Citrus Sinensis ID: 043591

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-----
Protein Sequence
MRKRQVVLRREEPSRNSTASSVTVRSVRYAECQKNHAAGVGGYAVDGCREFMASGEEGTAAALTCAACGCHRSFHRREVDTEVVCECSSPSSTAT
Secondary Structure (PSIPRED)
ccccEEEEccccccccccccccccccEEEHHHHHHHHccccccccccccccccccccccHHHHHHHccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEEEEEccccccccccccccEEEEEHHHHHHHHHHccccccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mrkrqvvlrreepsrnstassvTVRSVRYAEcqknhaagvggyavdgcrefmasgeeGTAAALTCAacgchrsfhrrevdtevvcecsspsstat
Flexible Loop (DISEMBL)
mrkrqvvlrreepsrnstassvtvrsVRYAECQknhaagvggYAVDGCREFMASGEEGTAAALTCAACGCHRSfhrrevdtevvcecsspsstat
Low Complexity Region (SEG)
MRKRQVVLRREEPsrnstassvtvrsvrYAECQKNHAAGVGGYAVDGCREFMASgeegtaaaltcaacgcHRSFHRREVDTEVVCECSSPSSTAT
Disordered region (IsUnstruct)
***********************VRSVRYAECQKNHAAGVGGYAVDGCREFMASGEEGTAAALTCAACGCHRSFHRREVDTEVVCE*********
Disordered Region (DISOPRED)
****************************YAECQKNHAAGVGGYAVDGCREFMASGEEGTAAALTCAACGCHRSFHRREVDT**************
Disordered Region (DISEMBL)
************************RSVRYAECQKNHAAGVGGYAVDGCREFMASGEEGTAAALTCAACGCHRSFHRREV****************
Disordered Region (DISPRO)
*RKRQVVLRREE********SVTVRSVRYAECQKNHAAGVGGYAVDGCREFMASGEEGTAAALTCAACGCHRSFH********************
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MRKRQVVLRREEPSRNSTASSVTVRSVRYAECQKNHAAGVGGYAVDGCREFMASGEEGTAAALTCAACGCHRSFHRREVDTEVVCECSSPSSTAT
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	95	2.2.26 [Sep-21-2011]
Q9SB61	220	ZF-HD homeobox protein At	no	no	0.578	0.25	0.672	1e-17
Q9FKP8	279	ZF-HD homeobox protein At	no	no	0.557	0.189	0.641	3e-15
Q9SEZ1	242	Transcription factor HB29	no	no	0.684	0.268	0.507	1e-12

>sp|Q9SB61|Y4466_ARATH ZF-HD homeobox protein At4g24660 OS=Arabidopsis thaliana GN=At4g24660 PE=1 SV=1

 Score = 88.2 bits (217), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 37/55 (67%), Positives = 45/55 (81%)

Query: 27  VRYAECQKNHAAGVGGYAVDGCREFMASGEEGTAAALTCAACGCHRSFHRREVDT 81
           +RY EC KNHA  +GG+AVDGC EFM SGE+GT  AL CAACGCHR+FHR+E ++
Sbjct: 47  IRYRECLKNHAVNIGGHAVDGCCEFMPSGEDGTLDALKCAACGCHRNFHRKETES 101

Putative transcription factor.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKP8|Y5541_ARATH ZF-HD homeobox protein At5g65410 OS=Arabidopsis thaliana GN=At5g65410 PE=1 SV=1

 Score = 80.5 bits (197), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 34/53 (64%), Positives = 41/53 (77%)

Query: 27  VRYAECQKNHAAGVGGYAVDGCREFMASGEEGTAAALTCAACGCHRSFHRREV 79
            R+ EC KN A  +GG+AVDGC EFM +G EGT  AL CAACGCHR+FHR+E+
Sbjct: 73  FRFRECLKNQAVNIGGHAVDGCGEFMPAGIEGTIDALKCAACGCHRNFHRKEL 125

Putative transcription factor.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SEZ1|HB29_ARATH Transcription factor HB29 OS=Arabidopsis thaliana GN=HB29 PE=1 SV=1

 Score = 71.6 bits (174), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 36/71 (50%), Positives = 45/71 (63%), Gaps = 6/71 (8%)

Query: 29  YAECQKNHAAGVGGYAVDGCREFMAS--GEEGTAAALTCAACGCHRSFHRRE----VDTE 82
           Y EC KNHAA +GG+A+DGC EFM S        ++L CAACGCHR+FHRR+    ++  
Sbjct: 31  YKECLKNHAANLGGHALDGCGEFMPSPTATSTDPSSLRCAACGCHRNFHRRDPSENLNFL 90

Query: 83  VVCECSSPSST 93
                SSPS T
Sbjct: 91  TAPPISSPSGT 101


  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
   0.317    0.125    0.375 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 31,786,045
Number of Sequences: 539616
Number of extensions: 1019714
Number of successful extensions: 2483
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 2474
Number of HSP's gapped (non-prelim): 12
length of query: 95
length of database: 191,569,459
effective HSP length: 65
effective length of query: 30
effective length of database: 156,494,419
effective search space: 4694832570
effective search space used: 4694832570
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)

Transcription factor involved in the up-regulation of several stress-inducible genes. Acts as a transcriptional activator by interacting with MED25 and NAC proteins. Involved in increased drought tolerance.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	95
255586794	98	transcription factor, putative [Ricinus	1.0	0.969	0.826	4e-36
449461927	92	PREDICTED: ZF-HD homeobox protein At4g24	0.936	0.967	0.855	5e-36
225452815	95	PREDICTED: ZF-HD homeobox protein At4g24	0.989	0.989	0.776	9e-36
224080193	130	predicted protein [Populus trichocarpa]	0.989	0.723	0.781	1e-35
296082916	89	unnamed protein product [Vitis vinifera]	0.884	0.943	0.845	1e-34
225452819	123	PREDICTED: ZF-HD homeobox protein At4g24	0.884	0.682	0.845	2e-34
449522936	110	PREDICTED: ZF-HD homeobox protein At4g24	0.873	0.754	0.857	2e-33
255547409	95	transcription factor, putative [Ricinus	0.978	0.978	0.720	3e-32
42572555	100	mini zinc finger 2 [Arabidopsis thaliana	1.0	0.95	0.78	1e-31
297815192	100	hypothetical protein ARALYDRAFT_484661 [	1.0	0.95	0.78	1e-31

>gi|255586794|ref|XP_002534013.1| transcription factor, putative [Ricinus communis] gi|223525986|gb|EEF28371.1| transcription factor, putative [Ricinus communis]

 Score =  155 bits (391), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 81/98 (82%), Positives = 87/98 (88%), Gaps = 3/98 (3%)

Query: 1  MRKRQVVLRREEPSRNS-TASSVTVRSVRYAECQKNHAAGVGGYAVDGCREFMAS-GEEG 58
          MRKRQVV+RREEPSR+S T S+ TVRSVRY ECQKNHAA VGGYAVDGCREFMAS GEEG
Sbjct: 1  MRKRQVVVRREEPSRSSSTTSAFTVRSVRYGECQKNHAANVGGYAVDGCREFMASNGEEG 60

Query: 59 TAAALTCAACGCHRSFHRREVDTE-VVCECSSPSSTAT 95
          T AALTCAACGCHR+FHRREV+TE VVC+CSSPSS   
Sbjct: 61 TTAALTCAACGCHRNFHRREVETEQVVCDCSSPSSNGN 98

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449461927|ref|XP_004148693.1| PREDICTED: ZF-HD homeobox protein At4g24660-like [Cucumis sativus]

 Score =  154 bits (390), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 77/90 (85%), Positives = 82/90 (91%), Gaps = 1/90 (1%)

Query: 1  MRKRQVVLRR-EEPSRNSTASSVTVRSVRYAECQKNHAAGVGGYAVDGCREFMASGEEGT 59
          MRKRQVVLRR EE SR+S ASS TVRSVRY ECQKNHAAGVGGYAVDGCREFMASG+EGT
Sbjct: 1  MRKRQVVLRRSEESSRDSVASSFTVRSVRYGECQKNHAAGVGGYAVDGCREFMASGDEGT 60

Query: 60 AAALTCAACGCHRSFHRREVDTEVVCECSS 89
           A LTCAACGCHR+FHRR+V TEVVC+CSS
Sbjct: 61 TAGLTCAACGCHRNFHRRQVGTEVVCDCSS 90

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225452815|ref|XP_002283546.1| PREDICTED: ZF-HD homeobox protein At4g24660-like [Vitis vinifera]

