Citrus Sinensis ID: 043467

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90
Protein Sequence
MMKKRQVVVKRESSSRRSSSTSSSMLRCVRYAECQKNHAANIGGYAVDGCREFMASGENGTGALTCAACGCHRNFHRREEETELIVVLIL
Secondary Structure (PSIPRED)
cccccEEEEccccccccccccccccccEEEHHHHHHHHHcccccccccccccEEccccccccccEEcccccccccccccccccEEEEEEc
Secondary Structure Prediction (SSPRO)
cccccEEEEEEccccccccccccccEEEEEEHHHHHHHHHHcccccccccccccccccccccHHEEHHcccccccccccccccEEEEEEc
Coil and Loop (DISEMBL)
MMKKRQVVVkresssrrssstsssmlRCVRYAECQknhaaniggyavdgcrefmasgengtgaltcaacgchrnfhrreEETELIVVLIL
Flexible Loop (DISEMBL)
mmkkrqvvvkresssrrssstsssmlrCVRYAECQKNHAANIGGYAVDGCREFMASGENGTGALTCAACGCHRNfhrreeetELIVVLIL
Low Complexity Region (SEG)
MMKKRQVVVKREsssrrssstsssMLRCVRYAECQKNHAANIGGYAVDGCREFMASGENGTGALTCAACGCHRNFHRReeetelivvlil
Disordered region (IsUnstruct)
*************************LRCVRYAECQKNHAANIGGYAVDGCREFMASGENGTGALTCAACGCHRNFHRREEETELIVVLI*
Disordered Region (DISOPRED)
****************************VRYAECQKNHAANIGGYAVDGCREFMASGENGTGALTCAACGCHRNFHRREEETE**VVLIL
Disordered Region (DISEMBL)
*************************LRCVRYAECQKNHAANIGGYAVDGCREFMASGENGTGALTCAACGCHRNFHRREEETELIVVLIL
Disordered Region (DISPRO)
****RQ****R************SMLRCVRYAECQKNHAANIGGYAVDGCREFMASGENGTGALTCAACGCHRNFHRREEETELIVVLIL
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MMKKRQVVVKRESSSRRSSSTSSSMLRCVRYAECQKNHAANIGGYAVDGCREFMASGENGTGALTCAACGCHRNFHRREEETELIVVLIL
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	90	2.2.26 [Sep-21-2011]
Q9SB61	220	ZF-HD homeobox protein At	no	no	0.6	0.245	0.745	4e-18
Q9FKP8	279	ZF-HD homeobox protein At	no	no	0.555	0.179	0.705	1e-14
Q9SEZ1	242	Transcription factor HB29	no	no	0.6	0.223	0.596	4e-14

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

 Score = 89.7 bits (221), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 41/55 (74%), Positives = 46/55 (83%), Gaps = 1/55 (1%)

Query: 29  VRYAECQKNHAANIGGYAVDGCREFMASGENGT-GALTCAACGCHRNFHRREEET 82
           +RY EC KNHA NIGG+AVDGC EFM SGE+GT  AL CAACGCHRNFHR+E 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 = 78.6 bits (192), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 36/51 (70%), Positives = 40/51 (78%), Gaps = 1/51 (1%)

Query: 30  RYAECQKNHAANIGGYAVDGCREFMASGENGT-GALTCAACGCHRNFHRRE 79
           R+ EC KN A NIGG+AVDGC EFM +G  GT  AL CAACGCHRNFHR+E
Sbjct: 74  RFRECLKNQAVNIGGHAVDGCGEFMPAGIEGTIDALKCAACGCHRNFHRKE 124

Putative transcription factor.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 76.6 bits (187), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 34/57 (59%), Positives = 39/57 (68%), Gaps = 3/57 (5%)

Query: 31 YAECQKNHAANIGGYAVDGCREFMASG---ENGTGALTCAACGCHRNFHRREEETEL 84
          Y EC KNHAAN+GG+A+DGC EFM S         +L CAACGCHRNFHRR+    L
Sbjct: 31 YKECLKNHAANLGGHALDGCGEFMPSPTATSTDPSSLRCAACGCHRNFHRRDPSENL 87


