Citrus Sinensis ID: 012818

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450------

MGDTEMVDQDSLHISEANLVEASAQQQQASQQPSENGQSSCRETAEDKPETLPSVDEVFPEKSDAEATAGVNTKSGGGGAGTDELPESTSKTNGDDTHVENEPKTNTSVTPIPHGESSTSKAEDESVRKSKNWLNDIEMGEADEGTPEEQAEFMKEIESFYRENALEFKPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWRQVGESFHPPKTCTTVSWTFRIFYEKALLEYEKHKRLSGELQLPASSFPQPTNAGKEASGYQTPGSSRARRDAAARAMQGWHAQRLLGHGEVAEPIIKDKSLPSPARREKQLKNIGLPKNRTLDSAEKAALTEADKQIITEIVDVGPPADWVKINVREAKDCYEVYALVPGLLREEVRVQSDPAGRLVITGEPEQVDNPWGITPFKKVVILPSRIDPLQTSAVVSLHGRLYGLKLGERQIYEGRDWNYVALLIQ

ccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccHHHHHHHHHHHHHHHHHccccccccEEcccccHHHHHHHHHHHHccHHHHHccccHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHccccHHHHcccccccccccccccccccHHHHHccccccccccccccHHHHHHHHHHcccccccccccccccccccHHHHcccccccEEEccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccEEHHHHHHccccccHHHcccccccEEEEccc

cccccccccccccccccccccccccccccccccccccccHHHHHHcccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHcccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccHHHHHHccccHHHHccccccccccEcccccccccccccccccccccccccccccHHHcccHcccccccEEEEccccccEEEEEEEcccccEEEEEEcccccHcHEEEEcccccEEEEEcccccccccccccccEEEEEccccccccccEEEEEEcccEEccccccEEccccccHHHHHHHcc

mgdtemvdqdslhiSEANLVEASAQQqqasqqpsengqsscretaedkpetlpsvdevfpeksdaeatagvntksggggagtdelpestsktngddthvenepktntsvtpiphgesstskaedesvrKSKNWLndiemgeadegtpEEQAEFMKEIESFYRenalefkppkfygeplnCLKLWRAVVRLGGYEVVTASKLWRqvgesfhppktcttvsWTFRIFYEKALLEYEKHKrlsgelqlpassfpqptnagkeasgyqtpgssrARRDAAARAMQGWHAQRLlghgevaepiikdkslpsparrEKQLkniglpknrtldSAEKAALTEADKQIITEIVdvgppadwvkiNVREAKDCYEVYALVPGLLREEVrvqsdpagrlvitgepeqvdnpwgitpfkkvvilpsridplqtsAVVSLHGRlyglklgerqiyegrdWNYVALLIQ

mgdtemvdqdSLHISEANLVEASAQQQQasqqpsengqsSCRETAEDKPETLPSVDEVFpeksdaeatagvntksggggagtdelpestsktngddthvenepktntsvtpiphgesstskaedesvrkSKNWLNDiemgeadegtpEEQAEFMKEIESFYRENALEFKPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLwrqvgesfhppktcttvswTFRIFYEKALLEYEKHKRLSGELQLPAssfpqptnagkeasgyqtpgSSRARRDAAARAMQGWHAQRllghgevaepiikdkslpsparrekqlkniglpknrtldSAEKAALTEADKQIITeivdvgppadwVKINVREAKDCYEVYALVPGLLREEVRVQSDPagrlvitgepeqvdnpwgiTPFKKVVILPSRIDPLQTSAVVSLHGRLYglklgerqiyegrdWNYVALLIQ

MGDTEMVDQDSLHISEANLVEasaqqqqasqqPSENGQSSCRETAEDKPETLPSVDEVFPEKSDAEATAGVNTKSGGGGAGTDELPESTSKTNGDDTHVENEPKTNTSVTPIPHGESSTSKAEDESVRKSKNWLNDIEMGEADEGTPEEQAEFMKEIESFYRENALEFKPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWRQVGESFHPPKTCTTVSWTFRIFYEKALLEYEKHKRLSGELQLPASSFPQPTNAGKEASGYQTPGSSrarrdaaaraMQGWHAQRLLGHGEVAEPIIKDKSLPSPARREKQLKNIGLPKNRTLDSAEKAALTEADKQIITEIVDVGPPADWVKINVREAKDCYEVYALVPGLLREEVRVQSDPAGRLVITGEPEQVDNPWGITPFKKVVILPSRIDPLQTSAVVSLHGRLYGLKLGERQIYEGRDWNYVALLIQ

************************************************************************************************************************************************************IESFYRENALEFKPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWRQVGESFHPPKTCTTVSWTFRIFYEKALLEYEK***********************************************WHAQRLLG*********************************************ADKQIITEIVDVGPPADWVKINVREAKDCYEVYALVPGLLREEVRVQSDPAGRLVITGEPEQVDNPWGITPFKKVVILPSRIDPLQTSAVVSLHGRLYGLKLGERQIYEGRDWNYVALLI*

********************************************************************************************************************************************************FMKEIESFYRENALEFKPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWRQVGESFHPPKTCTTVSWTFRIFYEKALLEYEKHK**********************************************************************************************************************INVREAKDCYEVYALV********************************ITPFKKVVILPSRIDPLQTSAVVSLHGRLYGLKLGERQIYEGRDWNYVALLIQ

*********DSLHISEANLVE*******************************PSVDEVFPE*******************************************************************KSKNWLNDIEMGEA********AEFMKEIESFYRENALEFKPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWRQVGESFHPPKTCTTVSWTFRIFYEKALLEYEKHKRLSGELQLPASSF********************************WHAQRLLGHGEVAEPIIKDKSLPSPARREKQLKNIGLPKNRTLDSAEKAALTEADKQIITEIVDVGPPADWVKINVREAKDCYEVYALVPGLLREEVRVQSDPAGRLVITGEPEQVDNPWGITPFKKVVILPSRIDPLQTSAVVSLHGRLYGLKLGERQIYEGRDWNYVALLIQ

***************************************************************************************************************************************************EEQAEFMKEIESFYRENALEFKPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWRQVGESFHPPKTCTTVSWTFRIFYEKALLEYEKHKRLSGE**L************************************************VAE****************************************DKQIITEIVDVGPPADWVKINVREAKDCYEVYALVPGLLREEVRVQSDPAGRLVITGEPEQVDNPWGITPFKKVVILPSRIDPLQTSAVVSLHGRLYGLKLGERQIYEGRDWNYVALLIQ

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii

iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx

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
Query		456	2.2.26 [Sep-21-2011]
Q0WNR6		434	AT-rich interactive domai	yes	no	0.697	0.732	0.685	1e-121
C0SUW7		398	AT-rich interactive domai	no	no	0.684	0.783	0.659	1e-114
Q940Y3		786	AT-rich interactive domai	no	no	0.668	0.388	0.621	1e-105
Q9SGS2		338	High mobility group B pro	no	no	0.269	0.363	0.301	5e-06
Q68CP9		1835	AT-rich interactive domai	yes	no	0.182	0.045	0.285	7e-06
O02326		467	AT-rich interactive domai	yes	no	0.164	0.160	0.328	2e-05
A2BEA6		570	AT-rich interactive domai	no	no	0.212	0.170	0.316	3e-05
Q9MAT6		448	High mobility group B pro	no	no	0.223	0.227	0.274	5e-05
Q24573		911	Protein dead ringer OS=Dr	yes	no	0.190	0.095	0.284	0.0001
Q99856		593	AT-rich interactive domai	no	no	0.206	0.158	0.291	0.0001

>sp\|Q0WNR6\|ARID5_ARATH AT-rich interactive domain-containing protein 5 OS=Arabidopsis thaliana GN=ARID5 PE=2 SV=1	Back alignment and function desciption

 Score =  437 bits (1123), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 220/321 (68%), Positives = 258/321 (80%), Gaps = 3/321 (0%)

Query: 115 GESSTSKAEDESVRKSKNWL-NDIEMGEADE-GTPEEQAEFMKEIESFYRENALEFKPPK 172
           G+ S+    +ESV+K K WL +D E  E DE G P++Q  F+KE+E+F +EN LEFK PK
Sbjct: 108 GDPSSPHVPEESVKKWKTWLLSDAEAREVDEAGAPQDQEAFIKEVEAFNKENFLEFKAPK 167

Query: 173 FYGEPLNCLKLWRAVVRLGGYEVVTASKLWRQVGESFHPPKTCTTVSWTFRIFYEKALLE 232
           FYG+PLNCLKLWRAV++LGGY+VVT SKLWRQVGESFHPPKTCTTVSWTFRIFYEKALLE
Sbjct: 168 FYGQPLNCLKLWRAVIKLGGYDVVTTSKLWRQVGESFHPPKTCTTVSWTFRIFYEKALLE 227

Query: 233 YEKHKRLSGELQLPASSFPQPTNAGKEASGYQTPGSSRARRDAAARAMQGWHAQRLLGHG 292
           YEKH R +GEL LP S+    +   KEAS +Q  GS R RRDAAARAMQGWH+QRLLG G
Sbjct: 228 YEKHLRQNGELNLPGSASLPSSGIEKEASSHQASGSGRTRRDAAARAMQGWHSQRLLGSG 287

Query: 293 EVAEPIIKDKSLPSPARREKQLKNIGLPKNRTLDSAEKAALTEADKQIITEIVDVGPPAD 352
           EV EPI+K+K L S   ++K LKNIG+ K +T    +     E++KQ   E++DVGPPAD
Sbjct: 288 EVTEPIVKEKGLNS-TPKQKNLKNIGVQKQKTTTGMDLVFSHESEKQSTAEVIDVGPPAD 346

Query: 353 WVKINVREAKDCYEVYALVPGLLREEVRVQSDPAGRLVITGEPEQVDNPWGITPFKKVVI 412
           WVKINVRE KDC+E++ALVPGLLREEVRVQSDPAGRLVI G+PEQ+DNPWGITPFKKVV 
Sbjct: 347 WVKINVRETKDCFEIFALVPGLLREEVRVQSDPAGRLVIAGQPEQLDNPWGITPFKKVVN 406

Query: 413 LPSRIDPLQTSAVVSLHGRLY 433
            P+RIDPL TSAVVSLHGRL+
Sbjct: 407 FPARIDPLHTSAVVSLHGRLF 427

Arabidopsis thaliana (taxid: 3702)

>sp\|C0SUW7\|ARID6_ARATH AT-rich interactive domain-containing protein 6 OS=Arabidopsis thaliana GN=ARID6 PE=2 SV=1	Back alignment and function description

>sp\|Q940Y3\|ARID3_ARATH AT-rich interactive domain-containing protein 3 OS=Arabidopsis thaliana GN=ARID3 PE=2 SV=1	Back alignment and function description

>sp\|Q9SGS2\|HMGB9_ARATH High mobility group B protein 9 OS=Arabidopsis thaliana GN=HMGB9 PE=2 SV=1	Back alignment and function description

>sp\|Q68CP9\|ARID2_HUMAN AT-rich interactive domain-containing protein 2 OS=Homo sapiens GN=ARID2 PE=1 SV=2	Back alignment and function description

>sp\|O02326\|CFI1_CAEEL AT-rich interactive domain-containing protein cfi-1 OS=Caenorhabditis elegans GN=cfi-1 PE=1 SV=3	Back alignment and function description

>sp\|A2BEA6\|ARI3A_DANRE AT-rich interactive domain-containing protein 3A OS=Danio rerio GN=arid3a PE=1 SV=1	Back alignment and function description

>sp\|Q9MAT6\|HMG15_ARATH High mobility group B protein 15 OS=Arabidopsis thaliana GN=HMGB15 PE=2 SV=1	Back alignment and function description

>sp\|Q24573\|DRI_DROME Protein dead ringer OS=Drosophila melanogaster GN=retn PE=1 SV=2	Back alignment and function description

>sp\|Q99856\|ARI3A_HUMAN AT-rich interactive domain-containing protein 3A OS=Homo sapiens GN=ARID3A PE=1 SV=2	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		456
255539340		449	transcription factor, putative [Ricinus	0.938	0.953	0.646	1e-148
356517143		404	PREDICTED: uncharacterized protein LOC10	0.706	0.797	0.746	1e-134
356508454		414	PREDICTED: uncharacterized protein LOC10	0.763	0.840	0.692	1e-133
346230643		425	ARID and Hsp20 domains containing protei	0.736	0.790	0.716	1e-132
224061827		307	predicted protein [Populus trichocarpa]	0.644	0.957	0.781	1e-127
297745611		449	unnamed protein product [Vitis vinifera]	0.752	0.763	0.677	1e-121
359491923		444	PREDICTED: AT-rich interactive domain-co	0.75	0.770	0.679	1e-121
388502698		372	unknown [Medicago truncatula]	0.730	0.895	0.684	1e-121
42563264		434	ARID/BRIGHT DNA-binding domain-containin	0.697	0.732	0.685	1e-120
297842413		437	ARID/BRIGHT DNA-binding domain-containin	0.697	0.727	0.688	1e-119

>gi\|255539340\|ref\|XP_002510735.1\| transcription factor, putative [Ricinus communis] gi\|223551436\|gb\|EEF52922.1\| transcription factor, putative [Ricinus communis]	Back alignment and taxonomy information

 Score =  530 bits (1364), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 287/444 (64%), Positives = 334/444 (75%), Gaps = 16/444 (3%)

Query: 1   MGDTEMVDQD----SLHISEANLVEASAQQQQASQQPSENGQSSCRETAEDKPETLPS-- 54
           M D EM  QD    +  +S  + V ++ Q ++  + PSENG +    +  DK +TLPS  
Sbjct: 1   MEDAEMPSQDLPAGTTDVSLVDGVVSTEQPKENERNPSENGNTPAASSEGDKTDTLPSDV 60

Query: 55  ---VDEVFPEKSDAEATAGVNTKSGGGGAGTDELPESTSKTNGDDTHVENEPKTNTSVTP 111
               ++V PE             +        E     SK +GD   + ++     +VTP
Sbjct: 61  YMSENQVLPESKTTTTATTGTNVNDANSIKVRE-----SKDDGDGGTIVHDQPEALAVTP 115

Query: 112 IPHGESSTSKAEDESVRKSKNWLNDIEMGEADE-GTPEEQAEFMKEIESFYRENALEFKP 170
           +   + ST +A+ ES  KSK    D+EMGEADE GTPEE+A FM+E+E+F++ENALEFKP
Sbjct: 116 LAPRKYSTPRAKHESGAKSKGVWTDVEMGEADESGTPEERAAFMRELETFHKENALEFKP 175

Query: 171 PKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWRQVGESFHPPKTCTTVSWTFRIFYEKAL 230
           PKFYGEPLNCLKLWR+V+RLGGYEVVTASKLWRQVGESFHPPKTCTTVSWTFRIFYEKAL
Sbjct: 176 PKFYGEPLNCLKLWRSVIRLGGYEVVTASKLWRQVGESFHPPKTCTTVSWTFRIFYEKAL 235

Query: 231 LEYEKHKRLSGELQLPASSFPQPTNAGKEASGYQTPGSSRARRDAAARAMQGWHAQRLLG 290
           LEYEKHKR SGELQLP+S   QP +  KE SGYQ PGS RARRDAAARAMQGWHAQRLLG
Sbjct: 236 LEYEKHKRQSGELQLPSSPPHQPASVEKEVSGYQAPGSGRARRDAAARAMQGWHAQRLLG 295

Query: 291 HGEVAEPIIKDKSLPSPARREKQLKNIGLPKNR-TLDSAEKAALTEADKQIITEIVDVGP 349
           HGEV+EPIIKD+S+ S  RREK LK+IGL K +  L+ AEK A  E DK++  EIVDVGP
Sbjct: 296 HGEVSEPIIKDRSVNSAPRREKPLKSIGLHKQKNNLELAEKHANIETDKELDMEIVDVGP 355

Query: 350 PADWVKINVREAKDCYEVYALVPGLLREEVRVQSDPAGRLVITGEPEQVDNPWGITPFKK 409
           PADWVKINVRE+KDC+EVYALVPGLLREEVRVQSDPAGRLVITG+PEQ+DNPWGITPFKK
Sbjct: 356 PADWVKINVRESKDCFEVYALVPGLLREEVRVQSDPAGRLVITGQPEQLDNPWGITPFKK 415

Query: 410 VVILPSRIDPLQTSAVVSLHGRLY 433
           V+ LPSRIDPLQTSAVVSLHGRLY
Sbjct: 416 VISLPSRIDPLQTSAVVSLHGRLY 439

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|356517143\|ref\|XP_003527249.1\| PREDICTED: uncharacterized protein LOC100797486 [Glycine max]	Back alignment and taxonomy information

>gi\|356508454\|ref\|XP_003522972.1\| PREDICTED: uncharacterized protein LOC100777965 [Glycine max]	Back alignment and taxonomy information

>gi\|346230643\|gb\|AEO22030.1\| ARID and Hsp20 domains containing protein [Lotus japonicus]	Back alignment and taxonomy information

>gi\|224061827\|ref\|XP_002300618.1\| predicted protein [Populus trichocarpa] gi\|222842344\|gb\|EEE79891.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|297745611\|emb\|CBI40776.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|359491923\|ref\|XP_002273480.2\| PREDICTED: AT-rich interactive domain-containing protein 5-like [Vitis vinifera]	Back alignment and taxonomy information

>gi\|388502698\|gb\|AFK39415.1\| unknown [Medicago truncatula]	Back alignment and taxonomy information

>gi|42563264|ref|NP_177777.3| ARID/BRIGHT DNA-binding domain-containing protein [Arabidopsis thaliana] gi|42572131|ref|NP_974156.1| ARID/BRIGHT DNA-binding domain-containing protein [Arabidopsis thaliana] gi|122229971|sp|Q0WNR6.1|ARID5_ARATH RecName: Full=AT-rich interactive domain-containing protein 5; Short=ARID domain-containing protein 5 gi|110738615|dbj|BAF01233.1| putative DNA-binding protein [Arabidopsis thaliana] gi|222424365|dbj|BAH20138.1| AT1G76510 [Arabidopsis thaliana] gi|332197730|gb|AEE35851.1| ARID/BRIGHT DNA-binding domain-containing protein [Arabidopsis thaliana] gi|332197731|gb|AEE35852.1| ARID/BRIGHT DNA-binding domain-containing protein [Arabidopsis thaliana]

Back alignment and taxonomy information

>gi\|297842413\|ref\|XP_002889088.1\| ARID/BRIGHT DNA-binding domain-containing protein [Arabidopsis lyrata subsp. lyrata] gi\|297334929\|gb\|EFH65347.1\| ARID/BRIGHT DNA-binding domain-containing 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
Query		456
TAIR\|locus:2037345		398	AT1G20910 [Arabidopsis thalian	0.684	0.783	0.630	2.8e-105
TAIR\|locus:2827523		786	AT2G17410 [Arabidopsis thalian	0.728	0.422	0.560	3.3e-98
UNIPROTKB\|F1PXY8		602	ARID5A "Uncharacterized protei	0.344	0.260	0.286	1.6e-07
UNIPROTKB\|Q3SWY1		592	ARID5A "AT-rich interactive do	0.337	0.260	0.274	1.9e-06
UNIPROTKB\|G3MY61		637	ARID5A "AT-rich interactive do	0.337	0.241	0.274	2.1e-06
UNIPROTKB\|F1SU48		597	ARID5A "Uncharacterized protei	0.265	0.202	0.292	2.5e-06
MGI\|MGI:2443039		590	Arid5a "AT rich interactive do	0.304	0.235	0.284	3.2e-06
UNIPROTKB\|F1NIM8		1101	F1NIM8 "Uncharacterized protei	0.302	0.125	0.260	3.4e-06
UNIPROTKB\|F1NK39		1184	F1NK39 "Uncharacterized protei	0.302	0.116	0.260	3.7e-06
ASPGD\|ASPL0000041042		980	AN2905 [Emericella nidulans (t	0.260	0.121	0.298	3.8e-06

TAIR\|locus:2037345 AT1G20910 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1042 (371.9 bits), Expect = 2.8e-105, P = 2.8e-105
 Identities = 198/314 (63%), Positives = 241/314 (76%)

Query:   121 KAEDESVRKSKNWLNDIEMGEADE-GTPEEQAEFMKEIESFYRENALEFKPPKFYGEPLN 179
             K E E+ +K K WL D E    DE GTP EQ  F++E+E+FY+E+ LEFKPPKFYG+PLN
Sbjct:    79 KTEGENAKKRKTWLLDSEAQGTDEAGTPVEQVAFLREVEAFYKESFLEFKPPKFYGQPLN 138

Query:   180 CLKLWRAVVRLGGYEVVTASKLWRQVGESFHPPKTCTTVSWTFRIFYEKALLEYEKHKRL 239
              LKLWRAVV LGGYEVVT +KLWRQVGESF+PPKTCTTVS+TFR FYEKALLEYEK  R 
Sbjct:   139 ILKLWRAVVNLGGYEVVTTNKLWRQVGESFNPPKTCTTVSYTFRNFYEKALLEYEKCLRN 198

Query:   240 SGELQLPASSFPQPTNAGKEASGYQTPGSSXXXXXXXXXXMQGWHAQRLLGHGEVAEPII 299
             +GEL LP S+    ++  KE S +Q  GS           MQGWHAQRL+G GEV  P +
Sbjct:   199 NGELNLPGSTLILSSSVEKEPSSHQGSGSGRARRDSAARAMQGWHAQRLVGSGEVTAPAV 258

Query:   300 KDKSLPSPARREKQLKNIGLPKNRTLDSAEKAALTEADKQIITEIVDVGPPADWVKINVR 359
             KDK L S  + +K LK+IGL K++   S +     EADKQ+  E+VDVGP ADWVKINV+
Sbjct:   259 KDKGLISTPKHKK-LKSIGLQKHKQQTSMDHVVTNEADKQLAAEVVDVGPVADWVKINVK 317

Query:   360 EAKDCYEVYALVPGLLREEVRVQSDPAGRLVITGEPEQVDNPWGITPFKKVVILPSRIDP 419
             E+KD +E++ALVPGLLR+EVR+QSDPAG++VITG+PEQ+DNPWGITPFKK+V L +RIDP
Sbjct:   318 ESKDSFEIFALVPGLLRKEVRIQSDPAGKVVITGQPEQLDNPWGITPFKKIVDLSARIDP 377

Query:   420 LQTSAVVSLHGRLY 433
             L TSAV+S+HGRL+
Sbjct:   378 LHTSAVMSMHGRLF 391

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

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

GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA;TAS

GO:0043687 "post-translational protein modification" evidence=RCA

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

TAIR\|locus:2827523 AT2G17410 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

UNIPROTKB\|F1PXY8 ARID5A "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

UNIPROTKB\|Q3SWY1 ARID5A "AT-rich interactive domain-containing protein 5A" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

UNIPROTKB\|G3MY61 ARID5A "AT-rich interactive domain-containing protein 5A" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

UNIPROTKB\|F1SU48 ARID5A "Uncharacterized protein" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

MGI\|MGI:2443039 Arid5a "AT rich interactive domain 5A (MRF1-like)" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

UNIPROTKB\|F1NIM8 F1NIM8 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

UNIPROTKB\|F1NK39 F1NK39 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

ASPGD\|ASPL0000041042 AN2905 [Emericella nidulans (taxid:162425)]	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)
Q0WNR6	ARID5_ARATH	No assigned EC number	0.6853	0.6973	0.7327	yes	no

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

Your Input:
	gw1.II.2124.1	hypothetical protein (301 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
		Sorry, there are no predicted associations at the current settings.

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
Query		456
smart00501		93	smart00501, BRIGHT, BRIGHT, ARID (A/T-rich interac	1e-28
pfam01388		90	pfam01388, ARID, ARID/BRIGHT DNA binding domain	2e-28
smart01014		88	smart01014, ARID, ARID/BRIGHT DNA binding domain	3e-24
cd06464		88	cd06464, ACD_sHsps-like, Alpha-crystallin domain (	3e-05
cd00298		80	cd00298, ACD_sHsps_p23-like, This domain family in	3e-05

>gnl\|CDD\|128777 smart00501, BRIGHT, BRIGHT, ARID (A/T-rich interaction domain) domain	Back alignment and domain information

 Score =  108 bits (271), Expect = 1e-28
 Identities = 30/92 (32%), Positives = 46/92 (50%), Gaps = 1/92 (1%)

Query: 148 EEQAEFMKEIESFYRENALE-FKPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWRQVG 206
            E+  F+  +  F  E      K P   G+PL+  +L+R V   GGY+ VT  K W+++ 
Sbjct: 1   RERVLFLDRLYKFMEERGSPLKKIPVIGGKPLDLYRLYRLVQERGGYDQVTKDKKWKEIA 60

Query: 207 ESFHPPKTCTTVSWTFRIFYEKALLEYEKHKR 238
                P T T+ + + R  YE+ LL YE+  R
Sbjct: 61  RELGIPDTSTSAASSLRKHYERYLLPYERFLR 92

DNA-binding domain containing a helix-turn-helix structure. Length = 93

>gnl\|CDD\|216473 pfam01388, ARID, ARID/BRIGHT DNA binding domain	Back alignment and domain information

>gnl\|CDD\|198082 smart01014, ARID, ARID/BRIGHT DNA binding domain	Back alignment and domain information

>gnl\|CDD\|107221 cd06464, ACD_sHsps-like, Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps)	Back alignment and domain information

>gnl\|CDD\|107219 cd00298, ACD_sHsps_p23-like, This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		456
KOG2744		512	consensus DNA-binding proteins Bright/BRCAA1/RBP1	99.96
smart00501		93	BRIGHT BRIGHT, ARID (A/T-rich interaction domain)	99.93
PF01388		92	ARID: ARID/BRIGHT DNA binding domain; InterPro: IP	99.91
cd06479		81	ACD_HspB7_like Alpha crystallin domain (ACD) found	99.73
cd06472		92	ACD_ScHsp26_like Alpha crystallin domain (ACD) fou	99.73
PRK10743		137	heat shock protein IbpA; Provisional	99.72
PRK11597		142	heat shock chaperone IbpB; Provisional	99.72
COG0071		146	IbpA Molecular chaperone (small heat shock protein	99.7
cd06497		86	ACD_alphaA-crystallin_HspB4 Alpha-crystallin domai	99.69
cd06471		93	ACD_LpsHSP_like Group of bacterial proteins contai	99.68
cd06475		86	ACD_HspB1_like Alpha crystallin domain (ACD) found	99.67
cd06498		84	ACD_alphaB-crystallin_HspB5 Alpha-crystallin domai	99.66
cd06476		83	ACD_HspB2_like Alpha crystallin domain (ACD) found	99.66
cd06478		83	ACD_HspB4-5-6 Alpha-crystallin domain found in alp	99.65
cd06470		90	ACD_IbpA-B_like Alpha-crystallin domain (ACD) foun	99.64
cd06481		87	ACD_HspB9_like Alpha crystallin domain (ACD) found	99.59
cd06526		83	metazoan_ACD Alpha-crystallin domain (ACD) of meta	99.58
cd06477		83	ACD_HspB3_Like Alpha crystallin domain (ACD) found	99.58
PF00011		102	HSP20: Hsp20/alpha crystallin family This prints e	99.58
cd06482		87	ACD_HspB10 Alpha crystallin domain (ACD) found in	99.57
cd06464		88	ACD_sHsps-like Alpha-crystallin domain (ACD) of al	99.51
KOG2510		532	consensus SWI-SNF chromatin-remodeling complex pro	99.48
cd06480		91	ACD_HspB8_like Alpha-crystallin domain (ACD) found	99.22
KOG0710		196	consensus Molecular chaperone (small heat-shock pr	99.11
cd00298		80	ACD_sHsps_p23-like This domain family includes the	99.08
cd06469		78	p23_DYX1C1_like p23_like domain found in proteins	98.88
KOG3591		173	consensus Alpha crystallins [Posttranslational mod	98.69
cd06463		84	p23_like Proteins containing this p23_like domain	98.58
PF05455		177	GvpH: GvpH; InterPro: IPR008633 This family consis	98.09
cd06466		84	p23_CS_SGT1_like p23_like domain similar to the C-	97.74
PF04969		79	CS: CS domain; InterPro: IPR017447 The function of	96.9
cd06465		108	p23_hB-ind1_like p23_like domain found in human (h	96.56
cd06493		85	p23_NUDCD1_like p23_NUDCD1: p23-like NUD (nuclear	95.86
cd06467		85	p23_NUDC_like p23_like domain of NUD (nuclear dist	95.73
cd06489		84	p23_CS_hSgt1_like p23_like domain similar to the C	95.65
cd06494		93	p23_NUDCD2_like p23-like NUD (nuclear distribution	95.53
cd06468		92	p23_CacyBP p23_like domain found in proteins simil	94.98
cd06488		87	p23_melusin_like p23_like domain similar to the C-	93.13
PF08190		328	PIH1: pre-RNA processing PIH1/Nop17	92.8
cd06492		87	p23_mNUDC_like p23-like NUD (nuclear distribution)	87.41
PLN03088		356	SGT1, suppressor of G2 allele of SKP1; Provisional	80.59

>KOG2744 consensus DNA-binding proteins Bright/BRCAA1/RBP1 and related proteins containing BRIGHT domain [Transcription]	Back alignment and domain information

Probab=99.96  E-value=7.4e-29  Score=261.31  Aligned_cols=328  Identities=24%  Similarity=0.232  Sum_probs=246.9

Q ss_pred             CCCCCCCCCcccccccccccccccccCC--CCCCChHHHHHHHHHHHHHHHhcCCCC-CCCeeCCeeechhhHHHHHHhc
Q 012818          114 HGESSTSKAEDESVRKSKNWLNDIEMGE--ADEGTPEEQAEFMKEIESFYRENALEF-KPPKFYGEPLNCLKLWRAVVRL  190 (456)
Q Consensus       114 ~~~~~tpk~~~~~~~~~~~~~~d~~~~~--~e~g~~eEre~Fl~~L~~FmeeRGtp~-k~P~IgGK~LDLykLYk~V~~r  190 (456)
                      +..++.++....+....+++........  ++++....++.||+.|+.||+++|++| ++|+|+|++||||.||.+|+++
T Consensus       126 q~~~sq~~~~~~~~~~~~~~~~~~s~~~~~~~e~~~~~~eeF~~dl~~f~~~~~~~~~~iPii~~~~ldL~~Ly~lV~s~  205 (512)
T KOG2744|consen  126 QLPPSQPEVFPTPVIQKKTKRARRSNLPLYETEGVPKSSEEFMEDLRRFMKKRGTKVKSIPIIGGQPLDLHWLYALVTSR  205 (512)
T ss_pred             cCCccCCccCCCccccccccccccccccccccccccccHHHHHHHHHHHHHHhCCcceeccccCCCcchHHHHHHHHhcC
Confidence            4445666666666666667766544333  446777899999999999999999999 6999999999999999999999


Q ss_pred             CccchhccCcchhHhhhhcCCCC-CCCcHHHHHHHHHHHhHHHHHHhHhhc--CCCCCCCCCCC-CCCCCCCCCCCCCCC
Q 012818          191 GGYEVVTASKLWRQVGESFHPPK-TCTTVSWTFRIFYEKALLEYEKHKRLS--GELQLPASSFP-QPTNAGKEASGYQTP  266 (456)
Q Consensus       191 GGydkVt~~KkWreVa~eLglP~-t~TSas~~LK~~YeKyLlpYE~~~~~~--G~~~~P~~~~~-~~~~~eke~~g~q~~  266 (456)
                      ||+++|+..|+|++|...|.+|. ++|++++.||++|+|+|++|||.+...  +.+..|..... ......+|..-+..+
T Consensus       206 GG~~~V~~~k~Wrev~~~l~~pt~tiTsaaf~lr~~y~K~L~~ye~~~~~~~~~pln~p~~~~~~a~~~~~rE~~~~~~~  285 (512)
T KOG2744|consen  206 GGLDEVTNKKLWREVIDGLNFPTPTITSAAFTLRKQYLKLLFEYECEFEKNRHVPLNSPAELSEEASSSNRREGRRHELS  285 (512)
T ss_pred             CchhHhhhhhhHHHHhccccCCCcccchHHHHHHHHHHHHHHHHHHHHHHhccCCCCCcccccccccccccccccccccC
Confidence            99999999999999999999999 999999999999999999999997754  66666653332 222223332222222


Q ss_pred             CC-chhhh---------HHHHHhccccccccccCCCccCCccccCCC-CCCcHH---------------------Hhhc-
Q 012818          267 GS-SRARR---------DAAARAMQGWHAQRLLGHGEVAEPIIKDKS-LPSPAR---------------------REKQ-  313 (456)
Q Consensus       267 gs-GR~Rr---------~aaaramqGwhs~r~~g~g~v~~p~ikdk~-~~~~~k---------------------r~k~-  313 (456)
                      ++ ++-..         .+||.+|.||+.++++..+.+..+.|++.. ++....                     ..++ 
T Consensus       286 ~~~~~~~~~~~~~~~~~~~aa~~~~g~f~~~~~~~~~~~s~~ln~~~~~~~~~~~~~k~~~~~~~~~~~~~~p~~~~~~~  365 (512)
T KOG2744|consen  286 PSKEFQANGPSEEEPAEAEAAPEILGNFLQGLLVFMKDGSEPLNGVLYLGPPDLNLFKVFRLECHQGGDSNIPSALQWKQ  365 (512)
T ss_pred             cchhhccCCcccccccccccchhhhccccccCceeccCcchhccCccccccCcccccccccceeeccCcCcCCchhheec
Confidence            33 33333         789999999999999999999999998654 211110                     0111 


Q ss_pred             -cc-ccCCCCCC-----ChhHHHHHhhhhccc-----ccceeeeeccCCCCcceeeeeccCCeEEEEEEcCCCCccceEE
Q 012818          314 -LK-NIGLPKNR-----TLDSAEKAALTEADK-----QIITEIVDVGPPADWVKINVREAKDCYEVYALVPGLLREEVRV  381 (456)
Q Consensus       314 -lk-~~~l~k~~-----~~~~~~~~~~~~~~~-----~~~~~v~d~g~~ad~p~iNV~~T~d~~EVyA~vPGl~p~el~V  381 (456)
                       .+ ...|..-+     .+-.+.|....+-.+     ..-....+..|...|+..+..+..++++..+++|+..+.+|.|
T Consensus       366 ~~~~~~~l~~~~~~~~~~~~~~~k~~l~~~~~~~~~~~~~~~~~~~~p~~~~v~~~~~e~~~~~~al~lt~~~~~~~~~~  445 (512)
T KOG2744|consen  366 VAKDLGLLPNLNSAASSNTKLAYKKSLSENEEYCSINSVNIEFPEALPKEIKVNKQLRELENLLEALALTPSNAKTEIKV  445 (512)
T ss_pred             cccccccccccccccccccccccchhhccccccchhhhccccccccccchhhhccchHHHHHhHHHhccCccccccceee
Confidence             11 00000000     000011111111111     1245667888999999888999999999999999999999999


Q ss_pred             EecCCceEEEecccCCCCCC---CCCCcceEEeeCCCCCCCCCceeEEeeCcEEEEEecceee
Q 012818          382 QSDPAGRLVITGEPEQVDNP---WGITPFKKVVILPSRIDPLQTSAVVSLHGRLYGLKLGERQ  441 (456)
Q Consensus       382 ~~d~~g~L~IsGer~~~~~~---~~~~~FrRvv~LP~~vDp~~v~A~~~~~G~L~I~i~k~~~  441 (456)
                      ++++.|...+.......+.+   |.+.+++++.+-+...+++.++|.....|-.++.+++...
T Consensus       446 ~~e~ng~~~~gvl~~q~~~~~~~~~~~p~~~~~s~~~~~~~~n~~~~~~~~~~~~~~~~~~~~  508 (512)
T KOG2744|consen  446 QCEENGTGYSGVLFAQIELPLPSPISAPPSHVNSTSGSSNPENISASHSPLSETYLATPFAHT  508 (512)
T ss_pred             ecccccccccceeeecccccccCCCcCccccccCCCCCCCccccccccCCCccccccCCCccc
Confidence            99999999988888888776   8888999999999999999999999999999999988764

>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain	Back alignment and domain information

>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans	Back alignment and domain information

>cd06479 ACD_HspB7_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB7, also known as cardiovascular small heat shock protein (cvHsp), and similar proteins	Back alignment and domain information

>cd06472 ACD_ScHsp26_like Alpha crystallin domain (ACD) found in Saccharomyces cerevisiae (Sc) small heat shock protein (Hsp)26 and similar proteins	Back alignment and domain information

>PRK10743 heat shock protein IbpA; Provisional	Back alignment and domain information

>PRK11597 heat shock chaperone IbpB; Provisional	Back alignment and domain information

>COG0071 IbpA Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>cd06497 ACD_alphaA-crystallin_HspB4 Alpha-crystallin domain found in the small heat shock protein (sHsp) alphaA-crystallin (HspB4, 20kDa)	Back alignment and domain information

>cd06471 ACD_LpsHSP_like Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18	Back alignment and domain information

>cd06475 ACD_HspB1_like Alpha crystallin domain (ACD) found in mammalian small (s)heat shock protein (Hsp)-27 (also denoted HspB1 in human) and similar proteins	Back alignment and domain information

>cd06498 ACD_alphaB-crystallin_HspB5 Alpha-crystallin domain found in the small heat shock protein (sHsp) alphaB-crystallin (HspB5, 20kDa)	Back alignment and domain information

>cd06476 ACD_HspB2_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB2/heat shock 27kDa protein 2 and similar proteins	Back alignment and domain information

>cd06478 ACD_HspB4-5-6 Alpha-crystallin domain found in alphaA-crystallin (HspB4), alphaB-crystallin (HspB5), and the small heat shock protein (sHsp) HspB6, also known as Hsp20	Back alignment and domain information

>cd06470 ACD_IbpA-B_like Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins	Back alignment and domain information

>cd06481 ACD_HspB9_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB9 and similar proteins	Back alignment and domain information

>cd06526 metazoan_ACD Alpha-crystallin domain (ACD) of metazoan alpha-crystallin-type small(s) heat shock proteins (Hsps)	Back alignment and domain information

>cd06477 ACD_HspB3_Like Alpha crystallin domain (ACD) found in mammalian HspB3, also known as heat-shock protein 27-like protein (HSPL27, 17-kDa) and similar proteins	Back alignment and domain information

>PF00011 HSP20: Hsp20/alpha crystallin family This prints entry is a subset of the Pfam entry	Back alignment and domain information

>cd06482 ACD_HspB10 Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB10, also known as sperm outer dense fiber protein (ODFP), and similar proteins	Back alignment and domain information

>cd06464 ACD_sHsps-like Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps)	Back alignment and domain information

>KOG2510 consensus SWI-SNF chromatin-remodeling complex protein [Chromatin structure and dynamics]	Back alignment and domain information

>cd06480 ACD_HspB8_like Alpha-crystallin domain (ACD) found in mammalian 21	Back alignment and domain information

>KOG0710 consensus Molecular chaperone (small heat-shock protein Hsp26/Hsp42) [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>cd00298 ACD_sHsps_p23-like This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins	Back alignment and domain information

>cd06469 p23_DYX1C1_like p23_like domain found in proteins similar to dyslexia susceptibility 1 (DYX1) candidate 1 (C1) protein, DYX1C1	Back alignment and domain information

>KOG3591 consensus Alpha crystallins [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>cd06463 p23_like Proteins containing this p23_like domain include p23 and its Saccharomyces cerevisiae (Sc) homolog Sba1	Back alignment and domain information

>PF05455 GvpH: GvpH; InterPro: IPR008633 This family consists of archaeal GvpH proteins which are thought to be involved in gas vesicle synthesis []	Back alignment and domain information

>cd06466 p23_CS_SGT1_like p23_like domain similar to the C-terminal CHORD-SGT1 (CS) domain of Sgt1 (suppressor of G2 allele of Skp1)	Back alignment and domain information

>PF04969 CS: CS domain; InterPro: IPR017447 The function of the CS domain is unknown	Back alignment and domain information

>cd06465 p23_hB-ind1_like p23_like domain found in human (h) butyrate-induced transcript 1 (B-ind1) and similar proteins	Back alignment and domain information

>cd06493 p23_NUDCD1_like p23_NUDCD1: p23-like NUD (nuclear distribution) C-like domain found in human NUD (nuclear distribution) C domain-containing protein 1, NUDCD1 (also known as CML66), and similar proteins	Back alignment and domain information

>cd06467 p23_NUDC_like p23_like domain of NUD (nuclear distribution) C and similar proteins	Back alignment and domain information

>cd06489 p23_CS_hSgt1_like p23_like domain similar to the C-terminal CS (CHORD-SGT1) domain of human (h) Sgt1 and related proteins	Back alignment and domain information

>cd06494 p23_NUDCD2_like p23-like NUD (nuclear distribution) C-like found in human NUDC domain-containing protein 2 (NUDCD2) and similar proteins	Back alignment and domain information

>cd06468 p23_CacyBP p23_like domain found in proteins similar to Calcyclin-Binding Protein(CacyBP)/Siah-1-interacting protein (SIP)	Back alignment and domain information

>cd06488 p23_melusin_like p23_like domain similar to the C-terminal (tail) domain of vertebrate Melusin and related proteins	Back alignment and domain information

>PF08190 PIH1: pre-RNA processing PIH1/Nop17	Back alignment and domain information

>cd06492 p23_mNUDC_like p23-like NUD (nuclear distribution) C-like domain of mammalian(m) NUDC and similar proteins	Back alignment and domain information

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional	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
Query		456
2kk0_A		145	Solution Structure Of Dead Ringer-Like Protein 1 (A		1e-04
1c20_A		128	Solution Structure Of The Dna-Binding Domain From T		3e-04
1kqq_A		139	Solution Structure Of The Dead Ringer Arid-Dna Comp		4e-04

>pdb|2KK0|A Chain A, Solution Structure Of Dead Ringer-Like Protein 1 (At-Rich Interactive Domain-Containing Protein 3a) From Homo Sapiens, Northeast Structural Genomics Consortium (Nesg) Target Hr4394c Length = 145

Back alignment and structure

Iteration: 1

Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 28/96 (29%), Positives = 48/96 (50%), Gaps = 2/96 (2%) Query: 144 EGTPEEQAEFMKEIESFYRENALEF-KPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLW 202 +G P+ + EF+ ++ SF ++ + P + L+ L+ V GG V KLW Sbjct: 30 DGDPKRK-EFLDDLFSFMQKRGTPVNRIPIMAKQVLDLFMLYVLVTEKGGLVEVINKKLW 88 Query: 203 RQVGESFHPPKTCTTVSWTFRIFYEKALLEYEKHKR 238 R++ + + P + T+ ++T R Y K L YE KR Sbjct: 89 REITKGLNLPTSITSAAFTLRTQYMKYLYPYECEKR 124

PyMOL of 2kk0

>pdb|1C20|A Chain A, Solution Structure Of The Dna-Binding Domain From The Dead Ringer Protein Length = 128

Back alignment and structure

>pdb|1KQQ|A Chain A, Solution Structure Of The Dead Ringer Arid-Dna Complex Length = 139

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
Query		456
2lm1_A		107	Lysine-specific demethylase LID; structural genomi	3e-25
2jrz_A		117	Histone demethylase jarid1C; bright/ARID domain, h	4e-25
2jxj_A		96	Histone demethylase jarid1A; ARID domain, chromati	4e-25
1ig6_A		107	MRF-2, modulator recognition factor 2; DNA binding	6e-25
2eqy_A		122	RBP2 like, jumonji, at rich interactive domain 1B;	8e-25
2rq5_A		121	Protein jumonji; developmental protein, nucleus, r	1e-24
1c20_A		128	DEAD ringer protein; DNA-binding domain, ARID, AT-	4e-22
2cxy_A		125	BAF250B subunit, HBAF250B; DNA-binding domain, str	8e-22
1kkx_A		123	Transcription regulatory protein ADR6; ARID, DNA-b	1e-20
2kk0_A		145	AT-rich interactive domain-containing protein 3A;	5e-20
2li6_A		116	SWI/SNF chromatin-remodeling complex subunit SWI1;	3e-18
2wj5_A		101	Heat shock protein beta-6; chaperone, disulfide bo	5e-05
2klr_A		175	Alpha-crystallin B chain; protein, dimer, oligomer	5e-05
3l1e_A		106	Alpha-crystallin A chain; lens transparency, polyd	7e-05
2y1y_A		90	Alpha-crystallin B chain,; small heat shock protei	1e-04
3q9p_A		85	Heat shock protein beta-1; alpha-crystallin domain	1e-04
3gla_A		100	Low molecular weight heat shock protein; HSPA, SHP	4e-04

>2lm1_A Lysine-specific demethylase LID; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Drosophila melanogaster} Length = 107	Back alignment and structure

 Score = 98.8 bits (246), Expect = 3e-25
 Identities = 23/95 (24%), Positives = 37/95 (38%), Gaps = 1/95 (1%)

Query: 144 EGTPEEQAEFMKEIESFYRENALEFKPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWR 203
           E     +  F+ +I  F+       K P    + L+   L R V   GG E  T  + W 
Sbjct: 10  EAKTRVKLNFLDQIAKFWELQGSSLKIPMVERKALDLYTLHRIVQEEGGMEQTTKDRKWA 69

Query: 204 QVGESFHPPKTCTTVSWTFRIFYEKALLEYEKHKR 238
           +V      P +  +V  T +  YE+ L  +E +  
Sbjct: 70  KVANRMQYP-SSKSVGATLKAHYERILHPFEVYTS 103

PyMOL of 2lm1

>2jrz_A Histone demethylase jarid1C; bright/ARID domain, helical, structural genomics, structural genomics consortium, SGC, oxidoreductase; NMR {Homo sapiens} PDB: 2yqe_A Length = 117	Back alignment and structure

>2jxj_A Histone demethylase jarid1A; ARID domain, chromatin regulator, developmental protein, dioxygenase, iron, metal-binding, nucleus, oxidoreductase; NMR {Homo sapiens} Length = 96	Back alignment and structure

>1ig6_A MRF-2, modulator recognition factor 2; DNA binding protein, DNA-binding motif, protein-DNA interaction; NMR {Homo sapiens} SCOP: a.4.3.1 PDB: 2oeh_A Length = 107	Back alignment and structure

>2eqy_A RBP2 like, jumonji, at rich interactive domain 1B; ARID domain, structural genomics, NPPSFA; NMR {Mus musculus} Length = 122	Back alignment and structure

>2rq5_A Protein jumonji; developmental protein, nucleus, repressor, transcription, transcription regulation; NMR {Mus musculus} Length = 121	Back alignment and structure

>1c20_A DEAD ringer protein; DNA-binding domain, ARID, AT-rich interaction domain, DNA- binding protein; NMR {Drosophila melanogaster} SCOP: a.4.3.1 PDB: 1kqq_A Length = 128	Back alignment and structure

>2cxy_A BAF250B subunit, HBAF250B; DNA-binding domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.60A {Homo sapiens} PDB: 2eh9_A 1ryu_A Length = 125	Back alignment and structure

>1kkx_A Transcription regulatory protein ADR6; ARID, DNA-binding domain, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.4.3.1 PDB: 1kn5_A Length = 123	Back alignment and structure

>2kk0_A AT-rich interactive domain-containing protein 3A; DEAD ringer, AT-rich interaction domain, NESG, ARID, cytopla binding, nucleus, phosphoprotein; NMR {Homo sapiens} Length = 145	Back alignment and structure

>2li6_A SWI/SNF chromatin-remodeling complex subunit SWI1; ligand binding, DNA binding protein; NMR {Saccharomyces cerevisiae} Length = 116	Back alignment and structure

>2wj5_A Heat shock protein beta-6; chaperone, disulfide bond, stress response; 1.12A {Rattus norvegicus} Length = 101	Back alignment and structure

>2klr_A Alpha-crystallin B chain; protein, dimer, oligomer, heterogeneity, intermolecular INTE chaperone, SHSP, human, small heat-shock protein, cataract; NMR {Homo sapiens} PDB: 2ygd_A Length = 175	Back alignment and structure

>3l1e_A Alpha-crystallin A chain; lens transparency, polydispersity, protein aggregation, CRYS eye lens protein, chaperone; 1.15A {Bos taurus} PDB: 3l1f_A 3n3e_A Length = 106	Back alignment and structure

>2y1y_A Alpha-crystallin B chain,; small heat shock protein, chaperone, stress protein, eye LEN protein, cataract; HET: MSE; 2.00A {Homo sapiens} PDB: 2y22_A 2wj7_A 3l1g_A 2y1z_A Length = 90	Back alignment and structure

>3q9p_A Heat shock protein beta-1; alpha-crystallin domain, chaperone, charcot-marie-tooth DISE neuronopathy, IG-like fold, stress response; 2.00A {Homo sapiens} PDB: 3q9q_A Length = 85	Back alignment and structure

>3gla_A Low molecular weight heat shock protein; HSPA, SHP, SHSP, high resolution, stress response, chaperone; 1.64A {Xanthomonas axonopodis PV} PDB: 3gt6_A 3guf_A Length = 100	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		456
1ig6_A		107	MRF-2, modulator recognition factor 2; DNA binding	99.95
2eqy_A		122	RBP2 like, jumonji, at rich interactive domain 1B;	99.94
2lm1_A		107	Lysine-specific demethylase LID; structural genomi	99.94
2cxy_A		125	BAF250B subunit, HBAF250B; DNA-binding domain, str	99.94
2kk0_A		145	AT-rich interactive domain-containing protein 3A;	99.94
2jxj_A		96	Histone demethylase jarid1A; ARID domain, chromati	99.94
2jrz_A		117	Histone demethylase jarid1C; bright/ARID domain, h	99.93
2rq5_A		121	Protein jumonji; developmental protein, nucleus, r	99.93
1c20_A		128	DEAD ringer protein; DNA-binding domain, ARID, AT-	99.93
2li6_A		116	SWI/SNF chromatin-remodeling complex subunit SWI1;	99.93
1kkx_A		123	Transcription regulatory protein ADR6; ARID, DNA-b	99.91
3gla_A		100	Low molecular weight heat shock protein; HSPA, SHP	99.81
4fei_A		102	Heat shock protein-related protein; stress respons	99.77
4eld_A		161	MJ16.5-P1, small heat shock protein HSP16.5; chape	99.71
3aab_A		123	Putative uncharacterized protein ST1653; alpha-cry	99.71
3q9p_A		85	Heat shock protein beta-1; alpha-crystallin domain	99.69
1gme_A		151	Heat shock protein 16.9B; small heat shock protein	99.68
2wj5_A		101	Heat shock protein beta-6; chaperone, disulfide bo	99.67
3l1e_A		106	Alpha-crystallin A chain; lens transparency, polyd	99.67
2y1y_A		90	Alpha-crystallin B chain,; small heat shock protei	99.61
2bol_A		314	TSP36, small heat shock protein; A-crystallin, mol	99.55
2klr_A		175	Alpha-crystallin B chain; protein, dimer, oligomer	99.54
2bol_A		314	TSP36, small heat shock protein; A-crystallin, mol	99.53
2xcm_C		92	SGT1-like protein, cytosolic heat shock protein 90	98.4
1rl1_A		114	Suppressor of G2 allele of SKP1 homolog; beta sand	98.36
1x5m_A		127	Calcyclin-binding protein; CS domain, structural g	96.29
1wfi_A		131	Nuclear distribution gene C homolog; NUDC, riken s	96.27
3qor_A		121	Nuclear migration protein NUDC; beta-sandwich, cha	95.89
1wh0_A		134	Ubiquitin carboxyl-terminal hydrolase 19; USP, CS	95.85
1wgv_A		124	KIAA1068 protein; CS domain, HSP20-like fold, stru	95.61
2o30_A		131	Nuclear movement protein; MCSG, structural genomic	95.5
2rh0_A		157	NUDC domain-containing protein 2; 13542905, nuclea	95.45
3igf_A		374	ALL4481 protein; two-domained protein consisting o	95.16
2k8q_A		134	Protein SHQ1; beta-sandwich, CS domain, nucleus, s	95.01
3eud_A		115	Protein SHQ1; CS domain HSP20-like domain SHQ1 H/A	92.48
1ejf_A		125	Progesterone receptor P23; chaperone, CO-chaperone	91.98
2cg9_X		134	CO-chaperone protein SBA1; chaperone complex, HSP9	91.57
2kmw_A		150	Uncharacterized protein AT3G03773; protein structu	91.37

>1ig6_A MRF-2, modulator recognition factor 2; DNA binding protein, DNA-binding motif, protein-DNA interaction; NMR {Homo sapiens} SCOP: a.4.3.1 PDB: 2oeh_A	Back alignment and structure

Probab=99.95  E-value=2.1e-29  Score=214.13  Aligned_cols=104  Identities=21%  Similarity=0.412  Sum_probs=99.7

Q ss_pred             HHHHHHHHHHHHHHHhcCCCC-CCCeeCCeeechhhHHHHHHhcCccchhccCcchhHhhhhcCCCCCCCcHHHHHHHHH
Q 012818          148 EEQAEFMKEIESFYRENALEF-KPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWRQVGESFHPPKTCTTVSWTFRIFY  226 (456)
Q Consensus       148 eEre~Fl~~L~~FmeeRGtp~-k~P~IgGK~LDLykLYk~V~~rGGydkVt~~KkWreVa~eLglP~t~TSas~~LK~~Y  226 (456)
                      ++++.|+++|.+||+++|+++ ++|.|+|++||||+||++|+++|||++||.+++|.+||+.||++.+++++++.||++|
T Consensus         2 ~e~~~Fl~~L~~F~~~rg~~~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~V~~~~~W~~Va~~lg~~~~~~s~~~~Lk~~Y   81 (107)
T 1ig6_A            2 ADEQAFLVALYKYMKERKTPIERIPYLGFKQINLWTMFQAAQKLGGYETITARRQWKHIYDELGGNPGSTSAATCTRRHY   81 (107)
T ss_dssp             HHHHHHHHHHHHHHHTTTCCGGGCCCSSSSSCCHHHHHHHHHHTTHHHHHHHHTTHHHHHHHHTCCTTCTTTTTTHHHHH
T ss_pred             chHHHHHHHHHHHHHHcCCCCCcCceECCEeecHHHHHHHHHHhcCHHHhcccCcHHHHHHHhCCCCCCCcHHHHHHHHH
Confidence            588999999999999999999 9999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhHHHHHHhHhhcCCCCCCCCCCC
Q 012818          227 EKALLEYEKHKRLSGELQLPASSFP  251 (456)
Q Consensus       227 eKyLlpYE~~~~~~G~~~~P~~~~~  251 (456)
                      ++||++||+++++....+.|+++|+
T Consensus        82 ~k~L~~yE~~~~~~~~~~~p~~~~~  106 (107)
T 1ig6_A           82 ERLILPYERFIKGEEDKPLPPIKPR  106 (107)
T ss_dssp             HHHTTTTHHHHHHHTSSSSCTTCSC
T ss_pred             HHHHHHHHHHHcCCCCCCCCCCCCC
Confidence            9999999999998888888887764

PyMOL of 1ig6

>2eqy_A RBP2 like, jumonji, at rich interactive domain 1B; ARID domain, structural genomics, NPPSFA; NMR {Mus musculus}	Back alignment and structure

>2lm1_A Lysine-specific demethylase LID; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Drosophila melanogaster}	Back alignment and structure

>2cxy_A BAF250B subunit, HBAF250B; DNA-binding domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.60A {Homo sapiens} PDB: 2eh9_A 1ryu_A	Back alignment and structure

>2kk0_A AT-rich interactive domain-containing protein 3A; DEAD ringer, AT-rich interaction domain, NESG, ARID, cytopla binding, nucleus, phosphoprotein; NMR {Homo sapiens}	Back alignment and structure

>2jxj_A Histone demethylase jarid1A; ARID domain, chromatin regulator, developmental protein, dioxygenase, iron, metal-binding, nucleus, oxidoreductase; NMR {Homo sapiens}	Back alignment and structure

>2jrz_A Histone demethylase jarid1C; bright/ARID domain, helical, structural genomics, structural genomics consortium, SGC, oxidoreductase; NMR {Homo sapiens} PDB: 2yqe_A	Back alignment and structure

>2rq5_A Protein jumonji; developmental protein, nucleus, repressor, transcription, transcription regulation; NMR {Mus musculus}	Back alignment and structure

>1c20_A DEAD ringer protein; DNA-binding domain, ARID, AT-rich interaction domain, DNA- binding protein; NMR {Drosophila melanogaster} SCOP: a.4.3.1 PDB: 1kqq_A	Back alignment and structure

>2li6_A SWI/SNF chromatin-remodeling complex subunit SWI1; ligand binding, DNA binding protein; NMR {Saccharomyces cerevisiae}	Back alignment and structure

>1kkx_A Transcription regulatory protein ADR6; ARID, DNA-binding domain, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.4.3.1 PDB: 1kn5_A	Back alignment and structure

>3gla_A Low molecular weight heat shock protein; HSPA, SHP, SHSP, high resolution, stress response, chaperone; 1.64A {Xanthomonas axonopodis PV} PDB: 3gt6_A 3guf_A	Back alignment and structure

>4fei_A Heat shock protein-related protein; stress response, alpha-crystallin domain fold, aggregates, C chaperone; 2.40A {Deinococcus radiodurans}	Back alignment and structure

>4eld_A MJ16.5-P1, small heat shock protein HSP16.5; chaperone; 2.70A {Methanocaldococcus jannaschii} PDB: 1shs_A	Back alignment and structure

>3aab_A Putative uncharacterized protein ST1653; alpha-crystallin domain, chaperone; 1.85A {Sulfolobus tokodaii} PDB: 3aac_A	Back alignment and structure

>3q9p_A Heat shock protein beta-1; alpha-crystallin domain, chaperone, charcot-marie-tooth DISE neuronopathy, IG-like fold, stress response; 2.00A {Homo sapiens} PDB: 3q9q_A	Back alignment and structure

>1gme_A Heat shock protein 16.9B; small heat shock protein, chaperone, alpha-crystallin; 2.70A {Triticum aestivum} SCOP: b.15.1.1 PDB: 2h50_A 2h53_A 2byu_A	Back alignment and structure

>2wj5_A Heat shock protein beta-6; chaperone, disulfide bond, stress response; 1.12A {Rattus norvegicus}	Back alignment and structure

>3l1e_A Alpha-crystallin A chain; lens transparency, polydispersity, protein aggregation, CRYS eye lens protein, chaperone; 1.15A {Bos taurus} PDB: 3l1f_A 3n3e_A	Back alignment and structure

>2y1y_A Alpha-crystallin B chain,; small heat shock protein, chaperone, stress protein, eye LEN protein, cataract; HET: MSE; 2.00A {Homo sapiens} PDB: 2y22_A 2wj7_A 3l1g_A 2y1z_A	Back alignment and structure

>2bol_A TSP36, small heat shock protein; A-crystallin, molecular chaperone; 2.5A {Taenia saginata}	Back alignment and structure

>2klr_A Alpha-crystallin B chain; protein, dimer, oligomer, heterogeneity, intermolecular INTE chaperone, SHSP, human, small heat-shock protein, cataract; NMR {Homo sapiens} PDB: 2ygd_A	Back alignment and structure

>2bol_A TSP36, small heat shock protein; A-crystallin, molecular chaperone; 2.5A {Taenia saginata}	Back alignment and structure

>2xcm_C SGT1-like protein, cytosolic heat shock protein 90; chaperone-protein binding complex, stress response; HET: ADP; 2.20A {Arabidopsis thaliana} PDB: 2jki_S*	Back alignment and structure

>1rl1_A Suppressor of G2 allele of SKP1 homolog; beta sandwich, 7 beta strands, similar to P23, lacking LAST beta strand SEEN in P23, protein degradation; NMR {Homo sapiens} SCOP: b.15.1.3	Back alignment and structure

>1x5m_A Calcyclin-binding protein; CS domain, structural genomics, NPPSFA national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>1wfi_A Nuclear distribution gene C homolog; NUDC, riken structural genomics/proteomics initiative, RSGI, structural genomics, transport protein; NMR {Mus musculus} SCOP: b.15.1.4	Back alignment and structure

>3qor_A Nuclear migration protein NUDC; beta-sandwich, chaperone, protein cell cycle; HET: OCS; 1.75A {Homo sapiens} PDB: 3qor_B* 2cr0_A	Back alignment and structure

>1wh0_A Ubiquitin carboxyl-terminal hydrolase 19; USP, CS domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: b.15.1.3	Back alignment and structure

>1wgv_A KIAA1068 protein; CS domain, HSP20-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: b.15.1.4	Back alignment and structure

>2o30_A Nuclear movement protein; MCSG, structural genomics, PSI-2, structure initiative; 1.66A {Encephalitozoon cuniculi}	Back alignment and structure

>2rh0_A NUDC domain-containing protein 2; 13542905, nuclear movement protein, structural genomics, joint center for structural genomics, JCSG; 1.95A {Mus musculus}	Back alignment and structure

>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta the C-terminal all beta domain., structural genomics; 2.00A {Nostoc SP}	Back alignment and structure

>2k8q_A Protein SHQ1; beta-sandwich, CS domain, nucleus, structural protein; NMR {Saccharomyces cerevisiae}	Back alignment and structure

>3eud_A Protein SHQ1; CS domain HSP20-like domain SHQ1 H/ACA snoRNP ribosome biogenesis, nucleus, nuclear protein; HET: MSE; 2.40A {Saccharomyces cerevisiae}	Back alignment and structure

>1ejf_A Progesterone receptor P23; chaperone, CO-chaperone, beta-sandwich; 2.49A {Homo sapiens} SCOP: b.15.1.2	Back alignment and structure

>2cg9_X CO-chaperone protein SBA1; chaperone complex, HSP90, heat shock protein, ATP-binding, heat shock, nucleotide-binding, acetylation; HET: ATP; 3.1A {Saccharomyces cerevisiae}	Back alignment and structure

>2kmw_A Uncharacterized protein AT3G03773; protein structure initiative, center for eukaryotic structural genomics, CESG, structural genomics; NMR {Arabidopsis thaliana}	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		456
d1c20a_		128	a.4.3.1 (A:) DNA-binding domain from the dead ring	9e-28
d1ig6a_		107	a.4.3.1 (A:) MRF-2 DNA-binding domain {Human (Homo	6e-27
d1ryua_		120	a.4.3.1 (A:) SWI-SNF complex protein p270, SMARCF1	3e-23
d1kkxa_		102	a.4.3.1 (A:) Transcription regulator Adr6 (Swi1) {	2e-20

>d1c20a_ a.4.3.1 (A:) DNA-binding domain from the dead ringer protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 128	Back information, alignment and structure


class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: DNA-binding domain from the dead ringer protein
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score =  105 bits (262), Expect = 9e-28
 Identities = 29/106 (27%), Positives = 52/106 (49%), Gaps = 2/106 (1%)

Query: 145 GTPEEQAEFMKEIESFYRENALEF-KPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWR 203
               ++ EF+ ++ SF ++      + P      L+  +L+  V+  GG   V   KLW+
Sbjct: 18  NDDPKRKEFLDDLFSFMQKRGTPINRLPIMAKSVLDLYELYNLVIARGGLVDVINKKLWQ 77

Query: 204 QVGESFHPPKTCTTVSWTFRIFYEKALLEYEKHKR-LSGELQLPAS 248
           ++ +  H P + T+ ++T R  Y K L  YE  K+ LS   +L A+
Sbjct: 78  EIIKGLHLPSSITSAAFTLRTQYMKYLYPYECEKKNLSTPAELQAA 123

PyMOL of d1c20a_

>d1ig6a_ a.4.3.1 (A:) MRF-2 DNA-binding domain {Human (Homo sapiens) [TaxId: 9606]} Length = 107	Back information, alignment and structure

>d1ryua_ a.4.3.1 (A:) SWI-SNF complex protein p270, SMARCF1 {Human (Homo sapiens) [TaxId: 9606]} Length = 120	Back information, alignment and structure

>d1kkxa_ a.4.3.1 (A:) Transcription regulator Adr6 (Swi1) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 102	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
Query		456
d1ig6a_		107	MRF-2 DNA-binding domain {Human (Homo sapiens) [Ta	99.94
d1ryua_		120	SWI-SNF complex protein p270, SMARCF1 {Human (Homo	99.94
d1c20a_		128	DNA-binding domain from the dead ringer protein {F	99.93
d1kkxa_		102	Transcription regulator Adr6 (Swi1) {Baker's yeast	99.9
d1shsa_		115	Small heat shock protein {Archaeon Methanococcus j	99.71
d1gmea_		150	Small heat shock protein {Wheat (Triticum aestivum	99.67
d1rl1a_		92	Suppressor of G2 allele of skp1 homolog, gst1 {Hum	97.05
d1wh0a_		134	Ubiquitin carboxyl-terminal hydrolase 19, USP19 {H	91.13
d1wgva_		124	NudC domain containing protein 3, NUDCD3 (KIAA1068	86.58
d1wfia_		131	Nuclear migration protein nudC {Mouse (Mus musculu	85.62
d1ejfa_		110	Co-chaperone p23 {Human (Homo sapiens) [TaxId: 960	85.15

>d1ig6a_ a.4.3.1 (A:) MRF-2 DNA-binding domain {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: MRF-2 DNA-binding domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=1.6e-28  Score=207.62  Aligned_cols=103  Identities=21%  Similarity=0.419  Sum_probs=97.5

Q ss_pred             HHHHHHHHHHHHHHHhcCCCC-CCCeeCCeeechhhHHHHHHhcCccchhccCcchhHhhhhcCCCCCCCcHHHHHHHHH
Q 012818          148 EEQAEFMKEIESFYRENALEF-KPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWRQVGESFHPPKTCTTVSWTFRIFY  226 (456)
Q Consensus       148 eEre~Fl~~L~~FmeeRGtp~-k~P~IgGK~LDLykLYk~V~~rGGydkVt~~KkWreVa~eLglP~t~TSas~~LK~~Y  226 (456)
                      .+++.|+..|.+||++||+++ ++|+|+|++||||+||.+|+++|||++||.+++|.+||+.||+|.+++++++.||++|
T Consensus         2 ~e~~~Fl~~L~~F~~~rg~~~~~~P~i~gk~vDL~~Ly~~V~~~GG~~~V~~~~~W~~ia~~lg~~~~~~~~~~~Lk~~Y   81 (107)
T d1ig6a_           2 ADEQAFLVALYKYMKERKTPIERIPYLGFKQINLWTMFQAAQKLGGYETITARRQWKHIYDELGGNPGSTSAATCTRRHY   81 (107)
T ss_dssp             HHHHHHHHHHHHHHHTTTCCGGGCCCSSSSSCCHHHHHHHHHHTTHHHHHHHHTTHHHHHHHHTCCTTCTTTTTTHHHHH
T ss_pred             ccHHHHHHHHHHHHHHcCCCCCcCCeECCccccHHHHHHHHHHhCChhhccccccHHHHHHHhCCCCCCCCHHHHHHHHH
Confidence            478999999999999999999 8999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhHHHHHHhHhhcCCCCCCCCCC
Q 012818          227 EKALLEYEKHKRLSGELQLPASSF  250 (456)
Q Consensus       227 eKyLlpYE~~~~~~G~~~~P~~~~  250 (456)
                      ++||++||+++.+.++.+.|+..+
T Consensus        82 ~~~L~~yE~~~~~~~~~~~p~~~~  105 (107)
T d1ig6a_          82 ERLILPYERFIKGEEDKPLPPIKP  105 (107)
T ss_dssp             HHHTTTTHHHHHHHTSSSSCTTCS
T ss_pred             HHHHHHHHHHHhcCCCCCCCCCCC
Confidence            999999999999888877776544

PyMOL of d1ig6a_

>d1ryua_ a.4.3.1 (A:) SWI-SNF complex protein p270, SMARCF1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1c20a_ a.4.3.1 (A:) DNA-binding domain from the dead ringer protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}	Back information, alignment and structure

>d1kkxa_ a.4.3.1 (A:) Transcription regulator Adr6 (Swi1) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d1shsa_ b.15.1.1 (A:) Small heat shock protein {Archaeon Methanococcus jannaschii [TaxId: 2190]}	Back information, alignment and structure

>d1gmea_ b.15.1.1 (A:) Small heat shock protein {Wheat (Triticum aestivum) [TaxId: 4565]}	Back information, alignment and structure

>d1rl1a_ b.15.1.3 (A:) Suppressor of G2 allele of skp1 homolog, gst1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1wh0a_ b.15.1.3 (A:) Ubiquitin carboxyl-terminal hydrolase 19, USP19 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1wgva_ b.15.1.4 (A:) NudC domain containing protein 3, NUDCD3 (KIAA1068) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1wfia_ b.15.1.4 (A:) Nuclear migration protein nudC {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1ejfa_ b.15.1.2 (A:) Co-chaperone p23 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure