~~YePe~fpgli~R~~~pk~~~lIF~SGKiviTGaks~~~~  167 (182)
T 1ais_A           89 SIGVKFKRAPQIDVQNMVFSGDIGREFNLDVVALTL-PNCEYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADA  167 (182)
T ss_dssp             HTTCCCSSSCEEEEEEEEEEEECSSCCCHHHHHHHS-TTEECCTTTCSSEEEEETTTTEEEEECTTSEEEEEEESSHHHH
T ss_pred             HcCCCcccccceEEEEEEEEEEcCCccCHHHHHhhC-CCCEECCccCceEEEEeCCCcEEEEEecCCEEEEEecCCHHHH
Confidence            99998 578999999999999999999999999764 7899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q psy2814         160 HEAFDNIYPVLKSF  173 (176)
Q Consensus       160 ~~a~~~i~~~L~~~  173 (176)
                      ++|+++++|+|++|
T Consensus       168 ~~a~~~i~~~L~~~  181 (182)
T 1ais_A          168 WEAVRKLLRELDKY  181 (182)
T ss_dssp             HHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999999886

>1mp9_A Tata-binding protein; transcription regulation, DNA-binding protein, transcription factor, DNA binding protein; 2.00A {Sulfolobus acidocaldarius} SCOP: d.129.1.1 d.129.1.1

Probab=100.00  E-value=7.1e-66  Score=414.10  Aligned_cols=174  Identities=39%  Similarity=0.667  Sum_probs=169.4

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+|||||++++|+|||++||..++|++|||++|||++||+++|+++++||+||||+||||+|+++++.|+++++++|+
T Consensus        13 ~~I~NvVas~~l~~~ldL~~la~~~~n~eY~P~~fpgli~Rl~~Pk~t~lIF~SGKiv~TGakS~e~a~~a~~~i~~~L~   92 (198)
T 1mp9_A           13 VNIENIVATVTLDQTLDLYAMERSVPNVEYDPDQFPGLIFRLESPKITSLIFKSGKMVVTGAKSTDELIKAVKRIIKTLK   92 (198)
T ss_dssp             EEEEEEEEEEECCSCCCHHHHHHHSTTCBCCTTTCSSEEEEETTTTEEEEECTTSEEEEECCSSHHHHHHHHHHHHHHHH
T ss_pred             eEEEEEEEEEEcCCcccHHHHHhhCCCCEECCccccceEEEcCCCceEEEEeCCCeEEEeccCCHHHHHHHHHHHHHHHH
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCC-cccceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHH
Q psy2814          81 QLGHP-IKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSEL  159 (176)
Q Consensus        81 ~~g~~-~~~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~  159 (176)
                      ++|++ .++.+|+|+|||||++++++|||++|+.. .++++||||+||||+||+.+|+++++||+||||+||||||++++
T Consensus        93 ~lG~~~~~~~~~~I~NIVas~~l~~~i~L~~la~~-~~~~~YePe~fPgliyR~~~Pk~t~lIF~SGKiviTGaks~~~~  171 (198)
T 1mp9_A           93 KYGMQLTGKPKIQIQNIVASANLHVIVNLDKAAFL-LENNMYEPEQFPGLIYRMDEPRVVLLIFSSGKMVITGAKREDEV  171 (198)
T ss_dssp             HTTCCCSSCCEEEEEEEEEEEECSSEECHHHHHHH-SSSEECCTTTCSSEEEEETTTTEEEEECTTSEEEEEEESSHHHH
T ss_pred             HcCCcccCcCceEEEEEEEEeeCCCccCHHHHHhh-cCCcEECCccCCeEEEEeCCCcEEEEEeCCCEEEEEecCCHHHH
Confidence            99998 68899999999999999999999999976 48999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhc
Q psy2814         160 HEAFDNIYPVLKSFKK  175 (176)
Q Consensus       160 ~~a~~~i~~~L~~~r~  175 (176)
                      +.|+++|+|+|++++.
T Consensus       172 ~~A~~~i~~~L~~~~~  187 (198)
T 1mp9_A          172 HKAVKKIFDKLVELDC  187 (198)
T ss_dssp             HHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhCC
Confidence            9999999999999874

>1rm1_A Tata-box binding protein; yeast TFIIA, TBP protein, ATA-box DNA, transcription/DNA complex; 2.50A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1

Probab=100.00  E-value=4e-34  Score=235.04  Aligned_cols=122  Identities=22%  Similarity=0.268  Sum_probs=82.8

Q ss_pred             EEEEecCccEEEEcccCHHHHHHHHHHHHHHHHhcCCCcccceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCc
Q psy2814          48 TCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFP  127 (176)
Q Consensus        48 t~~If~sGKivitGaks~~~~~~a~~~i~~~L~~~g~~~~~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fp  127 (176)
                      --+=|+|||+++||++|.+++++++    +.++++|++....+++|+||||+++++++|||++|+... ++++||||+||
T Consensus        26 ~~~~f~sGk~~~s~~~s~~~~~~~~----~~~~~~~~~~~~~~~~I~NIVas~~l~~~ldL~~ia~~~-~n~eYePe~Fp  100 (240)
T 1rm1_A           26 WENQNRDGTKPATTFQSEEDIKRAA----PESEKDTSATSGIVPTLQNIVATVTLGCRLDLKTVALHA-RNAEYNPKRFA  100 (240)
T ss_dssp             ---------------------------------------CCCCCEEEEEEEEEECCSCCCHHHHHHHB-TTEEECTTTCS
T ss_pred             ccccCCCCcceecccccHHHHHHHH----HHHHhhccCcCCCceEEEEEEEEEEcCCccCHHHHHhhC-CCcEEcCcccc
Confidence            3467999999999998888876664    566777777777789999999999999999999999654 78999999999


Q ss_pred             eeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHHHHHHHHhhh
Q psy2814         128 GLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFK  174 (176)
Q Consensus       128 gl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~i~~~L~~~r  174 (176)
                      ||+||+.+|+++++||+||||+||||||+++++.|+++++++|+++.
T Consensus       101 gli~Rl~~Pk~t~lIF~SGKiV~TGaks~e~a~~A~~~i~~~L~~lg  147 (240)
T 1rm1_A          101 AVIMRIREPKTTALIFASGKMVVTGAKSEDDSKLASRKYARIIQKIG  147 (240)
T ss_dssp             EEEEEEETTEEEEEEETTSEEEEEEESSHHHHHHHHHHHHHHHHHHT
T ss_pred             eEEEEeCCCcEEEEEECCCeEEEEecCCHHHHHHHHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999999998863

>2z8u_A Tata-box-binding protein; transcription, DNA-binding protein, transcription factor, transcription regulation; 1.90A {Methanococcus jannaschii}

Probab=99.96  E-value=1.2e-29  Score=202.08  Aligned_cols=84  Identities=36%  Similarity=0.593  Sum_probs=81.3

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+|||||++++++|||+.||...+|++||||+||||+||+++|+++++||+||||+||||||+++++.|+++++++|+
T Consensus       104 ~~I~NIVas~~l~~~i~L~~la~~~~~~eYePe~fPgliyR~~~Pk~t~lIF~SGKiviTGaks~~~~~~A~~~i~~~L~  183 (188)
T 2z8u_A          104 IKIQNMVATADLGIEPNLDDIALMVEGTEYEPEQFPGLVYRLDDPKVVVLIFGSGKVVITGLKSEEDAKRALKKILDTIK  183 (188)
T ss_dssp             CEEEEEEEEEECSSCCCHHHHHHHSTTEEECTTTSSSEEEEEETTEEEEEECTTSEEEEESCSCHHHHHHHHHHHHHHHH
T ss_pred             eEEEEEEEEEecCCccCHHHHHhhCcCcEECCccCceEEEEeCCCcEEEEEeCCCEEEEEecCCHHHHHHHHHHHHHHHH
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCC
Q psy2814          81 QLGH   84 (176)
Q Consensus        81 ~~g~   84 (176)
                      ++|+
T Consensus       184 ~~~~  187 (188)
T 2z8u_A          184 EVQE  187 (188)
T ss_dssp             HHC-
T ss_pred             Hhcc
Confidence            9874

>1mp9_A Tata-binding protein; transcription regulation, DNA-binding protein, transcription factor, DNA binding protein; 2.00A {Sulfolobus acidocaldarius} SCOP: d.129.1.1 d.129.1.1

Probab=99.96  E-value=3.1e-29  Score=201.16  Aligned_cols=85  Identities=31%  Similarity=0.502  Sum_probs=82.8

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+|||||++++++|||+.||...+|++||||+||||+||+++|+++++||+||||+||||||+++++.|+++++++|+
T Consensus       104 ~~I~NIVas~~l~~~i~L~~la~~~~~~~YePe~fPgliyR~~~Pk~t~lIF~SGKiviTGaks~~~~~~A~~~i~~~L~  183 (198)
T 1mp9_A          104 IQIQNIVASANLHVIVNLDKAAFLLENNMYEPEQFPGLIYRMDEPRVVLLIFSSGKMVITGAKREDEVHKAVKKIFDKLV  183 (198)
T ss_dssp             EEEEEEEEEEECSSEECHHHHHHHSSSEECCTTTCSSEEEEETTTTEEEEECTTSEEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred             eEEEEEEEEeeCCCccCHHHHHhhcCCcEECCccCCeEEEEeCCCcEEEEEeCCCEEEEEecCCHHHHHHHHHHHHHHHH
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCC
Q psy2814          81 QLGHP   85 (176)
Q Consensus        81 ~~g~~   85 (176)
                      ++|+.
T Consensus       184 ~~~~~  188 (198)
T 1mp9_A          184 ELDCV  188 (198)
T ss_dssp             HTTCE
T ss_pred             HhCCC
Confidence            99975

>1ais_A TBP, protein (tata-binding protein); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: d.129.1.1 d.129.1.1 PDB: 1d3u_A* 1pcz_A

Probab=99.96  E-value=4.7e-29  Score=197.81  Aligned_cols=82  Identities=33%  Similarity=0.535  Sum_probs=79.6

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+|||||++++++|||+.||...+|++||||+||||+||+++|+++++||+||||+|||+||+++++.|+++++++|+
T Consensus       100 ~~I~NIVas~~l~~~i~L~~la~~~~~~~YePe~fpgli~R~~~pk~~~lIF~SGKiviTGaks~~~~~~a~~~i~~~L~  179 (182)
T 1ais_A          100 IDVQNMVFSGDIGREFNLDVVALTLPNCEYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEAVRKLLRELD  179 (182)
T ss_dssp             EEEEEEEEEEECSSCCCHHHHHHHSTTEECCTTTCSSEEEEETTTTEEEEECTTSEEEEEEESSHHHHHHHHHHHHHHHT
T ss_pred             eEEEEEEEEEEcCCccCHHHHHhhCCCCEECCccCceEEEEeCCCcEEEEEecCCEEEEEecCCHHHHHHHHHHHHHHHH
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             hc
Q psy2814          81 QL   82 (176)
Q Consensus        81 ~~   82 (176)
                      ++
T Consensus       180 ~~  181 (182)
T 1ais_A          180 KY  181 (182)
T ss_dssp             TC
T ss_pred             Hh
Confidence            74

>1ytb_A Protein (tata binding protein (TBP)); protein-DNA complex, transcription/DNA complex; HET: DNA; 1.80A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 PDB: 1ngm_A* 1tba_B 1nh2_A* 1ytf_A* 1tbp_A 1qna_A* 1qn3_A* 1qn5_A* 1qn6_A* 1qn7_A* 1qn8_A* 1qn9_A* 1qn4_A* 1qnb_A* 1qnc_A* 1qne_A* 1vok_A 1vol_B* 1vto_A* 1vtl_E* ...

Probab=99.95  E-value=3.3e-28  Score=192.58  Aligned_cols=84  Identities=26%  Similarity=0.453  Sum_probs=79.9

Q ss_pred             eeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHHHHHH
Q psy2814          90 GFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPV  169 (176)
Q Consensus        90 ~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~i~~~  169 (176)
                      .++|+|||||++++++|||++++.. .++++||||+||||+||+.+|+++++||+||||+||||||+++++.|+++++++
T Consensus         4 ~~~I~NiVas~~l~~~ldL~~ia~~-~~n~eYePe~fpgli~R~~~Pk~~~lIF~SGKiv~TGaks~e~~~~a~~~i~~~   82 (180)
T 1ytb_A            4 VPTLQNIVATVTLGCRLDLKTVALH-ARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAKSEDDSKLASRKYARI   82 (180)
T ss_dssp             CCEEEEEEEEEECCSCCCHHHHHHH-SSSEECCTTTCSSEEEEETTTTEEEEECTTSEEEEEEESSHHHHHHHHHHHHHH
T ss_pred             ceEEEEEEEEEEcCCccCHHHHHhh-CCCCEECccccCCEEEEeCCCcEEEEEECCCeEEEEecCCHHHHHHHHHHHHHH
Confidence            5789999999999999999999965 478999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhh
Q psy2814         170 LKSFK  174 (176)
Q Consensus       170 L~~~r  174 (176)
                      |+++-
T Consensus        83 L~~lg   87 (180)
T 1ytb_A           83 IQKIG   87 (180)
T ss_dssp             HHHHT
T ss_pred             HHHcC
Confidence            98763

>3eik_A Tata-box-binding protein; DNA-binding, initiation factor, nucleus, transcription; 1.90A {Encephalitozoon cuniculi} PDB: 3oci_A 3oc3_C

Probab=99.94  E-value=1.9e-26  Score=186.77  Aligned_cols=84  Identities=26%  Similarity=0.449  Sum_probs=79.7

Q ss_pred             ceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHHHHH
Q psy2814          89 QGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYP  168 (176)
Q Consensus        89 ~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~i~~  168 (176)
                      ..++|+||||+++++++|||++|+... ++++||||+||||+||+.+|+++++||+||||+||||||+++++.|++++.+
T Consensus        41 i~~~I~NIVas~~l~~~ldL~~ia~~~-~n~eYePe~Fpglv~Rl~~Pk~t~LIF~SGKiV~TGAkS~e~a~~A~~ki~~  119 (218)
T 3eik_A           41 IIPTLQNVVATVNLSCKLDLKNIALRA-RNAEYNPKRFAAVIMRIREPKTTALIFASGKMVITGAKSEKSSRMAAQRYAK  119 (218)
T ss_dssp             CSCEEEEEEEEEECSSCCCHHHHHHHC-TTEECCTTTCSSEEEEETTTTEEEEECTTSEEEEEEESSHHHHHHHHHHHHH
T ss_pred             CceEEEEEEEEEECCCccCHHHHHhhC-CCcEEcCccCceEEEEecCCcEEEEEECCCeEEEEecCCHHHHHHHHHHHHH
Confidence            457899999999999999999999754 8999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhh
Q psy2814         169 VLKSF  173 (176)
Q Consensus       169 ~L~~~  173 (176)
                      +|++.
T Consensus       120 ~L~~l  124 (218)
T 3eik_A          120 IIHKL  124 (218)
T ss_dssp             HHHHT
T ss_pred             HHHHc
Confidence            99874

