Citrus Sinensis ID: 026518

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------
Protein Sequence
MKLPATSSSKAPVKPTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKISKKGRRGAEHAISSKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDALEAREDRNTR
Secondary Structure (PSIPRED)
cccccccccccccccccccEEEEEEEEEccccEEEEEEEEccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccccccccccccEEEEEEEEEEEccEEEEEcEEEccccccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccEEEEEEEEEEEccEEEEEEEEEccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHccccccHcccccccEEEEEEEEEEccEEEEEEEEEEcccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccHHHHccccccEEccccccccccccEEEccHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
mklpatssskapvkptadnlvpirLDIEtegqrykdaftwnpsdpdseVVVFAKRtvrdlklppQFITQIAQSIQTQLTEFrsyegqdmytaekivpikldlrVNHTLIkdhflwdlnnyesdpeEFARTFCndmgiedpevgPAVAFAIREQLYEIAIQSVASAREIKiskkgrrgaehaisskgggnalDLMKLFRYNSsvvrkrkewyvyepivdilsneevdalearedrntr
Flexible Loop (DISEMBL)
mklpatssskapvkptadnlvpiRLDIETEGQRYKDAftwnpsdpdseVVVFAKRTVRDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAreikiskkgrrgaehaisskgggnaldlMKLFRYNSsvvrkrkewyvyepivdilsneevdalearedrntr
Low Complexity Region (SEG)
MKLPATSSSKAPVKPTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKISKKGRRGAEHAISSKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDALEAREDRNTR
Disordered region (IsUnstruct)
*******************LVPIRLDIETEGQRYKDAFTWNPS**DSEVVVFAKRTVRDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREI********************NALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSN***************
Disordered Region (DISOPRED)
******************NLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVA*A***********GAEHAISSKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDAL*********
Disordered Region (DISEMBL)
*************KPTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKI************SSKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDAL*********
Disordered Region (DISPRO)
***************TADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKISKKGRRGAEHAI*SKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDALEAR******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKLPATSSSKAPVKPTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKISKKGRRGAEHAISSKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDALEAREDRNTR
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	237	2.2.26 [Sep-21-2011]
P93045	240	Chromatin structure-remod	yes	no	1.0	0.987	0.758	1e-106
Q5U379	373	SWI/SNF-related matrix-as	no	no	0.561	0.356	0.360	3e-17
O42467	373	SWI/SNF-related matrix-as	N/A	no	0.561	0.356	0.360	6e-17
Q6GQ82	378	SWI/SNF-related matrix-as	N/A	no	0.561	0.351	0.352	9e-17
Q6DFM1	378	SWI/SNF-related matrix-as	yes	no	0.561	0.351	0.352	9e-17
Q5BIN2	385	SWI/SNF-related matrix-as	yes	no	0.561	0.345	0.345	2e-16
Q9Z0H3	385	SWI/SNF-related matrix-as	yes	no	0.561	0.345	0.345	2e-16
Q12824	385	SWI/SNF-related matrix-as	yes	no	0.561	0.345	0.345	2e-16
Q5ZK40	386	SWI/SNF-related matrix-as	yes	no	0.561	0.344	0.345	2e-16
P18480	905	SWI/SNF chromatin-remodel	yes	no	0.586	0.153	0.331	2e-13

>sp|P93045|BSH_ARATH Chromatin structure-remodeling complex protein BSH OS=Arabidopsis thaliana GN=BSH PE=1 SV=2

 Score =  385 bits (989), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 182/240 (75%), Positives = 213/240 (88%), Gaps = 3/240 (1%)

Query: 1   MKLPATSSSKAPVK---PTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTV 57
           MK   ++  K PVK   PTA+NLVPIRLDI+ EGQRYKDAFTWNPSDPD+EVV+FAKRTV
Sbjct: 1   MKGLVSTGWKGPVKFRMPTAENLVPIRLDIQFEGQRYKDAFTWNPSDPDNEVVIFAKRTV 60

Query: 58  RDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDL 117
           +DLKLP  F+TQIAQSIQ+QL++FR+YEGQDMYT EKI+PIKLDLRVNHTLIKD FLWDL
Sbjct: 61  KDLKLPYAFVTQIAQSIQSQLSDFRAYEGQDMYTGEKIIPIKLDLRVNHTLIKDQFLWDL 120

Query: 118 NNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKISKKGRRG 177
           NN+ESDPEEFART C D+G+EDPEVGPAVAFAIREQLYEIAIQSVASARE ++SKKGRRG
Sbjct: 121 NNFESDPEEFARTLCKDLGVEDPEVGPAVAFAIREQLYEIAIQSVASARESRLSKKGRRG 180

Query: 178 AEHAISSKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDALEAREDRNTR 237
           ++H  +SK  G ++DLMKLF + SSVVRKRK+  VYEP+VD+L++EEVDALEARE+R+ R
Sbjct: 181 SDHGSASKASGLSMDLMKLFSFKSSVVRKRKDLDVYEPVVDLLTSEEVDALEAREERHAR 240

Component of a multiprotein complex equivalent of the yeast SWI/SNF complex, an ATP-dependent chromatin-remodeling complex, which is required for the positive and negative regulation of gene expression of a large number of genes. It changes chromatin structure by altering DNA-histone contacts within a nucleosome, leading eventually to a change in nucleosome position, thus facilitating or repressing binding of gene-specific transcription factors.
Arabidopsis thaliana (taxid: 3702)

>sp|Q5U379|SNF5_DANRE SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1-A OS=Danio rerio GN=smarcb1a PE=2 SV=1

 Score = 89.0 bits (219), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 49/136 (36%), Positives = 82/136 (60%), Gaps = 3/136 (2%)

Query: 20  LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQL 78
           LVPIRLD+E +GQ+ +DAFTWN ++      +FA+    DL L P  F+  IA +I+ Q+
Sbjct: 174 LVPIRLDMEIDGQKLRDAFTWNMNEKLMTPEMFAEILCDDLDLSPLTFVPAIASAIRQQI 233

Query: 79  TEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIE 138
             + +    D    ++++ IKL++ V +  + D F WD++  E+ PE+FA   C+++G+ 
Sbjct: 234 ESYPTDSILDEQMDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPEKFALKLCSELGL- 291

Query: 139 DPEVGPAVAFAIREQL 154
             E    +A++IR QL
Sbjct: 292 GGEFVTTIAYSIRGQL 307

Involved in chromatin-remodeling. Part of a complex that opens the chromatin to facilitate the transcriptional machinery to access their targets. Also involved in vitamin D-coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR).

Danio rerio (taxid: 7955)

>sp|O42467|SNF5_TETFL SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 OS=Tetraodon fluviatilis GN=smarcb1 PE=3 SV=1

 Score = 87.8 bits (216), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 49/136 (36%), Positives = 82/136 (60%), Gaps = 3/136 (2%)

Query: 20  LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQL 78
           LVPIRLD+E EGQ+ +DAFTWN ++      +FA+    DL L P  F+  I  +I+ Q+
Sbjct: 174 LVPIRLDMEIEGQKLRDAFTWNMNEKLMTPEMFAEILCDDLDLNPLAFVPAIPSAIRQQI 233

Query: 79  TEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIE 138
             + +    +  T ++++ IKL++ V +  + D F WD++  E+ PE+FA   C+++G +
Sbjct: 234 ESYPTDAILEEQTDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPEKFALKLCSELG-Q 291

Query: 139 DPEVGPAVAFAIREQL 154
             E    +A++IR QL
Sbjct: 292 GGEFVTTIAYSIRGQL 307

Involved in chromatin-remodeling. Part of a complex that opens the chromatin to facilitate the transcriptional machinery to access their targets. Also involved in vitamin D-coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR). Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex) and may play a role in neural development.

Tetraodon fluviatilis (taxid: 47145)

>sp|Q6GQ82|SNF5_XENLA SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 OS=Xenopus laevis GN=smarcb1 PE=2 SV=1

 Score = 87.0 bits (214), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 48/136 (35%), Positives = 83/136 (61%), Gaps = 3/136 (2%)

Query: 20  LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQL 78
           LVPIRLD+E +GQ+ +DAFTWN ++      +FA+    DL L P  F+  IA +I+ Q+
Sbjct: 179 LVPIRLDMEIDGQKLRDAFTWNMNEKLMTPEMFAEILCDDLDLNPLAFVPAIASAIRQQI 238

Query: 79  TEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIE 138
             + +    +  + ++++ IKL++ V +  + D F WD++  E+ PE+FA   C+++G+ 
Sbjct: 239 ESYPTDSILEDQSDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPEKFALKLCSELGLG 297

Query: 139 DPEVGPAVAFAIREQL 154
             E    +A++IR QL
Sbjct: 298 G-EFVTTIAYSIRGQL 312

Involved in chromatin-remodeling. Part of a complex that opens the chromatin to facilitate the transcriptional machinery to access their targets. Also involved in vitamin D-coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR). Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex) and may play a role in neural development.

