Psyllid ID: psy15249

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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-------180-------190-------200-------210-------220-------230-----
Protein Sequence
MLFAAFEKHQYYNIKDLVKITKQPIVNLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCVDPNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKHLTYLKEILKEVCNYNLKNPHKNMWELKPEYRCYKEEEKKEEATADDDDD
Secondary Structure (PSIPRED)
cHHHHHHHcccccHHHHHHHccccccccccccccccEEEEEccHHHHHHHcccccccccEEEEEEccccccccEEEEccccccccccccccccccEEEEEEEEccEEEEEEEccccccccccccccccccEEEEEEEEEEEEcccccHHHHHHHHHHHHHHcccccEEEEHHHHHccccccccccHHHHHHHHHHHHHHHcccccccccccccHHHHcccHHHHHHHcccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHccEEEHHHHHHHcccccEEcHHHHcccEEEEEEEEHHHHHHHcccEcccEEEEEEEEEEccEEEEEEEEccHHHHcccccccccccccEEEEEEcccEEEEEEEEccccccccccccccccEEEEEEEEEEEEEcccccHHHHHHHHHHHHHHcccccEEEEHHHHHccccccccccHHHHHHHHHHHHHHHHccccccccEEccHHHHHcccHHHHHHcccccccc
Coil and Loop (DISEMBL)
mlfaafekhqyynIKDLVKItkqpivnldltqasrgvwLVKVPKYVAnkwekvpgnieagklkivrnpgqkpvvSLSLseatmcvdpneekipkdhrldvqivnrqtlgvfshyippvnpdaivpesEKLMLEGKIvqklecrpyadscyMKLKLDSIikasqplrqVKHLDKIvqnykpvsnhkHLTYLKEILKEVCNynlknphknmwelkpeyRCYKEeekkeeataddddd
Flexible Loop (DISEMBL)
MLFAAFEKHQYYNIKDLVKITKQPIVNLdltqasrgvwlVKVPKYvankwekvpgnieagklkivrnpgqKPVVSLSLSEATMCVDPNeekipkdhrldVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDkivqnykpvsnHKHLTYLKEILKEVCNYNlknphknmwelkPEYRCYKeeekkeeataddddd
Low Complexity Region (SEG)
MLFAAFEKHQYYNIKDLVKITKQPIVNLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCVDPNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKHLTYLKEILKEVCNYNLKNPHKNMWELKPEYRCYkeeekkeeataddddd
Disordered region (IsUnstruct)
**FAAFEKHQYYNIKDLVKITKQPIVNLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPG**PVVSLSLSEATMCV*********DHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKHLTYLKEILKEVCNYNLKNPHKNMWELKPEYRCY****************
Disordered Region (DISOPRED)
MLFAAFEKHQYYNIKDLVKITKQPIVNLDLTQASRGVWLVKVPKYVA***********************************************DHRLDVQIVNRQTLGVF*********************EGKIVQKLECRPYADSCYMKL************************YKPVSNHKHLTYLKEILKEVCNYNLKNPHKNMWEL***********************
Disordered Region (DISEMBL)
MLFAAFEKHQYYNIKDLVKITKQPIVNLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCVDPNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKHLTYLKEILKEVCNYNLKNPHKNMWELKPEYRCYK***************
Disordered Region (DISPRO)
MLFAAFEKHQYYNIKDLVKITKQPIVNLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCVDPNEEKIPKDHRLDVQIVNRQTLGVFSHYIP**********SEKLMLEGKIVQKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKHLTYLKEILKEVCNYNLKNPHKNMWELKPEYRCYKE**************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MLFAAFEKHQYYNIKDLVKITKQPIVNLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCVDPNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKHLTYLKEILKEVCNYNLKNPHKNMWELKPEYRCYKEEEKKEEATADDDDD
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	235	2.2.26 [Sep-21-2011]
P41900	277	General transcription fac	yes	N/A	0.817	0.693	0.516	7e-63
Q2T9L9	249	General transcription fac	yes	N/A	0.795	0.751	0.376	3e-35
Q01750	249	General transcription fac	yes	N/A	0.795	0.751	0.380	4e-35
Q8R0A0	249	General transcription fac	yes	N/A	0.795	0.751	0.380	7e-35
P13984	249	General transcription fac	yes	N/A	0.795	0.751	0.372	5e-34
Q03123	264	General transcription fac	N/A	N/A	0.842	0.75	0.356	2e-33
O94424	307	Transcription initiation	yes	N/A	0.748	0.573	0.218	0.0006

>sp|P41900|T2FB_DROME General transcription factor IIF subunit 2 OS=Drosophila melanogaster GN=TfIIFbeta PE=2 SV=2

 Score =  240 bits (612), Expect = 7e-63,   Method: Compositional matrix adjust.
 Identities = 127/246 (51%), Positives = 156/246 (63%), Gaps = 54/246 (21%)

Query: 27  NLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCVD 86
           +LDL+ A RGVWLVKVPKY+A KWEK P N++ GKL+I + PGQK  VSLSL+ A + +D
Sbjct: 15  DLDLSNAGRGVWLVKVPKYIAQKWEKAPTNMDVGKLRINKTPGQKAQVSLSLTPAVLALD 74

Query: 87  PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPP-----VNPDAIVPESEKLMLEGKIVQKLE 141
           P EEKIP +H LDV  V +QTLGVFSH  P          A  P++EKL +EG+IVQKLE
Sbjct: 75  P-EEKIPTEHILDVSQVTKQTLGVFSHMAPSDGKENSTTSAAQPDNEKLYMEGRIVQKLE 133

Query: 142 CRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKH--------------- 186
           CRP AD+CYMKLKL+SI KAS+P R+V+ +DKIVQN+KPV +H H               
Sbjct: 134 CRPIADNCYMKLKLESIRKASEPQRRVQPIDKIVQNFKPVKDHAHNIEYRERKKAEGKKA 193

Query: 187 ---------------------------------LTYLKEILKEVCNYNLKNPHKNMWELK 213
                                            ++YLKEILK+VC+YN+KNPHKNMWELK
Sbjct: 194 RDDKNAVMDMLFHAFEKHQYYNIKDLVKITNQPISYLKEILKDVCDYNMKNPHKNMWELK 253

Query: 214 PEYRCY 219
            EYR Y
Sbjct: 254 KEYRHY 259

TFIIF is a general transcription initiation factor that binds to RNA polymerase II and helps to recruit it to the initiation complex in collaboration with TFIIB. It promotes transcription elongation. This subunit shows ATP-dependent DNA-helicase activity.
Drosophila melanogaster (taxid: 7227)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: 1EC: 2

>sp|Q2T9L9|T2FB_BOVIN General transcription factor IIF subunit 2 OS=Bos taurus GN=GTF2F2 PE=2 SV=1

 Score =  148 bits (373), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 96/255 (37%), Positives = 131/255 (51%), Gaps = 68/255 (26%)

Query: 28  LDLTQASR--GVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV 85
           LDLT A +  GVWLVKVPKY++ +W K PG  E GKL+I +N G +  VS +L+E    +
Sbjct: 7   LDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQG-RTEVSFTLNEDLANI 65

Query: 86  -----DPNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKL 140
                 P     P++H   +Q V  QTL VF+              S+KL LEG +VQ+ 
Sbjct: 66  HDIGGKPASVSAPREHPFVLQSVGGQTLTVFTE-----------SSSDKLSLEGIVVQRA 114

Query: 141 ECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIV-QNYKPVSNHKH------------- 186
           ECRP A+  YM+LK   I ++S+P+R  + LDK+V  NYKPV+NH++             
Sbjct: 115 ECRPAANENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGK 174

Query: 187 -----------------------------------LTYLKEILKEVCNYNLKNPHKNMWE 211
                                              ++YLK+ILKE+   N+K  HKN WE
Sbjct: 175 RARADKQHVLDMLFSAFEKHQYYNLKDLVDITKQPVSYLKDILKEIGVQNVKGIHKNTWE 234

Query: 212 LKPEYRCYKEEEKKE 226
           LKPEYR Y+ EEK +
Sbjct: 235 LKPEYRHYQVEEKSD 249

TFIIF is a general transcription initiation factor that binds to RNA polymerase II and helps to recruit it to the initiation complex in collaboration with TFIIB. It promotes transcription elongation. This subunit shows ATP-dependent DNA-helicase activity.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q01750|T2FB_RAT General transcription factor IIF subunit 2 OS=Rattus norvegicus GN=Gtf2f2 PE=2 SV=1

 Score =  147 bits (372), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 97/255 (38%), Positives = 128/255 (50%), Gaps = 68/255 (26%)

Query: 28  LDLTQASR--GVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV 85
           LDLT A +  GVWLVKVPKY++ +W K PG  E GKL+I +N G +  VS +L+E    +
Sbjct: 7   LDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQG-RTEVSFTLNEDLANI 65

Query: 86  -----DPNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKL 140
                 P     P++H   +Q V  QTL VF+              S+KL LEG +VQ+ 
Sbjct: 66  HDIGGKPASVSAPREHPFVLQSVGGQTLTVFTE-----------SSSDKLSLEGIVVQRA 114

Query: 141 ECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIV-QNYKPVSNHKH------------- 186
           ECRP A   YMKLK   I ++S+P+R  +  DK+V  NYKPV+NH++             
Sbjct: 115 ECRPAASENYMKLKRLQIEESSKPVRLSQQADKVVTTNYKPVANHQYNIEYERKKKEDGK 174

Query: 187 -----------------------------------LTYLKEILKEVCNYNLKNPHKNMWE 211
                                              + YLKEILKE+   N+K  HKN WE
Sbjct: 175 RARADKQHVLDMLFSAFEKHQYYNLKDLVDITKQPVGYLKEILKEIGIQNVKGIHKNTWE 234

Query: 212 LKPEYRCYKEEEKKE 226
           LKPEYR Y+ EEK +
Sbjct: 235 LKPEYRHYQTEEKSD 249

TFIIF is a general transcription initiation factor that binds to RNA polymerase II and helps to recruit it to the initiation complex in collaboration with TFIIB. It promotes transcription elongation. This subunit shows ATP-dependent DNA-helicase activity.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q8R0A0|T2FB_MOUSE General transcription factor IIF subunit 2 OS=Mus musculus GN=Gtf2f2 PE=1 SV=1

 Score =  147 bits (371), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 97/255 (38%), Positives = 128/255 (50%), Gaps = 68/255 (26%)

Query: 28  LDLTQASR--GVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV 85
           LDLT A +  GVWLVKVPKY++ +W K  G  E GKL+I +N G +  VS +L+E    +
Sbjct: 7   LDLTGAKQNTGVWLVKVPKYLSQQWAKASGRGEVGKLRIAKNQG-RTEVSFTLNEDLANI 65

Query: 86  -----DPNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKL 140
                 P     P++H   +Q V  QTL VF+              S+KL LEG +VQ+ 
Sbjct: 66  HDIGGKPASVSAPREHPFVLQSVGGQTLTVFTE-----------SSSDKLSLEGIVVQRA 114

Query: 141 ECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIV-QNYKPVSNHKH------------- 186
           ECRP A   YMKLK   I ++S+P+R  + LDK+V  NYKPV+NH++             
Sbjct: 115 ECRPAASENYMKLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGK 174

Query: 187 -----------------------------------LTYLKEILKEVCNYNLKNPHKNMWE 211
                                              + YLKEILKE+   N+K  HKN WE
Sbjct: 175 RARADKQHVLDMLFSAFEKHQYYNLKDLVDITKQPVGYLKEILKEIGIQNVKGIHKNTWE 234

Query: 212 LKPEYRCYKEEEKKE 226
           LKPEYR Y+ EEK +
Sbjct: 235 LKPEYRHYQTEEKSD 249

TFIIF is a general transcription initiation factor that binds to RNA polymerase II and helps to recruit it to the initiation complex in collaboration with TFIIB. It promotes transcription elongation. This subunit shows ATP-dependent DNA-helicase activity.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|P13984|T2FB_HUMAN General transcription factor IIF subunit 2 OS=Homo sapiens GN=GTF2F2 PE=1 SV=2

 Score =  144 bits (363), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 95/255 (37%), Positives = 127/255 (49%), Gaps = 68/255 (26%)

Query: 28  LDLTQASR--GVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV 85
           LDLT A +  GVWLVKVPKY++ +W K  G  E GKL+I +  G +  VS +L+E    +
Sbjct: 7   LDLTGAKQNTGVWLVKVPKYLSQQWAKASGRGEVGKLRIAKTQG-RTEVSFTLNEDLANI 65

Query: 86  -----DPNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKL 140
                 P     P++H   +Q V  QTL VF+              S+KL LEG +VQ+ 
Sbjct: 66  HDIGGKPASVSAPREHPFVLQSVGGQTLTVFTE-----------SSSDKLSLEGIVVQRA 114

Query: 141 ECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIV-QNYKPVSNHKH------------- 186
           ECRP A   YM+LK   I ++S+P+R  + LDK+V  NYKPV+NH++             
Sbjct: 115 ECRPAASENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGK 174

Query: 187 -----------------------------------LTYLKEILKEVCNYNLKNPHKNMWE 211
                                              + YLKEILKE+   N+K  HKN WE
Sbjct: 175 RARADKQHVLDMLFSAFEKHQYYNLKDLVDITKQPVVYLKEILKEIGVQNVKGIHKNTWE 234

Query: 212 LKPEYRCYKEEEKKE 226
           LKPEYR Y+ EEK +
Sbjct: 235 LKPEYRHYQGEEKSD 249

TFIIF is a general transcription initiation factor that binds to RNA polymerase II and helps to recruit it to the initiation complex in collaboration with TFIIB. It promotes transcription elongation. This subunit shows ATP-dependent DNA-helicase activity.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q03123|T2FB_XENLA General transcription factor IIF subunit 2 OS=Xenopus laevis GN=gtf2f2 PE=2 SV=1

 Score =  142 bits (359), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 92/258 (35%), Positives = 129/258 (50%), Gaps = 60/258 (23%)

Query: 28  LDLTQASR--GVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV 85
           LDL  A +  G+WLVK+PKY+A +W K  G  E GKL+IV+N G K  VS +L+E    +
Sbjct: 8   LDLNGAKQNTGMWLVKLPKYLAQQWAKATGRGEVGKLRIVKNQG-KTEVSFTLNEELASI 66

Query: 86  DPNEEK-------IPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPES-EKLMLEGKIV 137
                K        P++H   +Q V  QTL V +  +   + D       +KL LEG +V
Sbjct: 67  QDIGGKPASSLVSTPREHPFLLQSVGGQTLTVLTESLSGQSEDKSENRVIDKLALEGIVV 126

Query: 138 QKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDK-IVQNYKPVSNHKH---------- 186
            + ECRP A   YM++K   I ++S+P RQ + L+K +  NYKPVSNH++          
Sbjct: 127 HRAECRPAASDNYMQMKRKQIEESSKPKRQSQQLEKAVTSNYKPVSNHQYNIEYEKKKKD 186

Query: 187 --------------------------------------LTYLKEILKEVCNYNLKNPHKN 208
                                                 +TYLKEIL+++  YN+K  HKN
Sbjct: 187 DGKRARVDKHQVLDMLFSAFEKHQYYNIKDLVDITKQPVTYLKEILRDIGIYNMKGTHKN 246

Query: 209 MWELKPEYRCYKEEEKKE 226
            WELKPEYR Y+ E+K +
Sbjct: 247 TWELKPEYRHYQGEDKSD 264

TFIIF is a general transcription initiation factor that binds to RNA polymerase II and helps to recruit it to the initiation complex in collaboration with TFIIB. It promotes transcription elongation. This subunit shows ATP-dependent DNA-helicase activity.

Xenopus laevis (taxid: 8355)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|O94424|T2FB_SCHPO Transcription initiation factor IIF subunit beta OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=tfg2 PE=1 SV=1

 Score = 44.7 bits (104), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 54/247 (21%), Positives = 99/247 (40%), Gaps = 71/247 (28%)

Query: 27  NLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCVD 86
           +LDL Q    VWLVK+PK++ +KW  +P + +A  L  VR    +  + L L  +     
Sbjct: 22  DLDLGQIGSRVWLVKIPKFLMDKWNSIPED-DAANLGCVRVKNDE--IQLLLQNS----- 73

Query: 87  PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYA 146
           P    +PK + L  +++N+    V + Y+   +  +   +S  L+  G +  +    P  
Sbjct: 74  PENADVPKIYNL--RVMNKF---VRNSYVFRESETSSSMKSTALV--GTVAHECNVSPVI 126

Query: 147 DSCYMKLKLDSIIKASQPLRQVKHLD--------------------KIVQNYKPVS---- 182
           +  Y ++     + AS P R+V+ +D                      ++N KP +    
Sbjct: 127 NDDYRRVMQKRALAASAPKRKVQMIDDRGGSLLAPGTLGSRSRSTTSFIRNVKPRTGEGL 186

Query: 183 -------------------NHKHLT-------------YLKEILKEVCNYNLKNPHKNMW 210
                              ++++ T             YLKE+L  +   N + P+   +
Sbjct: 187 KNSRIPRNELLDILFKCFEDYEYWTLKGLREYVKQPEVYLKEVLDSIAILNKRGPYALKY 246

Query: 211 ELKPEYR 217
            LKPEY+
Sbjct: 247 SLKPEYK 253

TFIIF is a general transcription initiation factor that binds to RNA polymerase II and helps to recruit it to the initiation complex in collaboration with TFIIB. It promotes transcription elongation. This subunit shows ATP-dependent DNA-helicase activity.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

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	235
383858209	272	PREDICTED: general transcription factor	0.885	0.764	0.579	2e-76
340719856	271	PREDICTED: general transcription factor	0.885	0.767	0.579	2e-76
350416874	271	PREDICTED: general transcription factor	0.885	0.767	0.579	5e-76
380020787	271	PREDICTED: general transcription factor	0.885	0.767	0.575	1e-75
66564899	271	PREDICTED: general transcription factor	0.885	0.767	0.575	3e-75
332018908	269	General transcription factor IIF subunit	0.855	0.747	0.584	4e-75
307203229	272	General transcription factor IIF subunit	0.859	0.742	0.577	7e-75
170065599	280	transcription initiation factor IIF subu	0.880	0.739	0.547	8e-73
312384124	271	hypothetical protein AND_02541 [Anophele	0.876	0.760	0.561	4e-72
157138343	270	hypothetical protein AaeL_AAEL013998 [Ae	0.880	0.766	0.542	9e-72

>gi|383858209|ref|XP_003704594.1| PREDICTED: general transcription factor IIF subunit 2-like isoform 1 [Megachile rotundata]

 Score =  291 bits (745), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 149/257 (57%), Positives = 171/257 (66%), Gaps = 49/257 (19%)

Query: 28  LDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV-D 86
           LDL+ A RGVWLVKVPKY+ANKWEK PGNIE GKLKI +NPGQK  VSL LSEA + + +
Sbjct: 12  LDLSNAGRGVWLVKVPKYIANKWEKAPGNIEVGKLKITKNPGQKAEVSLKLSEAVLALKE 71

Query: 87  PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYA 146
           P EE+IPK HRLDV  V +Q LGVFSH  P  + D+IVPE+EKL +EG+IVQKLECRPYA
Sbjct: 72  PGEEEIPKQHRLDVTTVTKQMLGVFSHVTPSTSSDSIVPETEKLYMEGRIVQKLECRPYA 131

Query: 147 DSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKH-------------------- 186
           D+CYMKLKL SI +AS P RQV+ LD++VQNYKPVS+HKH                    
Sbjct: 132 DNCYMKLKLQSIKRASVPQRQVQQLDRVVQNYKPVSDHKHNIEYAEKKKAEGKKMRDDKD 191

Query: 187 ----------------------------LTYLKEILKEVCNYNLKNPHKNMWELKPEYRC 218
                                       + YLKEIL EVCNYNLKNPH+NMWELKPEYR 
Sbjct: 192 TVLDMLFAAFEKHQYYNIRDLVKITRQPIVYLKEILNEVCNYNLKNPHRNMWELKPEYRH 251

Query: 219 YKEEEKKEEATADDDDD 235
           YKEEEK  E     DD+
Sbjct: 252 YKEEEKSSENAQKKDDE 268

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340719856|ref|XP_003398361.1| PREDICTED: general transcription factor IIF subunit 2-like [Bombus terrestris]

 Score =  290 bits (743), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 150/259 (57%), Positives = 174/259 (67%), Gaps = 51/259 (19%)

Query: 28  LDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV-D 86
           LDL+ A RGVWLVKVPKY+ANKWEK PGNIE GKLKI +NPGQK  VSL LSEA + + +
Sbjct: 12  LDLSNAGRGVWLVKVPKYIANKWEKAPGNIEVGKLKITKNPGQKAEVSLRLSEAVLALKE 71

Query: 87  PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYA 146
           P EE+IPK HRLDV  V +Q LGVFSH  P  + D+IVPE+EKL +EG+IVQKLECRPYA
Sbjct: 72  PGEEEIPKQHRLDVTTVTKQMLGVFSHVTPSSSSDSIVPETEKLYMEGRIVQKLECRPYA 131

Query: 147 DSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKH-------------------- 186
           D+CYMKLKL SI +AS P RQV+ LD++VQN+KPVS+HKH                    
Sbjct: 132 DNCYMKLKLQSIKRASVPQRQVQQLDRVVQNFKPVSDHKHNIEYAEKKKAEGKKMRDDKD 191

Query: 187 ----------------------------LTYLKEILKEVCNYNLKNPHKNMWELKPEYRC 218
                                       + YLKEIL EVCNYNLKNPH+NMWELKPEYR 
Sbjct: 192 AVLDMLFAAFEKHQYYNIRDLVKITRQPIVYLKEILNEVCNYNLKNPHRNMWELKPEYRH 251

Query: 219 YKEEEKKE--EATADDDDD 235
           YKEEEK E  +  AD+ DD
Sbjct: 252 YKEEEKSEGSQKKADESDD 270

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350416874|ref|XP_003491146.1| PREDICTED: general transcription factor IIF subunit 2-like [Bombus impatiens]

 Score =  289 bits (740), Expect = 5e-76,   Method: Compositional matrix adjust.
 Identities = 150/259 (57%), Positives = 174/259 (67%), Gaps = 51/259 (19%)

Query: 28  LDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV-D 86
           LDL+ A RGVWLVKVPKY+ANKWEK PGNIE GKLKI +NPGQK  VSL LSEA + + +
Sbjct: 12  LDLSNAGRGVWLVKVPKYIANKWEKAPGNIEVGKLKITKNPGQKAEVSLRLSEAVLALKE 71

Query: 87  PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYA 146
           P EE+IPK HRLDV  V +Q LGVFSH  P  + D+IVPE+EKL +EG+IVQKLECRPYA
Sbjct: 72  PGEEEIPKQHRLDVTTVTKQMLGVFSHVTPSSSSDSIVPETEKLYMEGRIVQKLECRPYA 131

Query: 147 DSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKH-------------------- 186
           D+CYMKLKL SI +AS P RQV+ LD++VQN+KPVS+HKH                    
Sbjct: 132 DNCYMKLKLQSIKRASVPQRQVQQLDRVVQNFKPVSDHKHNIEYAEKKKAEGKKMRDDKD 191

Query: 187 ----------------------------LTYLKEILKEVCNYNLKNPHKNMWELKPEYRC 218
                                       + YLKEIL EVCNYNLKNPH+NMWELKPEYR 
Sbjct: 192 AVLDMLFAAFEKHQYYNIRDLVKITRQPIVYLKEILNEVCNYNLKNPHRNMWELKPEYRH 251

Query: 219 YKEEEKKE--EATADDDDD 235
           YKEEEK E  +  AD+ DD
Sbjct: 252 YKEEEKFEGSQKKADESDD 270

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380020787|ref|XP_003694260.1| PREDICTED: general transcription factor IIF subunit 2-like [Apis florea]

 Score =  288 bits (737), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 149/259 (57%), Positives = 173/259 (66%), Gaps = 51/259 (19%)

Query: 28  LDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV-D 86
           LDL+ A RGVWLVKVPKY+ANKWEK PGNIE GKLKI +NPGQK  VSL LSEA + + +
Sbjct: 12  LDLSNAGRGVWLVKVPKYIANKWEKAPGNIEVGKLKITKNPGQKAEVSLRLSEAVLALKE 71

Query: 87  PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYA 146
           P EE+IPK HRLDV  V +Q LGVFSH  P  + D+IVPE+EKL +EG+IVQKLECRPYA
Sbjct: 72  PGEEEIPKQHRLDVTTVTKQMLGVFSHVTPSSSSDSIVPETEKLYMEGRIVQKLECRPYA 131

Query: 147 DSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKH-------------------- 186
           D+CYMKLKL SI +AS P RQV+ LD++VQN+KPVS+HKH                    
Sbjct: 132 DNCYMKLKLQSIKRASVPQRQVQQLDRVVQNFKPVSDHKHNIEYAEKKKAEGKKMRDDKD 191

Query: 187 ----------------------------LTYLKEILKEVCNYNLKNPHKNMWELKPEYRC 218
                                       + YLKEIL EVCNYNLKNPH+NMWELKPEYR 
Sbjct: 192 AVLDMLFAAFEKHQYYNIRDLVKITRQPIVYLKEILNEVCNYNLKNPHRNMWELKPEYRH 251

Query: 219 YKEEEKKEEAT--ADDDDD 235
           YKEEEK E+     D+ DD
Sbjct: 252 YKEEEKLEDTQKKVDESDD 270

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|66564899|ref|XP_623868.1| PREDICTED: general transcription factor IIF subunit 2 isoform 1 [Apis mellifera]

 Score =  287 bits (734), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 149/259 (57%), Positives = 173/259 (66%), Gaps = 51/259 (19%)

Query: 28  LDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV-D 86
           LDL+ A RGVWLVKVPKY+ANKWEK PGNIE GKLKI +NPGQK  VSL LSEA + + +
Sbjct: 12  LDLSNAGRGVWLVKVPKYIANKWEKAPGNIEVGKLKITKNPGQKAEVSLRLSEAVLALKE 71

Query: 87  PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYA 146
           P EE+IPK HRLDV  V +Q LGVFSH  P  + D+IVPE+EKL +EG+IVQKLECRPYA
Sbjct: 72  PGEEEIPKQHRLDVTTVTKQMLGVFSHVTPSSSSDSIVPETEKLYMEGRIVQKLECRPYA 131

Query: 147 DSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKH-------------------- 186
           D+CYMKLKL SI +AS P RQV+ LD++VQN+KPVS+HKH                    
Sbjct: 132 DNCYMKLKLQSIKRASVPQRQVQQLDRVVQNFKPVSDHKHNIEYAEKKKAEGKKMRDDKD 191

Query: 187 ----------------------------LTYLKEILKEVCNYNLKNPHKNMWELKPEYRC 218
                                       + YLKEIL EVCNYNLKNPH+NMWELKPEYR 
Sbjct: 192 AVLDMLFAAFEKHQYYNIRDLVKITRQPIVYLKEILNEVCNYNLKNPHRNMWELKPEYRH 251

Query: 219 YKEEEKKEEATA--DDDDD 235
           YKEEEK E+     D+ DD
Sbjct: 252 YKEEEKLEDMQKKIDESDD 270

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332018908|gb|EGI59454.1| General transcription factor IIF subunit 2 [Acromyrmex echinatior]

 Score =  286 bits (733), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 146/250 (58%), Positives = 167/250 (66%), Gaps = 49/250 (19%)

Query: 28  LDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV-D 86
           LDL+ A RGVWLVKVPKY+ANKWEK PGNIE GKLKI +NPGQK  VSL LSEA + + +
Sbjct: 12  LDLSNAGRGVWLVKVPKYIANKWEKAPGNIEVGKLKITKNPGQKAEVSLKLSEAVLALKE 71

Query: 87  PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYA 146
             E +IPK HRLDV  V RQ LGVFSH  P  + DAIVPE+EKL +EG+IVQKLECRPYA
Sbjct: 72  SGEGEIPKQHRLDVTTVTRQMLGVFSHVAPSTSSDAIVPETEKLFMEGRIVQKLECRPYA 131

Query: 147 DSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKH-------------------- 186
           D+CYMKLKL+SI +AS P RQV+ LD++VQN+KPVS+HKH                    
Sbjct: 132 DNCYMKLKLESIKRASVPQRQVQQLDRVVQNFKPVSDHKHNIEYAEKKKAEGKKMRDDKD 191

Query: 187 ----------------------------LTYLKEILKEVCNYNLKNPHKNMWELKPEYRC 218
                                       + YLKEIL EVCNYNLKNPH+NMWELKPEYR 
Sbjct: 192 AVLDMLFAAFEKHQYYNIRDLVKITRQPIVYLKEILNEVCNYNLKNPHRNMWELKPEYRH 251

Query: 219 YKEEEKKEEA 228
           YKEEEK  E 
Sbjct: 252 YKEEEKSAET 261

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307203229|gb|EFN82384.1| General transcription factor IIF subunit 2 [Harpegnathos saltator]

 Score =  285 bits (730), Expect = 7e-75,   Method: Compositional matrix adjust.
 Identities = 145/251 (57%), Positives = 169/251 (67%), Gaps = 49/251 (19%)

Query: 28  LDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV-D 86
           LDL+ A RGVWLVKVPKY+ANKWEK PGNIE GKLKI +NPGQK  VSL LSEA + + +
Sbjct: 12  LDLSNAGRGVWLVKVPKYIANKWEKAPGNIEVGKLKITKNPGQKAEVSLRLSEAVLALKE 71

Query: 87  PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYA 146
             EE+IPK HRLDV  V  Q LGVFSH  P  + DAIVPE+EK+ +EG+IVQKLECRPYA
Sbjct: 72  SGEEEIPKQHRLDVTTVTTQILGVFSHVTPSTSSDAIVPETEKIFMEGRIVQKLECRPYA 131

Query: 147 DSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKH-------------------- 186
           D+CYMKLKL+SI +AS P RQV+ LD++VQN+KPVS+HKH                    
Sbjct: 132 DNCYMKLKLESIKRASVPQRQVQQLDRVVQNFKPVSDHKHNIEYAEKKKAEGKKMRDDKE 191

Query: 187 ----------------------------LTYLKEILKEVCNYNLKNPHKNMWELKPEYRC 218
                                       + YLKEIL EVCNYNLKNPH+NMWELKPEYR 
Sbjct: 192 AVLGMLFAAFERHQYYNIKDLVKITRQPIVYLKEILNEVCNYNLKNPHRNMWELKPEYRH 251

Query: 219 YKEEEKKEEAT 229
           YKE+EK  E+T
Sbjct: 252 YKEDEKVTEST 262

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170065599|ref|XP_001868006.1| transcription initiation factor IIF subunit beta [Culex quinquefasciatus] gi|167862525|gb|EDS25908.1| transcription initiation factor IIF subunit beta [Culex quinquefasciatus]

 Score =  279 bits (713), Expect = 8e-73,   Method: Compositional matrix adjust.
 Identities = 144/263 (54%), Positives = 174/263 (66%), Gaps = 56/263 (21%)

Query: 28  LDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCVDP 87
           LDL+ A RGVWLVKVPKY+ANKWEK PGNIE GKLKI +  GQK  VSL+LS+A + +DP
Sbjct: 19  LDLSNAGRGVWLVKVPKYIANKWEKAPGNIEVGKLKISKQVGQKAQVSLTLSDAVINIDP 78

Query: 88  NEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAI--VPESEKLMLEGKIVQKLECRPY 145
            EE IP+DHRLDV +V +QTLGVF+H +P     +    PESEKL +EG+IVQKLECRPY
Sbjct: 79  AEE-IPRDHRLDVSVVTKQTLGVFAHSVPASGAGSADPTPESEKLFMEGRIVQKLECRPY 137

Query: 146 ADSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKH------------------- 186
           AD+CYMK+KL+SI KASQP RQ+K L+KIVQ +KPVS+HKH                   
Sbjct: 138 ADNCYMKMKLESIRKASQPARQLKSLEKIVQTFKPVSDHKHNIEEKERKKAEGKKSRDDK 197

Query: 187 -----------------------------LTYLKEILKEVCNYNLKNPHKNMWELKPEYR 217
                                        ++YLKEILKEVC+YN+KNPHKNMWELK EYR
Sbjct: 198 NAVLDMLFNAFEKHQYYNIKDLVKITRQPISYLKEILKEVCDYNMKNPHKNMWELKKEYR 257

Query: 218 CYKEEEKKEE-----ATADDDDD 235
            YKE++KK+E       +D D D
Sbjct: 258 HYKEDDKKDEDGKEGGMSDSDSD 280

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312384124|gb|EFR28929.1| hypothetical protein AND_02541 [Anopheles darlingi]

 Score =  276 bits (707), Expect = 4e-72,   Method: Compositional matrix adjust.
 Identities = 146/260 (56%), Positives = 173/260 (66%), Gaps = 54/260 (20%)

Query: 28  LDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCVDP 87
           LDL+ A RGVWLVKVPKY+ANKWEK PGNIE GKLKI +  GQK  VSL+LS+A + +DP
Sbjct: 14  LDLSNAGRGVWLVKVPKYMANKWEKAPGNIEVGKLKIFKQSGQKTQVSLTLSDAVINIDP 73

Query: 88  NEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYAD 147
            EE IP+DHRLDV +V +QTLGVFSH +     D  VPE EK  +EG+IVQKLECRPYAD
Sbjct: 74  AEE-IPRDHRLDVSVVTKQTLGVFSHAVTTTRDDP-VPECEKQYMEGRIVQKLECRPYAD 131

Query: 148 SCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKH--------------------- 186
           +CYMK+KL+SI KASQP RQ+K L+KIV NYKPVS+HKH                     
Sbjct: 132 NCYMKMKLESIRKASQPARQIKSLEKIVHNYKPVSDHKHNIEDRERKKAEGKKSREDKNA 191

Query: 187 ---------------------------LTYLKEILKEVCNYNLKNPHKNMWELKPEYRCY 219
                                      ++YLKEILKEVC+YN+KNPHKNMWELK EYR Y
Sbjct: 192 VLDMLFNAFEKHQYYNIKDLVKLTRQPISYLKEILKEVCDYNMKNPHKNMWELKKEYRHY 251

Query: 220 KEEEKKE----EATADDDDD 235
           KE++KKE    +A +D D D
Sbjct: 252 KEDDKKEADAAKANSDSDSD 271

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157138343|ref|XP_001657254.1| hypothetical protein AaeL_AAEL013998 [Aedes aegypti] gi|108869504|gb|EAT33729.1| AAEL013998-PA [Aedes aegypti]

 Score =  275 bits (704), Expect = 9e-72,   Method: Compositional matrix adjust.
 Identities = 139/256 (54%), Positives = 169/256 (66%), Gaps = 49/256 (19%)

Query: 28  LDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCVDP 87
           LDL+ A RGVWLVKVPKY+ANKWEK PGNIE GKLKI +  GQK  VSL+LSEA + +DP
Sbjct: 14  LDLSNAGRGVWLVKVPKYIANKWEKAPGNIEVGKLKISKQVGQKAQVSLTLSEAVINIDP 73

Query: 88  NEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYAD 147
            EE IP++H+LDV +V +QTLGVFSH +P    +   PE EKL +EG+IVQ+LECRP  D
Sbjct: 74  GEE-IPREHKLDVSVVTKQTLGVFSHSVPSGTKEDGAPEGEKLFMEGRIVQRLECRPLGD 132

Query: 148 SCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKH--------------------- 186
           + YMK+KL+SI KASQP RQVK L+KIV N+KPVS+HKH                     
Sbjct: 133 NAYMKMKLESIRKASQPARQVKSLEKIVHNFKPVSDHKHNIEDKERKKAEGKKSRDDKNA 192

Query: 187 ---------------------------LTYLKEILKEVCNYNLKNPHKNMWELKPEYRCY 219
                                      ++YLKEILKEVC+YN+KNPHKNMWELK EYR Y
Sbjct: 193 VLDMLFNAFEKHQYYNIKDLVKITRQPISYLKEILKEVCDYNMKNPHKNMWELKKEYRHY 252

Query: 220 KEEEKKEEATADDDDD 235
           K+++KKEE+    D D
Sbjct: 253 KDDDKKEESKGMSDSD 268

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

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	235
FB|FBgn0010421	277	TfIIFbeta "Transcription facto	0.676	0.574	0.612	2.3e-64
ZFIN|ZDB-GENE-050417-374	256	gtf2f2b "general transcription	0.668	0.613	0.446	3.2e-39
UNIPROTKB|E1BXD0	262	GTF2F2 "Uncharacterized protei	0.693	0.622	0.418	3.1e-37
ZFIN|ZDB-GENE-040625-131	265	gtf2f2a "general transcription	0.710	0.630	0.413	1.2e-35
UNIPROTKB|P13984	249	GTF2F2 "General transcription	0.625	0.590	0.419	3.9e-35
UNIPROTKB|G3X7X9	257	LOC100850122 "Uncharacterized	0.685	0.626	0.348	3.4e-32
WB|WBGene00012694	263	Y39B6A.36 [Caenorhabditis eleg	0.689	0.615	0.360	2e-30
UNIPROTKB|Q63489	249	Gtf2f2 "RAP30" [Rattus norvegi	0.625	0.590	0.437	2.5e-26
UNIPROTKB|Q2T9L9	249	GTF2F2 "General transcription	0.625	0.590	0.431	4e-26
RGD|620772	249	Gtf2f2 "general transcription	0.625	0.590	0.431	8.4e-26

FB|FBgn0010421 TfIIFbeta "Transcription factor TFIIFbeta" [Drosophila melanogaster (taxid:7227)]

 Score = 515 (186.3 bits), Expect = 2.3e-64, Sum P(2) = 2.3e-64
 Identities = 101/165 (61%), Positives = 126/165 (76%)

Query:    27 NLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCVD 86
             +LDL+ A RGVWLVKVPKY+A KWEK P N++ GKL+I + PGQK  VSLSL+ A + +D
Sbjct:    15 DLDLSNAGRGVWLVKVPKYIAQKWEKAPTNMDVGKLRINKTPGQKAQVSLSLTPAVLALD 74

Query:    87 PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPD-----AIVPESEKLMLEGKIVQKLE 141
             P EEKIP +H LDV  V +QTLGVFSH  P    +     A  P++EKL +EG+IVQKLE
Sbjct:    75 P-EEKIPTEHILDVSQVTKQTLGVFSHMAPSDGKENSTTSAAQPDNEKLYMEGRIVQKLE 133

Query:   142 CRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNHKH 186
             CRP AD+CYMKLKL+SI KAS+P R+V+ +DKIVQN+KPV +H H
Sbjct:   134 CRPIADNCYMKLKLESIRKASEPQRRVQPIDKIVQNFKPVKDHAH 178

GO:0060261 "positive regulation of transcription initiation from RNA polymerase II promoter" evidence=IDA

GO:0032968 "positive regulation of transcription elongation from RNA polymerase II promoter" evidence=IDA

GO:0001096 "TFIIF-class transcription factor binding" evidence=IPI

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IDA

GO:0005634 "nucleus" evidence=NAS;IDA

GO:0005674 "transcription factor TFIIF complex" evidence=ISS;IDA

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

GO:0004003 "ATP-dependent DNA helicase activity" evidence=NAS

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=ISS

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

ZFIN|ZDB-GENE-050417-374 gtf2f2b "general transcription factor IIF, polypeptide 2b" [Danio rerio (taxid:7955)]

 Score = 316 (116.3 bits), Expect = 3.2e-39, Sum P(2) = 3.2e-39
 Identities = 80/179 (44%), Positives = 106/179 (59%)

Query:    27 NLDLTQASR--GVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMC 84
             ++DLT+A +  GVWLVKVPKY++ +W K  G  E GKLKI +  G K VVS +L+E    
Sbjct:     7 DVDLTRAKQNTGVWLVKVPKYLSQQWAKASGRGEVGKLKIGKAQG-KTVVSFNLNEELTV 65

Query:    85 VDPNEEKI-----PKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQK 139
             VD + EKI     P++H   +Q V  QTL VF+              S+K+ LEG +VQ+
Sbjct:    66 VDCSGEKISSVRSPREHPFTMQTVGGQTLAVFTE------------SSDKIALEGMVVQR 113

Query:   140 LECRPYADSCYMKLKLDSIIKASQPLRQVKHLDK-IVQNYKPVSNHKH-LTYLKEILKE 196
              ECRP     YMKLK   I ++++PLR  + L+K I  NYKPVSNH H L Y K   +E
Sbjct:   114 AECRPAVSESYMKLKKLQIEESTKPLRFSQRLEKAITTNYKPVSNHSHNLEYEKRKKEE 172

GO:0005634 "nucleus" evidence=IEA

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

GO:0005674 "transcription factor TFIIF complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

UNIPROTKB|E1BXD0 GTF2F2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 294 (108.6 bits), Expect = 3.1e-37, Sum P(2) = 3.1e-37
 Identities = 74/177 (41%), Positives = 104/177 (58%)

Query:    28 LDLT--QASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV 85
             LDLT  + + G+WLVKVPKY++ +W K  G  E GKL+I +N G+  V S +L+E    +
Sbjct:     7 LDLTGVKQNTGMWLVKVPKYLSQQWSKASGRGEVGKLRIAKNQGRTEV-SFTLNEELASI 65

Query:    86 D-----PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPES---EKLMLEGKIV 137
                   P     P++H   +Q V  QTL VF+       P+    ES   +KL LEG +V
Sbjct:    66 SDIGGKPAAVSAPREHPFLLQNVGGQTLTVFTESSTESQPEE-KSESGSYDKLSLEGIVV 124

Query:   138 QKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQ-NYKPVSNHKH-LTYLKE 192
             Q+ ECRP A   YMKLK   I ++S+P+R  + LDK V  NYKPV+NH++ + Y K+
Sbjct:   125 QRAECRPAASENYMKLKRFQIEESSKPVRLSQQLDKAVTTNYKPVANHQYNIEYEKK 181

GO:0005524 "ATP binding" evidence=IEA

GO:0005674 "transcription factor TFIIF complex" evidence=IEA

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

GO:0015630 "microtubule cytoskeleton" evidence=IEA

ZFIN|ZDB-GENE-040625-131 gtf2f2a "general transcription factor IIF, polypeptide 2a" [Danio rerio (taxid:7955)]

 Score = 282 (104.3 bits), Expect = 1.2e-35, Sum P(2) = 1.2e-35
 Identities = 76/184 (41%), Positives = 103/184 (55%)

Query:    28 LDLTQASR--GVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV 85
             +DLT A +  GVWLVKVPKY++ +W K  G  E GKL+I +N G K  VS +L+E    +
Sbjct:     7 VDLTGAKQNAGVWLVKVPKYLSQQWTKATGRGEVGKLRISKNQG-KAEVSFTLNEELTTI 65

Query:    86 DPNEEKI-----PKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPES------EKLMLEG 134
             +   EK      P++H   +Q V  QTL VF+      + DA    S      +K+ L G
Sbjct:    66 ETIGEKTSMVRAPREHPFTLQTVGGQTLAVFTENSSGQS-DAEASGSGTGSGPDKIALGG 124

Query:   135 KIVQKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQ-NYKPVSNHKH-LTYLKE 192
              +VQ+ ECRP     YM+LK   I + S+PLR  + LDK V  NYKPV+NH + L Y K 
Sbjct:   125 VVVQRAECRPAVSESYMRLKKLQIEELSKPLRFSQQLDKAVTTNYKPVANHAYNLDYEKR 184

Query:   193 ILKE 196
               +E
Sbjct:   185 KKEE 188

GO:0005634 "nucleus" evidence=IEA

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

GO:0005674 "transcription factor TFIIF complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

UNIPROTKB|P13984 GTF2F2 "General transcription factor IIF subunit 2" [Homo sapiens (taxid:9606)]

 Score = 280 (103.6 bits), Expect = 3.9e-35, Sum P(2) = 3.9e-35
 Identities = 70/167 (41%), Positives = 97/167 (58%)

Query:    28 LDLTQASR--GVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV 85
             LDLT A +  GVWLVKVPKY++ +W K  G  E GKL+I +  G+  V S +L+E    +
Sbjct:     7 LDLTGAKQNTGVWLVKVPKYLSQQWAKASGRGEVGKLRIAKTQGRTEV-SFTLNEDLANI 65

Query:    86 D-----PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKL 140
                   P     P++H   +Q V  QTL VF+              S+KL LEG +VQ+ 
Sbjct:    66 HDIGGKPASVSAPREHPFVLQSVGGQTLTVFTE-----------SSSDKLSLEGIVVQRA 114

Query:   141 ECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQ-NYKPVSNHKH 186
             ECRP A   YM+LK   I ++S+P+R  + LDK+V  NYKPV+NH++
Sbjct:   115 ECRPAASENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQY 161

GO:0005674 "transcription factor TFIIF complex" evidence=IEA

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0000398 "mRNA splicing, via spliceosome" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

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

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

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

GO:0006370 "7-methylguanosine mRNA capping" evidence=TAS

GO:0008380 "RNA splicing" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0050434 "positive regulation of viral transcription" evidence=TAS

GO:0005634 "nucleus" evidence=IDA

GO:0015630 "microtubule cytoskeleton" evidence=IDA

UNIPROTKB|G3X7X9 LOC100850122 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 244 (91.0 bits), Expect = 3.4e-32, Sum P(2) = 3.4e-32
 Identities = 63/181 (34%), Positives = 100/181 (55%)

Query:    19 KITKQPI-VNLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLS 77
             ++  Q I +NL+  + ++ +WLVKVPKY++ +W + PG+ E GKLKI  N G K  +S +
Sbjct:     7 RLKPQSIPLNLEGIRQNQRMWLVKVPKYLSQQWSEAPGSGEVGKLKIATNQG-KSEISFT 65

Query:    78 LSEATMCV-----DPNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLML 132
             L++    +      P     P +H+  +Q    Q L V + + P           ++  L
Sbjct:    66 LNKELTDIRGTDGQPAPVHAPTEHQFLLQTDRGQVLTVLTEHEP-----------DQFSL 114

Query:   133 EGKIVQKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQ-NYKPVSNHKH-LTYL 190
             +G +V + ECRP     YM+LK   I  AS+P R V+ L+K+V  NYKPV+NH++ + Y 
Sbjct:   115 QGTVVHRGECRPAPSENYMRLKRMQIEGASKPARTVQKLEKVVTTNYKPVANHQYNIEYE 174

Query:   191 K 191
             K
Sbjct:   175 K 175

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

GO:0005674 "transcription factor TFIIF complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

WB|WBGene00012694 Y39B6A.36 [Caenorhabditis elegans (taxid:6239)]

 Score = 250 (93.1 bits), Expect = 2.0e-30, Sum P(2) = 2.0e-30
 Identities = 62/172 (36%), Positives = 94/172 (54%)

Query:    21 TKQPIVNLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKI---VRNPGQKPVVSLS 77
             TK+   ++D   A R +WLVKVP+Y++  W+   GN+  GKL+I   V     K ++   
Sbjct:     4 TKRYSNDVDCELAKRSIWLVKVPRYLSELWDANEGNV-VGKLQIGAQVELHTAKGLIHPK 62

Query:    78 LSEAT-----MCVDPNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLML 132
               E T         P   +IP ++   +  V  QT+ V S     +  DA + ++ KL +
Sbjct:    63 PKEPTEGSSSTVTQPEASEIPTEYSFILHDVKSQTMSVLSEDKQGLGADAPI-KTGKLAI 121

Query:   133 EGKIVQKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQNYKPVSNH 184
             EG+I++K ECRP A S YMK+KL  I+K +QP + VK ++K    +KPVS H
Sbjct:   122 EGRIIKKAECRPPATSKYMKMKLAHIVKNTQPKKTVKMIEKAAVKFKPVSVH 173

GO:0005524 "ATP binding" evidence=IEA

GO:0005674 "transcription factor TFIIF complex" evidence=IEA

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0002009 "morphogenesis of an epithelium" evidence=IMP

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0006898 "receptor-mediated endocytosis" evidence=IMP

UNIPROTKB|Q63489 Gtf2f2 "RAP30" [Rattus norvegicus (taxid:10116)]

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 73/167 (43%), Positives = 99/167 (59%)

Query:    28 LDLTQASR--GVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV 85
             LDLT A +  GVWLVKVPKY++ +W K PG  E GKL+I +N G+  V S +L+E    +
Sbjct:     7 LDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRTEV-SFTLNEDLANI 65

Query:    86 D-----PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKL 140
                   P     P++H   +Q V  QTL VF+              S+KL LEG +VQ+ 
Sbjct:    66 HDIGGKPASVSAPREHPFVLQSVGGQTLTVFTE-----------SSSDKLSLEGIVVQRA 114

Query:   141 ECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQ-NYKPVSNHKH 186
             ECRP A   YMKLK   I ++S+P+R  + LDK+V  NYKPV+NH++
Sbjct:   115 ECRPAASENYMKLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQY 161

GO:0005674 "transcription factor TFIIF complex" evidence=IEA

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

UNIPROTKB|Q2T9L9 GTF2F2 "General transcription factor IIF subunit 2" [Bos taurus (taxid:9913)]

 Score = 295 (108.9 bits), Expect = 4.0e-26, P = 4.0e-26
 Identities = 72/167 (43%), Positives = 100/167 (59%)

Query:    28 LDLTQASR--GVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV 85
             LDLT A +  GVWLVKVPKY++ +W K PG  E GKL+I +N G+  V S +L+E    +
Sbjct:     7 LDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRTEV-SFTLNEDLANI 65

Query:    86 D-----PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKL 140
                   P     P++H   +Q V  QTL VF+              S+KL LEG +VQ+ 
Sbjct:    66 HDIGGKPASVSAPREHPFVLQSVGGQTLTVFTE-----------SSSDKLSLEGIVVQRA 114

Query:   141 ECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQ-NYKPVSNHKH 186
             ECRP A+  YM+LK   I ++S+P+R  + LDK+V  NYKPV+NH++
Sbjct:   115 ECRPAANENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQY 161

GO:0015630 "microtubule cytoskeleton" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

GO:0005674 "transcription factor TFIIF complex" evidence=IEA

RGD|620772 Gtf2f2 "general transcription factor IIF, polypeptide 2" [Rattus norvegicus (taxid:10116)]

 Score = 292 (107.8 bits), Expect = 8.4e-26, P = 8.4e-26
 Identities = 72/167 (43%), Positives = 98/167 (58%)

Query:    28 LDLTQASR--GVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV 85
             LDLT A +  GVWLVKVPKY++ +W K PG  E GKL+I +N G+  V S +L+E    +
Sbjct:     7 LDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRTEV-SFTLNEDLANI 65

Query:    86 D-----PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKL 140
                   P     P++H   +Q V  QTL VF+              S+KL LEG +VQ+ 
Sbjct:    66 HDIGGKPASVSAPREHPFVLQSVGGQTLTVFTE-----------SSSDKLSLEGIVVQRA 114

Query:   141 ECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQ-NYKPVSNHKH 186
             ECRP A   YMKLK   I ++S+P+R  +  DK+V  NYKPV+NH++
Sbjct:   115 ECRPAASENYMKLKRLQIEESSKPVRLSQQADKVVTTNYKPVANHQY 161

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISO

GO:0005674 "transcription factor TFIIF complex" evidence=IEA

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

GO:0015630 "microtubule cytoskeleton" evidence=IEA;ISO

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IDA

---

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)
Q01750	T2FB_RAT	3, ., 6, ., 4, ., 1, 2	0.3803	0.7957	0.7510	yes	N/A
Q8R0A0	T2FB_MOUSE	3, ., 6, ., 4, ., 1, 2	0.3803	0.7957	0.7510	yes	N/A
Q2T9L9	T2FB_BOVIN	3, ., 6, ., 4, ., 1, 2	0.3764	0.7957	0.7510	yes	N/A
P41900	T2FB_DROME	3, ., 6, ., 4, ., 1, 2	0.5162	0.8170	0.6931	yes	N/A
P13984	T2FB_HUMAN	3, ., 6, ., 4, ., 1, 2	0.3725	0.7957	0.7510	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.6.4.12	0.914
3rd Layer	3.6.4	0.921

---

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	235
pfam02270	259	pfam02270, TFIIF_beta, Transcription initiation fa	1e-54
pfam02270	259	pfam02270, TFIIF_beta, Transcription initiation fa	5e-08
COG5090	297	COG5090, TFG2, Transcription initiation factor IIF	1e-07

>gnl|CDD|216954 pfam02270, TFIIF_beta, Transcription initiation factor IIF, beta subunit

 Score =  175 bits (446), Expect = 1e-54
 Identities = 94/262 (35%), Positives = 122/262 (46%), Gaps = 75/262 (28%)

Query: 27  NLDLTQASRGVWLVKVPKYVANKWEKVPGN--IEAGKLKIVRNPGQKPVVSLSLSEATMC 84
           +LDL+ A + VWLVKVPKY++ KW K PG+   E GKL+I +N G K  VSL L+E    
Sbjct: 3   DLDLSNAKQSVWLVKVPKYLSEKWSKAPGDSGGEVGKLRIKKNNGGKAQVSLLLNEE--- 59

Query: 85  VDPNEEKIPKDHRLDVQIVNRQTLGVFSH-----------------YIPPVNPDAIVPES 127
                  IPK++ LD+Q VN Q   VF+                    P +    +    
Sbjct: 60  --LENYDIPKEYDLDMQNVNVQNTYVFTESNLGKYKQKSKEVAGMPEQPQLAYPYVKTIP 117

Query: 128 EKLMLEGKIVQKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIV-QNYKPVSNHKH 186
           +K  LEG++V + ECRP  +  YM+LK   I+KAS+P R V+ LDKIV Q+YKP SNH +
Sbjct: 118 KKTALEGRVVHECECRPVENEEYMRLKKKRILKASKPKRTVQVLDKIVTQSYKPPSNHSN 177

Query: 187 --------------------------------------------------LTYLKEILKE 196
                                                               YLKEIL E
Sbjct: 178 NSEYFIKKKKKSEGKRARMPKNELLDLLFKAFEKHQYWSLKDLKERTRQPEAYLKEILDE 237

Query: 197 VCNYNLKNPHKNMWELKPEYRC 218
           +   N K P+ N WELKPEYR 
Sbjct: 238 IAVLNKKGPYANTWELKPEYRH 259

Accurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIF (TFIIF) is a tetramer of two beta subunits associate with two alpha subunits which interacts directly with RNA polymerase II. The beta subunit of TFIIF is required for recruitment of RNA polymerase II onto the promoter. Length = 259

>gnl|CDD|216954 pfam02270, TFIIF_beta, Transcription initiation factor IIF, beta subunit

 Score = 51.6 bits (124), Expect = 5e-08
 Identities = 24/51 (47%), Positives = 30/51 (58%), Gaps = 2/51 (3%)

Query: 1   MLFAAFEKHQYYNIKDLVKITKQPIVNLDLTQASRGVWLVKVPKYVANKWE 51
           +LF AFEKHQY+++KDL + T+QP   L        V L K   Y AN WE
Sbjct: 204 LLFKAFEKHQYWSLKDLKERTRQPEAYLKEILDEIAV-LNKKGPY-ANTWE 252

Accurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIF (TFIIF) is a tetramer of two beta subunits associate with two alpha subunits which interacts directly with RNA polymerase II. The beta subunit of TFIIF is required for recruitment of RNA polymerase II onto the promoter. Length = 259

>gnl|CDD|227421 COG5090, TFG2, Transcription initiation factor IIF, small subunit (RAP30) [Transcription]

 Score = 51.1 bits (122), Expect = 1e-07
 Identities = 50/264 (18%), Positives = 85/264 (32%), Gaps = 68/264 (25%)

Query: 26  VNLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV 85
            +LDL      VWLVKVP ++A KW           L   R      V+SL LS      
Sbjct: 20  ADLDLNNRHTKVWLVKVPLFLAEKWLSRE-AEIGELLGTKRTSTDPAVISLLLSN----- 73

Query: 86  DPNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPY 145
           +      P     D++I  +    V ++Y+   +  +   ++    + G +  +    P 
Sbjct: 74  EFCNGGFP--SSYDLKIKPKD---VNNYYVFRESETSTHEKNTA--VVGTVNHECYVTPE 126

Query: 146 ADSCYMKLKLDSIIKASQPLRQVKHLDKIVQ---------------NYKPVSNHKHLTYL 190
            +  Y++ K D   K+      V+ +D +                  +      K L   
Sbjct: 127 VNDEYLRYKQDRGFKSDSKKSDVQVIDYLKGGKRGEKFGSLRSSTLEFLARKRKKMLMDK 186

Query: 191 KEI------------------------------------LKE----VCNYNLKNPHKNMW 210
           K                                      LKE    +   N K P+ N +
Sbjct: 187 KRERLPKNEVLDMLFKAFEKYPYWTLKGLAEFCGQPEAFLKEILDDIAVLNKKGPYANKY 246

Query: 211 ELKPEYRCYKEEEKKEEATADDDD 234
           EL+PEY+   +E ++   +    D
Sbjct: 247 ELRPEYKQTMDELRQASQSESSSD 270

Length = 297

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	235
PF02270	275	TFIIF_beta: Transcription initiation factor IIF, b	100.0
KOG2905|consensus	254		100.0
COG5090	297	TFG2 Transcription initiation factor IIF, small su	100.0
KOG2905|consensus	254		98.59
COG5090	297	TFG2 Transcription initiation factor IIF, small su	93.37
PF05132	131	RNA_pol_Rpc4: RNA polymerase III RPC4; InterPro: I	91.45
KOG3122|consensus	310		86.22

>PF02270 TFIIF_beta: Transcription initiation factor IIF, beta subunit; InterPro: IPR003196 Accurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II

Probab=100.00  E-value=1.3e-54  Score=389.42  Aligned_cols=190  Identities=45%  Similarity=0.738  Sum_probs=107.5

Q ss_pred             cccccccccccceeeccccHHHHhhhhCCCCC--ccceeEEEecCCCCCceEEEEeCCccccCCCCCCCCCCCceeeeee
Q psy15249         25 IVNLDLTQASRGVWLVKVPKYVANKWEKVPGN--IEAGKLKIVRNPGQKPVVSLSLSEATMCVDPNEEKIPKDHRLDVQI  102 (235)
Q Consensus        25 ~~~L~~~~~~~~vWLVKVPk~L~e~W~~~~~~--~~lG~lri~~~~g~~~~v~l~L~~~~~~~~~~~~~iPkey~L~~~~  102 (235)
                      |++||+++++++|||||||+||+++|++++++  ++||+|||+++++++++|+|+|++.+.++    +.||++|+|+|++
T Consensus         1 ~~~LD~s~a~~~vWLvKVPk~l~e~W~~~~~~~~~~iG~lri~~~~~~~~~v~l~L~~~~~~~----~~iPkey~L~~~~   76 (275)
T PF02270_consen    1 DGDLDTSKADRSVWLVKVPKFLSEKWSKAPDDDEIEIGKLRISKDPNGKPKVSLTLNDSLANH----GNIPKEYDLDMSK   76 (275)
T ss_dssp             -TBEE-HHHHTEEEEEEEEHHHHHHHTTSBTT--TEEEEEEEEEE-TTEEEEEEEE-HHHHT-----T-S--EEEEEEE-
T ss_pred             Ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc----ccccccccccccc
Confidence            47899999999999999999999999999875  99999999998555889999999987654    4899999999999


Q ss_pred             eCCeeEEEeeecCCCCCCCC--------------------------------CCCCccceeEEEEEeeeEEEeecCCHHH
Q psy15249        103 VNRQTLGVFSHYIPPVNPDA--------------------------------IVPESEKLMLEGKIVQKLECRPYADSCY  150 (235)
Q Consensus       103 ~~~~n~~VFsE~~~p~~~~~--------------------------------~k~ip~~t~leG~V~~e~~~~P~~~~~Y  150 (235)
                      ..++|||||||.++|++++.                                .+++|++++|+|+|.|+|+|+|+.+++|
T Consensus        77 ~~~~n~~VFse~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~G~I~~~~~~~P~~~~~Y  156 (275)
T PF02270_consen   77 DNVQNMYVFSESDQPGFKAKNKERAGAPNAGIPASLLREKKKKDRKRKYQPYVKTIPKKTALEGRIVHECDCRPVLNDEY  156 (275)
T ss_dssp             -TTEEEEEEEEETT----------------------------------------ETT--EEEEEEEEEEEEE--------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccCCCCceEEEEEEEEEEEeEECCCHHH
Confidence            98999999999999876541                                1688999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCCCcceEEeecc-cccccccCC-------------------------------------Cch------
Q psy15249        151 MKLKLDSIIKASQPLRQVKHLDKI-VQNYKPVSN-------------------------------------HKH------  186 (235)
Q Consensus       151 ~~l~r~r~~~a~~p~r~vq~ld~~-~~~~kP~~~-------------------------------------~~~------  186 (235)
                      ++++++|+.++++|+|++++|++. .+.++|++.                                     |+|      
T Consensus       157 ~~~~~~r~~~a~~~kr~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~K~~R~~~~eL~d~lF~~Fe~~~ywslK~L  236 (275)
T PF02270_consen  157 RRLKRERIEKANKPKRTVQQIDEDVSQSYKPVSFHSANSKFFIKKKKKQEEKRARMDKNELLDLLFKLFEKHQYWSLKDL  236 (275)
T ss_dssp             -----------------------------------------------------THHHHHHHHHHHHHHHHH-S-B-HHHH
T ss_pred             HHHHHHHHHHhcCCCCeeEEeccccccCCCCcccccccchhcccccccccccceeCCHHHHHHHHHHHHHhCCCCCHHHH
Confidence            999999999999999999999984 334444110                                     233      


Q ss_pred             -------hHHHHHHHHHHhhhhccCCCCcccccChhhhc
Q psy15249        187 -------LTYLKEILKEVCNYNLKNPHKNMWELKPEYRC  218 (235)
Q Consensus       187 -------e~yLKEiL~eIa~lnk~Gp~~~~weLKPEYk~  218 (235)
                             ++||||||++||+||++|||+|||+||||||+
T Consensus       237 ~~~t~QP~~yLKeiL~eIa~~~k~g~~~~~w~LKpeyk~  275 (275)
T PF02270_consen  237 RQRTQQPEAYLKEILEEIAVLNKRGPHKNMWELKPEYKH  275 (275)
T ss_dssp             HHH--S-HHHHHHHHHHH--EE--TT---EE----SS--
T ss_pred             HHHHCCCHHHHHHHHHHHHHHhccCCcCCcEecchHHcC
Confidence                   99999999999999999999999999999996

Transcription initiation factor IIF (TFIIF) is a tetramer of two beta subunits associate with two alpha subunits which interacts directly with RNA polymerase II. The beta subunit of TFIIF is required for recruitment of RNA polymerase II onto the promoter. ; GO: 0005524 ATP binding, 0006367 transcription initiation from RNA polymerase II promoter, 0005674 transcription factor TFIIF complex; PDB: 1F3U_C 2BBY_A 1BBY_A.

>KOG2905|consensus

Probab=100.00  E-value=2.6e-53  Score=368.17  Aligned_cols=192  Identities=44%  Similarity=0.692  Sum_probs=172.0

Q ss_pred             CCcccccccccccceeeccccHHHHhhhhCCCCCccceeEEEecCCCCCceEEEEeCCccccCCCC---CCCCCCCceee
Q psy15249         23 QPIVNLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCVDPN---EEKIPKDHRLD   99 (235)
Q Consensus        23 ~~~~~L~~~~~~~~vWLVKVPk~L~e~W~~~~~~~~lG~lri~~~~g~~~~v~l~L~~~~~~~~~~---~~~iPkey~L~   99 (235)
                      ..+++|+..+.+.+|||||||+||+++|.+++...++|+|+|.+.++ .++|+|.|+...++....   .+.+|..|.++
T Consensus         6 ~~~~dl~l~~~~~~vWLvKvP~fLa~kw~~~~~~~e~g~l~i~k~~~-daki~l~L~e~~p~~~~~~a~~g~~p~~~~~~   84 (254)
T KOG2905|consen    6 TESLDLDLENSGRGVWLVKVPKFLAEKWRKIPNSHESGKLRINKTPS-DAKIVLLLNEAIPEKQEREADVGKFPQQYKLN   84 (254)
T ss_pred             hhhhhhccccccceEEEEeccHHHHHHHHhcccccccccccccCCCC-cceEEEEeccccccchhhhhhcccCchhhhhc
Confidence            35688899999999999999999999999999888999999998765 479999999666553322   67899999999


Q ss_pred             eeeeCCeeEEEeeecCCCCCCCCCCCCccceeEEEEEeeeEEEeecCCHHHHHHHHHHHHHHcCCCcceEEeecccc-cc
Q psy15249        100 VQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQ-NY  178 (235)
Q Consensus       100 ~~~~~~~n~~VFsE~~~p~~~~~~k~ip~~t~leG~V~~e~~~~P~~~~~Y~~l~r~r~~~a~~p~r~vq~ld~~~~-~~  178 (235)
                      +... ..||+|||+.+.          |+++++||+|+|+|+|+|+.|++|+++||+|+.+|+.|+|+||+||++++ +|
T Consensus        85 ~~~~-~~~~~~~sd~~~----------~~k~a~eG~V~~e~~~~P~~ne~Y~Rl~r~r~~k~~~k~r~vQ~iD~~~g~~~  153 (254)
T KOG2905|consen   85 MKRR-FFNMFVESDSSG----------PKKTAVEGTVVHECDVRPSANEEYMRLKRERIVKASKKKRQVQVIDKVVGVHM  153 (254)
T ss_pred             cCcc-ccceeeeecCCC----------CccceeeeeeeeeeecccccCHHHHHHHHHHHHHhcCcccccccchhhccccc
Confidence            9766 679999999886          58999999999999999999999999999999999999999999999988 79


Q ss_pred             cccCCCc---------------------------------------h-------------hHHHHHHHHHHhhhhccCCC
Q psy15249        179 KPVSNHK---------------------------------------H-------------LTYLKEILKEVCNYNLKNPH  206 (235)
Q Consensus       179 kP~~~~~---------------------------------------~-------------e~yLKEiL~eIa~lnk~Gp~  206 (235)
                      +|+++|.                                       |             ++||||||++||+||++|||
T Consensus       154 ~p~~~~~~~~~~~~~~rkK~k~e~Kr~R~dk~evld~lFk~FEk~~ywtlK~Lv~~t~QP~~fLKEiL~~icv~NkKg~~  233 (254)
T KOG2905|consen  154 KPVPGHLRSSSNIAYERKKAKEEGKRTRRDKNEVLDMLFKAFEKYQYWTLKDLVEITKQPEAFLKEILKDICVLNKKGPY  233 (254)
T ss_pred             ccCCCcccccchhHHHHHhhhhccccccccHHHHHHHHHHHhhcCccccHHHHHHHhcCHHHHHHHHHHHHHHHhccCcc
Confidence            9866432                                       1             99999999999999999999


Q ss_pred             CcccccChhhhccchhhHhh
Q psy15249        207 KNMWELKPEYRCYKEEEKKE  226 (235)
Q Consensus       207 ~~~weLKPEYk~~~~~e~~~  226 (235)
                      +|+||||||||+|.++|+++
T Consensus       234 k~tyeLKPEYK~~~~ee~~~  253 (254)
T KOG2905|consen  234 KNTYELKPEYKKYKEEEKKE  253 (254)
T ss_pred             cCceecCHHHhhhhhhhhcC
Confidence            99999999999999999875

>COG5090 TFG2 Transcription initiation factor IIF, small subunit (RAP30) [Transcription]

Probab=100.00  E-value=6.7e-43  Score=302.27  Aligned_cols=187  Identities=25%  Similarity=0.375  Sum_probs=162.2

Q ss_pred             cccccccccccceeeccccHHHHhhhhCCCC--CccceeEEEecCCCCCceEEEEeCCccccCCCCCCCCCCCceeeeee
Q psy15249         25 IVNLDLTQASRGVWLVKVPKYVANKWEKVPG--NIEAGKLKIVRNPGQKPVVSLSLSEATMCVDPNEEKIPKDHRLDVQI  102 (235)
Q Consensus        25 ~~~L~~~~~~~~vWLVKVPk~L~e~W~~~~~--~~~lG~lri~~~~g~~~~v~l~L~~~~~~~~~~~~~iPkey~L~~~~  102 (235)
                      +.+||..+.+..|||||||.||+++|.+.+.  +..+|++|+.++   ++.|+|.|+....     ++++|++|+|.+.+
T Consensus        19 ~~dLdl~~~~~kVWLvkvP~FLaekw~sr~~~~g~~lg~~r~~~d---~a~isLlL~ne~~-----n~~~P~~ydl~i~~   90 (297)
T COG5090          19 DADLDLNNRHTKVWLVKVPLFLAEKWLSREAEIGELLGTKRTSTD---PAVISLLLSNEFC-----NGGFPSSYDLKIKP   90 (297)
T ss_pred             cccccccccCceEEEEeccHHHHHHHhcchhhhhhhhceeeecCC---cceEEEEeccCCc-----cCCCCcceeeeecc
Confidence            4688888899999999999999999998774  668999999876   4599999976543     46899999999999


Q ss_pred             eCCeeEEEeeecCCCCCCCCCCCCccceeEEEEEeeeEEEeecCCHHHHHHHHHHHHHHcCCCcceEEeecccc-cc---
Q psy15249        103 VNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQ-NY---  178 (235)
Q Consensus       103 ~~~~n~~VFsE~~~p~~~~~~k~ip~~t~leG~V~~e~~~~P~~~~~Y~~l~r~r~~~a~~p~r~vq~ld~~~~-~~---  178 (235)
                      ..+.|.|||.|..+       .++++.|+|+|+|.|||.+.|..|++|+++++.|..++..|++.||+||...+ ..   
T Consensus        91 k~v~n~yVfre~et-------~t~~k~tavvGtV~hEC~V~P~vNd~Y~r~~q~r~~~~~~~K~~vq~iD~~~g~~~~~~  163 (297)
T COG5090          91 KDVNNYYVFRESET-------STHEKNTAVVGTVNHECYVTPEVNDEYLRYKQDRGFKSDSKKSDVQVIDYLKGGKRGEK  163 (297)
T ss_pred             ccccceEEEecccc-------cccccccceeeeeccceeecccccHHHHHHHHHhhhhhcCccccceeeecccCceeccC
Confidence            98999999988776       57889999999999999999999999999999999999999999999996443 11   


Q ss_pred             ---------------ccc-----------------------CCCch-------------hHHHHHHHHHHhhhhccCCCC
Q psy15249        179 ---------------KPV-----------------------SNHKH-------------LTYLKEILKEVCNYNLKNPHK  207 (235)
Q Consensus       179 ---------------kP~-----------------------~~~~~-------------e~yLKEiL~eIa~lnk~Gp~~  207 (235)
                                     +|.                       .+++|             ++||||||++||+|||+|||+
T Consensus       164 ~~s~Rs~~~~fl~~~r~k~~~~~K~~RlpknEvlD~lFK~Fe~Y~yWtlKgL~e~~~QPea~lkEild~iavLnKkgpya  243 (297)
T COG5090         164 FGSLRSSTLEFLARKRKKMLMDKKRERLPKNEVLDMLFKAFEKYPYWTLKGLAEFCGQPEAFLKEILDDIAVLNKKGPYA  243 (297)
T ss_pred             ccccccchHHHHHhcchhhhcchhhcccchhHHHHHHHHHhhcCCchhhhhHHHHhcChHHHHHHHHHHHHhhhccCccc
Confidence                           111                       11233             999999999999999999999


Q ss_pred             cccccChhhhccchhhHhh
Q psy15249        208 NMWELKPEYRCYKEEEKKE  226 (235)
Q Consensus       208 ~~weLKPEYk~~~~~e~~~  226 (235)
                      ++|+|+||||...++++..
T Consensus       244 ~kY~LrPEYK~~~de~rqa  262 (297)
T COG5090         244 NKYELRPEYKQTMDELRQA  262 (297)
T ss_pred             ceeecCHHHHhHHHHHHHh
Confidence            9999999999999887754

>KOG2905|consensus

Probab=98.59  E-value=3.9e-09  Score=92.79  Aligned_cols=52  Identities=48%  Similarity=0.592  Sum_probs=47.4

Q ss_pred             ChhHhhhhhcccchhhhhhhhcCCcccccccccccceeeccccHHHHhhhhCCC
Q psy15249          1 MLFAAFEKHQYYNIKDLVKITKQPIVNLDLTQASRGVWLVKVPKYVANKWEKVP   54 (235)
Q Consensus         1 ~~~~~f~~~~y~~~~~~~~~~~~~~~~L~~~~~~~~vWLVKVPk~L~e~W~~~~   54 (235)
                      |||+||||||||+||||+++|.||..+|.....+.+|++.|=|  ....|+--+
T Consensus       190 ~lFk~FEk~~ywtlK~Lv~~t~QP~~fLKEiL~~icv~NkKg~--~k~tyeLKP  241 (254)
T KOG2905|consen  190 MLFKAFEKYQYWTLKDLVEITKQPEAFLKEILKDICVLNKKGP--YKNTYELKP  241 (254)
T ss_pred             HHHHHhhcCccccHHHHHHHhcCHHHHHHHHHHHHHHHhccCc--ccCceecCH
Confidence            6999999999999999999999999999999999999999988  677786544

>COG5090 TFG2 Transcription initiation factor IIF, small subunit (RAP30) [Transcription]

Probab=93.37  E-value=0.016  Score=51.51  Aligned_cols=49  Identities=41%  Similarity=0.516  Sum_probs=41.4

Q ss_pred             ChhHhhhhhcccchhhhhhhhcCCcccccccccccceeeccccHHHHhhhh
Q psy15249          1 MLFAAFEKHQYYNIKDLVKITKQPIVNLDLTQASRGVWLVKVPKYVANKWE   51 (235)
Q Consensus         1 ~~~~~f~~~~y~~~~~~~~~~~~~~~~L~~~~~~~~vWLVKVPk~L~e~W~   51 (235)
                      |||++||+--|++||+|.+...||..+|......+.+-+-|=|  ++...+
T Consensus       199 ~lFK~Fe~Y~yWtlKgL~e~~~QPea~lkEild~iavLnKkgp--ya~kY~  247 (297)
T COG5090         199 MLFKAFEKYPYWTLKGLAEFCGQPEAFLKEILDDIAVLNKKGP--YANKYE  247 (297)
T ss_pred             HHHHHhhcCCchhhhhHHHHhcChHHHHHHHHHHHHhhhccCc--ccceee
Confidence            7999999999999999999999999999888877777777766  444443

>PF05132 RNA_pol_Rpc4: RNA polymerase III RPC4; InterPro: IPR007811 This family comprises a specific subunit for Pol III, the tRNA specific polymerase

Probab=91.45  E-value=0.55  Score=37.78  Aligned_cols=64  Identities=17%  Similarity=0.223  Sum_probs=39.9

Q ss_pred             CccceeEEEecCCCCCceEEEEeCCccccCCCCCCCCCCCceeeeeeeCCeeEEEeeec-CCCCCCCCCCCCccceeEEE
Q psy15249         56 NIEAGKLKIVRNPGQKPVVSLSLSEATMCVDPNEEKIPKDHRLDVQIVNRQTLGVFSHY-IPPVNPDAIVPESEKLMLEG  134 (235)
Q Consensus        56 ~~~lG~lri~~~~g~~~~v~l~L~~~~~~~~~~~~~iPkey~L~~~~~~~~n~~VFsE~-~~p~~~~~~k~ip~~t~leG  134 (235)
                      ++.||+|+|.+. |   +|+|.|-+-.-...   .+.+-.|        .|.+.+.... ..           +.....|
T Consensus        66 ~G~iGkL~V~kS-G---kv~l~iG~~~~dV~---~G~~~~F--------lQevv~i~~~~~~-----------~~~~~LG  119 (131)
T PF05132_consen   66 EGQIGKLRVHKS-G---KVTLKIGGVVFDVS---PGTQCSF--------LQEVVAIDEEEEE-----------GECYFLG  119 (131)
T ss_pred             CCeeEEEEEEeC-C---cEEEEECCEEEEec---CCCCCCc--------hheEEEeeccCCC-----------CeEEEec
Confidence            569999999983 5   78888874221110   1222221        2333333331 23           6889999


Q ss_pred             EEeeeEEEeec
Q psy15249        135 KIVQKLECRPY  145 (235)
Q Consensus       135 ~V~~e~~~~P~  145 (235)
                      .|.+++.|.|.
T Consensus       120 ~v~~k~v~tPd  130 (131)
T PF05132_consen  120 QVSGKFVVTPD  130 (131)
T ss_pred             cccceEEEccC
Confidence            99999999994

; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006383 transcription from RNA polymerase III promoter, 0005666 DNA-directed RNA polymerase III complex

>KOG3122|consensus

Probab=86.22  E-value=0.87  Score=42.04  Aligned_cols=64  Identities=23%  Similarity=0.264  Sum_probs=41.6

Q ss_pred             CccceeEEEecCCCCCceEEEEeCCccccCCCCCCCCCCCceeeeeeeC--CeeEEEeeecCCCCCCCCCCCCccceeEE
Q psy15249         56 NIEAGKLKIVRNPGQKPVVSLSLSEATMCVDPNEEKIPKDHRLDVQIVN--RQTLGVFSHYIPPVNPDAIVPESEKLMLE  133 (235)
Q Consensus        56 ~~~lG~lri~~~~g~~~~v~l~L~~~~~~~~~~~~~iPkey~L~~~~~~--~~n~~VFsE~~~p~~~~~~k~ip~~t~le  133 (235)
                      +++||+|+|++ +|   +|+|.|-+-+             |++.|....  -|-+.+.+-.+.         ..+...+.
T Consensus       244 eGqvGkllV~K-SG---rVkLklG~V~-------------fDV~~G~~~~FLQEl~sV~l~d~---------rs~nm~~L  297 (310)
T KOG3122|consen  244 EGQVGKLLVYK-SG---RVKLKLGDVL-------------FDVSMGLDCSFLQELMSVGLGDS---------RSGNMTLL  297 (310)
T ss_pred             cCcceeEEEEe-cC---ceEEEecCEE-------------EEeccCchhHhhhhhheeecccc---------cCCceEEe
Confidence            67999999998 35   7888877521             333332221  133333433321         23899999


Q ss_pred             EEEeeeEEEeec
Q psy15249        134 GKIVQKLECRPY  145 (235)
Q Consensus       134 G~V~~e~~~~P~  145 (235)
                      |.|.|++.|.|-
T Consensus       298 G~v~~klvvTPD  309 (310)
T KOG3122|consen  298 GSVKKKLVVTPD  309 (310)
T ss_pred             ccccceeeeCCC
Confidence            999999999994

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	235
1f3u_A	118	Crystal Structure Of The Rap3074 INTERACTION DOMAIN		6e-16
1bby_A	69	Dna-Binding Domain From Human Rap30, Nmr, Minimized		9e-08
1bby_A	69	Dna-Binding Domain From Human Rap30, Nmr, Minimized		4e-06

>pdb|1F3U|A Chain A, Crystal Structure Of The Rap3074 INTERACTION DOMAINS OF Human Tfiif Length = 118

Iteration: 1
 Score = 80.9 bits (198), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 50/124 (40%), Positives = 67/124 (54%), Gaps = 19/124 (15%)
Query: 28  LDLTQASR--GVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV 85
           LDLT A +  GVWLVKVPKY++ +W K  G  E GKL+I +  G+   VS +L+E    +
Sbjct: 6   LDLTGAKQNTGVWLVKVPKYLSQQWAKASGRGEVGKLRIAKTQGRTE-VSFTLNEDLANI 64
Query: 86  -----DPNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKL 140
                 P     P++H   +Q V  QTL VF+              S+KL LEG +VQ+ 
Sbjct: 65  HDIGGKPASVSAPREHPFVLQSVGGQTLTVFTE-----------SSSDKLSLEGIVVQRA 113
Query: 141 ECRP 144
           ECRP
Sbjct: 114 ECRP 117

>pdb|1BBY|A Chain A, Dna-Binding Domain From Human Rap30, Nmr, Minimized Average Length = 69

Iteration: 1
 Score = 53.5 bits (127), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 34/54 (62%), Gaps = 2/54 (3%)
Query: 1  MLFAAFEKHQYYNIKDLVKITKQPIVNLDLTQASRGVWLVKVPKYVANKWEKVP 54
          MLF+AFEKHQYYN+KDLV ITKQP+V L       GV  VK      N WE  P
Sbjct: 12 MLFSAFEKHQYYNLKDLVDITKQPVVYLKEILKEIGVQNVKGIH--KNTWELKP 63

>pdb|1BBY|A Chain A, Dna-Binding Domain From Human Rap30, Nmr, Minimized Average Length = 69

Iteration: 1
 Score = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 22/33 (66%), Positives = 25/33 (75%)
Query: 187 LTYLKEILKEVCNYNLKNPHKNMWELKPEYRCY 219
           + YLKEILKE+   N+K  HKN WELKPEYR Y
Sbjct: 36  VVYLKEILKEIGVQNVKGIHKNTWELKPEYRHY 68

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	235
1f3u_A	118	Transcription initiation factor IIF, beta subunit;	3e-35
1bby_A	69	RAP30; average structure transcription regulation,	6e-12
1bby_A	69	RAP30; average structure transcription regulation,	3e-06

>1f3u_A Transcription initiation factor IIF, beta subunit; general transcription initiation and elongation factor, RNA polymerase II; 1.70A {Homo sapiens} SCOP: b.65.1.1 Length = 118

 Score =  120 bits (303), Expect = 3e-35
 Identities = 46/124 (37%), Positives = 66/124 (53%), Gaps = 17/124 (13%)

Query: 26  VNLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV 85
           ++L   + + GVWLVKVPKY++ +W K  G  E GKL+I +  G +  VS +L+E    +
Sbjct: 6   LDLTGAKQNTGVWLVKVPKYLSQQWAKASGRGEVGKLRIAKTQG-RTEVSFTLNEDLANI 64

Query: 86  D-----PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKL 140
                 P     P++H   +Q V  QTL VF+              S+KL LEG +VQ+ 
Sbjct: 65  HDIGGKPASVSAPREHPFVLQSVGGQTLTVFTES-----------SSDKLSLEGIVVQRA 113

Query: 141 ECRP 144
           ECRP
Sbjct: 114 ECRP 117

>1bby_A RAP30; average structure transcription regulation, DNA- binding domain, transcription; NMR {Homo sapiens} SCOP: a.4.5.15 PDB: 2bby_A Length = 69

 Score = 58.6 bits (142), Expect = 6e-12
 Identities = 22/33 (66%), Positives = 25/33 (75%)

Query: 188 TYLKEILKEVCNYNLKNPHKNMWELKPEYRCYK 220
            YLKEILKE+   N+K  HKN WELKPEYR Y+
Sbjct: 37  VYLKEILKEIGVQNVKGIHKNTWELKPEYRHYQ 69

>1bby_A RAP30; average structure transcription regulation, DNA- binding domain, transcription; NMR {Homo sapiens} SCOP: a.4.5.15 PDB: 2bby_A Length = 69

 Score = 42.8 bits (101), Expect = 3e-06
 Identities = 23/28 (82%), Positives = 26/28 (92%)

Query: 1  MLFAAFEKHQYYNIKDLVKITKQPIVNL 28
          MLF+AFEKHQYYN+KDLV ITKQP+V L
Sbjct: 12 MLFSAFEKHQYYNLKDLVDITKQPVVYL 39

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	235
1f3u_A	118	Transcription initiation factor IIF, beta subunit;	100.0
1bby_A	69	RAP30; average structure transcription regulation,	99.66
1bby_A	69	RAP30; average structure transcription regulation,	98.69

>1f3u_A Transcription initiation factor IIF, beta subunit; general transcription initiation and elongation factor, RNA polymerase II; 1.70A {Homo sapiens} SCOP: b.65.1.1

Probab=100.00  E-value=1e-33  Score=224.28  Aligned_cols=112  Identities=39%  Similarity=0.687  Sum_probs=101.2

Q ss_pred             cCCcccccccccccceeeccccHHHHhhhhCCCCCccceeEEEecCCCCCceEEEEeCCccccCCC----C-CCCCCCCc
Q psy15249         22 KQPIVNLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCVDP----N-EEKIPKDH   96 (235)
Q Consensus        22 ~~~~~~L~~~~~~~~vWLVKVPk~L~e~W~~~~~~~~lG~lri~~~~g~~~~v~l~L~~~~~~~~~----~-~~~iPkey   96 (235)
                      ++++++|++++++++|||||||+|||++|++++++++||+|||++++| +.+|+|+|++.+.++..    . ...||++|
T Consensus         2 ~~~~~dld~~~~~~~VWLvKvPk~L~e~W~~~~~~~~vGkvri~~~~g-~~~v~l~L~~~~~~~~~~~~~~~~~~iPkeY   80 (118)
T 1f3u_A            2 ERGELDLTGAKQNTGVWLVKVPKYLSQQWAKASGRGEVGKLRIAKTQG-RTEVSFTLNEDLANIHDIGGKPASVSAPREH   80 (118)
T ss_dssp             CTTBEECHHHHTTCEEEEEEEEHHHHHHHTTCCTTCEEEEEEEEEETT-EEEEEEEECHHHHTCCCTTCCCSTTCSCCEE
T ss_pred             CcccccccccCCCceEEEEECCHHHHHHHHhCCCCCceEEEEEecCCC-ceeEEEEeChhHhhhccccccccccCCChhc
Confidence            568899999999999999999999999999999889999999998766 78999999987754331    1 46899999


Q ss_pred             eeeeeeeCCeeEEEeeecCCCCCCCCCCCCccceeEEEEEeeeEEEeec
Q psy15249         97 RLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPY  145 (235)
Q Consensus        97 ~L~~~~~~~~n~~VFsE~~~p~~~~~~k~ip~~t~leG~V~~e~~~~P~  145 (235)
                      +|+|++...+||+||||.++           ++++|||+|+|+|+|||.
T Consensus        81 ~l~~~~~~~~~~~VFSE~~~-----------~~~a~EG~V~~k~d~rP~  118 (118)
T 1f3u_A           81 PFVLQSVGGQTLTVFTESSS-----------DKLSLEGIVVQRAECRPA  118 (118)
T ss_dssp             EEEEECCTTSEEEEEEEETT-----------CCEEEEEEEEEEEEECCC
T ss_pred             eEEeeccCCceeEEEeccCC-----------CcEEEEEEEEEEEEeecC
Confidence            99999988999999999998           899999999999999994

>1bby_A RAP30; average structure transcription regulation, DNA- binding domain, transcription; NMR {Homo sapiens} SCOP: a.4.5.15 PDB: 2bby_A

Probab=99.66  E-value=1.5e-17  Score=119.49  Aligned_cols=34  Identities=65%  Similarity=1.059  Sum_probs=33.1

Q ss_pred             hHHHHHHHHHHhhhhccCCCCcccccChhhhccc
Q psy15249        187 LTYLKEILKEVCNYNLKNPHKNMWELKPEYRCYK  220 (235)
Q Consensus       187 e~yLKEiL~eIa~lnk~Gp~~~~weLKPEYk~~~  220 (235)
                      ++||||||++||+||++|||+|+||||||||+|+
T Consensus        36 ~~yLKeiL~~Ia~~~k~g~~~~~weLKpEyr~y~   69 (69)
T 1bby_A           36 VVYLKEILKEIGVQNVKGIHKNTWELKPEYRHYQ   69 (69)
T ss_dssp             HHHHHHHHHHHCCCBCCTTCCCBBCCCCSSCCCC
T ss_pred             HHHHHHHHHHHHHHHcCCCCCCeeeCcHHHhccC
Confidence            8999999999999999999999999999999985

>1bby_A RAP30; average structure transcription regulation, DNA- binding domain, transcription; NMR {Homo sapiens} SCOP: a.4.5.15 PDB: 2bby_A

Probab=98.69  E-value=1.1e-09  Score=78.41  Aligned_cols=51  Identities=59%  Similarity=0.796  Sum_probs=43.2

Q ss_pred             ChhHhhhhhcccchhhhhhhhcCCcccccccccccceeeccccHHHHhhhhCC
Q psy15249          1 MLFAAFEKHQYYNIKDLVKITKQPIVNLDLTQASRGVWLVKVPKYVANKWEKV   53 (235)
Q Consensus         1 ~~~~~f~~~~y~~~~~~~~~~~~~~~~L~~~~~~~~vWLVKVPk~L~e~W~~~   53 (235)
                      +||++||+||||+|++|+.+|+||...|..+..+++++.-+-|  ....|+--
T Consensus        12 ~lF~~Fek~~yw~lK~L~~~t~QP~~yLKeiL~~Ia~~~k~g~--~~~~weLK   62 (69)
T 1bby_A           12 MLFSAFEKHQYYNLKDLVDITKQPVVYLKEILKEIGVQNVKGI--HKNTWELK   62 (69)
T ss_dssp             HHHHHHHHCSCBCHHHHHHHCCSCHHHHHHHHHHHCCCBCCTT--CCCBBCCC
T ss_pred             HHHHHHhhcCCCcHHHHHHHHcCcHHHHHHHHHHHHHHHcCCC--CCCeeeCc
Confidence            5999999999999999999999999888888888888877766  36667543

---

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	235
d1f3ua_	118	b.65.1.1 (A:) TFIIF beta subunit, Rap30 {Human (Ho	4e-33
d2bbya_	69	a.4.5.15 (A:) DNA-binding domain from rap30 {Human	2e-13
d2bbya_	69	a.4.5.15 (A:) DNA-binding domain from rap30 {Human	5e-07

>d1f3ua_ b.65.1.1 (A:) TFIIF beta subunit, Rap30 {Human (Homo sapiens) [TaxId: 9606]} Length = 118

class: All beta proteins
fold: triple barrel
superfamily: Rap30/74 interaction domains
family: Rap30/74 interaction domains
domain: TFIIF beta subunit, Rap30
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  114 bits (286), Expect = 4e-33
 Identities = 46/124 (37%), Positives = 66/124 (53%), Gaps = 17/124 (13%)

Query: 26  VNLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCV 85
           ++L   + + GVWLVKVPKY++ +W K  G  E GKL+I +  G +  VS +L+E    +
Sbjct: 6   LDLTGAKQNTGVWLVKVPKYLSQQWAKASGRGEVGKLRIAKTQG-RTEVSFTLNEDLANI 64

Query: 86  D-----PNEEKIPKDHRLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKL 140
                 P     P++H   +Q V  QTL VF+              S+KL LEG +VQ+ 
Sbjct: 65  HDIGGKPASVSAPREHPFVLQSVGGQTLTVFTES-----------SSDKLSLEGIVVQRA 113

Query: 141 ECRP 144
           ECRP
Sbjct: 114 ECRP 117

>d2bbya_ a.4.5.15 (A:) DNA-binding domain from rap30 {Human (Homo sapiens) [TaxId: 9606]} Length = 69

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: DNA-binding domain from rap30
domain: DNA-binding domain from rap30
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 61.2 bits (149), Expect = 2e-13
 Identities = 22/32 (68%), Positives = 25/32 (78%)

Query: 189 YLKEILKEVCNYNLKNPHKNMWELKPEYRCYK 220
           YLKEILKE+   N+K  HKN WELKPEYR Y+
Sbjct: 38  YLKEILKEIGVQNVKGIHKNTWELKPEYRHYQ 69

>d2bbya_ a.4.5.15 (A:) DNA-binding domain from rap30 {Human (Homo sapiens) [TaxId: 9606]} Length = 69

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: DNA-binding domain from rap30
domain: DNA-binding domain from rap30
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.9 bits (104), Expect = 5e-07
 Identities = 23/28 (82%), Positives = 26/28 (92%)

Query: 1  MLFAAFEKHQYYNIKDLVKITKQPIVNL 28
          MLF+AFEKHQYYN+KDLV ITKQP+V L
Sbjct: 12 MLFSAFEKHQYYNLKDLVDITKQPVVYL 39

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	235
d1f3ua_	118	TFIIF beta subunit, Rap30 {Human (Homo sapiens) [T	100.0
d2bbya_	69	DNA-binding domain from rap30 {Human (Homo sapiens	99.68
d2bbya_	69	DNA-binding domain from rap30 {Human (Homo sapiens	98.66
d2doaa1	91	RNA polymerase II elongation factor ELL {Human (Ho	92.55

>d1f3ua_ b.65.1.1 (A:) TFIIF beta subunit, Rap30 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: triple barrel
superfamily: Rap30/74 interaction domains
family: Rap30/74 interaction domains
domain: TFIIF beta subunit, Rap30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=7.4e-35  Score=228.89  Aligned_cols=112  Identities=39%  Similarity=0.687  Sum_probs=101.2

Q ss_pred             cCCcccccccccccceeeccccHHHHhhhhCCCCCccceeEEEecCCCCCceEEEEeCCccccCCC----C-CCCCCCCc
Q psy15249         22 KQPIVNLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCVDP----N-EEKIPKDH   96 (235)
Q Consensus        22 ~~~~~~L~~~~~~~~vWLVKVPk~L~e~W~~~~~~~~lG~lri~~~~g~~~~v~l~L~~~~~~~~~----~-~~~iPkey   96 (235)
                      +.++++|++++++++|||||||+||+++|++++++++||+|||.+++| +++|+|+|++++.+...    + ..+||+||
T Consensus         2 ~~~~ldl~~a~~~~~VWLvKvPkyls~~W~k~~~~~~vGklri~~~~~-k~ev~l~l~~~~~~~~~~~~~~~~~~iPkey   80 (118)
T d1f3ua_           2 ERGELDLTGAKQNTGVWLVKVPKYLSQQWAKASGRGEVGKLRIAKTQG-RTEVSFTLNEDLANIHDIGGKPASVSAPREH   80 (118)
T ss_dssp             CTTBEECHHHHTTCEEEEEEEEHHHHHHHTTCCTTCEEEEEEEEEETT-EEEEEEEECHHHHTCCCTTCCCSTTCSCCEE
T ss_pred             CccccccccccCCceEEEEECCHHHHHHHhhCCCCCcceEEEeccCCC-CcceEEecCchHhhhhccccCCCcCCCChhh
Confidence            467889999999999999999999999999999889999999999877 78999999987654431    1 56899999


Q ss_pred             eeeeeeeCCeeEEEeeecCCCCCCCCCCCCccceeEEEEEeeeEEEeec
Q psy15249         97 RLDVQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPY  145 (235)
Q Consensus        97 ~L~~~~~~~~n~~VFsE~~~p~~~~~~k~ip~~t~leG~V~~e~~~~P~  145 (235)
                      +|.|+++.++||+||||.++           ++++|||+|+|+|+|||.
T Consensus        81 ~l~~~~~~~q~~~VFSe~~~-----------~k~~~EG~V~~k~d~RPa  118 (118)
T d1f3ua_          81 PFVLQSVGGQTLTVFTESSS-----------DKLSLEGIVVQRAECRPA  118 (118)
T ss_dssp             EEEEECCTTSEEEEEEEETT-----------CCEEEEEEEEEEEEECCC
T ss_pred             cEecccccCCceEEEEecCC-----------CcEEEEEEEEEEeecCCC
Confidence            99999998999999999998           899999999999999994

>d2bbya_ a.4.5.15 (A:) DNA-binding domain from rap30 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: DNA-binding domain from rap30
domain: DNA-binding domain from rap30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=2.8e-18  Score=121.29  Aligned_cols=34  Identities=65%  Similarity=1.059  Sum_probs=33.1

Q ss_pred             hHHHHHHHHHHhhhhccCCCCcccccChhhhccc
Q psy15249        187 LTYLKEILKEVCNYNLKNPHKNMWELKPEYRCYK  220 (235)
Q Consensus       187 e~yLKEiL~eIa~lnk~Gp~~~~weLKPEYk~~~  220 (235)
                      ++||||||++||+||++|||+||||||||||+|+
T Consensus        36 ~~yLKeiL~eIa~~~~~g~~~~~weLKpEYr~~k   69 (69)
T d2bbya_          36 VVYLKEILKEIGVQNVKGIHKNTWELKPEYRHYQ   69 (69)
T ss_dssp             HHHHHHHHHHHCCEECCTTCCCEECCCCSSCCCC
T ss_pred             HHHHHHHHHHHHHHHcCCCcCCceeCCHHHhccC
Confidence            8999999999999999999999999999999985

>d2bbya_ a.4.5.15 (A:) DNA-binding domain from rap30 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: DNA-binding domain from rap30
domain: DNA-binding domain from rap30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.66  E-value=7.4e-10  Score=77.53  Aligned_cols=50  Identities=60%  Similarity=0.823  Sum_probs=42.4

Q ss_pred             ChhHhhhhhcccchhhhhhhhcCCcccccccccccceeeccccHHHHhhhhC
Q psy15249          1 MLFAAFEKHQYYNIKDLVKITKQPIVNLDLTQASRGVWLVKVPKYVANKWEK   52 (235)
Q Consensus         1 ~~~~~f~~~~y~~~~~~~~~~~~~~~~L~~~~~~~~vWLVKVPk~L~e~W~~   52 (235)
                      |||++||+||||+|++|+..|+||..+|..+..+++++..+-|  -...|+-
T Consensus        12 ~lF~~Fek~~ywsiK~L~~~t~QP~~yLKeiL~eIa~~~~~g~--~~~~weL   61 (69)
T d2bbya_          12 MLFSAFEKHQYYNLKDLVDITKQPVVYLKEILKEIGVQNVKGI--HKNTWEL   61 (69)
T ss_dssp             HHHHHHHHCSCBCHHHHHHHCCSCHHHHHHHHHHHCCEECCTT--CCCEECC
T ss_pred             HHHHHHhhcCCCCHHHHHHHHhChHHHHHHHHHHHHHHHcCCC--cCCceeC
Confidence            6999999999999999999999999888888888888777766  3555653

>d2doaa1 a.4.5.81 (A:8-98) RNA polymerase II elongation factor ELL {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: ELL N2 domain-like
domain: RNA polymerase II elongation factor ELL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.55  E-value=0.015  Score=41.34  Aligned_cols=27  Identities=22%  Similarity=0.260  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHhhhhccCCCCcccccChhhh
Q psy15249        188 TYLKEILKEVCNYNLKNPHKNMWELKPEYR  217 (235)
Q Consensus       188 ~yLKEiL~eIa~lnk~Gp~~~~weLKPEYk  217 (235)
                      .-|-+||++||+++..   .|+|+|||+|-
T Consensus        39 ~~l~~iL~~Va~~~~~---~g~Y~LK~~~~   65 (91)
T d2doaa1          39 DALDGLLQQVANMSAK---DGTCTLQDCMY   65 (91)
T ss_dssp             HHHHHHHHHSSEECSS---SCEEECCSSGG
T ss_pred             HHHHHHHHHHheecCC---CceEeeHHHHH
Confidence            4689999999998733   58999999874