>2d0b_A RNAse HIII, ribonuclease HIII; RNA/DNA hybrid, hydrolase; 2.10A {Geobacillus stearothermophilus} PDB: 2d0a_A 2d0c_A 3asm_A

Probab=94.27  E-value=0.041  Score=46.28  Aligned_cols=36  Identities=22%  Similarity=0.557  Sum_probs=30.7

Q ss_pred             CCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHH
Q psy2814         124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSEL  159 (176)
Q Consensus       124 e~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~  159 (176)
                      ..-|+..|+...+.+++.+|.|||+++.|...+..+
T Consensus        27 ~~~~~~~f~~k~~~~~it~Y~SGkv~~qG~~a~~~~   62 (310)
T 2d0b_A           27 RLPAGALFAVKRPDVVITAYRSGKVLFQGKAAEQEA   62 (310)
T ss_dssp             SCCTTEEEEECCTTCEEEEETTSEEEEESTTHHHHH
T ss_pred             CCCCCeEEEecCCCeEEEEEeCCEEEEeCCchHHHH
Confidence            445899999999999999999999999998654433

>3vn5_A RNAse HIII, ribonuclease HIII; hydrolase; 1.98A {Aquifex aeolicus}

Probab=93.49  E-value=0.035  Score=45.56  Aligned_cols=37  Identities=19%  Similarity=0.284  Sum_probs=31.0

Q ss_pred             CCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHH
Q psy2814         123 PELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSEL  159 (176)
Q Consensus       123 Pe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~  159 (176)
                      +..-|+..|+...+.+|+++|.|||+++.|...+..+
T Consensus        25 ~~~~~~~~f~~k~~~~~it~Y~SGkv~fqG~~a~~~a   61 (257)
T 3vn5_A           25 KINAPYTLWALEGNGVKVYYYKTGSLLIQGKNSEKVL   61 (257)
T ss_dssp             ECCCTTCSEEEEETTEEEEECTTSEEEEESTTHHHHH
T ss_pred             ccCCCceEEEEecCCeEEEEEeccEEEEeCCCHHHHH
Confidence            4456899999999999999999999999999654443

>2d0b_A RNAse HIII, ribonuclease HIII; RNA/DNA hybrid, hydrolase; 2.10A {Geobacillus stearothermophilus} PDB: 2d0a_A 2d0c_A 3asm_A

Probab=93.48  E-value=0.069  Score=44.88  Aligned_cols=37  Identities=24%  Similarity=0.422  Sum_probs=31.0

Q ss_pred             CCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHH
Q psy2814          33 GKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCK   69 (176)
Q Consensus        33 ~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~   69 (176)
                      ..-|+..++.+.+.+++++|.|||++..|..+++.+.
T Consensus        27 ~~~~~~~f~~k~~~~~it~Y~SGkv~~qG~~a~~~~~   63 (310)
T 2d0b_A           27 RLPAGALFAVKRPDVVITAYRSGKVLFQGKAAEQEAA   63 (310)
T ss_dssp             SCCTTEEEEECCTTCEEEEETTSEEEEESTTHHHHHH
T ss_pred             CCCCCeEEEecCCCeEEEEEeCCEEEEeCCchHHHHH
Confidence            3348999999999999999999999999986554443

>3vn5_A RNAse HIII, ribonuclease HIII; hydrolase; 1.98A {Aquifex aeolicus}

Probab=93.39  E-value=0.02  Score=47.04  Aligned_cols=39  Identities=18%  Similarity=0.147  Sum_probs=31.7

Q ss_pred             cCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHH
Q psy2814          32 PGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKL   70 (176)
Q Consensus        32 P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~   70 (176)
                      +..-|+..++.+.+.+++++|.|||+++.|...++.+..
T Consensus        25 ~~~~~~~~f~~k~~~~~it~Y~SGkv~fqG~~a~~~a~~   63 (257)
T 3vn5_A           25 KINAPYTLWALEGNGVKVYYYKTGSLLIQGKNSEKVLKE   63 (257)
T ss_dssp             ECCCTTCSEEEEETTEEEEECTTSEEEEESTTHHHHHHH
T ss_pred             ccCCCceEEEEecCCeEEEEEeccEEEEeCCCHHHHHHH
Confidence            344578899999999999999999999999965554443

>3krm_A Insulin-like growth factor 2 mRNA-binding protein 1; KH domain, cell projection, cytoplasm, nucleus, phosphoprotein, translation regulation; 2.75A {Homo sapiens}

Probab=91.40  E-value=3.2  Score=30.49  Aligned_cols=98  Identities=16%  Similarity=0.102  Sum_probs=54.1

Q ss_pred             EEEEcccCHHHHHHHHHHHHHHHHhcCCCcccceeeeeeEEEEeeeCcc----------cCHHHHHHHcCCCcccCCCCC
Q psy2814          57 LLILGAKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFP----------VKLDALHHVHSQFSSYEPELF  126 (176)
Q Consensus        57 ivitGaks~~~~~~a~~~i~~~L~~~g~~~~~~~~~i~nIvas~~l~~~----------i~L~~l~~~~~~~~~YePe~f  126 (176)
                      +.++|  +.+.+..|...+...+.+.++.-...+.   ...+...++..          =++.+|....+-...-+++.-
T Consensus        51 v~I~G--~~e~v~~A~~~I~~~~~e~~~~~~~~~~---~~~~~i~vp~~~~g~iIGkgG~~I~~i~~~tga~I~i~~~~~  125 (163)
T 3krm_A           51 VIITG--PPEAQFKAQGRIYGKLKEENFFGPKEEV---KLETHIRVPASAAGRVIGKGGKTVNELQNLTAAEVVVPRDQT  125 (163)
T ss_dssp             EEEEE--CHHHHHHHHHHHHHHHHHTTSSCSSCCC---CEEEEEEEETTTHHHHHCGGGHHHHHHHHHHCCEEECCTTCC
T ss_pred             EEEEc--CHHHHHHHHHHHHHHHhcccccccccCC---ceEEEEEcChhheeeEEcCCChHHHHHHHHhCCeEEECCCCC
Confidence            88888  6899999999999999887532111111   11112222211          012222222221122221111


Q ss_pred             ceeEEEEcCCeEEEEEeccc--eEEEEecCCHHHHHHHHHHHHHHHHhhhcC
Q psy2814         127 PGLIYRMVKPRVVLLIFVNG--RIVITGAKSRSELHEAFDNIYPVLKSFKKQ  176 (176)
Q Consensus       127 pgl~~r~~~~~~t~~IF~sG--kivitGaks~~~~~~a~~~i~~~L~~~r~~  176 (176)
                      |+               .++  .|.|+|  +.+.++.|...|..++.+.+.+
T Consensus       126 ~~---------------~~~~~~v~I~G--~~~~v~~A~~~I~~~i~~~~~~  160 (163)
T 3krm_A          126 PD---------------ENDQVIVKIIG--HFYASQMAQRKIRDILAQVKQQ  160 (163)
T ss_dssp             CC---------------TTSEEEEEEEE--CHHHHHHHHHHHHHHHHHHTC-
T ss_pred             CC---------------CCCceEEEEEe--CHHHHHHHHHHHHHHHHHHHHh
Confidence            10               122  578999  5899999999999999988753

>2jzx_A Poly(RC)-binding protein 2; PCBP2, KH domains, RNA binding, DNA-binding, nucleus, phosph ribonucleoprotein, RNA-binding, RNA binding protein; NMR {Homo sapiens}

Probab=83.23  E-value=9.1  Score=27.88  Aligned_cols=99  Identities=12%  Similarity=0.104  Sum_probs=54.1

Q ss_pred             cEEEEcccCHHHHHHHHHHHHHHHHhcC---CCc----ccceeeeeeEEEEeeeCc-----ccCHHHHHHHcCCCcccCC
Q psy2814          56 KLLILGAKHEHDCKLASRKFAKILKQLG---HPI----KYQGFKIHNIVCTCDVRF-----PVKLDALHHVHSQFSSYEP  123 (176)
Q Consensus        56 KivitGaks~~~~~~a~~~i~~~L~~~g---~~~----~~~~~~i~nIvas~~l~~-----~i~L~~l~~~~~~~~~YeP  123 (176)
                      .+.++|.  .+++..|...+...+.+..   .+.    ........-.+-.-..+.     .-.+.+|....+-....++
T Consensus        49 ~v~I~G~--~~~v~~A~~~I~~~i~e~~~~~~~~~~~~~~~~~~~~i~vp~~~~g~iIGkgG~~Ik~i~~~tga~I~i~~  126 (160)
T 2jzx_A           49 IITLAGP--TNAIFKAFAMIIDKLEEDISSSMTNSTAASRPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQVAG  126 (160)
T ss_dssp             EEEEEEE--HHHHHHHHHHHHHHHHHHHTSCCCSSSCCCCCSEEEEEEEEHHHHHHHHCGGGHHHHHHHHHHSSEECCCC
T ss_pred             EEEEEeC--HHHHHHHHHHHHHHHHhhccccCCCCccCCCCCEEEEEEEChhheeeEECCCCHHHHHHHHHhCCeEEECC
Confidence            6888886  6788888888887776531   110    001111111111101110     1123444443333344444


Q ss_pred             CCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHHHHHHHHh
Q psy2814         124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKS  172 (176)
Q Consensus       124 e~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~i~~~L~~  172 (176)
                      +.+|+-              ..+.|.|+|  +++.++.|...|..++.+
T Consensus       127 ~~~~~~--------------~~~~v~I~G--~~~~v~~A~~~I~~~i~e  159 (160)
T 2jzx_A          127 DMLPNS--------------TERAITIAG--IPQSIIECVKQICVVMLE  159 (160)
T ss_dssp             CCSTTC--------------CEEEEEEEE--CHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCC--------------CceEEEEEc--CHHHHHHHHHHHHHHHhc
Confidence            434421              257889999  589999999999988876

>2av4_A Thioredoxin-like protein 4A (DIM1); U5 snRNP-SPECIFIC 15KD prote structural genomics, structural genomics consortium, SGC, U function; 1.73A {Plasmodium yoelii}

Probab=81.02  E-value=0.9  Score=34.59  Aligned_cols=34  Identities=15%  Similarity=0.308  Sum_probs=28.2

Q ss_pred             eEEEEEeccceEE-----------EEecCC-HHHHHHHHHHHHHHH
Q psy2814         137 RVVLLIFVNGRIV-----------ITGAKS-RSELHEAFDNIYPVL  170 (176)
Q Consensus       137 ~~t~~IF~sGkiv-----------itGaks-~~~~~~a~~~i~~~L  170 (176)
                      -.|+.+|..|+.+           +.|+.+ .+++.+.++.+++--
T Consensus        96 iPT~~fFk~G~~v~vd~Gtgd~~k~vGa~~~k~~l~~~ie~~~r~a  141 (160)
T 2av4_A           96 PVSVMFFYRNKHMMIDLGTGNNNKINWPMNNKQEFIDIVETIFRGA  141 (160)
T ss_dssp             SEEEEEEETTEEEEEECSSSCCSCBCSCCCCHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCEEEEEecCCCCcCeEEeecCCHHHHHHHHHHHHHHh
Confidence            3689999999997           779976 889999988887653

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	176
d1mp9a2	101	d.129.1.1 (A:97-197) TATA-box binding protein (TBP	2e-34
d1mp9a2	101	d.129.1.1 (A:97-197) TATA-box binding protein (TBP	5e-27
d1qnaa2	83	d.129.1.1 (A:116-198) TATA-box binding protein (TB	3e-34
d1qnaa2	83	d.129.1.1 (A:116-198) TATA-box binding protein (TB	8e-23
d1aisa1	92	d.129.1.1 (A:1-92) TATA-box binding protein (TBP),	6e-33
d1aisa1	92	d.129.1.1 (A:1-92) TATA-box binding protein (TBP),	2e-27
d1aisa2	89	d.129.1.1 (A:93-181) TATA-box binding protein (TBP	2e-32
d1aisa2	89	d.129.1.1 (A:93-181) TATA-box binding protein (TBP	4e-26
d1qnaa1	99	d.129.1.1 (A:17-115) TATA-box binding protein (TBP	1e-31
d1qnaa1	99	d.129.1.1 (A:17-115) TATA-box binding protein (TBP	2e-29
d1mp9a1	92	d.129.1.1 (A:5-96) TATA-box binding protein (TBP),	2e-31
d1mp9a1	92	d.129.1.1 (A:5-96) TATA-box binding protein (TBP),	1e-27

>d1mp9a2 d.129.1.1 (A:97-197) TATA-box binding protein (TBP), C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Length = 101

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

 Score =  114 bits (288), Expect = 2e-34
 Identities = 39/86 (45%), Positives = 52/86 (60%), Gaps = 1/86 (1%)

Query: 91  FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVI 150
            +I NIV + ++   V LD       + + YEPE FPGLIYRM +PRVVLLIF +G++VI
Sbjct: 8   IQIQNIVASANLHVIVNLDKAAF-LLENNMYEPEQFPGLIYRMDEPRVVLLIFSSGKMVI 66

Query: 151 TGAKSRSELHEAFDNIYPVLKSFKKQ 176
           TGAK   E+H+A   I+  L      
Sbjct: 67  TGAKREDEVHKAVKKIFDKLVELDCV 92

>d1mp9a2 d.129.1.1 (A:97-197) TATA-box binding protein (TBP), C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Length = 101

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

 Score = 96.0 bits (239), Expect = 5e-27
 Identities = 26/80 (32%), Positives = 44/80 (55%)

Query: 4  QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
          QN+V + ++   ++L++    +  + Y P +F GLI ++  PR   L F SGK++I GAK
Sbjct: 11 QNIVASANLHVIVNLDKAAFLLENNMYEPEQFPGLIYRMDEPRVVLLIFSSGKMVITGAK 70

Query: 64 HEHDCKLASRKFAKILKQLG 83
           E +   A +K    L +L 
Sbjct: 71 REDEVHKAVKKIFDKLVELD 90

>d1qnaa2 d.129.1.1 (A:116-198) TATA-box binding protein (TBP), C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 83