 Score =  154 bits (388), Expect = 9e-36,   Method: Compositional matrix adjust.
 Identities = 73/94 (77%), Positives = 82/94 (87%)

Query: 1  MRKRQVVLRREEPSRNSTASSVTVRSVRYAECQKNHAAGVGGYAVDGCREFMASGEEGTA 60
          MR RQVVLRR EPSR ST SS+TVRSVRY ECQKNHAAG+GG+AVDGCREFMASG+EGT+
Sbjct: 1  MRHRQVVLRRNEPSRRSTNSSLTVRSVRYGECQKNHAAGIGGHAVDGCREFMASGQEGTS 60

Query: 61 AALTCAACGCHRSFHRREVDTEVVCECSSPSSTA 94
          + L CAACGCHR+FHRREV+TEV+C CSS  S  
Sbjct: 61 SELICAACGCHRNFHRREVETEVLCPCSSAPSNG 94

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224080193|ref|XP_002306048.1| predicted protein [Populus trichocarpa] gi|222849012|gb|EEE86559.1| predicted protein [Populus trichocarpa]

 Score =  153 bits (387), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 75/96 (78%), Positives = 85/96 (88%), Gaps = 2/96 (2%)

Query: 1   MRKRQVVLRR-EEPSRNSTASSVTVRSVRYAECQKNHAAGVGGYAVDGCREFMASGEEGT 59
           MRKRQV +RR EEPSR+ST +S T+R+V+Y EC KNHAA VGGYAVDGCREFMASGEEGT
Sbjct: 36  MRKRQVAVRRTEEPSRSST-TSFTIRNVKYGECLKNHAASVGGYAVDGCREFMASGEEGT 94

Query: 60  AAALTCAACGCHRSFHRREVDTEVVCECSSPSSTAT 95
           A ALTCAACGCHR+FHRREV+TEV+C+CSSPSS   
Sbjct: 95  ADALTCAACGCHRNFHRREVETEVICDCSSPSSNGN 130

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296082916|emb|CBI22217.3| unnamed protein product [Vitis vinifera]

 Score =  150 bits (378), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 71/84 (84%), Positives = 78/84 (92%)

Query: 1  MRKRQVVLRREEPSRNSTASSVTVRSVRYAECQKNHAAGVGGYAVDGCREFMASGEEGTA 60
          MRKRQVVLRR+EPSR+S  SS TVRSVRY ECQKNHAAGVGGYAVDGCREFMASGEEGT+
Sbjct: 1  MRKRQVVLRRDEPSRSSANSSFTVRSVRYGECQKNHAAGVGGYAVDGCREFMASGEEGTS 60

Query: 61 AALTCAACGCHRSFHRREVDTEVV 84
          +ALTCAACGCHR+FH REV+TE +
Sbjct: 61 SALTCAACGCHRNFHLREVETESI 84

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225452819|ref|XP_002283568.1| PREDICTED: ZF-HD homeobox protein At4g24660-like isoform 2 [Vitis vinifera]

 Score =  149 bits (376), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 71/84 (84%), Positives = 78/84 (92%)

Query: 1   MRKRQVVLRREEPSRNSTASSVTVRSVRYAECQKNHAAGVGGYAVDGCREFMASGEEGTA 60
           MRKRQVVLRR+EPSR+S  SS TVRSVRY ECQKNHAAGVGGYAVDGCREFMASGEEGT+
Sbjct: 35  MRKRQVVLRRDEPSRSSANSSFTVRSVRYGECQKNHAAGVGGYAVDGCREFMASGEEGTS 94

Query: 61  AALTCAACGCHRSFHRREVDTEVV 84
           +ALTCAACGCHR+FH REV+TE +
Sbjct: 95  SALTCAACGCHRNFHLREVETESI 118

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449522936|ref|XP_004168481.1| PREDICTED: ZF-HD homeobox protein At4g24660-like [Cucumis sativus]

 Score =  145 bits (367), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 72/84 (85%), Positives = 76/84 (90%), Gaps = 1/84 (1%)

Query: 1  MRKRQVVLRR-EEPSRNSTASSVTVRSVRYAECQKNHAAGVGGYAVDGCREFMASGEEGT 59
          MRKRQVVLRR EE SR+S ASS TVRSVRY ECQKNHAAGVGGYAVDGCREFMASG+EGT
Sbjct: 1  MRKRQVVLRRSEESSRDSVASSFTVRSVRYGECQKNHAAGVGGYAVDGCREFMASGDEGT 60

Query: 60 AAALTCAACGCHRSFHRREVDTEV 83
           A LTCAACGCHR+FHRR+V TEV
Sbjct: 61 TAGLTCAACGCHRNFHRRQVGTEV 84

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255547409|ref|XP_002514762.1| transcription factor, putative [Ricinus communis] gi|223546366|gb|EEF47868.1| transcription factor, putative [Ricinus communis]

 Score =  142 bits (357), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 67/93 (72%), Positives = 77/93 (82%)

Query: 1  MRKRQVVLRREEPSRNSTASSVTVRSVRYAECQKNHAAGVGGYAVDGCREFMASGEEGTA 60
          M+KRQVVL+R+   R ST SS  VR+VRY ECQKNHAA +GGYAVDGCREFMASGE+   
Sbjct: 2  MKKRQVVLKRDVSGRASTTSSSVVRNVRYGECQKNHAANIGGYAVDGCREFMASGEDAAN 61

Query: 61 AALTCAACGCHRSFHRREVDTEVVCECSSPSST 93
           AL CAACGCHR+FHRREV+TEVVCE S P+S+
Sbjct: 62 GALICAACGCHRNFHRREVETEVVCEYSPPNSS 94

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42572555|ref|NP_974373.1| mini zinc finger 2 [Arabidopsis thaliana] gi|9294233|dbj|BAB02135.1| unnamed protein product [Arabidopsis thaliana] gi|21555769|gb|AAM63930.1| unknown [Arabidopsis thaliana] gi|62319539|dbj|BAD94968.1| hypothetical protein [Arabidopsis thaliana] gi|88900352|gb|ABD57488.1| At3g28917 [Arabidopsis thaliana] gi|332643985|gb|AEE77506.1| mini zinc finger 2 [Arabidopsis thaliana]

 Score =  140 bits (352), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 78/100 (78%), Positives = 85/100 (85%), Gaps = 5/100 (5%)

Query: 1   MRKRQVVLRR----EEPSRNSTASSVTVRSVRYAECQKNHAAGVGGYAVDGCREFMAS-G 55
           MRKRQVVLRR    E    +STASS+TVR+VRY ECQKNHAA VGGYAVDGCREFMAS G
Sbjct: 1   MRKRQVVLRRASPEEPSRSSSTASSLTVRTVRYGECQKNHAAAVGGYAVDGCREFMASRG 60

Query: 56  EEGTAAALTCAACGCHRSFHRREVDTEVVCECSSPSSTAT 95
           EEGT AALTCAACGCHRSFHRRE++TEVVC+C+SP ST  
Sbjct: 61  EEGTVAALTCAACGCHRSFHRREIETEVVCDCNSPPSTGN 100

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297815192|ref|XP_002875479.1| hypothetical protein ARALYDRAFT_484661 [Arabidopsis lyrata subsp. lyrata] gi|297321317|gb|EFH51738.1| hypothetical protein ARALYDRAFT_484661 [Arabidopsis lyrata subsp. lyrata]

 Score =  140 bits (352), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 78/100 (78%), Positives = 85/100 (85%), Gaps = 5/100 (5%)

Query: 1   MRKRQVVLRR----EEPSRNSTASSVTVRSVRYAECQKNHAAGVGGYAVDGCREFMAS-G 55
           MRKRQVVLRR    E    +STASS+TVR+VRY ECQKNHAA VGGYAVDGCREFMAS G
Sbjct: 1   MRKRQVVLRRASPEEPSRSSSTASSLTVRTVRYGECQKNHAAAVGGYAVDGCREFMASRG 60

Query: 56  EEGTAAALTCAACGCHRSFHRREVDTEVVCECSSPSSTAT 95
           EEGT AALTCAACGCHRSFHRRE++TEVVC+C+SP ST  
Sbjct: 61  EEGTLAALTCAACGCHRSFHRREIETEVVCDCNSPPSTGN 100

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	95
TAIR|locus:1006230234	100	MIF2 "mini zinc finger 2" [Ara	0.978	0.93	0.561	2.6e-22
TAIR|locus:4010713452	88	MIF3 "mini zinc finger 3" [Ara	0.905	0.977	0.5	2.8e-18
TAIR|locus:2019190	102	MIF1 "AT1G74660" [Arabidopsis	0.968	0.901	0.425	6.7e-17
TAIR|locus:2062141	262	HB24 "AT2G18350" [Arabidopsis	0.547	0.198	0.519	6.2e-10
TAIR|locus:2012602	312	HB31 "AT1G14440" [Arabidopsis	0.652	0.198	0.451	1.8e-09
TAIR|locus:2077957	249	HB28 "homeobox protein 28" [Ar	0.536	0.204	0.529	1.9e-09
TAIR|locus:2095157	312	HB34 "AT3G28920" [Arabidopsis	0.705	0.214	0.450	5.1e-09
TAIR|locus:2121989	220	HB22 "AT4G24660" [Arabidopsis	0.557	0.240	0.452	1.2e-08
TAIR|locus:2150871	271	HB30 "AT5G15210" [Arabidopsis	0.547	0.191	0.5	1.2e-08
TAIR|locus:2065304	310	HB21 "homeobox protein 21" [Ar	0.568	0.174	0.481	3e-08

TAIR|locus:1006230234 MIF2 "mini zinc finger 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 259 (96.2 bits), Expect = 2.6e-22, P = 2.6e-22
 Identities = 55/98 (56%), Positives = 59/98 (60%)

Query:     1 MRKRQVVLRR---EEPXXXXXXXXXXXXXXX-YAECQKNHAAGVGGYAVDGCREFMASXX 56
             MRKRQVVLRR   EEP                Y ECQKNHAA VGGYAVDGCREFMAS  
Sbjct:     1 MRKRQVVLRRASPEEPSRSSSTASSLTVRTVRYGECQKNHAAAVGGYAVDGCREFMASRG 60

Query:    57 XXXXXXXXXXXXXX-HRSFHRREVDTEVVCECSSPSST 93
                            HRSFHRRE++TEVVC+C+SP ST
Sbjct:    61 EEGTVAALTCAACGCHRSFHRREIETEVVCDCNSPPST 98

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0003677 "DNA binding" evidence=ISS

TAIR|locus:4010713452 MIF3 "mini zinc finger 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 221 (82.9 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 46/92 (50%), Positives = 55/92 (59%)

Query:     1 MRKRQVVLRREEPXXXXXXXXXXXXXXXYAECQKNHAAGVGGYAVDGCREFMASXXXXXX 60
             M+KRQVV+++ +                Y ECQKNHAA +GGYAVDGCREFMAS      
Sbjct:     1 MKKRQVVIKQRK---SSYTMTSSSSNVRYVECQKNHAANIGGYAVDGCREFMASGGDDAL 57

Query:    61 XXXXXXXXXXHRSFHRREVDTEVVCECSSPSS 92
                       HR+FHRREVDTEVVCE S P++
Sbjct:    58 TCAACGC---HRNFHRREVDTEVVCEYSPPNA 86

GO:0005634 "nucleus" evidence=ISM

GO:0048509 "regulation of meristem development" evidence=IMP

TAIR|locus:2019190 MIF1 "AT1G74660" [Arabidopsis thaliana (taxid:3702)]

 Score = 208 (78.3 bits), Expect = 6.7e-17, P = 6.7e-17
 Identities = 43/101 (42%), Positives = 54/101 (53%)

Query:     1 MRKRQVVLRREEPXXXXXXXXXXXXXXX---------YAECQKNHAAGVGGYAVDGCREF 51
             M+KRQ+V+++                           Y ECQKNHAA +GGYAVDGCREF
Sbjct:     2 MKKRQMVIKQRSRNSNTSSSWTTTSSSSSSSEISNVRYVECQKNHAANIGGYAVDGCREF 61

Query:    52 MASXXXXXXXXXXXXXXXXHRSFHRREVDTEVVCECSSPSS 92
             MA+                HR+FHR+EVDTEVVCE S P++
Sbjct:    62 MAAGVEGTVDALRCAACGCHRNFHRKEVDTEVVCEYSPPNA 102

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0003677 "DNA binding" evidence=ISS;IDA

GO:0007275 "multicellular organismal development" evidence=IMP

GO:0009640 "photomorphogenesis" evidence=IMP

GO:0009723 "response to ethylene stimulus" evidence=IMP

GO:0009733 "response to auxin stimulus" evidence=RCA;IMP

GO:0009735 "response to cytokinin stimulus" evidence=IMP

GO:0009737 "response to abscisic acid stimulus" evidence=IMP

GO:0009739 "response to gibberellin stimulus" evidence=IMP

GO:0009741 "response to brassinosteroid stimulus" evidence=RCA;IMP

GO:0043392 "negative regulation of DNA binding" evidence=IDA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IDA

GO:0048509 "regulation of meristem development" evidence=IMP

GO:0009736 "cytokinin mediated signaling pathway" evidence=RCA

GO:0010583 "response to cyclopentenone" evidence=RCA

GO:0016132 "brassinosteroid biosynthetic process" evidence=RCA

TAIR|locus:2062141 HB24 "AT2G18350" [Arabidopsis thaliana (taxid:3702)]

 Score = 145 (56.1 bits), Expect = 6.2e-10, P = 6.2e-10
 Identities = 27/52 (51%), Positives = 31/52 (59%)

Query:    29 YAECQKNHAAGVGGYAVDGCREFMASXXXXXXXXXXXXXXXXHRSFHRREVD 80
             Y ECQKNHAA  GG+ VDGC EFM+S                HRSFHR+E+D
Sbjct:    82 YRECQKNHAASSGGHVVDGCGEFMSSGEEGTVESLLCAACDCHRSFHRKEID 133

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0003677 "DNA binding" evidence=ISS

TAIR|locus:2012602 HB31 "AT1G14440" [Arabidopsis thaliana (taxid:3702)]

 Score = 143 (55.4 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 28/62 (45%), Positives = 33/62 (53%)

Query:    29 YAECQKNHAAGVGGYAVDGCREFMASXXXXXXXXXXXXXXXXHRSFHRREVDTEVVCECS 88
             Y EC KNHAA +GG A DGC EFM S                HR+FHR+EV+ E+     
Sbjct:    90 YKECLKNHAAAMGGNATDGCGEFMPSGEDGSIEALTCSACNCHRNFHRKEVEGELAATAM 149

Query:    89 SP 90
             SP
Sbjct:   150 SP 151

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

TAIR|locus:2077957 HB28 "homeobox protein 28" [Arabidopsis thaliana (taxid:3702)]

 Score = 140 (54.3 bits), Expect = 1.9e-09, P = 1.9e-09
 Identities = 27/51 (52%), Positives = 29/51 (56%)

Query:    29 YAECQKNHAAGVGGYAVDGCREFMASXXXXXXXXXXXXXXXXHRSFHRREV 79
             Y ECQKNHAA  GG+ VDGC EFMA                 HRSFHR+EV
Sbjct:    60 YRECQKNHAASTGGHVVDGCCEFMAGGEEGTLGALKCAACNCHRSFHRKEV 110

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

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

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0003677 "DNA binding" evidence=ISS

TAIR|locus:2095157 HB34 "AT3G28920" [Arabidopsis thaliana (taxid:3702)]

 Score = 139 (54.0 bits), Expect = 5.1e-09, P = 5.1e-09
 Identities = 32/71 (45%), Positives = 36/71 (50%)

Query:    29 YAECQKNHAAGVGGYAVDGCREFMASXXXXXXXXXXXXXXXX--HRSFHRREVDTEVVCE 86
             Y EC KNHAA +GG+A+DGC EFM S                  HR+FHRRE D      
Sbjct:    52 YKECLKNHAAAIGGHALDGCGEFMPSPSSTPSDPTSLKCAACGCHRNFHRRETDDSSAVP 111

Query:    87 CSS--PSSTAT 95
               S  PSST T
Sbjct:   112 PPSLLPSSTTT 122

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0003677 "DNA binding" evidence=ISS

TAIR|locus:2121989 HB22 "AT4G24660" [Arabidopsis thaliana (taxid:3702)]

 Score = 131 (51.2 bits), Expect = 1.2e-08, P = 1.2e-08
 Identities = 24/53 (45%), Positives = 30/53 (56%)

Query:    29 YAECQKNHAAGVGGYAVDGCREFMASXXXXXXXXXXXXXXXXHRSFHRREVDT 81
             Y EC KNHA  +GG+AVDGC EFM S                HR+FHR+E ++
Sbjct:    49 YRECLKNHAVNIGGHAVDGCCEFMPSGEDGTLDALKCAACGCHRNFHRKETES 101

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0003677 "DNA binding" evidence=ISS

GO:0009793 "embryo development ending in seed dormancy" evidence=RCA;IMP

GO:0005515 "protein binding" evidence=IPI

GO:0009686 "gibberellin biosynthetic process" evidence=RCA

GO:0009737 "response to abscisic acid stimulus" evidence=RCA

GO:0009740 "gibberellic acid mediated signaling pathway" evidence=RCA

GO:0009845 "seed germination" evidence=RCA

GO:0010162 "seed dormancy process" evidence=RCA

GO:0048608 "reproductive structure development" evidence=RCA

TAIR|locus:2150871 HB30 "AT5G15210" [Arabidopsis thaliana (taxid:3702)]

 Score = 134 (52.2 bits), Expect = 1.2e-08, P = 1.2e-08
 Identities = 27/54 (50%), Positives = 31/54 (57%)

Query:    29 YAECQKNHAAGVGGYAVDGCREFMASXXXXXXXXXXXXXXXX--HRSFHRREVD 80
             Y EC KNHAAG+GG+A+DGC EFM S                  HR+FHRRE D
Sbjct:    56 YKECLKNHAAGIGGHALDGCGEFMPSPSFNSNDPASLTCAACGCHRNFHRREED 109

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0003677 "DNA binding" evidence=ISS

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2065304 HB21 "homeobox protein 21" [Arabidopsis thaliana (taxid:3702)]

 Score = 132 (51.5 bits), Expect = 3.0e-08, P = 3.0e-08
 Identities = 26/54 (48%), Positives = 30/54 (55%)

Query:    29 YAECQKNHAAGVGGYAVDGCREFMASXXXXXXXXXXXXXXXXHRSFHRREVDTE 82
             Y EC KNHAA +GG A+DGC EFM S                HR+FHRRE + E
Sbjct:    87 YKECLKNHAATMGGNAIDGCGEFMPSGEEGSIEALTCSVCNCHRNFHRRETEGE 140

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

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

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0003677 "DNA binding" evidence=ISS

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

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.00041072 hypothetical protein (130 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	95
pfam04770	60	pfam04770, ZF-HD_dimer, ZF-HD protein dimerisation	2e-30
TIGR01566	53	TIGR01566, ZF_HD_prot_N, ZF-HD homeobox protein Cy	2e-21

>gnl|CDD|218256 pfam04770, ZF-HD_dimer, ZF-HD protein dimerisation region

 Score =  101 bits (254), Expect = 2e-30
 Identities = 42/57 (73%), Positives = 47/57 (82%)

Query: 27 VRYAECQKNHAAGVGGYAVDGCREFMASGEEGTAAALTCAACGCHRSFHRREVDTEV 83
          VRY EC KNHAA +GG+AVDGC EFM SGEEGT  +L CAACGCHR+FHRRE + EV
Sbjct: 4  VRYRECLKNHAASIGGHAVDGCGEFMPSGEEGTPDSLKCAACGCHRNFHRREPEGEV 60

This family of proteins has are plant transcription factors, and have been named ZF-HD for zinc finger homeodomain proteins, on the basis of similarity to proteins of known structure. This region is thought to be involved in the formation of homo and heterodimers, and may form a zinc finger. Length = 60

>gnl|CDD|130629 TIGR01566, ZF_HD_prot_N, ZF-HD homeobox protein Cys/His-rich dimerization domain

 Score = 79.1 bits (195), Expect = 2e-21
 Identities = 36/53 (67%), Positives = 43/53 (81%), Gaps = 1/53 (1%)

Query: 28 RYAECQKNHAAGVGGYAVDGCREFM-ASGEEGTAAALTCAACGCHRSFHRREV 79
           Y EC KNHAA +GG+A+DGC EFM +SGEEG   +LTCAACGCHR+FHR+E 
Sbjct: 1  LYKECLKNHAASIGGHALDGCGEFMPSSGEEGDPESLTCAACGCHRNFHRKEP 53

This model describes a 54-residue domain found in the N-terminal region of plant proteins, the vast majority of which contain a ZF-HD class homeobox domain toward the C-terminus. The region between the two domains typically is rich in low complexity sequence. The companion ZF-HD homeobox domain is described in model TIGR01565. Length = 53

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	95
PF04770	60	ZF-HD_dimer: ZF-HD protein dimerisation region; In	100.0
TIGR01566	53	ZF_HD_prot_N ZF-HD homeobox protein Cys/His-rich d	100.0

>PF04770 ZF-HD_dimer: ZF-HD protein dimerisation region; InterPro: IPR006456 The homeodomain (HD) is a 60-amino acid DNA-binding domain found in many transcription factors

Probab=100.00  E-value=3.8e-42  Score=223.28  Aligned_cols=58  Identities=74%  Similarity=1.318  Sum_probs=55.5

Q ss_pred             cceehHHhhhhhccccCCccccCccccccC-CCCCCcccccccCccccccCccccccCc
Q 043591           25 RSVRYAECQKNHAAGVGGYAVDGCREFMAS-GEEGTAAALTCAACGCHRSFHRREVDTE   82 (95)
Q Consensus        25 ~~v~Y~EC~kNHAa~~GghavDGCgEFmps-g~egt~~aL~CaACGCHRNFHRre~~~~   82 (95)
                      ..|+|+|||||||++||||+||||+||||+ |++|++++|+||||||||||||||+++|
T Consensus         2 ~~v~Y~EC~kNHAa~~Gg~a~DGCgEFm~~~g~eg~~~al~CaACgCHRnFHRre~~~e   60 (60)
T PF04770_consen    2 KVVRYRECLKNHAASIGGHAVDGCGEFMPSPGEEGTPEALKCAACGCHRNFHRREVEGE   60 (60)
T ss_pred             CceeHHHHHhhHhHhhCCcccccccccccCCCCCCCcccceecccCcchhcccCCcCCC
Confidence            469999999999999999999999999999 8999999999999999999999999875

HD-containing proteins are found in diverse organisms such as humans, Drosophila, nematode worms, and plants, where they play important roles in development. Zinc-finger-homeodomain (ZF- HD) subfamily proteins have only been identified in plants, and likely play plant specific roles. ZF-HD proteins are expressed predominantly or exclusively in floral tissue, indicating a likely regulatory role during floral development []. The ZF-HD class of homeodomain proteins may also be involved in the photosynthesis-related mesophyll-specific gene expression of phosphoenolpyruvate carboxylase in C4 species [] and in pathogen signaling and plant defense mechanisms []. These proteins share three domains of high sequence similarity: the homeodomain (II) located at the carboxy-terminus, and two other segments (Ia and Ib) located in the amino-terminal part. These N-terminal domains contain five conserved cysteine residues and at least three conserved histidine residues whose spacing ressembles zinc-binding domains involved in dimerization of transcription factors. Although the two domains contain at least eight potential zinc-binding amino-acids, the unique spacing of the conserved cysteine and histidine residues within domain Ib suggests that both domains form one rather than two zinc finger structures. The two conserved motifs Ia and Ib constitute a dimerization domain which is sufficient for the formation of homo- and heterodimers []. This entry represents the N-terminal Cysteine/Histidine-rich dimerization domain. The companion ZF-HD homeobox domain is described in IPR006455 from INTERPRO.

>TIGR01566 ZF_HD_prot_N ZF-HD homeobox protein Cys/His-rich dimerization domain

Probab=100.00  E-value=2.3e-41  Score=215.67  Aligned_cols=52  Identities=69%  Similarity=1.296  Sum_probs=50.1

Q ss_pred             ehHHhhhhhccccCCccccCcccccc-CCCCCCcccccccCccccccCccccc
Q 043591           28 RYAECQKNHAAGVGGYAVDGCREFMA-SGEEGTAAALTCAACGCHRSFHRREV   79 (95)
Q Consensus        28 ~Y~EC~kNHAa~~GghavDGCgEFmp-sg~egt~~aL~CaACGCHRNFHRre~   79 (95)
                      +|+||||||||+|||||||||+|||| +|++|++++|+||||||||||||||+
T Consensus         1 ~Y~EC~kNHAa~~Gg~a~DGCgEFmps~g~~~~~~al~CaACgCHRnFHRre~   53 (53)
T TIGR01566         1 LYKECLKNHAASIGGHALDGCGEFMPSSGEEGDPESLTCAACGCHRNFHRKEP   53 (53)
T ss_pred             CHHHHHHhhHHHhCCcccccccccccCCCCCCCCcceeeeecCcccccccCCC
Confidence            69999999999999999999999999 68899999999999999999999985

This model describes a 54-residue domain found in the N-terminal region of plant proteins, the vast majority of which contain a ZF-HD class homeobox domain toward the C-terminus. The region between the two domains typically is rich in low complexity sequence. The companion ZF-HD homeobox domain is described in model TIGR01565.

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Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

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Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

No hit with probability above 80.00