Psyllid ID: psy16514

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-----
MSTTIFDRGKPRRGMMRRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRMKWRNSKERELLANGGSREQTLPNKNNPNPDLSDADCDRPKIDLSNVNIDYDEEEEDDLMRPKTKFTDNEAESSEVEDDGDDDEEINVT
ccccccccccccccccccccccHHHHHHHHHHHHHHccccHHHHHHHHHHHccccccHHHHHccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
ccccccccccccccccccccccHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcc
msttifdrgkprrgmmrRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEklglkdsqvKIWFQNRRMKWRNSKERELLanggsreqtlpnknnpnpdlsdadcdrpkidlsnvnidydeeeeddlmrpktkftdneaesseveddgdddeeinvt
msttifdrgkprrgmmrravfsdlqrkglekrfqiqkyiskpdrkklaeklglkdsqvkiwfqnrrmkwrnsKERELLanggsreqtlpnknnpnpdlsdadcdrpkIDLSnvnidydeeeeddlmrpktkftdneaesseveddgdddeeinvt
MSTTIFDRGKPRRGMMRRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRMKWRNSKERELLANGGSREQTLPNKNNPNPDLSDADCDRPKIDLSNVNIDYDEEEEDDLMRPKTKFTDNEAesseveddgdddeeINVT
********************************FQIQKYI***********LGLKDSQVKIWFQNRRM****************************************************************************************
*******************VFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRM****************************************************************************************
MSTTIFDRGKPRRGMMRRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRMKWRNSKERELLANGGSREQTLPNKNNPNPDLSDADCDRPKIDLSNVNIDYDEEEEDDLMRPKTKFT**********************
*****F**********RRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRMKWRNSKE*********************************************************************************
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MSTTIFDRGKPRRGMMRRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRMKWRNSKERELLANGGSREQTLPNKNNPNPDLSDADCDRPKIDLSNVNIDYDEEEEDDLMRPKTKFTDNEAESSEVEDDGDDDEEINVT
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 ?
Query155 2.2.26 [Sep-21-2011]
Q9PTU1314 Homeobox protein DBX1-A O yes N/A 0.606 0.299 0.861 8e-44
Q9PTU0322 Homeobox protein DBX1-B O no N/A 0.606 0.291 0.872 1e-43
Q5NSW5335 Homeobox protein DBX1 OS= yes N/A 0.645 0.298 0.82 3e-43
P52950335 Homeobox protein DBX1 OS= yes N/A 0.645 0.298 0.82 3e-43
A5PKG8345 Homeobox protein DBX1 OS= yes N/A 0.6 0.269 0.870 4e-43
Q9I9H2331 Homeobox protein DBX1 OS= N/A N/A 0.658 0.308 0.803 5e-43
A6NMT0343 Homeobox protein DBX1 OS= yes N/A 0.606 0.274 0.861 6e-43
Q6ZNG2339 Homeobox protein DBX2 OS= no N/A 0.458 0.209 0.788 9e-26
Q91975157 Homeobox protein DBX2 (Fr no N/A 0.464 0.458 0.777 1e-25
Q17QR5340 Homeobox protein DBX2 OS= no N/A 0.496 0.226 0.740 2e-25
>sp|Q9PTU1|DBX1A_DANRE Homeobox protein DBX1-A OS=Danio rerio GN=dbx1a PE=2 SV=1 Back     alignment and function desciption
 Score =  175 bits (444), Expect = 8e-44,   Method: Compositional matrix adjust.
 Identities = 81/94 (86%), Positives = 86/94 (91%)

Query: 8   RGKPRRGMMRRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRM 67
           RGKPRRGM+RRAVFSD+QRK LEK FQ QKYISKPDRKKLA KLGLKDSQVKIWFQNRRM
Sbjct: 169 RGKPRRGMLRRAVFSDVQRKALEKMFQKQKYISKPDRKKLAAKLGLKDSQVKIWFQNRRM 228

Query: 68  KWRNSKERELLANGGSREQTLPNKNNPNPDLSDA 101
           KWRNSKERELL++GG REQTLP K NP+PDLSD 
Sbjct: 229 KWRNSKERELLSSGGCREQTLPTKTNPHPDLSDV 262

Danio rerio (taxid: 7955)
>sp|Q9PTU0|DBX1B_DANRE Homeobox protein DBX1-B OS=Danio rerio GN=dbx1b PE=2 SV=1 Back     alignment and function description
>sp|Q5NSW5|DBX1_RAT Homeobox protein DBX1 OS=Rattus norvegicus GN=Dbx1 PE=2 SV=1 Back     alignment and function description
>sp|P52950|DBX1_MOUSE Homeobox protein DBX1 OS=Mus musculus GN=Dbx1 PE=2 SV=1 Back     alignment and function description
>sp|A5PKG8|DBX1_BOVIN Homeobox protein DBX1 OS=Bos taurus GN=DBX1 PE=2 SV=1 Back     alignment and function description
>sp|Q9I9H2|DBX1_XENLA Homeobox protein DBX1 OS=Xenopus laevis GN=dbx1 PE=2 SV=1 Back     alignment and function description
>sp|A6NMT0|DBX1_HUMAN Homeobox protein DBX1 OS=Homo sapiens GN=DBX1 PE=2 SV=2 Back     alignment and function description
>sp|Q6ZNG2|DBX2_HUMAN Homeobox protein DBX2 OS=Homo sapiens GN=DBX2 PE=2 SV=2 Back     alignment and function description
>sp|Q91975|DBX2_CHICK Homeobox protein DBX2 (Fragment) OS=Gallus gallus GN=DBX2 PE=2 SV=1 Back     alignment and function description
>sp|Q17QR5|DBX2_BOVIN Homeobox protein DBX2 OS=Bos taurus GN=DBX2 PE=2 SV=1 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 ?
Query155
270009243 386 developing brain homeobox [Tribolium cas 0.935 0.375 0.731 5e-53
156553086 553 PREDICTED: hypothetical protein LOC10011 0.838 0.235 0.729 1e-52
350396323 529 PREDICTED: hypothetical protein LOC10074 0.690 0.202 0.934 2e-52
340722398 271 PREDICTED: hematopoietically-expressed h 0.690 0.394 0.934 4e-52
242014949 280 Homeobox protein CHOX-E, putative [Pedic 0.780 0.432 0.75 1e-50
357614510219 developing brain homeobox [Danaus plexip 0.935 0.662 0.694 4e-50
195439870 388 GK12528 [Drosophila willistoni] gi|19416 0.670 0.268 0.923 6e-50
221330760 741 Dbx [Drosophila melanogaster] gi|2209024 0.670 0.140 0.913 7e-50
194746988 535 GF20095 [Drosophila ananassae] gi|190623 0.670 0.194 0.903 3e-49
195013957 593 GH16166 [Drosophila grimshawi] gi|193897 0.632 0.165 0.948 8e-49
>gi|270009243|gb|EFA05691.1| developing brain homeobox [Tribolium castaneum] Back     alignment and taxonomy information
 Score =  212 bits (539), Expect = 5e-53,   Method: Compositional matrix adjust.
 Identities = 109/149 (73%), Positives = 121/149 (81%), Gaps = 4/149 (2%)

Query: 8   RGKPRRGMMRRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRM 67
           RGKPRRGMMRRAVFSDLQRKGLE+RFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRM
Sbjct: 241 RGKPRRGMMRRAVFSDLQRKGLERRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRM 300

Query: 68  KWRNSKERELLANGGSREQTLPNKNNPNPDLSDADCDRPKIDLSNV-NIDYDEEEEDDLM 126
           KWRNSKERELLA GGSREQTLPNKNNP+PDLSDAD D+PK+DL++V +I      E +  
Sbjct: 301 KWRNSKERELLAAGGSREQTLPNKNNPHPDLSDADGDKPKLDLTDVQDISPVNSPEREAG 360

Query: 127 RPKTKFTDNEAESSEVEDDGDDDEEINVT 155
            P   +     +  + +   D DEEINVT
Sbjct: 361 LPVQTY---HYDGVDYDSSNDSDEEINVT 386

