Citrus Sinensis ID: 046813

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
MEGDGDNNNNMGMVSGGGGGGGGGTTLSSSSRWNPTKEQINMLESLYAQGIRTPSAEQIQQITTRLRAYGHIEGKNVFYWFQNHKARQRQKQKQERTAFINRYLHKSAHQPAPLFPPSTNVVCGPYYLPRNDLGFYPQCTKVLIPGGSKMRAKTDQEMDKTTSYVGAGYDPEQPECNVMMHTSNINNSDISNQETLPLFPLHPTGILQAKTNAMLPSNSLENSITPCIEKDPADQPFFDFFSGQGCERTD
ccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcccccccEEEcccccHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEccccccccccc
ccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHcccccccHHHHHHcHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccc
megdgdnnnnmgmvsgggggggggttlssssrwnptkEQINMLESLYAqgirtpsaEQIQQITTRLRAYGHIEGKNVFYWFQNHKARQRQKQKQERTAFINRYlhksahqpaplfppstnvvcgpyylprndlgfypqctkvlipggskmraktdqemdkttsyvgagydpeqpecnvmmhtsninnsdisnqetlplfplhptgilqaktnamlpsnslensitpciekdpadqpffdffsgqgcertd
MEGDGDNNNNMGMVSGGGGGGGGGTTLSSSSRWNPTKEQINMLESLYAQGIRTPSAEQIQQITTRLRAYGHIEGKNVFYWFQNHKARQRQKQKQERTAFINRYLHKSAHQPAPLFPPSTNVVCGPYYLPRNDLGFYPQCTKVLIPggskmraktdqeMDKTTSYVGAGYDPEQPECNVMMHTSNINNSDISNQETLPLFPLHPTGILQAKTNAMLPSNSLENSITPCIEKDPADQPFFDFFSGQGCERTD
MEgdgdnnnnmgmvsgggggggggTTLSSSSRWNPTKEQINMLESLYAQGIRTPSAEQIQQITTRLRAYGHIEGKNVFYWFQNHKArqrqkqkqERTAFINRYLHKSAHQPAPLFPPSTNVVCGPYYLPRNDLGFYPQCTKVLIPGGSKMRAKTDQEMDKTTSYVGAGYDPEQPECNVMMHTSNINNSDISNQETLPLFPLHPTGILQAKTNAMLPSNSLENSITPCIEKDPADQPFFDFFSGQGCERTD
*******************************************ESLYAQGIRTPSAEQIQQITTRLRAYGHIEGKNVFYWFQNH*************AFINRYLHKSAHQPAPLFPPSTNVVCGPYYLPRNDLGFYPQCTKVLIP**************************************************LPLFPLHPTGILQ****************************FFDFF*********
***********************************TKEQINMLESLYAQGIRTPSAEQIQQITTRLRAYGHIEGKNVFYWFQ******************************************************************************************************************PLFPLH**********************************FFDF***Q******
MEGDGDNNNNMGMVSGGGGGGGGGTTLSSSSRWNPTKEQINMLESLYAQGIRTPSAEQIQQITTRLRAYGHIEGKNVFYWFQNH***********RTAFINRYLHKSAHQPAPLFPPSTNVVCGPYYLPRNDLGFYPQCTKVLIPGGSKMRAKTDQEMDKTTSYVGAGYDPEQPECNVMMHTSNINNSDISNQETLPLFPLHPTGILQAKTNAMLPSNSLENSITPCIEKDPADQPFFDFFSGQGCERTD
******************************SRWNPTKEQINMLESLYAQGIRTPSAEQIQQITTRLRAYGHIEGKNVFYWFQNHKARQRQKQKQE*****************************************************K*************S*******************************TLPLF*LHPTGI**************************ADQPFFDFFSGQ******
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MEGDGDNNNNMGMVSGGGGGGGGGTTLSSSSRWNPTKEQINMLESLYAQGIRTPSAEQIQQITTRLRAYGHIEGKNVFYWFQNHKARQRQKQKQERTAFINRYLHKSAHQPAPLFPPSTNVVCGPYYLPRNDLGFYPQCTKVLIPGGSKMRAKTDQEMDKTTSYVGAGYDPEQPECNVMMHTSNINNSDISNQETLPLFPLHPTGILQAKTNAMLPSNSLENSITPCIEKDPADQPFFDFFSGQGCERTD
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 ?
Query250 2.2.26 [Sep-21-2011]
Q6X7K1260 WUSCHEL-related homeobox yes no 0.836 0.803 0.471 6e-43
Q6X7K0350 WUSCHEL-related homeobox no no 0.264 0.188 0.712 7e-23
Q6YBV1281 Protein WUSCHEL OS=Antirr N/A no 0.74 0.658 0.325 2e-22
Q8LR86313 WUSCHEL-related homeobox yes no 0.224 0.178 0.803 8e-22
A2WWU7313 WUSCHEL-related homeobox N/A no 0.224 0.178 0.803 8e-22
Q6X7J9251 WUSCHEL-related homeobox no no 0.256 0.254 0.703 4e-21
Q84VT7272 Protein WUSCHEL OS=Solanu N/A no 0.312 0.286 0.582 1e-20
A2XZR3286 Putative WUSCHEL-related N/A no 0.268 0.234 0.656 2e-20
Q5W7C3286 Putative WUSCHEL-related no no 0.268 0.234 0.656 2e-20
Q7XTV3236 WUSCHEL-related homeobox no no 0.268 0.283 0.641 2e-20
>sp|Q6X7K1|WOX2_ARATH WUSCHEL-related homeobox 2 OS=Arabidopsis thaliana GN=WOX2 PE=2 SV=1 Back     alignment and function desciption
 Score =  174 bits (441), Expect = 6e-43,   Method: Compositional matrix adjust.
 Identities = 115/244 (47%), Positives = 139/244 (56%), Gaps = 35/244 (14%)

Query: 28  SSSSRWNPTKEQINMLESLYAQGIRTPSAEQIQQITTRLRAYGHIEGKNVFYWFQNHKAR 87
           +SSSRWNPTK+QI +LE+LY +GIRTPSA+QIQQIT RLRAYGHIEGKNVFYWFQNHKAR
Sbjct: 10  ASSSRWNPTKDQITLLENLYKEGIRTPSADQIQQITGRLRAYGHIEGKNVFYWFQNHKAR 69

Query: 88  QRQKQKQERTAFINRYLHKSAHQPAPLFPPSTNVVC-GPYYLPR--------------ND 132
           QRQKQKQER A+ NR LHK++    P  PP +NV C  PYYL +              ND
Sbjct: 70  QRQKQKQERMAYFNRLLHKTSRFFYP--PPCSNVGCVSPYYLQQASDHHMNQHGSVYTND 127

Query: 133 LGFYPQCTKVLIP-GGSKMRAKTDQEMD----KTTSYVGAGYDPEQPECNVMMHTSNIN- 186
           L        V+IP GG + R  T  +      +TT+       P     +      N   
Sbjct: 128 L---LHRNNVMIPSGGYEKRTVTQHQKQLSDIRTTAATRMPISPSSLRFDRFALRDNCYA 184

Query: 187 ----NSDISNQETLPLFPLHPTGILQAKTNAMLPSNSLENSITPC-IEKDPA--DQPFFD 239
               N + S ++TLPLFPL P     A  + M  S+    S +P     D A  +QPF D
Sbjct: 185 GEDINVNSSGRKTLPLFPLQPLNASNA--DGMGSSSFALGSDSPVDCSSDGAGREQPFID 242