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score =  113 bits (285), Expect = 3e-34
 Identities = 54/81 (66%), Positives = 69/81 (85%)

Query: 95  NIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAK 154
           NIV +CDV+FP++L+ L + H+ FSSYEPELFPGLIYRM  P++VLLIFV+G+IVITGAK
Sbjct: 2   NIVGSCDVKFPIRLEGLAYSHAAFSSYEPELFPGLIYRMKVPKIVLLIFVSGKIVITGAK 61

Query: 155 SRSELHEAFDNIYPVLKSFKK 175
            R E ++AF+NIYPVL  F+K
Sbjct: 62  MRDETYKAFENIYPVLSEFRK 82

>d1qnaa2 d.129.1.1 (A:116-198) TATA-box binding protein (TBP), C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 83

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 84.8 bits (210), Expect = 8e-23
 Identities = 26/80 (32%), Positives = 39/80 (48%), Gaps = 1/80 (1%)

Query: 4  QNMVGTISVGCPLDLNQINSRVR-YSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGA 62
          QN+VG+  V  P+ L  +      +S Y P  F GLI ++  P+   L F SGK++I GA
Sbjct: 1  QNIVGSCDVKFPIRLEGLAYSHAAFSSYEPELFPGLIYRMKVPKIVLLIFVSGKIVITGA 60

Query: 63 KHEHDCKLASRKFAKILKQL 82
          K   +   A      +L + 
Sbjct: 61 KMRDETYKAFENIYPVLSEF 80

>d1aisa1 d.129.1.1 (A:1-92) TATA-box binding protein (TBP), C-terminal domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 92

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Archaeon Pyrococcus woesei [TaxId: 2262]

 Score =  110 bits (278), Expect = 6e-33
 Identities = 31/82 (37%), Positives = 47/82 (57%), Gaps = 1/82 (1%)

Query: 91  FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVI 150
            +I NIV + D+   + L+ +       S Y PE FPG+I  +  P+V LLIF +G++V+
Sbjct: 9   LRIENIVASVDLFAQLDLEKVLD-LCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVV 67

Query: 151 TGAKSRSELHEAFDNIYPVLKS 172
           TGAKS  ++  A   +   LKS
Sbjct: 68  TGAKSVQDIERAVAKLAQKLKS 89

>d1aisa1 d.129.1.1 (A:1-92) TATA-box binding protein (TBP), C-terminal domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 92

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Archaeon Pyrococcus woesei [TaxId: 2262]

 Score = 96.7 bits (241), Expect = 2e-27
 Identities = 29/80 (36%), Positives = 47/80 (58%)

Query: 4  QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
          +N+V ++ +   LDL ++      S+YNP +F G+I  + +P+   L F SGKL++ GAK
Sbjct: 12 ENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGAK 71

Query: 64 HEHDCKLASRKFAKILKQLG 83
             D + A  K A+ LK +G
Sbjct: 72 SVQDIERAVAKLAQKLKSIG 91

>d1aisa2 d.129.1.1 (A:93-181) TATA-box binding protein (TBP), C-terminal domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 89

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Archaeon Pyrococcus woesei [TaxId: 2262]

 Score =  109 bits (274), Expect = 2e-32
 Identities = 29/83 (34%), Positives = 47/83 (56%), Gaps = 1/83 (1%)

Query: 91  FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVI 150
             + N+V + D+     LD +         YEPE FPG+IYR+ +P+ V+L+F +G+IV 
Sbjct: 8   IDVQNMVFSGDIGREFNLDVVAL-TLPNCEYEPEQFPGVIYRVKEPKSVILLFSSGKIVC 66

Query: 151 TGAKSRSELHEAFDNIYPVLKSF 173
           +GAKS ++  EA   +   L  +
Sbjct: 67  SGAKSEADAWEAVRKLLRELDKY 89

>d1aisa2 d.129.1.1 (A:93-181) TATA-box binding protein (TBP), C-terminal domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 89

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Archaeon Pyrococcus woesei [TaxId: 2262]

 Score = 93.3 bits (232), Expect = 4e-26
 Identities = 27/78 (34%), Positives = 43/78 (55%)

Query: 4  QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
          QNMV +  +G   +L+ +   +   EY P +F G+I ++  P++  L F SGK++  GAK
Sbjct: 11 QNMVFSGDIGREFNLDVVALTLPNCEYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAK 70

Query: 64 HEHDCKLASRKFAKILKQ 81
           E D   A RK  + L +
Sbjct: 71 SEADAWEAVRKLLRELDK 88

>d1qnaa1 d.129.1.1 (A:17-115) TATA-box binding protein (TBP), C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 99

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score =  107 bits (270), Expect = 1e-31
 Identities = 43/90 (47%), Positives = 64/90 (71%)

Query: 4  QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
          QN+V T+++ C LDL  I  + R +EYNP +F  +IM+I  P+TT L F SGK++  GAK
Sbjct: 10 QNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAK 69

Query: 64 HEHDCKLASRKFAKILKQLGHPIKYQGFKI 93
           E   K+A+RK+A+I+++LG P K++ FKI
Sbjct: 70 SEDFSKMAARKYARIVQKLGFPAKFKDFKI 99

>d1qnaa1 d.129.1.1 (A:17-115) TATA-box binding protein (TBP), C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 99

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score =  102 bits (256), Expect = 2e-29
 Identities = 23/80 (28%), Positives = 43/80 (53%), Gaps = 1/80 (1%)

Query: 92  KIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVIT 151
            + NIV T ++   + L A+  + ++ + Y P+ F  +I R+ +P+   LIF +G++V T
Sbjct: 8   TLQNIVSTVNLDCKLDLKAIA-LQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCT 66

Query: 152 GAKSRSELHEAFDNIYPVLK 171
           GAKS      A      +++
Sbjct: 67  GAKSEDFSKMAARKYARIVQ 86

>d1mp9a1 d.129.1.1 (A:5-96) TATA-box binding protein (TBP), C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Length = 92

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

 Score =  106 bits (267), Expect = 2e-31
 Identities = 32/83 (38%), Positives = 47/83 (56%), Gaps = 1/83 (1%)

Query: 91  FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVI 150
             I NIV T  +   + L A+         Y+P+ FPGLI+R+  P++  LIF +G++V+
Sbjct: 9   VNIENIVATVTLDQTLDLYAMER-SVPNVEYDPDQFPGLIFRLESPKITSLIFKSGKMVV 67

Query: 151 TGAKSRSELHEAFDNIYPVLKSF 173
           TGAKS  EL +A   I   LK +
Sbjct: 68  TGAKSTDELIKAVKRIIKTLKKY 90

>d1mp9a1 d.129.1.1 (A:5-96) TATA-box binding protein (TBP), C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Length = 92

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

 Score = 97.1 bits (242), Expect = 1e-27
 Identities = 29/80 (36%), Positives = 49/80 (61%)

Query: 4  QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
          +N+V T+++   LDL  +   V   EY+P +F GLI ++ +P+ T L F+SGK+++ GAK
Sbjct: 12 ENIVATVTLDQTLDLYAMERSVPNVEYDPDQFPGLIFRLESPKITSLIFKSGKMVVTGAK 71

Query: 64 HEHDCKLASRKFAKILKQLG 83
             +   A ++  K LK+ G
Sbjct: 72 STDELIKAVKRIIKTLKKYG 91

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	176
d1qnaa1	99	TATA-box binding protein (TBP), C-terminal domain	100.0
d1qnaa2	83	TATA-box binding protein (TBP), C-terminal domain	100.0
d1mp9a1	92	TATA-box binding protein (TBP), C-terminal domain	100.0
d1aisa2	89	TATA-box binding protein (TBP), C-terminal domain	100.0
d1aisa1	92	TATA-box binding protein (TBP), C-terminal domain	99.98
d1aisa2	89	TATA-box binding protein (TBP), C-terminal domain	99.98
d1mp9a2	101	TATA-box binding protein (TBP), C-terminal domain	99.97
d1aisa1	92	TATA-box binding protein (TBP), C-terminal domain	99.97
d1mp9a1	92	TATA-box binding protein (TBP), C-terminal domain	99.97
d1mp9a2	101	TATA-box binding protein (TBP), C-terminal domain	99.97
d1qnaa1	99	TATA-box binding protein (TBP), C-terminal domain	99.97
d1qnaa2	83	TATA-box binding protein (TBP), C-terminal domain	99.97

>d1qnaa1 d.129.1.1 (A:17-115) TATA-box binding protein (TBP), C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=100.00  E-value=1.9e-36  Score=217.15  Aligned_cols=92  Identities=47%  Similarity=0.828  Sum_probs=90.7

Q ss_pred             eEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHHh
Q psy2814           2 HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQ   81 (176)
Q Consensus         2 ~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~~   81 (176)
                      +|+|||||++++++|||++||..++|++|||++|||+++|+++|+++++||+||||+||||+|+++++.|+++++++|++
T Consensus         8 ~i~NiVas~~l~~~idL~~la~~~~n~eYePe~fpgli~R~~~P~~t~lIF~SGKivitGaks~~~~~~a~~~i~~~l~k   87 (99)
T d1qnaa1           8 TLQNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAKSEDFSKMAARKYARIVQK   87 (99)
T ss_dssp             EEEEEEEEEECCSCCCHHHHHHHCSSEEECTTTCSEEEEEETTTTEEEEEETTSEEEEEEESSHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEEEEEcCCcccHHHHHhhCCCCEECcccCCEEEEEeCCCcEEEEEEcCCEEEEeccCCHHHHHHHHHHHHHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCcccceeee
Q psy2814          82 LGHPIKYQGFKI   93 (176)
Q Consensus        82 ~g~~~~~~~~~i   93 (176)
                      +|+++++.+|+|
T Consensus        88 ~g~~v~~~~f~i   99 (99)
T d1qnaa1          88 LGFPAKFKDFKI   99 (99)
T ss_dssp             TTCCCCCEEEEE
T ss_pred             cCCCCcccccCC
Confidence            999999999987

>d1qnaa2 d.129.1.1 (A:116-198) TATA-box binding protein (TBP), C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=100.00  E-value=1.7e-34  Score=200.83  Aligned_cols=82  Identities=66%  Similarity=1.160  Sum_probs=80.5

Q ss_pred             eeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHHHHHHHHhh
Q psy2814          94 HNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSF  173 (176)
Q Consensus        94 ~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~i~~~L~~~  173 (176)
                      ||||||++++++|||++|+..++.+++||||+||||+||+.+|+++++||+||||+||||||++++++|+++|+|+|.+|
T Consensus         1 qNiVas~~l~~~I~L~~la~~~~~~~~YePe~fpgl~~R~~~pk~~~lIF~SGkivitGaks~~~~~~a~~~i~~~L~~~   80 (83)
T d1qnaa2           1 QNIVGSCDVKFPIRLEGLAYSHAAFSSYEPELFPGLIYRMKVPKIVLLIFVSGKIVITGAKMRDETYKAFENIYPVLSEF   80 (83)
T ss_dssp             EEEEEEEECSSCBCHHHHHHHTTTTEECCTTTCSSEEEEETTTTEEEEECTTSEEEEEEESSHHHHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCccHHHHHHhhhhhcccChhhCCeEEEEECCCCeEEEEEcCCEEEEECCCCHHHHHHHHHHHHHHHHHh
Confidence            79999999999999999998888899999999999999999999999999999999999999999999999999999999


Q ss_pred             hc
Q psy2814         174 KK  175 (176)
Q Consensus       174 r~  175 (176)
                      ||
T Consensus        81 ~k   82 (83)
T d1qnaa2          81 RK   82 (83)
T ss_dssp             BC
T ss_pred             cc
Confidence            98

>d1mp9a1 d.129.1.1 (A:5-96) TATA-box binding protein (TBP), C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=100.00  E-value=1.9e-33  Score=198.98  Aligned_cols=84  Identities=35%  Similarity=0.630  Sum_probs=82.1

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+|||||++++++|||.+||..++|++||||+|||+++|+++|+++++||+||||+||||||+++++.|++++.++|+
T Consensus         9 ~~i~NiVas~~l~~~idL~~la~~~~~~~YePe~fpgli~R~~~p~~t~lIF~SGkivitGaks~~~~~~a~~~~~~~L~   88 (92)
T d1mp9a1           9 VNIENIVATVTLDQTLDLYAMERSVPNVEYDPDQFPGLIFRLESPKITSLIFKSGKMVVTGAKSTDELIKAVKRIIKTLK   88 (92)
T ss_dssp             EEEEEEEEEEECCSCCCHHHHHHHSTTCBCCTTTCSSEEEEETTTTEEEEECTTSEEEEECCSSHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEEEEEECCCcccHHHHHhhCCCCEECCccCceEEEEECCCcEEEEEEcCCEEEEEccCCHHHHHHHHHHHHHHHH
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCC
Q psy2814          81 QLGH   84 (176)
Q Consensus        81 ~~g~   84 (176)
                      ++|.
T Consensus        89 ~~G~   92 (92)
T d1mp9a1          89 KYGM   92 (92)
T ss_dssp             HTTC
T ss_pred             HcCC
Confidence            9984

>d1aisa2 d.129.1.1 (A:93-181) TATA-box binding protein (TBP), C-terminal domain {Archaeon Pyrococcus woesei [TaxId: 2262]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Archaeon Pyrococcus woesei [TaxId: 2262]

Probab=100.00  E-value=2.7e-33  Score=197.01  Aligned_cols=84  Identities=35%  Similarity=0.638  Sum_probs=81.2

Q ss_pred             ceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHHHHH
Q psy2814          89 QGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYP  168 (176)
Q Consensus        89 ~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~i~~  168 (176)
                      ++++|+||||+++++++|||++|+..+ ++++||||+||||+||+.+|+++++||+||||+||||||++++++|+++++|
T Consensus         6 p~i~I~NiVas~~l~~~idL~~la~~~-~~~~Y~Pe~fpgli~R~~~p~~t~lIF~SGKivitGaks~~~~~~a~~~i~~   84 (89)
T d1aisa2           6 PQIDVQNMVFSGDIGREFNLDVVALTL-PNCEYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEAVRKLLR   84 (89)
T ss_dssp             CEEEEEEEEEEEECSSCCCHHHHHHHS-TTEECCTTTCSSEEEEETTTTEEEEECTTSEEEEEEESSHHHHHHHHHHHHH
T ss_pred             CeEEEEEEEEEEECCCcccHHHHHhhc-cCcEECcccCceEEEEEcCCcEEEEEEcCCEEEEEccCCHHHHHHHHHHHHH
Confidence            679999999999999999999999876 6899999999999999999999999999999999999999999999999999


