Psyllid ID: psy12287

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70------
Protein Sequence
MKYLYKVCFNLGGTEGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELILTLHQAI
Secondary Structure (PSIPRED)
cHHHHHHHHHcccccccEEEEEccccEEEEEEEccHHHHHHHHHHHHHccHHHHHccEEEEEEccccEEEHHHHHc
Secondary Structure Prediction (SSPRO)
ccEEEEEEEEcccccccEEcEEEccccEEEEEcccHHHHHHHHHHHHcccHHHHHcccEEEEEccHHHHHHHHHHc
Coil and Loop (DISEMBL)
MKYLYKVCFNlggteginlrkvepwnsvrvtfTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELILTLHQAI
Flexible Loop (DISEMBL)
MKYLYKVCFNLggteginlrkvepwnSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELILTLHQAI
Low Complexity Region (SEG)
MKYLYKVCFNLGGTEGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELILTLHQAI
Disordered region (IsUnstruct)
**YLYKVCFNLGGTEGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELILTL****
Disordered Region (DISOPRED)
*KYLYKVCFNLGGTEGINLRKVEPWNSVRVTFTIPKEAAVRLR******NATLLQLGILSVQVEGDELILTLHQAI
Disordered Region (DISEMBL)
MKYLYKVCFNLGGTEGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELILTLHQAI
Disordered Region (DISPRO)
MKYLYKVCFNLGGTEGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELILTLHQAI
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MKYLYKVCFNLGGTEGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELILTLHQAI
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	76	2.2.26 [Sep-21-2011]
Q14686	2063	Nuclear receptor coactiva	yes	N/A	0.763	0.028	0.644	3e-13
Q9JL19	2067	Nuclear receptor coactiva	yes	N/A	0.697	0.025	0.641	3e-12

>sp|Q14686|NCOA6_HUMAN Nuclear receptor coactivator 6 OS=Homo sapiens GN=NCOA6 PE=1 SV=3

 Score = 73.9 bits (180), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 38/59 (64%), Positives = 44/59 (74%), Gaps = 1/59 (1%)

Query: 17  INLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI-LTLHQ 74
           + ++KVEPWNSVRVTF IP+EAA RLR LAQ  N  L  LGILSVQ+EG+  I L L Q
Sbjct: 83  LKVQKVEPWNSVRVTFNIPREAAERLRILAQSNNQQLRDLGILSVQIEGEGAINLALAQ 141

Nuclear receptor coactivator that directly binds nuclear receptors and stimulates the transcriptional activities in a hormone-dependent fashion. Coactivates expression in an agonist-and AF2-dependent manner. Involved in the coactivation of different nuclear receptors, such as for steroids (GR and ERs), retinoids (RARs and RXRs), thyroid hormone (TRs), vitamin D3 (VDR) and prostanoids (PPARs). Probably functions as a general coactivator, rather than just a nuclear receptor coactivator. May also be involved in the coactivation of the NF-kappa-B pathway. May coactivate expression via a remodeling of chromatin and its interaction with histone acetyltransferase proteins.
Homo sapiens (taxid: 9606)

>sp|Q9JL19|NCOA6_MOUSE Nuclear receptor coactivator 6 OS=Mus musculus GN=Ncoa6 PE=1 SV=1

 Score = 70.5 bits (171), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 34/53 (64%), Positives = 40/53 (75%)

Query: 17  INLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI 69
           + ++KVEPWNSVRVTF IP+EAA RL  LAQ  N  L  LGILSVQ+EG+  I
Sbjct: 83  LKVQKVEPWNSVRVTFNIPREAAERLWILAQSNNQQLRDLGILSVQIEGEGAI 135

Nuclear receptor coactivator that directly binds nuclear receptors and stimulates the transcriptional activities in a hormone-dependent fashion. Coactivates expression in an agonist-and AF2-dependent manner. Involved in the coactivation of different nuclear receptors, such as for steroids (GR and ERs), retinoids (RARs and RXRs), thyroid hormone (TRs), vitamin D3 (VDR) and prostanoids (PPARs). Probably functions as a general coactivator, rather than just a nuclear receptor coactivator. May also be involved in the coactivation of the NF-kappa-B pathway. May coactivate expression via a remodeling of chromatin and its interaction with histone acetyltransferase proteins. Involved in placental, cardiac, hepatic and embryonic development.

Mus musculus (taxid: 10090)

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	76
340728841	2235	PREDICTED: hypothetical protein LOC10065	0.723	0.024	0.727	9e-17
350402835	2237	PREDICTED: hypothetical protein LOC10074	0.723	0.024	0.727	1e-16
350402833	2224	PREDICTED: hypothetical protein LOC10074	0.723	0.024	0.727	1e-16
307168686	2139	Nuclear receptor coactivator 6 [Camponot	0.723	0.025	0.727	1e-16
332020373	2409	RNA-binding protein pno1 [Acromyrmex ech	0.723	0.022	0.709	2e-16
328776183	2216	PREDICTED: hypothetical protein LOC72570	0.723	0.024	0.727	2e-16
322787468	2103	hypothetical protein SINV_09701 [Solenop	0.723	0.026	0.709	2e-16
307201780	2218	Nuclear receptor coactivator 6 [Harpegna	0.723	0.024	0.727	6e-16
383860426	2392	PREDICTED: uncharacterized protein LOC10	0.723	0.022	0.709	7e-16
427788353	1870	Putative mucin-17 [Rhipicephalus pulchel	0.710	0.028	0.727	2e-15

>gi|340728841|ref|XP_003402722.1| PREDICTED: hypothetical protein LOC100651147 [Bombus terrestris]

 Score = 90.9 bits (224), Expect = 9e-17,   Method: Composition-based stats.
 Identities = 40/55 (72%), Positives = 51/55 (92%)

Query: 15  EGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI 69
           +G+ + KVEPWNSVRVTF+IP+EAA+RLR+LA QG++TL QLGILSVQVEGD++I
Sbjct: 46  DGLRVNKVEPWNSVRVTFSIPREAALRLRELAAQGSSTLTQLGILSVQVEGDQVI 100

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350402835|ref|XP_003486620.1| PREDICTED: hypothetical protein LOC100746843 isoform 2 [Bombus impatiens]

 Score = 90.9 bits (224), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 40/55 (72%), Positives = 51/55 (92%)

Query: 15  EGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI 69
           +G+ + KVEPWNSVRVTF+IP+EAA+RLR+LA QG++TL QLGILSVQVEGD++I
Sbjct: 46  DGLRVNKVEPWNSVRVTFSIPREAALRLRELAAQGSSTLTQLGILSVQVEGDQVI 100

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350402833|ref|XP_003486619.1| PREDICTED: hypothetical protein LOC100746843 isoform 1 [Bombus impatiens]

 Score = 90.9 bits (224), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 40/55 (72%), Positives = 51/55 (92%)

Query: 15  EGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI 69
           +G+ + KVEPWNSVRVTF+IP+EAA+RLR+LA QG++TL QLGILSVQVEGD++I
Sbjct: 46  DGLRVNKVEPWNSVRVTFSIPREAALRLRELAAQGSSTLTQLGILSVQVEGDQVI 100

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307168686|gb|EFN61718.1| Nuclear receptor coactivator 6 [Camponotus floridanus]

 Score = 90.1 bits (222), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 40/55 (72%), Positives = 50/55 (90%)

Query: 15  EGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI 69
           +G+ + KVEPWNSVRVTF+IP+EAA+RLR+LA QG+ TL QLGILSVQVEGD++I
Sbjct: 46  DGLRVNKVEPWNSVRVTFSIPREAALRLRELAAQGSPTLTQLGILSVQVEGDQVI 100

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332020373|gb|EGI60794.1| RNA-binding protein pno1 [Acromyrmex echinatior]

 Score = 89.7 bits (221), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 39/55 (70%), Positives = 50/55 (90%)

Query: 15  EGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI 69
           +G+ + K+EPWNSVRVTF+IP+EAA+RLR+LA QG+ TL QLGILSVQVEGD++I
Sbjct: 46  DGLRVNKIEPWNSVRVTFSIPREAALRLRELAAQGSPTLTQLGILSVQVEGDQVI 100

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328776183|ref|XP_001121523.2| PREDICTED: hypothetical protein LOC725706 [Apis mellifera]

 Score = 89.7 bits (221), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 40/55 (72%), Positives = 50/55 (90%)

Query: 15  EGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI 69
           +G+ + KVEPWNSVRVTF+IP+EAA+RLR+LA QG+ TL QLGILSVQVEGD++I
Sbjct: 46  DGLRVNKVEPWNSVRVTFSIPREAALRLRELAAQGSPTLTQLGILSVQVEGDQVI 100

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322787468|gb|EFZ13556.1| hypothetical protein SINV_09701 [Solenopsis invicta]

 Score = 89.7 bits (221), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 39/55 (70%), Positives = 50/55 (90%)

Query: 15  EGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI 69
           +G+ + K+EPWNSVRVTF+IP+EAA+RLR+LA QG+ TL QLGILSVQVEGD++I
Sbjct: 46  DGLRVNKIEPWNSVRVTFSIPREAALRLRELAAQGSPTLTQLGILSVQVEGDQVI 100

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307201780|gb|EFN81453.1| Nuclear receptor coactivator 6 [Harpegnathos saltator]

 Score = 88.2 bits (217), Expect = 6e-16,   Method: Composition-based stats.
 Identities = 40/55 (72%), Positives = 49/55 (89%)

Query: 15  EGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI 69
           E + + KVEPWNSVRVTF+IP+EAA+RLR+LA QG+ TL QLGILSVQVEGD++I
Sbjct: 46  EDLKVDKVEPWNSVRVTFSIPREAALRLRELAAQGSPTLTQLGILSVQVEGDQVI 100

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383860426|ref|XP_003705690.1| PREDICTED: uncharacterized protein LOC100875083 [Megachile rotundata]

 Score = 87.8 bits (216), Expect = 7e-16,   Method: Composition-based stats.
 Identities = 39/55 (70%), Positives = 49/55 (89%)

Query: 15  EGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI 69
           +G+ + KVEPWNSVRVTF+IP+EAA+RLR+LA QG+  L QLGILSVQVEGD++I
Sbjct: 46  DGLRVNKVEPWNSVRVTFSIPREAALRLRELAAQGSPALTQLGILSVQVEGDQVI 100

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|427788353|gb|JAA59628.1| Putative mucin-17 [Rhipicephalus pulchellus]

 Score = 86.3 bits (212), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 40/55 (72%), Positives = 51/55 (92%), Gaps = 1/55 (1%)

Query: 19  LRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI-LTL 72
           ++KVEPWNSVRVTFT+P++AA+RLRQLAQ+G+  L +LGILSVQVEGD++I LTL
Sbjct: 49  VKKVEPWNSVRVTFTLPRDAALRLRQLAQRGDRALRELGILSVQVEGDQIISLTL 103

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

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	76
UNIPROTKB|E1BUS5	2044	Gga.28375 "Uncharacterized pro	0.763	0.028	0.644	8.9e-12
UNIPROTKB|E1BND5	2052	NCOA6 "Uncharacterized protein	0.855	0.031	0.602	1.1e-11
UNIPROTKB|F1S4Y2	2066	NCOA6 "Uncharacterized protein	0.921	0.033	0.569	1.2e-11
UNIPROTKB|E2R698	2060	NCOA6 "Uncharacterized protein	0.763	0.028	0.644	1.5e-11
UNIPROTKB|Q14686	2063	NCOA6 "Nuclear receptor coacti	0.763	0.028	0.644	1.5e-11
MGI|MGI:1929915	2067	Ncoa6 "nuclear receptor coacti	0.763	0.028	0.627	1e-10
ZFIN|ZDB-GENE-080403-12	1733	ncoa6 "nuclear receptor coacti	0.75	0.032	0.596	1.8e-10
FB|FBgn0031698	2442	Ncoa6 [Drosophila melanogaster	0.657	0.020	0.509	6.9e-05

UNIPROTKB|E1BUS5 Gga.28375 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 176 (67.0 bits), Expect = 8.9e-12, P = 8.9e-12
 Identities = 38/59 (64%), Positives = 44/59 (74%)

Query:    17 INLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI-LTLHQ 74
             + L+K+EPWNSVRVTF IP+EAA RLR LAQ  N  L  LGILSVQ+EG+  I L L Q
Sbjct:    83 LKLQKIEPWNSVRVTFNIPREAAERLRILAQNNNQQLRDLGILSVQIEGEGAINLALAQ 141

GO:0003682 "chromatin binding" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

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

GO:0006974 "response to DNA damage stimulus" evidence=IEA

GO:0007420 "brain development" evidence=IEA

GO:0007507 "heart development" evidence=IEA

GO:0019899 "enzyme binding" evidence=IEA

GO:0030099 "myeloid cell differentiation" evidence=IEA

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

GO:0035097 "histone methyltransferase complex" evidence=IEA

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

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

GO:0060716 "labyrinthine layer blood vessel development" evidence=IEA

UNIPROTKB|E1BND5 NCOA6 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 175 (66.7 bits), Expect = 1.1e-11, P = 1.1e-11
 Identities = 41/68 (60%), Positives = 47/68 (69%)

Query:    10 NLGGTEGINLR--KVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDE 67
             ++G  E   L+  KVEPWNSVRVTF IP+EAA RLR LAQ  N  L  LGILSVQ+EG+ 
Sbjct:    77 HMGDQESSKLKVQKVEPWNSVRVTFNIPREAAERLRILAQSNNQQLRDLGILSVQIEGEG 136

Query:    68 LI-LTLHQ 74
              I L L Q
Sbjct:   137 AINLALAQ 144

GO:0060716 "labyrinthine layer blood vessel development" evidence=IEA

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

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

GO:0035097 "histone methyltransferase complex" evidence=IEA

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

GO:0030099 "myeloid cell differentiation" evidence=IEA

GO:0019899 "enzyme binding" evidence=IEA

GO:0007507 "heart development" evidence=IEA

GO:0007420 "brain development" evidence=IEA

GO:0006974 "response to DNA damage stimulus" evidence=IEA

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

GO:0005667 "transcription factor complex" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

UNIPROTKB|F1S4Y2 NCOA6 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 175 (66.7 bits), Expect = 1.2e-11, P = 1.2e-11
 Identities = 41/72 (56%), Positives = 50/72 (69%)

Query:     4 LYKVCFNLGGTEGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQV 63
             L+ V  N   ++ + ++KVEPWNSVRVTF IP+EAA RLR LAQ  N  L  LGILSVQ+
Sbjct:    76 LHMVFHNQESSK-LKVQKVEPWNSVRVTFNIPREAAERLRILAQSNNQQLRDLGILSVQI 134

Query:    64 EGDELI-LTLHQ 74
             EG+  I L L Q
Sbjct:   135 EGEGAINLALAQ 146

GO:0060716 "labyrinthine layer blood vessel development" evidence=IEA

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

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

GO:0035097 "histone methyltransferase complex" evidence=IEA

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

GO:0030099 "myeloid cell differentiation" evidence=IEA

GO:0019899 "enzyme binding" evidence=IEA

GO:0007507 "heart development" evidence=IEA

GO:0007420 "brain development" evidence=IEA

GO:0006974 "response to DNA damage stimulus" evidence=IEA

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

GO:0005667 "transcription factor complex" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

UNIPROTKB|E2R698 NCOA6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 174 (66.3 bits), Expect = 1.5e-11, P = 1.5e-11
 Identities = 38/59 (64%), Positives = 44/59 (74%)

Query:    17 INLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI-LTLHQ 74
             + ++KVEPWNSVRVTF IP+EAA RLR LAQ  N  L  LGILSVQ+EG+  I L L Q
Sbjct:    83 LKVQKVEPWNSVRVTFNIPREAAERLRILAQSNNQQLRDLGILSVQIEGEGAINLALAQ 141

GO:0060716 "labyrinthine layer blood vessel development" evidence=IEA

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

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

GO:0035097 "histone methyltransferase complex" evidence=IEA

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

GO:0030099 "myeloid cell differentiation" evidence=IEA

GO:0019899 "enzyme binding" evidence=IEA

GO:0007507 "heart development" evidence=IEA

GO:0007420 "brain development" evidence=IEA

GO:0006974 "response to DNA damage stimulus" evidence=IEA

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

GO:0005667 "transcription factor complex" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

UNIPROTKB|Q14686 NCOA6 "Nuclear receptor coactivator 6" [Homo sapiens (taxid:9606)]

 Score = 174 (66.3 bits), Expect = 1.5e-11, P = 1.5e-11
 Identities = 38/59 (64%), Positives = 44/59 (74%)

Query:    17 INLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI-LTLHQ 74
             + ++KVEPWNSVRVTF IP+EAA RLR LAQ  N  L  LGILSVQ+EG+  I L L Q
Sbjct:    83 LKVQKVEPWNSVRVTFNIPREAAERLRILAQSNNQQLRDLGILSVQIEGEGAINLALAQ 141

GO:0060716 "labyrinthine layer blood vessel development" evidence=IEA

GO:0005634 "nucleus" evidence=IDA;NAS

GO:0003713 "transcription coactivator activity" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0046965 "retinoid X receptor binding" evidence=TAS

GO:0030331 "estrogen receptor binding" evidence=TAS

GO:0006260 "DNA replication" evidence=NAS

GO:0006281 "DNA repair" evidence=NAS

GO:0006310 "DNA recombination" evidence=NAS

GO:0009725 "response to hormone stimulus" evidence=TAS

GO:0030520 "intracellular estrogen receptor signaling pathway" evidence=NAS

GO:0042921 "glucocorticoid receptor signaling pathway" evidence=NAS

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

GO:0007420 "brain development" evidence=ISS

GO:0003682 "chromatin binding" evidence=ISS

GO:0007507 "heart development" evidence=ISS

GO:0005667 "transcription factor complex" evidence=TAS

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

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

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

GO:0030099 "myeloid cell differentiation" evidence=IDA

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

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

GO:0019899 "enzyme binding" evidence=IPI

GO:0006974 "response to DNA damage stimulus" evidence=IDA

GO:0035097 "histone methyltransferase complex" evidence=IDA

GO:0005654 "nucleoplasm" evidence=TAS

GO:0044255 "cellular lipid metabolic process" evidence=TAS

GO:0044281 "small molecule metabolic process" evidence=TAS

GO:0005730 "nucleolus" evidence=IDA

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

MGI|MGI:1929915 Ncoa6 "nuclear receptor coactivator 6" [Mus musculus (taxid:10090)]

 Score = 166 (63.5 bits), Expect = 1.0e-10, P = 1.0e-10
 Identities = 37/59 (62%), Positives = 43/59 (72%)

Query:    17 INLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI-LTLHQ 74
             + ++KVEPWNSVRVTF IP+EAA RL  LAQ  N  L  LGILSVQ+EG+  I L L Q
Sbjct:    83 LKVQKVEPWNSVRVTFNIPREAAERLWILAQSNNQQLRDLGILSVQIEGEGAINLALGQ 141

GO:0003682 "chromatin binding" evidence=IDA

GO:0003713 "transcription coactivator activity" evidence=ISO;IDA

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005667 "transcription factor complex" evidence=IDA

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

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

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

GO:0006974 "response to DNA damage stimulus" evidence=ISO

GO:0007420 "brain development" evidence=IMP

GO:0007507 "heart development" evidence=IMP

GO:0016922 "ligand-dependent nuclear receptor binding" evidence=ISO

GO:0019899 "enzyme binding" evidence=ISO

GO:0030099 "myeloid cell differentiation" evidence=ISO

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

GO:0035097 "histone methyltransferase complex" evidence=ISO

GO:0042803 "protein homodimerization activity" evidence=ISO

GO:0043234 "protein complex" evidence=ISO

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

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

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

GO:0060716 "labyrinthine layer blood vessel development" evidence=IMP

ZFIN|ZDB-GENE-080403-12 ncoa6 "nuclear receptor coactivator 6" [Danio rerio (taxid:7955)]

 Score = 163 (62.4 bits), Expect = 1.8e-10, P = 1.8e-10
 Identities = 34/57 (59%), Positives = 40/57 (70%)

Query:    13 GTEGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI 69
             G + +   +VEPWNSVRVTF IP+EAA RLR LAQ     L  LGILSVQ+EG+  I
Sbjct:    76 GKKKLEPERVEPWNSVRVTFNIPREAAERLRLLAQNNQQQLRDLGILSVQIEGEGAI 132

GO:0003713 "transcription coactivator activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

FB|FBgn0031698 Ncoa6 [Drosophila melanogaster (taxid:7227)]

 Score = 112 (44.5 bits), Expect = 6.9e-05, P = 6.9e-05
 Identities = 26/51 (50%), Positives = 35/51 (68%)

Query:    19 LRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI 69
             L+++EP + VR+  ++P +AA RLRQLA  GN  L  L I SVQ EGD +I
Sbjct:     8 LQQLEP-SLVRILVSLPWDAAQRLRQLANDGNPELRALNIQSVQFEGDSVI 57


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        0.322   0.138   0.396    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       76        76   0.00091  102 3  11 22  0.50    28
                                                     29  0.48    29


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:  8
  No. of states in DFA:  526 (56 KB)
  Total size of DFA:  93 KB (2067 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:  8.51u 0.14s 8.65t   Elapsed:  00:00:00
  Total cpu time:  8.51u 0.14s 8.65t   Elapsed:  00:00:00
  Start:  Thu Aug 15 17:04:00 2013   End:  Thu Aug 15 17:04:00 2013

GO:0051568 "histone H3-K4 methylation" evidence=IDA

GO:0044666 "MLL3/4 complex" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q14686	NCOA6_HUMAN	No assigned EC number	0.6440	0.7631	0.0281	yes	N/A
Q9JL19	NCOA6_MOUSE	No assigned EC number	0.6415	0.6973	0.0256	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	76
pfam13820	149	pfam13820, Nucleic_acid_bd, Putative nucleic acid-	4e-18
pfam11130	236	pfam11130, TraC_F_IV, F pilus assembly Type-IV sec	0.002

>gnl|CDD|205991 pfam13820, Nucleic_acid_bd, Putative nucleic acid-binding region

 Score = 72.5 bits (178), Expect = 4e-18
 Identities = 34/50 (68%), Positives = 38/50 (76%)

Query: 20 RKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELI 69
          RKVEPW SVRVTF+IP+EAA RLR LA   +  L  LGILSVQ+EGD  I
Sbjct: 40 RKVEPWKSVRVTFSIPREAAARLRNLADHSDPRLRDLGILSVQIEGDNPI 89

This is a family of putative nucleic acid-binding proteins. Several members are annotated as being nuclear receptor coactivator 6 proteins but this could not be confirmed. Length = 149

>gnl|CDD|220992 pfam11130, TraC_F_IV, F pilus assembly Type-IV secretion system for plasmid transfer

 Score = 34.6 bits (80), Expect = 0.002
 Identities = 16/71 (22%), Positives = 33/71 (46%), Gaps = 2/71 (2%)

Query: 1   MKYLYK-VCFNLGGTEGINLRKVEPWNSVRVTFTIPK-EAAVRLRQLAQQGNATLLQLGI 58
             +  +     LG  +   LR      SV+V  ++P  E    L +L ++  A+L   G+
Sbjct: 101 ADFHLRGASKPLGDEDVTQLRDFRLVISVKVPKSLPSEEPIEELNELRERLEASLASAGL 160

Query: 59  LSVQVEGDELI 69
            + +++ ++LI
Sbjct: 161 AARRLDPEDLI 171

This family of TraC proteins is conserved in Proteobacteria. TraC is a cytoplasmic, peripheral membrane protein and is one of the proteins encoded by the F transfer region of the conjugative plasmid that is required for the assembly of F pilin into the mature F pilus structure. F pili are filamentous appendages that help establish the physical contact between donor and recipient cells involved in the conjugation process. Length = 236

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	76
PF13820	149	Nucleic_acid_bd: Putative nucleic acid-binding reg	99.93
PF01402	39	RHH_1: Ribbon-helix-helix protein, copG family; In	95.63
PF11130	235	TraC_F_IV: F pilus assembly Type-IV secretion syst	91.38
PF12651	44	RHH_3: Ribbon-helix-helix domain	90.96
PHA01623	56	hypothetical protein	87.71
PF01883	72	DUF59: Domain of unknown function DUF59; InterPro:	87.24
PHA00617	80	ribbon-helix-helix domain containing protein	85.2
TIGR02945	99	SUF_assoc FeS assembly SUF system protein. Members	81.52

>PF13820 Nucleic_acid_bd: Putative nucleic acid-binding region

Probab=99.93  E-value=4.6e-27  Score=165.23  Aligned_cols=66  Identities=59%  Similarity=0.830  Sum_probs=59.7

Q ss_pred             hHHHhhcCCCCcCeeeeeecCCceeEEEEeccHHHHHHHHHHHHhCChhhhhcceeEEEecchhHHHH
Q psy12287          4 LYKVCFNLGGTEGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQLGILSVQVEGDELILT   71 (76)
Q Consensus         4 ~~~~c~~~~~~~~l~v~kvEPWnSVRVTf~IPreAA~rLr~LA~~g~~~Lr~LGILSVQ~EGd~~I~l   71 (76)
                      |-++|.-  ..+.++++++||||||||||+||||||++||+||+++|++|++|||+|||+|||++|++
T Consensus        26 l~~L~~~--~~~~l~~~~~~~~~sv~V~f~ipreaa~~Lr~LA~~~~~~L~~lgI~SVQIe~e~~I~l   91 (149)
T PF13820_consen   26 LASLYKP--RISDLKVRKVEPWNSVRVTFSIPREAATRLRQLAQHSNPRLRYLGILSVQIEGEEPIGL   91 (149)
T ss_pred             HHHHHhc--ccccceeeccccCceEEEEEechHHHHHHHHHHhhcCCcceeeeceEEEEEcCcceeEe
Confidence            4455543  55789999999999999999999999999999999999999999999999999999964

>PF01402 RHH_1: Ribbon-helix-helix protein, copG family; InterPro: IPR002145 CopG, also known as RepA, is responsible for the regulation of plasmid copy number

Probab=95.63  E-value=0.015  Score=30.88  Aligned_cols=25  Identities=32%  Similarity=0.464  Sum_probs=22.1

Q ss_pred             EEEEeccHHHHHHHHHHHHhCChhh
Q psy12287         29 RVTFTIPKEAAVRLRQLAQQGNATL   53 (76)
Q Consensus        29 RVTf~IPreAA~rLr~LA~~g~~~L   53 (76)
                      |+||++|.+-.++|.++|...+..-
T Consensus         1 Riti~l~~~~~~~l~~~a~~~g~s~   25 (39)
T PF01402_consen    1 RITIRLPDELYERLDELAKELGRSR   25 (39)
T ss_dssp             EEEEEEEHHHHHHHHHHHHHHTSSH
T ss_pred             CeEEEeCHHHHHHHHHHHHHHCcCH
Confidence            8999999999999999999876543

It binds to the repAB promoter and controls synthesis of the plasmid replication initiator protein RepB. Many bacterial transcription regulation proteins bind DNA through a 'helix-turn-helix' motif, nevertheless CopG displays a fully defined HTH-motif structure that is involved not in DNA-binding, but in the maintenance of the intrinsic dimeric functional structure and cooperativity [, ].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2BJ3_B 2BJ8_A 2BJ1_A 2BJ9_A 2BJ7_B 1EA4_L 2CPG_C 1B01_B 2BA3_A 2K9I_B ....

>PF11130 TraC_F_IV: F pilus assembly Type-IV secretion system for plasmid transfer

Probab=91.38  E-value=0.85  Score=31.39  Aligned_cols=69  Identities=19%  Similarity=0.314  Sum_probs=50.1

Q ss_pred             hhhHHHhhcCC---CCcCeeeeeecCCceeEEEEecc-----HHHHHHHHHHHHhCChhhhhcceeEEEecchhHHHHhh
Q psy12287          2 KYLYKVCFNLG---GTEGINLRKVEPWNSVRVTFTIP-----KEAAVRLRQLAQQGNATLLQLGILSVQVEGDELILTLH   73 (76)
Q Consensus         2 ~~~~~~c~~~~---~~~~l~v~kvEPWnSVRVTf~IP-----reAA~rLr~LA~~g~~~Lr~LGILSVQ~EGd~~I~l~~   73 (76)
                      +|+.+-..+..   ++..+.+.++    .+=|++++|     .++.+.|.++...=..+|+..||-...++++..|.++.
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~R~~----rl~is~~~p~~~~~~~~~~~l~~~~~~~~~~L~~~gi~~~~~~~~~l~~~l~  174 (235)
T PF11130_consen   99 EFLRRGAWKGLGGLDDSPTPLRNF----RLFISVKVPGSKPSEEEIEELNELRERLESSLRSAGIPPRRLDPEDLISWLR  174 (235)
T ss_pred             HHHHHHhhcCCCcccCCCceeEEE----EEEEEEEecCCcCCccHHHHHHHHHHHHHHHHHHCCCccEEcCHHHHHHHHH
Confidence            45555555332   3344444443    344677788     56777888888888899999999999999999999987


Q ss_pred             h
Q psy12287         74 Q   74 (76)
Q Consensus        74 ~   74 (76)
                      .
T Consensus       175 ~  175 (235)
T PF11130_consen  175 R  175 (235)
T ss_pred             H
Confidence            5

>PF12651 RHH_3: Ribbon-helix-helix domain

Probab=90.96  E-value=0.42  Score=27.26  Aligned_cols=25  Identities=32%  Similarity=0.537  Sum_probs=21.9

Q ss_pred             ceeEEEEeccHHHHHHHHHHHHhCC
Q psy12287         26 NSVRVTFTIPKEAAVRLRQLAQQGN   50 (76)
Q Consensus        26 nSVRVTf~IPreAA~rLr~LA~~g~   50 (76)
                      |-.|+|++||.|=.++|..||.+-.
T Consensus         1 ~r~r~t~~l~~el~~~L~~ls~~t~   25 (44)
T PF12651_consen    1 NRKRFTFSLDKELYEKLKELSEETG   25 (44)
T ss_pred             CceEEEEecCHHHHHHHHHHHHHHC
Confidence            4579999999999999999998643

>PHA01623 hypothetical protein

Probab=87.71  E-value=1  Score=27.08  Aligned_cols=27  Identities=15%  Similarity=0.222  Sum_probs=24.4

Q ss_pred             ceeEEEEeccHHHHHHHHHHHHhCChh
Q psy12287         26 NSVRVTFTIPKEAAVRLRQLAQQGNAT   52 (76)
Q Consensus        26 nSVRVTf~IPreAA~rLr~LA~~g~~~   52 (76)
                      ..||++|+||.+=.++|..+|.+++-.
T Consensus        12 k~~r~sVrldeel~~~Ld~y~~~~g~~   38 (56)
T PHA01623         12 QKAVFGIYMDKDLKTRLKVYCAKNNLQ   38 (56)
T ss_pred             cceeEEEEeCHHHHHHHHHHHHHcCCC
Confidence            479999999999999999999988755

>PF01883 DUF59: Domain of unknown function DUF59; InterPro: IPR002744 This family includes prokaryotic proteins of unknown function

Probab=87.24  E-value=1.2  Score=25.94  Aligned_cols=50  Identities=24%  Similarity=0.287  Sum_probs=35.2

Q ss_pred             CCcCeeeeeecCCceeEEEEeccHHHHHHHHHHHHhCChhhhhc-ceeEEEe
Q psy12287         13 GTEGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNATLLQL-GILSVQV   63 (76)
Q Consensus        13 ~~~~l~v~kvEPWnSVRVTf~IPreAA~rLr~LA~~g~~~Lr~L-GILSVQ~   63 (76)
                      +.+.++==.++. +.|+|++++|..+...-..|+++=-..|+++ |+-+|++
T Consensus        22 ~~g~V~~i~i~~-~~V~v~l~l~~~~~~~~~~l~~~i~~~l~~l~gv~~V~V   72 (72)
T PF01883_consen   22 ELGMVRDISIEG-GKVSVSLELPTPACPAAEPLREEIREALKALPGVKSVKV   72 (72)
T ss_dssp             TTTSEEEEEECT-CEEEEEE--SSTTHTTHHHHHHHHHHHHHTSTT-SEEEE
T ss_pred             HcCCeeEEEEEC-CEEEEEEEECCCCchHHHHHHHHHHHHHHhCCCCceEeC
Confidence            344455556677 8999999999877777777888777888877 7777764

The family also includes PhaH (O84984 from SWISSPROT) from Pseudomonas putida. PhaH forms a complex with PhaF (O84982 from SWISSPROT), PhaG (O84983 from SWISSPROT) and PhaI (O84985 from SWISSPROT), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid []. So members of this family may all be components of ring hydroxylating complexes.; PDB: 3LNO_C 3CQ3_A 3CQ2_D 2CU6_B 3CQ1_A 3UX3_B 3UX2_A 1WCJ_A 1UWD_A.

>PHA00617 ribbon-helix-helix domain containing protein

Probab=85.20  E-value=2.1  Score=27.94  Aligned_cols=36  Identities=25%  Similarity=0.360  Sum_probs=28.3

Q ss_pred             CcCeeeeeecCCceeEEEEeccHHHHHHHHHHHHhCCh
Q psy12287         14 TEGINLRKVEPWNSVRVTFTIPKEAAVRLRQLAQQGNA   51 (76)
Q Consensus        14 ~~~l~v~kvEPWnSVRVTf~IPreAA~rLr~LA~~g~~   51 (76)
                      ...+.++=.||  ..++||++|.|=.+||..||..-+-
T Consensus        28 ~~~~~~~~~~~--m~~iSVrLp~eL~erLD~LA~~~Gr   63 (80)
T PHA00617         28 GDTIELTLTET--MDVISFKLPPELNAKLEQVAIKMKK   63 (80)
T ss_pred             CCccccccCCC--ceEEEEECCHHHHHHHHHHHHHhCc
Confidence            34555555556  8999999999999999999987543

>TIGR02945 SUF_assoc FeS assembly SUF system protein

Probab=81.52  E-value=1.2  Score=27.50  Aligned_cols=39  Identities=18%  Similarity=0.239  Sum_probs=31.2

Q ss_pred             ceeEEEEeccHHHHHHHHHHHHhCChhhhhc-ceeEEEec
Q psy12287         26 NSVRVTFTIPKEAAVRLRQLAQQGNATLLQL-GILSVQVE   64 (76)
Q Consensus        26 nSVRVTf~IPreAA~rLr~LA~~g~~~Lr~L-GILSVQ~E   64 (76)
                      +.|+|++++|..++.-..+|.+.-...|.++ |+-+|.++
T Consensus        37 ~~v~i~l~l~~p~~~~~~~l~~~i~~al~~l~gv~~v~v~   76 (99)
T TIGR02945        37 GHVDIQMTLTAPNCPVAGSMPGEVENAVRAVPGVGSVTVE   76 (99)
T ss_pred             CeEEEEEEECCCCCChHHHHHHHHHHHHHhCCCCceEEEE
Confidence            4799999999888777777877777888885 88777764

Members of this family belong to the broader Pfam family pfam01883, or Domain of Unknown Function DUF59. Many members of DUF59 are candidate ring hydroxylating complex subunits. However, members of the narrower family defined here all are found in genomes that carry the FeS assembly SUF system. For 70 % of these species, the member of this protein family is found as part of the SUF locus, usually immediately downstream of the sufS gene.

---

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

ID	Length	Definition	Probability
Query	76
2cpg_A	45	REPA protein, transcriptional repressor COPG; DNA-	94.05
2k9i_A	55	Plasmid PRN1, complete sequence; plasmid COPY cont	93.41
1p94_A	76	Plasmid partition protein PArg; ribbon-helix-helix	86.86
2gpe_A	52	Bifunctional protein PUTA; ribbon-helix-helix, DNA	86.74
2k5j_A	80	Uncharacterized protein YIIF; structure, NESG, str	86.7
2an7_A	83	Protein PARD; bacterial antidote, ribbon-helix-hel	84.99
2k6l_A	51	Putative uncharacterized protein; xanthonomas axon	83.77

>2cpg_A REPA protein, transcriptional repressor COPG; DNA-binding protein, plasmid, gene regulation; 1.60A {Streptococcus agalactiae} SCOP: a.43.1.3 PDB: 1b01_A* 1ea4_A*

Probab=94.05  E-value=0.067  Score=27.89  Aligned_cols=23  Identities=22%  Similarity=0.343  Sum_probs=20.6

Q ss_pred             eeEEEEeccHHHHHHHHHHHHhC
Q psy12287         27 SVRVTFTIPKEAAVRLRQLAQQG   49 (76)
Q Consensus        27 SVRVTf~IPreAA~rLr~LA~~g   49 (76)
                      ..|+||+||.+-.++|.++|+..
T Consensus         2 k~ritv~l~~~l~~~Ld~~a~~~   24 (45)
T 2cpg_A            2 KKRLTITLSESVLENLEKMAREM   24 (45)
T ss_dssp             EEEEEEEEEHHHHHHHHHHHHHH
T ss_pred             CceEEEecCHHHHHHHHHHHHHH
Confidence            36899999999999999999863

>2k9i_A Plasmid PRN1, complete sequence; plasmid COPY control protein, ribbon helix helix protein, DNA binding protein; NMR {Sulfolobus islandicus} PDB: 3ft7_A

Probab=93.41  E-value=0.08  Score=28.34  Aligned_cols=30  Identities=33%  Similarity=0.470  Sum_probs=25.2

Q ss_pred             ceeEEEEeccHHHHHHHHHHHHhCChhhhh
Q psy12287         26 NSVRVTFTIPKEAAVRLRQLAQQGNATLLQ   55 (76)
Q Consensus        26 nSVRVTf~IPreAA~rLr~LA~~g~~~Lr~   55 (76)
                      .+++++|.||.|-.++|..+|...+-...+
T Consensus         8 ~~~~i~vrl~~el~~~l~~~a~~~g~s~s~   37 (55)
T 2k9i_A            8 NGIKLGVYIPQEWHDRLMEIAKEKNLTLSD   37 (55)
T ss_dssp             CCEEEEEEECHHHHHHHHHHHHHHTCCHHH
T ss_pred             ccceEEEEcCHHHHHHHHHHHHHhCCCHHH
Confidence            689999999999999999999876544433

>1p94_A Plasmid partition protein PArg; ribbon-helix-helix, dimer, DNA binding, cell cycle; NMR {Salmonella enterica} SCOP: a.43.1.3

Probab=86.86  E-value=0.33  Score=29.91  Aligned_cols=31  Identities=13%  Similarity=0.279  Sum_probs=27.2

Q ss_pred             ceeEEEEeccHHHHHHHHHHHHhCChhhhhc
Q psy12287         26 NSVRVTFTIPKEAAVRLRQLAQQGNATLLQL   56 (76)
Q Consensus        26 nSVRVTf~IPreAA~rLr~LA~~g~~~Lr~L   56 (76)
                      ...|+||.||.+=-.||+.+|+..+-.+.++
T Consensus        33 ~~~Rlti~i~~~lh~rlK~~Aa~~g~Smsdv   63 (76)
T 1p94_A           33 KIKRVNVNFDEEKHTRFKAACARKGTSITDV   63 (76)
T ss_dssp             CEEECCEEEEHHHHHHHHHHHHHHTCCHHHH
T ss_pred             CceeEEEEcCHHHHHHHHHHHHHcCCCHHHH
Confidence            5699999999999999999999988776653

>2gpe_A Bifunctional protein PUTA; ribbon-helix-helix, DNA-binding domain, proline catabo proline utilization A, DNA binding protein; 1.90A {Escherichia coli} PDB: 2rbf_A* 2jxg_A 2jxh_A 2jxi_A*

Probab=86.74  E-value=0.96  Score=24.31  Aligned_cols=26  Identities=12%  Similarity=0.199  Sum_probs=22.5

Q ss_pred             eeEEEEeccHHHHHHHHHHHHhCChh
Q psy12287         27 SVRVTFTIPKEAAVRLRQLAQQGNAT   52 (76)
Q Consensus        27 SVRVTf~IPreAA~rLr~LA~~g~~~   52 (76)
                      .-.+||.||.+-.++|..+|+..+..
T Consensus         3 ~~~~sirl~~~l~~~l~~lA~~~~rs   28 (52)
T 2gpe_A            3 TTTMGVKLDDATRERIKSAATRIDRT   28 (52)
T ss_dssp             EEEEEEEEEHHHHHHHHHHHHHTTCC
T ss_pred             cceEEEECCHHHHHHHHHHHHHHCcC
Confidence            45799999999999999999987654

>2k5j_A Uncharacterized protein YIIF; structure, NESG, structural genomics, PSI-2, protein structure initiative; NMR {Shigella flexneri 5 str}

Probab=86.70  E-value=0.52  Score=28.40  Aligned_cols=24  Identities=25%  Similarity=0.322  Sum_probs=21.3

Q ss_pred             eeEEEEeccHHHHHHHHHHHHhCC
Q psy12287         27 SVRVTFTIPKEAAVRLRQLAQQGN   50 (76)
Q Consensus        27 SVRVTf~IPreAA~rLr~LA~~g~   50 (76)
                      -.|+|++||.|-.++|..||+..+
T Consensus         9 m~risI~Lpdel~~~Ld~la~~~g   32 (80)
T 2k5j_A            9 MGRILLDLSNEVIKQLDDLEVQRN   32 (80)
T ss_dssp             CCEEEEEECHHHHHHHHHHHHHHT
T ss_pred             eEEEEEECCHHHHHHHHHHHHHhC
Confidence            469999999999999999997654

>2an7_A Protein PARD; bacterial antidote, ribbon-helix-helix, DNA-binding motif, plasmid addiction, DNA binding protein; NMR {Escherichia coli}

Probab=84.99  E-value=0.74  Score=30.04  Aligned_cols=28  Identities=25%  Similarity=0.324  Sum_probs=23.2

Q ss_pred             eEEEEeccHHHHHHHHHHHHhCChhhhh
Q psy12287         28 VRVTFTIPKEAAVRLRQLAQQGNATLLQ   55 (76)
Q Consensus        28 VRVTf~IPreAA~rLr~LA~~g~~~Lr~   55 (76)
                      .|+||.||.+-.+||+.||+..-...++
T Consensus         2 SrLTIrLpd~qH~rLKalAa~qG~SInq   29 (83)
T 2an7_A            2 SRLTIDMTDQQHQSLKALAALQGKTIKQ   29 (83)
T ss_dssp             EEEEEEECHHHHHHHHHHHHHHTSCHHH
T ss_pred             ceeeEeCCHHHHHHHHHHHHHcCCcHHH
Confidence            4899999999999999999876544443

>2k6l_A Putative uncharacterized protein; xanthonomas axonopodis, RHH, structural proteomics, plasmid, hypothetical DNA binding protein; NMR {Xanthomonas axonopodis PV}

Probab=83.77  E-value=1.4  Score=26.55  Aligned_cols=22  Identities=18%  Similarity=0.351  Sum_probs=19.8

Q ss_pred             ceeEEEEeccHHHHHHHHHHHH
Q psy12287         26 NSVRVTFTIPKEAAVRLRQLAQ   47 (76)
Q Consensus        26 nSVRVTf~IPreAA~rLr~LA~   47 (76)
                      |+||.|++|+.|-.++||...+
T Consensus         2 ~~~r~tv~vs~d~d~~lR~~l~   23 (51)
T 2k6l_A            2 NTVRWNIAVSPDVDQSVRMFIA   23 (51)
T ss_dssp             CCEEEEEEECHHHHHHHHHHHH
T ss_pred             CceEEEEEeCHHHHHHHHHHHH
Confidence            7899999999999999998654

---

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

ID	Length	Definition	Probability
Query	76
d2bj7a1	50	Nickel responsive regulator NikR, N-terminal domai	85.6

>d2bj7a1 a.43.1.3 (A:1-50) Nickel responsive regulator NikR, N-terminal domain {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: All alpha proteins
fold: Ribbon-helix-helix
superfamily: Ribbon-helix-helix
family: CopG-like
domain: Nickel responsive regulator NikR, N-terminal domain
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=85.60  E-value=0.35  Score=26.99  Aligned_cols=24  Identities=17%  Similarity=0.380  Sum_probs=21.2

Q ss_pred             ceeEEEEeccHHHHHHHHHHHHhC
Q psy12287         26 NSVRVTFTIPKEAAVRLRQLAQQG   49 (76)
Q Consensus        26 nSVRVTf~IPreAA~rLr~LA~~g   49 (76)
                      +-+|+|++||.+-...|-++.+.+
T Consensus         2 ~l~Risvslp~~Ll~~lD~~v~~~   25 (50)
T d2bj7a1           2 ELIRFSISIPSKLLEKFDQIIEEI   25 (50)
T ss_dssp             CEEEEEEEEEHHHHHHHHHHHHHH
T ss_pred             ceEEEEEecCHHHHHHHHHHHHHc
Confidence            358999999999999999998765