Query: 240 FFSG 243
           FFSG
Sbjct: 243 FFSG 246
Probable transcription factor involved in embryonic patterning. Required for apical embryo development after fertilization. Its specific localization to the apical daughter cell of the zygote, while WOX8 is confined to the basal cell, suggests that the asymmetric division of the plant zygote separates determinants of apical and basal cell fates.
Arabidopsis thaliana (taxid: 3702)
>sp|Q6X7K0|WOX1_ARATH WUSCHEL-related homeobox 1 OS=Arabidopsis thaliana GN=WOX1 PE=2 SV=2 Back     alignment and function description
>sp|Q6YBV1|WUS_ANTMA Protein WUSCHEL OS=Antirrhinum majus GN=WUS PE=2 SV=1 Back     alignment and function description
>sp|Q8LR86|WOX5_ORYSJ WUSCHEL-related homeobox 5 OS=Oryza sativa subsp. japonica GN=WOX5 PE=2 SV=1 Back     alignment and function description
>sp|A2WWU7|WOX5_ORYSI WUSCHEL-related homeobox 5 OS=Oryza sativa subsp. indica GN=WOX5 PE=3 SV=1 Back     alignment and function description
>sp|Q6X7J9|WOX4_ARATH WUSCHEL-related homeobox 4 OS=Arabidopsis thaliana GN=WOX4 PE=2 SV=1 Back     alignment and function description
>sp|Q84VT7|WUS_SOLLC Protein WUSCHEL OS=Solanum lycopersicum GN=WUS PE=2 SV=1 Back     alignment and function description
>sp|A2XZR3|WOX2_ORYSI Putative WUSCHEL-related homeobox 2 OS=Oryza sativa subsp. indica GN=WOX2 PE=3 SV=1 Back     alignment and function description
>sp|Q5W7C3|WOX2_ORYSJ Putative WUSCHEL-related homeobox 2 OS=Oryza sativa subsp. japonica GN=WOX2 PE=3 SV=1 Back     alignment and function description
>sp|Q7XTV3|WOX4_ORYSJ WUSCHEL-related homeobox 4 OS=Oryza sativa subsp. japonica GN=WOX4 PE=2 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 ?
Query250
225434990236 PREDICTED: WUSCHEL-related homeobox 2 [V 0.84 0.889 0.598 2e-65
255581093268 transcription factor, putative [Ricinus 0.884 0.824 0.550 5e-63
356541244261 PREDICTED: WUSCHEL-related homeobox 2-li 0.928 0.888 0.498 4e-55
224054787245 predicted protein [Populus trichocarpa] 0.856 0.873 0.530 6e-54
356544586256 PREDICTED: WUSCHEL-related homeobox 2-li 0.892 0.871 0.505 7e-52
356547240212 PREDICTED: WUSCHEL-related homeobox 2-li 0.76 0.896 0.5 7e-47
169667043256 WOX2 [Petunia x hybrida] 0.904 0.882 0.494 4e-45
79540980260 WUSCHEL-related homeobox 2 [Arabidopsis 0.836 0.803 0.471 3e-41
37909278260 WOX2 protein [Arabidopsis thaliana] 0.836 0.803 0.467 9e-41
297796885261 predicted protein [Arabidopsis lyrata su 0.888 0.850 0.443 8e-40
>gi|225434990|ref|XP_002281161.1| PREDICTED: WUSCHEL-related homeobox 2 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  254 bits (650), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 146/244 (59%), Positives = 169/244 (69%), Gaps = 34/244 (13%)

Query: 22  GGGTTLSSSSRWNPTKEQINMLESLYAQGIRTPSAEQIQQITTRLRAYGHIEGKNVFYWF 81
           GGG    +SSRWNPTKEQI+MLESLY QGIRTPSAEQIQQIT RL+AYGHIEGKNVFYWF
Sbjct: 7   GGGA--PASSRWNPTKEQISMLESLYMQGIRTPSAEQIQQITGRLKAYGHIEGKNVFYWF 64

Query: 82  QNHKARQRQKQKQERTAFINRYLHKSAHQPAPLFPPST-NVVCGPYYLPRNDLGFYPQCT 140
           QNHKARQRQKQKQE  A++NRYLHK+    +PLFPP   NVVCGPYY+P++DLGFYPQ  
Sbjct: 65  QNHKARQRQKQKQENMAYVNRYLHKT----SPLFPPPCPNVVCGPYYVPQSDLGFYPQYP 120

Query: 141 KVLIPGGSKMRAKTDQ-EMDKTTSYVGAGYDPEQPECNVMMHTSN-----INNSDIS-NQ 193
           KVL+PGG + R +T++ E  KT    GAGY+       +MM   +     I++S I  NQ
Sbjct: 121 KVLLPGGIRRRPRTERAEKTKTHGGGGAGYE-------MMMQAGDNNEGLIHSSSIDCNQ 173

Query: 194 ETLPLFPLHPTGILQAKTNAMLPSNSLEN----------SITPCIEKDPADQPFFDFFSG 243
           ETL LFPLHPTG LQ  ++A     S EN          + TP IE    DQPFFDFFS 
Sbjct: 174 ETLALFPLHPTGDLQRSSHA---ETSAENSTTLSTSSETATTPGIEDGSCDQPFFDFFSA 230

Query: 244 QGCE 247
              E
Sbjct: 231 PSSE 234

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255581093|ref|XP_002531361.1| transcription factor, putative [Ricinus communis] gi|223529021|gb|EEF31009.1| transcription factor, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|356541244|ref|XP_003539089.1| PREDICTED: WUSCHEL-related homeobox 2-like [Glycine max] Back     alignment and taxonomy information
>gi|224054787|ref|XP_002298364.1| predicted protein [Populus trichocarpa] gi|222845622|gb|EEE83169.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356544586|ref|XP_003540730.1| PREDICTED: WUSCHEL-related homeobox 2-like [Glycine max] Back     alignment and taxonomy information
>gi|356547240|ref|XP_003542024.1| PREDICTED: WUSCHEL-related homeobox 2-like [Glycine max] Back     alignment and taxonomy information
>gi|169667043|gb|ACA64094.1| WOX2 [Petunia x hybrida] Back     alignment and taxonomy information
>gi|79540980|ref|NP_200742.2| WUSCHEL-related homeobox 2 [Arabidopsis thaliana] gi|61217291|sp|Q6X7K1.1|WOX2_ARATH RecName: Full=WUSCHEL-related homeobox 2 gi|37909289|gb|AAP37132.1| WOX2 protein [Arabidopsis thaliana] gi|225879134|dbj|BAH30637.1| hypothetical protein [Arabidopsis thaliana] gi|332009790|gb|AED97173.1| WUSCHEL-related homeobox 2 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|37909278|gb|AAP37131.1| WOX2 protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297796885|ref|XP_002866327.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297312162|gb|EFH42586.1| predicted protein [Arabidopsis lyrata subsp. lyrata] 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 ?
Query250
TAIR|locus:2168504260 WOX2 "WUSCHEL related homeobox 0.396 0.380 0.666 6.5e-39
TAIR|locus:2088550350 WOX1 "WUSCHEL related homeobox 0.228 0.162 0.754 1.6e-23
TAIR|locus:2825767251 WOX4 "WUSCHEL related homeobox 0.244 0.243 0.655 4.7e-22
TAIR|locus:2049547271 PFS2 "PRETTY FEW SEEDS 2" [Ara 0.236 0.217 0.694 6e-22
TAIR|locus:2060902292 WUS "AT2G17950" [Arabidopsis t 0.248 0.212 0.634 3.2e-21
UNIPROTKB|Q33DK0289 WOX1B "WUSCHEL-related homeobo 0.232 0.200 0.661 1.5e-19
UNIPROTKB|Q33DK1203 WOX3 "WUSCHEL-related homeobox 0.344 0.423 0.5 1.7e-18
TAIR|locus:2065484244 PRS "PRESSED FLOWER" [Arabidop 0.312 0.319 0.536 2.2e-18
TAIR|locus:2074638182 WOX5 "WUSCHEL related homeobox 0.244 0.335 0.590 2.9e-16
TAIR|locus:2166434122 WOX7 "AT5G05770" [Arabidopsis 0.244 0.5 0.590 3.7e-16
TAIR|locus:2168504 WOX2 "WUSCHEL related homeobox 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 347 (127.2 bits), Expect = 6.5e-39, Sum P(2) = 6.5e-39
 Identities = 68/102 (66%), Positives = 78/102 (76%)

Query:    28 SSSSRWNPTKEQINMLESLYAQGIRTPSAEQIQQITTRLRAYGHIEGKNVFYWFQNHKAX 87
             +SSSRWNPTK+QI +LE+LY +GIRTPSA+QIQQIT RLRAYGHIEGKNVFYWFQNHKA 
Sbjct:    10 ASSSRWNPTKDQITLLENLYKEGIRTPSADQIQQITGRLRAYGHIEGKNVFYWFQNHKAR 69

Query:    88 XXXXXXXERTAFINRYLHKSAHQPAPLFPPSTNVVC-GPYYL 128
                    ER A+ NR LHK++    P  PP +NV C  PYYL
Sbjct:    70 QRQKQKQERMAYFNRLLHKTSRFFYP--PPCSNVGCVSPYYL 109
GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS
GO:0005634 "nucleus" evidence=ISM
GO:0043565 "sequence-specific DNA binding" evidence=IEA
GO:0009880 "embryonic pattern specification" evidence=IMP
GO:0009942 "longitudinal axis specification" evidence=IMP
GO:0010654 "apical cell fate commitment" evidence=IMP
GO:0008284 "positive regulation of cell proliferation" evidence=IGI
GO:0048825 "cotyledon development" evidence=IGI;IMP
GO:0080167 "response to karrikin" evidence=IEP
GO:0090451 "cotyledon boundary formation" evidence=IGI
TAIR|locus:2088550 WOX1 "WUSCHEL related homeobox 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2825767 WOX4 "WUSCHEL related homeobox 4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2049547 PFS2 "PRETTY FEW SEEDS 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2060902 WUS "AT2G17950" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q33DK0 WOX1B "WUSCHEL-related homeobox 1B" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
UNIPROTKB|Q33DK1 WOX3 "WUSCHEL-related homeobox 3" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
TAIR|locus:2065484 PRS "PRESSED FLOWER" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2074638 WOX5 "WUSCHEL related homeobox 5" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2166434 WOX7 "AT5G05770" [Arabidopsis thaliana (taxid:3702)] 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) ?
Q6X7K1WOX2_ARATHNo assigned EC number0.47130.8360.8038yesno