  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
   0.321    0.129    0.382 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,005,592
Number of Sequences: 539616
Number of extensions: 992107
Number of successful extensions: 2603
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 2597
Number of HSP's gapped (non-prelim): 4
length of query: 90
length of database: 191,569,459
effective HSP length: 60
effective length of query: 30
effective length of database: 159,192,499
effective search space: 4775774970
effective search space used: 4775774970
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 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	90
255547409	95	transcription factor, putative [Ricinus	0.933	0.884	0.779	6e-30
255586794	98	transcription factor, putative [Ricinus	0.944	0.867	0.770	3e-29
296082916	89	unnamed protein product [Vitis vinifera]	0.933	0.943	0.732	6e-27
225452819	123	PREDICTED: ZF-HD homeobox protein At4g24	0.933	0.682	0.732	1e-26
356507135	89	PREDICTED: ZF-HD homeobox protein At4g24	0.866	0.876	0.729	4e-26
224080193	130	predicted protein [Populus trichocarpa]	0.922	0.638	0.717	5e-26
449522936	110	PREDICTED: ZF-HD homeobox protein At4g24	0.922	0.754	0.702	6e-26
449461927	92	PREDICTED: ZF-HD homeobox protein At4g24	0.933	0.913	0.694	6e-26
357458757	85	Zinc finger homeodomain protein [Medicag	0.822	0.870	0.717	2e-25
297850274	88	hypothetical protein ARALYDRAFT_472107 [	0.866	0.886	0.714	4e-25

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

 Score =  134 bits (338), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 67/86 (77%), Positives = 76/86 (88%), Gaps = 2/86 (2%)

Query: 1  MMKKRQVVVKRESSSRRSSSTSSSMLRCVRYAECQKNHAANIGGYAVDGCREFMASGEN- 59
          MMKKRQVV+KR+ S R +S+TSSS++R VRY ECQKNHAANIGGYAVDGCREFMASGE+ 
Sbjct: 1  MMKKRQVVLKRDVSGR-ASTTSSSVVRNVRYGECQKNHAANIGGYAVDGCREFMASGEDA 59

Query: 60 GTGALTCAACGCHRNFHRREEETELI 85
            GAL CAACGCHRNFHRRE ETE++
Sbjct: 60 ANGALICAACGCHRNFHRREVETEVV 85

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  132 bits (332), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 67/87 (77%), Positives = 74/87 (85%), Gaps = 2/87 (2%)

Query: 2  MKKRQVVVKRESSSRRSSSTSSSMLRCVRYAECQKNHAANIGGYAVDGCREFMAS-GENG 60
          M+KRQVVV+RE  SR SS+TS+  +R VRY ECQKNHAAN+GGYAVDGCREFMAS GE G
Sbjct: 1  MRKRQVVVRREEPSRSSSTTSAFTVRSVRYGECQKNHAANVGGYAVDGCREFMASNGEEG 60

Query: 61 -TGALTCAACGCHRNFHRREEETELIV 86
           T ALTCAACGCHRNFHRRE ETE +V
Sbjct: 61 TTAALTCAACGCHRNFHRREVETEQVV 87

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  124 bits (312), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 63/86 (73%), Positives = 71/86 (82%), Gaps = 2/86 (2%)

Query: 2  MKKRQVVVKRESSSRRSSSTSSSMLRCVRYAECQKNHAANIGGYAVDGCREFMASGENGT 61
          M+KRQVV++R+  SR SS+ SS  +R VRY ECQKNHAA +GGYAVDGCREFMASGE GT
Sbjct: 1  MRKRQVVLRRDEPSR-SSANSSFTVRSVRYGECQKNHAAGVGGYAVDGCREFMASGEEGT 59

Query: 62 -GALTCAACGCHRNFHRREEETELIV 86
            ALTCAACGCHRNFH RE ETE I+
Sbjct: 60 SSALTCAACGCHRNFHLREVETESII 85

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 =  123 bits (309), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 63/86 (73%), Positives = 71/86 (82%), Gaps = 2/86 (2%)

Query: 2   MKKRQVVVKRESSSRRSSSTSSSMLRCVRYAECQKNHAANIGGYAVDGCREFMASGENGT 61
           M+KRQVV++R+  SR SS+ SS  +R VRY ECQKNHAA +GGYAVDGCREFMASGE GT
Sbjct: 35  MRKRQVVLRRDEPSR-SSANSSFTVRSVRYGECQKNHAAGVGGYAVDGCREFMASGEEGT 93

Query: 62  -GALTCAACGCHRNFHRREEETELIV 86
             ALTCAACGCHRNFH RE ETE I+
Sbjct: 94  SSALTCAACGCHRNFHLREVETESII 119

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356507135|ref|XP_003522326.1| PREDICTED: ZF-HD homeobox protein At4g24660-like [Glycine max] gi|356516798|ref|XP_003527080.1| PREDICTED: ZF-HD homeobox protein At4g24660-like [Glycine max]

 Score =  121 bits (304), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 62/85 (72%), Positives = 69/85 (81%), Gaps = 7/85 (8%)

Query: 2  MKKRQVVVKRESSSRRSSSTSSSMLRCVRYAECQKNHAANIGGYAVDGCREFMAS-GENG 60
          MKKRQVVVK        ++TSSS++R +RY ECQKNHAANIGGYAVDGCREFMAS GE  
Sbjct: 1  MKKRQVVVKS------VANTSSSVMRNIRYGECQKNHAANIGGYAVDGCREFMASTGEGA 54

Query: 61 TGALTCAACGCHRNFHRREEETELI 85
           GALTCAACGCHRNFHRRE  TE++
Sbjct: 55 GGALTCAACGCHRNFHRREVNTEVV 79

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  121 bits (304), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 61/85 (71%), Positives = 70/85 (82%), Gaps = 2/85 (2%)

Query: 2   MKKRQVVVKRESSSRRSSSTSSSMLRCVRYAECQKNHAANIGGYAVDGCREFMASGENGT 61
           M+KRQV V+R     RSS+TS + +R V+Y EC KNHAA++GGYAVDGCREFMASGE GT
Sbjct: 36  MRKRQVAVRRTEEPSRSSTTSFT-IRNVKYGECLKNHAASVGGYAVDGCREFMASGEEGT 94

Query: 62  G-ALTCAACGCHRNFHRREEETELI 85
             ALTCAACGCHRNFHRRE ETE+I
Sbjct: 95  ADALTCAACGCHRNFHRREVETEVI 119

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  121 bits (303), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 59/84 (70%), Positives = 67/84 (79%), Gaps = 1/84 (1%)

Query: 2  MKKRQVVVKRESSSRRSSSTSSSMLRCVRYAECQKNHAANIGGYAVDGCREFMASGENGT 61
          M+KRQVV++R   S R S  SS  +R VRY ECQKNHAA +GGYAVDGCREFMASG+ GT
Sbjct: 1  MRKRQVVLRRSEESSRDSVASSFTVRSVRYGECQKNHAAGVGGYAVDGCREFMASGDEGT 60

Query: 62 GA-LTCAACGCHRNFHRREEETEL 84
           A LTCAACGCHRNFHRR+  TE+
Sbjct: 61 TAGLTCAACGCHRNFHRRQVGTEV 84

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  121 bits (303), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 59/85 (69%), Positives = 68/85 (80%), Gaps = 1/85 (1%)

Query: 2  MKKRQVVVKRESSSRRSSSTSSSMLRCVRYAECQKNHAANIGGYAVDGCREFMASGENGT 61
          M+KRQVV++R   S R S  SS  +R VRY ECQKNHAA +GGYAVDGCREFMASG+ GT
Sbjct: 1  MRKRQVVLRRSEESSRDSVASSFTVRSVRYGECQKNHAAGVGGYAVDGCREFMASGDEGT 60

Query: 62 GA-LTCAACGCHRNFHRREEETELI 85
           A LTCAACGCHRNFHRR+  TE++
Sbjct: 61 TAGLTCAACGCHRNFHRRQVGTEVV 85

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357458757|ref|XP_003599659.1| Zinc finger homeodomain protein [Medicago truncatula] gi|355488707|gb|AES69910.1| Zinc finger homeodomain protein [Medicago truncatula] gi|388509470|gb|AFK42801.1| unknown [Medicago truncatula]

 Score =  119 bits (299), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 61/85 (71%), Positives = 67/85 (78%), Gaps = 11/85 (12%)

Query: 2  MKKRQVVVKRESSSRRSSSTSSSMLRCVRYAECQKNHAANIGGYAVDGCREFMAS-GENG 60
          MKKRQVV K          TSSS+ R +RY ECQKNHAANIGGYAVDGCREFMAS GE  
Sbjct: 1  MKKRQVVAK----------TSSSITRNIRYGECQKNHAANIGGYAVDGCREFMASTGEGT 50

Query: 61 TGALTCAACGCHRNFHRREEETELI 85
          +GALTCAACGCHRNFHRRE +TE++
Sbjct: 51 SGALTCAACGCHRNFHRREVQTEVV 75

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297850274|ref|XP_002893018.1| hypothetical protein ARALYDRAFT_472107 [Arabidopsis lyrata subsp. lyrata] gi|297338860|gb|EFH69277.1| hypothetical protein ARALYDRAFT_472107 [Arabidopsis lyrata subsp. lyrata]

 Score =  118 bits (296), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 60/84 (71%), Positives = 68/84 (80%), Gaps = 6/84 (7%)

Query: 2  MKKRQVVVKRESSSRRSSSTSSSMLRCVRYAECQKNHAANIGGYAVDGCREFMASGENGT 61
          MKKRQVV+K+   S   +S+SS+    VRY ECQKNHAANIGGYAVDGCREFMASG  G 
Sbjct: 1  MKKRQVVIKQRKISYTMTSSSSN----VRYVECQKNHAANIGGYAVDGCREFMASG--GD 54

Query: 62 GALTCAACGCHRNFHRREEETELI 85
           ALTCAACGCHRNFHRRE +TE++
Sbjct: 55 DALTCAACGCHRNFHRREVDTEVV 78

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	90
TAIR|locus:4010713452	88	MIF3 "mini zinc finger 3" [Ara	0.788	0.806	0.688	2.9e-23
TAIR|locus:1006230234	100	MIF2 "mini zinc finger 2" [Ara	0.855	0.77	0.646	6.1e-23
TAIR|locus:2019190	102	MIF1 "AT1G74660" [Arabidopsis	0.866	0.764	0.586	7e-22
TAIR|locus:2121989	220	HB22 "AT4G24660" [Arabidopsis	0.555	0.227	0.764	4.6e-18
TAIR|locus:2077957	249	HB28 "homeobox protein 28" [Ar	0.544	0.196	0.72	1.1e-16
TAIR|locus:2062141	262	HB24 "AT2G18350" [Arabidopsis	0.544	0.187	0.7	7.7e-16
TAIR|locus:2065304	310	HB21 "homeobox protein 21" [Ar	0.555	0.161	0.666	1.2e-15
TAIR|locus:2025121	309	HB33 "AT1G75240" [Arabidopsis	0.555	0.161	0.705	2.1e-15
TAIR|locus:2168240	279	HB25 "AT5G65410" [Arabidopsis	0.544	0.175	0.7	2.6e-15
TAIR|locus:2012602	312	HB31 "AT1G14440" [Arabidopsis	0.555	0.160	0.666	3e-15

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

 Score = 268 (99.4 bits), Expect = 2.9e-23, P = 2.9e-23
 Identities = 53/77 (68%), Positives = 55/77 (71%)

Query:     2 MKKRQVVVKREXXXXXXXXXXXXMLRCVRYAECQKNHAANIGGYAVDGCREFMASGENGT 61
             MKKRQVV+K+                 VRY ECQKNHAANIGGYAVDGCREFMASG  G 
Sbjct:     1 MKKRQVVIKQRKSSYTMTSSSSN----VRYVECQKNHAANIGGYAVDGCREFMASG--GD 54

Query:    62 GALTCAACGCHRNFHRR 78
              ALTCAACGCHRNFHRR
Sbjct:    55 DALTCAACGCHRNFHRR 71

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 265 (98.3 bits), Expect = 6.1e-23, P = 6.1e-23
 Identities = 53/82 (64%), Positives = 59/82 (71%)

Query:     2 MKKRQVVVKR---EXXXXXXXXXXXXMLRCVRYAECQKNHAANIGGYAVDGCREFMAS-G 57
             M+KRQVV++R   E             +R VRY ECQKNHAA +GGYAVDGCREFMAS G
Sbjct:     1 MRKRQVVLRRASPEEPSRSSSTASSLTVRTVRYGECQKNHAAAVGGYAVDGCREFMASRG 60

Query:    58 ENGT-GALTCAACGCHRNFHRR 78
             E GT  ALTCAACGCHR+FHRR
Sbjct:    61 EEGTVAALTCAACGCHRSFHRR 82

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0003677 "DNA binding" evidence=ISS

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

 Score = 255 (94.8 bits), Expect = 7.0e-22, P = 7.0e-22
 Identities = 51/87 (58%), Positives = 57/87 (65%)

Query:     1 MMKKRQVVVKREXX--------XXXXXXXXXXMLRCVRYAECQKNHAANIGGYAVDGCRE 52
             MMKKRQ+V+K+                      +  VRY ECQKNHAANIGGYAVDGCRE
Sbjct:     1 MMKKRQMVIKQRSRNSNTSSSWTTTSSSSSSSEISNVRYVECQKNHAANIGGYAVDGCRE 60

Query:    53 FMASGENGT-GALTCAACGCHRNFHRR 78
             FMA+G  GT  AL CAACGCHRNFHR+
Sbjct:    61 FMAAGVEGTVDALRCAACGCHRNFHRK 87

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

 Score = 219 (82.2 bits), Expect = 4.6e-18, P = 4.6e-18
 Identities = 39/51 (76%), Positives = 43/51 (84%)

Query:    29 VRYAECQKNHAANIGGYAVDGCREFMASGENGT-GALTCAACGCHRNFHRR 78
             +RY EC KNHA NIGG+AVDGC EFM SGE+GT  AL CAACGCHRNFHR+
Sbjct:    47 IRYRECLKNHAVNIGGHAVDGCCEFMPSGEDGTLDALKCAACGCHRNFHRK 97

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

 Score = 206 (77.6 bits), Expect = 1.1e-16, P = 1.1e-16
 Identities = 36/50 (72%), Positives = 41/50 (82%)

Query:    30 RYAECQKNHAANIGGYAVDGCREFMASGENGT-GALTCAACGCHRNFHRR 78
             +Y ECQKNHAA+ GG+ VDGC EFMA GE GT GAL CAAC CHR+FHR+
Sbjct:    59 KYRECQKNHAASTGGHVVDGCCEFMAGGEEGTLGALKCAACNCHRSFHRK 108

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

 Score = 198 (74.8 bits), Expect = 7.7e-16, P = 7.7e-16
 Identities = 35/50 (70%), Positives = 41/50 (82%)

Query:    30 RYAECQKNHAANIGGYAVDGCREFMASGENGT-GALTCAACGCHRNFHRR 78
             RY ECQKNHAA+ GG+ VDGC EFM+SGE GT  +L CAAC CHR+FHR+
Sbjct:    81 RYRECQKNHAASSGGHVVDGCGEFMSSGEEGTVESLLCAACDCHRSFHRK 130

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

GO:0005634 "nucleus" evidence=ISM

GO:0003677 "DNA binding" evidence=ISS

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

 Score = 197 (74.4 bits), Expect = 1.2e-15, P = 1.2e-15
 Identities = 34/51 (66%), Positives = 40/51 (78%)

Query:    29 VRYAECQKNHAANIGGYAVDGCREFMASGENGT-GALTCAACGCHRNFHRR 78
             ++Y EC KNHAA +GG A+DGC EFM SGE G+  ALTC+ C CHRNFHRR
Sbjct:    85 IKYKECLKNHAATMGGNAIDGCGEFMPSGEEGSIEALTCSVCNCHRNFHRR 135

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

TAIR|locus:2025121 HB33 "AT1G75240" [Arabidopsis thaliana (taxid:3702)]

 Score = 195 (73.7 bits), Expect = 2.1e-15, P = 2.1e-15
 Identities = 36/51 (70%), Positives = 39/51 (76%)

Query:    29 VRYAECQKNHAANIGGYAVDGCREFMASGENGT-GALTCAACGCHRNFHRR 78
             VRY EC KNHAA++GG   DGC EFM SGE GT  AL CAAC CHRNFHR+
Sbjct:    74 VRYRECLKNHAASVGGSVHDGCGEFMPSGEEGTIEALRCAACDCHRNFHRK 124

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

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0003677 "DNA binding" evidence=IPI

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

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

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

TAIR|locus:2168240 HB25 "AT5G65410" [Arabidopsis thaliana (taxid:3702)]

 Score = 193 (73.0 bits), Expect = 2.6e-15, P = 2.6e-15
 Identities = 35/50 (70%), Positives = 39/50 (78%)

Query:    30 RYAECQKNHAANIGGYAVDGCREFMASGENGT-GALTCAACGCHRNFHRR 78
             R+ EC KN A NIGG+AVDGC EFM +G  GT  AL CAACGCHRNFHR+
Sbjct:    74 RFRECLKNQAVNIGGHAVDGCGEFMPAGIEGTIDALKCAACGCHRNFHRK 123

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

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

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

 Score = 194 (73.4 bits), Expect = 3.0e-15, P = 3.0e-15
 Identities = 34/51 (66%), Positives = 41/51 (80%)

Query:    29 VRYAECQKNHAANIGGYAVDGCREFMASGENGT-GALTCAACGCHRNFHRR 78
             ++Y EC KNHAA +GG A DGC EFM SGE+G+  ALTC+AC CHRNFHR+
Sbjct:    88 IKYKECLKNHAAAMGGNATDGCGEFMPSGEDGSIEALTCSACNCHRNFHRK 138

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

GO:0005634 "nucleus" evidence=ISM

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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

Fail to connect to STRING server

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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	90
pfam04770	60	pfam04770, ZF-HD_dimer, ZF-HD protein dimerisation	2e-30
TIGR01566	53	TIGR01566, ZF_HD_prot_N, ZF-HD homeobox protein Cy	1e-20

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

 Score =  101 bits (254), Expect = 2e-30
 Identities = 43/56 (76%), Positives = 46/56 (82%), Gaps = 1/56 (1%)

Query: 29 VRYAECQKNHAANIGGYAVDGCREFMASGENGT-GALTCAACGCHRNFHRREEETE 83
          VRY EC KNHAA+IGG+AVDGC EFM SGE GT  +L CAACGCHRNFHRRE E E
Sbjct: 4  VRYRECLKNHAASIGGHAVDGCGEFMPSGEEGTPDSLKCAACGCHRNFHRREPEGE 59

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 = 76.8 bits (189), Expect = 1e-20
 Identities = 37/53 (69%), Positives = 43/53 (81%), Gaps = 2/53 (3%)

Query: 30 RYAECQKNHAANIGGYAVDGCREFM-ASGENGT-GALTCAACGCHRNFHRREE 80
           Y EC KNHAA+IGG+A+DGC EFM +SGE G   +LTCAACGCHRNFHR+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	90
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=9.9e-42  Score=219.65  Aligned_cols=57  Identities=77%  Similarity=1.324  Sum_probs=54.1

Q ss_pred             cceehHHHhhhhhhccCCccccCccccccC-CCCCC-CceeecCcCccccccccccccc
Q 043467           27 RCVRYAECQKNHAANIGGYAVDGCREFMAS-GENGT-GALTCAACGCHRNFHRREEETE   83 (90)
Q Consensus        27 ~~v~Y~EC~kNHAa~~Gg~avDGCgEFm~~-g~egt-~aL~CaACgCHRnFHRre~~~~   83 (90)
                      +.|+|+|||||||+++|||+||||+||||+ +++|+ ++|+||||||||||||||+++|
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            478999999999999999999999999999 88888 9999999999999999999875

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=7.3e-41  Score=211.80  Aligned_cols=51  Identities=73%  Similarity=1.333  Sum_probs=48.4

Q ss_pred             ehHHHhhhhhhccCCccccCcccccc-CCCCCC-CceeecCcCcccccccccc
Q 043467           30 RYAECQKNHAANIGGYAVDGCREFMA-SGENGT-GALTCAACGCHRNFHRREE   80 (90)
Q Consensus        30 ~Y~EC~kNHAa~~Gg~avDGCgEFm~-~g~egt-~aL~CaACgCHRnFHRre~   80 (90)
                      +|+||||||||++|||+||||+|||| ++++|+ ++|+||||||||||||||+
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 677888 9999999999999999985

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