Xenopus laevis (taxid: 8355)

>sp|Q6DFM1|SNF5_XENTR SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 OS=Xenopus tropicalis GN=smarcb1 PE=2 SV=1

 Score = 87.0 bits (214), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 48/136 (35%), Positives = 83/136 (61%), Gaps = 3/136 (2%)

Query: 20  LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQL 78
           LVPIRLD+E +GQ+ +DAFTWN ++      +FA+    DL L P  F+  IA +I+ Q+
Sbjct: 179 LVPIRLDMEIDGQKLRDAFTWNMNEKLMTPEMFAEILCDDLDLNPLAFVPAIASAIRQQI 238

Query: 79  TEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIE 138
             + +    +  + ++++ IKL++ V +  + D F WD++  E+ PE+FA   C+++G+ 
Sbjct: 239 ESYPTDSILEDQSDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPEKFALKLCSELGL- 296

Query: 139 DPEVGPAVAFAIREQL 154
             E    +A++IR QL
Sbjct: 297 GGEFVTTIAYSIRGQL 312

Involved in chromatin-remodeling. Part of a complex that opens the chromatin to facilitate the transcriptional machinery to access their targets. Also involved in vitamin D-coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR).

Xenopus tropicalis (taxid: 8364)

>sp|Q5BIN2|SNF5_BOVIN SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 OS=Bos taurus GN=SMARCB1 PE=2 SV=1

 Score = 86.3 bits (212), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 47/136 (34%), Positives = 83/136 (61%), Gaps = 3/136 (2%)

Query: 20  LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQL 78
           LVPIRLD+E +GQ+ +DAFTWN ++      +F++    DL L P  F+  IA +I+ Q+
Sbjct: 186 LVPIRLDMEIDGQKLRDAFTWNMNEKLMTPEMFSEILCDDLDLNPLTFVPAIASAIRQQI 245

Query: 79  TEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIE 138
             + +    +  + ++++ IKL++ V +  + D F WD++  E+ PE+FA   C+++G+ 
Sbjct: 246 ESYPTDSILEDQSDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPEKFALKLCSELGLG 304

Query: 139 DPEVGPAVAFAIREQL 154
             E    +A++IR QL
Sbjct: 305 G-EFVTTIAYSIRGQL 319

Core component of the BAF (SWI/SNF) complex. This ATP-dependent chromatin-remodeling complex plays important roles in cell proliferation and differentiation, in cellular antiviral activities and inhibition of tumor formation. The BAF complex is able to create a stable, altered form of chromatin that constrains fewer negative supercoils than normal. This change in supercoiling would be due to the conversion of up to one-half of the nucleosomes on polynucleosomal arrays into asymmetric structures, termed altosomes, each composed of 2 histones octamers. Stimulates in vitro the remodeling activity of SMARCA4/BRG1/BAF190A. Plays a key role in cell-cycle control and causes cell cycle arrest in G0/G1. Also involved in vitamin D-coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR), which is required for the ligand-bound VDR-mediated transrepression of the CYP27B1 gene. Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth.

Bos taurus (taxid: 9913)

>sp|Q9Z0H3|SNF5_MOUSE SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 OS=Mus musculus GN=Smarcb1 PE=1 SV=1

 Score = 85.9 bits (211), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 47/136 (34%), Positives = 83/136 (61%), Gaps = 3/136 (2%)

Query: 20  LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQL 78
           LVPIRLD+E +GQ+ +DAFTWN ++      +F++    DL L P  F+  IA +I+ Q+
Sbjct: 186 LVPIRLDMEIDGQKLRDAFTWNMNEKLMTPEMFSEILCDDLDLNPLTFVPAIASAIRQQI 245

Query: 79  TEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIE 138
             + +    +  + ++++ IKL++ V +  + D F WD++  E+ PE+FA   C+++G+ 
Sbjct: 246 ESYPTDSILEDQSDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPEKFALKLCSELGLG 304

Query: 139 DPEVGPAVAFAIREQL 154
             E    +A++IR QL
Sbjct: 305 G-EFVTTIAYSIRGQL 319

Core component of the BAF (SWI/SNF) complex. This ATP-dependent chromatin-remodeling complex plays important roles in cell proliferation and differentiation, in cellular antiviral activities and inhibition of tumor formation. The BAF complex is able to create a stable, altered form of chromatin that constrains fewer negative supercoils than normal. This change in supercoiling would be due to the conversion of up to one-half of the nucleosomes on polynucleosomal arrays into asymmetric structures, termed altosomes, each composed of 2 histones octamers. Stimulates in vitro the remodeling activity of SMARCA4/BRG1/BAF190A. Plays a key role in cell-cycle control and causes cell cycle arrest in G0/G1. Also involved in vitamin D-coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR), which is required for the ligand-bound VDR-mediated transrepression of the CYP27B1 gene (By similarity). Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth.

Mus musculus (taxid: 10090)

>sp|Q12824|SNF5_HUMAN SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 OS=Homo sapiens GN=SMARCB1 PE=1 SV=2

 Score = 85.9 bits (211), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 47/136 (34%), Positives = 83/136 (61%), Gaps = 3/136 (2%)

Query: 20  LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQL 78
           LVPIRLD+E +GQ+ +DAFTWN ++      +F++    DL L P  F+  IA +I+ Q+
Sbjct: 186 LVPIRLDMEIDGQKLRDAFTWNMNEKLMTPEMFSEILCDDLDLNPLTFVPAIASAIRQQI 245

Query: 79  TEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIE 138
             + +    +  + ++++ IKL++ V +  + D F WD++  E+ PE+FA   C+++G+ 
Sbjct: 246 ESYPTDSILEDQSDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPEKFALKLCSELGLG 304

Query: 139 DPEVGPAVAFAIREQL 154
             E    +A++IR QL
Sbjct: 305 G-EFVTTIAYSIRGQL 319

Core component of the BAF (hSWI/SNF) complex. This ATP-dependent chromatin-remodeling complex plays important roles in cell proliferation and differentiation, in cellular antiviral activities and inhibition of tumor formation. The BAF complex is able to create a stable, altered form of chromatin that constrains fewer negative supercoils than normal. This change in supercoiling would be due to the conversion of up to one-half of the nucleosomes on polynucleosomal arrays into asymmetric structures, termed altosomes, each composed of 2 histones octamers. Stimulates in vitro the remodeling activity of SMARCA4/BRG1/BAF190A. Involved in activation of CSF1 promoter. Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth (By similarity). Plays a key role in cell-cycle control and causes cell cycle arrest in G0/G1. Also involved in vitamin D-coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR), which is required for the ligand-bound VDR-mediated transrepression of the CYP27B1 gene.

Homo sapiens (taxid: 9606)

>sp|Q5ZK40|SNF5_CHICK SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 OS=Gallus gallus GN=SMARCB1 PE=2 SV=1

 Score = 85.9 bits (211), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 47/136 (34%), Positives = 83/136 (61%), Gaps = 3/136 (2%)

Query: 20  LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQL 78
           LVPIRLD+E +GQ+ +DAFTWN ++      +F++    DL L P  F+  IA +I+ Q+
Sbjct: 187 LVPIRLDMEIDGQKLRDAFTWNMNEKLMTPEMFSEILCDDLDLNPLTFVPAIASAIRQQI 246

Query: 79  TEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIE 138
             + +    +  + ++++ IKL++ V +  + D F WD++  E+ PE+FA   C+++G+ 
Sbjct: 247 ESYPTDSILEDQSDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPEKFALKLCSELGLG 305

Query: 139 DPEVGPAVAFAIREQL 154
             E    +A++IR QL
Sbjct: 306 G-EFVTTIAYSIRGQL 320

Involved in chromatin-remodeling. Part of a complex that opens the chromatin to facilitate the transcriptional machinery to access their targets. Also involved in vitamin D-coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR). Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex) and may play a role in neural development.

Gallus gallus (taxid: 9031)

>sp|P18480|SNF5_YEAST SWI/SNF chromatin-remodeling complex subunit SNF5 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SNF5 PE=1 SV=3

 Score = 76.3 bits (186), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 50/151 (33%), Positives = 81/151 (53%), Gaps = 12/151 (7%)

Query: 16  TADNLVPIRLDIETEGQRY--KDAFTWNPSDPDSEVVVFAKRTVRDLKLP----PQFITQ 69
           T++ LVPIRL+ + +  R+  +D   WN +D   ++  F    +RD +       Q I  
Sbjct: 453 TSEQLVPIRLEFDQDRDRFFLRDTLLWNKNDKLIKIEDFVDDMLRDYRFEDATREQHIDT 512

Query: 70  IAQSIQTQLTEFRSYE----GQDMYTAEKI-VPIKLDLRVNHTLIKDHFLWDLNNYESDP 124
           I QSIQ Q+ EF+        QD    + + + IKLD+ V    + D F WD++N ++ P
Sbjct: 513 ICQSIQEQIQEFQGNPYIELNQDRLGGDDLRIRIKLDIVVGQNQLIDQFEWDISNSDNCP 572

Query: 125 EEFARTFCNDMGIEDPEVGPAVAFAIREQLY 155
           EEFA + C ++ +   E   A+A +IREQ++
Sbjct: 573 EEFAESMCQELELPG-EFVTAIAHSIREQVH 602

Involved in transcriptional activation. Component of the SWI/SNF complex, an ATP-dependent chromatin-remodeling complex, which is required for the positive and negative regulation of gene expression of a large number of genes. It changes chromatin structure by altering DNA-histone contacts within a nucleosome, leading eventually to a change in nucleosome position, thus facilitating or repressing binding of gene-specific transcription factors.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	237
225432226	243	PREDICTED: chromatin structure-remodelin	1.0	0.975	0.812	1e-110
359806723	240	chromatin structure-remodeling complex p	1.0	0.987	0.804	1e-108
449459804	240	PREDICTED: chromatin structure-remodelin	1.0	0.987	0.779	1e-106
107857310	240	SNF5 [Pisum sativum]	1.0	0.987	0.783	1e-106
357479241	240	Chromatin structure-remodeling complex p	1.0	0.987	0.779	1e-106
297834670	240	hypothetical protein ARALYDRAFT_479235 [	1.0	0.987	0.762	1e-105
255556626	241	snf5, putative [Ricinus communis] gi|223	0.991	0.975	0.777	1e-105
18401571	240	chromatin structure-remodeling complex p	1.0	0.987	0.758	1e-105
334185418	242	chromatin structure-remodeling complex p	1.0	0.979	0.752	1e-104
388495986	240	unknown [Lotus japonicus]	1.0	0.987	0.775	1e-104

>gi|225432226|ref|XP_002270283.1| PREDICTED: chromatin structure-remodeling complex protein BSH [Vitis vinifera] gi|297736833|emb|CBI26034.3| unnamed protein product [Vitis vinifera]

 Score =  402 bits (1034), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 195/240 (81%), Positives = 211/240 (87%), Gaps = 3/240 (1%)

Query: 1   MKLPATSSSKAPVK---PTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTV 57
           MK   ++SSK PVK   PTADNLVPIRLDIE +G R+KDAFTWNPSDPDSEVVVFAKRTV
Sbjct: 1   MKPLPSTSSKNPVKFRMPTADNLVPIRLDIEIDGHRFKDAFTWNPSDPDSEVVVFAKRTV 60

Query: 58  RDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDL 117
           +DLKLPP FITQIAQSIQ+QL EFRS+EGQDM T EKIVPIKLDLRVNHTLIKD FLWDL
Sbjct: 61  KDLKLPPAFITQIAQSIQSQLAEFRSFEGQDMQTGEKIVPIKLDLRVNHTLIKDQFLWDL 120

Query: 118 NNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKISKKGRRG 177
           NN+ESDPEEFARTFC D+G+EDPEVGPA+A AIREQLYEIAIQSV SARE +ISKKGRRG
Sbjct: 121 NNFESDPEEFARTFCKDLGVEDPEVGPAIAVAIREQLYEIAIQSVTSARETRISKKGRRG 180

Query: 178 AEHAISSKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDALEAREDRNTR 237
           AEH  +SK  G ALDLMKLF   SS++RKR+EW VYEPIVDILSNEEVD LEAREDRN R
Sbjct: 181 AEHIPASKASGTALDLMKLFGNKSSIIRKRREWDVYEPIVDILSNEEVDVLEAREDRNAR 240

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359806723|ref|NP_001241294.1| chromatin structure-remodeling complex protein BSH-like [Glycine max] gi|296932945|gb|ADH93593.1| SNF5-type chromatin-remodeling complex protein [Glycine max] gi|297179845|gb|ADI23919.1| SNF5 [Glycine max]

 Score =  397 bits (1020), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 193/240 (80%), Positives = 211/240 (87%), Gaps = 3/240 (1%)

Query: 1   MKLPATSSSKAPVK---PTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTV 57
           MK P +   + PVK   PTA+NLVPIRLDIE EGQRYKDAFTWNPSDPDSEVVVFAKRTV
Sbjct: 1   MKTPISGFYRNPVKFRMPTAENLVPIRLDIEIEGQRYKDAFTWNPSDPDSEVVVFAKRTV 60

Query: 58  RDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDL 117
           +DLKLPP F+TQIAQSIQ+QL+EFRSYEGQDMY  EKIVPIKLDLRVNHTL+KD FLWDL
Sbjct: 61  KDLKLPPAFVTQIAQSIQSQLSEFRSYEGQDMYAGEKIVPIKLDLRVNHTLVKDQFLWDL 120

Query: 118 NNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKISKKGRRG 177
           NN+ESDPEEFAR FC D GIEDPEVGPA+AFAIREQLYEIAIQSV SARE ++SKKGRRG
Sbjct: 121 NNFESDPEEFARIFCKDTGIEDPEVGPAIAFAIREQLYEIAIQSVVSARESRMSKKGRRG 180

Query: 178 AEHAISSKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDALEAREDRNTR 237
           AE+   SKGG  A+DL+KLF   SSVVRKRKEW VYEPIVD+LSNEEVDALEA+E+RN R
Sbjct: 181 AEYTPVSKGGAAAVDLVKLFGPKSSVVRKRKEWDVYEPIVDLLSNEEVDALEAKEERNFR 240

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449459804|ref|XP_004147636.1| PREDICTED: chromatin structure-remodeling complex protein BSH-like [Cucumis sativus] gi|449498785|ref|XP_004160633.1| PREDICTED: chromatin structure-remodeling complex protein BSH-like [Cucumis sativus]

 Score =  390 bits (1003), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 187/240 (77%), Positives = 213/240 (88%), Gaps = 3/240 (1%)

Query: 1   MKLPATSSSKAPVK---PTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTV 57
           MK  A+  SKAP K   PTA+NLVPIRLDIE +GQR+KDAFTWNPSDPDSEVVVFAKRTV
Sbjct: 1   MKASASPHSKAPFKFRIPTAENLVPIRLDIEIDGQRFKDAFTWNPSDPDSEVVVFAKRTV 60

Query: 58  RDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDL 117
           +DLKLPP FITQIAQSIQ+QLTEFRS+EGQDMYT EKI+PIKLDLRVN+TLIKD FLWDL
Sbjct: 61  KDLKLPPAFITQIAQSIQSQLTEFRSFEGQDMYTGEKIIPIKLDLRVNNTLIKDQFLWDL 120

Query: 118 NNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKISKKGRRG 177
           NNYESDPEEF+RT C D+GI+DPEVGPA+A AIREQLYEIA+Q+VASARE ++SKKGRRG
Sbjct: 121 NNYESDPEEFSRTLCKDLGIDDPEVGPAIAVAIREQLYEIAVQNVASARESRMSKKGRRG 180

Query: 178 AEHAISSKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDALEAREDRNTR 237
            EH   SK GG ++DL+KLF + SSVVRKRK+W +YEPIVD+LSNEEVDALEA+E+R  R
Sbjct: 181 FEHVPVSKTGGASVDLVKLFGHRSSVVRKRKDWDIYEPIVDLLSNEEVDALEAKEERTAR 240

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|107857310|gb|ABF85669.1| SNF5 [Pisum sativum]

 Score =  390 bits (1002), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 188/240 (78%), Positives = 209/240 (87%), Gaps = 3/240 (1%)

Query: 1   MKLPATSSSKAPVK---PTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTV 57
           MK P +   + PVK   PT++NLVP+RLDIE +G RYKDAFTWNPSDPDSEVVVFAKRTV
Sbjct: 1   MKTPISGFYRNPVKFRMPTSENLVPVRLDIEIDGHRYKDAFTWNPSDPDSEVVVFAKRTV 60

Query: 58  RDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDL 117
           +DLKLPP F+TQIAQSIQ+QL EFRSYEGQDMY  EKI+PIKLDLRVNHTL+KD FLWDL
Sbjct: 61  KDLKLPPPFVTQIAQSIQSQLAEFRSYEGQDMYAGEKIIPIKLDLRVNHTLVKDQFLWDL 120

Query: 118 NNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKISKKGRRG 177
           NN++SDPEEFARTFC DMGIEDPEVGPAVAFAIREQLYEIAIQSV SARE ++SKKGRRG
Sbjct: 121 NNFDSDPEEFARTFCRDMGIEDPEVGPAVAFAIREQLYEIAIQSVVSARESRLSKKGRRG 180

Query: 178 AEHAISSKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDALEAREDRNTR 237
           A+    SKGG  A+DL+KLF   SSVVRKRKEW VYEPIVD+LSNEEVD LEA+E+RN R
Sbjct: 181 ADFTPVSKGGAVAVDLVKLFGIKSSVVRKRKEWDVYEPIVDLLSNEEVDVLEAKEERNFR 240

Source: Pisum sativum

Species: Pisum sativum

Genus: Pisum

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357479241|ref|XP_003609906.1| Chromatin structure-remodeling complex protein BSH [Medicago truncatula] gi|355510961|gb|AES92103.1| Chromatin structure-remodeling complex protein BSH [Medicago truncatula]

 Score =  388 bits (997), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 187/240 (77%), Positives = 209/240 (87%), Gaps = 3/240 (1%)

Query: 1   MKLPATSSSKAPVK---PTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTV 57
           MK P ++  + PVK   PT++NLVPIRLDIE +G RYKDAFTWNPSDPDSEVVVFAKRTV
Sbjct: 1   MKTPVSAFYRNPVKFRMPTSENLVPIRLDIEIDGHRYKDAFTWNPSDPDSEVVVFAKRTV 60

Query: 58  RDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDL 117
           RDLKLPP F+TQIAQSIQ+QL EFRSY+GQDMY  EKIVPIKLDLRVNHTL+KD FLWDL
Sbjct: 61  RDLKLPPPFVTQIAQSIQSQLAEFRSYDGQDMYAGEKIVPIKLDLRVNHTLVKDQFLWDL 120

Query: 118 NNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKISKKGRRG 177
           NN++SDPEEFARTFC DMGIEDPEVGPA+AFAIREQLYEI +QSV SARE ++SKKGRRG
Sbjct: 121 NNFDSDPEEFARTFCRDMGIEDPEVGPAIAFAIREQLYEIVVQSVVSARESRLSKKGRRG 180