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 ?
Query250
pfam0004657 pfam00046, Homeobox, Homeobox domain 1e-15
smart0038957 smart00389, HOX, Homeodomain 2e-08
cd0008659 cd00086, homeodomain, Homeodomain; DNA binding dom 1e-06
>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain Back     alignment and domain information 
 Score = 68.7 bits (169), Expect = 1e-15
 Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 5/60 (8%)

Query: 31 SRWNPTKEQINMLESLYAQGIRTPSAEQIQQITTRLRAYGHIEGKNVFYWFQNHKARQRQ 90
           R   T EQ+  LE  + +  R PSAE+ +++  +L     +  + V  WFQN +A+ ++
Sbjct: 3  KRTTFTPEQLEELEKEFEKN-RYPSAEEREELAKKL----GLTERQVKVWFQNRRAKWKR 57

Length = 57
>gnl|CDD|197696 smart00389, HOX, Homeodomain Back     alignment and domain information
>gnl|CDD|238039 cd00086, homeodomain, Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 250
KOG0489261 consensus Transcription factor zerknullt and relat 99.81
KOG0842307 consensus Transcription factor tinman/NKX2-3, cont 99.77
KOG0843197 consensus Transcription factor EMX1 and related HO 99.77
KOG0487308 consensus Transcription factor Abd-B, contains HOX 99.77
KOG0484125 consensus Transcription factor PHOX2/ARIX, contain 99.77
KOG0485268 consensus Transcription factor NKX-5.1/HMX1, conta 99.75
KOG0848317 consensus Transcription factor Caudal, contains HO 99.74
KOG0488309 consensus Transcription factor BarH and related HO 99.74
PF0004657 Homeobox: Homeobox domain not present here.; Inter 99.72
KOG0483198 consensus Transcription factor HEX, contains HOX a 99.72
KOG0494332 consensus Transcription factor CHX10 and related H 99.7
KOG0492246 consensus Transcription factor MSH, contains HOX d 99.68
KOG2251228 consensus Homeobox transcription factor [Transcrip 99.67
KOG0850245 consensus Transcription factor DLX and related pro 99.66
smart0038956 HOX Homeodomain. DNA-binding factors that are invo 99.61
cd0008659 homeodomain Homeodomain; DNA binding domains invol 99.6
KOG0493342 consensus Transcription factor Engrailed, contains 99.58
TIGR0156558 homeo_ZF_HD homeobox domain, ZF-HD class. This mod 99.56
KOG0844408 consensus Transcription factor EVX1, contains HOX 99.56
COG5576156 Homeodomain-containing transcription factor [Trans 99.55
KOG0486351 consensus Transcription factor PTX1, contains HOX 99.55
KOG0491194 consensus Transcription factor BSH, contains HOX d 99.39
KOG0490235 consensus Transcription factor, contains HOX domai 99.39
KOG4577383 consensus Transcription factor LIM3, contains LIM 99.38
KOG3802398 consensus Transcription factor OCT-1, contains POU 99.36
KOG0847288 consensus Transcription factor, contains HOX domai 99.31
KOG0849354 consensus Transcription factor PRD and related pro 99.22
KOG1168385 consensus Transcription factor ACJ6/BRN-3, contain 98.86
KOG0490235 consensus Transcription factor, contains HOX domai 98.34
KOG0774334 consensus Transcription factor PBX and related HOX 98.33
KOG0775304 consensus Transcription factor SIX and related HOX 98.33
KOG2252558 consensus CCAAT displacement protein and related h 98.27
PF0592040 Homeobox_KN: Homeobox KN domain; InterPro: IPR0084 97.93
KOG1146 1406 consensus Homeobox protein [General function predi 97.52
KOG0773342 consensus Transcription factor MEIS1 and related H 96.49
KOG3623 1007 consensus Homeobox transcription factor SIP1 [Tran 93.78
PF1156956 Homez: Homeodomain leucine-zipper encoding, Homez; 91.48
PF0421853 CENP-B_N: CENP-B N-terminal DNA-binding domain; In 91.14
KOG1146 1406 consensus Homeobox protein [General function predi 86.39
>KOG0489 consensus Transcription factor zerknullt and related HOX domain proteins [General function prediction only] Back     alignment and domain information 
Probab=99.81  E-value=6.9e-21  Score=171.89  Aligned_cols=85  Identities=15%  Similarity=0.137  Sum_probs=69.1

Q ss_pred             CCCCCCcccccCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhHhcCCCCCCceeeecccc
Q 046813            5 GDNNNNMGMVSGGGGGGGGGTTLSSSSRWNPTKEQINMLESLYAQGIRTPSAEQIQQITTRLRAYGHIEGKNVFYWFQNH   84 (250)
Q Consensus         5 ~~~~~~~~~~s~gg~~g~g~~~~~rR~Rt~fT~eQL~~LE~~F~~~~~yPs~e~R~qLA~~L~~~G~L~erqVqvWFQNR   84 (250)
                      ..++||...-.+..  ..+.....||.|+.||..||.+||.+|+.| +|.++.+|.+||..|    +|+|+|||||||||
T Consensus       138 ~~~p~~~~~~~~~~--~~~~~~~~kR~RtayT~~QllELEkEFhfN-~YLtR~RRiEiA~~L----~LtErQIKIWFQNR  210 (261)
T KOG0489|consen  138 QIYPWMKSTANYLS--SSETGGKSKRRRTAFTRYQLLELEKEFHFN-KYLTRSRRIEIAHAL----NLTERQIKIWFQNR  210 (261)
T ss_pred             ccccchhhhhcccc--cccccCCCCCCCcccchhhhhhhhhhhccc-cccchHHHHHHHhhc----chhHHHHHHHHHHH
Confidence            46777776542111  111122278999999999999999999999 599999999999999    79999999999999


Q ss_pred             hhHHHHHHHHHH
Q 046813           85 KARQRQKQKQER   96 (250)
Q Consensus        85 RAR~Krkq~~~~   96 (250)
                      |+||||..+...
T Consensus       211 RMK~Kk~~k~~~  222 (261)
T KOG0489|consen  211 RMKWKKENKAKS  222 (261)
T ss_pred             HHHHHHhhcccc
Confidence            999999877654

>KOG0842 consensus Transcription factor tinman/NKX2-3, contains HOX domain [Transcription] Back     alignment and domain information
>KOG0843 consensus Transcription factor EMX1 and related HOX domain proteins [Transcription] Back     alignment and domain information
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription] Back     alignment and domain information
>KOG0484 consensus Transcription factor PHOX2/ARIX, contains HOX domain [Transcription] Back     alignment and domain information
>KOG0485 consensus Transcription factor NKX-5 Back     alignment and domain information
>KOG0848 consensus Transcription factor Caudal, contains HOX domain [Transcription] Back     alignment and domain information
>KOG0488 consensus Transcription factor BarH and related HOX domain proteins [General function prediction only] Back     alignment and domain information
>PF00046 Homeobox: Homeobox domain not present here Back     alignment and domain information
>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription] Back     alignment and domain information
>KOG0494 consensus Transcription factor CHX10 and related HOX domain proteins [General function prediction only] Back     alignment and domain information
>KOG0492 consensus Transcription factor MSH, contains HOX domain [General function prediction only] Back     alignment and domain information
>KOG2251 consensus Homeobox transcription factor [Transcription] Back     alignment and domain information
>KOG0850 consensus Transcription factor DLX and related proteins with LIM Zn-binding and HOX domains [Transcription] Back     alignment and domain information
>smart00389 HOX Homeodomain Back     alignment and domain information
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner Back     alignment and domain information
>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only] Back     alignment and domain information
>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class Back     alignment and domain information
>KOG0844 consensus Transcription factor EVX1, contains HOX domain [Transcription] Back     alignment and domain information
>COG5576 Homeodomain-containing transcription factor [Transcription] Back     alignment and domain information
>KOG0486 consensus Transcription factor PTX1, contains HOX domain [Transcription] Back     alignment and domain information
>KOG0491 consensus Transcription factor BSH, contains HOX domain [General function prediction only] Back     alignment and domain information
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only] Back     alignment and domain information
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription] Back     alignment and domain information
>KOG3802 consensus Transcription factor OCT-1, contains POU and HOX domains [Transcription] Back     alignment and domain information
>KOG0847 consensus Transcription factor, contains HOX domain [Transcription] Back     alignment and domain information
>KOG0849 consensus Transcription factor PRD and related proteins, contain PAX and HOX domains [Transcription] Back     alignment and domain information
>KOG1168 consensus Transcription factor ACJ6/BRN-3, contains POU and HOX domains [Transcription] Back     alignment and domain information
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only] Back     alignment and domain information
>KOG0774 consensus Transcription factor PBX and related HOX domain proteins [Transcription] Back     alignment and domain information
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription] Back     alignment and domain information
>KOG2252 consensus CCAAT displacement protein and related homeoproteins [Transcription] Back     alignment and domain information
>PF05920 Homeobox_KN: Homeobox KN domain; InterPro: IPR008422 This entry represents a homeobox transcription factor KN domain conserved from fungi to human and plants [] Back     alignment and domain information
>KOG1146 consensus Homeobox protein [General function prediction only] Back     alignment and domain information
>KOG0773 consensus Transcription factor MEIS1 and related HOX domain proteins [Transcription] Back     alignment and domain information
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription] Back     alignment and domain information
>PF11569 Homez: Homeodomain leucine-zipper encoding, Homez; PDB: 2YS9_A Back     alignment and domain information
>PF04218 CENP-B_N: CENP-B N-terminal DNA-binding domain; InterPro: IPR006695 Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere Back     alignment and domain information
>KOG1146 consensus Homeobox protein [General function prediction only] Back     alignment and domain information

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query250
2cuf_A95 FLJ21616 protein; homeobox domain, hepatocyte tran 6e-08
1wi3_A71 DNA-binding protein SATB2; homeodomain, helix-turn 1e-05
2hi3_A73 Homeodomain-only protein; transcription; NMR {Mus 3e-05
2d5v_A164 Hepatocyte nuclear factor 6; transcription factor, 5e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-04
2da1_A70 Alpha-fetoprotein enhancer binding protein; homeob 1e-04
2e19_A64 Transcription factor 8; homeobox domain, structura 2e-04
3nau_A66 Zinc fingers and homeoboxes protein 2; ZHX2, corep 3e-04
2dn0_A76 Zinc fingers and homeoboxes protein 3; triple home 7e-04
>2cuf_A FLJ21616 protein; homeobox domain, hepatocyte transcription factor, structural genomics, loop insertion, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1 Length = 95 Back     alignment and structure
 Score = 48.5 bits (115), Expect = 6e-08
 Identities = 15/74 (20%), Positives = 30/74 (40%), Gaps = 12/74 (16%)

Query: 31 SRWNPTKEQINMLESLYAQGIRTPSAEQIQQITTRLRAYGHIEGK-----------NVFY 79
          SR+   KE + ++ES + +  + P   + ++I     A     GK            V+ 
Sbjct: 10 SRFTWRKECLAVMESYFNEN-QYPDEAKREEIANACNAVIQKPGKKLSDLERVTSLKVYN 68

Query: 80 WFQNHKARQRQKQK 93
          WF N +   +++  
Sbjct: 69 WFANRRKEIKRRAN 82
>1wi3_A DNA-binding protein SATB2; homeodomain, helix-turn-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: a.4.1.1 Length = 71 Back     alignment and structure
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP: a.4.1.1 Length = 73 Back     alignment and structure
>2d5v_A Hepatocyte nuclear factor 6; transcription factor, transcription-DNA complex; 2.00A {Rattus norvegicus} PDB: 1s7e_A Length = 164 Back     alignment and structure
>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
>2da1_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics; NMR {Homo sapiens} Length = 70 Back     alignment and structure
>2e19_A Transcription factor 8; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 64 Back     alignment and structure
>3nau_A Zinc fingers and homeoboxes protein 2; ZHX2, corepressor, homeodomain, domain swapping, structural oxford protein production facility, OPPF; 2.70A {Homo sapiens} Length = 66 Back     alignment and structure
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein, KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 76 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query250
2da3_A80 Alpha-fetoprotein enhancer binding protein; homeob 99.87
2dmt_A80 Homeobox protein BARH-like 1; homeobox domain, thr 99.86
1wh7_A80 ZF-HD homeobox family protein; homeobox domain, st 99.85
2cue_A80 Paired box protein PAX6; homeobox domain, transcri 99.85
1nk2_P77 Homeobox protein VND; homeodomain, DNA-binding pro 99.85
1wh5_A80 ZF-HD homeobox family protein; structural genomics 99.84
2da4_A80 Hypothetical protein DKFZP686K21156; homeobox doma 99.84
2dmu_A70 Homeobox protein goosecoid; homeobox domain, three 99.84
2dmq_A80 LIM/homeobox protein LHX9; homeobox domain, three 99.84
1fjl_A81 Paired protein; DNA-binding protein, paired BOX, t 99.84
2dms_A80 Homeobox protein OTX2; homeobox domain, three heli 99.83
1puf_A77 HOX-1.7, homeobox protein HOX-A9; homeodomian, pro 99.83
2cra_A70 Homeobox protein HOX-B13; DNA-binding, transcripti 99.83
2e1o_A70 Homeobox protein PRH; DNA binding protein, structu 99.83
2da1_A70 Alpha-fetoprotein enhancer binding protein; homeob 99.83
2da2_A70 Alpha-fetoprotein enhancer binding protein; homeob 99.83
2kt0_A84 Nanog, homeobox protein nanog; homeodomain, struct 99.82
2djn_A70 Homeobox protein DLX-5; structural genomics, NPPSF 99.82
1b8i_A81 Ultrabithorax, protein (ultrabithorax homeotic pro 99.82
2r5y_A88 Homeotic protein sex combs reduced; homeodomain; H 99.82
2vi6_A62 Homeobox protein nanog; homeodomain, DNA-binding, 99.82
1ig7_A58 Homeotic protein MSX-1; helix-turn-helix, transcri 99.82
1zq3_P68 PRD-4, homeotic bicoid protein; protein-DNA comple 99.82
2h1k_A63 IPF-1, pancreatic and duodenal homeobox 1, homeodo 99.82
3nar_A96 ZHX1, zinc fingers and homeoboxes protein 1; corep 99.82
2hdd_A61 Protein (engrailed homeodomain Q50K); DNA binding, 99.82
3a01_A93 Homeodomain-containing protein; homeodomain, prote 99.81
1jgg_A60 Segmentation protein EVEN-skipped; homeodomain, pr 99.81
1ahd_P68 Antennapedia protein mutant; DNA binding protein/D 99.81
2cuf_A95 FLJ21616 protein; homeobox domain, hepatocyte tran 99.81
1yz8_P68 Pituitary homeobox 2; DNA binding protein, transcr 99.81
1b72_A97 Protein (homeobox protein HOX-B1); homeodomain, DN 99.81
2k40_A67 Homeobox expressed in ES cells 1; thermostable hom 99.8
3a02_A60 Homeobox protein aristaless; homeodomain, developm 99.8
2l7z_A73 Homeobox protein HOX-A13; gene regulation; NMR {Ho 99.8
1bw5_A66 ISL-1HD, insulin gene enhancer protein ISL-1; DNA- 99.8
1ftt_A68 TTF-1 HD, thyroid transcription factor 1 homeodoma 99.8
1uhs_A72 HOP, homeodomain only protein; structural genomics 99.8
2hi3_A73 Homeodomain-only protein; transcription; NMR {Mus 99.8
2dn0_A76 Zinc fingers and homeoboxes protein 3; triple home 99.8
2da5_A75 Zinc fingers and homeoboxes protein 3; homeobox do 99.8
3rkq_A58 Homeobox protein NKX-2.5; helix-turn-helix, DNA bi 99.79
2m0c_A75 Homeobox protein aristaless-like 4; structural gen 99.79
3a03_A56 T-cell leukemia homeobox protein 2; homeodomain, d 99.79
1akh_A61 Protein (mating-type protein A-1); complex (TWO DN 99.79
1x2n_A73 Homeobox protein pknox1; homeobox domain, structur 99.78
2da6_A102 Hepatocyte nuclear factor 1-beta; homeobox domain, 99.77
2ly9_A74 Zinc fingers and homeoboxes protein 1; structural 99.77
1e3o_C160 Octamer-binding transcription factor 1; transcript 99.76
2ecc_A76 Homeobox and leucine zipper protein homez; homeobo 99.76
1puf_B73 PRE-B-cell leukemia transcription factor-1; homeod 99.76
1b72_B87 Protein (PBX1); homeodomain, DNA, complex, DNA-bin 99.76
2dmp_A89 Zinc fingers and homeoboxes protein 2; homeobox do 99.75
1k61_A60 Mating-type protein alpha-2; protein-DNA complex, 99.75
2dmn_A83 Homeobox protein TGIF2LX; TGFB-induced factor 2-li 99.75
1du6_A64 PBX1, homeobox protein PBX1; homeodomain, gene reg 99.74
3d1n_I151 POU domain, class 6, transcription factor 1; prote 99.74
1au7_A146 Protein PIT-1, GHF-1; complex (DNA-binding protein 99.73
1mnm_C87 Protein (MAT alpha-2 transcriptional repressor); t 99.73
1wi3_A71 DNA-binding protein SATB2; homeodomain, helix-turn 99.73
2ecb_A89 Zinc fingers and homeoboxes protein 1; homeobox do 99.72
2cqx_A72 LAG1 longevity assurance homolog 5; homeodomain, D 99.72
1lfb_A99 Liver transcription factor (LFB1); transcription r 99.71
1le8_B83 Mating-type protein alpha-2; matalpha2, isothermal 99.71
2e19_A64 Transcription factor 8; homeobox domain, structura 99.71
2xsd_C164 POU domain, class 3, transcription factor 1; trans 99.71
1x2m_A64 LAG1 longevity assurance homolog 6; homeobox domai 99.7
3nau_A66 Zinc fingers and homeoboxes protein 2; ZHX2, corep 99.7
2l9r_A69 Homeobox protein NKX-3.1; structural genomics, nor 99.69
3l1p_A155 POU domain, class 5, transcription factor 1; POU, 99.68
2d5v_A164 Hepatocyte nuclear factor 6; transcription factor, 99.68
3k2a_A67 Homeobox protein MEIS2; homeobox domain, DNA-bindi 99.62
1ic8_A194 Hepatocyte nuclear factor 1-alpha; transcription r 99.56
2h8r_A221 Hepatocyte nuclear factor 1-beta; trasncription fa 99.47
2da7_A71 Zinc finger homeobox protein 1B; homeobox domain, 99.45
2lk2_A89 Homeobox protein TGIF1; NESG, structural genomics, 99.42
1mh3_A421 Maltose binding-A1 homeodomain protein chimera; MA 99.41
2nzz_A37 Penetratin conjugated GAS (374-394) peptide; confo 98.93
2ys9_A70 Homeobox and leucine zipper protein homez; homeodo 85.68
>2da3_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics; NMR {Homo sapiens} Back     alignment and structure
Probab=99.87  E-value=1.8e-23  Score=154.60  Aligned_cols=71  Identities=30%  Similarity=0.529  Sum_probs=63.4

Q ss_pred             CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhHhcCCCCCCceeeecccchhHHHHHH
Q 046813           17 GGGGGGGGTTLSSSSRWNPTKEQINMLESLYAQGIRTPSAEQIQQITTRLRAYGHIEGKNVFYWFQNHKARQRQKQ   92 (250)
Q Consensus        17 gg~~g~g~~~~~rR~Rt~fT~eQL~~LE~~F~~~~~yPs~e~R~qLA~~L~~~G~L~erqVqvWFQNRRAR~Krkq   92 (250)
                      .++.++......+|+|+.||.+|+.+||..|..+ .||+.++|.+||.+|   | |+++||+|||||||+|+|+++
T Consensus         6 ~~~~~~~~~~~~rr~Rt~ft~~Ql~~Le~~f~~~-~yp~~~~r~~La~~l---~-l~~~qV~~WFqNrR~k~kk~~   76 (80)
T 2da3_A            6 SGGTGGEEPQRDKRLRTTITPEQLEILYQKYLLD-SNPTRKMLDHIAHEV---G-LKKRVVQVWFQNTRARERKSG   76 (80)
T ss_dssp             CCCCCCCCCCCCTTCCSSCCTTTHHHHHHHHHHC-SSCCHHHHHHHHHHH---T-SCHHHHHHHHHHHHHHHHSSC
T ss_pred             CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHhc-CCCCHHHHHHHHHHH---C-cCHHHhHHHhHHHHHhHhhhc
Confidence            3444555677789999999999999999999999 499999999999999   6 999999999999999999854
>2dmt_A Homeobox protein BARH-like 1; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1wh7_A ZF-HD homeobox family protein; homeobox domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: a.4.1.1 Back     alignment and structure
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1 Back     alignment and structure
>1nk2_P Homeobox protein VND; homeodomain, DNA-binding protein, embryonic development, complex (homeodomain/DNA); HET: DNA; NMR {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 1nk3_P* 1vnd_A 1qry_A Back     alignment and structure
>1wh5_A ZF-HD homeobox family protein; structural genomics, zinc finger homeobox family protein, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.4.1.1 Back     alignment and structure
>2da4_A Hypothetical protein DKFZP686K21156; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2dmu_A Homeobox protein goosecoid; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2dmq_A LIM/homeobox protein LHX9; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1fjl_A Paired protein; DNA-binding protein, paired BOX, transcription regulation; HET: DNA; 2.00A {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 3a01_B Back     alignment and structure
>2dms_A Homeobox protein OTX2; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Mus musculus} Back     alignment and structure
>1puf_A HOX-1.7, homeobox protein HOX-A9; homeodomian, protein-DNA complex, HOX hexapeptide, TALE homeodomain, homeodomain interaction; 1.90A {Mus musculus} SCOP: a.4.1.1 PDB: 1san_A Back     alignment and structure
>2cra_A Homeobox protein HOX-B13; DNA-binding, transcription regulation, helix-turn-helix, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1 Back     alignment and structure
>2e1o_A Homeobox protein PRH; DNA binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.1.1 Back     alignment and structure
>2da1_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics; NMR {Homo sapiens} Back     alignment and structure
>2da2_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics; NMR {Homo sapiens} Back     alignment and structure
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics, protein structure initiative, PSI, center for eukaryotic structural genomics; NMR {Homo sapiens} Back     alignment and structure
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1b8i_A Ultrabithorax, protein (ultrabithorax homeotic protein IV); DNA binding, homeodomain, homeotic proteins, development, specificity; HET: DNA; 2.40A {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 9ant_A* Back     alignment and structure
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A {Drosophila melanogaster} PDB: 2r5z_A* Back     alignment and structure
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription, transcription facto developmental protein, transcription regulation, NUC homeobox; 2.6A {Mus musculus} Back     alignment and structure
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA complex; 2.20A {Mus musculus} SCOP: a.4.1.1 Back     alignment and structure
>1zq3_P PRD-4, homeotic bicoid protein; protein-DNA complex, double helix, helix-turn-helix; NMR {Drosophila melanogaster} SCOP: a.4.1.1 Back     alignment and structure
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA complex, transcription/DNA complex; 2.42A {Mesocricetus auratus} Back     alignment and structure
>3nar_A ZHX1, zinc fingers and homeoboxes protein 1; corepressor, homeodomain, structural genomics, oxford production facility, OPPF, transcription; 2.60A {Homo sapiens} Back     alignment and structure
>2hdd_A Protein (engrailed homeodomain Q50K); DNA binding, complex (DNA binding protein/DNA), transcription/DNA complex; HET: DNA; 1.90A {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 1hdd_C* 2jwt_A 3hdd_A 1p7j_A* 1p7i_A* 2hos_A 2hot_A 1du0_A* 1ztr_A 1enh_A 2p81_A Back     alignment and structure
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex, DNA-binding, homeobox, NUC developmental protein; 2.70A {Drosophila melanogaster} Back     alignment and structure
>1jgg_A Segmentation protein EVEN-skipped; homeodomain, protein-DNA complex, transcription/DNA complex; 2.00A {Drosophila melanogaster} SCOP: a.4.1.1 Back     alignment and structure
>1ahd_P Antennapedia protein mutant; DNA binding protein/DNA; HET: DNA; NMR {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 2hoa_A 1hom_A 1ftz_A Back     alignment and structure
>2cuf_A FLJ21616 protein; homeobox domain, hepatocyte transcription factor, structural genomics, loop insertion, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1 Back     alignment and structure
>1yz8_P Pituitary homeobox 2; DNA binding protein, transcription/DNA complex; NMR {Homo sapiens} SCOP: a.4.1.1 PDB: 2l7f_P 2lkx_A* 2l7m_P Back     alignment and structure
>1b72_A Protein (homeobox protein HOX-B1); homeodomain, DNA, complex, DNA-binding protein, protein/DNA complex; HET: DNA; 2.35A {Homo sapiens} SCOP: a.4.1.1 Back     alignment and structure
>2k40_A Homeobox expressed in ES cells 1; thermostable homeodomain variant, DNA binding protein, developmental protein, disease mutation, DNA-binding; NMR {Homo sapiens} Back     alignment and structure
>3a02_A Homeobox protein aristaless; homeodomain, developmental protein, DNA-binding, N gene regulation; 1.00A {Drosophila melanogaster} PDB: 3lnq_A 3cmy_A Back     alignment and structure
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB: 2ld5_A* Back     alignment and structure
>1bw5_A ISL-1HD, insulin gene enhancer protein ISL-1; DNA-binding protein, homeodomain, LIM domain; NMR {Rattus norvegicus} SCOP: a.4.1.1 Back     alignment and structure
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding protein; NMR {Rattus norvegicus} SCOP: a.4.1.1 Back     alignment and structure
>1uhs_A HOP, homeodomain only protein; structural genomics, cardiac development, riken structural genomics/proteomics initiative, RSGI, transcription; NMR {Mus musculus} SCOP: a.4.1.1 Back     alignment and structure
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP: a.4.1.1 Back     alignment and structure
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein, KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2da5_A Zinc fingers and homeoboxes protein 3; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus, transcription-DNA CO; 1.70A {Homo sapiens} Back     alignment and structure
>2m0c_A Homeobox protein aristaless-like 4; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens} Back     alignment and structure
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental protein, DNA-binding, N gene regulation; 1.54A {Homo sapiens} Back     alignment and structure
>1akh_A Protein (mating-type protein A-1); complex (TWO DNA-binding proteins/DNA), complex, DNA- binding protein, DNA; HET: DNA; 2.50A {Saccharomyces cerevisiae} SCOP: a.4.1.1 PDB: 1f43_A 1yrn_A* Back     alignment and structure
>1x2n_A Homeobox protein pknox1; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.1.1 Back     alignment and structure
>2da6_A Hepatocyte nuclear factor 1-beta; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2ly9_A Zinc fingers and homeoboxes protein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens} Back     alignment and structure
>1e3o_C Octamer-binding transcription factor 1; transcription factor, POU domain, dimer, DNA binding; 1.9A {Homo sapiens} SCOP: a.4.1.1 a.35.1.1 PDB: 1gt0_C 1hf0_A* 1cqt_A* 1o4x_A 1oct_C* 1pou_A 1pog_A 1hdp_A Back     alignment and structure
>2ecc_A Homeobox and leucine zipper protein homez; homeobox domain, transcription factor, leucine zipper- containing factor, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1 Back     alignment and structure
>1puf_B PRE-B-cell leukemia transcription factor-1; homeodomian, protein-DNA complex, HOX hexapeptide, TALE homeodomain, homeodomain interaction; 1.90A {Homo sapiens} SCOP: a.4.1.1 PDB: 1b8i_B* 2r5y_B* 2r5z_B* Back     alignment and structure
>1b72_B Protein (PBX1); homeodomain, DNA, complex, DNA-binding protein, protein/DNA complex; HET: DNA; 2.35A {Homo sapiens} SCOP: a.4.1.1 PDB: 1lfu_P Back     alignment and structure
>2dmp_A Zinc fingers and homeoboxes protein 2; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1k61_A Mating-type protein alpha-2; protein-DNA complex, homeodomain, hoogsteen base PAIR, transcription/DNA complex; HET: 5IU; 2.10A {Synthetic} SCOP: a.4.1.1 Back     alignment and structure
>2dmn_A Homeobox protein TGIF2LX; TGFB-induced factor 2-like protein, X-linked TGF(beta) induced transcription factor 2-like protein, TGIF-like on the X; NMR {Homo sapiens} Back     alignment and structure
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR {Mus musculus} SCOP: a.4.1.1 Back     alignment and structure
>3d1n_I POU domain, class 6, transcription factor 1; protein-DNA complex, helix-turn-helix (HTH), DNA-binding, homeobox, nucleus, transcription regulation; 2.51A {Homo sapiens} Back     alignment and structure
>1au7_A Protein PIT-1, GHF-1; complex (DNA-binding protein/DNA), pituitary, CPHD, POU domain, transcription factor, transcription/DNA complex; HET: DNA; 2.30A {Rattus norvegicus} SCOP: a.4.1.1 a.35.1.1 Back     alignment and structure
>1mnm_C Protein (MAT alpha-2 transcriptional repressor); transcription regulation, transcriptional repression, DNA- binding protein; HET: DNA; 2.25A {Saccharomyces cerevisiae} SCOP: a.4.1.1 Back     alignment and structure
>1wi3_A DNA-binding protein SATB2; homeodomain, helix-turn-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: a.4.1.1 Back     alignment and structure
>2ecb_A Zinc fingers and homeoboxes protein 1; homeobox domain, transcription factor, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1 Back     alignment and structure
>2cqx_A LAG1 longevity assurance homolog 5; homeodomain, DNA binding domain, transcription, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.1 Back     alignment and structure
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A Back     alignment and structure
>1le8_B Mating-type protein alpha-2; matalpha2, isothermal titration calorimetry, protein-DNA complex, transcription/DNA complex; 2.30A {Saccharomyces cerevisiae} SCOP: a.4.1.1 PDB: 1akh_B* 1apl_C* 1yrn_B* Back     alignment and structure
>2e19_A Transcription factor 8; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA complex, SOX; 2.05A {Mus musculus} Back     alignment and structure
>1x2m_A LAG1 longevity assurance homolog 6; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: a.4.1.1 Back     alignment and structure
>3nau_A Zinc fingers and homeoboxes protein 2; ZHX2, corepressor, homeodomain, domain swapping, structural oxford protein production facility, OPPF; 2.70A {Homo sapiens} Back     alignment and structure
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens} Back     alignment and structure
>3l1p_A POU domain, class 5, transcription factor 1; POU, transcription factor DNA complex, pore, stem cells; HET: DNA; 2.80A {Mus musculus} PDB: 1ocp_A Back     alignment and structure
>2d5v_A Hepatocyte nuclear factor 6; transcription factor, transcription-DNA complex; 2.00A {Rattus norvegicus} PDB: 1s7e_A Back     alignment and structure
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding, transcription, nucleus, phosphoprotein, DNA bindi protein; 1.95A {Homo sapiens} SCOP: a.4.1.1 Back     alignment and structure
>1ic8_A Hepatocyte nuclear factor 1-alpha; transcription regulation, DNA-binding, POU domain, diabetes, disease mutation, MODY3, transcription/DNA comple; 2.60A {Homo sapiens} SCOP: a.4.1.1 a.35.1.1 Back     alignment and structure
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo, protein-DNA, human disease; 3.20A {Homo sapiens} Back     alignment and structure
>2da7_A Zinc finger homeobox protein 1B; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast structural genomics CON PSI-biology, transcription; NMR {Homo sapiens} Back     alignment and structure
>1mh3_A Maltose binding-A1 homeodomain protein chimera; MATA1, binding cooperativity, maltose binding protein, MBP, sugar binding, DNA binding protein; 2.10A {Escherichia coli} SCOP: a.4.1.1 c.94.1.1 PDB: 1mh4_A 1le8_A Back     alignment and structure
>2nzz_A Penetratin conjugated GAS (374-394) peptide; conformational analysis, G protein, GAS subunit, A2A adenosine receptor, cell-penetrating peptides; NMR {Synthetic} PDB: 2o00_A Back     alignment and structure
>2ys9_A Homeobox and leucine zipper protein homez; homeodomain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 250
d1x2ma152 a.4.1.1 (A:8-59) Lag1 longevity assurance homolog 2e-08
d2cufa182 a.4.1.1 (A:8-89) Homeobox-containing protein 1, HM 2e-07
d1bw5a_66 a.4.1.1 (A:) Insulin gene enhancer protein isl-1 { 5e-07
d1yz8p160 a.4.1.1 (P:1-60) Pituitary homeobox 2 {Human (Homo 5e-07
d1fjla_65 a.4.1.1 (A:) Paired protein {Fruit fly (Drosophila 6e-07
d1lfba_78 a.4.1.1 (A:) Hepatocyte nuclear factor 1a (LFB1/HN 1e-06
d1uhsa_72 a.4.1.1 (A:) Homeodomain-only protein, Hop {Mouse 1e-06
d1pufa_77 a.4.1.1 (A:) Homeobox protein hox-a9 {Mouse (Mus m 3e-06
d1pufb_73 a.4.1.1 (B:) pbx1 {Human (Homo sapiens) [TaxId: 96 3e-06
d1au7a158 a.4.1.1 (A:103-160) Pit-1 POU homeodomain {Rat (Ra 3e-06
d1ftta_68 a.4.1.1 (A:) Thyroid transcription factor 1 homeod 3e-06
d1zq3p167 a.4.1.1 (P:2-68) Homeotic bicoid protein {Fruit fl 5e-06
d1k61a_60 a.4.1.1 (A:) mat alpha2 Homeodomain {Baker's yeast 1e-05
d1vnda_77 a.4.1.1 (A:) VND/NK-2 protein {Fruit fly (Drosophi 2e-05
d9anta_56 a.4.1.1 (A:) Antennapedia Homeodomain {Drosophila 2e-05
d1le8a_53 a.4.1.1 (A:) Mating type protein A1 Homeodomain {B 2e-05
d1b72a_88 a.4.1.1 (A:) Homeobox protein hox-b1 {Human (Homo 2e-05
d1wi3a_71 a.4.1.1 (A:) DNA-binding protein SATB2 {Human (Hom 2e-05
d1jgga_57 a.4.1.1 (A:) Even-skipped homeodomain {Fruit fly ( 3e-05
d1x2na162 a.4.1.1 (A:6-67) Homeobox protein pknox1 {Human (H 5e-05
d2cqxa159 a.4.1.1 (A:8-66) LAG1 longevity assurance homolog 5e-05
d1ocpa_67 a.4.1.1 (A:) Oct-3 POU Homeodomain {Mouse (Mus mus 5e-05
d2e1oa157 a.4.1.1 (A:8-64) Homeobox protein prh {Human (Homo 6e-05
d2craa158 a.4.1.1 (A:7-64) Homeobox protein hox-b13 {Human ( 7e-05
d2cuea168 a.4.1.1 (A:7-74) Paired box protein pax6 {Human (H 1e-04
d2ecba176 a.4.1.1 (A:8-83) Zinc fingers and homeoboxes prote 2e-04
d1ig7a_58 a.4.1.1 (A:) Msx-1 homeodomain {Mouse (Mus musculu 4e-04
d1e3oc157 a.4.1.1 (C:104-160) Oct-1 POU Homeodomain {Human ( 7e-04
d1p7ia_53 a.4.1.1 (A:) Engrailed Homeodomain {Drosophila mel 9e-04
d1wh7a_80 a.4.1.1 (A:) ZF-HD homeobox protein At4g24660 {Tha 0.001
d2ecca176 a.4.1.1 (A:1-76) Homeobox-leucine zipper protein H 0.001
d1s7ea150 a.4.1.1 (A:103-152) Hepatocyte nuclear factor 6 {M 0.002
>d1x2ma1 a.4.1.1 (A:8-59) Lag1 longevity assurance homolog 6, LASS6 {Mouse (Mus musculus) [TaxId: 10090]} Length = 52 Back     information, alignment and structure

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Lag1 longevity assurance homolog 6, LASS6
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 47.0 bits (112), Expect = 2e-08
 Identities = 7/54 (12%), Positives = 28/54 (51%), Gaps = 4/54 (7%)

Query: 36 TKEQINMLESLYAQGIRTPSAEQIQQITTRLRAYGHIEGKNVFYWFQNHKARQR 89
          T +   +LE ++    + P  ++++ ++ +L      + +++  WF+  + +++
Sbjct: 1  TAQPNAILEKVFTAITKHPDEKRLEGLSKQL----DWDVRSIQRWFRQRRNQEK 50
>d2cufa1 a.4.1.1 (A:8-89) Homeobox-containing protein 1, HMBOX1 (Flj21616) {Human (Homo sapiens) [TaxId: 9606]} Length = 82 Back     information, alignment and structure
>d1bw5a_ a.4.1.1 (A:) Insulin gene enhancer protein isl-1 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 66 Back     information, alignment and structure
>d1yz8p1 a.4.1.1 (P:1-60) Pituitary homeobox 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 60 Back     information, alignment and structure
>d1fjla_ a.4.1.1 (A:) Paired protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 65 Back     information, alignment and structure
>d1lfba_ a.4.1.1 (A:) Hepatocyte nuclear factor 1a (LFB1/HNF1) {Rat (Rattus rattus) [TaxId: 10117]} Length = 78 Back     information, alignment and structure
>d1uhsa_ a.4.1.1 (A:) Homeodomain-only protein, Hop {Mouse (Mus musculus) [TaxId: 10090]} Length = 72 Back     information, alignment and structure
>d1pufa_ a.4.1.1 (A:) Homeobox protein hox-a9 {Mouse (Mus musculus) [TaxId: 10090]} Length = 77 Back     information, alignment and structure
>d1pufb_ a.4.1.1 (B:) pbx1 {Human (Homo sapiens) [TaxId: 9606]} Length = 73 Back     information, alignment and structure
>d1au7a1 a.4.1.1 (A:103-160) Pit-1 POU homeodomain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 58 Back     information, alignment and structure
>d1ftta_ a.4.1.1 (A:) Thyroid transcription factor 1 homeodomain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 68 Back     information, alignment and structure
>d1zq3p1 a.4.1.1 (P:2-68) Homeotic bicoid protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 67 Back     information, alignment and structure
>d1k61a_ a.4.1.1 (A:) mat alpha2 Homeodomain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 60 Back     information, alignment and structure
>d1vnda_ a.4.1.1 (A:) VND/NK-2 protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 77 Back     information, alignment and structure
>d9anta_ a.4.1.1 (A:) Antennapedia Homeodomain {Drosophila melanogaster [TaxId: 7227]} Length = 56 Back     information, alignment and structure
>d1le8a_ a.4.1.1 (A:) Mating type protein A1 Homeodomain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 53 Back     information, alignment and structure
>d1b72a_ a.4.1.1 (A:) Homeobox protein hox-b1 {Human (Homo sapiens) [TaxId: 9606]} Length = 88 Back     information, alignment and structure
>d1wi3a_ a.4.1.1 (A:) DNA-binding protein SATB2 {Human (Homo sapiens) [TaxId: 9606]} Length = 71 Back     information, alignment and structure
>d1jgga_ a.4.1.1 (A:) Even-skipped homeodomain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 57 Back     information, alignment and structure
>d1x2na1 a.4.1.1 (A:6-67) Homeobox protein pknox1 {Human (Homo sapiens) [TaxId: 9606]} Length = 62 Back     information, alignment and structure
>d2cqxa1 a.4.1.1 (A:8-66) LAG1 longevity assurance homolog 5, LASS5 {Mouse (Mus musculus) [TaxId: 10090]} Length = 59 Back     information, alignment and structure
>d1ocpa_ a.4.1.1 (A:) Oct-3 POU Homeodomain {Mouse (Mus musculus) [TaxId: 10090]} Length = 67 Back     information, alignment and structure
>d2e1oa1 a.4.1.1 (A:8-64) Homeobox protein prh {Human (Homo sapiens) [TaxId: 9606]} Length = 57 Back     information, alignment and structure
>d2craa1 a.4.1.1 (A:7-64) Homeobox protein hox-b13 {Human (Homo sapiens) [TaxId: 9606]} Length = 58 Back     information, alignment and structure
>d2cuea1 a.4.1.1 (A:7-74) Paired box protein pax6 {Human (Homo sapiens) [TaxId: 9606]} Length = 68 Back     information, alignment and structure
>d2ecba1 a.4.1.1 (A:8-83) Zinc fingers and homeoboxes protein 1, ZHX1 {Human (Homo sapiens) [TaxId: 9606]} Length = 76 Back     information, alignment and structure
>d1ig7a_ a.4.1.1 (A:) Msx-1 homeodomain {Mouse (Mus musculus) [TaxId: 10090]} Length = 58 Back     information, alignment and structure
>d1e3oc1 a.4.1.1 (C:104-160) Oct-1 POU Homeodomain {Human (Homo sapiens) [TaxId: 9606]} Length = 57 Back     information, alignment and structure
>d1p7ia_ a.4.1.1 (A:) Engrailed Homeodomain {Drosophila melanogaster [TaxId: 7227]} Length = 53 Back     information, alignment and structure
>d1wh7a_ a.4.1.1 (A:) ZF-HD homeobox protein At4g24660 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 80 Back     information, alignment and structure
>d2ecca1 a.4.1.1 (A:1-76) Homeobox-leucine zipper protein Homez {Human (Homo sapiens) [TaxId: 9606]} Length = 76 Back     information, alignment and structure
>d1s7ea1 a.4.1.1 (A:103-152) Hepatocyte nuclear factor 6 {Mouse (Mus musculus) [TaxId: 10090]} Length = 50 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query250
d1b72a_88 Homeobox protein hox-b1 {Human (Homo sapiens) [Tax 99.87
d1zq3p167 Homeotic bicoid protein {Fruit fly (Drosophila mel 99.86
d1jgga_57 Even-skipped homeodomain {Fruit fly (Drosophila me 99.86
d1ig7a_58 Msx-1 homeodomain {Mouse (Mus musculus) [TaxId: 10 99.85
d2craa158 Homeobox protein hox-b13 {Human (Homo sapiens) [Ta 99.85
d2e1oa157 Homeobox protein prh {Human (Homo sapiens) [TaxId: 99.85
d1pufa_77 Homeobox protein hox-a9 {Mouse (Mus musculus) [Tax 99.85
d9anta_56 Antennapedia Homeodomain {Drosophila melanogaster 99.85
d1p7ia_53 Engrailed Homeodomain {Drosophila melanogaster [Ta 99.84
d1fjla_65 Paired protein {Fruit fly (Drosophila melanogaster 99.84
d1uhsa_72 Homeodomain-only protein, Hop {Mouse (Mus musculus 99.84
d2cuea168 Paired box protein pax6 {Human (Homo sapiens) [Tax 99.83
d1vnda_77 VND/NK-2 protein {Fruit fly (Drosophila melanogast 99.83
d1yz8p160 Pituitary homeobox 2 {Human (Homo sapiens) [TaxId: 99.83
d1ftta_68 Thyroid transcription factor 1 homeodomain {Rat (R 99.82
d2cufa182 Homeobox-containing protein 1, HMBOX1 (Flj21616) { 99.8
d1bw5a_66 Insulin gene enhancer protein isl-1 {Rat (Rattus n 99.79
d1wi3a_71 DNA-binding protein SATB2 {Human (Homo sapiens) [T 99.79
d1au7a158 Pit-1 POU homeodomain {Rat (Rattus norvegicus) [Ta 99.78
d1le8a_53 Mating type protein A1 Homeodomain {Baker's yeast 99.78
d1ocpa_67 Oct-3 POU Homeodomain {Mouse (Mus musculus) [TaxId 99.78
d1wh7a_80 ZF-HD homeobox protein At4g24660 {Thale cress (Ara 99.77
d1e3oc157 Oct-1 POU Homeodomain {Human (Homo sapiens) [TaxId 99.76
d1s7ea150 Hepatocyte nuclear factor 6 {Mouse (Mus musculus) 99.74
d2ecba176 Zinc fingers and homeoboxes protein 1, ZHX1 {Human 99.71
d1pufb_73 pbx1 {Human (Homo sapiens) [TaxId: 9606]} 99.71
d2ecca176 Homeobox-leucine zipper protein Homez {Human (Homo 99.7
d1lfba_78 Hepatocyte nuclear factor 1a (LFB1/HNF1) {Rat (Rat 99.7
d1x2ma152 Lag1 longevity assurance homolog 6, LASS6 {Mouse ( 99.68
d1k61a_60 mat alpha2 Homeodomain {Baker's yeast (Saccharomyc 99.64
d2cqxa159 LAG1 longevity assurance homolog 5, LASS5 {Mouse ( 99.63
d1x2na162 Homeobox protein pknox1 {Human (Homo sapiens) [Tax 99.58
d1ijwc_47 HIN recombinase (DNA-binding domain) {Synthetic} 85.75
>d1b72a_ a.4.1.1 (A:) Homeobox protein hox-b1 {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: Homeodomain
domain: Homeobox protein hox-b1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.87  E-value=1.3e-23  Score=160.45  Aligned_cols=82  Identities=21%  Similarity=0.200  Sum_probs=59.7

Q ss_pred             CCCCcccccC--CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhHhcCCCCCCceeeecccc
Q 046813            7 NNNNMGMVSG--GGGGGGGGTTLSSSSRWNPTKEQINMLESLYAQGIRTPSAEQIQQITTRLRAYGHIEGKNVFYWFQNH   84 (250)
Q Consensus         7 ~~~~~~~~s~--gg~~g~g~~~~~rR~Rt~fT~eQL~~LE~~F~~~~~yPs~e~R~qLA~~L~~~G~L~erqVqvWFQNR   84 (250)
                      ++||....+.  .+...+.+...++|+|+.||++|+.+||.+|..++ ||+.++|++||..|   | |++++|+||||||
T Consensus         4 y~wm~~~r~~p~~~~~~~~~~~~~kr~Rt~ft~~Ql~~Le~~F~~n~-yPs~~~r~~LA~~l---~-l~~~~V~vWFqNr   78 (88)
T d1b72a_           4 FDWMKVKRNPPKTAKVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNK-YLSRARRVEIAATL---E-LNETQVKIWFQNR   78 (88)
T ss_dssp             CGGGGC--------------------CCCCCCHHHHHHHHHHHTTCS-SCCHHHHHHHHHHH---T-CCHHHHHHHHHHH
T ss_pred             CCCCcCCCCCCCCCCCCCCCCCCCCCCCcCCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHc---C-CCHHHeeeccHhH
Confidence            6787553322  23333344455789999999999999999999995 99999999999999   6 9999999999999


Q ss_pred             hhHHHHHHH
Q 046813           85 KARQRQKQK   93 (250)
Q Consensus        85 RAR~Krkq~   93 (250)
                      |+|+|++++
T Consensus        79 R~k~Kk~~~   87 (88)
T d1b72a_          79 RMKQKKRER   87 (88)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHhcc
Confidence            999998764
>d1zq3p1 a.4.1.1 (P:2-68) Homeotic bicoid protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d1jgga_ a.4.1.1 (A:) Even-skipped homeodomain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d1ig7a_ a.4.1.1 (A:) Msx-1 homeodomain {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2craa1 a.4.1.1 (A:7-64) Homeobox protein hox-b13 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2e1oa1 a.4.1.1 (A:8-64) Homeobox protein prh {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1pufa_ a.4.1.1 (A:) Homeobox protein hox-a9 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d9anta_ a.4.1.1 (A:) Antennapedia Homeodomain {Drosophila melanogaster [TaxId: 7227]} Back     information, alignment and structure
>d1p7ia_ a.4.1.1 (A:) Engrailed Homeodomain {Drosophila melanogaster [TaxId: 7227]} Back     information, alignment and structure
>d1fjla_ a.4.1.1 (A:) Paired protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d1uhsa_ a.4.1.1 (A:) Homeodomain-only protein, Hop {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2cuea1 a.4.1.1 (A:7-74) Paired box protein pax6 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1vnda_ a.4.1.1 (A:) VND/NK-2 protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d1yz8p1 a.4.1.1 (P:1-60) Pituitary homeobox 2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ftta_ a.4.1.1 (A:) Thyroid transcription factor 1 homeodomain {Rat (Rattus norvegicus) [TaxId: 10116]} Back     information, alignment and structure
>d2cufa1 a.4.1.1 (A:8-89) Homeobox-containing protein 1, HMBOX1 (Flj21616) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1bw5a_ a.4.1.1 (A:) Insulin gene enhancer protein isl-1 {Rat (Rattus norvegicus) [TaxId: 10116]} Back     information, alignment and structure
>d1wi3a_ a.4.1.1 (A:) DNA-binding protein SATB2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1au7a1 a.4.1.1 (A:103-160) Pit-1 POU homeodomain {Rat (Rattus norvegicus) [TaxId: 10116]} Back     information, alignment and structure
>d1le8a_ a.4.1.1 (A:) Mating type protein A1 Homeodomain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1ocpa_ a.4.1.1 (A:) Oct-3 POU Homeodomain {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1wh7a_ a.4.1.1 (A:) ZF-HD homeobox protein At4g24660 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
>d1e3oc1 a.4.1.1 (C:104-160) Oct-1 POU Homeodomain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1s7ea1 a.4.1.1 (A:103-152) Hepatocyte nuclear factor 6 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2ecba1 a.4.1.1 (A:8-83) Zinc fingers and homeoboxes protein 1, ZHX1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1pufb_ a.4.1.1 (B:) pbx1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ecca1 a.4.1.1 (A:1-76) Homeobox-leucine zipper protein Homez {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1lfba_ a.4.1.1 (A:) Hepatocyte nuclear factor 1a (LFB1/HNF1) {Rat (Rattus rattus) [TaxId: 10117]} Back     information, alignment and structure
>d1x2ma1 a.4.1.1 (A:8-59) Lag1 longevity assurance homolog 6, LASS6 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1k61a_ a.4.1.1 (A:) mat alpha2 Homeodomain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2cqxa1 a.4.1.1 (A:8-66) LAG1 longevity assurance homolog 5, LASS5 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1x2na1 a.4.1.1 (A:6-67) Homeobox protein pknox1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ijwc_ a.4.1.2 (C:) HIN recombinase (DNA-binding domain) {Synthetic} Back     information, alignment and structure