Psyllid ID: psy9076

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60-
Protein Sequence
PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIEISKDSD
Secondary Structure (PSIPRED)
ccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccEEEEEcccc
Coil and Loop (DISEMBL)
PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIEISKDSD
Flexible Loop (DISEMBL)
ppngtvsvlnasndkraktqeQLKTIKLLFKRLRLIYEKCNEccqvqgmeythieiskdsd
Low Complexity Region (SEG)
PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIEISKDSD
Disordered region (IsUnstruct)
**********************LKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE******
Disordered Region (DISOPRED)
******************TQEQLKTIKLLFKRLRLIYEKCNECCQVQG*************
Disordered Region (DISEMBL)
PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTH********
Disordered Region (DISPRO)
***********SNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIEIS****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIEISKDSD
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	61	2.2.26 [Sep-21-2011]
Q172Y1	306	Mediator of RNA polymeras	N/A	N/A	0.885	0.176	0.709	1e-10
Q6PC45	174	Mediator of RNA polymeras	yes	N/A	0.704	0.247	0.488	2e-06
Q2YDF2	193	Mediator of RNA polymeras	yes	N/A	0.852	0.269	0.407	1e-05
Q9W0P3	318	Mediator of RNA polymeras	yes	N/A	0.639	0.122	0.511	4e-05
Q9CQI9	178	Mediator of RNA polymeras	yes	N/A	0.852	0.292	0.388	4e-05
Q0IHI6	184	Mediator of RNA polymeras	N/A	N/A	0.852	0.282	0.407	6e-05
Q96HR3	178	Mediator of RNA polymeras	yes	N/A	0.852	0.292	0.388	6e-05
Q29DV9	325	Mediator of RNA polymeras	yes	N/A	0.639	0.12	0.465	0.0002

>sp|Q172Y1|MED30_AEDAE Mediator of RNA polymerase II transcription subunit 30 OS=Aedes aegypti GN=MED30 PE=3 SV=1

 Score = 65.1 bits (157), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 39/55 (70%), Positives = 49/55 (89%), Gaps = 1/55 (1%)

Query: 1   PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           PPNGT + L++SNDK+AK QEQ +TI+LLFKRLRL+Y+KCN+ CQ QGMEYTH+E
Sbjct: 189 PPNGTNAGLSSSNDKKAKVQEQFRTIRLLFKRLRLLYDKCNDNCQ-QGMEYTHVE 242

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. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.
Aedes aegypti (taxid: 7159)

>sp|Q6PC45|MED30_DANRE Mediator of RNA polymerase II transcription subunit 30 OS=Danio rerio GN=med30 PE=2 SV=1

 Score = 50.8 bits (120), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 21/43 (48%), Positives = 29/43 (67%)

Query: 2  PNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECC 44
          PNG     N   D+  K QE L+T+ +LF++LRL+Y+KCNE C
Sbjct: 56 PNGVTYHPNTHQDRLGKLQEHLRTLSVLFRKLRLVYDKCNENC 98

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. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.

Danio rerio (taxid: 7955)

>sp|Q2YDF2|MED30_BOVIN Mediator of RNA polymerase II transcription subunit 30 OS=Bos taurus GN=MED30 PE=2 SV=1

 Score = 48.9 bits (115), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 33/54 (61%), Gaps = 2/54 (3%)

Query: 2   PNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           PNG         D+ AK Q+ L+ + +LF++LRL+Y+KCNE C   GM+   +E
Sbjct: 61  PNGVTYHTGTYQDRLAKLQDHLRQLSILFRKLRLVYDKCNENC--GGMDPIPVE 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. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.

Bos taurus (taxid: 9913)

>sp|Q9W0P3|MED30_DROME Mediator of RNA polymerase II transcription subunit 30 OS=Drosophila melanogaster GN=MED30 PE=1 SV=1

 Score = 47.0 bits (110), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 22/43 (51%), Positives = 28/43 (65%), Gaps = 4/43 (9%)

Query: 13  NDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           N    K QE  +TI+LLFKR+R+IYEKCN+     GM+Y   E
Sbjct: 215 NSSEKKVQEYFRTIRLLFKRVRIIYEKCNDA----GMDYMSAE 253

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. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.

Drosophila melanogaster (taxid: 7227)

>sp|Q9CQI9|MED30_MOUSE Mediator of RNA polymerase II transcription subunit 30 OS=Mus musculus GN=Med30 PE=1 SV=1

 Score = 46.6 bits (109), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 2/54 (3%)

Query: 2   PNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           PNG         D+  K Q+ L+ + +LF++LRL+Y+KCNE C   GM+   +E
Sbjct: 61  PNGVTYHTGTYQDRLTKLQDHLRQLSILFRKLRLVYDKCNENC--GGMDPIPVE 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. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.

Mus musculus (taxid: 10090)

>sp|Q0IHI6|MED30_XENLA Mediator of RNA polymerase II transcription subunit 30 OS=Xenopus laevis GN=med30 PE=2 SV=1

 Score = 46.2 bits (108), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 32/54 (59%), Gaps = 2/54 (3%)

Query: 2   PNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           PNG         D+  K QE L+ + +LF++LRL+Y+KCNE C   G++   IE
Sbjct: 65  PNGVTYHTVTYQDRLGKLQEHLRQLSILFRKLRLVYDKCNENC--AGLDPVPIE 116

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. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.

Xenopus laevis (taxid: 8355)

>sp|Q96HR3|MED30_HUMAN Mediator of RNA polymerase II transcription subunit 30 OS=Homo sapiens GN=MED30 PE=1 SV=1

 Score = 46.2 bits (108), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 2/54 (3%)

Query: 2   PNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           PNG         D+  K Q+ L+ + +LF++LRL+Y+KCNE C   GM+   +E
Sbjct: 61  PNGVTYHTGTYQDRLTKLQDNLRQLSVLFRKLRLVYDKCNENC--GGMDPIPVE 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. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.

Homo sapiens (taxid: 9606)

>sp|Q29DV9|MED30_DROPS Mediator of RNA polymerase II transcription subunit 30 OS=Drosophila pseudoobscura pseudoobscura GN=MED30 PE=3 SV=2

 Score = 44.7 bits (104), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/43 (46%), Positives = 29/43 (67%), Gaps = 4/43 (9%)

Query: 13  NDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           N+   K QE  +TI+LLFKR+R+IY+KCN+      M+Y + E
Sbjct: 222 NNTEKKVQEYFRTIRLLFKRVRIIYDKCNDAV----MDYMNAE 260


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.315    0.131    0.375 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,284,860
Number of Sequences: 539616
Number of extensions: 534914
Number of successful extensions: 1466
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1456
Number of HSP's gapped (non-prelim): 10
length of query: 61
length of database: 191,569,459
effective HSP length: 34
effective length of query: 27
effective length of database: 173,222,515
effective search space: 4677007905
effective search space used: 4677007905
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)

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. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.

Drosophila pseudoobscura pseudoobscura (taxid: 46245)

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	61
91088079	297	PREDICTED: similar to mediator complex,	0.901	0.185	0.781	1e-18
357605923	286	putative mediator complex, subunit [Dana	0.868	0.185	0.781	7e-17
389614986	209	mediator complex subunit 30 [Papilio pol	0.868	0.253	0.781	1e-16
156547792	279	PREDICTED: mediator of RNA polymerase II	0.901	0.197	0.745	2e-16
328703399	222	PREDICTED: mediator of RNA polymerase II	0.901	0.247	0.690	4e-16
239791974	222	ACYPI43885 [Acyrthosiphon pisum]	0.901	0.247	0.690	4e-16
340719685	291	PREDICTED: mediator of RNA polymerase II	0.901	0.189	0.690	5e-16
350410778	294	PREDICTED: mediator of RNA polymerase II	0.901	0.187	0.690	7e-16
307198647	294	Mediator of RNA polymerase II transcript	0.901	0.187	0.690	8e-16
332026352	265	Mediator of RNA polymerase II transcript	0.901	0.207	0.690	1e-15

>gi|91088079|ref|XP_968378.1| PREDICTED: similar to mediator complex, subunit, putative [Tribolium castaneum] gi|270012095|gb|EFA08543.1| hypothetical protein TcasGA2_TC006198 [Tribolium castaneum]

 Score = 97.1 bits (240), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 43/55 (78%), Positives = 49/55 (89%)

Query: 1   PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           PPNGT    NASN+K+AK QEQL+TI++LFKRLRLIYEKCNE CQ+QGMEYTHIE
Sbjct: 177 PPNGTPQSSNASNEKKAKVQEQLRTIRVLFKRLRLIYEKCNENCQLQGMEYTHIE 231

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357605923|gb|EHJ64836.1| putative mediator complex, subunit [Danaus plexippus]

 Score = 91.3 bits (225), Expect = 7e-17,   Method: Composition-based stats.
 Identities = 43/55 (78%), Positives = 47/55 (85%), Gaps = 2/55 (3%)

Query: 1   PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           PPNGT    NASNDK+AK QEQL+TI+LLFKRLRLIYEKCNE C  QGMEYTH+E
Sbjct: 158 PPNGTQHGENASNDKKAKMQEQLRTIRLLFKRLRLIYEKCNETC--QGMEYTHME 210

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|389614986|dbj|BAM20493.1| mediator complex subunit 30 [Papilio polytes]

 Score = 90.5 bits (223), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 43/55 (78%), Positives = 47/55 (85%), Gaps = 2/55 (3%)

Query: 1   PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           PPNGT    NASNDK+AK QEQL+TI+LLFKRLRLIYEKCNE C  QGMEYTH+E
Sbjct: 90  PPNGTQHGENASNDKKAKMQEQLRTIRLLFKRLRLIYEKCNETC--QGMEYTHME 142

Source: Papilio polytes

Species: Papilio polytes

Genus: Papilio

Family: Papilionidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156547792|ref|XP_001606138.1| PREDICTED: mediator of RNA polymerase II transcription subunit 30-like [Nasonia vitripennis]

 Score = 89.7 bits (221), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 41/55 (74%), Positives = 45/55 (81%)

Query: 1   PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           PPNGT    N SNDK+ K QEQLKT  +LFKRLR+IYEKCNE CQ+QGMEYTHIE
Sbjct: 159 PPNGTSQGQNLSNDKKLKVQEQLKTTTVLFKRLRVIYEKCNENCQLQGMEYTHIE 213

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328703399|ref|XP_003242189.1| PREDICTED: mediator of RNA polymerase II transcription subunit 30-like [Acyrthosiphon pisum]

 Score = 88.6 bits (218), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 38/55 (69%), Positives = 46/55 (83%)

Query: 1   PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           PPNGT +  N SN++R K Q+QL+ IKLLFKRLR+IYEKCN+ CQ+QGMEY HIE
Sbjct: 102 PPNGTPTGANMSNERRIKMQDQLRNIKLLFKRLRIIYEKCNDSCQLQGMEYMHIE 156

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|239791974|dbj|BAH72383.1| ACYPI43885 [Acyrthosiphon pisum]

 Score = 88.6 bits (218), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 38/55 (69%), Positives = 46/55 (83%)

Query: 1   PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           PPNGT +  N SN++R K Q+QL+ IKLLFKRLR+IYEKCN+ CQ+QGMEY HIE
Sbjct: 102 PPNGTPTGANMSNERRIKMQDQLRNIKLLFKRLRIIYEKCNDSCQLQGMEYMHIE 156

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340719685|ref|XP_003398278.1| PREDICTED: mediator of RNA polymerase II transcription subunit 30-like [Bombus terrestris]

 Score = 88.2 bits (217), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 38/55 (69%), Positives = 46/55 (83%)

Query: 1   PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           PPNG     N +N+K+ K QEQL+T+KLLF+RLR+IYEKCNE CQ+QGMEYTHIE
Sbjct: 171 PPNGMAQGTNLANEKKNKVQEQLRTLKLLFRRLRVIYEKCNENCQLQGMEYTHIE 225

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350410778|ref|XP_003489136.1| PREDICTED: mediator of RNA polymerase II transcription subunit 30-like [Bombus impatiens]

 Score = 87.8 bits (216), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 38/55 (69%), Positives = 46/55 (83%)

Query: 1   PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           PPNG     N +N+K+ K Q+QLKT+KLLF+RLR+IYEKCNE CQ+QGMEYTHIE
Sbjct: 174 PPNGMAQGANLANEKKNKVQDQLKTLKLLFRRLRVIYEKCNENCQLQGMEYTHIE 228

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307198647|gb|EFN79483.1| Mediator of RNA polymerase II transcription subunit 30 [Harpegnathos saltator]

 Score = 87.8 bits (216), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 38/55 (69%), Positives = 45/55 (81%)

Query: 1   PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           PPNGT    N +N+K+ K  EQL+ +K+LFKRLRLIYEKCNE CQ+QGMEYTHIE
Sbjct: 173 PPNGTTQGANMANEKKTKVYEQLRMLKMLFKRLRLIYEKCNENCQLQGMEYTHIE 227

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332026352|gb|EGI66481.1| Mediator of RNA polymerase II transcription subunit 30 [Acromyrmex echinatior]

 Score = 87.0 bits (214), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 38/55 (69%), Positives = 45/55 (81%)

Query: 1   PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           PPNGT    N +N+K+ K  EQL+ IK++FKRLRLIYEKCNE CQ+QGMEYTHIE
Sbjct: 173 PPNGTAQGANMANEKKKKVYEQLEMIKIMFKRLRLIYEKCNENCQLQGMEYTHIE 227

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	61
ZFIN|ZDB-GENE-040426-1676	174	med30 "mediator complex subuni	0.770	0.270	0.469	1.1e-07
UNIPROTKB|E2QRT7	180	MED30 "Uncharacterized protein	0.852	0.288	0.407	7.8e-07
UNIPROTKB|F1RSX2	179	MED30 "Uncharacterized protein	0.852	0.290	0.407	7.8e-07
UNIPROTKB|Q2YDF2	193	MED30 "Mediator of RNA polymer	0.852	0.269	0.407	9.2e-07
UNIPROTKB|E1BZJ0	179	MED30 "Uncharacterized protein	0.852	0.290	0.407	1.3e-06
MGI|MGI:1917040	178	Med30 "mediator complex subuni	0.852	0.292	0.388	2.1e-06
RGD|1309369	178	Med30 "mediator complex subuni	0.852	0.292	0.388	2.1e-06
UNIPROTKB|Q96HR3	178	MED30 "Mediator of RNA polymer	0.852	0.292	0.388	2.6e-06
FB|FBgn0035149	318	MED30 "Mediator complex subuni	0.639	0.122	0.511	1.1e-05
ZFIN|ZDB-GENE-050913-56	189	zgc:114119 "zgc:114119" [Danio	0.672	0.216	0.463	5.1e-05

ZFIN|ZDB-GENE-040426-1676 med30 "mediator complex subunit 30" [Danio rerio (taxid:7955)]

 Score = 121 (47.7 bits), Expect = 1.1e-07, P = 1.1e-07
 Identities = 23/49 (46%), Positives = 32/49 (65%)

Query:     2 PNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGME 50
             PNG     N   D+  K QE L+T+ +LF++LRL+Y+KCNE C   G+E
Sbjct:    56 PNGVTYHPNTHQDRLGKLQEHLRTLSVLFRKLRLVYDKCNENCA--GLE 102

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

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

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|E2QRT7 MED30 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 113 (44.8 bits), Expect = 7.8e-07, P = 7.8e-07
 Identities = 22/54 (40%), Positives = 33/54 (61%)

Query:     2 PNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
             PNG         D+ AK Q+ L+ + +LF++LRL+Y+KCNE C   GM+   +E
Sbjct:    63 PNGVTYHTGTYQDRLAKLQDHLRQLSILFRKLRLVYDKCNENCG--GMDPIPVE 114

GO:0046966 "thyroid hormone receptor binding" evidence=IEA

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

GO:0030521 "androgen receptor signaling pathway" evidence=IEA

GO:0019827 "stem cell maintenance" evidence=IEA

GO:0016592 "mediator complex" evidence=IEA

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

GO:0004872 "receptor activity" evidence=IEA

GO:0001104 "RNA polymerase II transcription cofactor activity" evidence=IEA

UNIPROTKB|F1RSX2 MED30 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 113 (44.8 bits), Expect = 7.8e-07, P = 7.8e-07
 Identities = 22/54 (40%), Positives = 33/54 (61%)

Query:     2 PNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
             PNG         D+ AK Q+ L+ + +LF++LRL+Y+KCNE C   GM+   +E
Sbjct:    62 PNGVTYHTGTYQDRLAKLQDHLRQLSILFRKLRLVYDKCNENCG--GMDPIPVE 113

GO:0046966 "thyroid hormone receptor binding" evidence=IEA

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

GO:0030521 "androgen receptor signaling pathway" evidence=IEA

GO:0019827 "stem cell maintenance" evidence=IEA

GO:0016592 "mediator complex" evidence=IEA

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

GO:0004872 "receptor activity" evidence=IEA

GO:0001104 "RNA polymerase II transcription cofactor activity" evidence=IEA

UNIPROTKB|Q2YDF2 MED30 "Mediator of RNA polymerase II transcription subunit 30" [Bos taurus (taxid:9913)]

 Score = 113 (44.8 bits), Expect = 9.2e-07, P = 9.2e-07
 Identities = 22/54 (40%), Positives = 33/54 (61%)

Query:     2 PNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
             PNG         D+ AK Q+ L+ + +LF++LRL+Y+KCNE C   GM+   +E
Sbjct:    61 PNGVTYHTGTYQDRLAKLQDHLRQLSILFRKLRLVYDKCNENCG--GMDPIPVE 112

GO:0046966 "thyroid hormone receptor binding" evidence=IEA

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

GO:0030521 "androgen receptor signaling pathway" evidence=IEA

GO:0019827 "stem cell maintenance" evidence=IEA

GO:0016592 "mediator complex" evidence=IEA

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

GO:0004872 "receptor activity" evidence=IEA

GO:0001104 "RNA polymerase II transcription cofactor activity" evidence=IEA

UNIPROTKB|E1BZJ0 MED30 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 111 (44.1 bits), Expect = 1.3e-06, P = 1.3e-06
 Identities = 22/54 (40%), Positives = 32/54 (59%)

Query:     2 PNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
             PNG         D+  K QE L+ + +LF++LRL+Y+KCNE C   G++   IE
Sbjct:    60 PNGVTYHTGTYQDRLGKLQEHLRQLSILFRKLRLVYDKCNENCA--GLDPIPIE 111

GO:0001104 "RNA polymerase II transcription cofactor activity" evidence=IEA

GO:0004872 "receptor activity" evidence=IEA

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

GO:0016592 "mediator complex" evidence=IEA

GO:0019827 "stem cell maintenance" evidence=IEA

GO:0030521 "androgen receptor signaling pathway" evidence=IEA

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

GO:0046966 "thyroid hormone receptor binding" evidence=IEA

MGI|MGI:1917040 Med30 "mediator complex subunit 30" [Mus musculus (taxid:10090)]

 Score = 109 (43.4 bits), Expect = 2.1e-06, P = 2.1e-06
 Identities = 21/54 (38%), Positives = 32/54 (59%)

Query:     2 PNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
             PNG         D+  K Q+ L+ + +LF++LRL+Y+KCNE C   GM+   +E
Sbjct:    61 PNGVTYHTGTYQDRLTKLQDHLRQLSILFRKLRLVYDKCNENCG--GMDPIPVE 112

GO:0001104 "RNA polymerase II transcription cofactor activity" evidence=ISO

GO:0003712 "transcription cofactor activity" evidence=ISO

GO:0004872 "receptor activity" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO

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

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

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

GO:0016592 "mediator complex" evidence=ISO;IDA

GO:0019827 "stem cell maintenance" evidence=IMP

GO:0030518 "intracellular steroid hormone receptor signaling pathway" evidence=ISO

GO:0030521 "androgen receptor signaling pathway" evidence=ISO

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

GO:0046966 "thyroid hormone receptor binding" evidence=ISO

RGD|1309369 Med30 "mediator complex subunit 30" [Rattus norvegicus (taxid:10116)]

 Score = 109 (43.4 bits), Expect = 2.1e-06, P = 2.1e-06
 Identities = 21/54 (38%), Positives = 32/54 (59%)

Query:     2 PNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
             PNG         D+  K Q+ L+ + +LF++LRL+Y+KCNE C   GM+   +E
Sbjct:    61 PNGVTYHTGTYQDRLTKLQDHLRQLSILFRKLRLVYDKCNENCG--GMDPIPVE 112

GO:0001104 "RNA polymerase II transcription cofactor activity" evidence=ISO

GO:0003712 "transcription cofactor activity" evidence=ISO

GO:0004872 "receptor activity" evidence=ISO

GO:0005634 "nucleus" evidence=ISO

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

GO:0016592 "mediator complex" evidence=ISO

GO:0019827 "stem cell maintenance" evidence=ISO

GO:0030518 "intracellular steroid hormone receptor signaling pathway" evidence=ISO

GO:0030521 "androgen receptor signaling pathway" evidence=ISO

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

GO:0046966 "thyroid hormone receptor binding" evidence=ISO

UNIPROTKB|Q96HR3 MED30 "Mediator of RNA polymerase II transcription subunit 30" [Homo sapiens (taxid:9606)]

 Score = 108 (43.1 bits), Expect = 2.6e-06, P = 2.6e-06
 Identities = 21/54 (38%), Positives = 32/54 (59%)

Query:     2 PNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
             PNG         D+  K Q+ L+ + +LF++LRL+Y+KCNE C   GM+   +E
Sbjct:    61 PNGVTYHTGTYQDRLTKLQDNLRQLSVLFRKLRLVYDKCNENCG--GMDPIPVE 112

GO:0019827 "stem cell maintenance" evidence=IEA

GO:0030521 "androgen receptor signaling pathway" evidence=IDA

GO:0046966 "thyroid hormone receptor binding" evidence=IDA

GO:0016592 "mediator complex" evidence=IDA

GO:0004872 "receptor activity" evidence=IDA

GO:0030518 "intracellular steroid hormone receptor signaling pathway" evidence=IDA

GO:0003712 "transcription cofactor activity" evidence=IDA

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

GO:0042809 "vitamin D receptor binding" evidence=NAS

GO:0001104 "RNA polymerase II transcription cofactor activity" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

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

GO:0030374 "ligand-dependent nuclear receptor transcription coactivator activity" evidence=NAS

GO:0005515 "protein binding" evidence=IPI

GO:0005654 "nucleoplasm" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

FB|FBgn0035149 MED30 "Mediator complex subunit 30" [Drosophila melanogaster (taxid:7227)]

 Score = 109 (43.4 bits), Expect = 1.1e-05, P = 1.1e-05
 Identities = 22/43 (51%), Positives = 28/43 (65%)

Query:    13 NDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
             N    K QE  +TI+LLFKR+R+IYEKCN+     GM+Y   E
Sbjct:   215 NSSEKKVQEYFRTIRLLFKRVRIIYEKCNDA----GMDYMSAE 253

GO:0005634 "nucleus" evidence=IDA

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

GO:0016592 "mediator complex" evidence=IDA

GO:0001104 "RNA polymerase II transcription cofactor activity" evidence=IC

ZFIN|ZDB-GENE-050913-56 zgc:114119 "zgc:114119" [Danio rerio (taxid:7955)]

 Score = 98 (39.6 bits), Expect = 5.1e-05, P = 5.1e-05
 Identities = 19/41 (46%), Positives = 26/41 (63%)

Query:     2 PNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNE 42
             PNG      A  D+  K QE L+ + LLF++LRL+YE+C E
Sbjct:    77 PNGVTQSQAAYQDRFGKLQEHLRQLTLLFRKLRLLYERCVE 117

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

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)
Q9W0P3	MED30_DROME	No assigned EC number	0.5116	0.6393	0.1226	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	61
pfam11315	150	pfam11315, Med30, Mediator complex subunit 30	4e-15

>gnl|CDD|221075 pfam11315, Med30, Mediator complex subunit 30

 Score = 64.1 bits (156), Expect = 4e-15
 Identities = 30/55 (54%), Positives = 39/55 (70%), Gaps = 2/55 (3%)

Query: 1  PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIE 55
           PNGT S  + + DK  K QEQL+T+KLLF++LRL+YEKCN  C   G++ T IE
Sbjct: 32 LPNGTTSHQSIAQDKCGKIQEQLRTLKLLFRKLRLVYEKCNRNC--AGLDPTPIE 84

Med30 is a metazoan-specific subunit of Mediator, having no homologues in yeasts. Length = 150

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	61
PF11315	150	Med30: Mediator complex subunit 30; InterPro: IPR0	99.95
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	80.35

>PF11315 Med30: Mediator complex subunit 30; InterPro: IPR021019 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes

Probab=99.95  E-value=3.5e-28  Score=165.64  Aligned_cols=58  Identities=59%  Similarity=0.861  Sum_probs=56.6

Q ss_pred             CCCcchhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCccccccccccC
Q psy9076           1 PPNGTVSVLNASNDKRAKTQEQLKTIKLLFKRLRLIYEKCNECCQVQGMEYTHIEISKDS   60 (61)
Q Consensus         1 pPNG~~~~~~~~qdr~~Klqe~lr~l~~LFKrLRliYekCne~c~~~g~~y~~ie~l~~~   60 (61)
                      ||||++++++++|||++|+|||||+|++||||||+|||||||+|+  ||+|+|+|+|||.
T Consensus        32 lPng~t~~~~~aqdr~~kl~e~lr~i~~LFkkLRlIYekCne~~~--~l~~~~iEsLIP~   89 (150)
T PF11315_consen   32 LPNGSTQQQNMAQDRRNKLQEQLRTIKVLFKKLRLIYEKCNENCQ--GLEPTPIESLIPY   89 (150)
T ss_pred             CCCCccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--CCCCCCHHHhccc
Confidence            799999999999999999999999999999999999999999996  9999999999985

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. Med30 is a metazoan-specific subunit of Mediator [], having no homologues in yeasts.

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=80.35  E-value=2.1  Score=19.48  Aligned_cols=16  Identities=38%  Similarity=0.495  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHHHHhhh
Q psy9076          30 FKRLRLIYEKCNECCQ   45 (61)
Q Consensus        30 FKrLRliYekCne~c~   45 (61)
                      +++.|.||+++...|+
T Consensus         3 ~~~~r~i~e~~l~~~~   18 (33)
T smart00386        3 IERARKIYERALEKFP   18 (33)
T ss_pred             HHHHHHHHHHHHHHCC
Confidence            5788999999999986

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

---

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

---

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