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|156553086|ref|XP_001599133.1| PREDICTED: hypothetical protein LOC100113833 [Nasonia vitripennis] Back     alignment and taxonomy information
>gi|350396323|ref|XP_003484514.1| PREDICTED: hypothetical protein LOC100745232 [Bombus impatiens] Back     alignment and taxonomy information
>gi|340722398|ref|XP_003399593.1| PREDICTED: hematopoietically-expressed homeobox protein HHEX-like [Bombus terrestris] Back     alignment and taxonomy information
>gi|242014949|ref|XP_002428141.1| Homeobox protein CHOX-E, putative [Pediculus humanus corporis] gi|212512684|gb|EEB15403.1| Homeobox protein CHOX-E, putative [Pediculus humanus corporis] Back     alignment and taxonomy information
>gi|357614510|gb|EHJ69117.1| developing brain homeobox [Danaus plexippus] Back     alignment and taxonomy information
>gi|195439870|ref|XP_002067782.1| GK12528 [Drosophila willistoni] gi|194163867|gb|EDW78768.1| GK12528 [Drosophila willistoni] Back     alignment and taxonomy information
>gi|221330760|ref|NP_647677.2| Dbx [Drosophila melanogaster] gi|220902421|gb|AAF47594.2| Dbx [Drosophila melanogaster] Back     alignment and taxonomy information
>gi|194746988|ref|XP_001955936.1| GF20095 [Drosophila ananassae] gi|190623218|gb|EDV38742.1| GF20095 [Drosophila ananassae] Back     alignment and taxonomy information
>gi|195013957|ref|XP_001983934.1| GH16166 [Drosophila grimshawi] gi|193897416|gb|EDV96282.1| GH16166 [Drosophila grimshawi] 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 ?
Query155
FB|FBgn0261723 741 Dbx "Dbx" [Drosophila melanoga 0.670 0.140 0.913 3.2e-47
ZFIN|ZDB-GENE-000128-11322 dbx1b "developing brain homeob 0.6 0.288 0.881 4.6e-42
UNIPROTKB|A5PKG8345 DBX1 "Homeobox protein DBX1" [ 0.748 0.336 0.721 3.3e-40
ZFIN|ZDB-GENE-000128-8314 dbx1a "developing brain homeob 0.6 0.296 0.870 5.3e-40
UNIPROTKB|F1SFY4343 DBX1 "Uncharacterized protein" 0.658 0.297 0.813 8.7e-40
MGI|MGI:94867335 Dbx1 "developing brain homeobo 0.6 0.277 0.870 8.7e-40
RGD|1308896335 Dbx1 "developing brain homeobo 0.6 0.277 0.870 8.7e-40
UNIPROTKB|E1BS07340 DBX1 "Uncharacterized protein" 0.6 0.273 0.870 1.1e-39
UNIPROTKB|A6NMT0343 DBX1 "Homeobox protein DBX1" [ 0.6 0.271 0.870 1.1e-39
UNIPROTKB|F8W811382 DBX1 "Homeobox protein DBX1" [ 0.322 0.130 0.88 1e-37
FB|FBgn0261723 Dbx "Dbx" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
 Score = 497 (180.0 bits), Expect = 3.2e-47, P = 3.2e-47
 Identities = 95/104 (91%), Positives = 98/104 (94%)

Query:     8 RGKPRRGMMRRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRM 67
             RGKPRRGMMRRAVFSD QRKGLEKRFQ QKYISKPDRKKLAE+LGLKDSQVKIWFQNRRM
Sbjct:   428 RGKPRRGMMRRAVFSDSQRKGLEKRFQQQKYISKPDRKKLAERLGLKDSQVKIWFQNRRM 487

Query:    68 KWRNSKERELLANGGSREQTLPNKNNPNPDLSDADCDRPKIDLS 111
             KWRNSKERELLA+GGSR+QTLPNKNNPNPDLSDA CDRP   LS
Sbjct:   488 KWRNSKERELLASGGSRDQTLPNKNNPNPDLSDAKCDRPLTPLS 531
GO:0006355 "regulation of transcription, DNA-dependent" evidence=ISS
GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS
GO:0005634 "nucleus" evidence=ISS
GO:0007399 "nervous system development" evidence=IMP
GO:0000976 "transcription regulatory region sequence-specific DNA binding" evidence=IEA
GO:0048663 "neuron fate commitment" evidence=IMP
GO:0007411 "axon guidance" evidence=IMP
ZFIN|ZDB-GENE-000128-11 dbx1b "developing brain homeobox 1b" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|A5PKG8 DBX1 "Homeobox protein DBX1" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-000128-8 dbx1a "developing brain homeobox 1a" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|F1SFY4 DBX1 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
MGI|MGI:94867 Dbx1 "developing brain homeobox 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|1308896 Dbx1 "developing brain homeobox 1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|E1BS07 DBX1 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|A6NMT0 DBX1 "Homeobox protein DBX1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F8W811 DBX1 "Homeobox protein DBX1" [Homo sapiens (taxid:9606)] 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) ?
P52950DBX1_MOUSENo assigned EC number0.820.64510.2985yesN/A
Q9PTU1DBX1A_DANRENo assigned EC number0.86170.60640.2993yesN/A
A5PKG8DBX1_BOVINNo assigned EC number0.87090.60.2695yesN/A
Q5NSW5DBX1_RATNo assigned EC number0.820.64510.2985yesN/A
A6NMT0DBX1_HUMANNo assigned EC number0.86170.60640.2740yesN/A

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query155
pfam0004657 pfam00046, Homeobox, Homeobox domain 3e-21
cd0008659 cd00086, homeodomain, Homeodomain; DNA binding dom 3e-19
smart0038957 smart00389, HOX, Homeodomain 4e-19
COG5576156 COG5576, COG5576, Homeodomain-containing transcrip 3e-06
>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain Back     alignment and domain information 
 Score = 81.0 bits (201), Expect = 3e-21
 Identities = 27/55 (49%), Positives = 39/55 (70%)

Query: 17 RRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRMKWRN 71
          +R  F+  Q + LEK F+  +Y S  +R++LA+KLGL + QVK+WFQNRR KW+ 
Sbjct: 3  KRTTFTPEQLEELEKEFEKNRYPSAEEREELAKKLGLTERQVKVWFQNRRAKWKR 57

Length = 57
>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
>gnl|CDD|197696 smart00389, HOX, Homeodomain Back     alignment and domain information
>gnl|CDD|227863 COG5576, COG5576, Homeodomain-containing transcription factor [Transcription] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 155
KOG0484|consensus125 99.83
KOG0850|consensus245 99.83
KOG2251|consensus228 99.82
KOG0488|consensus309 99.82
KOG0842|consensus307 99.8
KOG0843|consensus197 99.79
KOG0489|consensus261 99.79
KOG0487|consensus308 99.78
KOG0848|consensus317 99.75
KOG0492|consensus246 99.74
PF0004657 Homeobox: Homeobox domain not present here.; Inter 99.74
KOG0494|consensus332 99.72
KOG0485|consensus268 99.7
KOG0493|consensus342 99.65
KOG0491|consensus194 99.63
smart0038956 HOX Homeodomain. DNA-binding factors that are invo 99.62
cd0008659 homeodomain Homeodomain; DNA binding domains invol 99.62
KOG3802|consensus398 99.6
TIGR0156558 homeo_ZF_HD homeobox domain, ZF-HD class. This mod 99.59
KOG0847|consensus288 99.58
COG5576156 Homeodomain-containing transcription factor [Trans 99.57
KOG4577|consensus383 99.55
KOG0483|consensus198 99.55
KOG0486|consensus351 99.54
KOG0844|consensus408 99.44
KOG0490|consensus235 99.31
KOG0775|consensus304 99.25
KOG0849|consensus354 99.19
KOG1168|consensus385 99.16
KOG2252|consensus558 98.87
KOG0774|consensus334 98.79
PF0592040 Homeobox_KN: Homeobox KN domain; InterPro: IPR0084 98.76
KOG0490|consensus235 98.39
KOG1146|consensus 1406 97.79
PF1156956 Homez: Homeodomain leucine-zipper encoding, Homez; 97.32
KOG0773|consensus342 97.14
KOG3623|consensus 1007 97.1
PF0421853 CENP-B_N: CENP-B N-terminal DNA-binding domain; In 96.37
PF0454550 Sigma70_r4: Sigma-70, region 4; InterPro: IPR00763 90.92
PF0152776 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transp 87.69
cd0617155 Sigma70_r4 Sigma70, region (SR) 4 refers to the mo 86.57
PF0828154 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013 84.26
PRK03975141 tfx putative transcriptional regulator; Provisiona 82.71
PF0496753 HTH_10: HTH DNA binding domain; InterPro: IPR00705 81.17
>KOG0484|consensus Back     alignment and domain information 
Probab=99.83  E-value=1.7e-20  Score=126.37  Aligned_cols=68  Identities=32%  Similarity=0.559  Sum_probs=62.9