Q ss_pred             HHHhh
Q psy2814         169 VLKSF  173 (176)
Q Consensus       169 ~L~~~  173 (176)
                      +|++|
T Consensus        85 ~L~k~   89 (89)
T d1aisa2          85 ELDKY   89 (89)
T ss_dssp             HHTTC
T ss_pred             HHhcC
Confidence            99987

>d1aisa1 d.129.1.1 (A:1-92) TATA-box binding protein (TBP), C-terminal domain {Archaeon Pyrococcus woesei [TaxId: 2262]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Archaeon Pyrococcus woesei [TaxId: 2262]

Probab=99.98  E-value=4.5e-33  Score=197.01  Aligned_cols=84  Identities=35%  Similarity=0.583  Sum_probs=82.0

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+||||+++++++|||.+||.+.+|++||||+|||+++|+++|+++++||+|||++||||+|+++++.|++++.++|+
T Consensus         9 ~~I~NiVas~~l~~~idL~~la~~~~~~~YePe~fpgl~~R~~~p~~~~lIF~sGkivitGakS~~~~~~a~~~i~~~l~   88 (92)
T d1aisa1           9 LRIENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGAKSVQDIERAVAKLAQKLK   88 (92)
T ss_dssp             EEEEEEEEEEECCSCCCHHHHTTTSTTCBCCTTTCSSEEEECSSSCCEEEECTTSEEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEEEEEECCCCccHHHHHhhCCCCEECcccCCeEEEEeCCCcEEEEEECCCEEEEEccCCHHHHHHHHHHHHHHHH
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCC
Q psy2814          81 QLGH   84 (176)
Q Consensus        81 ~~g~   84 (176)
                      ++|.
T Consensus        89 ~lGv   92 (92)
T d1aisa1          89 SIGV   92 (92)
T ss_dssp             HTTC
T ss_pred             HcCC
Confidence            9984

>d1aisa2 d.129.1.1 (A:93-181) TATA-box binding protein (TBP), C-terminal domain {Archaeon Pyrococcus woesei [TaxId: 2262]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Archaeon Pyrococcus woesei [TaxId: 2262]

Probab=99.98  E-value=6.4e-33  Score=195.11  Aligned_cols=82  Identities=33%  Similarity=0.535  Sum_probs=79.8

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+|||||++++++|||++||..++|++||||+||||++|+++|+++++||+||||+||||+|+++++.|++++.++|+
T Consensus         8 i~I~NiVas~~l~~~idL~~la~~~~~~~Y~Pe~fpgli~R~~~p~~t~lIF~SGKivitGaks~~~~~~a~~~i~~~L~   87 (89)
T d1aisa2           8 IDVQNMVFSGDIGREFNLDVVALTLPNCEYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEAVRKLLRELD   87 (89)
T ss_dssp             EEEEEEEEEEECSSCCCHHHHHHHSTTEECCTTTCSSEEEEETTTTEEEEECTTSEEEEEEESSHHHHHHHHHHHHHHHT
T ss_pred             EEEEEEEEEEECCCcccHHHHHhhccCcEECcccCceEEEEEcCCcEEEEEEcCCEEEEEccCCHHHHHHHHHHHHHHHh
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             hc
Q psy2814          81 QL   82 (176)
Q Consensus        81 ~~   82 (176)
                      +.
T Consensus        88 k~   89 (89)
T d1aisa2          88 KY   89 (89)
T ss_dssp             TC
T ss_pred             cC
Confidence            74

>d1mp9a2 d.129.1.1 (A:97-197) TATA-box binding protein (TBP), C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=99.97  E-value=3.7e-32  Score=195.33  Aligned_cols=87  Identities=45%  Similarity=0.734  Sum_probs=83.4

Q ss_pred             cceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHHHH
Q psy2814          88 YQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIY  167 (176)
Q Consensus        88 ~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~i~  167 (176)
                      .++++|+||||+++++++|||++|+..+ ++++||||+||||+||+.+|+++++||+||||+||||+|++++++|+++++
T Consensus         5 ~p~~~v~NiVas~~l~~~idL~~la~~~-~~~~YePe~fpgli~R~~~pk~t~lIF~SGKivitGaks~~~~~~a~~~i~   83 (101)
T d1mp9a2           5 KPKIQIQNIVASANLHVIVNLDKAAFLL-ENNMYEPEQFPGLIYRMDEPRVVLLIFSSGKMVITGAKREDEVHKAVKKIF   83 (101)
T ss_dssp             CCEEEEEEEEEEEECSSEECHHHHHHHS-SSEECCTTTCSSEEEEETTTTEEEEECTTSEEEEEEESSHHHHHHHHHHHH
T ss_pred             CCcEEEEEEEEEEECCCcccHHHHHhhC-CCCEECcccCCeEEEEecCCcEEEEEEcCCEEEEEccCCHHHHHHHHHHHH
Confidence            4689999999999999999999999876 689999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhhc
Q psy2814         168 PVLKSFKK  175 (176)
Q Consensus       168 ~~L~~~r~  175 (176)
                      |+|.+++.
T Consensus        84 ~~L~~~~~   91 (101)
T d1mp9a2          84 DKLVELDC   91 (101)
T ss_dssp             HHHHHTTC
T ss_pred             HHHHHhCC
Confidence            99999974

>d1aisa1 d.129.1.1 (A:1-92) TATA-box binding protein (TBP), C-terminal domain {Archaeon Pyrococcus woesei [TaxId: 2262]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Archaeon Pyrococcus woesei [TaxId: 2262]

Probab=99.97  E-value=4e-32  Score=192.07  Aligned_cols=88  Identities=35%  Similarity=0.603  Sum_probs=82.7

Q ss_pred             CcccceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHH
Q psy2814          85 PIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFD  164 (176)
Q Consensus        85 ~~~~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~  164 (176)
                      +++..+++|+||||+++++++|||++|+... ++++||||+||||+||+.+|+++++||+|||++||||||++++++|++
T Consensus         3 d~~~~~~~I~NiVas~~l~~~idL~~la~~~-~~~~YePe~fpgl~~R~~~p~~~~lIF~sGkivitGakS~~~~~~a~~   81 (92)
T d1aisa1           3 DMSKVKLRIENIVASVDLFAQLDLEKVLDLC-PNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGAKSVQDIERAVA   81 (92)
T ss_dssp             CCTTCEEEEEEEEEEEECCSCCCHHHHTTTS-TTCBCCTTTCSSEEEECSSSCCEEEECTTSEEEEEEESSHHHHHHHHH
T ss_pred             CcCcCcEEEEEEEEEEECCCCccHHHHHhhC-CCCEECcccCCeEEEEeCCCcEEEEEECCCEEEEEccCCHHHHHHHHH
Confidence            4566789999999999999999999998544 789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhh
Q psy2814         165 NIYPVLKSF  173 (176)
Q Consensus       165 ~i~~~L~~~  173 (176)
                      +++++|++.
T Consensus        82 ~i~~~l~~l   90 (92)
T d1aisa1          82 KLAQKLKSI   90 (92)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHc
Confidence            999999874

>d1mp9a1 d.129.1.1 (A:5-96) TATA-box binding protein (TBP), C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=99.97  E-value=6.3e-32  Score=191.07  Aligned_cols=84  Identities=38%  Similarity=0.646  Sum_probs=80.7

Q ss_pred             ceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHHHHH
Q psy2814          89 QGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYP  168 (176)
Q Consensus        89 ~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~i~~  168 (176)
                      ..++|+|||||++++++|||++|+..+ ++++||||+||||+||+.+|+++++||+||||+||||||+++++.|++++++
T Consensus         7 ~~~~i~NiVas~~l~~~idL~~la~~~-~~~~YePe~fpgli~R~~~p~~t~lIF~SGkivitGaks~~~~~~a~~~~~~   85 (92)
T d1mp9a1           7 AVVNIENIVATVTLDQTLDLYAMERSV-PNVEYDPDQFPGLIFRLESPKITSLIFKSGKMVVTGAKSTDELIKAVKRIIK   85 (92)
T ss_dssp             CEEEEEEEEEEEECCSCCCHHHHHHHS-TTCBCCTTTCSSEEEEETTTTEEEEECTTSEEEEECCSSHHHHHHHHHHHHH
T ss_pred             CeEEEEEEEEEEECCCcccHHHHHhhC-CCCEECCccCceEEEEECCCcEEEEEEcCCEEEEEccCCHHHHHHHHHHHHH
Confidence            568999999999999999999999765 6899999999999999999999999999999999999999999999999999


Q ss_pred             HHHhh
Q psy2814         169 VLKSF  173 (176)
Q Consensus       169 ~L~~~  173 (176)
                      +|+++
T Consensus        86 ~L~~~   90 (92)
T d1mp9a1          86 TLKKY   90 (92)
T ss_dssp             HHHHT
T ss_pred             HHHHc
Confidence            99886

>d1mp9a2 d.129.1.1 (A:97-197) TATA-box binding protein (TBP), C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=99.97  E-value=6e-32  Score=194.21  Aligned_cols=84  Identities=31%  Similarity=0.515  Sum_probs=81.9

Q ss_pred             CeEEEEEEEEEeCCccChhhHhhcCCCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHH
Q psy2814           1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK   80 (176)
Q Consensus         1 ~~I~Nvvas~~l~~~idL~~la~~~~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~   80 (176)
                      ++|+||||+++++++|||++||...+|++|||++||||+||+++|+++++||+||||+|||++|+++++.|++++.++|+
T Consensus         8 ~~v~NiVas~~l~~~idL~~la~~~~~~~YePe~fpgli~R~~~pk~t~lIF~SGKivitGaks~~~~~~a~~~i~~~L~   87 (101)
T d1mp9a2           8 IQIQNIVASANLHVIVNLDKAAFLLENNMYEPEQFPGLIYRMDEPRVVLLIFSSGKMVITGAKREDEVHKAVKKIFDKLV   87 (101)
T ss_dssp             EEEEEEEEEEECSSEECHHHHHHHSSSEECCTTTCSSEEEEETTTTEEEEECTTSEEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEEEEEECCCcccHHHHHhhCCCCEECcccCCeEEEEecCCcEEEEEEcCCEEEEEccCCHHHHHHHHHHHHHHHH
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCC
Q psy2814          81 QLGH   84 (176)
Q Consensus        81 ~~g~   84 (176)
                      ++|.
T Consensus        88 ~~~~   91 (101)
T d1mp9a2          88 ELDC   91 (101)
T ss_dssp             HTTC
T ss_pred             HhCC
Confidence            9974

>d1qnaa1 d.129.1.1 (A:17-115) TATA-box binding protein (TBP), C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.97  E-value=2.9e-31  Score=189.95  Aligned_cols=85  Identities=27%  Similarity=0.416  Sum_probs=80.4

Q ss_pred             cceeeeeeEEEEeeeCcccCHHHHHHHcCCCcccCCCCCceeEEEEcCCeEEEEEeccceEEEEecCCHHHHHHHHHHHH
Q psy2814          88 YQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIY  167 (176)
Q Consensus        88 ~~~~~i~nIvas~~l~~~i~L~~l~~~~~~~~~YePe~fpgl~~r~~~~~~t~~IF~sGkivitGaks~~~~~~a~~~i~  167 (176)
                      ....+|+||||+++++++|||++|+.. .++++||||+||||+||+.+|+++++||+|||++||||||+++++.|+++++
T Consensus         4 ~~~p~i~NiVas~~l~~~idL~~la~~-~~n~eYePe~fpgli~R~~~P~~t~lIF~SGKivitGaks~~~~~~a~~~i~   82 (99)
T d1qnaa1           4 GIVPTLQNIVSTVNLDCKLDLKAIALQ-ARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAKSEDFSKMAARKYA   82 (99)
T ss_dssp             SCCCEEEEEEEEEECCSCCCHHHHHHH-CSSEEECTTTCSEEEEEETTTTEEEEEETTSEEEEEEESSHHHHHHHHHHHH
T ss_pred             CCCcEEEEEEEEEEcCCcccHHHHHhh-CCCCEECcccCCEEEEEeCCCcEEEEEEcCCEEEEeccCCHHHHHHHHHHHH
Confidence            345799999999999999999999975 4789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhh
Q psy2814         168 PVLKSF  173 (176)
Q Consensus       168 ~~L~~~  173 (176)
                      ++|+++
T Consensus        83 ~~l~k~   88 (99)
T d1qnaa1          83 RIVQKL   88 (99)
T ss_dssp             HHHHHT
T ss_pred             HHHHHc
Confidence            999875

>d1qnaa2 d.129.1.1 (A:116-198) TATA-box binding protein (TBP), C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: TATA-box binding protein-like
family: TATA-box binding protein (TBP), C-terminal domain
domain: TATA-box binding protein (TBP), C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.97  E-value=6.8e-31  Score=182.44  Aligned_cols=79  Identities=33%  Similarity=0.554  Sum_probs=76.3

Q ss_pred             EEEEEEEEeCCccChhhHhhcC-CCcEEccCCCceEEEEEcCCeEEEEEecCccEEEEcccCHHHHHHHHHHHHHHHHhc
Q psy2814           4 QNMVGTISVGCPLDLNQINSRV-RYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQL   82 (176)
Q Consensus         4 ~Nvvas~~l~~~idL~~la~~~-~n~~Y~P~~fpgl~~R~~~p~~t~~If~sGKivitGaks~~~~~~a~~~i~~~L~~~   82 (176)
                      ||||||++++++|||++||... .+++||||+|||++||+++|+++++||+||||+||||||+++++.|++++.++|+++
T Consensus         1 qNiVas~~l~~~I~L~~la~~~~~~~~YePe~fpgl~~R~~~pk~~~lIF~SGkivitGaks~~~~~~a~~~i~~~L~~~   80 (83)
T d1qnaa2           1 QNIVGSCDVKFPIRLEGLAYSHAAFSSYEPELFPGLIYRMKVPKIVLLIFVSGKIVITGAKMRDETYKAFENIYPVLSEF   80 (83)
T ss_dssp             EEEEEEEECSSCBCHHHHHHHTTTTEECCTTTCSSEEEEETTTTEEEEECTTSEEEEEEESSHHHHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCccHHHHHHhhhhhcccChhhCCeEEEEECCCCeEEEEEcCCEEEEECCCCHHHHHHHHHHHHHHHHHh
Confidence            7999999999999999999865 589999999999999999999999999999999999999999999999999999986