Citrus Sinensis ID: 041187

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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-------19
Protein Sequence
MVISSSNPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKENAEQIMINQARKAEELAAALAASKGISAQDDTNGDPSQSALGGIGVGGTQGQYVPTLAGGQPRPTGIPQPIAHAGGMDLHSYDNEAMMKLRAERGGRAAGWSMELSKKRALEEAFASIWI
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHccccccccHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cEEEccccccHHHHHHHHHHHHHHccHHHcccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHcccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
mvisssnpqnRELAIRKRIASIYNkreedfpslKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKENAEQIMINQARKAEELAAALAASkgisaqddtngdpsqsalggigvggtqgqyvptlaggqprptgipqpiahaggmdlhsyDNEAMMKLRAERggraagwsMELSKKRALEEAFASIWI
Flexible Loop (DISEMBL)
mvisssnpqnrelAIRKRIASiynkreedfpslKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKENAEQIMINQARKAEELAAALAASKGISAQDDTNGDPSQSALGGIGVGGTQGQYVPTLAGGQPRPTGIPQPIAHAGGMDLHSYDNEAMMKLRAERGGRAAGWSMELSKKRALEEAFASIWI
Low Complexity Region (SEG)
MVISSSNPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKENAEQIMINQARKaeelaaalaaSKGISAQDDTNGDPSQSALggigvggtqgQYVPTLAGGQPRPTGIPQPIAHAGGMDLHSYDNEAMMKLRAERGGRAAGWSMELSKKRALEEAFASIWI
Disordered region (IsUnstruct)
*****************RIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQE****************************************************************************************************************************
Disordered Region (DISOPRED)
****SSNPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQ**********************************************************************************************ERGGRAAGWSMELSKKRALEEAFASIWI
Disordered Region (DISEMBL)
*********NRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKENAEQIMINQARKAEELAAALAASKGISAQDDTNGDPSQSALGGIGVGGTQGQYVPTLAGGQPRPTGIPQPIAHAGGMDLHSYDNEAMMKLRAERGGRAAGWSMELSKKRALEEAFASIWI
Disordered Region (DISPRO)
MVI**SNPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKENAEQIMINQARKAEELAAALAASK****************************YVPTLAGGQPRPTGIPQPIA***GMDLHSYDNEAMMKLRAERGGRAAGWSMELSKKRALEEAFASIWI
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVISSSNPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxLAASKGISAQDDTNGDPSQSALGGIGVGGTQGQYVPTLAGGQPRPTGIPQPIAHAGGMDLHSYDNEAMMKLRAERGGRAAGWSMELSKKRALEEAFASIWI
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	189	2.2.26 [Sep-21-2011]
P51949	309	CDK-activating kinase ass	yes	no	0.375	0.229	0.521	1e-16
P51948	309	CDK-activating kinase ass	yes	no	0.375	0.229	0.521	2e-16
P51951	309	CDK-activating kinase ass	N/A	no	0.375	0.229	0.521	5e-16
P51950	324	CDK-activating kinase ass	N/A	no	0.402	0.234	0.473	4e-15
O94684	318	RNA polymerase II transcr	yes	no	0.317	0.188	0.533	8e-13
Q6BP96	340	RNA polymerase II transcr	yes	no	0.391	0.217	0.445	2e-12
Q6FMP4	330	RNA polymerase II transcr	yes	no	0.396	0.227	0.434	4e-10
Q03290	321	RNA polymerase II transcr	yes	no	0.407	0.239	0.435	5e-10
Q6CT73	318	RNA polymerase II transcr	yes	no	0.402	0.238	0.402	1e-09
Q6C7D0	346	RNA polymerase II transcr	yes	no	0.391	0.213	0.381	1e-08

>sp|P51949|MAT1_MOUSE CDK-activating kinase assembly factor MAT1 OS=Mus musculus GN=Mnat1 PE=2 SV=2

 Score = 86.3 bits (212), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 37/71 (52%), Positives = 56/71 (78%)

Query: 10  NRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKE 69
           ++E+ IRK++  IYNKREEDFPSL+EYND+LEEVE+++FNL   V++   ++K++ YQKE
Sbjct: 69  DKEVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVFNLTNNVDLENTKKKMEIYQKE 128

Query: 70  NAEQIMINQAR 80
           N + I  N+ +
Sbjct: 129 NKDVIQKNKLK 139

Stabilizes the cyclin H-CDK7 complex to form a functional CDK-activating kinase (CAK) enzymatic complex. CAK activates the cyclin-associated kinases CDK1, CDK2, CDK4 and CDK6 by threonine phosphorylation. CAK complexed to the core-TFIIH basal transcription factor activates RNA polymerase II by serine phosphorylation of the repetitive C-terminus domain (CTD) of its large subunit (POLR2A), allowing its escape from the promoter and elongation of the transcripts. Involved in cell cycle control and in RNA transcription by RNA polymerase II.
Mus musculus (taxid: 10090)

>sp|P51948|MAT1_HUMAN CDK-activating kinase assembly factor MAT1 OS=Homo sapiens GN=MNAT1 PE=1 SV=1

 Score = 85.9 bits (211), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 37/71 (52%), Positives = 56/71 (78%)

Query: 10  NRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKE 69
           ++E+ IRK++  IYNKREEDFPSL+EYND+LEEVE+++FNL   V++   ++K++ YQKE
Sbjct: 69  DKEVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVFNLTNNVDLDNTKKKMEIYQKE 128

Query: 70  NAEQIMINQAR 80
           N + I  N+ +
Sbjct: 129 NKDVIQKNKLK 139

Stabilizes the cyclin H-CDK7 complex to form a functional CDK-activating kinase (CAK) enzymatic complex. CAK activates the cyclin-associated kinases CDK1, CDK2, CDK4 and CDK6 by threonine phosphorylation. CAK complexed to the core-TFIIH basal transcription factor activates RNA polymerase II by serine phosphorylation of the repetitive C-terminus domain (CTD) of its large subunit (POLR2A), allowing its escape from the promoter and elongation of the transcripts. Involved in cell cycle control and in RNA transcription by RNA polymerase II.

Homo sapiens (taxid: 9606)

>sp|P51951|MAT1_XENLA CDK-activating kinase assembly factor MAT1 OS=Xenopus laevis GN=mnat1 PE=2 SV=1

 Score = 84.0 bits (206), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 37/71 (52%), Positives = 52/71 (73%)

Query: 10  NRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKE 69
           ++E+ IRK+I  IYNKREEDFPSL+EYND+LEE+E+++ NL   V++     KI  YQKE
Sbjct: 69  DKEVEIRKKILKIYNKREEDFPSLREYNDFLEEIEEIVLNLTNNVDLDNTRRKIDMYQKE 128

Query: 70  NAEQIMINQAR 80
           N + I  N+ +
Sbjct: 129 NKDTIQRNKIK 139

Stabilizes the cyclin H-CDK7 complex to form a functional CDK-activating kinase (CAK) enzymatic complex.

Xenopus laevis (taxid: 8355)

>sp|P51950|MAT1_MARGL CDK-activating kinase assembly factor MAT1 OS=Marthasterias glacialis PE=1 SV=1

 Score = 81.3 bits (199), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 36/76 (47%), Positives = 56/76 (73%)

Query: 11  RELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKEN 70
           +E+ IRKRI   +NK+EE+FP+LK+YNDYLEE+E +IFNL  G  +   + K+ +Y+K N
Sbjct: 71  KEVDIRKRILKDFNKQEEEFPALKDYNDYLEEIETIIFNLANGTELEATKRKVDQYRKNN 130

Query: 71  AEQIMINQARKAEELA 86
            E IM N+++++ + A
Sbjct: 131 RESIMKNRSKQSSDQA 146

Stabilizes the cyclin H-CDK7 complex to form a functional CDK-activating kinase (CAK) enzymatic complex.

Marthasterias glacialis (taxid: 7609)

>sp|O94684|TFB3_SCHPO RNA polymerase II transcription factor B subunit 3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pmh1 PE=1 SV=1

 Score = 73.6 bits (179), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 32/60 (53%), Positives = 49/60 (81%)

Query: 11  RELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKEN 70
           RE+ +RKRI+ I+NK +++F SL+ YNDYLEEVE + FNL+  ++V E EEK+++Y+K+N
Sbjct: 80  REVDVRKRISRIFNKGQQEFDSLQAYNDYLEEVEILTFNLIYKIDVEETEEKVKQYEKQN 139

Acts as component of the general transcription and DNA repair factor IIH (TFIIH or factor B), which is essential for both basal and activated transcription, and is involved in nucleotide excision repair (NER) of damaged DNA. TFIIH has CTD kinase activity and DNA-dependent ATPase activity, and is essential for polymerase II transcription.

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

>sp|Q6BP96|TFB3_DEBHA RNA polymerase II transcription factor B subunit 3 OS=Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) GN=TFB3 PE=3 SV=2

 Score = 72.4 bits (176), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 33/74 (44%), Positives = 53/74 (71%)

Query: 11  RELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKEN 70
           +E+ IRKR++ IYNK EEDF  LK+YN YLE VE++IFNL  G+++ E E  + +Y+ E+
Sbjct: 79  KEIDIRKRVSGIYNKTEEDFDDLKDYNKYLESVENIIFNLNNGIDIEETESNLVKYENEH 138

Query: 71  AEQIMINQARKAEE 84
             +I+    R++++
Sbjct: 139 KIEILEKNMRESQK 152

Acts as component of the general transcription and DNA repair factor IIH (TFIIH or factor B), which is essential for both basal and activated transcription, and is involved in nucleotide excision repair (NER) of damaged DNA. TFIIH as CTD kinase activity and DNA-dependent ATPase activity, and is essential for polymerase II transcription.

Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) (taxid: 284592)

>sp|Q6FMP4|TFB3_CANGA RNA polymerase II transcription factor B subunit 3 OS=Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) GN=TFB3 PE=3 SV=1

 Score = 64.7 bits (156), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 33/76 (43%), Positives = 53/76 (69%), Gaps = 1/76 (1%)

Query: 11  RELAIRKRIASIYNKREEDFPS-LKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKE 69
           +E+ IRKR+ +++NK  EDF + L+ YN YLEEVED+++ L   ++V E EEK++ Y++ 
Sbjct: 90  KEVDIRKRVFNVFNKTLEDFDNDLEAYNKYLEEVEDIVYKLDNKIDVVETEEKLRTYEEL 149

Query: 70  NAEQIMINQARKAEEL 85
           N + IM N  R  ++L
Sbjct: 150 NKQLIMNNMERSKKDL 165

Acts as component of the general transcription and DNA repair factor IIH (TFIIH or factor B), which is essential for both basal and activated transcription, and is involved in nucleotide excision repair (NER) of damaged DNA. TFIIH as CTD kinase activity and DNA-dependent ATPase activity, and is essential for polymerase II transcription.

Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) (taxid: 284593)

>sp|Q03290|TFB3_YEAST RNA polymerase II transcription factor B subunit 3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TFB3 PE=1 SV=1

 Score = 64.3 bits (155), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 53/78 (67%), Gaps = 1/78 (1%)

Query: 11  RELAIRKRIASIYNKREEDFP-SLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKE 69
           +E+ IRKR+ +++NK  +DF   L EYN YLEEVED+I+ L  G++V + EEK++ Y++ 
Sbjct: 80  KEVDIRKRVFNVFNKTIDDFNGDLVEYNKYLEEVEDIIYKLDHGIDVAKTEEKLRTYEEL 139

Query: 70  NAEQIMINQARKAEELAA 87
           N + IM N  R   E+ +
Sbjct: 140 NKQLIMNNLERSRTEIES 157

Acts as component of the general transcription and DNA repair factor IIH (TFIIH or factor B), which is essential for both basal and activated transcription, and is involved in nucleotide excision repair (NER) of damaged DNA. TFIIH has CTD kinase and DNA-dependent ATPase activity, and is essential for polymerase II transcription in vitro.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q6CT73|TFB3_KLULA RNA polymerase II transcription factor B subunit 3 OS=Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) GN=TFB3 PE=3 SV=1

 Score = 63.2 bits (152), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 31/77 (40%), Positives = 56/77 (72%), Gaps = 1/77 (1%)

Query: 11  RELAIRKRIASIYNKREEDFPSLKE-YNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKE 69
           +E+ IRKR+ +++NK  EDF + ++ Y+ YLEEVED+I+NL  G+++ + EE+++ Y++ 
Sbjct: 77  KEVDIRKRVFNVFNKTLEDFDNNQDDYDKYLEEVEDIIYNLDHGIDMEKTEERLRTYEEL 136

Query: 70  NAEQIMINQARKAEELA 86
           N + IM N  R  +++A
Sbjct: 137 NKQLIMANLERSKQDVA 153

Acts as component of the general transcription and DNA repair factor IIH (TFIIH or factor B), which is essential for both basal and activated transcription, and is involved in nucleotide excision repair (NER) of damaged DNA. TFIIH as CTD kinase activity and DNA-dependent ATPase activity, and is essential for polymerase II transcription.

Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (taxid: 284590)

>sp|Q6C7D0|TFB3_YARLI RNA polymerase II transcription factor B subunit 3 OS=Yarrowia lipolytica (strain CLIB 122 / E 150) GN=TFB3 PE=3 SV=1

 Score = 59.7 bits (143), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 29/76 (38%), Positives = 51/76 (67%), Gaps = 2/76 (2%)

Query: 11  RELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHE--FEEKIQEYQK 68
           +E+ +R+R+ S+ NKRE++F +L +YN YLE++ED IF L+ G    +    ++I+ Y+K
Sbjct: 75  KEVDVRQRVMSVMNKREDEFDTLNDYNAYLEKIEDSIFTLLNGTADEKDALTKEIEAYEK 134

Query: 69  ENAEQIMINQARKAEE 84
           E+  +I+ N   + EE
Sbjct: 135 EHKAEIIANNKLRDEE 150

Acts as component of the general transcription and DNA repair factor IIH (TFIIH or factor B), which is essential for both basal and activated transcription, and is involved in nucleotide excision repair (NER) of damaged DNA. TFIIH as CTD kinase activity and DNA-dependent ATPase activity, and is essential for polymerase II transcription.

Yarrowia lipolytica (strain CLIB 122 / E 150) (taxid: 284591)

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	189
449457867	189	PREDICTED: uncharacterized protein LOC10	0.994	0.994	0.682	2e-62
225445778	189	PREDICTED: CDK-activating kinase assembl	0.994	0.994	0.657	4e-59
357495969	185	CDK-activating kinase assembly factor MA	0.957	0.978	0.625	7e-59
224091837	185	predicted protein [Populus trichocarpa]	0.968	0.989	0.617	2e-58
388493110	185	unknown [Medicago truncatula]	0.957	0.978	0.619	3e-58
255575006	185	cak assembly factor, putative [Ricinus c	0.962	0.983	0.656	8e-58
224142349	204	predicted protein [Populus trichocarpa]	0.989	0.916	0.621	7e-57
351724637	188	uncharacterized protein LOC100305654 [Gl	0.978	0.984	0.633	1e-55
357125128	194	PREDICTED: uncharacterized protein LOC10	0.989	0.963	0.535	4e-47
115485477	195	Os11g0473100 [Oryza sativa Japonica Grou	0.941	0.912	0.547	8e-47

>gi|449457867|ref|XP_004146669.1| PREDICTED: uncharacterized protein LOC101207027 [Cucumis sativus] gi|449503153|ref|XP_004161860.1| PREDICTED: uncharacterized LOC101207027 [Cucumis sativus]

 Score =  243 bits (621), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 129/189 (68%), Positives = 149/189 (78%), Gaps = 1/189 (0%)

Query: 1   MVISSSNPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFE 60
           MVISSSN  ++E++IRKRIASI+NKREEDF SL+EYNDYLEEVEDM FNL+EG++V   E
Sbjct: 1   MVISSSNSHSKEVSIRKRIASIFNKREEDFSSLREYNDYLEEVEDMTFNLIEGIDVQAIE 60

Query: 61  EKIQEYQKENAEQIMINQARKAEELAAALAASKGISAQDDTNGDPSQSALGGIGVGGTQG 120
            KI  YQ+ENAEQIMIN+ARKAEE AAALAASKGI AQ D +G   QS   G+   GTQG
Sbjct: 61  AKIARYQEENAEQIMINRARKAEEYAAALAASKGIPAQADNDGAADQSFQAGLST-GTQG 119

Query: 121 QYVPTLAGGQPRPTGIPQPIAHAGGMDLHSYDNEAMMKLRAERGGRAAGWSMELSKKRAL 180
           QY PT AGGQPRPTG P P+     M  +  D+E M++LRAERGGRA GWS+E S+KRAL
Sbjct: 120 QYAPTFAGGQPRPTGQPVPLGAGPDMQGYGLDDEEMLRLRAERGGRAGGWSVEFSRKRAL 179

Query: 181 EEAFASIWI 189
           EEAF SIWI
Sbjct: 180 EEAFGSIWI 188

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225445778|ref|XP_002274987.1| PREDICTED: CDK-activating kinase assembly factor MAT1 [Vitis vinifera] gi|297743691|emb|CBI36574.3| unnamed protein product [Vitis vinifera]

 Score =  233 bits (593), Expect = 4e-59,   Method: Compositional matrix adjust.
 Identities = 125/190 (65%), Positives = 153/190 (80%), Gaps = 2/190 (1%)

Query: 1   MVISSSNPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFE 60
           MV+ S+   N+E+AIR+RI+SI+NKRE+DFPSL+EYNDYLEEVEDM  NL+EG++V   E
Sbjct: 1   MVVVSATTFNKEIAIRRRISSIFNKREDDFPSLREYNDYLEEVEDMTTNLIEGIDVPAIE 60

Query: 61  EKIQEYQKENAEQIMINQARKAEELAAALAASKGISAQDDTNGDPSQSALGGIGVGGTQG 120
            KI +YQ+ENAEQIMIN+ARKAEELAAA+AASKG   Q DT+G  SQS+  GIG G   G
Sbjct: 61  VKIAKYQEENAEQIMINRARKAEELAAAMAASKGQPVQTDTDGATSQSSQAGIGAGAP-G 119

Query: 121 QYVPTLAGGQPRPTGI-PQPIAHAGGMDLHSYDNEAMMKLRAERGGRAAGWSMELSKKRA 179
            Y PT+ GGQPRPTG+ PQPI    G + ++ D+E MMKLRAERGG+A GWS+ELSK+RA
Sbjct: 120 HYAPTVPGGQPRPTGMAPQPIPVGVGPEGYAADDEEMMKLRAERGGKAGGWSIELSKRRA 179

Query: 180 LEEAFASIWI 189
           +EEAF SIWI
Sbjct: 180 IEEAFGSIWI 189

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357495969|ref|XP_003618273.1| CDK-activating kinase assembly factor MAT1 [Medicago truncatula] gi|355493288|gb|AES74491.1| CDK-activating kinase assembly factor MAT1 [Medicago truncatula]

 Score =  232 bits (591), Expect = 7e-59,   Method: Compositional matrix adjust.
 Identities = 120/192 (62%), Positives = 149/192 (77%), Gaps = 11/192 (5%)

Query: 1   MVISSSNPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFE 60
           MVISS+NP  +E+AIRKRIASI+NKRE+DFPSLKEYNDYLEEVEDM FNL+EG++V   E
Sbjct: 1   MVISSTNPHYKEIAIRKRIASIFNKREDDFPSLKEYNDYLEEVEDMTFNLIEGIDVAAIE 60

Query: 61  EKIQEYQKENAEQIMINQARKAEELAAALAASKGISAQ-DDTNGDP-SQSALGGIGVGGT 118
            +I +YQ+EN+EQIMIN+ARKAEELAAA+A SKG  AQ D+ + +P SQ+  G +     
Sbjct: 61  ARIAKYQEENSEQIMINRARKAEELAAAMATSKGQPAQTDNDDANPNSQAGFGAV----P 116

Query: 119 QGQYVPTLAGGQPRPTGI-PQPIAHAGGMDLHSYDNEAMMKLRAERGGRAAGWSMELSKK 177
           QGQY PT+AGGQPRPTG+ PQP+   GG   +  +NE  ++    R  RA GWS+E+S+K
Sbjct: 117 QGQYAPTIAGGQPRPTGMGPQPLPLGGGDAGYVVENEETLR----RQARAGGWSIEISRK 172

Query: 178 RALEEAFASIWI 189
           RALEEAF SIWI
Sbjct: 173 RALEEAFGSIWI 184

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224091837|ref|XP_002309366.1| predicted protein [Populus trichocarpa] gi|222855342|gb|EEE92889.1| predicted protein [Populus trichocarpa]

 Score =  230 bits (587), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 118/191 (61%), Positives = 141/191 (73%), Gaps = 8/191 (4%)

Query: 1   MVISSSNPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFE 60
           MV+S+ NP N+E+ +R+RIASI+NKRE+DFPSL+EYNDYLEEVEDMIFNLV G +V   E
Sbjct: 1   MVVSNINPHNKEIVVRRRIASIFNKREDDFPSLREYNDYLEEVEDMIFNLVAGDDVAATE 60

Query: 61  EKIQEYQKENAEQIMINQARKAEELAAALAASKGISAQDDTNGDPSQSALGGIGVGGTQG 120
            KI EYQ+ENA+ I+IN ARKAEELA A++ASKG  AQ D     SQ    GI VG   G
Sbjct: 61  VKIAEYQEENADLILINHARKAEELALAMSASKGPPAQTDNTDGSSQ----GISVGA--G 114

Query: 121 QYVPTLAGGQPRPTGI-PQPIAHAGGMDLHSY-DNEAMMKLRAERGGRAAGWSMELSKKR 178
           QY PT+ GGQPRPTGI PQP+   GG D+H Y ++E  M++R E   RAAGWS+E SKKR
Sbjct: 115 QYAPTIVGGQPRPTGIAPQPVPLRGGPDMHGYLEDEETMRIRTENASRAAGWSIEFSKKR 174

Query: 179 ALEEAFASIWI 189
             EEAFAS   
Sbjct: 175 GFEEAFASFCF 185

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388493110|gb|AFK34621.1| unknown [Medicago truncatula]

 Score =  230 bits (586), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 119/192 (61%), Positives = 148/192 (77%), Gaps = 11/192 (5%)

Query: 1   MVISSSNPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFE 60
           MVISS+NP  +E+AIRKRIASI+NKRE+DFP LKEYNDYLEEVEDM FNL+EG++V   E
Sbjct: 1   MVISSTNPHYKEIAIRKRIASIFNKREDDFPPLKEYNDYLEEVEDMTFNLIEGIDVAAIE 60

Query: 61  EKIQEYQKENAEQIMINQARKAEELAAALAASKGISAQ-DDTNGDP-SQSALGGIGVGGT 118
            +I +YQ+EN+EQIMIN+ARKAEELAAA+A SKG  AQ D+ + +P SQ+  G +     
Sbjct: 61  ARIAKYQEENSEQIMINRARKAEELAAAMATSKGQPAQTDNDDANPNSQAGFGAV----P 116

Query: 119 QGQYVPTLAGGQPRPTGI-PQPIAHAGGMDLHSYDNEAMMKLRAERGGRAAGWSMELSKK 177
           QGQY PT+AGGQPRPTG+ PQP+   GG   +  +NE  ++    R  RA GWS+E+S+K
Sbjct: 117 QGQYAPTIAGGQPRPTGMGPQPLPLGGGDAGYVVENEETLR----RQARAGGWSIEISRK 172

Query: 178 RALEEAFASIWI 189
           RALEEAF SIWI
Sbjct: 173 RALEEAFGSIWI 184

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255575006|ref|XP_002528409.1| cak assembly factor, putative [Ricinus communis] gi|223532197|gb|EEF34002.1| cak assembly factor, putative [Ricinus communis]

 Score =  228 bits (581), Expect = 8e-58,   Method: Compositional matrix adjust.
 Identities = 126/192 (65%), Positives = 154/192 (80%), Gaps = 10/192 (5%)

Query: 1   MVISSSNPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFE 60
           MV+ S++  ++E++IR+RI++I+NKRE+DFPSLKEYNDYLEEVEDMIFNLV GV+V   E
Sbjct: 1   MVVVSNSSSHKEISIRRRISNIFNKREDDFPSLKEYNDYLEEVEDMIFNLVAGVDVAAIE 60

Query: 61  EKIQEYQKENAEQIMINQARKAEELAAALAASKGISAQDDTNGDPSQSALGGIGVGGTQG 120
           EKI EYQKENAEQIMINQARKAEELAAA+AASKG  A  DT+ +P        G+    G
Sbjct: 61  EKIAEYQKENAEQIMINQARKAEELAAAVAASKGHLAPTDTDMNPQA------GIAIEPG 114

Query: 121 QYVPTLAGGQPRPTGI-PQPIAHAGGMDLHSY--DNEAMMKLRAERGGRAAGWSMELSKK 177
           QY P++AGGQPRPTG+ PQP+   GG+D+  Y  D+E MM+LRAERG RA GWS ELS+K
Sbjct: 115 QYAPSVAGGQPRPTGMAPQPVP-LGGLDMQGYPFDDEEMMRLRAERGSRAGGWSAELSRK 173

Query: 178 RALEEAFASIWI 189
           R+LEEAF+SIWI
Sbjct: 174 RSLEEAFSSIWI 185

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224142349|ref|XP_002324521.1| predicted protein [Populus trichocarpa] gi|222865955|gb|EEF03086.1| predicted protein [Populus trichocarpa]

 Score =  225 bits (573), Expect = 7e-57,   Method: Compositional matrix adjust.
 Identities = 128/206 (62%), Positives = 152/206 (73%), Gaps = 19/206 (9%)

Query: 1   MVISSSNPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFE 60
           MV+SS+NP N+E+ +R+RIASI+NKREEDFPSL+EYNDYLEEVEDMIF+LV GV+V   E
Sbjct: 1   MVVSSNNPHNKEILVRRRIASIFNKREEDFPSLREYNDYLEEVEDMIFDLVAGVDVPAIE 60

Query: 61  EKIQEYQKENAEQIMINQARKAEELAAALAASKGISAQDDTN-------------GDP-- 105
           EKI EYQKENA+ I+INQARKAEELA A+AASKG  AQ D               G P  
Sbjct: 61  EKIAEYQKENADLILINQARKAEELALAMAASKGPRAQTDNTDGMWMCTKIGLKGGIPMS 120

Query: 106 SQSALGGIGVGGTQGQYVPTLAGGQPRPTGI-PQPIAHAGGMDLHSY-DNEAMMKLRAER 163
           S+S+ GGI V    GQY PT+AGGQPRP GI PQP+   GG D+H Y ++E  M++R ER
Sbjct: 121 SKSSQGGISV--EAGQYAPTIAGGQPRPIGIAPQPVPLRGGPDMHGYAEDEETMRIRTER 178

Query: 164 GGRAAGWSMELSKKRALEEAFASIWI 189
              AAGWS+E SKKRA EEAFASI +
Sbjct: 179 ASSAAGWSIEFSKKRAFEEAFASICV 204

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351724637|ref|NP_001238600.1| uncharacterized protein LOC100305654 [Glycine max] gi|255626207|gb|ACU13448.1| unknown [Glycine max]

 Score =  221 bits (562), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 121/191 (63%), Positives = 150/191 (78%), Gaps = 6/191 (3%)

Query: 1   MVISSSNPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFE 60
           MV+SS+NP N+E+AIR+RIASI+NKRE+DFPSL+EYNDYLEEVEDM FNL+EG++V + E
Sbjct: 1   MVVSSTNPHNKEIAIRRRIASIFNKREDDFPSLREYNDYLEEVEDMTFNLIEGIDVSDIE 60

Query: 61  EKIQEYQKENAEQIMINQARKAEELAAALAASKGISAQDDTNGDPSQSALGGIGVGGTQG 120
            KI +YQ+ENAEQIMIN+ARKAEELAAA+AASKG  AQ D +   +Q++  G G    QG
Sbjct: 61  AKIAKYQEENAEQIMINRARKAEELAAAMAASKGQPAQTDDDSATNQNSQAGFGA-VPQG 119

Query: 121 QYVPTLAGGQPRPTGI-PQPIAHAGG-MDLHSYDNEAMMKLRAERGGRAAGWSMELSKKR 178
           QY PT AGGQPRPTG+ PQP+   GG M   + D+E   +LR ER G   GWS ++S+KR
Sbjct: 120 QYAPTFAGGQPRPTGMAPQPLPLGGGDMPGFAGDDEETKRLRTERAG---GWSGDISRKR 176

Query: 179 ALEEAFASIWI 189
           ALEEAF SIW+
Sbjct: 177 ALEEAFGSIWV 187

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357125128|ref|XP_003564247.1| PREDICTED: uncharacterized protein LOC100842017 [Brachypodium distachyon]

 Score =  193 bits (490), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 105/196 (53%), Positives = 137/196 (69%), Gaps = 9/196 (4%)

Query: 1   MVISSS---NPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVH 57
           MV++ S   N   +E+ +R+R+ASI+NK  + FPSLK+YNDYLEEVEDM FNL+EG++V 
Sbjct: 1   MVVAGSGGGNAWAKEMTLRRRMASIFNKTRDHFPSLKDYNDYLEEVEDMTFNLIEGIDVE 60

Query: 58  EFEEKIQEYQKENAEQIMINQARKAEELAAALAASKGISAQDDTNGDPSQSALGGIGVGG 117
             E KI  YQ+ENAEQI +++A++AE+LAAAL AS+ I  + D +   + S+ G  G  G
Sbjct: 61  AIESKIARYQQENAEQIYLSRAKRAEDLAAALKASRMIPVKADPSDMAAGSSQGISGGAG 120

Query: 118 TQGQYVPTLAGG---QPRPTGI-PQPIAHAGGMDLHSYDNEAMMKLRAERGGRAAGWSME 173
            QGQY P    G   QPRPTG+ PQPI   G +D     +E  M+LRAERG RA GW+ E
Sbjct: 121 VQGQYAPAAVPGGLNQPRPTGMAPQPI--GGFVDPLQGHDEETMRLRAERGARAGGWTAE 178

Query: 174 LSKKRALEEAFASIWI 189
           LS+KRALEEAF SI+I
Sbjct: 179 LSRKRALEEAFNSIFI 194

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115485477|ref|NP_001067882.1| Os11g0473100 [Oryza sativa Japonica Group] gi|77550861|gb|ABA93658.1| CDK-activating kinase assembly factor MAT1 family protein, expressed [Oryza sativa Japonica Group] gi|113645104|dbj|BAF28245.1| Os11g0473100 [Oryza sativa Japonica Group] gi|215686811|dbj|BAG89661.1| unnamed protein product [Oryza sativa Japonica Group] gi|218185715|gb|EEC68142.1| hypothetical protein OsI_36068 [Oryza sativa Indica Group] gi|222615949|gb|EEE52081.1| hypothetical protein OsJ_33860 [Oryza sativa Japonica Group]

 Score =  192 bits (487), Expect = 8e-47,   Method: Compositional matrix adjust.
 Identities = 103/188 (54%), Positives = 132/188 (70%), Gaps = 10/188 (5%)

Query: 7   NPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEY 66
           N   +E+ IR+R+ASI+NK ++ F  LK+YNDYLEEVEDM FNL+EG++V E E KI  Y
Sbjct: 13  NAWAKEMTIRRRMASIFNKTQDHFSCLKDYNDYLEEVEDMTFNLIEGIDVEEIEAKIARY 72

Query: 67  QKENAEQIMINQARKAEELAAALAASK---GISAQDDTNGDPSQSALGGIGVGGTQGQYV 123
           Q+ENAEQI +++A++AE+LAAAL AS+   G +A  DT    SQ      GV   QGQY 
Sbjct: 73  QQENAEQIYLSRAKRAEDLAAALKASRMNPGKAAASDTAAGSSQGISSSAGV---QGQYA 129

Query: 124 PTLAG-GQPRPTGI-PQPIAHAGGMDLHSYDNEAMMKLRAERGGRAAGWSMELSKKRALE 181
           P   G  QPRPTG+ PQPI   G  D    D+E  M+LRAERG RA GW++E+ K+RALE
Sbjct: 130 PAAVGMSQPRPTGMAPQPI--GGSSDPLQGDDEETMRLRAERGARAGGWTIEMGKRRALE 187

Query: 182 EAFASIWI 189
           EAF+SI+I
Sbjct: 188 EAFSSIFI 195

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

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	189
TAIR|locus:2126659	178	AT4G30820 [Arabidopsis thalian	0.920	0.977	0.458	4.8e-39
UNIPROTKB|E2QVF4	309	MNAT1 "Uncharacterized protein	0.375	0.229	0.521	1.7e-20
MGI|MGI:106207	309	Mnat1 "menage a trois 1" [Mus	0.375	0.229	0.521	1.7e-20
RGD|628874	309	Mnat1 "menage a trois homolog	0.375	0.229	0.521	1.7e-20
UNIPROTKB|Q3SX39	309	MNAT1 "MNAT1 protein" [Bos tau	0.375	0.229	0.521	2.2e-20
UNIPROTKB|G3V1U8	267	MNAT1 "CDK-activating kinase a	0.375	0.265	0.521	2.2e-20
UNIPROTKB|P51948	309	MNAT1 "CDK-activating kinase a	0.375	0.229	0.521	2.2e-20
UNIPROTKB|E1BVP0	309	MNAT1 "Uncharacterized protein	0.375	0.229	0.492	9.3e-20
ZFIN|ZDB-GENE-041010-203	309	mnat1 "menage a trois homolog	0.370	0.226	0.5	1.1e-18
FB|FBgn0024956	320	Mat1 "Mat1" [Drosophila melano	0.370	0.218	0.5	4.4e-18

TAIR|locus:2126659 AT4G30820 [Arabidopsis thaliana (taxid:3702)]

 Score = 417 (151.9 bits), Expect = 4.8e-39, P = 4.8e-39
 Identities = 88/192 (45%), Positives = 123/192 (64%)

Query:     1 MVISSSNPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFE 60
             +++S+S  QN+E+ +R+RI+ IYN+REE+FPSLK+YNDYLEEVE M+F+L++G+NV   E
Sbjct:     2 VMVSNSTHQNKEIHVRRRISEIYNRREEEFPSLKDYNDYLEEVECMVFDLIDGINVEAIE 61

Query:    61 EKIQEYQKENAEQIMINQARKXXXXXXXXXXSKGISAQDDTNGDPSQSALXXXXXXXXXX 120
             +KI+ Y KENAEQIMIN+ARK           K    Q D +   +              
Sbjct:    62 QKIKRYSKENAEQIMINRARKAEELTAALAACKAKPPQTDADTSSNHGVTAG-------- 113

Query:   121 QYVPTLAGGQPRPTGI-PQPIAHAGGMDLHSY--DNEAMMKLRAERGGRAAGWSMELSKK 177
                 T  G   RPTG+ PQP+   GG +   Y  ++EA  +++AER G   G+S+E+SK+
Sbjct:   114 ----TTYGQASRPTGMGPQPVPIVGGAERQHYAMEDEATRRMKAERAG---GFSLEISKR 166

Query:   178 RALEEAFASIWI 189
             RALEEAFASIW+
Sbjct:   167 RALEEAFASIWV 178

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|E2QVF4 MNAT1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 211 (79.3 bits), Expect = 1.7e-20, Sum P(2) = 1.7e-20
 Identities = 37/71 (52%), Positives = 56/71 (78%)

Query:    10 NRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKE 69
             ++E+ IRK++  IYNKREEDFPSL+EYND+LEEVE+++FNL   V++   ++K++ YQKE
Sbjct:    69 DKEVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVFNLTNNVDLDNTKKKMEMYQKE 128

Query:    70 NAEQIMINQAR 80
             N + I  N+ +
Sbjct:   129 NKDVIQKNKLK 139

GO:0051592 "response to calcium ion" evidence=IEA

GO:0050790 "regulation of catalytic activity" evidence=IEA

GO:0047485 "protein N-terminus binding" evidence=IEA

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

GO:0044236 "multicellular organismal metabolic process" evidence=IEA

GO:0021591 "ventricular system development" evidence=IEA

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IEA

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA

GO:0007512 "adult heart development" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0005675 "holo TFIIH complex" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

MGI|MGI:106207 Mnat1 "menage a trois 1" [Mus musculus (taxid:10090)]

 Score = 211 (79.3 bits), Expect = 1.7e-20, Sum P(2) = 1.7e-20
 Identities = 37/71 (52%), Positives = 56/71 (78%)

Query:    10 NRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKE 69
             ++E+ IRK++  IYNKREEDFPSL+EYND+LEEVE+++FNL   V++   ++K++ YQKE
Sbjct:    69 DKEVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVFNLTNNVDLENTKKKMEIYQKE 128

Query:    70 NAEQIMINQAR 80
             N + I  N+ +
Sbjct:   129 NKDVIQKNKLK 139

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA

GO:0005675 "holo TFIIH complex" evidence=ISO

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

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

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=ISO

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

GO:0006468 "protein phosphorylation" evidence=ISO

GO:0006915 "apoptotic process" evidence=IMP

GO:0007049 "cell cycle" evidence=IEA

GO:0007512 "adult heart development" evidence=IMP

GO:0008270 "zinc ion binding" evidence=IEA

GO:0021591 "ventricular system development" evidence=IMP

GO:0043066 "negative regulation of apoptotic process" evidence=ISO

GO:0044236 "multicellular organismal metabolic process" evidence=IMP

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

GO:0046872 "metal ion binding" evidence=IEA

GO:0047485 "protein N-terminus binding" evidence=ISO

GO:0048661 "positive regulation of smooth muscle cell proliferation" evidence=ISO

GO:0050790 "regulation of catalytic activity" evidence=IMP

GO:0051592 "response to calcium ion" evidence=IMP

RGD|628874 Mnat1 "menage a trois homolog 1, cyclin H assembly factor (Xenopus laevis)" [Rattus norvegicus (taxid:10116)]

 Score = 211 (79.3 bits), Expect = 1.7e-20, Sum P(2) = 1.7e-20
 Identities = 37/71 (52%), Positives = 56/71 (78%)

Query:    10 NRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKE 69
             ++E+ IRK++  IYNKREEDFPSL+EYND+LEEVE+++FNL   V++   ++K++ YQKE
Sbjct:    69 DKEVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVFNLTNNVDLENTKKKMEIYQKE 128

Query:    70 NAEQIMINQAR 80
             N + I  N+ +
Sbjct:   129 NKDVIQKNKLK 139

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=IMP

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=ISO

GO:0005675 "holo TFIIH complex" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=IEA;ISO

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

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=ISO

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

GO:0006468 "protein phosphorylation" evidence=ISO

GO:0006915 "apoptotic process" evidence=IEA;ISO

GO:0007512 "adult heart development" evidence=IEA;ISO

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA;ISO

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IEA;ISO

GO:0021591 "ventricular system development" evidence=IEA;ISO

GO:0043066 "negative regulation of apoptotic process" evidence=IMP

GO:0043231 "intracellular membrane-bounded organelle" evidence=ISO

GO:0044236 "multicellular organismal metabolic process" evidence=IEA;ISO

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA;ISO

GO:0047485 "protein N-terminus binding" evidence=IEA;ISO

GO:0048661 "positive regulation of smooth muscle cell proliferation" evidence=IMP

GO:0050790 "regulation of catalytic activity" evidence=IEA;ISO

GO:0051592 "response to calcium ion" evidence=IEA;ISO

GO:0004672 "protein kinase activity" evidence=ISO

UNIPROTKB|Q3SX39 MNAT1 "MNAT1 protein" [Bos taurus (taxid:9913)]

 Score = 210 (79.0 bits), Expect = 2.2e-20, Sum P(2) = 2.2e-20
 Identities = 37/71 (52%), Positives = 56/71 (78%)

Query:    10 NRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKE 69
             ++E+ IRK++  IYNKREEDFPSL+EYND+LEEVE+++FNL   V++   ++K++ YQKE
Sbjct:    69 DKEVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVFNLTNNVDLDNTKKKMEIYQKE 128

Query:    70 NAEQIMINQAR 80
             N + I  N+ +
Sbjct:   129 NKDVIQKNKLK 139

GO:0051592 "response to calcium ion" evidence=IEA

GO:0050790 "regulation of catalytic activity" evidence=IEA

GO:0047485 "protein N-terminus binding" evidence=IEA

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

GO:0044236 "multicellular organismal metabolic process" evidence=IEA

GO:0021591 "ventricular system development" evidence=IEA

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IEA

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA

GO:0007512 "adult heart development" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0005675 "holo TFIIH complex" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

UNIPROTKB|G3V1U8 MNAT1 "CDK-activating kinase assembly factor MAT1" [Homo sapiens (taxid:9606)]

 Score = 210 (79.0 bits), Expect = 2.2e-20, Sum P(2) = 2.2e-20
 Identities = 37/71 (52%), Positives = 56/71 (78%)

Query:    10 NRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKE 69
             ++E+ IRK++  IYNKREEDFPSL+EYND+LEEVE+++FNL   V++   ++K++ YQKE
Sbjct:    69 DKEVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVFNLTNNVDLDNTKKKMEIYQKE 128

Query:    70 NAEQIMINQAR 80
             N + I  N+ +
Sbjct:   129 NKDVIQKNKLK 139

GO:0005634 "nucleus" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|P51948 MNAT1 "CDK-activating kinase assembly factor MAT1" [Homo sapiens (taxid:9606)]

 Score = 210 (79.0 bits), Expect = 2.2e-20, Sum P(2) = 2.2e-20
 Identities = 37/71 (52%), Positives = 56/71 (78%)

Query:    10 NRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKE 69
             ++E+ IRK++  IYNKREEDFPSL+EYND+LEEVE+++FNL   V++   ++K++ YQKE
Sbjct:    69 DKEVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVFNLTNNVDLDNTKKKMEIYQKE 128

Query:    70 NAEQIMINQAR 80
             N + I  N+ +
Sbjct:   129 NKDVIQKNKLK 139

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

GO:0007512 "adult heart development" evidence=IEA

GO:0021591 "ventricular system development" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=IEA

GO:0044236 "multicellular organismal metabolic process" evidence=IEA

GO:0048661 "positive regulation of smooth muscle cell proliferation" evidence=IEA

GO:0051592 "response to calcium ion" evidence=IEA

GO:0004672 "protein kinase activity" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IDA

GO:0047485 "protein N-terminus binding" evidence=IPI

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

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

GO:0005675 "holo TFIIH complex" evidence=IDA

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IDA

GO:0008094 "DNA-dependent ATPase activity" evidence=IDA

GO:0000079 "regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=TAS

GO:0006461 "protein complex assembly" evidence=TAS

GO:0008283 "cell proliferation" evidence=TAS

GO:0000080 "G1 phase of mitotic cell cycle" evidence=TAS

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=TAS

GO:0000084 "S phase of mitotic cell cycle" evidence=TAS

GO:0000086 "G2/M transition of mitotic cell cycle" evidence=TAS

GO:0000278 "mitotic cell cycle" evidence=TAS

GO:0000718 "nucleotide-excision repair, DNA damage removal" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006281 "DNA repair" evidence=TAS

GO:0006283 "transcription-coupled nucleotide-excision repair" evidence=TAS

GO:0006289 "nucleotide-excision repair" evidence=TAS

GO:0006360 "transcription from RNA polymerase I promoter" evidence=TAS

GO:0006361 "transcription initiation from RNA polymerase I promoter" evidence=TAS

GO:0006362 "transcription elongation from RNA polymerase I promoter" evidence=TAS

GO:0006363 "termination of RNA polymerase I transcription" 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:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

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

GO:0006468 "protein phosphorylation" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0043231 "intracellular membrane-bounded organelle" evidence=IDA

UNIPROTKB|E1BVP0 MNAT1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 204 (76.9 bits), Expect = 9.3e-20, Sum P(2) = 9.3e-20
 Identities = 35/71 (49%), Positives = 54/71 (76%)

Query:    10 NRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKE 69
             ++E+ IRK++  IYNKRE+DFPSL EYND+LEE+E+++FNL   V++   + K++ YQK+
Sbjct:    69 DKEVEIRKKVLKIYNKREDDFPSLSEYNDFLEEIEEIVFNLTNNVDLENTKRKMELYQKD 128

Query:    70 NAEQIMINQAR 80
             N E I  N+ +
Sbjct:   129 NKEVIQKNKIK 139

GO:0007049 "cell cycle" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005675 "holo TFIIH complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

GO:0006915 "apoptotic process" evidence=IEA

GO:0007512 "adult heart development" evidence=IEA

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IEA

GO:0021591 "ventricular system development" evidence=IEA

GO:0044236 "multicellular organismal metabolic process" evidence=IEA

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

GO:0047485 "protein N-terminus binding" evidence=IEA

GO:0050790 "regulation of catalytic activity" evidence=IEA

GO:0051592 "response to calcium ion" evidence=IEA

ZFIN|ZDB-GENE-041010-203 mnat1 "menage a trois homolog 1" [Danio rerio (taxid:7955)]

 Score = 199 (75.1 bits), Expect = 1.1e-18, Sum P(2) = 1.1e-18
 Identities = 35/70 (50%), Positives = 54/70 (77%)

Query:    11 RELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKEN 70
             +E+ IRK++  IYNKRE DF SL EYNDYLE+VED++FNL   ++V   ++K+++YQ++N
Sbjct:    70 KEVEIRKKVLKIYNKREFDFSSLTEYNDYLEQVEDIVFNLANNMDVEMTKQKMEQYQRDN 129

Query:    71 AEQIMINQAR 80
              + I  N+A+
Sbjct:   130 KDVIQRNKAK 139

GO:0007049 "cell cycle" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

FB|FBgn0024956 Mat1 "Mat1" [Drosophila melanogaster (taxid:7227)]

 Score = 195 (73.7 bits), Expect = 4.4e-18, Sum P(2) = 4.4e-18
 Identities = 35/70 (50%), Positives = 52/70 (74%)

Query:    11 RELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKEN 70
             +E+ IR+RI   YNKREEDF SL EYNDYLEE+ED+++NL   +++ E  ++I+ Y+++N
Sbjct:    70 KEVDIRRRILRDYNKREEDFASLAEYNDYLEEIEDIVYNLCNNIDIIETNKRIEAYKRDN 129

Query:    71 AEQIMINQAR 80
              E I  N+ R
Sbjct:   130 REVIQRNKTR 139

GO:0005675 "holo TFIIH complex" evidence=ISS;IDA

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

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IDA

GO:0004693 "cyclin-dependent protein serine/threonine kinase activity" evidence=IDA

GO:0032806 "carboxy-terminal domain protein kinase complex" evidence=IDA

GO:0007049 "cell cycle" evidence=IEA

GO:0008270 "zinc ion 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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	189
pfam06391	200	pfam06391, MAT1, CDK-activating kinase assembly fa	4e-28
TIGR00570	309	TIGR00570, cdk7, CDK-activating kinase assembly fa	3e-27
COG5220	314	COG5220, TFB3, Cdk activating kinase (CAK)/RNA pol	1e-19

>gnl|CDD|115072 pfam06391, MAT1, CDK-activating kinase assembly factor MAT1

 Score =  104 bits (260), Expect = 4e-28
 Identities = 49/82 (59%), Positives = 62/82 (75%), Gaps = 3/82 (3%)

Query: 11 RELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKEN 70
          +E+ IRKRI  I+NKREEDFPSL+EYNDYLEEVE ++FNL  G++V E EEK+ +Y+KEN
Sbjct: 18 KEVDIRKRILKIFNKREEDFPSLREYNDYLEEVETIVFNLTNGIDVEETEEKVDQYEKEN 77

Query: 71 AEQIMIN---QARKAEELAAAL 89
           + IM N     R+ EEL  AL
Sbjct: 78 KDSIMRNKRRLTREQEELEQAL 99

MAT1 is an assembly/targeting factor for cyclin-dependent kinase-activating kinase (CAK), which interacts with the transcription factor TFIIH. The domain found to the N-terminal side of this domain is a C3HC4 RING finger. Length = 200

>gnl|CDD|129661 TIGR00570, cdk7, CDK-activating kinase assembly factor MAT1

 Score =  104 bits (260), Expect = 3e-27
 Identities = 46/86 (53%), Positives = 61/86 (70%), Gaps = 3/86 (3%)

Query: 11  RELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKEN 70
           +E+ IRKR+  IYNKREEDFPSL+EYNDYLEEVED+++NL   +++   ++KI+ YQKEN
Sbjct: 70  KEVDIRKRVLKIYNKREEDFPSLREYNDYLEEVEDIVYNLTNNIDLENTKKKIETYQKEN 129

Query: 71  AEQIMIN---QARKAEELAAALAASK 93
            + I  N     R+ EEL  AL   K
Sbjct: 130 KDVIQKNKEKSTREQEELEEALEFEK 155

All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 309

>gnl|CDD|227545 COG5220, TFB3, Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]

 Score = 83.9 bits (207), Expect = 1e-19
 Identities = 32/76 (42%), Positives = 53/76 (69%), Gaps = 1/76 (1%)

Query: 11  RELAIRKRIASIYNKREEDF-PSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKE 69
           +E+ +RKR+   +NK EE+F   L +YNDYLEEVE+++F L+E ++V   EEK+++Y++ 
Sbjct: 80  KEVDVRKRLLRAFNKEEEEFGGDLAKYNDYLEEVEELVFELLELIDVSLTEEKVKKYEEM 139

Query: 70  NAEQIMINQARKAEEL 85
           N + I+ N  R   E+
Sbjct: 140 NQDSILNNLERPTPEV 155

Length = 314

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	189
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	100.0
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	100.0
PF06391	200	MAT1: CDK-activating kinase assembly factor MAT1;	99.97
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	99.97
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	96.9

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=100.00  E-value=6.9e-47  Score=335.76  Aligned_cols=182  Identities=31%  Similarity=0.418  Sum_probs=139.9

Q ss_pred             CCCchhHHHHHHHHHHHHhcccCCCCCChHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 041187            5 SSNPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKENAEQIMINQARKAEE   84 (189)
Q Consensus         5 ~~~~~ekEv~iRkrv~~ifNk~e~DF~~l~~YNdYLE~vEdiifnL~~g~d~~~te~~l~~y~~~n~~~I~~n~~~~~ee   84 (189)
                      .+..+||||+|||||++||||+++||+||++||||||+||||||||+||+|+++||++|++|+++|+.+|.+|+++..++
T Consensus        64 ~D~~vekEV~iRkrv~~i~Nk~e~dF~~l~~yNdYLE~vEdii~nL~~~~d~~~te~~l~~y~~~n~~~I~~n~~~~~~e  143 (309)
T TIGR00570        64 EDPTVEKEVDIRKRVLKIYNKREEDFPSLREYNDYLEEVEDIVYNLTNNIDLENTKKKIETYQKENKDVIQKNKEKSTRE  143 (309)
T ss_pred             ccHHHHHHHHHHHHHHHHHccchhccCCHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHHHhHHHHHHHHHHHHhH
Confidence            35556999999999999999999999999999999999999999999999999999999999999999999999988777


Q ss_pred             HHHH---HHHhccccccc-------CcCCCC------------CccccCCC----cc-------CCCCCCcc--------
Q 041187           85 LAAA---LAASKGISAQD-------DTNGDP------------SQSALGGI----GV-------GGTQGQYV--------  123 (189)
Q Consensus        85 ~~~~---~~~ek~~~~q~-------~~ee~~------------~~~~~~~~----~~-------~~~~g~~~--------  123 (189)
                      .+..   +++|++.++++       +.+|++            |+++..+.    +.       +++++..+        
T Consensus       144 ~~~~~~~~~~E~~~~~~rr~~~~~~e~ee~~~~~~~~~~~ld~L~~s~~~~~~~i~~~~~~~~~~k~~~~r~~~~~~~~~  223 (309)
T TIGR00570       144 QEELEEALEFEKEEEEQRRLLLQKEEEEQQMNKRKNKQALLDELETSTLPAAELIAQHKKNSVKLEMQVEKPKPEKPNTF  223 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhhhhhccccchhhh
Confidence            7766   56666666553       222221            44433221    10       11111111        


Q ss_pred             ------ccccCC-----CCCCCCCCCCcccCCCCCCC--------CCCcHHHHHHHh-hccccccccchHHHHHHHHHHH
Q 041187          124 ------PTLAGG-----QPRPTGIPQPIAHAGGMDLH--------SYDNEAMMKLRA-ERGGRAAGWSMELSKKRALEEA  183 (189)
Q Consensus       124 ------~~i~g~-----~~~~~~~~~P~P~~GG~~~~--------~y~d~~~~~~R~-~~~~~AGGys~~~~~~RaL~EA  183 (189)
                            |...++     .+.|..||+||   ||....        .|.+.|+..+|. ++.++||||++++|+.|||+||
T Consensus       224 ~~~~~~~~~~~~~~~~~~~~~~~py~Pf---~g~~~~p~~y~~~~~~~~~y~~~~r~~~~~~~aGGy~~~~~~~RaL~EA  300 (309)
T TIGR00570       224 STGIKMGYQISLVPVQKSEEALYPYQPL---NIETEGPPVPTLEELVRQGYLNHVRAASPQDIAGGYTSNLACERALQEA  300 (309)
T ss_pred             hhcccccccccccccCCCCCCCCCcCCC---CCCCCCCCCCCccccccccHHHHHhccCcccccCCcCHHHHHHHHHHHH
Confidence                  211111     12245689988   776643        358999999988 8899999999999999999999


Q ss_pred             hhccCC
Q 041187          184 FASIWI  189 (189)
Q Consensus       184 Fsgl~~  189 (189)
                      |+||+|
T Consensus       301 F~GL~~  306 (309)
T TIGR00570       301 FSGLFW  306 (309)
T ss_pred             HccCCc
Confidence            999987

All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]

Probab=100.00  E-value=1.3e-35  Score=257.65  Aligned_cols=183  Identities=27%  Similarity=0.393  Sum_probs=127.2

Q ss_pred             CCchhHHHHHHHHHHHHhcccCCCCC-ChHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 041187            6 SNPQNRELAIRKRIASIYNKREEDFP-SLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKENAEQIMINQARKAEE   84 (189)
Q Consensus         6 ~~~~ekEv~iRkrv~~ifNk~e~DF~-~l~~YNdYLE~vEdiifnL~~g~d~~~te~~l~~y~~~n~~~I~~n~~~~~ee   84 (189)
                      +.++||||||||||+.+|||+++||. ||.+||||||+||+|||+|+++|||+.||.|+++|++.|+++|+.|-+|..-|
T Consensus        75 D~~vEkEvdvRkr~~r~Fnk~~~eF~gdl~~YNdYLEevE~l~f~l~~~idv~~teEKvk~yee~n~dsI~nN~~R~~~e  154 (314)
T COG5220          75 DITVEKEVDVRKRLLRAFNKEEEEFGGDLAKYNDYLEEVEELVFELLELIDVSLTEEKVKKYEEMNQDSILNNLERPTPE  154 (314)
T ss_pred             hhhhhhhhhHHHHHHHHhccchhhhCccHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHhhccccCCcc
Confidence            56789999999999999999999998 99999999999999999999999999999999999999999999986543332


Q ss_pred             HH---------HHHHHhcccc-cccCcCCCC--CccccCCC---cc---------------CCCCCCccc----------
Q 041187           85 LA---------AALAASKGIS-AQDDTNGDP--SQSALGGI---GV---------------GGTQGQYVP----------  124 (189)
Q Consensus        85 ~~---------~~~~~ek~~~-~q~~~ee~~--~~~~~~~~---~~---------------~~~~g~~~~----------  124 (189)
                      .+         .++..++.++ +|.+.+|+.  .|+.++.+   ++               .+.+....|          
T Consensus       155 ~~~~~q~~~l~kr~K~kkR~~~~q~~eeEr~~kE~~kkeI~~~l~t~~~D~Nkti~~~~~s~k~~~e~~~r~v~e~~rnn  234 (314)
T COG5220         155 VMPGKQKNVLQKRMKLKKRQLERQIEEEERMNKEWTKKEIGNRLGTASEDGNKTIKIGIISDKFDPEELPRIVVEPTRNN  234 (314)
T ss_pred             cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccCcchhhhhcccccccCHHHHhHHHhccccCC
Confidence            22         2222222222 222333322  22222211   11               111111111          


Q ss_pred             --cccCCCCCCCCCCCCcccCCCCCCC--------CCCcHHHHHHHhhccccccccchHHHHHHHHHHHhhccCC
Q 041187          125 --TLAGGQPRPTGIPQPIAHAGGMDLH--------SYDNEAMMKLRAERGGRAAGWSMELSKKRALEEAFASIWI  189 (189)
Q Consensus       125 --~i~g~~~~~~~~~~P~P~~GG~~~~--------~y~d~~~~~~R~~~~~~AGGys~~~~~~RaL~EAFsgl~~  189 (189)
                        ...+.+.......++.|+.|..+.|        .|.||.++++-+ ..++|+||.+.++|.|+|+|||+||-|
T Consensus       235 ~i~lsnVq~~~kD~~Pf~P~~g~~~~~~~fsl~~s~y~dp~ik~l~H-k~~~~~GF~~~~~~~R~L~EAF~Gl~~  308 (314)
T COG5220         235 KIYLSNVQGFLKDLQPFAPGGGSYNAHTIFSLAISSYGDPNIKDLEH-KEFIASGFNTNYAYERVLTEAFMGLGC  308 (314)
T ss_pred             ceechhhhhhHhhcCCCCCCCCCcCCceeEEEeccccCCcchhhhcc-chhhhcCcccHHHHHHHHHHHHccCCe
Confidence              1112222222222334445666555        479999999999 459999999999999999999999965

>PF06391 MAT1: CDK-activating kinase assembly factor MAT1; InterPro: IPR015877 MAT1 (menage a trois 1) is a RING finger protein with a characteristic C3HC4 motif located in the N-terminal domain

Probab=99.97  E-value=6.3e-33  Score=234.17  Aligned_cols=93  Identities=51%  Similarity=0.779  Sum_probs=0.0

Q ss_pred             CchhHHHHHHHHHHHHhcccCCCCCChHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 041187            7 NPQNRELAIRKRIASIYNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKENAEQIMINQARKAEELA   86 (189)
Q Consensus         7 ~~~ekEv~iRkrv~~ifNk~e~DF~~l~~YNdYLE~vEdiifnL~~g~d~~~te~~l~~y~~~n~~~I~~n~~~~~ee~~   86 (189)
                      ..|||||+|||||++||||+++||+||++||||||+||||||||++|+|+++|+++|++|+++|+++|.+|+++..++..
T Consensus        14 ~~VekEv~iRkrV~~ifNk~eeDF~~l~~YNdYLE~vE~iifnL~~~idv~~te~~l~~y~~~n~~~I~~N~~~~~~e~~   93 (200)
T PF06391_consen   14 LGVEKEVDIRKRVLKIFNKREEDFESLREYNDYLEEVEDIIFNLVNGIDVEETEAKLAQYERENKDEIERNKARASEEQE   93 (200)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             hhHHHHHHHHHHHHHHHccChhhcCCHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            45699999999999999999999999999999999999999999999999999999999999999999999988777766


Q ss_pred             HH---HHHhccccccc
Q 041187           87 AA---LAASKGISAQD   99 (189)
Q Consensus        87 ~~---~~~ek~~~~q~   99 (189)
                      ..   +..|+..+.++
T Consensus        94 ~~~~~~~~Ek~~~~~r  109 (200)
T PF06391_consen   94 ELEQQQEAEKEQKEER  109 (200)
T ss_dssp             ----------------
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            66   44455554333

This entry represents the central region of MAT1. MAT1 stabilises the cyclin H-CDK7 complex to form a functional CDK-activating kinase (CAK) enzymatic complex which then goes on to activate many of the CDK enzymes intimately involved in the cell cycle []. CDK7 forms a stable complex with cyclin H and MAT1 in vivo only when phosphorylated on either one of two residues (Ser164 or Thr170) in its T-loop. The requirement for MAT1 for the activation of CAK can be by-passed by the phosphorylation of CDK7 on the T-loop. The two mechanisms for CDK7 complex stabilisation and activation (MAT1 addition and T-loop phosphorylation), which can operate independently in vitro, actually cooperate under physiological conditions to maintain complex integrity. With prolonged exposure to elevated temperature, dissociation to monomeric subunits occurs in vivo when CDK7 is dephosphorylated, even in the presence of MAT1 []. The Cyclin H-MAT1-CDK7 complex also forms part of TFIIH, a multiprotein complex required for both transcription and DNA repair.; GO: 0007049 cell cycle, 0005634 nucleus; PDB: 1G25_A.

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=4.1e-31  Score=232.85  Aligned_cols=183  Identities=29%  Similarity=0.396  Sum_probs=125.2

Q ss_pred             CchhHHHHHHHHHHHHhcccCCCCC-ChHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHhHHHHHHHHHHH---H
Q 041187            7 NPQNRELAIRKRIASIYNKREEDFP-SLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKENAEQIMINQARK---A   82 (189)
Q Consensus         7 ~~~ekEv~iRkrv~~ifNk~e~DF~-~l~~YNdYLE~vEdiifnL~~g~d~~~te~~l~~y~~~n~~~I~~n~~~~---~   82 (189)
                      .++||||+|||||++||||+++||. ||.+||||||+||||||||++++|+..|+++++.|++.|+++|..|..|.   +
T Consensus        63 ~~vekEv~iRrri~~~~nk~~eeF~~~LaeyndylEe~Ediv~nl~~~~dv~~t~~k~~~ye~~nk~~I~~n~~R~~~~~  142 (300)
T KOG3800|consen   63 PTVEKEVDIRRRILRIFNKKEEEFTGSLAEYNDYLEEVEDIVFNLGNNIDVTETKEKVKTYEEPNKDSIQNNKERVHREQ  142 (300)
T ss_pred             hHHHHHHHHHHHHHHHhccchhhhhhhHHHHhcccHHHHHHHHHhhcccchhHHHHHHHHhhccCcccccCChhhcchHH
Confidence            3459999999999999999999999 99999999999999999999999999999999999999999999997653   3


Q ss_pred             HHHHHHHHHhccccccc------CcCCCC--------------CccccCC-C--cc----CCCCCCccc-c------cc-
Q 041187           83 EELAAALAASKGISAQD------DTNGDP--------------SQSALGG-I--GV----GGTQGQYVP-T------LA-  127 (189)
Q Consensus        83 ee~~~~~~~ek~~~~q~------~~ee~~--------------~~~~~~~-~--~~----~~~~g~~~~-~------i~-  127 (189)
                      +..+.++..+|.+..++      ++.+..              |..+.+. +  .+    .+++....| +      |+ 
T Consensus       143 e~~e~~l~~ekr~~~~~r~~~~r~~~ee~~~s~~~~~~ei~~~L~~s~qd~~~~i~~~~~~~~qq~~~~~~~s~nt~ir~  222 (300)
T KOG3800|consen  143 EDLEQRLELEKRQKEFRREELEREAQEEEIASAWVDKQEIIDELYTSDQDPNKVITLSKHKKKQQARKPASTSFNTIIRV  222 (300)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCchhhhhhhhhhhhhccCCCccccchhheeec
Confidence            33444444444444222      111100              2222211 0  00    111111111 1      11 


Q ss_pred             ---CCCCCC---CC-CCCCcccCCCCCCCC--------CCcHHHHHHHhhccccccccchHHHHHHHHHHHhhccCC
Q 041187          128 ---GGQPRP---TG-IPQPIAHAGGMDLHS--------YDNEAMMKLRAERGGRAAGWSMELSKKRALEEAFASIWI  189 (189)
Q Consensus       128 ---g~~~~~---~~-~~~P~P~~GG~~~~~--------y~d~~~~~~R~~~~~~AGGys~~~~~~RaL~EAFsgl~~  189 (189)
                         ++-+.+   .+ .+++-|+.|....+.        |.+....+.-+.+..+||||.....+.|||+|||+||++
T Consensus       223 ~~~s~~~~~n~~~~~~~pf~pl~~~~~g~~~~~~~~~v~~~~~~~~r~~~~~~~aggf~~~~~~~r~l~ea~~Gl~~  299 (300)
T KOG3800|consen  223 SSISLEPNENSEESAAFPFEPLRGEKEGPPMPGTKKIVARGYFAHIRAHTPEELAGGFTSNLACERALQEAFSGLFY  299 (300)
T ss_pred             cccccccchhhhhccccccccccccccCCCCcChhhhhhhhhhHHhhcCChHHhhcCCcchHHHHHHHHHHhccccc
Confidence               111221   22 344445566555442        356666666668899999999999999999999999985

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.90  E-value=0.00012  Score=65.81  Aligned_cols=152  Identities=16%  Similarity=0.101  Sum_probs=108.0

Q ss_pred             hcccCCCCCChHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhcccccccCcC
Q 041187           23 YNKREEDFPSLKEYNDYLEEVEDMIFNLVEGVNVHEFEEKIQEYQKENAEQIMINQARKAEELAAALAASKGISAQDDTN  102 (189)
Q Consensus        23 fNk~e~DF~~l~~YNdYLE~vEdiifnL~~g~d~~~te~~l~~y~~~n~~~I~~n~~~~~ee~~~~~~~ek~~~~q~~~e  102 (189)
                      +|.++.-|++|-.||+|+.. |++++-+.++..+...|..+.+|+.+++..|.++-.|++++....+++-.....+-  +
T Consensus        25 H~lCEsCvd~iF~~g~~~Cp-eC~~iLRk~nfr~q~fED~~vekEv~iRrri~~~~nk~~eeF~~~LaeyndylEe~--E  101 (300)
T KOG3800|consen   25 HRLCESCVDRIFSLGPAQCP-ECMVILRKNNFRVQTFEDPTVEKEVDIRRRILRIFNKKEEEFTGSLAEYNDYLEEV--E  101 (300)
T ss_pred             chHHHHHHHHHHhcCCCCCC-cccchhhhcccchhhcchhHHHHHHHHHHHHHHHhccchhhhhhhHHHHhcccHHH--H
Confidence            56778889999999999999 99999999999999999999999999999999999999999886666554443321  0


Q ss_pred             CCCCccccCCCccCCCCCCccccccCCCCCCCC-CCCCcccCCCCCCCCCCcHHHHHHHhhccccccccchHHHHHHHHH
Q 041187          103 GDPSQSALGGIGVGGTQGQYVPTLAGGQPRPTG-IPQPIAHAGGMDLHSYDNEAMMKLRAERGGRAAGWSMELSKKRALE  181 (189)
Q Consensus       103 e~~~~~~~~~~~~~~~~g~~~~~i~g~~~~~~~-~~~P~P~~GG~~~~~y~d~~~~~~R~~~~~~AGGys~~~~~~RaL~  181 (189)
                      +   -+.+.+.        ..-...+-..+++. .+.|.|+.++.....|+-+|+...+.. .=++||++.+..-+++..
T Consensus       102 d---iv~nl~~--------~~dv~~t~~k~~~ye~~nk~~I~~n~~R~~~~~e~~e~~l~~-ekr~~~~~r~~~~r~~~e  169 (300)
T KOG3800|consen  102 D---IVFNLGN--------NIDVTETKEKVKTYEEPNKDSIQNNKERVHREQEDLEQRLEL-EKRQKEFRREELEREAQE  169 (300)
T ss_pred             H---HHHHhhc--------ccchhHHHHHHHHhhccCcccccCChhhcchHHHHHHHHHHH-HHHhhhHHHHHHHHHHHH
Confidence            0   0111111        00011111222221 234445578888777876666543332 235889999999999999


Q ss_pred             HHhhccCC
Q 041187          182 EAFASIWI  189 (189)
Q Consensus       182 EAFsgl~~  189 (189)
                      |+|.+.|+
T Consensus       170 e~~~s~~~  177 (300)
T KOG3800|consen  170 EEIASAWV  177 (300)
T ss_pred             HHHHHHhc
Confidence            99999994

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Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

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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	189
d1gm5a1	99	a.24.21.1 (A:7-105) RecG, N-terminal domain {Therm	0.004

Homologous Domains Detected by HHsearch

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

No hit with probability above 80.00