Q ss_pred             CCCCCCCcccCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCCccchhhhhhhhHHHHhhHHHHHHH
Q psy16514         11 PRRGMMRRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRMKWRNSKERELL   78 (155)
Q Consensus        11 ~~~~~r~R~~~t~~ql~~L~~~F~~~~~p~~~~~~~LA~~l~l~~~~V~~WFqNrR~k~rk~~~~~~~   78 (155)
                      .++.||.||+||..||..|+..|..++||++..|++||.++.|++..|++||||||+|.||+.+....
T Consensus        14 krKQRRIRTTFTS~QLkELErvF~ETHYPDIYTREEiA~kidLTEARVQVWFQNRRAKfRKQEr~a~~   81 (125)
T KOG0484|consen   14 KRKQRRIRTTFTSAQLKELERVFAETHYPDIYTREEIALKIDLTEARVQVWFQNRRAKFRKQERAAIA   81 (125)
T ss_pred             HHHhhhhhhhhhHHHHHHHHHHHHhhcCCcchhHHHHHHhhhhhHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            45778889999999999999999999999999999999999999999999999999999998765543

>KOG0850|consensus Back     alignment and domain information
>KOG2251|consensus Back     alignment and domain information
>KOG0488|consensus Back     alignment and domain information
>KOG0842|consensus Back     alignment and domain information
>KOG0843|consensus Back     alignment and domain information
>KOG0489|consensus Back     alignment and domain information
>KOG0487|consensus Back     alignment and domain information
>KOG0848|consensus Back     alignment and domain information
>KOG0492|consensus Back     alignment and domain information
>PF00046 Homeobox: Homeobox domain not present here Back     alignment and domain information
>KOG0494|consensus Back     alignment and domain information
>KOG0485|consensus Back     alignment and domain information
>KOG0493|consensus Back     alignment and domain information
>KOG0491|consensus 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
>KOG3802|consensus Back     alignment and domain information
>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class Back     alignment and domain information
>KOG0847|consensus Back     alignment and domain information
>COG5576 Homeodomain-containing transcription factor [Transcription] Back     alignment and domain information
>KOG4577|consensus Back     alignment and domain information
>KOG0483|consensus Back     alignment and domain information
>KOG0486|consensus Back     alignment and domain information
>KOG0844|consensus Back     alignment and domain information
>KOG0490|consensus Back     alignment and domain information
>KOG0775|consensus Back     alignment and domain information
>KOG0849|consensus Back     alignment and domain information
>KOG1168|consensus Back     alignment and domain information
>KOG2252|consensus Back     alignment and domain information
>KOG0774|consensus 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
>KOG0490|consensus Back     alignment and domain information
>KOG1146|consensus Back     alignment and domain information
>PF11569 Homez: Homeodomain leucine-zipper encoding, Homez; PDB: 2YS9_A Back     alignment and domain information
>KOG0773|consensus Back     alignment and domain information
>KOG3623|consensus 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
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription Back     alignment and domain information
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition Back     alignment and domain information
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs) Back     alignment and domain information
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription Back     alignment and domain information
>PRK03975 tfx putative transcriptional regulator; Provisional Back     alignment and domain information
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query155
2dmt_A80 Solution Structure Of The Homeobox Domain Of Homeob 6e-16
2e1o_A70 Solution Structure Of Rsgi Ruh-028, A Homeobox Doma 4e-11
3a01_A93 Crystal Structure Of Aristaless And Clawless Homeod 1e-10
2djn_A70 The Solution Structure Of The Homeobox Domain Of Hu 2e-10
2m34_A71 Nmr Structure Of The Homeodomain Transcription Fact 3e-10
1ftt_A68 Thyroid Transcription Factor 1 Homeodomain (Rattus 9e-10
1nk2_P77 VndNK-2 HomeodomainDNA COMPLEX, NMR, 20 STRUCTURES 1e-09
3rkq_A58 Nkx2.5 Homeodomain Dimer Bound To Anf-242 Dna Lengt 2e-09
2h1k_A63 Crystal Structure Of The Pdx1 Homeodomain In Comple 2e-09
1qry_A80 Homeobox Protein Vnd (Ventral Nervous System Defect 5e-09
3a03_A56 Crystal Structure Of Hox11l1 Homeodomain Length = 5 5e-09
2dmu_A70 Solution Structure Of The Homeobox Domain Of Homeob 2e-08
2l9r_A69 Solution Nmr Structure Of Homeobox Domain Of Homeob 2e-08
2r5y_A88 Structure Of ScrEXD COMPLEX BOUND TO A CONSENSUS HO 3e-08
1b72_A97 Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX Le 3e-08
9ant_A62 Antennapedia Homeodomain-Dna Complex Length = 62 4e-08
1ahd_P68 Determination Of The Nmr Solution Structure Of An A 5e-08
1hom_A68 Determination Of The Three-Dimensional Structure Of 6e-08
1san_A62 The Des(1-6)antennapedia Homeodomain: Comparison Of 8e-08
1jgg_A60 Even-Skipped Homeodomain Complexed To At-Rich Dna L 2e-07
1b8i_A81 Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX 2e-07
3lnq_A58 Structure Of Aristaless Homeodomain In Complex With 3e-07
3a01_B67 Crystal Structure Of Aristaless And Clawless Homeod 3e-07
1ftz_A70 Nuclear Magnetic Resonance Solution Structure Of Th 5e-07
2m0c_A75 Solution Nmr Structure Of Homeobox Domain Of Human 7e-07
2vi6_A62 Crystal Structure Of The Nanog Homeodomain Length = 8e-07
3a02_A60 Crystal Structure Of Aristaless Homeodomain Length 8e-07
1ig7_A58 Msx-1 HomeodomainDNA COMPLEX STRUCTURE Length = 58 9e-07
2kt0_A84 Solution Structure Of Human Stem Cell Transcription 1e-06
3hdd_A60 Engrailed Homeodomain Dna Complex Length = 60 3e-06
2ld5_A67 Solution Nmr-Derived Complex Structure Of Hoxa13 Dn 3e-06
1hdd_C61 Crystal Structure Of An Engrailed Homeodomain-Dna C 4e-06
2l7z_A73 Nmr Structure Of A13 Homedomain Length = 73 4e-06
1enh_A54 Structural Studies Of The Engrailed Homeodomain Len 4e-06
2lp0_A60 The Solution Structure Of Homeodomain-Protein Compl 4e-06
1ztr_A61 Solution Structure Of Engrailed Homeodomain L16a Mu 5e-06
1p7j_A59 Crystal Structure Of Engrailed Homeodomain Mutant K 6e-06
2cue_A80 Solution Structure Of The Homeobox Domain Of The Hu 6e-06
1puf_A77 Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bo 7e-06
1p7i_A59 Crystal Structure Of Engrailed Homeodomain Mutant K 8e-06
2hdd_A61 Engrailed Homeodomain Q50k Variant Dna Complex Leng 1e-05
2cra_A70 Solution Structure Of The Homeobox Domain Of Human 2e-05
1du0_A57 Engrailed Homeodomain Q50a Variant Dna Complex Leng 2e-05
1zq3_P68 Nmr Solution Structure Of The Bicoid Homeodomain Bo 2e-05
2l7f_P68 Solution Structure Of The Pitx2 Homeodomain Length 6e-05
2l7m_P68 Solution Structure Of The Pitx2 Homeodomain R24h Mu 7e-05
2hos_A63 Phage-selected Homeodomain Bound To Unmodified Dna 1e-04
3cmy_A61 Structure Of A Homeodomain In Complex With Dna Leng 2e-04
1fjl_A81 Homeodomain From The Drosophila Paired Protein Boun 2e-04
2p81_A44 Engrailed Homeodomain Helix-Turn-Helix Motif Length 3e-04
>pdb|2DMT|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox Protein Barh-Like 1 Length = 80 Back     alignment and structure 
Iteration: 1

 Score = 79.7 bits (195), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 38/63 (60%), Positives = 46/63 (73%)
Query: 10 KPRRGMMRRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRMKW 69
          K ++G   R VF++LQ  GLEKRF+ QKY+S PDR  LAE LGL   QVK W+QNRRMKW
Sbjct: 13 KAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQNRRMKW 72
Query: 70 RNS 72
          + S
Sbjct: 73 KKS 75
>pdb|2E1O|A Chain A, Solution Structure Of Rsgi Ruh-028, A Homeobox Domain From Human Cdna Length = 70 Back     alignment and structure
>pdb|3A01|A Chain A, Crystal Structure Of Aristaless And Clawless Homeodomains Bo Length = 93 Back     alignment and structure
>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human Homeobox Protein Dlx-5 Length = 70 Back     alignment and structure
>pdb|2M34|A Chain A, Nmr Structure Of The Homeodomain Transcription Factor Gbx1 From Homo Sapiens Length = 71 Back     alignment and structure
>pdb|1FTT|A Chain A, Thyroid Transcription Factor 1 Homeodomain (Rattus Norvegicus) Length = 68 Back     alignment and structure
>pdb|1NK2|P Chain P, VndNK-2 HomeodomainDNA COMPLEX, NMR, 20 STRUCTURES Length = 77 Back     alignment and structure
>pdb|3RKQ|A Chain A, Nkx2.5 Homeodomain Dimer Bound To Anf-242 Dna Length = 58 Back     alignment and structure
>pdb|2H1K|A Chain A, Crystal Structure Of The Pdx1 Homeodomain In Complex With Dna Length = 63 Back     alignment and structure
>pdb|1QRY|A Chain A, Homeobox Protein Vnd (Ventral Nervous System Defective Protein) Length = 80 Back     alignment and structure
>pdb|3A03|A Chain A, Crystal Structure Of Hox11l1 Homeodomain Length = 56 Back     alignment and structure
>pdb|2DMU|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox Protein Goosecoid Length = 70 Back     alignment and structure
>pdb|2L9R|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Homeobox Protein Nkx-3.1 From Homo Sapiens, Northeast Structural Genomics Consortium Target Hr6470a Length = 69 Back     alignment and structure
>pdb|2R5Y|A Chain A, Structure Of ScrEXD COMPLEX BOUND TO A CONSENSUS HOX-Exd Site Length = 88 Back     alignment and structure
>pdb|1B72|A Chain A, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX Length = 97 Back     alignment and structure
>pdb|9ANT|A Chain A, Antennapedia Homeodomain-Dna Complex Length = 62 Back     alignment and structure
>pdb|1AHD|P Chain P, Determination Of The Nmr Solution Structure Of An Antennapedia Homeodomain-Dna Complex Length = 68 Back     alignment and structure
>pdb|1HOM|A Chain A, Determination Of The Three-Dimensional Structure Of The Antennapedia Homeodomain From Drosophila In Solution By 1h Nuclear Magnetic Resonance Spectroscopy Length = 68 Back     alignment and structure
>pdb|1SAN|A Chain A, The Des(1-6)antennapedia Homeodomain: Comparison Of The Nmr Solution Structure And The Dna Binding Affinity With The Intact Antennapedia Homeodomain Length = 62 Back     alignment and structure
>pdb|1JGG|A Chain A, Even-Skipped Homeodomain Complexed To At-Rich Dna Length = 60 Back     alignment and structure
>pdb|1B8I|A Chain A, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX Length = 81 Back     alignment and structure
>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna Length = 58 Back     alignment and structure
>pdb|3A01|B Chain B, Crystal Structure Of Aristaless And Clawless Homeodomains Bo Length = 67 Back     alignment and structure
>pdb|1FTZ|A Chain A, Nuclear Magnetic Resonance Solution Structure Of The Fushi Tarazu Homeodomain From Drosophila And Comparison With The Antennapedia Homeodomain Length = 70 Back     alignment and structure
>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4, Northeast Structural Genomics Consortium (Nesg) Target Hr4490c Length = 75 Back     alignment and structure
>pdb|2VI6|A Chain A, Crystal Structure Of The Nanog Homeodomain Length = 62 Back     alignment and structure
>pdb|3A02|A Chain A, Crystal Structure Of Aristaless Homeodomain Length = 60 Back     alignment and structure
>pdb|1IG7|A Chain A, Msx-1 HomeodomainDNA COMPLEX STRUCTURE Length = 58 Back     alignment and structure
>pdb|2KT0|A Chain A, Solution Structure Of Human Stem Cell Transcription Factor Nanog Homeodomain Fragment Length = 84 Back     alignment and structure
>pdb|3HDD|A Chain A, Engrailed Homeodomain Dna Complex Length = 60 Back     alignment and structure
>pdb|2LD5|A Chain A, Solution Nmr-Derived Complex Structure Of Hoxa13 Dna Binding Domain Bound To Dna Length = 67 Back     alignment and structure
>pdb|1HDD|C Chain C, Crystal Structure Of An Engrailed Homeodomain-Dna Complex At 2.8 Angstroms Resolution: A Framework For Understanding Homeodomain-Dna Interactions Length = 61 Back     alignment and structure
>pdb|2L7Z|A Chain A, Nmr Structure Of A13 Homedomain Length = 73 Back     alignment and structure
>pdb|1ENH|A Chain A, Structural Studies Of The Engrailed Homeodomain Length = 54 Back     alignment and structure
>pdb|2LP0|A Chain A, The Solution Structure Of Homeodomain-Protein Complex Length = 60 Back     alignment and structure
>pdb|1ZTR|A Chain A, Solution Structure Of Engrailed Homeodomain L16a Mutant Length = 61 Back     alignment and structure
>pdb|1P7J|A Chain A, Crystal Structure Of Engrailed Homeodomain Mutant K52e Length = 59 Back     alignment and structure
>pdb|2CUE|A Chain A, Solution Structure Of The Homeobox Domain Of The Human Paired Box Protein Pax-6 Length = 80 Back     alignment and structure
>pdb|1PUF|A Chain A, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To Dna Length = 77 Back     alignment and structure
>pdb|1P7I|A Chain A, Crystal Structure Of Engrailed Homeodomain Mutant K52a Length = 59 Back     alignment and structure
>pdb|2HDD|A Chain A, Engrailed Homeodomain Q50k Variant Dna Complex Length = 61 Back     alignment and structure
>pdb|2CRA|A Chain A, Solution Structure Of The Homeobox Domain Of Human Homeo Box B13 Length = 70 Back     alignment and structure
>pdb|1DU0|A Chain A, Engrailed Homeodomain Q50a Variant Dna Complex Length = 57 Back     alignment and structure
>pdb|1ZQ3|P Chain P, Nmr Solution Structure Of The Bicoid Homeodomain Bound To The Consensus Dna Binding Site Taatcc Length = 68 Back     alignment and structure
>pdb|2L7F|P Chain P, Solution Structure Of The Pitx2 Homeodomain Length = 68 Back     alignment and structure
>pdb|2L7M|P Chain P, Solution Structure Of The Pitx2 Homeodomain R24h Mutant Length = 68 Back     alignment and structure
>pdb|2HOS|A Chain A, Phage-selected Homeodomain Bound To Unmodified Dna Length = 63 Back     alignment and structure
>pdb|3CMY|A Chain A, Structure Of A Homeodomain In Complex With Dna Length = 61 Back     alignment and structure
>pdb|1FJL|A Chain A, Homeodomain From The Drosophila Paired Protein Bound To A Dna Oligonucleotide Length = 81 Back     alignment and structure
>pdb|2P81|A Chain A, Engrailed Homeodomain Helix-Turn-Helix Motif Length = 44 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query155
1nk2_P77 Homeobox protein VND; homeodomain, DNA-binding pro 4e-24
3rkq_A58 Homeobox protein NKX-2.5; helix-turn-helix, DNA bi 5e-24
3a03_A56 T-cell leukemia homeobox protein 2; homeodomain, d 5e-24
2l9r_A69 Homeobox protein NKX-3.1; structural genomics, nor 5e-24
2vi6_A62 Homeobox protein nanog; homeodomain, DNA-binding, 9e-24
1ftt_A68 TTF-1 HD, thyroid transcription factor 1 homeodoma 2e-23
2dmt_A80 Homeobox protein BARH-like 1; homeobox domain, thr 3e-23
1ig7_A58 Homeotic protein MSX-1; helix-turn-helix, transcri 3e-23
3a01_A93 Homeodomain-containing protein; homeodomain, prote 1e-22
2djn_A70 Homeobox protein DLX-5; structural genomics, NPPSF 5e-22
2kt0_A84 Nanog, homeobox protein nanog; homeodomain, struct 2e-21
2e1o_A70 Homeobox protein PRH; DNA binding protein, structu 4e-21
1akh_A61 Protein (mating-type protein A-1); complex (TWO DN 5e-18
1zq3_P68 PRD-4, homeotic bicoid protein; protein-DNA comple 3e-17
2hdd_A61 Protein (engrailed homeodomain Q50K); DNA binding, 3e-16
2dn0_A76 Zinc fingers and homeoboxes protein 3; triple home 4e-16
1jgg_A60 Segmentation protein EVEN-skipped; homeodomain, pr 6e-16
1b72_A97 Protein (homeobox protein HOX-B1); homeodomain, DN 7e-16
1e3o_C160 Octamer-binding transcription factor 1; transcript 2e-15
2da3_A80 Alpha-fetoprotein enhancer binding protein; homeob 2e-15
2h1k_A63 IPF-1, pancreatic and duodenal homeobox 1, homeodo 2e-15
2da2_A70 Alpha-fetoprotein enhancer binding protein; homeob 2e-15
2r5y_A88 Homeotic protein sex combs reduced; homeodomain; H 4e-15
1b8i_A81 Ultrabithorax, protein (ultrabithorax homeotic pro 4e-15
2l7z_A73 Homeobox protein HOX-A13; gene regulation; NMR {Ho 9e-15
1au7_A146 Protein PIT-1, GHF-1; complex (DNA-binding protein 9e-15
2xsd_C164 POU domain, class 3, transcription factor 1; trans 2e-14
3d1n_I151 POU domain, class 6, transcription factor 1; prote 2e-14
2da1_A70 Alpha-fetoprotein enhancer binding protein; homeob 4e-14
2cra_A70 Homeobox protein HOX-B13; DNA-binding, transcripti 7e-14
1ahd_P68 Antennapedia protein mutant; DNA binding protein/D 8e-14
1puf_A77 HOX-1.7, homeobox protein HOX-A9; homeodomian, pro 3e-13
2d5v_A164 Hepatocyte nuclear factor 6; transcription factor, 4e-13
2hi3_A73 Homeodomain-only protein; transcription; NMR {Mus 4e-13
1yz8_P68 Pituitary homeobox 2; DNA binding protein, transcr 5e-13
3a02_A60 Homeobox protein aristaless; homeodomain, developm 5e-12
2dmq_A80 LIM/homeobox protein LHX9; homeobox domain, three 6e-12
2dms_A80 Homeobox protein OTX2; homeobox domain, three heli 7e-12
1wi3_A71 DNA-binding protein SATB2; homeodomain, helix-turn 8e-12
2cue_A80 Paired box protein PAX6; homeobox domain, transcri 9e-12
3l1p_A155 POU domain, class 5, transcription factor 1; POU, 9e-12
2k40_A67 Homeobox expressed in ES cells 1; thermostable hom 2e-11
2dmu_A70 Homeobox protein goosecoid; homeobox domain, three 2e-11
1bw5_A66 ISL-1HD, insulin gene enhancer protein ISL-1; DNA- 2e-11
2dmp_A89 Zinc fingers and homeoboxes protein 2; homeobox do 2e-11
3nau_A66 Zinc fingers and homeoboxes protein 2; ZHX2, corep 5e-11
1uhs_A72 HOP, homeodomain only protein; structural genomics 5e-11
1fjl_A81 Paired protein; DNA-binding protein, paired BOX, t 3e-10
2da5_A75 Zinc fingers and homeoboxes protein 3; homeobox do 7e-10
2ecb_A89 Zinc fingers and homeoboxes protein 1; homeobox do 2e-09
2cuf_A95 FLJ21616 protein; homeobox domain, hepatocyte tran 2e-08
2cqx_A72 LAG1 longevity assurance homolog 5; homeodomain, D 4e-08
3nar_A96 ZHX1, zinc fingers and homeoboxes protein 1; corep 1e-07
1x2m_A64 LAG1 longevity assurance homolog 6; homeobox domai 3e-06
2da4_A80 Hypothetical protein DKFZP686K21156; homeobox doma 2e-05
2ecc_A76 Homeobox and leucine zipper protein homez; homeobo 3e-05
2e19_A64 Transcription factor 8; homeobox domain, structura 1e-04
>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 Length = 77 Back     alignment and structure
 Score = 88.3 bits (219), Expect = 4e-24
 Identities = 30/71 (42%), Positives = 42/71 (59%), Gaps = 1/71 (1%)

Query: 8  RGKPRRGMMRRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRM 67
           G P +   RR +F+  Q   LE+RF+ Q+Y+S P+R+ LA  + L  +QVKIWFQN R 
Sbjct: 3  DGLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRY 62

Query: 68 KW-RNSKEREL 77
          K  R   E+  
Sbjct: 63 KTKRAQNEKGY 73
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus, transcription-DNA CO; 1.70A {Homo sapiens} Length = 58 Back     alignment and structure
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental protein, DNA-binding, N gene regulation; 1.54A {Homo sapiens} Length = 56 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} Length = 69 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} Length = 62 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 Length = 68 Back     alignment and structure
>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} Length = 80 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 Length = 58 Back     alignment and structure
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex, DNA-binding, homeobox, NUC developmental protein; 2.70A {Drosophila melanogaster} Length = 93 Back     alignment and structure
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 70 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} Length = 84 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 Length = 70 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* Length = 61 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 Length = 68 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 Length = 61 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
>1jgg_A Segmentation protein EVEN-skipped; homeodomain, protein-DNA complex, transcription/DNA complex; 2.00A {Drosophila melanogaster} SCOP: a.4.1.1 Length = 60 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 Length = 97 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 Length = 160 Back     alignment and structure
>2da3_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics; NMR {Homo sapiens} Length = 80 Back     alignment and structure
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA complex, transcription/DNA complex; 2.42A {Mesocricetus auratus} Length = 63 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} Length = 70 Back     alignment and structure
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A {Drosophila melanogaster} PDB: 2r5z_A* Length = 88 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* Length = 81 Back     alignment and structure
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB: 2ld5_A* Length = 73 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 Length = 146 Back     alignment and structure
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA complex, SOX; 2.05A {Mus musculus} Length = 164 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} Length = 151 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
>2cra_A Homeobox protein HOX-B13; DNA-binding, transcription regulation, helix-turn-helix, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1 Length = 70 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 Length = 68 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 Length = 77 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
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP: a.4.1.1 Length = 73 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 Length = 68 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 Length = 60 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} Length = 80 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} Length = 80 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 Length = 71 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 Length = 80 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 Length = 155 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} Length = 67 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} Length = 70 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 Length = 66 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} Length = 89 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
>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 Length = 72 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 Length = 81 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} Length = 75 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 Length = 89 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 Length = 95 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 Length = 72 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} Length = 96 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 Length = 64 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} Length = 80 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 Length = 76 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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query155
2cue_A80 Paired box protein PAX6; homeobox domain, transcri 99.87
1nk2_P77 Homeobox protein VND; homeodomain, DNA-binding pro 99.86
2cra_A70 Homeobox protein HOX-B13; DNA-binding, transcripti 99.86
2dmu_A70 Homeobox protein goosecoid; homeobox domain, three 99.85
2dmq_A80 LIM/homeobox protein LHX9; homeobox domain, three 99.85
2dmt_A80 Homeobox protein BARH-like 1; homeobox domain, thr 99.85
2da2_A70 Alpha-fetoprotein enhancer binding protein; homeob 99.85
2dms_A80 Homeobox protein OTX2; homeobox domain, three heli 99.85
1puf_A77 HOX-1.7, homeobox protein HOX-A9; homeodomian, pro 99.85
2da1_A70 Alpha-fetoprotein enhancer binding protein; homeob 99.85
2djn_A70 Homeobox protein DLX-5; structural genomics, NPPSF 99.84
2kt0_A84 Nanog, homeobox protein nanog; homeodomain, struct 99.84
2e1o_A70 Homeobox protein PRH; DNA binding protein, structu 99.84
2h1k_A63 IPF-1, pancreatic and duodenal homeobox 1, homeodo 99.84
2da3_A80 Alpha-fetoprotein enhancer binding protein; homeob 99.84
2l7z_A73 Homeobox protein HOX-A13; gene regulation; NMR {Ho 99.84
2vi6_A62 Homeobox protein nanog; homeodomain, DNA-binding, 99.83
2hdd_A61 Protein (engrailed homeodomain Q50K); DNA binding, 99.83
1ig7_A58 Homeotic protein MSX-1; helix-turn-helix, transcri 99.83
1fjl_A81 Paired protein; DNA-binding protein, paired BOX, t 99.83
1zq3_P68 PRD-4, homeotic bicoid protein; protein-DNA comple 99.83
1b8i_A81 Ultrabithorax, protein (ultrabithorax homeotic pro 99.83
3a01_A93 Homeodomain-containing protein; homeodomain, prote 99.83
1jgg_A60 Segmentation protein EVEN-skipped; homeodomain, pr 99.83
1bw5_A66 ISL-1HD, insulin gene enhancer protein ISL-1; DNA- 99.82
2da4_A80 Hypothetical protein DKFZP686K21156; homeobox doma 99.82
1uhs_A72 HOP, homeodomain only protein; structural genomics 99.82
1ahd_P68 Antennapedia protein mutant; DNA binding protein/D 99.82
1yz8_P68 Pituitary homeobox 2; DNA binding protein, transcr 99.82
1ftt_A68 TTF-1 HD, thyroid transcription factor 1 homeodoma 99.82
1wh5_A80 ZF-HD homeobox family protein; structural genomics 99.82
2m0c_A75 Homeobox protein aristaless-like 4; structural gen 99.82
3rkq_A58 Homeobox protein NKX-2.5; helix-turn-helix, DNA bi 99.82
2r5y_A88 Homeotic protein sex combs reduced; homeodomain; H 99.82
1akh_A61 Protein (mating-type protein A-1); complex (TWO DN 99.82
2da5_A75 Zinc fingers and homeoboxes protein 3; homeobox do 99.82
2k40_A67 Homeobox expressed in ES cells 1; thermostable hom 99.81
3a02_A60 Homeobox protein aristaless; homeodomain, developm 99.81
1wh7_A80 ZF-HD homeobox family protein; homeobox domain, st 99.81
2hi3_A73 Homeodomain-only protein; transcription; NMR {Mus 99.81
1x2n_A73 Homeobox protein pknox1; homeobox domain, structur 99.8
3a03_A56 T-cell leukemia homeobox protein 2; homeodomain, d 99.8
2cuf_A95 FLJ21616 protein; homeobox domain, hepatocyte tran 99.8
3nar_A96 ZHX1, zinc fingers and homeoboxes protein 1; corep 99.8
2ecc_A76 Homeobox and leucine zipper protein homez; homeobo 99.8
2da6_A102 Hepatocyte nuclear factor 1-beta; homeobox domain, 99.8
1b72_A97 Protein (homeobox protein HOX-B1); homeodomain, DN 99.8
2ly9_A74 Zinc fingers and homeoboxes protein 1; structural 99.79
2ecb_A89 Zinc fingers and homeoboxes protein 1; homeobox do 99.79
1wi3_A71 DNA-binding protein SATB2; homeodomain, helix-turn 99.79
2dn0_A76 Zinc fingers and homeoboxes protein 3; triple home 99.78
1du6_A64 PBX1, homeobox protein PBX1; homeodomain, gene reg 99.78
1puf_B73 PRE-B-cell leukemia transcription factor-1; homeod 99.77
3d1n_I151 POU domain, class 6, transcription factor 1; prote 99.77
2dmn_A83 Homeobox protein TGIF2LX; TGFB-induced factor 2-li 99.77
1k61_A60 Mating-type protein alpha-2; protein-DNA complex, 99.77
1b72_B87 Protein (PBX1); homeodomain, DNA, complex, DNA-bin 99.77
1au7_A146 Protein PIT-1, GHF-1; complex (DNA-binding protein 99.77
2cqx_A72 LAG1 longevity assurance homolog 5; homeodomain, D 99.77
1mnm_C87 Protein (MAT alpha-2 transcriptional repressor); t 99.76
2xsd_C164 POU domain, class 3, transcription factor 1; trans 99.76
3nau_A66 Zinc fingers and homeoboxes protein 2; ZHX2, corep 99.76
1e3o_C160 Octamer-binding transcription factor 1; transcript 99.75
2dmp_A89 Zinc fingers and homeoboxes protein 2; homeobox do 99.75
1le8_B83 Mating-type protein alpha-2; matalpha2, isothermal 99.74
1lfb_A99 Liver transcription factor (LFB1); transcription r 99.74
2l9r_A69 Homeobox protein NKX-3.1; structural genomics, nor 99.73
2e19_A64 Transcription factor 8; homeobox domain, structura 99.72
3l1p_A155 POU domain, class 5, transcription factor 1; POU, 99.72
1x2m_A64 LAG1 longevity assurance homolog 6; homeobox domai 99.71
2d5v_A164 Hepatocyte nuclear factor 6; transcription factor, 99.7
3k2a_A67 Homeobox protein MEIS2; homeobox domain, DNA-bindi 99.65
1ic8_A194 Hepatocyte nuclear factor 1-alpha; transcription r 99.58
2da7_A71 Zinc finger homeobox protein 1B; homeobox domain, 99.57
2lk2_A89 Homeobox protein TGIF1; NESG, structural genomics, 99.52
2h8r_A221 Hepatocyte nuclear factor 1-beta; trasncription fa 99.51
1mh3_A421 Maltose binding-A1 homeodomain protein chimera; MA 99.4
2nzz_A37 Penetratin conjugated GAS (374-394) peptide; confo 98.82
2ys9_A70 Homeobox and leucine zipper protein homez; homeodo 96.45
2glo_A59 Brinker CG9653-PA; protein-DNA complex, helix-turn 89.69
1hlv_A131 CENP-B, major centromere autoantigen B; helix-turn 89.49
2elh_A87 CG11849-PA, LD40883P; structural genomics, NPPSFA, 89.38
3hug_A92 RNA polymerase sigma factor; ECF sigma factor, zin 89.15
2o8x_A70 Probable RNA polymerase sigma-C factor; promoter r 85.92
1tc3_C51 Protein (TC3 transposase); DNA binding, helix-turn 82.83
1s7o_A113 Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SP 81.56
1ku3_A73 Sigma factor SIGA; helix-turn-helix, transcription 80.37
1je8_A82 Nitrate/nitrite response regulator protein NARL; p 80.09
>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
Probab=99.87  E-value=8.4e-22  Score=128.62  Aligned_cols=70  Identities=31%  Similarity=0.584  Sum_probs=63.1

Q ss_pred             CCCCCCCCcccCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCCccchhhhhhhhHHHHhhHHHHHHHh
Q psy16514         10 KPRRGMMRRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRMKWRNSKERELLA   79 (155)
Q Consensus        10 ~~~~~~r~R~~~t~~ql~~L~~~F~~~~~p~~~~~~~LA~~l~l~~~~V~~WFqNrR~k~rk~~~~~~~~   79 (155)
                      .....+|.|+.|+..|+.+|+..|..++||+..++..||..|||++.+|++||||||+|+|+........
T Consensus         3 ~~~~~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~vWFqNRR~k~kk~~~~~~~~   72 (80)
T 2cue_A            3 SGSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWRREEKLRNQR   72 (80)
T ss_dssp             SCCSSCCCCCCSCHHHHHHHHHHHTTCSSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCccCHHHHHHHHHHHhccCCCCHHHHHHHHHHhCCCHHHhhHHHHHHHHHHHHHhhhhhcc
Confidence            3455677899999999999999999999999999999999999999999999999999999987665543
>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
>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
>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
>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
>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
>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
>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
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national project on protein structural and functional analyses; 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
>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
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA complex, transcription/DNA complex; 2.42A {Mesocricetus auratus} Back     alignment and structure
>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
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB: 2ld5_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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus, transcription-DNA CO; 1.70A {Homo sapiens} 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
>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
>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
>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
>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
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP: a.4.1.1 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
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental protein, DNA-binding, N gene regulation; 1.54A {Homo sapiens} 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
>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
>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
>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
>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
>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
>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
>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
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein, KIAA0395, TIX1, structural genomics, NPPSFA; 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
>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
>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
>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
>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
>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
>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
>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
>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
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA complex, SOX; 2.05A {Mus musculus} 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
>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
>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
>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
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A 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
>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
>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
>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
>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
>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
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo, protein-DNA, human disease; 3.20A {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
>2glo_A Brinker CG9653-PA; protein-DNA complex, helix-turn-helix motif, transcription/DNA complex; NMR {Drosophila melanogaster} Back     alignment and structure
>1hlv_A CENP-B, major centromere autoantigen B; helix-turn-helix, protein-DNA complex, riken structural genomics/proteomics initiative, RSGI; 2.50A {Homo sapiens} SCOP: a.4.1.7 a.4.1.7 PDB: 1bw6_A Back     alignment and structure
>2elh_A CG11849-PA, LD40883P; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Drosophila melanogaster} Back     alignment and structure
>3hug_A RNA polymerase sigma factor; ECF sigma factor, zinc binding anti-sigma factor, oxidative transcription regulation; 2.35A {Mycobacterium tuberculosis} Back     alignment and structure
>2o8x_A Probable RNA polymerase sigma-C factor; promoter recognition, transcription regulation, helix-turn-H motif, transcription; 3.00A {Mycobacterium tuberculosis} Back     alignment and structure
>1tc3_C Protein (TC3 transposase); DNA binding, helix-turn-helix, TC1/mariner family, complex (transposase/DNA), DNA binding protein/DNA complex; HET: DNA; 2.45A {Caenorhabditis elegans} SCOP: a.4.1.2 Back     alignment and structure
>1s7o_A Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SPS1042/SPYM18_1152; putative DNA binding protein, structural genomics; 2.31A {Streptococcus pyogenes serotype M3} SCOP: a.4.13.3 Back     alignment and structure
>1ku3_A Sigma factor SIGA; helix-turn-helix, transcription; 1.80A {Thermus aquaticus} SCOP: a.4.13.2 PDB: 1ku7_A 1rio_H 3n97_A* Back     alignment and structure
>1je8_A Nitrate/nitrite response regulator protein NARL; protein-DNA complex, two-component response regulator, helix-turn-helix, DNA bending; 2.12A {Escherichia coli} SCOP: a.4.6.2 PDB: 1zg1_A 1zg5_A 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 155
d9anta_56 a.4.1.1 (A:) Antennapedia Homeodomain {Drosophila 1e-17
d2cuea168 a.4.1.1 (A:7-74) Paired box protein pax6 {Human (H 3e-17
d1pufa_77 a.4.1.1 (A:) Homeobox protein hox-a9 {Mouse (Mus m 7e-17
d1p7ia_53 a.4.1.1 (A:) Engrailed Homeodomain {Drosophila mel 1e-16
d2e1oa157 a.4.1.1 (A:8-64) Homeobox protein prh {Human (Homo 2e-16
d1bw5a_66 a.4.1.1 (A:) Insulin gene enhancer protein isl-1 { 4e-16
d2craa158 a.4.1.1 (A:7-64) Homeobox protein hox-b13 {Human ( 1e-15
d1b72a_88 a.4.1.1 (A:) Homeobox protein hox-b1 {Human (Homo 1e-15
d1jgga_57 a.4.1.1 (A:) Even-skipped homeodomain {Fruit fly ( 1e-15
d1au7a158 a.4.1.1 (A:103-160) Pit-1 POU homeodomain {Rat (Ra 3e-15
d1vnda_77 a.4.1.1 (A:) VND/NK-2 protein {Fruit fly (Drosophi 3e-15
d1zq3p167 a.4.1.1 (P:2-68) Homeotic bicoid protein {Fruit fl 3e-15
d1le8a_53 a.4.1.1 (A:) Mating type protein A1 Homeodomain {B 3e-15
d1ftta_68 a.4.1.1 (A:) Thyroid transcription factor 1 homeod 3e-15
d1fjla_65 a.4.1.1 (A:) Paired protein {Fruit fly (Drosophila 4e-15
d1ig7a_58 a.4.1.1 (A:) Msx-1 homeodomain {Mouse (Mus musculu 4e-15
d1s7ea150 a.4.1.1 (A:103-152) Hepatocyte nuclear factor 6 {M 6e-15
d1yz8p160 a.4.1.1 (P:1-60) Pituitary homeobox 2 {Human (Homo 2e-14
d1x2ma152 a.4.1.1 (A:8-59) Lag1 longevity assurance homolog 6e-14
d1e3oc157 a.4.1.1 (C:104-160) Oct-1 POU Homeodomain {Human ( 1e-13
d2cqxa159 a.4.1.1 (A:8-66) LAG1 longevity assurance homolog 1e-13
d1k61a_60 a.4.1.1 (A:) mat alpha2 Homeodomain {Baker's yeast 1e-13
d1ocpa_67 a.4.1.1 (A:) Oct-3 POU Homeodomain {Mouse (Mus mus 2e-13
d2cufa182 a.4.1.1 (A:8-89) Homeobox-containing protein 1, HM 1e-12
d1uhsa_72 a.4.1.1 (A:) Homeodomain-only protein, Hop {Mouse 2e-12
d1x2na162 a.4.1.1 (A:6-67) Homeobox protein pknox1 {Human (H 3e-12
d1pufb_73 a.4.1.1 (B:) pbx1 {Human (Homo sapiens) [TaxId: 96 5e-12
d1wi3a_71 a.4.1.1 (A:) DNA-binding protein SATB2 {Human (Hom 2e-11
d1lfba_78 a.4.1.1 (A:) Hepatocyte nuclear factor 1a (LFB1/HN 9e-11
d2ecba176 a.4.1.1 (A:8-83) Zinc fingers and homeoboxes prote 1e-10
d1wh7a_80 a.4.1.1 (A:) ZF-HD homeobox protein At4g24660 {Tha 5e-10
d2ecca176 a.4.1.1 (A:1-76) Homeobox-leucine zipper protein H 7e-08
>d9anta_ a.4.1.1 (A:) Antennapedia Homeodomain {Drosophila melanogaster [TaxId: 7227]} Length = 56 Back     information, alignment and structure

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Antennapedia Homeodomain
species: Drosophila melanogaster [TaxId: 7227]

 Score = 70.2 bits (172), Expect = 1e-17
 Identities = 23/53 (43%), Positives = 34/53 (64%)

Query: 18 RAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRMKWR 70
          R  ++  Q   LEK F   +Y+++  R ++A  L L + Q+KIWFQNRRMKW+
Sbjct: 1  RQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWK 53
>d2cuea1 a.4.1.1 (A:7-74) Paired box protein pax6 {Human (Homo sapiens) [TaxId: 9606]} Length = 68 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
>d1p7ia_ a.4.1.1 (A:) Engrailed Homeodomain {Drosophila melanogaster [TaxId: 7227]} Length = 53 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
>d1bw5a_ a.4.1.1 (A:) Insulin gene enhancer protein isl-1 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 66 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
>d1b72a_ a.4.1.1 (A:) Homeobox protein hox-b1 {Human (Homo sapiens) [TaxId: 9606]} Length = 88 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
>d1au7a1 a.4.1.1 (A:103-160) Pit-1 POU homeodomain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 58 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
>d1zq3p1 a.4.1.1 (P:2-68) Homeotic bicoid protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 67 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
>d1ftta_ a.4.1.1 (A:) Thyroid transcription factor 1 homeodomain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 68 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
>d1ig7a_ a.4.1.1 (A:) Msx-1 homeodomain {Mouse (Mus musculus) [TaxId: 10090]} Length = 58 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
>d1yz8p1 a.4.1.1 (P:1-60) Pituitary homeobox 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 60 Back     information, alignment and structure
>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
>d1e3oc1 a.4.1.1 (C:104-160) Oct-1 POU Homeodomain {Human (Homo sapiens) [TaxId: 9606]} Length = 57 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
>d1k61a_ a.4.1.1 (A:) mat alpha2 Homeodomain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 60 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
>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
>d1uhsa_ a.4.1.1 (A:) Homeodomain-only protein, Hop {Mouse (Mus musculus) [TaxId: 10090]} Length = 72 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
>d1pufb_ a.4.1.1 (B:) pbx1 {Human (Homo sapiens) [TaxId: 9606]} Length = 73 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
>d1lfba_ a.4.1.1 (A:) Hepatocyte nuclear factor 1a (LFB1/HNF1) {Rat (Rattus rattus) [TaxId: 10117]} Length = 78 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
>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

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query155
d2craa158 Homeobox protein hox-b13 {Human (Homo sapiens) [Ta 99.89
d1ig7a_58 Msx-1 homeodomain {Mouse (Mus musculus) [TaxId: 10 99.87
d1vnda_77 VND/NK-2 protein {Fruit fly (Drosophila melanogast 99.87
d1pufa_77 Homeobox protein hox-a9 {Mouse (Mus musculus) [Tax 99.87
d1zq3p167 Homeotic bicoid protein {Fruit fly (Drosophila mel 99.87
d2cuea168 Paired box protein pax6 {Human (Homo sapiens) [Tax 99.87
d1jgga_57 Even-skipped homeodomain {Fruit fly (Drosophila me 99.87
d9anta_56 Antennapedia Homeodomain {Drosophila melanogaster 99.87
d2e1oa157 Homeobox protein prh {Human (Homo sapiens) [TaxId: 99.87
d1fjla_65 Paired protein {Fruit fly (Drosophila melanogaster 99.87
d1p7ia_53 Engrailed Homeodomain {Drosophila melanogaster [Ta 99.86
d1uhsa_72 Homeodomain-only protein, Hop {Mouse (Mus musculus 99.85
d1ftta_68 Thyroid transcription factor 1 homeodomain {Rat (R 99.85
d1yz8p160 Pituitary homeobox 2 {Human (Homo sapiens) [TaxId: 99.84
d1b72a_88 Homeobox protein hox-b1 {Human (Homo sapiens) [Tax 99.84
d1ocpa_67 Oct-3 POU Homeodomain {Mouse (Mus musculus) [TaxId 99.83
d1bw5a_66 Insulin gene enhancer protein isl-1 {Rat (Rattus n 99.83
d1au7a158 Pit-1 POU homeodomain {Rat (Rattus norvegicus) [Ta 99.82
d1le8a_53 Mating type protein A1 Homeodomain {Baker's yeast 99.82
d2cufa182 Homeobox-containing protein 1, HMBOX1 (Flj21616) { 99.81
d1wi3a_71 DNA-binding protein SATB2 {Human (Homo sapiens) [T 99.81
d1e3oc157 Oct-1 POU Homeodomain {Human (Homo sapiens) [TaxId 99.81
d1s7ea150 Hepatocyte nuclear factor 6 {Mouse (Mus musculus) 99.77
d1wh7a_80 ZF-HD homeobox protein At4g24660 {Thale cress (Ara 99.77
d1pufb_73 pbx1 {Human (Homo sapiens) [TaxId: 9606]} 99.76
d2ecba176 Zinc fingers and homeoboxes protein 1, ZHX1 {Human 99.75
d2ecca176 Homeobox-leucine zipper protein Homez {Human (Homo 99.74
d1x2ma152 Lag1 longevity assurance homolog 6, LASS6 {Mouse ( 99.72
d2cqxa159 LAG1 longevity assurance homolog 5, LASS5 {Mouse ( 99.71
d1lfba_78 Hepatocyte nuclear factor 1a (LFB1/HNF1) {Rat (Rat 99.7
d1x2na162 Homeobox protein pknox1 {Human (Homo sapiens) [Tax 99.67
d1k61a_60 mat alpha2 Homeodomain {Baker's yeast (Saccharomyc 99.67
d1hlva166 DNA-binding domain of centromere binding protein B 94.67
d1ijwc_47 HIN recombinase (DNA-binding domain) {Synthetic} 90.65
d1rp3a271 Sigma factor sigma-28 (FliA) {Aquifex aeolicus [Ta 86.53
d1or7a168 SigmaE factor (RpoE) {Escherichia coli [TaxId: 562 85.78
>d2craa1 a.4.1.1 (A:7-64) Homeobox protein hox-b13 {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-b13
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=5.2e-24  Score=129.33  Aligned_cols=58  Identities=36%  Similarity=0.674  Sum_probs=55.6

Q ss_pred             CCCCcccCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCCccchhhhhhhhHHHHhh
Q psy16514         14 GMMRRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRMKWRN   71 (155)
Q Consensus        14 ~~r~R~~~t~~ql~~L~~~F~~~~~p~~~~~~~LA~~l~l~~~~V~~WFqNrR~k~rk   71 (155)
                      |+|+|+.||..|+.+|+.+|..++||+..++..||..|||++.+|++||||||+|+||
T Consensus         1 Grr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~vWFqNrR~k~kk   58 (58)
T d2craa1           1 GRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKEKK   58 (58)
T ss_dssp             CCCSCCCSCHHHHHHHHHHHHHCSSCCHHHHHHHHHHTCCCHHHHHHHHHHHHHTTTS
T ss_pred             CCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHcCCCHHHeeecccchhhhccC
Confidence            4677999999999999999999999999999999999999999999999999999885
>d1ig7a_ a.4.1.1 (A:) Msx-1 homeodomain {Mouse (Mus musculus) [TaxId: 10090]} 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
>d1pufa_ a.4.1.1 (A:) Homeobox protein hox-a9 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1zq3p1 a.4.1.1 (P:2-68) Homeotic bicoid protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} 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
>d1jgga_ a.4.1.1 (A:) Even-skipped homeodomain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d9anta_ a.4.1.1 (A:) Antennapedia Homeodomain {Drosophila melanogaster [TaxId: 7227]} 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
>d1fjla_ a.4.1.1 (A:) Paired protein {Fruit fly (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
>d1uhsa_ a.4.1.1 (A:) Homeodomain-only protein, Hop {Mouse (Mus musculus) [TaxId: 10090]} 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
>d1yz8p1 a.4.1.1 (P:1-60) Pituitary homeobox 2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1b72a_ a.4.1.1 (A:) Homeobox protein hox-b1 {Human (Homo sapiens) [TaxId: 9606]} 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
>d1bw5a_ a.4.1.1 (A:) Insulin gene enhancer protein isl-1 {Rat (Rattus norvegicus) [TaxId: 10116]} 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
>d2cufa1 a.4.1.1 (A:8-89) Homeobox-containing protein 1, HMBOX1 (Flj21616) {Human (Homo sapiens) [TaxId: 9606]} 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
>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
>d1wh7a_ a.4.1.1 (A:) ZF-HD homeobox protein At4g24660 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
>d1pufb_ a.4.1.1 (B:) pbx1 {Human (Homo sapiens) [TaxId: 9606]} 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
>d2ecca1 a.4.1.1 (A:1-76) Homeobox-leucine zipper protein Homez {Human (Homo sapiens) [TaxId: 9606]} 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
>d2cqxa1 a.4.1.1 (A:8-66) LAG1 longevity assurance homolog 5, LASS5 {Mouse (Mus musculus) [TaxId: 10090]} 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
>d1x2na1 a.4.1.1 (A:6-67) Homeobox protein pknox1 {Human (Homo sapiens) [TaxId: 9606]} 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
>d1hlva1 a.4.1.7 (A:1-66) DNA-binding domain of centromere binding protein B (CENP-B) {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
>d1rp3a2 a.4.13.2 (A:164-234) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure
>d1or7a1 a.4.13.2 (A:120-187) SigmaE factor (RpoE) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure