Citrus Sinensis ID: 022743

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290--
MEGHHQHHQHHHHHHQQQQIHQQQQQQHLQHPPHISVNVDTSDRFPQWSVQETKEFLVIRAELDRSFMETKRNKLLWEVISTRMREKGYNRSAEQCKCKWKNLVTRYKGCETTEPEAMRQQFPFYNELQAIFASRMQRMLWAETEGGSKKKAAAAVQLSSEEEDFNEESEGEKGNVMRKKKKSKSSTGGAGASGSGSASSSHNFKEILEEFMKQQMQMEMQWREAFEARENERRIKEMEWRQTMEALENERIMMDRRLREREEQRRMREEARAEKRDALITALLNKLRREDM
cccccccccccccccccHHHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHcHHHHcccccccccccccHHHHcccccccccccccccccccHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccc
ccccccccccccccccHHHHHHHHcccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccHccccccccccccccccccccccccccccHHccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
meghhqhhqhhhhhhqqQQIHQQQQQqhlqhpphisvnvdtsdrfpqwsvqeTKEFLVIRAELDRSFMETKRNKLLWEVISTRMrekgynrsaeqckCKWKNLVtrykgcettepeamrqqfpfYNELQAIFASRMQRMLWAETEGGSKKKAAAAVQLSseeedfneesegekgnvmrkkkksksstggagasgsgsasssHNFKEILEEFMKQQMQMEMQWREAFEARENERRIKEMEWRQTMEALENERIMMDRRLREREEQRRMREEARAEKRDALITALLNKLRREDM
MEGHHQHHQHHHHHHQQQQIHQQQQQQHLQHPPHISVNVDTSDRFPQWSVQETKEFLVIRAEldrsfmetkrnkllWEVISTrmrekgynrsaeqckckwknLVTRYKGCEttepeamrqqfPFYNELQAIFASRMQRMLWAETEGGSKKKAAAAVQlsseeedfneesegekgnvmrkkkksksstggagasgsgsassshNFKEILEEFMKQQMQMEMQWREAFEARENERRIKemewrqtmealenerimmdrrlrereeQRRMREEARAEKRDALITAllnklrredm
MEGhhqhhqhhhhhhqqqqihqqqqqqhlqhPPHISVNVDTSDRFPQWSVQETKEFLVIRAELDRSFMETKRNKLLWEVISTRMREKGYNRSAEQCKCKWKNLVTRYKGCETTEPEAMRQQFPFYNELQAIFASRMQRMLWAETEGGSKKKAAAAVQLsseeedfneesegeKGNVMRkkkksksstggagasgsgsasssHNFKEILeefmkqqmqmemqwreafearenerrIKEMEWRQTMEALENerimmdrrlrereeqrrmreearaekrdaLITALLNKLRREDM
*******************************************RFPQWSVQETKEFLVIRAELDRSFMETKRNKLLWEVISTRMREKGYNRSAEQCKCKWKNLVTRYKGCETTEPEAMRQQFPFYNELQAIFASRMQRMLW*******************************************************************************************************************************************************
***************************************************ETKEFLVIRAELDR*****KRNKLLWEVISTRMREKGYNRSAEQCKCKWKNLVTR*****************FYNELQAIFA***********************************************************************************************************************************************DALITALLNKLRR***
*******************************PPHISVNVDTSDRFPQWSVQETKEFLVIRAELDRSFMETKRNKLLWEVISTRMR*********QCKCKWKNLVTRYKGCETTEPEAMRQQFPFYNELQAIFASRMQRMLWAE**********************************************************HNFKEILEEFMKQQMQMEMQWREAFEARENERRIKEMEWRQTMEALENERIMMDRRLR**************EKRDALITALLNKLRREDM
********************************************FPQWSVQETKEFLVIRAELDRSFMETKRNKLLWEVISTRMREKGYNRSAEQCKCKWKNLVTRYKGCETT****MRQQFPFYNELQAIFASRMQR****************************************************************NFKEILEEFMKQQMQMEMQWREAFEARENERRIKEMEWRQTMEALENERIMMDRRLREREEQRRMREEARAEKRDALITALLNKLRR***
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MEGHHQHHQHHHHHHQQQQIHQQQQQQHLQHPPHISVNVDTSDRFPQWSVQETKEFLVIRAELDRSFMETKRNKLLWEVISTRMREKGYNRSAEQCKCKWKNLVTRYKGCETTEPEAMRQQFPFYNELQAIFASRMQRMLWAETEGGSKKKAAAAVQLSSEEEDFNEESEGEKGNVMRKKKKSKSSTGGAGASGSGSASSSHNFKEILEEFMKQQMQMEMQWREAFEARENERRIKEMEWRQTxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxALLNKLRREDM
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 ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query292 2.2.26 [Sep-21-2011]
Q9SDW0323 Trihelix transcription fa yes no 0.849 0.767 0.531 1e-59
O80450289 Trihelix transcription fa no no 0.866 0.875 0.491 3e-57
Q9LU92372 Trihelix transcription fa no no 0.363 0.284 0.330 4e-12
Q9FX53406 Trihelix transcription fa no no 0.315 0.226 0.336 8e-10
B2KFW1 1030 Zinc finger and SCAN doma yes no 0.400 0.113 0.301 2e-08
Q8IWY8 852 Zinc finger and SCAN doma yes no 0.369 0.126 0.310 9e-08
Q39117575 Trihelix transcription fa no no 0.301 0.153 0.333 3e-07
P17040 1043 Zinc finger and SCAN doma no no 0.390 0.109 0.304 3e-07
Q9LZS0 591 Trihelix transcription fa no no 0.287 0.142 0.366 2e-06
Q9C882587 Trihelix transcription fa no no 0.301 0.149 0.282 7e-06
>sp|Q9SDW0|TGT3A_ARATH Trihelix transcription factor GT-3a OS=Arabidopsis thaliana GN=GT-3A PE=1 SV=1 Back     alignment and function desciption
 Score =  229 bits (585), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 142/267 (53%), Positives = 182/267 (68%), Gaps = 19/267 (7%)

Query: 43  DRFPQWSVQETKEFLVIRAELDRSFMETKRNKLLWEVISTRMREKGYNRSAEQCKCKWKN 102
           +R PQWS++ETKE L IR ELD++FMETKRNKLLWEV++ +M +KG+ RSAEQCK KWKN
Sbjct: 47  ERIPQWSIEETKELLAIREELDQTFMETKRNKLLWEVVAAKMADKGFVRSAEQCKSKWKN 106

Query: 103 LVTRYKGCETTEPEAMRQQFPFYNELQAIFASRMQRMLWAETEGGSKKKAAAAVQLSS-- 160
           LVTRYK CETTEP+A+RQQFPFYNE+Q+IF +RMQRMLW+E    S        Q SS  
Sbjct: 107 LVTRYKACETTEPDAIRQQFPFYNEIQSIFEARMQRMLWSEATEPSTSSKRKHHQFSSDD 166

Query: 161 -------EEEDFNEE---------SEGEKGNVMRKKKKSKSSTGGAG-ASGSGSASSSHN 203
                    +D NEE          E E           K +  G G ASG+ + ++ + 
Sbjct: 167 EEEEVDEPNQDINEELLSLVETQKRETEVITTSTSTNPRKRAKKGKGVASGTKAETAGNT 226

Query: 204 FKEILEEFMKQQMQMEMQWREAFEARENERRIKEMEWRQTMEALENERIMMDRRLREREE 263
            K+ILEEFM+Q ++ME +WR+A+E +E ER  +E EWR+ M  LE ER   +RR  EREE
Sbjct: 227 LKDILEEFMRQTVKMEKEWRDAWEMKEIEREKREKEWRRRMAELEEERAATERRWMEREE 286

Query: 264 QRRMREEARAEKRDALITALLNKLRRE 290
           +RR+REEARA+KRD+LI ALLN+L R+
Sbjct: 287 ERRLREEARAQKRDSLIDALLNRLNRD 313
Probable transcription factor that binds specifically to the core DNA sequence 5'-GTTAC-3'.
Arabidopsis thaliana (taxid: 3702)
>sp|O80450|TGT3B_ARATH Trihelix transcription factor GT-3b OS=Arabidopsis thaliana GN=GT-3B PE=1 SV=1 Back     alignment and function description
>sp|Q9LU92|TGT4_ARATH Trihelix transcription factor GT-4 OS=Arabidopsis thaliana GN=GT-4 PE=2 SV=1 Back     alignment and function description
>sp|Q9FX53|TGT1_ARATH Trihelix transcription factor GT-1 OS=Arabidopsis thaliana GN=GT-1 PE=1 SV=1 Back     alignment and function description
>sp|B2KFW1|ZSC20_MOUSE Zinc finger and SCAN domain-containing protein 20 OS=Mus musculus GN=Zscan20 PE=2 SV=2 Back     alignment and function description
>sp|Q8IWY8|ZSC29_HUMAN Zinc finger and SCAN domain-containing protein 29 OS=Homo sapiens GN=ZSCAN29 PE=1 SV=2 Back     alignment and function description
>sp|Q39117|TGT2_ARATH Trihelix transcription factor GT-2 OS=Arabidopsis thaliana GN=GT-2 PE=2 SV=1 Back     alignment and function description
>sp|P17040|ZSC20_HUMAN Zinc finger and SCAN domain-containing protein 20 OS=Homo sapiens GN=ZSCAN20 PE=2 SV=3 Back     alignment and function description
>sp|Q9LZS0|PTL_ARATH Trihelix transcription factor PTL OS=Arabidopsis thaliana GN=PTL PE=2 SV=1 Back     alignment and function description
>sp|Q9C882|GTL1_ARATH Trihelix transcription factor GTL1 OS=Arabidopsis thaliana GN=GTL1 PE=1 SV=2 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query292
224087762274 predicted protein [Populus trichocarpa] 0.863 0.919 0.740 6e-93
356506602249 PREDICTED: trihelix transcription factor 0.845 0.991 0.747 3e-92
356566684292 PREDICTED: trihelix transcription factor 0.880 0.880 0.720 1e-90
224139120279 predicted protein [Populus trichocarpa] 0.863 0.903 0.745 1e-89
225439416255 PREDICTED: trihelix transcription factor 0.859 0.984 0.776 2e-89
356496207272 PREDICTED: trihelix transcription factor 0.845 0.908 0.731 5e-88
356523316285 PREDICTED: trihelix transcription factor 0.869 0.891 0.723 2e-86
357468757279 Zinc finger and SCAN domain-containing p 0.842 0.881 0.695 1e-82
449439884290 PREDICTED: trihelix transcription factor 0.852 0.858 0.704 4e-81
449530961307 PREDICTED: trihelix transcription factor 0.852 0.811 0.704 4e-81
>gi|224087762|ref|XP_002308224.1| predicted protein [Populus trichocarpa] gi|222854200|gb|EEE91747.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  346 bits (888), Expect = 6e-93,   Method: Compositional matrix adjust.
 Identities = 194/262 (74%), Positives = 215/262 (82%), Gaps = 10/262 (3%)

Query: 34  HISVNVDTSDRFPQWSVQETKEFLVIRAELDRSFMETKRNKLLWEVISTRMREKGYNRSA 93
           +ISVNVDTSDRFPQWS+QETKEFL+IRAELD +FME KRNK+LWEVIS  M+EKGYNRSA
Sbjct: 20  NISVNVDTSDRFPQWSIQETKEFLMIRAELDPTFMEKKRNKVLWEVISKNMKEKGYNRSA 79

Query: 94  EQCKCKWKNLVTRYKGCETTEPEAMRQQFPFYNELQAIFASRMQRMLWAETEG---GSKK 150
           EQCKCKWKNLVTRYKG ET EPE+MR QFPFYNELQAIF SRMQRMLW + EG   GSKK
Sbjct: 80  EQCKCKWKNLVTRYKGYETIEPESMRHQFPFYNELQAIFTSRMQRMLWVDAEGAASGSKK 139

Query: 151 KAAAAVQLSSEEEDFNEESEGEKGNVMRKKKKSKSSTGGAGASGSGSASSSHNFKEILEE 210
           KAA       E+    E SEGEKG+  ++ KK K + GGA    S S  +S++ +E LE+
Sbjct: 140 KAAQLSSDEEEDN--EEISEGEKGSSRKRIKKGK-AVGGA----SCSTGNSNSLRETLED 192

Query: 211 FMKQQMQMEMQWREAFEARENERRIKEMEWRQTMEALENERIMMDRRLREREEQRRMREE 270
           FMKQQMQMEMQWRE FEARENERR+KEMEWRQ ME +ENER  MDRR RE EEQRR+REE
Sbjct: 193 FMKQQMQMEMQWRETFEARENERRMKEMEWRQIMEGIENERTTMDRRWREIEEQRRVREE 252

Query: 271 ARAEKRDALITALLNKLRREDM 292
           ARAEKRDALITALLNKLRREDM
Sbjct: 253 ARAEKRDALITALLNKLRREDM 274

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|356506602|ref|XP_003522067.1| PREDICTED: trihelix transcription factor GT-3b-like [Glycine max] Back     alignment and taxonomy information
>gi|356566684|ref|XP_003551560.1| PREDICTED: trihelix transcription factor GT-3a-like [Glycine max] Back     alignment and taxonomy information
>gi|224139120|ref|XP_002322985.1| predicted protein [Populus trichocarpa] gi|222867615|gb|EEF04746.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|225439416|ref|XP_002264016.1| PREDICTED: trihelix transcription factor GT-3a [Vitis vinifera] Back     alignment and taxonomy information
>gi|356496207|ref|XP_003516961.1| PREDICTED: trihelix transcription factor GT-3b-like [Glycine max] Back     alignment and taxonomy information
>gi|356523316|ref|XP_003530286.1| PREDICTED: trihelix transcription factor GT-3a-like [Glycine max] Back     alignment and taxonomy information
>gi|357468757|ref|XP_003604663.1| Zinc finger and SCAN domain-containing protein [Medicago truncatula] gi|355505718|gb|AES86860.1| Zinc finger and SCAN domain-containing protein [Medicago truncatula] Back     alignment and taxonomy information
>gi|449439884|ref|XP_004137715.1| PREDICTED: trihelix transcription factor GT-3a-like, partial [Cucumis sativus] Back     alignment and taxonomy information
>gi|449530961|ref|XP_004172460.1| PREDICTED: trihelix transcription factor GT-3a-like [Cucumis sativus] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query292
TAIR|locus:2042847289 AT2G38250 [Arabidopsis thalian 0.421 0.425 0.682 1.6e-47
TAIR|locus:2179192323 AT5G01380 [Arabidopsis thalian 0.373 0.337 0.709 4.1e-45
TAIR|locus:2092130372 AT3G25990 [Arabidopsis thalian 0.376 0.295 0.327 2.4e-14
TAIR|locus:2009897406 GT-1 "GT-1" [Arabidopsis thali 0.328 0.236 0.333 1e-11
TAIR|locus:2036272575 GT2 [Arabidopsis thaliana (tax 0.335 0.170 0.32 1.7e-09
TAIR|locus:2100148 481 EDA31 "embryo sac development 0.287 0.174 0.362 5.7e-09
TAIR|locus:2144553 591 PTL "PETAL LOSS" [Arabidopsis 0.287 0.142 0.366 6.2e-09
UNIPROTKB|F1N628 1044 ZSCAN20 "Uncharacterized prote 0.291 0.081 0.333 8.1e-09
UNIPROTKB|F1SV80 1045 ZSCAN20 "Uncharacterized prote 0.291 0.081 0.333 8.1e-09
UNIPROTKB|J9P1Y6 607 J9P1Y6 "Uncharacterized protei 0.284 0.136 0.329 1.1e-08
TAIR|locus:2042847 AT2G38250 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 460 (167.0 bits), Expect = 1.6e-47, Sum P(2) = 1.6e-47
 Identities = 84/123 (68%), Positives = 99/123 (80%)

Query:    33 PHISVNVDTSDRFPQWSVQETKEFLVIRAELDRSFMETKRNKLLWEVISTRMREKGYNRS 92
             P I+  V   DRFPQWSV+ETKE + IR ELD++FMETKRNKLLWEVIS +MR+K + RS
Sbjct:    27 PEIASPVAVGDRFPQWSVEETKELIGIRGELDQTFMETKRNKLLWEVISNKMRDKSFPRS 86

Query:    93 AEQCKCKWKNLVTRYKGCETTEPEAMRQQFPFYNELQAIFASRMQRMLWAETEGGSKKKA 152
              EQCKCKWKNLVTR+KGCET E E  RQQFPFY+++Q IF +RMQRMLWAE+EGG    +
Sbjct:    87 PEQCKCKWKNLVTRFKGCETMEAETARQQFPFYDDMQNIFTTRMQRMLWAESEGGGGGTS 146

Query:   153 AAA 155
              AA
Sbjct:   147 GAA 149
GO:0003677 "DNA binding" evidence=IEA
GO:0005634 "nucleus" evidence=ISM;IDA
GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS
GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA;TAS
GO:0005515 "protein binding" evidence=IPI
GO:0005730 "nucleolus" evidence=IDA
GO:0016592 "mediator complex" evidence=IDA
GO:0010200 "response to chitin" evidence=RCA
TAIR|locus:2179192 AT5G01380 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2092130 AT3G25990 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2009897 GT-1 "GT-1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2036272 GT2 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2100148 EDA31 "embryo sac development arrest 31" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2144553 PTL "PETAL LOSS" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|F1N628 ZSCAN20 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1SV80 ZSCAN20 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|J9P1Y6 J9P1Y6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms

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) ?
Q9SDW0TGT3A_ARATHNo assigned EC number0.53180.84930.7678yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query292
cd1220366 cd12203, GT1, GT1, myb-like, SANT family 8e-23
pfam1383784 pfam13837, Myb_DNA-bind_4, Myb/SANT-like DNA-bindi 1e-17
PHA03420137 PHA03420, PHA03420, E4 protein; Provisional 8e-05
pfam04684508 pfam04684, BAF1_ABF1, BAF1 / ABF1 chromatin reorga 4e-04
>gnl|CDD|213402 cd12203, GT1, GT1, myb-like, SANT family Back     alignment and domain information 
 Score = 88.9 bits (221), Expect = 8e-23
 Identities = 32/66 (48%), Positives = 43/66 (65%)

Query: 46  PQWSVQETKEFLVIRAELDRSFMETKRNKLLWEVISTRMREKGYNRSAEQCKCKWKNLVT 105
            +W  +ET   + +R E++  F ETK  K LWE I+ +MRE GYNRSA+QCK KW+NL  
Sbjct: 1   KRWPREETLSLIRLRREMESRFQETKSKKALWEEIAAKMRELGYNRSAKQCKEKWENLNK 60

Query: 106 RYKGCE 111
            YK  +
Sbjct: 61  YYKKVK 66

GT-1, a myb-like protein, is one of the GT trihelix transcription factors. GT-1 binds the GT cis-element of rbcS-3A, a light-induced gene, as a dimer. Arabidopsis GT-1 is a trans-activator and acts in the stabilization of components of the transcrtiption pre-initiation complex comprised of TFIIA-TBP-TATA. The isolated GT-1 DNA-binding domain is sufficient to bind DNA. This region closely resemble the myb domain, but with longer helices. It has been proposed that GT-1 may respond to light signals via calcium-dependent phosphorylation to create a light-modulated molecular switch. These proteins are members of the SANT/myb group. SANT is named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. The SANT domain resembles the 3 alpha-helix bundle of the DNA-binding Myb domains and is found in a diverse set of proteins. Length = 66
>gnl|CDD|222409 pfam13837, Myb_DNA-bind_4, Myb/SANT-like DNA-binding domain Back     alignment and domain information
>gnl|CDD|177648 PHA03420, PHA03420, E4 protein; Provisional Back     alignment and domain information
>gnl|CDD|113452 pfam04684, BAF1_ABF1, BAF1 / ABF1 chromatin reorganising factor Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 292
KOG4282345 consensus Transcription factor GT-2 and related pr 99.93
PF1383790 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; 99.87
PF1387378 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain 98.43
smart0059589 MADF subfamily of SANT domain. 98.16
PF1277696 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; 97.99
PF1054585 MADF_DNA_bdg: Alcohol dehydrogenase transcription 97.68
PF0024948 Myb_DNA-binding: Myb-like DNA-binding domain; Inte 97.55
PF1392160 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 97.34
smart0071749 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-bindi 97.24
cd0016745 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding do 97.02
PLN03212249 Transcription repressor MYB5; Provisional 93.07
PLN03212249 Transcription repressor MYB5; Provisional 91.31
KOG1029 1118 consensus Endocytic adaptor protein intersectin [S 91.17
PLN03091 459 hypothetical protein; Provisional 90.52
PLN03091 459 hypothetical protein; Provisional 90.18
COG5259531 RSC8 RSC chromatin remodeling complex subunit RSC8 87.35
KOG1279506 consensus Chromatin remodeling factor subunit and 84.85
PF0450498 DUF573: Protein of unknown function, DUF573; Inter 80.22
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription] Back     alignment and domain information 
Probab=99.93  E-value=1.8e-24  Score=206.19  Aligned_cols=225  Identities=25%  Similarity=0.377  Sum_probs=152.0

Q ss_pred             CCCCCHHHHHHHHHHHHhhhHHhhhhchhhHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhhhhcccCCC-cccCCCCC
Q 022743           45 FPQWSVQETKEFLVIRAELDRSFMETKRNKLLWEVISTRMREKGYNRSAEQCKCKWKNLVTRYKGCETTEP-EAMRQQFP  123 (292)
Q Consensus        45 ~~~WT~eET~aLI~Ir~e~e~~F~~skrn~~lWe~IS~kM~e~Gy~RTaeQCk~KwkNLkk~YKkiK~~~~-~~gr~~wp  123 (292)
                      .+.|+.+||++||.||++++..|..+++|.++|++||++|.+.||.||+.||+.||+||+++||+.+.... ..+..+|+
T Consensus        54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~k~~~~~~~~~s~~~  133 (345)
T KOG4282|consen   54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKEKAKKEGSGEGSSWK  133 (345)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhcccCCCCCCccch
Confidence            48999999999999999999999999999999999999999999999999999999999999999865433 22345999


Q ss_pred             ChHhHHHHhc-Cccc----cch--hhhcccC--cch-hhhh---h-cc--CCCCccc-----ccccc----cc--cc---
Q 022743          124 FYNELQAIFA-SRMQ----RML--WAETEGG--SKK-KAAA---A-VQ--LSSEEED-----FNEES----EG--EK---  173 (292)
Q Consensus       124 fFdeLD~Ilg-~~~~----~~l--~~E~~~g--~~~-~~~~---~-~~--~ss~~~~-----~~ed~----~~--~~---  173 (292)
                      ||..||.++. ..+.    .++  ...++.+  .+. ....   . ..  .++.+.+     .+.+.    +.  ..   
T Consensus       134 ff~~le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~  213 (345)
T KOG4282|consen  134 FFSELEALLITFKARPRSDEVGPGNASAPLTLSVSSEPQFSSNPTELQFDGSSLEDSSQPSGLNEDNSNSSSPEPVAGSL  213 (345)
T ss_pred             HHHHHHHHHhccCCCCCCCCCCcccccCccccCCCCCCCCCCCccccccCCCcCCCCCcccccCccccccCCCCCCCcch
Confidence            9999999996 2221    111  0011100  000 0000   0 00  0000000     00000    00  00   


Q ss_pred             ------cc-------c---ccccccccCCCCCCCCCCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 022743          174 ------GN-------V---MRKKKKSKSSTGGAGASGSGSASSSHNFKEILEEFMKQQMQMEMQWREAFEARENERRIKE  237 (292)
Q Consensus       174 ------~~-------~---~~kkrk~~~~~~~~~~~~~~s~~~~~~~~~~~~~~m~~Q~~m~~~~~e~~e~re~eR~~rE  237 (292)
                            .+       .   ..+.+++.  .+.        .....++.++++.+++.|+.|...++.+.+.++++|+.++
T Consensus       214 ~~~~~~s~~~~~s~~~~~~~~~~~~~~--~~~--------~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~  283 (345)
T KOG4282|consen  214 SNDTSSSSSPDDSADSEGGKSSSRKRR--VRK--------DGSKEGIEELMREVARSQERLDEVLERVEEKKEQERMSEE  283 (345)
T ss_pred             hhccccccchhcccccccCCCCCCCcc--ccc--------cccchhHHHHhhhhhhhHHHHHHHHHHHhccchHhhhhHH
Confidence                  00       0   00001000  000        0124589999999999999999999999889999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhccc
Q 022743          238 MEWRQTMEALENERIMMDRRLREREEQRRMREEARAEKRDALITALLNKLRRED  291 (292)
Q Consensus       238 e~Wr~~m~~Le~er~~~e~~w~~re~~~r~re~a~a~~Rda~~~~~l~k~~~~~  291 (292)
                      +.||.+    +.+| .+       |...+.+++.....++..+|.+++.+++..
T Consensus       284 e~~r~~----~~~r-~k-------e~e~~~~~~~~~~~~~i~~i~~~~~~~~~~  325 (345)
T KOG4282|consen  284 EKWRME----EIER-NK-------ELELARQERIQETQLEIRSIKAIQASRRGS  325 (345)
T ss_pred             HHHHHH----HHHh-cc-------hHHHHHHHHHHHHHHHHHHHHHHHhccccC
Confidence            999987    5555 22       445566677777889999999999887653

>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A Back     alignment and domain information
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain Back     alignment and domain information
>smart00595 MADF subfamily of SANT domain Back     alignment and domain information
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains Back     alignment and domain information
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats Back     alignment and domain information
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins Back     alignment and domain information
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A Back     alignment and domain information
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains Back     alignment and domain information
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains Back     alignment and domain information
>PLN03212 Transcription repressor MYB5; Provisional Back     alignment and domain information
>PLN03212 Transcription repressor MYB5; Provisional Back     alignment and domain information
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PLN03091 hypothetical protein; Provisional Back     alignment and domain information
>PLN03091 hypothetical protein; Provisional Back     alignment and domain information
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription] Back     alignment and domain information
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics] Back     alignment and domain information
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query292
2ebi_A86 Arabidopsis Gt-1 Dna-Binding Domain With T133d Phos 2e-10
2jmw_A86 Structure Of Dna-Binding Domain Of Arabidopsis Gt-1 4e-10
>pdb|2EBI|A Chain A, Arabidopsis Gt-1 Dna-Binding Domain With T133d Phosphomimetic Mutation Length = 86 Back     alignment and structure 
Iteration: 1

 Score = 63.2 bits (152), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 30/84 (35%), Positives = 47/84 (55%)
Query: 44  RFPQWSVQETKEFLVIRAELDRSFMETKRNKLLWEVISTRMREKGYNRSAEQCKCKWKNL 103
           R   W   ET+  ++ R  +D  F  +K NK LWE IS++MREKG++RS + C  KW+NL
Sbjct: 3   RAETWVQDETRSLIMFRRGMDGLFNTSKSNKHLWEQISSKMREKGFDRSPDMCTDKWRNL 62
Query: 104 VTRYKGCETTEPEAMRQQFPFYNE 127
           +  +K  +  +      +  +Y E
Sbjct: 63  LKEFKKAKHHDRGNGSAKMSYYKE 86
>pdb|2JMW|A Chain A, Structure Of Dna-Binding Domain Of Arabidopsis Gt-1 Length = 86 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query292
2ebi_A86 DNA binding protein GT-1; DNA-binding domain, phos 3e-24
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-10
>2ebi_A DNA binding protein GT-1; DNA-binding domain, phosphorylation; HET: DNA; NMR {Arabidopsis thaliana} PDB: 2jmw_A* Length = 86 Back     alignment and structure
 Score = 92.9 bits (231), Expect = 3e-24
 Identities = 30/85 (35%), Positives = 47/85 (55%)

Query: 43  DRFPQWSVQETKEFLVIRAELDRSFMETKRNKLLWEVISTRMREKGYNRSAEQCKCKWKN 102
            R   W   ET+  ++ R  +D  F  +K NK LWE IS++MREKG++RS + C  KW+N
Sbjct: 2   KRAETWVQDETRSLIMFRRGMDGLFNTSKSNKHLWEQISSKMREKGFDRSPDMCTDKWRN 61

Query: 103 LVTRYKGCETTEPEAMRQQFPFYNE 127
           L+  +K  +  +      +  +Y E
Sbjct: 62  LLKEFKKAKHHDRGNGSAKMSYYKE 86
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query292
2ebi_A86 DNA binding protein GT-1; DNA-binding domain, phos 99.92
3sjm_A64 Telomeric repeat-binding factor 2; human telomeric 97.7
1w0t_A53 Telomeric repeat binding factor 1; telomere, DNA-b 97.62
2din_A66 Cell division cycle 5-like protein; MYB_DNA-bindin 97.49
1ity_A69 TRF1; helix-turn-helix, telomeres, DNA binding, MY 97.43
2cqq_A72 RSGI RUH-037, DNAJ homolog subfamily C member 1; m 97.28
2juh_A121 Telomere binding protein TBP1; helix, nucleus, nuc 97.16
1guu_A52 C-MYB, MYB proto-oncogene protein; transcription, 97.05
2llk_A73 Cyclin-D-binding MYB-like transcription factor 1; 97.03
2d9a_A60 B-MYB, MYB-related protein B; DNA binding, structu 96.98
1x41_A60 Transcriptional adaptor 2-like, isoform B; transcr 96.93
2dim_A70 Cell division cycle 5-like protein; MYB_DNA-bindin 96.89
2elk_A58 SPCC24B10.08C protein; hypothetical protein, struc 96.84
1gvd_A52 MYB proto-oncogene protein; transcription, transcr 96.67
2roh_A122 RTBP1, telomere binding protein-1; plant, nucleus, 96.67
2yum_A75 ZZZ3 protein, zinc finger ZZ-type-containing prote 96.63
2yus_A79 SWI/SNF-related matrix-associated actin- dependent 96.63
2cu7_A72 KIAA1915 protein; nuclear protein, SANT domain, DN 96.62
2ckx_A83 NGTRF1, telomere binding protein TBP1; nuclear pro 96.55
2k9n_A107 MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind 96.5
2cjj_A93 Radialis; plant development, DNA-binding protein, 96.49
2ltp_A89 Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s 95.45
2cqr_A73 RSGI RUH-043, DNAJ homolog subfamily C member 1; m 96.35
3osg_A126 MYB21; transcription-DNA complex, MYB2, R2R3 domai 96.31
2aje_A105 Telomere repeat-binding protein; DNA-binding, Trp, 96.16
1gv2_A105 C-MYB, MYB proto-oncogene protein; transcription, 95.98
2k9n_A107 MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind 95.47
3osg_A126 MYB21; transcription-DNA complex, MYB2, R2R3 domai 95.36
1h8a_C128 AMV V-MYB, MYB transforming protein; transcription 95.3
1gv2_A105 C-MYB, MYB proto-oncogene protein; transcription, 95.09
1h8a_C128 AMV V-MYB, MYB transforming protein; transcription 95.05
3zqc_A131 MYB3; transcription-DNA complex, DNA-binding prote 95.04
1x58_A62 Hypothetical protein 4930532D21RIK; MUS musculus a 94.71
1h89_C159 C-MYB, MYB proto-oncogene protein; transcription/D 93.98
1h89_C159 C-MYB, MYB proto-oncogene protein; transcription/D 93.68
1wgx_A73 KIAA1903 protein; MYB DNA-binding domain, human cD 93.38
1ug2_A95 2610100B20RIK gene product; hypothetical protein, 92.75
3hm5_A93 DNA methyltransferase 1-associated protein 1; DNA 92.03
3zqc_A131 MYB3; transcription-DNA complex, DNA-binding prote 91.76
2lr8_A70 CAsp8-associated protein 2; structural genomics, n 89.68
1ign_A246 Protein (RAP1); RAP1,yeast,telomeres,homoeodomain, 89.27
2iw5_B235 Protein corest, REST corepressor 1; oxidoreductase 88.23
2eqr_A61 N-COR1, N-COR, nuclear receptor corepressor 1; SAN 87.54
>2ebi_A DNA binding protein GT-1; DNA-binding domain, phosphorylation; HET: DNA; NMR {Arabidopsis thaliana} PDB: 2jmw_A* Back     alignment and structure
Probab=99.92  E-value=2.3e-25  Score=173.02  Aligned_cols=85  Identities=35%  Similarity=0.734  Sum_probs=80.2

Q ss_pred             CCCCCCCHHHHHHHHHHHHhhhHHhhhhchhhHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhhhhcccCCCcccCCCC
Q 022743           43 DRFPQWSVQETKEFLVIRAELDRSFMETKRNKLLWEVISTRMREKGYNRSAEQCKCKWKNLVTRYKGCETTEPEAMRQQF  122 (292)
Q Consensus        43 ~R~~~WT~eET~aLI~Ir~e~e~~F~~skrn~~lWe~IS~kM~e~Gy~RTaeQCk~KwkNLkk~YKkiK~~~~~~gr~~w  122 (292)
                      .|.+.||++||++||.||++++..|..++++..+|+.||..|.++||.|||.||+.||+||++.|+++++++..+|+.+|
T Consensus         2 kR~~~Wt~~Et~~Li~~~~e~~~~f~~~~~~~~~W~~Ia~~m~~~G~~rs~~qC~~K~~nL~k~Yk~~k~~~~~sG~~~~   81 (86)
T 2ebi_A            2 KRAETWVQDETRSLIMFRRGMDGLFNTSKSNKHLWEQISSKMREKGFDRSPDMCTDKWRNLLKEFKKAKHHDRGNGSAKM   81 (86)
T ss_dssp             CCSCCCCHHHHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCSCSSCCCCCCCCCC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHhcccCCCCCC
Confidence            57899999999999999999999999999999999999999999999999999999999999999999988776777799


Q ss_pred             CChHh
Q 022743          123 PFYNE  127 (292)
Q Consensus       123 pfFde  127 (292)
                      |||++
T Consensus        82 ~yf~e   86 (86)
T 2ebi_A           82 SYYKE   86 (86)
T ss_dssp             CCCCC
T ss_pred             CCCCc
Confidence            99985
>3sjm_A Telomeric repeat-binding factor 2; human telomeric repeat binding protein 2, telomere, telomeri homeodomain proteins amino acid sequence; HET: DNA; 1.35A {Homo sapiens} PDB: 1xg1_A 1vfc_A 1vf9_A 1w0u_A Back     alignment and structure
>1w0t_A Telomeric repeat binding factor 1; telomere, DNA-binding protein, homeodomain, mitosis, cell cycle; 2.00A {Homo sapiens} SCOP: a.4.1.4 PDB: 1ba5_A Back     alignment and structure
>2din_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1ity_A TRF1; helix-turn-helix, telomeres, DNA binding, MYB domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: a.4.1.4 PDB: 1iv6_A Back     alignment and structure
>2cqq_A RSGI RUH-037, DNAJ homolog subfamily C member 1; membrane protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3 Back     alignment and structure
>2juh_A Telomere binding protein TBP1; helix, nucleus, nuclear protein; NMR {Nicotiana glutinosa} Back     alignment and structure
>1guu_A C-MYB, MYB proto-oncogene protein; transcription, transcription regulation, DNA binding, ION bindi proto-oncogene, nuclear protein, activator; 1.6A {Mus musculus} SCOP: a.4.1.3 PDB: 1mbe_A 1mbf_A Back     alignment and structure
>2llk_A Cyclin-D-binding MYB-like transcription factor 1; helix bundle, SGC, structural genomics consortium, NESG, NOR structural genomics consortium; NMR {Homo sapiens} Back     alignment and structure
>2d9a_A B-MYB, MYB-related protein B; DNA binding, structural genomics, unknown function, NPPSFA; NMR {Mus musculus} Back     alignment and structure
>1x41_A Transcriptional adaptor 2-like, isoform B; transcriptional adaptor protein2, transcriptional activation, MYB domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1 Back     alignment and structure
>2dim_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics, NPPSFA; NMR {Schizosaccharomyces pombe} Back     alignment and structure
>1gvd_A MYB proto-oncogene protein; transcription, transcription regulation, C-MYB, DNA binding, ION binding, nuclear protein; 1.45A {Mus musculus} SCOP: a.4.1.3 PDB: 1gv5_A 1mbg_A 1mbh_A Back     alignment and structure
>2roh_A RTBP1, telomere binding protein-1; plant, nucleus, DNA binding protein; NMR {Oryza sativa} Back     alignment and structure
>2yum_A ZZZ3 protein, zinc finger ZZ-type-containing protein 3; transcription, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2yus_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; SWI/SNF complex 155 kDa subunit, BRG1-associated factor 155; NMR {Homo sapiens} Back     alignment and structure
>2cu7_A KIAA1915 protein; nuclear protein, SANT domain, DNA binding, regulation of transcription, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3 Back     alignment and structure
>2ckx_A NGTRF1, telomere binding protein TBP1; nuclear protein; 1.9A {Nicotiana tabacum} SCOP: a.4.1.3 PDB: 2qhb_A Back     alignment and structure
>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_A Back     alignment and structure
>2cjj_A Radialis; plant development, DNA-binding protein, MYB transcription FA DNA-binding, nuclear protein, floral asymmetry; 1.9A {Antirrhinum majus} SCOP: a.4.1.3 Back     alignment and structure
>2ltp_A Nuclear receptor corepressor 2; SMRT, TRAC, SGC, structural genomics consortium, NESG, north structural genomics consortium; NMR {Homo sapiens} Back     alignment and structure
>2cqr_A RSGI RUH-043, DNAJ homolog subfamily C member 1; membrane protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3 Back     alignment and structure
>3osg_A MYB21; transcription-DNA complex, MYB2, R2R3 domain, DNA binding PR transcription factor; 2.00A {Trichomonas vaginalis} PDB: 3osf_A Back     alignment and structure
>2aje_A Telomere repeat-binding protein; DNA-binding, Trp, MYB motif, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.3 Back     alignment and structure
>1gv2_A C-MYB, MYB proto-oncogene protein; transcription, DNA binding, ION binding; 1.68A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 PDB: 1mse_C* 1msf_C* 1a5j_A 1idy_A 1idz_A 1mbj_A 1mbk_A Back     alignment and structure
>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_A Back     alignment and structure
>3osg_A MYB21; transcription-DNA complex, MYB2, R2R3 domain, DNA binding PR transcription factor; 2.00A {Trichomonas vaginalis} PDB: 3osf_A Back     alignment and structure
>1h8a_C AMV V-MYB, MYB transforming protein; transcription/DNA; 2.23A {Avian myeloblastosis virus} SCOP: a.4.1.3 a.4.1.3 Back     alignment and structure
>1gv2_A C-MYB, MYB proto-oncogene protein; transcription, DNA binding, ION binding; 1.68A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 PDB: 1mse_C* 1msf_C* 1a5j_A 1idy_A 1idz_A 1mbj_A 1mbk_A Back     alignment and structure
>1h8a_C AMV V-MYB, MYB transforming protein; transcription/DNA; 2.23A {Avian myeloblastosis virus} SCOP: a.4.1.3 a.4.1.3 Back     alignment and structure
>3zqc_A MYB3; transcription-DNA complex, DNA-binding protein, nucleus; 2.90A {Trichomonas vaginalis} Back     alignment and structure
>1x58_A Hypothetical protein 4930532D21RIK; MUS musculus adult MALE testis cDNA, riken FULL-length enriched library, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.1 Back     alignment and structure
>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C Back     alignment and structure
>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C Back     alignment and structure
>1wgx_A KIAA1903 protein; MYB DNA-binding domain, human cDNA, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.4.1.3 Back     alignment and structure
>1ug2_A 2610100B20RIK gene product; hypothetical protein, MYB-like DNA binding domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.4.1.3 Back     alignment and structure
>3hm5_A DNA methyltransferase 1-associated protein 1; DNA methylation, chromatin, structural genomics consortium, SGC, activator, chromatin regulator; HET: DNA; 1.80A {Homo sapiens} Back     alignment and structure
>3zqc_A MYB3; transcription-DNA complex, DNA-binding protein, nucleus; 2.90A {Trichomonas vaginalis} Back     alignment and structure
>2lr8_A CAsp8-associated protein 2; structural genomics, northeast structural genomics consortiu PSI-biology, apoptosis; NMR {Homo sapiens} Back     alignment and structure
>1ign_A Protein (RAP1); RAP1,yeast,telomeres,homoeodomain, DNA binding protein/DNA complex; HET: DNA; 2.25A {Saccharomyces cerevisiae} SCOP: a.4.1.6 a.4.1.6 PDB: 3ukg_A Back     alignment and structure
>2iw5_B Protein corest, REST corepressor 1; oxidoreductase-transcription regulator complex, oxidoreductase/repressor complex, histone demethylase, FAD; HET: FAD; 2.57A {Homo sapiens} SCOP: a.4.1.3 PDB: 2uxn_B* 2uxx_B* 2y48_B* 2v1d_B* 2x0l_B* Back     alignment and structure
>2eqr_A N-COR1, N-COR, nuclear receptor corepressor 1; SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure

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 ?Alignment Graph ?Length ? Definition ? Probability ?
Query292
d1w0ta_52 DNA-binding domain of human telomeric protein, hTR 97.62
d2cjja163 Radialis {Garden snapdragon (Antirrhinum majus) [T 97.43
d1w0ua_55 Telomeric repeat binding factor 2, TRF2 {Human (Ho 97.4
d2ckxa183 Telomere binding protein TBP1 {Tobacco (Nicotiana 97.36
d1x41a147 Transcriptional adaptor 2-like, TADA2L, isoform b 97.29
d2cqra160 DnaJ homolog subfamily C member 1 {Human (Homo sap 96.9
d1ug2a_95 2610100b20rik gene product {Mouse (Mus musculus) [ 96.83
d1guua_50 c-Myb, DNA-binding domain {Mouse (Mus musculus) [T 96.61
d1gvda_52 c-Myb, DNA-binding domain {Mouse (Mus musculus) [T 96.47
d1gv2a247 c-Myb, DNA-binding domain {Mouse (Mus musculus) [T 96.37
d2cu7a165 MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 960 96.34
d2iw5b165 REST corepressor 1, CoREST {Human (Homo sapiens) [ 96.3
d1igna186 DNA-binding domain of rap1 {Baker's yeast (Sacchar 95.6
d2cqqa159 DnaJ homolog subfamily C member 1 {Human (Homo sap 94.95
d1xc5a168 Nuclear receptor corepressor 2 {Human (Homo sapien 92.82
>d1w0ta_ a.4.1.4 (A:) DNA-binding domain of human telomeric protein, hTRF1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of telomeric protein
domain: DNA-binding domain of human telomeric protein, hTRF1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.62  E-value=4.3e-05  Score=52.25  Aligned_cols=48  Identities=19%  Similarity=0.356  Sum_probs=38.2

Q ss_pred             CCCCHHHHHHHHHHHHhhhHHhhhhchhhHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHH
Q 022743           46 PQWSVQETKEFLVIRAELDRSFMETKRNKLLWEVISTRMREKGY-NRSAEQCKCKWKNLVT  105 (292)
Q Consensus        46 ~~WT~eET~aLI~Ir~e~e~~F~~skrn~~lWe~IS~kM~e~Gy-~RTaeQCk~KwkNLkk  105 (292)
                      ..||.+|...|+.+...+.         ..-|..|+..+   ++ .||+.||+.||.||++
T Consensus         3 ~~WT~eED~~L~~~v~~~G---------~~~W~~I~~~~---~~~~Rt~~q~r~Rw~nl~K   51 (52)
T d1w0ta_           3 QAWLWEEDKNLRSGVRKYG---------EGNWSKILLHY---KFNNRTSVMLKDRWRTMKK   51 (52)
T ss_dssp             CCCCHHHHHHHHHHHHHHC---------TTCHHHHHHHS---CCSSCCHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHC---------CCCHHHHHhhc---CCCCCCHHHHHHHHHHHHC
Confidence            4799999999999887741         13599997543   33 5999999999999975
>d2cjja1 a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Antirrhinum majus) [TaxId: 4151]} Back     information, alignment and structure
>d1w0ua_ a.4.1.4 (A:) Telomeric repeat binding factor 2, TRF2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ckxa1 a.4.1.3 (A:578-660) Telomere binding protein TBP1 {Tobacco (Nicotiana tabacum) [TaxId: 4097]} Back     information, alignment and structure
>d1x41a1 a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, TADA2L, isoform b {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cqra1 a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ug2a_ a.4.1.3 (A:) 2610100b20rik gene product {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1guua_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1gvda_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1gv2a2 a.4.1.3 (A:144-190) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2cu7a1 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2iw5b1 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1igna1 a.4.1.6 (A:360-445) DNA-binding domain of rap1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2cqqa1 a.4.1.3 (A:8-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1xc5a1 a.4.1.3 (A:413-480) Nuclear receptor corepressor 2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure