Citrus Sinensis ID: 039685

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-
Protein Sequence
MDPEGKNFGRGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRKGEGMQLDQLIQNTSRDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP
Secondary Structure (PSIPRED)
ccccccccccccccccHHHHHHHHcccccccccccccccccccHHHHHHHcccccEEEEccccccHHHHHHccccccccccccccHHHHHHHHHccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHHHHHHHHHHccccccHHccccccccEEccccHHHccccccEEEccccccHHHHHcccccccccccccccHHHHHHHHHHHHcccccccccccccc
Coil and Loop (DISEMBL)
mdpegknfgrgprelTGAVDLIshykllphhdffckrslplsisdthylhnvvgdteirkgegmqLDQLIQNtsrdtsariqpfDLDVLREAFqlretspvdlppvrnpip
Flexible Loop (DISEMBL)
mdpegknfgrgpreLTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRKGEGMQLDQLIQNtsrdtsariQPFDLDVLREAFqlretspvdlppvrnpip
Low Complexity Region (SEG)
MDPEGKNFGRGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRKGEGMQLDQLIQNTSRDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP
Disordered region (IsUnstruct)
**************LTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRKG*********************PFDLDVLREAF******************
Disordered Region (DISOPRED)
************RELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRKGEGMQLDQLIQN*****SARIQPFDLDVLREAFQLRETSPVDL********
Disordered Region (DISEMBL)
********GRGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRKGEGMQLDQLIQNTSRDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP
Disordered Region (DISPRO)
*********RGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRKGEGMQLDQLIQNTSRDTSARIQPFDLDVLREAFQLRETSPVDLP*******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MDPEGKNFGRGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRKGEGMQLDQLIQNTSRDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP
Positional Conservation
no confident homologs detected

---

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	111	2.2.26 [Sep-21-2011]
Q6NQD9	207	Probable mediator of RNA	yes	no	0.990	0.531	0.701	4e-40
Q9FMP0	221	Mediator of RNA polymeras	no	no	0.990	0.497	0.663	2e-38

>sp|Q6NQD9|MD19B_ARATH Probable mediator of RNA polymerase II transcription subunit 19b OS=Arabidopsis thaliana GN=MED19B PE=2 SV=1

 Score =  162 bits (411), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 80/114 (70%), Positives = 93/114 (81%), Gaps = 4/114 (3%)

Query: 1   MDPEGKNFGRGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRK 60
           M+ E   FG GPREL GA+DLI+ YKLLPHH+FFCKRSLP S+SD HYLHN+VGDTEIRK
Sbjct: 1   MESESVKFG-GPRELGGALDLITQYKLLPHHEFFCKRSLPESLSDAHYLHNLVGDTEIRK 59

Query: 61  GEGMQLDQLIQN---TSRDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP 111
           GEGMQLDQLI N   +SRDT+ARIQPF LD L+EAF+L +T+PV+LPP     P
Sbjct: 60  GEGMQLDQLIPNASLSSRDTNARIQPFVLDELKEAFELNDTAPVELPPAEKGAP 113

Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9FMP0|MD19A_ARATH Mediator of RNA polymerase II transcription subunit 19a OS=Arabidopsis thaliana GN=MED19A PE=1 SV=1

 Score =  157 bits (396), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 75/113 (66%), Positives = 93/113 (82%), Gaps = 3/113 (2%)

Query: 1   MDPEGKNFGRGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRK 60
           M+PE   FG GPREL GA DLIS +KL+ HH+FFCK+SLP+S+SD+HYLHNVVGDTEIRK
Sbjct: 1   MEPERLKFG-GPRELCGAADLISQFKLVQHHEFFCKKSLPVSLSDSHYLHNVVGDTEIRK 59

Query: 61  GEGMQLDQLIQNT--SRDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP 111
           GEGMQLDQLI++   SR+T+ RIQPFD+D L+E+FQL + +PV+LPP     P
Sbjct: 60  GEGMQLDQLIESISQSRETNIRIQPFDIDELQESFQLNDMTPVELPPAEKGAP 112

Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.

Arabidopsis thaliana (taxid: 3702)

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	111
255583391	221	RNA binding protein, putative [Ricinus c	1.0	0.502	0.823	5e-49
356520306	223	PREDICTED: uncharacterized protein LOC10	1.0	0.497	0.823	6e-49
356560495	222	PREDICTED: uncharacterized protein LOC10	1.0	0.5	0.830	2e-48
449462429	219	PREDICTED: mediator of RNA polymerase II	1.0	0.506	0.823	2e-47
224102933	218	predicted protein [Populus trichocarpa]	0.909	0.463	0.841	4e-45
224132222	220	predicted protein [Populus trichocarpa]	0.909	0.459	0.841	7e-45
357156247	205	PREDICTED: uncharacterized protein LOC10	1.0	0.541	0.767	2e-43
218187244	220	hypothetical protein OsI_39104 [Oryza sa	1.0	0.504	0.75	7e-43
358346381	219	hypothetical protein MTR_078s1015 [Medic	1.0	0.506	0.714	9e-43
194694216	205	unknown [Zea mays] gi|414868952|tpg|DAA4	1.0	0.541	0.75	4e-42

>gi|255583391|ref|XP_002532456.1| RNA binding protein, putative [Ricinus communis] gi|223527846|gb|EEF29942.1| RNA binding protein, putative [Ricinus communis]

 Score =  197 bits (502), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 93/113 (82%), Positives = 103/113 (91%), Gaps = 2/113 (1%)

Query: 1   MDPEGKNFGRGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRK 60
           MDPE K FG GPRELTGAVDLISH+KL+PHH+FFCKRSLPLSISDTHYLHNVVGD+EIRK
Sbjct: 1   MDPESKKFGSGPRELTGAVDLISHFKLVPHHEFFCKRSLPLSISDTHYLHNVVGDSEIRK 60

Query: 61  GEGMQLDQLIQNT--SRDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP 111
           G+GMQLDQLIQNT  SRD++ARIQPFDLDVLREAFQL+ET+P+DLPP     P
Sbjct: 61  GDGMQLDQLIQNTSYSRDSNARIQPFDLDVLREAFQLKETTPIDLPPAEKGTP 113

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356520306|ref|XP_003528804.1| PREDICTED: uncharacterized protein LOC100814559 [Glycine max]

 Score =  197 bits (501), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 93/113 (82%), Positives = 104/113 (92%), Gaps = 2/113 (1%)

Query: 1   MDPEGKNFGRGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRK 60
           MDPEGK FG GPRELTGAVDLISH+KLLPH++FFCKRSLP+SI+DTHYLHNVVGDTEIRK
Sbjct: 1   MDPEGKKFGGGPRELTGAVDLISHFKLLPHYEFFCKRSLPVSIADTHYLHNVVGDTEIRK 60

Query: 61  GEGMQLDQLIQNTS--RDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP 111
           G+GMQL+QLIQNTS  RDT+ARIQPFDLDVL+EAFQLRET+P+DLP     IP
Sbjct: 61  GDGMQLEQLIQNTSSFRDTNARIQPFDLDVLKEAFQLRETAPIDLPAAEKGIP 113

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356560495|ref|XP_003548527.1| PREDICTED: uncharacterized protein LOC100818495 [Glycine max]

 Score =  196 bits (498), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 93/112 (83%), Positives = 103/112 (91%), Gaps = 1/112 (0%)

Query: 1   MDPEGKNFGRGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRK 60
           MDPEGK FG GPRELTGAVDLISH+KLLPH++FFCKR LP+SI+DTHYLHNVVGDTEIRK
Sbjct: 1   MDPEGKKFGGGPRELTGAVDLISHFKLLPHYEFFCKRPLPVSIADTHYLHNVVGDTEIRK 60

Query: 61  GEGMQLDQLIQNTS-RDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP 111
           G+GMQLDQLIQNTS RDT+ARIQPFDLDVL+EAFQLRET+P+DLP     IP
Sbjct: 61  GDGMQLDQLIQNTSFRDTNARIQPFDLDVLKEAFQLRETAPIDLPAAEKGIP 112

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449462429|ref|XP_004148943.1| PREDICTED: mediator of RNA polymerase II transcription subunit 19a-like [Cucumis sativus] gi|449502064|ref|XP_004161533.1| PREDICTED: mediator of RNA polymerase II transcription subunit 19a-like [Cucumis sativus]

 Score =  192 bits (489), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 93/113 (82%), Positives = 100/113 (88%), Gaps = 2/113 (1%)

Query: 1   MDPEGKNFGRGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRK 60
           M+ E K FGRGPRELTGAVDLISHYKLLPHHDFFCK+SLPLSISDTHYLHNVVGDTEIRK
Sbjct: 1   MESEDKKFGRGPRELTGAVDLISHYKLLPHHDFFCKKSLPLSISDTHYLHNVVGDTEIRK 60

Query: 61  GEGMQLDQLIQNTS--RDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP 111
           GEGMQL+QLIQNTS  R+T+ARIQPFD D+L EAFQLRET PVDLP     +P
Sbjct: 61  GEGMQLNQLIQNTSYPRETNARIQPFDQDILIEAFQLRETGPVDLPSAEKGVP 113

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224102933|ref|XP_002312859.1| predicted protein [Populus trichocarpa] gi|222849267|gb|EEE86814.1| predicted protein [Populus trichocarpa]

 Score =  184 bits (468), Expect = 4e-45,   Method: Compositional matrix adjust.
 Identities = 85/101 (84%), Positives = 95/101 (94%)

Query: 11  GPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRKGEGMQLDQLI 70
           GPRELTGAVDLISHYKLLPH+++FCKRSLPLSI+DTHYLHNVVGDTEIRKGEGMQLDQLI
Sbjct: 10  GPRELTGAVDLISHYKLLPHYEYFCKRSLPLSIADTHYLHNVVGDTEIRKGEGMQLDQLI 69

Query: 71  QNTSRDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP 111
           QNTSRD++ARIQPFDL+VLREAFQL+ET+P+DLP      P
Sbjct: 70  QNTSRDSNARIQPFDLNVLREAFQLKETTPIDLPSAEKGTP 110

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224132222|ref|XP_002328215.1| predicted protein [Populus trichocarpa] gi|222837730|gb|EEE76095.1| predicted protein [Populus trichocarpa]

 Score =  184 bits (466), Expect = 7e-45,   Method: Compositional matrix adjust.
 Identities = 85/101 (84%), Positives = 94/101 (93%)

Query: 11  GPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRKGEGMQLDQLI 70
           GPRELTGAVDLISH+KLLPHH+FFCKRSLPLSI+DTHYLHNVVGDTEIRKGEGMQLDQLI
Sbjct: 10  GPRELTGAVDLISHFKLLPHHEFFCKRSLPLSIADTHYLHNVVGDTEIRKGEGMQLDQLI 69

Query: 71  QNTSRDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP 111
           QNTSRD++A I+PFDLDVLREAFQL+ET+P+DLP      P
Sbjct: 70  QNTSRDSNAHIEPFDLDVLREAFQLKETTPIDLPSAEKGTP 110

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357156247|ref|XP_003577391.1| PREDICTED: uncharacterized protein LOC100845126 [Brachypodium distachyon]

 Score =  179 bits (454), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 86/112 (76%), Positives = 94/112 (83%), Gaps = 1/112 (0%)

Query: 1   MDPEGKNFGRGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRK 60
           MDP+GK FG GPRELTGAVDLIS YKL PHHDFFCKR LPL+ISDTHYLHNVVGDTEIRK
Sbjct: 1   MDPDGKKFGTGPRELTGAVDLISQYKLQPHHDFFCKRPLPLAISDTHYLHNVVGDTEIRK 60

Query: 61  GEGMQLDQLIQNTS-RDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP 111
           GEGM+LDQLIQN   RD  A IQPFD++ L +AFQLRET+PVDLP     +P
Sbjct: 61  GEGMELDQLIQNAYLRDKPAYIQPFDMETLGQAFQLRETAPVDLPSAEKGVP 112

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218187244|gb|EEC69671.1| hypothetical protein OsI_39104 [Oryza sativa Indica Group]

 Score =  177 bits (449), Expect = 7e-43,   Method: Compositional matrix adjust.
 Identities = 84/112 (75%), Positives = 94/112 (83%), Gaps = 1/112 (0%)

Query: 1   MDPEGKNFGRGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRK 60
           MD + K FG+GPRELTGAVDLISHYKLL HHDFFCK+ LPL+ISDTHYLHNVVGDTEIRK
Sbjct: 1   MDSDDKKFGKGPRELTGAVDLISHYKLLAHHDFFCKKPLPLAISDTHYLHNVVGDTEIRK 60

Query: 61  GEGMQLDQLIQNTS-RDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP 111
           GEGM+LDQL+QN   RD  A IQPFD++ L +AFQLRET+PVDLP     IP
Sbjct: 61  GEGMELDQLVQNAYLRDKPAYIQPFDMETLGQAFQLRETAPVDLPSAEKGIP 112

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358346381|ref|XP_003637247.1| hypothetical protein MTR_078s1015 [Medicago truncatula] gi|355503182|gb|AES84385.1| hypothetical protein MTR_078s1015 [Medicago truncatula]

 Score =  177 bits (448), Expect = 9e-43,   Method: Compositional matrix adjust.
 Identities = 85/119 (71%), Positives = 102/119 (85%), Gaps = 8/119 (6%)

Query: 1   MDPEGKNFGR------GPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVG 54
           MDPEGK+         GPRELTGAVDLISH+KL+PH++FFCKR LP+SI+DTHYLH+VVG
Sbjct: 1   MDPEGKSLEELFICPFGPRELTGAVDLISHFKLIPHYEFFCKRPLPVSIADTHYLHSVVG 60

Query: 55  DTEIRKGEGMQLDQLIQNT--SRDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP 111
           DTE+RKG+GMQLD+LIQNT  SR+TSARIQPFDLD+L+E+FQLRET+P+DLP     IP
Sbjct: 61  DTEVRKGDGMQLDELIQNTSFSRETSARIQPFDLDILKESFQLRETAPIDLPAAEKGIP 119

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|194694216|gb|ACF81192.1| unknown [Zea mays] gi|414868952|tpg|DAA47509.1| TPA: hypothetical protein ZEAMMB73_939740 [Zea mays]

 Score =  175 bits (443), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 84/112 (75%), Positives = 93/112 (83%), Gaps = 1/112 (0%)

Query: 1   MDPEGKNFGRGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRK 60
           MDP+ K FG GPRELTGAVDLISHYKLLPHHDFFCK+ LPL+ISDTHYLHNVVGDTEIRK
Sbjct: 1   MDPDDKKFGNGPRELTGAVDLISHYKLLPHHDFFCKKPLPLAISDTHYLHNVVGDTEIRK 60

Query: 61  GEGMQLDQLIQNTS-RDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP 111
           GEGM+LDQL+ N   RD  A IQPFD++ L +AFQLRET+ VDLP     IP
Sbjct: 61  GEGMELDQLVHNAYLRDKPAYIQPFDMETLGQAFQLRETALVDLPSTEKGIP 112

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	111
TAIR|locus:2150275	207	AT5G19480 "AT5G19480" [Arabido	0.990	0.531	0.701	2.1e-38
TAIR|locus:2177073	221	MED19A "AT5G12230" [Arabidopsi	0.990	0.497	0.663	3.9e-37

TAIR|locus:2150275 AT5G19480 "AT5G19480" [Arabidopsis thaliana (taxid:3702)]

 Score = 411 (149.7 bits), Expect = 2.1e-38, P = 2.1e-38
 Identities = 80/114 (70%), Positives = 93/114 (81%)

Query:     1 MDPEGKNFGRGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRK 60
             M+ E   FG GPREL GA+DLI+ YKLLPHH+FFCKRSLP S+SD HYLHN+VGDTEIRK
Sbjct:     1 MESESVKFG-GPRELGGALDLITQYKLLPHHEFFCKRSLPESLSDAHYLHNLVGDTEIRK 59

Query:    61 GEGMQLDQLIQN---TSRDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP 111
             GEGMQLDQLI N   +SRDT+ARIQPF LD L+EAF+L +T+PV+LPP     P
Sbjct:    60 GEGMQLDQLIPNASLSSRDTNARIQPFVLDELKEAFELNDTAPVELPPAEKGAP 113

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0010413 "glucuronoxylan metabolic process" evidence=RCA

GO:0045492 "xylan biosynthetic process" evidence=RCA

TAIR|locus:2177073 MED19A "AT5G12230" [Arabidopsis thaliana (taxid:3702)]

 Score = 399 (145.5 bits), Expect = 3.9e-37, P = 3.9e-37
 Identities = 75/113 (66%), Positives = 93/113 (82%)

Query:     1 MDPEGKNFGRGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRK 60
             M+PE   FG GPREL GA DLIS +KL+ HH+FFCK+SLP+S+SD+HYLHNVVGDTEIRK
Sbjct:     1 MEPERLKFG-GPRELCGAADLISQFKLVQHHEFFCKKSLPVSLSDSHYLHNVVGDTEIRK 59

Query:    61 GEGMQLDQLIQNTS--RDTSARIQPFDLDVLREAFQLRETSPVDLPPVRNPIP 111
             GEGMQLDQLI++ S  R+T+ RIQPFD+D L+E+FQL + +PV+LPP     P
Sbjct:    60 GEGMQLDQLIESISQSRETNIRIQPFDIDELQESFQLNDMTPVELPPAEKGAP 112


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.320   0.140   0.422    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      111       111   0.00091  102 3  11 22  0.47    30
                                                     29  0.42    32


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  531 (57 KB)
  Total size of DFA:  113 KB (2076 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  13.00u 0.10s 13.10t   Elapsed:  00:00:00
  Total cpu time:  13.00u 0.10s 13.10t   Elapsed:  00:00:00
  Start:  Sat May 11 11:56:53 2013   End:  Sat May 11 11:56:53 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016592 "mediator complex" evidence=IDA

GO:0000956 "nuclear-transcribed mRNA catabolic process" evidence=RCA

---

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)
Q6NQD9	MD19B_ARATH	No assigned EC number	0.7017	0.9909	0.5314	yes	no

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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pg.C_scaffold_66000093 hypothetical protein (220 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	111
PF10278	178	Med19: Mediator of RNA pol II transcription subuni	99.64

>PF10278 Med19: Mediator of RNA pol II transcription subunit 19 ; InterPro: IPR019403 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes

Probab=99.64  E-value=7.1e-17  Score=124.43  Aligned_cols=93  Identities=30%  Similarity=0.508  Sum_probs=82.7

Q ss_pred             CCccccchhhhhhhhhcccccccccccccCccccccccccccCCCCeeeecC-CCcchhHHhhcCCCCCCCccccccHHH
Q 039685           10 RGPRELTGAVDLISHYKLLPHHDFFCKRSLPLSISDTHYLHNVVGDTEIRKG-EGMQLDQLIQNTSRDTSARIQPFDLDV   88 (111)
Q Consensus        10 ~gprEltgavDLis~ykL~~h~effCKr~lp~sisdthYL~nVvGDteirkg-eGmeLdQLiq~~~~~~~~~iqpFdl~v   88 (111)
                      .+.+|||||+|||+||.|-..|.-||+|.|..++|  +||-||||++.++.+ |+..|-+||+..+- ..-.|+||+-..
T Consensus        10 p~~~eltG~~nL~~~y~L~~~y~kf~~kklke~lS--sFLp~lpG~~~~~~~~d~ssLrslIekPPi-~gkei~pL~~~~   86 (178)
T PF10278_consen   10 PPDSELTGATNLITHYGLEHSYNKFCGKKLKESLS--SFLPHLPGNIDLPGSQDNSSLRSLIEKPPI-GGKEITPLSSSQ   86 (178)
T ss_pred             CCccccccchhHHHHcCcHHHHHHHhCCcchhhHH--HHccCCCCcccCCCCcCcchHHHHhhCCCC-CCccCCcCCHHH
Confidence            46899999999999999999999999999999996  999999999999997 77779999999974 336799999999


Q ss_pred             HHHhhccccCCCccCCCCCCC
Q 039685           89 LREAFQLRETSPVDLPPVRNP  109 (111)
Q Consensus        89 L~~aFqL~et~pi~Lp~aekG  109 (111)
                      | .+|.|.. ||  ||+..+.
T Consensus        87 L-~gFrL~p-Gp--lPE~yr~  103 (178)
T PF10278_consen   87 L-AGFRLHP-GP--LPEQYRL  103 (178)
T ss_pred             H-hhccCCC-CC--CchHHhh
Confidence            9 7999995 77  6766544

Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med19 represents a family of conserved proteins which are members of the multi-protein co-activator Mediator complex []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex

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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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

No hit with probability above 80.00