Query: 178 AEHAISSKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDALEAREDRNTR 237
           A+    SKGG  A+DL+KLF   SSVVRKRKEW VYEPIVD+LSNEEVD LEA+E+RN R
Sbjct: 181 ADFFPVSKGGAVAVDLVKLFGIKSSVVRKRKEWDVYEPIVDLLSNEEVDILEAKEERNFR 240

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297834670|ref|XP_002885217.1| hypothetical protein ARALYDRAFT_479235 [Arabidopsis lyrata subsp. lyrata] gi|297331057|gb|EFH61476.1| hypothetical protein ARALYDRAFT_479235 [Arabidopsis lyrata subsp. lyrata]

 Score =  386 bits (991), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 183/240 (76%), Positives = 212/240 (88%), Gaps = 3/240 (1%)

Query: 1   MKLPATSSSKAPVK---PTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTV 57
           MK   ++  K PVK   PTA+NLVPIRLDI+ EGQRYKDAFTWNPSDPD+EVVVFAKRTV
Sbjct: 1   MKGLVSTGWKGPVKFRMPTAENLVPIRLDIQFEGQRYKDAFTWNPSDPDNEVVVFAKRTV 60

Query: 58  RDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDL 117
           +DLKLP  FITQIAQSIQ+QL++FR+YEGQDMYT EKI+PIKLDLRVNHTLIKD FLWDL
Sbjct: 61  KDLKLPSAFITQIAQSIQSQLSDFRAYEGQDMYTGEKIIPIKLDLRVNHTLIKDQFLWDL 120

Query: 118 NNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKISKKGRRG 177
           NN+ESDPEEFART C D+G+EDPEVGPAVAFAIREQLYEIAIQSVASARE ++SKKGRRG
Sbjct: 121 NNFESDPEEFARTLCKDLGVEDPEVGPAVAFAIREQLYEIAIQSVASARESRLSKKGRRG 180

Query: 178 AEHAISSKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDALEAREDRNTR 237
           ++H  +SK  G ++DLMKLF + SSVVRKRK+  VYEP+VD+L++EEVDALEAR +R+ R
Sbjct: 181 SDHGSASKASGLSMDLMKLFSFKSSVVRKRKDLDVYEPVVDLLTSEEVDALEARAERHAR 240

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255556626|ref|XP_002519347.1| snf5, putative [Ricinus communis] gi|223541662|gb|EEF43211.1| snf5, putative [Ricinus communis]

 Score =  385 bits (989), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 185/238 (77%), Positives = 207/238 (86%), Gaps = 3/238 (1%)

Query: 3   LPATSSSKAPVK---PTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRD 59
           LP+TSSSK PVK   PTA NLVPIRLDIE +G R+KDAFTWNPSDPDSEVVVFAKRT +D
Sbjct: 4   LPSTSSSKLPVKFRMPTAQNLVPIRLDIEIDGHRFKDAFTWNPSDPDSEVVVFAKRTAKD 63

Query: 60  LKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNN 119
           LKLPP F+ QIAQSIQTQL+EFRSYEGQDM+T EK VPIKLDLRVN TLIKD FLWDLNN
Sbjct: 64  LKLPPAFVMQIAQSIQTQLSEFRSYEGQDMFTGEKFVPIKLDLRVNRTLIKDQFLWDLNN 123

Query: 120 YESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKISKKGRRGAE 179
           ++SDPE+FA TFC D+GI+DPEV PAVAFAIREQLYEIA QSVA+ARE +++KKGRRG E
Sbjct: 124 FDSDPEDFATTFCKDLGIQDPEVAPAVAFAIREQLYEIATQSVATARESRLTKKGRRGFE 183

Query: 180 HAISSKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDALEAREDRNTR 237
           +  +SK GG A DLMKLF    S++RKRKEW VYEPIVD+LSNEEV+ALEAREDRN R
Sbjct: 184 YIPASKAGGTASDLMKLFSNRYSMIRKRKEWDVYEPIVDLLSNEEVEALEAREDRNVR 241

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18401571|ref|NP_566581.1| chromatin structure-remodeling complex protein BSH [Arabidopsis thaliana] gi|71152345|sp|P93045.2|BSH_ARATH RecName: Full=Chromatin structure-remodeling complex protein BSH; Short=AtBSH; AltName: Full=Protein BUSHY; AltName: Full=SNF5 homolog gi|9294147|dbj|BAB02049.1| SNF5, transcription regulatory protein homolog BSH [Arabidopsis thaliana] gi|26449426|dbj|BAC41840.1| unknown protein [Arabidopsis thaliana] gi|88196751|gb|ABD43018.1| At3g17590 [Arabidopsis thaliana] gi|332642450|gb|AEE75971.1| chromatin structure-remodeling complex protein BSH [Arabidopsis thaliana]

 Score =  385 bits (989), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 182/240 (75%), Positives = 213/240 (88%), Gaps = 3/240 (1%)

Query: 1   MKLPATSSSKAPVK---PTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTV 57
           MK   ++  K PVK   PTA+NLVPIRLDI+ EGQRYKDAFTWNPSDPD+EVV+FAKRTV
Sbjct: 1   MKGLVSTGWKGPVKFRMPTAENLVPIRLDIQFEGQRYKDAFTWNPSDPDNEVVIFAKRTV 60

Query: 58  RDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDL 117
           +DLKLP  F+TQIAQSIQ+QL++FR+YEGQDMYT EKI+PIKLDLRVNHTLIKD FLWDL
Sbjct: 61  KDLKLPYAFVTQIAQSIQSQLSDFRAYEGQDMYTGEKIIPIKLDLRVNHTLIKDQFLWDL 120

Query: 118 NNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKISKKGRRG 177
           NN+ESDPEEFART C D+G+EDPEVGPAVAFAIREQLYEIAIQSVASARE ++SKKGRRG
Sbjct: 121 NNFESDPEEFARTLCKDLGVEDPEVGPAVAFAIREQLYEIAIQSVASARESRLSKKGRRG 180

Query: 178 AEHAISSKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDALEAREDRNTR 237
           ++H  +SK  G ++DLMKLF + SSVVRKRK+  VYEP+VD+L++EEVDALEARE+R+ R
Sbjct: 181 SDHGSASKASGLSMDLMKLFSFKSSVVRKRKDLDVYEPVVDLLTSEEVDALEAREERHAR 240

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334185418|ref|NP_001189918.1| chromatin structure-remodeling complex protein BSH [Arabidopsis thaliana] gi|332642451|gb|AEE75972.1| chromatin structure-remodeling complex protein BSH [Arabidopsis thaliana]

 Score =  384 bits (986), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 182/242 (75%), Positives = 213/242 (88%), Gaps = 5/242 (2%)

Query: 1   MKLPATSSSKAPVK-----PTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKR 55
           MK   ++  K PVK     PTA+NLVPIRLDI+ EGQRYKDAFTWNPSDPD+EVV+FAKR
Sbjct: 1   MKGLVSTGWKGPVKFRIYRPTAENLVPIRLDIQFEGQRYKDAFTWNPSDPDNEVVIFAKR 60

Query: 56  TVRDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLW 115
           TV+DLKLP  F+TQIAQSIQ+QL++FR+YEGQDMYT EKI+PIKLDLRVNHTLIKD FLW
Sbjct: 61  TVKDLKLPYAFVTQIAQSIQSQLSDFRAYEGQDMYTGEKIIPIKLDLRVNHTLIKDQFLW 120

Query: 116 DLNNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKISKKGR 175
           DLNN+ESDPEEFART C D+G+EDPEVGPAVAFAIREQLYEIAIQSVASARE ++SKKGR
Sbjct: 121 DLNNFESDPEEFARTLCKDLGVEDPEVGPAVAFAIREQLYEIAIQSVASARESRLSKKGR 180

Query: 176 RGAEHAISSKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDALEAREDRN 235
           RG++H  +SK  G ++DLMKLF + SSVVRKRK+  VYEP+VD+L++EEVDALEARE+R+
Sbjct: 181 RGSDHGSASKASGLSMDLMKLFSFKSSVVRKRKDLDVYEPVVDLLTSEEVDALEAREERH 240

Query: 236 TR 237
            R
Sbjct: 241 AR 242

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388495986|gb|AFK36059.1| unknown [Lotus japonicus]

 Score =  383 bits (983), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 186/240 (77%), Positives = 206/240 (85%), Gaps = 3/240 (1%)

Query: 1   MKLPATSSSKAPVK---PTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTV 57
           MK PA+   + PVK   PTA+NLVPIRLDIE + QRYKDAFTWNPSDPDSEV VFAKRTV
Sbjct: 1   MKAPASIFYRNPVKFRMPTAENLVPIRLDIEIDAQRYKDAFTWNPSDPDSEVGVFAKRTV 60

Query: 58  RDLKLPPQFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDL 117
           +DLKLPP F+TQIAQSIQ+QL EFRSYEGQDMY  EKIVPIKLDLRVNHTL+KD FLWDL
Sbjct: 61  KDLKLPPPFVTQIAQSIQSQLAEFRSYEGQDMYAGEKIVPIKLDLRVNHTLVKDQFLWDL 120

Query: 118 NNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKISKKGRRG 177
           NN+ESDPEEFAR FC DMGIEDPEVGPA+AFAIREQLYEI IQSV S RE ++SKKGRRG
Sbjct: 121 NNFESDPEEFARIFCKDMGIEDPEVGPAIAFAIREQLYEITIQSVVSVRESRLSKKGRRG 180

Query: 178 AEHAISSKGGGNALDLMKLFRYNSSVVRKRKEWYVYEPIVDILSNEEVDALEAREDRNTR 237
            ++   SKGG  A+DL+KLF   SSV+RKRKEW VYEPIVD+LSNEEVDALEA+E+R  R
Sbjct: 181 GDYTPISKGGAVAVDLVKLFGQKSSVIRKRKEWDVYEPIVDLLSNEEVDALEAKEERIFR 240

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	237
ZFIN|ZDB-GENE-991008-16	382	smarcb1b "SWI/SNF related, mat	0.573	0.356	0.359	1.7e-21
ZFIN|ZDB-GENE-041114-5	373	smarcb1a "SWI/SNF related, mat	0.561	0.356	0.360	3.1e-21
FB|FBgn0011715	370	Snr1 "Snf5-related 1" [Drosoph	0.620	0.397	0.368	4.7e-21
UNIPROTKB|B5MCL5	339	SMARCB1 "SWI/SNF-related matri	0.561	0.392	0.345	6.8e-21
RGD|1308761	376	Smarcb1 "SWI/SNF related, matr	0.561	0.353	0.345	2.3e-20
UNIPROTKB|Q5BIN2	385	SMARCB1 "SWI/SNF-related matri	0.561	0.345	0.345	2.8e-20
UNIPROTKB|E2RMD3	385	SMARCB1 "Uncharacterized prote	0.561	0.345	0.345	2.8e-20
UNIPROTKB|Q12824	385	SMARCB1 "SWI/SNF-related matri	0.561	0.345	0.345	2.8e-20
UNIPROTKB|F2Z4X9	385	SMARCB1 "Uncharacterized prote	0.561	0.345	0.345	2.8e-20
MGI|MGI:1328366	385	Smarcb1 "SWI/SNF related, matr	0.561	0.345	0.345	2.8e-20

ZFIN|ZDB-GENE-991008-16 smarcb1b "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1b" [Danio rerio (taxid:7955)]

 Score = 228 (85.3 bits), Expect = 1.7e-21, Sum P(2) = 1.7e-21
 Identities = 50/139 (35%), Positives = 84/139 (60%)

Query:    17 ADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQ 75
             A+ LVPIRLD+E +GQ+ +DAFTWN ++      +FA+    DL L P  F+  IA +I+
Sbjct:   176 AEVLVPIRLDMEIDGQKLRDAFTWNMNEKLMTPEMFAEILCDDLDLNPLTFVPAIASAIR 235

Query:    76 TQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDM 135
              Q+  + +    +  T ++++ IKL++ V +  + D F WD++  E+ PE FA   C+++
Sbjct:   236 QQIESYPTDSILEEQTDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPESFALKLCSEL 294

Query:   136 GIEDPEVGPAVAFAIREQL 154
             G+   E    +A++IR QL
Sbjct:   295 GLGG-EFVTTIAYSIRGQL 312

GO:0006338 "chromatin remodeling" evidence=IEA

GO:0000228 "nuclear chromosome" evidence=IEA

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IBA

GO:0005634 "nucleus" evidence=IBA

GO:0090544 "BAF-type complex" evidence=IBA

GO:0006281 "DNA repair" evidence=IBA

GO:0006337 "nucleosome disassembly" evidence=IBA

GO:0043044 "ATP-dependent chromatin remodeling" evidence=IBA

GO:0030154 "cell differentiation" evidence=IBA

GO:0008285 "negative regulation of cell proliferation" evidence=IBA

GO:0044772 "mitotic cell cycle phase transition" evidence=IBA

ZFIN|ZDB-GENE-041114-5 smarcb1a "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1a" [Danio rerio (taxid:7955)]

 Score = 225 (84.3 bits), Expect = 3.1e-21, Sum P(2) = 3.1e-21
 Identities = 49/136 (36%), Positives = 82/136 (60%)

Query:    20 LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQL 78
             LVPIRLD+E +GQ+ +DAFTWN ++      +FA+    DL L P  F+  IA +I+ Q+
Sbjct:   174 LVPIRLDMEIDGQKLRDAFTWNMNEKLMTPEMFAEILCDDLDLSPLTFVPAIASAIRQQI 233

Query:    79 TEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIE 138
               + +    D    ++++ IKL++ V +  + D F WD++  E+ PE+FA   C+++G+ 
Sbjct:   234 ESYPTDSILDEQMDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPEKFALKLCSELGLG 292

Query:   139 DPEVGPAVAFAIREQL 154
               E    +A++IR QL
Sbjct:   293 G-EFVTTIAYSIRGQL 307

GO:0006338 "chromatin remodeling" evidence=IEA

GO:0000228 "nuclear chromosome" evidence=IEA

GO:0044772 "mitotic cell cycle phase transition" evidence=IBA

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IBA

GO:0043044 "ATP-dependent chromatin remodeling" evidence=IBA

GO:0005634 "nucleus" evidence=IEA;IBA

GO:0006337 "nucleosome disassembly" evidence=IBA

GO:0030154 "cell differentiation" evidence=IBA

GO:0008285 "negative regulation of cell proliferation" evidence=IBA

GO:0090544 "BAF-type complex" evidence=IBA

GO:0006281 "DNA repair" evidence=IBA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

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

FB|FBgn0011715 Snr1 "Snf5-related 1" [Drosophila melanogaster (taxid:7227)]

 Score = 224 (83.9 bits), Expect = 4.7e-21, Sum P(2) = 4.7e-21
 Identities = 56/152 (36%), Positives = 85/152 (55%)

Query:     4 PATSSSKAPVKPTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLP 63
             P  S   A  K   + LVPIRLD+E EGQ+ +D FTWN ++       FA+    DL L 
Sbjct:   157 PTASLENAAQK---ECLVPIRLDMELEGQKLRDTFTWNKNESMITPEQFAEVLCDDLDLN 213

Query:    64 P-QFITQIAQSIQTQLTEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYES 122
             P  F+  IAQ+I+ Q+  F +       T ++ V +KL++ V +T + D   WD++   +
Sbjct:   214 PLPFVPAIAQAIRQQIEAFPNDPPILEETCDQRVIVKLNIHVGNTSLVDQVEWDMSEKNN 273

Query:   123 DPEEFARTFCNDMGIEDPEVGPAVAFAIREQL 154
             +PEEFA   C ++G+   E   A+A++IR QL
Sbjct:   274 NPEEFAIKLCAELGLGG-EFVTAIAYSIRGQL 304

GO:0043044 "ATP-dependent chromatin remodeling" evidence=ISS

GO:0005634 "nucleus" evidence=ISS;NAS;IDA

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

GO:0006355 "regulation of transcription, DNA-dependent" evidence=ISS;NAS

GO:0035060 "brahma complex" evidence=NAS;IDA;TAS

GO:0003713 "transcription coactivator activity" evidence=IC

GO:0005515 "protein binding" evidence=IPI

GO:0002165 "instar larval or pupal development" evidence=NAS

GO:0001700 "embryonic development via the syncytial blastoderm" evidence=NAS

GO:0070984 "SET domain binding" evidence=IPI

GO:0008285 "negative regulation of cell proliferation" evidence=IMP

GO:0000228 "nuclear chromosome" evidence=IEA

GO:0007474 "imaginal disc-derived wing vein specification" evidence=IMP

GO:0007517 "muscle organ development" evidence=IMP

GO:0048813 "dendrite morphogenesis" evidence=IMP

GO:0008544 "epidermis development" evidence=IMP

GO:0008586 "imaginal disc-derived wing vein morphogenesis" evidence=IMP

GO:0008587 "imaginal disc-derived wing margin morphogenesis" evidence=IMP

GO:0070983 "dendrite guidance" evidence=IMP

UNIPROTKB|B5MCL5 SMARCB1 "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1" [Homo sapiens (taxid:9606)]

 Score = 218 (81.8 bits), Expect = 6.8e-21, Sum P(2) = 6.8e-21
 Identities = 47/136 (34%), Positives = 83/136 (61%)

Query:    20 LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQL 78
             LVPIRLD+E +GQ+ +DAFTWN ++      +F++    DL L P  F+  IA +I+ Q+
Sbjct:   140 LVPIRLDMEIDGQKLRDAFTWNMNEKLMTPEMFSEILCDDLDLNPLTFVPAIASAIRQQI 199

Query:    79 TEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIE 138
               + +    +  + ++++ IKL++ V +  + D F WD++  E+ PE+FA   C+++G+ 
Sbjct:   200 ESYPTDSILEDQSDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPEKFALKLCSELGLG 258

Query:   139 DPEVGPAVAFAIREQL 154
               E    +A++IR QL
Sbjct:   259 G-EFVTTIAYSIRGQL 273

GO:0000228 "nuclear chromosome" evidence=IEA

GO:0006338 "chromatin remodeling" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

RGD|1308761 Smarcb1 "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1" [Rattus norvegicus (taxid:10116)]

 Score = 218 (81.8 bits), Expect = 2.3e-20, Sum P(2) = 2.3e-20
 Identities = 47/136 (34%), Positives = 83/136 (61%)

Query:    20 LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQL 78
             LVPIRLD+E +GQ+ +DAFTWN ++      +F++    DL L P  F+  IA +I+ Q+
Sbjct:   177 LVPIRLDMEIDGQKLRDAFTWNMNEKLMTPEMFSEILCDDLDLNPLTFVPAIASAIRQQI 236

Query:    79 TEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIE 138
               + +    +  + ++++ IKL++ V +  + D F WD++  E+ PE+FA   C+++G+ 
Sbjct:   237 ESYPTDSILEDQSDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPEKFALKLCSELGLG 295

Query:   139 DPEVGPAVAFAIREQL 154
               E    +A++IR QL
Sbjct:   296 G-EFVTTIAYSIRGQL 310

GO:0001741 "XY body" evidence=ISO

GO:0001824 "blastocyst development" evidence=ISO

GO:0001835 "blastocyst hatching" evidence=ISO

GO:0002039 "p53 binding" evidence=ISO

GO:0003713 "transcription coactivator activity" evidence=ISO

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=ISO

GO:0005730 "nucleolus" evidence=ISO

GO:0006337 "nucleosome disassembly" evidence=ISO

GO:0006338 "chromatin remodeling" evidence=ISO

GO:0008150 "biological_process" evidence=ND

GO:0008285 "negative regulation of cell proliferation" evidence=ISO

GO:0016514 "SWI/SNF complex" evidence=ISO

GO:0030154 "cell differentiation" evidence=ISO

GO:0030957 "Tat protein binding" evidence=ISO

GO:0043923 "positive regulation by host of viral transcription" evidence=ISO

GO:0045090 "retroviral genome replication" evidence=ISO

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0051091 "positive regulation of sequence-specific DNA binding transcription factor activity" evidence=ISO

GO:0071564 "npBAF complex" evidence=ISO

GO:0071565 "nBAF complex" evidence=ISO

UNIPROTKB|Q5BIN2 SMARCB1 "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1" [Bos taurus (taxid:9913)]

 Score = 218 (81.8 bits), Expect = 2.8e-20, Sum P(2) = 2.8e-20
 Identities = 47/136 (34%), Positives = 83/136 (61%)

Query:    20 LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQL 78
             LVPIRLD+E +GQ+ +DAFTWN ++      +F++    DL L P  F+  IA +I+ Q+
Sbjct:   186 LVPIRLDMEIDGQKLRDAFTWNMNEKLMTPEMFSEILCDDLDLNPLTFVPAIASAIRQQI 245

Query:    79 TEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIE 138
               + +    +  + ++++ IKL++ V +  + D F WD++  E+ PE+FA   C+++G+ 
Sbjct:   246 ESYPTDSILEDQSDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPEKFALKLCSELGLG 304

Query:   139 DPEVGPAVAFAIREQL 154
               E    +A++IR QL
Sbjct:   305 G-EFVTTIAYSIRGQL 319

GO:0071565 "nBAF complex" evidence=ISS

GO:0071564 "npBAF complex" evidence=ISS

GO:0051091 "positive regulation of sequence-specific DNA binding transcription factor activity" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0045090 "retroviral genome replication" evidence=IEA

GO:0043923 "positive regulation by host of viral transcription" evidence=IEA

GO:0030957 "Tat protein binding" evidence=IEA

GO:0030154 "cell differentiation" evidence=IEA

GO:0016514 "SWI/SNF complex" evidence=IEA

GO:0008285 "negative regulation of cell proliferation" evidence=IEA

GO:0006338 "chromatin remodeling" evidence=IEA

GO:0006337 "nucleosome disassembly" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0003713 "transcription coactivator activity" evidence=IEA

GO:0002039 "p53 binding" evidence=IEA

GO:0001835 "blastocyst hatching" evidence=IEA

GO:0001741 "XY body" evidence=IEA

GO:0007399 "nervous system development" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0000228 "nuclear chromosome" evidence=IEA

UNIPROTKB|E2RMD3 SMARCB1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 218 (81.8 bits), Expect = 2.8e-20, Sum P(2) = 2.8e-20
 Identities = 47/136 (34%), Positives = 83/136 (61%)

Query:    20 LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQL 78
             LVPIRLD+E +GQ+ +DAFTWN ++      +F++    DL L P  F+  IA +I+ Q+
Sbjct:   186 LVPIRLDMEIDGQKLRDAFTWNMNEKLMTPEMFSEILCDDLDLNPLTFVPAIASAIRQQI 245

Query:    79 TEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIE 138
               + +    +  + ++++ IKL++ V +  + D F WD++  E+ PE+FA   C+++G+ 
Sbjct:   246 ESYPTDSILEDQSDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPEKFALKLCSELGLG 304

Query:   139 DPEVGPAVAFAIREQL 154
               E    +A++IR QL
Sbjct:   305 G-EFVTTIAYSIRGQL 319

GO:0006337 "nucleosome disassembly" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0003713 "transcription coactivator activity" evidence=IEA

GO:0002039 "p53 binding" evidence=IEA

GO:0001835 "blastocyst hatching" evidence=IEA

GO:0001741 "XY body" evidence=IEA

GO:0071565 "nBAF complex" evidence=IEA

GO:0071564 "npBAF complex" evidence=IEA

GO:0051091 "positive regulation of sequence-specific DNA binding transcription factor activity" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0045090 "retroviral genome replication" evidence=IEA

GO:0043923 "positive regulation by host of viral transcription" evidence=IEA

GO:0030957 "Tat protein binding" evidence=IEA

GO:0030154 "cell differentiation" evidence=IEA

GO:0016514 "SWI/SNF complex" evidence=IEA

GO:0008285 "negative regulation of cell proliferation" evidence=IEA

GO:0006338 "chromatin remodeling" evidence=IEA

GO:0000228 "nuclear chromosome" evidence=IEA

UNIPROTKB|Q12824 SMARCB1 "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1" [Homo sapiens (taxid:9606)]

 Score = 218 (81.8 bits), Expect = 2.8e-20, Sum P(2) = 2.8e-20
 Identities = 47/136 (34%), Positives = 83/136 (61%)

Query:    20 LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQL 78
             LVPIRLD+E +GQ+ +DAFTWN ++      +F++    DL L P  F+  IA +I+ Q+
Sbjct:   186 LVPIRLDMEIDGQKLRDAFTWNMNEKLMTPEMFSEILCDDLDLNPLTFVPAIASAIRQQI 245

Query:    79 TEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIE 138
               + +    +  + ++++ IKL++ V +  + D F WD++  E+ PE+FA   C+++G+ 
Sbjct:   246 ESYPTDSILEDQSDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPEKFALKLCSELGLG 304

Query:   139 DPEVGPAVAFAIREQL 154
               E    +A++IR QL
Sbjct:   305 G-EFVTTIAYSIRGQL 319

GO:0000228 "nuclear chromosome" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0007399 "nervous system development" evidence=IEA

GO:0019048 "virus-host interaction" evidence=IEA

GO:0001741 "XY body" evidence=IEA

GO:0001835 "blastocyst hatching" evidence=IEA

GO:0008285 "negative regulation of cell proliferation" evidence=IEA

GO:0030154 "cell differentiation" evidence=IEA

GO:0016514 "SWI/SNF complex" evidence=IDA

GO:0071564 "npBAF complex" evidence=ISS

GO:0071565 "nBAF complex" evidence=ISS

GO:0005634 "nucleus" evidence=IDA

GO:0045090 "retroviral genome replication" evidence=IDA

GO:0005654 "nucleoplasm" evidence=TAS

GO:0015074 "DNA integration" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0051091 "positive regulation of sequence-specific DNA binding transcription factor activity" evidence=IDA

GO:0002039 "p53 binding" evidence=IPI

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IDA

GO:0003713 "transcription coactivator activity" evidence=IMP;NAS

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=NAS

GO:0006337 "nucleosome disassembly" evidence=IDA

GO:0006338 "chromatin remodeling" evidence=IDA

GO:0043923 "positive regulation by host of viral transcription" evidence=IMP

GO:0030957 "Tat protein binding" evidence=IPI

GO:0005730 "nucleolus" evidence=IDA

UNIPROTKB|F2Z4X9 SMARCB1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 218 (81.8 bits), Expect = 2.8e-20, Sum P(2) = 2.8e-20
 Identities = 47/136 (34%), Positives = 83/136 (61%)

Query:    20 LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQL 78
             LVPIRLD+E +GQ+ +DAFTWN ++      +F++    DL L P  F+  IA +I+ Q+
Sbjct:   186 LVPIRLDMEIDGQKLRDAFTWNMNEKLMTPEMFSEILCDDLDLNPLTFVPAIASAIRQQI 245

Query:    79 TEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIE 138
               + +    +  + ++++ IKL++ V +  + D F WD++  E+ PE+FA   C+++G+ 
Sbjct:   246 ESYPTDSILEDQSDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPEKFALKLCSELGLG 304

Query:   139 DPEVGPAVAFAIREQL 154
               E    +A++IR QL
Sbjct:   305 G-EFVTTIAYSIRGQL 319

GO:0071565 "nBAF complex" evidence=IEA

GO:0071564 "npBAF complex" evidence=IEA

GO:0051091 "positive regulation of sequence-specific DNA binding transcription factor activity" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0045090 "retroviral genome replication" evidence=IEA

GO:0043923 "positive regulation by host of viral transcription" evidence=IEA

GO:0030957 "Tat protein binding" evidence=IEA

GO:0030154 "cell differentiation" evidence=IEA

GO:0016514 "SWI/SNF complex" evidence=IEA

GO:0008285 "negative regulation of cell proliferation" evidence=IEA

GO:0006338 "chromatin remodeling" evidence=IEA

GO:0006337 "nucleosome disassembly" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0003713 "transcription coactivator activity" evidence=IEA

GO:0002039 "p53 binding" evidence=IEA

GO:0001835 "blastocyst hatching" evidence=IEA

GO:0001741 "XY body" evidence=IEA

GO:0000228 "nuclear chromosome" evidence=IEA

MGI|MGI:1328366 Smarcb1 "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1" [Mus musculus (taxid:10090)]

 Score = 218 (81.8 bits), Expect = 2.8e-20, Sum P(2) = 2.8e-20
 Identities = 47/136 (34%), Positives = 83/136 (61%)

Query:    20 LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQL 78
             LVPIRLD+E +GQ+ +DAFTWN ++      +F++    DL L P  F+  IA +I+ Q+
Sbjct:   186 LVPIRLDMEIDGQKLRDAFTWNMNEKLMTPEMFSEILCDDLDLNPLTFVPAIASAIRQQI 245

Query:    79 TEFRSYEGQDMYTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIE 138
               + +    +  + ++++ IKL++ V +  + D F WD++  E+ PE+FA   C+++G+ 
Sbjct:   246 ESYPTDSILEDQSDQRVI-IKLNIHVGNISLVDQFEWDMSEKENSPEKFALKLCSELGLG 304

Query:   139 DPEVGPAVAFAIREQL 154
               E    +A++IR QL
Sbjct:   305 G-EFVTTIAYSIRGQL 319

GO:0000228 "nuclear chromosome" evidence=IEA

GO:0001741 "XY body" evidence=IDA

GO:0001824 "blastocyst development" evidence=IMP

GO:0001835 "blastocyst hatching" evidence=IMP

GO:0002039 "p53 binding" evidence=ISO

GO:0003713 "transcription coactivator activity" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0006281 "DNA repair" evidence=IBA

GO:0006337 "nucleosome disassembly" evidence=ISO;IBA

GO:0006338 "chromatin remodeling" evidence=ISO

GO:0006351 "transcription, DNA-dependent" evidence=IEA

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

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IBA

GO:0007049 "cell cycle" evidence=IEA

GO:0007399 "nervous system development" evidence=IEA

GO:0008285 "negative regulation of cell proliferation" evidence=IMP

GO:0016514 "SWI/SNF complex" evidence=ISO;IDA

GO:0016568 "chromatin modification" evidence=IEA

GO:0030154 "cell differentiation" evidence=IMP

GO:0030957 "Tat protein binding" evidence=ISO

GO:0043044 "ATP-dependent chromatin remodeling" evidence=IBA

GO:0043923 "positive regulation by host of viral transcription" evidence=ISO

GO:0044772 "mitotic cell cycle phase transition" evidence=IBA

GO:0045090 "retroviral genome replication" evidence=ISO

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0051091 "positive regulation of sequence-specific DNA binding transcription factor activity" evidence=ISO

GO:0071564 "npBAF complex" evidence=IDA

GO:0071565 "nBAF complex" evidence=IDA

---

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)
P93045	BSH_ARATH	No assigned EC number	0.7583	1.0	0.9875	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:
	GSVIVG00019740001	SubName- Full=Chromosome chr5 scaffold_2, whole genome shotgun sequence; (243 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00002934001	SubName- Full=Chromosome chr18 scaffold_137, whole genome shotgun sequence; (486 aa)					•		•		0.679
	GSVIVG00017977001	SubName- Full=Chromosome chr17 scaffold_16, whole genome shotgun sequence; (551 aa)					•		•		0.623

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	237
pfam04855	228	pfam04855, SNF5, SNF5 / SMARCB1 / INI1	2e-38
pfam04855	228	pfam04855, SNF5, SNF5 / SMARCB1 / INI1	4e-12
pfam04855	228	pfam04855, SNF5, SNF5 / SMARCB1 / INI1	1e-07

>gnl|CDD|218293 pfam04855, SNF5, SNF5 / SMARCB1 / INI1

 Score =  133 bits (336), Expect = 2e-38
 Identities = 72/238 (30%), Positives = 106/238 (44%), Gaps = 38/238 (15%)

Query: 20  LVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPPQ-FITQIAQSIQTQL 78
           LVPIRLD+E +G + +D FTWN ++       FA+    DL LP   FI QI+ SI+ Q+
Sbjct: 9   LVPIRLDLELDGYKLRDTFTWNLNESLITPEEFAEILCEDLDLPNSPFIQQISSSIREQI 68

Query: 79  TEF---------RSYEGQDMYTAEKI-----VPIKLDLRVNHTLIKDHFLWDLNNYESDP 124
            E+            +     +A K      V IKL++ +    + D F WDLN+  + P
Sbjct: 69  EEYAGVALLPQLEPEDPDLPSSAYKNDDDLRVLIKLNINLGQQNLIDQFEWDLNDPPNTP 128

Query: 125 EEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKISKKGRRGAEHAISS 184
           EEFA   C D+G+   E   A+A +IREQL             +K  KK      H    
Sbjct: 129 EEFAEIMCADLGLSG-EFVTAIAHSIREQL-------------LKF-KKSLCELGHLFDG 173

Query: 185 KGG-GNALDLMKLFRYNSSVVRK----RKEWYVYEPIVDILSNEEVDALEAREDRNTR 237
                + +    L    +   R       EW    P ++ L++ E++  E   +RNTR
Sbjct: 174 SPIEDDEIRAAFLPGPLAGTRRDPDQLADEW---TPRLEELTDAEIERRERDRERNTR 228

SNF5 is a component of the yeast SWI/SNF complex, which is an ATP-dependent nucleosome-remodelling complex that regulates the transcription of a subset of yeast genes. SNF5 is a key component of all SWI/SNF-class complexes characterized so far. This family consists of the conserved region of SNF5, including a direct repeat motif. SNF5 is essential for the assembly promoter targeting and chromatin remodelling activity of the SWI-SNF complex. SNF5 is also known as SMARCB1, for SWI/SNF-related, matrix-associated, actin-dependent regulator of chromatin, subfamily b, member 1, and also INI1 for integrase interactor 1. Loss-of function mutations in SNF5 are thought to contribute to oncogenesis in malignant rhabdoid tumours (MRTs). Length = 228

>gnl|CDD|218293 pfam04855, SNF5, SNF5 / SMARCB1 / INI1

 Score = 63.1 bits (154), Expect = 4e-12
 Identities = 25/70 (35%), Positives = 41/70 (58%)

Query: 93  EKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIRE 152
           E +VPI+LDL ++   ++D F W+LN     PEEFA   C D+ + +      ++ +IRE
Sbjct: 7   EILVPIRLDLELDGYKLRDTFTWNLNESLITPEEFAEILCEDLDLPNSPFIQQISSSIRE 66

Query: 153 QLYEIAIQSV 162
           Q+ E A  ++
Sbjct: 67  QIEEYAGVAL 76

SNF5 is a component of the yeast SWI/SNF complex, which is an ATP-dependent nucleosome-remodelling complex that regulates the transcription of a subset of yeast genes. SNF5 is a key component of all SWI/SNF-class complexes characterized so far. This family consists of the conserved region of SNF5, including a direct repeat motif. SNF5 is essential for the assembly promoter targeting and chromatin remodelling activity of the SWI-SNF complex. SNF5 is also known as SMARCB1, for SWI/SNF-related, matrix-associated, actin-dependent regulator of chromatin, subfamily b, member 1, and also INI1 for integrase interactor 1. Loss-of function mutations in SNF5 are thought to contribute to oncogenesis in malignant rhabdoid tumours (MRTs). Length = 228

>gnl|CDD|218293 pfam04855, SNF5, SNF5 / SMARCB1 / INI1

 Score = 50.4 bits (121), Expect = 1e-07
 Identities = 25/70 (35%), Positives = 35/70 (50%)

Query: 9   SKAPVKPTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPPQFIT 68
             +  K   D  V I+L+I    Q   D F W+ +DP +    FA+    DL L  +F+T
Sbjct: 88  PSSAYKNDDDLRVLIKLNINLGQQNLIDQFEWDLNDPPNTPEEFAEIMCADLGLSGEFVT 147

Query: 69  QIAQSIQTQL 78
            IA SI+ QL
Sbjct: 148 AIAHSIREQL 157

SNF5 is a component of the yeast SWI/SNF complex, which is an ATP-dependent nucleosome-remodelling complex that regulates the transcription of a subset of yeast genes. SNF5 is a key component of all SWI/SNF-class complexes characterized so far. This family consists of the conserved region of SNF5, including a direct repeat motif. SNF5 is essential for the assembly promoter targeting and chromatin remodelling activity of the SWI-SNF complex. SNF5 is also known as SMARCB1, for SWI/SNF-related, matrix-associated, actin-dependent regulator of chromatin, subfamily b, member 1, and also INI1 for integrase interactor 1. Loss-of function mutations in SNF5 are thought to contribute to oncogenesis in malignant rhabdoid tumours (MRTs). Length = 228

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	237
PF04855	244	SNF5: SNF5 / SMARCB1 / INI1; InterPro: IPR006939 S	100.0
KOG1649	397	consensus SWI-SNF chromatin remodeling complex, Sn	100.0
PF04855	244	SNF5: SNF5 / SMARCB1 / INI1; InterPro: IPR006939 S	99.72
KOG1649	397	consensus SWI-SNF chromatin remodeling complex, Sn	99.72
PF09070	116	PFU: PFU (PLAA family ubiquitin binding); InterPro	88.5

>PF04855 SNF5: SNF5 / SMARCB1 / INI1; InterPro: IPR006939 SNF5 is a component of the yeast SWI/SNF complex, which is an ATP-dependent nucleosome-remodelling complex that regulates the transcription of a subset of yeast genes

Probab=100.00  E-value=1.7e-66  Score=461.99  Aligned_cols=207  Identities=36%  Similarity=0.556  Sum_probs=179.9

Q ss_pred             CCCceeeeeEEEeee-CCcEEEEEEEecCCCCCCCHHHHHHHHHHHcCCChH-HHHHHHHHHHHHHHHhhcccCCcc---
Q 026518           15 PTADNLVPIRLDIET-EGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPPQ-FITQIAQSIQTQLTEFRSYEGQDM---   89 (237)
Q Consensus        15 ~~~e~LVPIrLd~e~-~~~rlrD~F~WNlne~~itpe~FA~~lc~Dl~lp~~-~~~~I~~sI~~Qi~ey~~~~~~~~---   89 (237)
                      ..++.|||||||||+ +|+||||+|+||+||+++|||+||++||+||+||+. |+++|++||++||++|+.+...++   
T Consensus         4 ~~~e~LVPIRLdie~~~~~klrD~FlWNlne~~itpe~FA~~lc~Dl~lp~~~~~~~I~~sI~~Qi~e~~~~a~~~l~~~   83 (244)
T PF04855_consen    4 ELPENLVPIRLDIEIRDGYKLRDTFLWNLNEPLITPEEFAEILCEDLDLPPSFFVQQIANSIREQIEEYASVAAHPLFQN   83 (244)
T ss_pred             cCCceeeeEEEEeecCCCceEEEEEEeeCCCCCCCHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHHHHhhhhhhhccc
Confidence            678999999999999 999999999999999999999999999999999986 699999999999999998744322   


Q ss_pred             --------------------------CCCceeeeeEEEEEeCCeeeeeceeecCCCCCCCHHHHHHHHHHHcCCCCCChH
Q 026518           90 --------------------------YTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIEDPEVG  143 (237)
Q Consensus        90 --------------------------~~~e~~v~I~Ldi~~~~~~l~D~FeWdL~~~~~tPE~FA~~lc~DLgL~~~ef~  143 (237)
                                                ..++++|+|+|||++|++.|+|+|||||+++.++||+||+++|+||||+ +||+
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rv~I~LdI~ig~~~l~DqFEWDL~~~~~~PE~FA~~~c~dLgL~-~Ef~  162 (244)
T PF04855_consen   84 PEMEPSEKRLDPEDPYTAFADSSLGSPDDDLRVIIKLDITIGNHLLVDQFEWDLSNPPNSPEEFARVLCADLGLP-GEFV  162 (244)
T ss_pred             cccccccccccccccccccccccccCCCCceEEEEEEEEEECCEEEEEEEEecCCCCCCCHHHHHHHHHHHcCCc-HHHH
Confidence                                      1258999999999999999999999999999999999999999999999 5999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhHhhhhhccCCCCCccccCcCCCCchhhhhhh--hcccccccc-CccccCcccceeeec
Q 026518          144 PAVAFAIREQLYEIAIQSVASAREIKISKKGRRGAEHAISSKGGGNALDLMKL--FRYNSSVVR-KRKEWYVYEPIVDIL  220 (237)
Q Consensus       144 ~aIa~sIreQl~~~~~~~~~~~~~~~i~~~g~~g~~~~~~~~~~~~~~d~~~~--~~~~~~v~r-~~~e~~~w~P~le~L  220 (237)
                      |||||||||||++|||+++..|         ..   +....   ....++...  ++++.+++| +..++++|+|+|++|
T Consensus       163 ~aIahsIrEq~~~~kK~~~~~g---------~~---~~~~~---~~~~~~~~~~~~~~~~~~~r~~~~~~~~w~P~le~L  227 (244)
T PF04855_consen  163 PAIAHSIREQLLKYKKELCESG---------YL---FDGSP---VEDDEIRNAFLPGPLAGVRRDPDNEADEWTPRLEEL  227 (244)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcc---------cc---cCCCC---cccchhhhhcccccccceeecCccchhhcCCchhhC
Confidence            9999999999999999998643         11   11100   011122222  356888999 778899999999999


Q ss_pred             CHHHHHHhhhhhhhccC
Q 026518          221 SNEEVDALEAREDRNTR  237 (237)
Q Consensus       221 s~~Eier~e~e~eR~~R  237 (237)
                      |.+||||+|+||||++|
T Consensus       228 s~eEier~e~ereR~~R  244 (244)
T PF04855_consen  228 SPEEIERREKERERESR  244 (244)
T ss_pred             CHHHHHHHHHHhhhhcC
Confidence            99999999999999998

SNF5 is a key component of all SWI/SNF-class complexes characterised so far []. This family consists of the conserved region of SNF5, including a direct repeat motif. SNF5 is essential for the assembly promoter targeting and chromatin remodelling activity of the SWI-SNF complex []. SNF5 is also known as SMARCB1, for SWI/SNF-related, matrix-associated, actin-dependent regulator of chromatin, subfamily b, member 1, and also INI1 for integrase interactor 1. Loss-of function mutations in SNF5 are thought to contribute to oncogenesis in malignant rhabdoid tumours (MRTs) [].; GO: 0006338 chromatin remodeling, 0000228 nuclear chromosome

>KOG1649 consensus SWI-SNF chromatin remodeling complex, Snf5 subunit [Chromatin structure and dynamics; Transcription]

Probab=100.00  E-value=4e-64  Score=462.25  Aligned_cols=200  Identities=40%  Similarity=0.604  Sum_probs=181.8

Q ss_pred             CCCCCceeeeeEEEeeeCCcEEEEEEEecCCCCCCCHHHHHHHHHHHcCCCh-HHHHHHHHHHHHHHHHhhcccCCccCC
Q 026518           13 VKPTADNLVPIRLDIETEGQRYKDAFTWNPSDPDSEVVVFAKRTVRDLKLPP-QFITQIAQSIQTQLTEFRSYEGQDMYT   91 (237)
Q Consensus        13 ~~~~~e~LVPIrLd~e~~~~rlrD~F~WNlne~~itpe~FA~~lc~Dl~lp~-~~~~~I~~sI~~Qi~ey~~~~~~~~~~   91 (237)
                      ..++++.|||||||||.+|+||||+|+||+||++||||+||+++|+||+||+ .|+++|++||++||++|+..++.+|..
T Consensus       170 ~~~~~e~lVPIRLDie~dg~klrDtFtWN~ndk~itpe~FAei~c~Dldl~~~~~v~qIa~sIq~Qied~~~~~~~~~~~  249 (397)
T KOG1649|consen  170 NAETPEVLVPIRLDIELDGQKLRDTFTWNKNDKLITPEMFAEILCKDLDLPPATFVTQIAQSIQQQIEDYEPDPAIEMNS  249 (397)
T ss_pred             hCCCCceeeeEEEeeecccchhhhhcccccCCccCCHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHhcCCCCcccccC
Confidence            3489999999999999999999999999999999999999999999999976 899999999999999999999999989


Q ss_pred             CceeeeeEEEEEeCCeeeeeceeecCCCCCCCHHHHHHHHHHHcCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHhhhhh
Q 026518           92 AEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSVASAREIKIS  171 (237)
Q Consensus        92 ~e~~v~I~Ldi~~~~~~l~D~FeWdL~~~~~tPE~FA~~lc~DLgL~~~ef~~aIa~sIreQl~~~~~~~~~~~~~~~i~  171 (237)
                      ++.+|+|||||++|+..|.|||||||+++.++||+||..+|.||||+ |||+|||||||||||++++|.++.+       
T Consensus       250 ~d~rviikLdi~vg~~~l~DQFeWdls~~~~~PEEFA~~lC~dLGL~-gEf~taIA~SIreql~~~~k~~~~~-------  321 (397)
T KOG1649|consen  250 GDLRVIIKLDINVGNLSLVDQFEWDLSNPENSPEEFATSLCQDLGLG-GEFVTAIAYSIREQLLWIKKTYAFS-------  321 (397)
T ss_pred             CceEEEEEEEEEeccceehhhheeccCCCCCCHHHHHHHHHHHhCCC-cchhHHHHHHHHHHHHHHHHHHHhc-------
Confidence            99999999999999999999999999999999999999999999999 5999999999999999999999853       


Q ss_pred             ccCCCCCccccCcCCCCchhhhhhhhccc-cccccCccccCcccceeeecCHHHHHHhhhhhhhccC
Q 026518          172 KKGRRGAEHAISSKGGGNALDLMKLFRYN-SSVVRKRKEWYVYEPIVDILSNEEVDALEAREDRNTR  237 (237)
Q Consensus       172 ~~g~~g~~~~~~~~~~~~~~d~~~~~~~~-~~v~r~~~e~~~w~P~le~Ls~~Eier~e~e~eR~~R  237 (237)
                          .|.+.+   .+          ++++ ....|...+++.|||+|++||.+||||+++++||++|
T Consensus       322 ----D~~~~d---~~----------p~~~~~~~~r~~~~~s~w~P~letlt~ae~ek~~~~~dR~~R  371 (397)
T KOG1649|consen  322 ----DGSPID---AA----------PLPTSDIRRRNDSEGSAWCPFLETLTDAEMEKKERDQDRNTR  371 (397)
T ss_pred             ----cCcccc---cc----------cccccCccccCcchhhhccchhhhccHHHHHHHhhhhHHHHH
Confidence                233221   11          2333 3356667788899999999999999999999999987

>PF04855 SNF5: SNF5 / SMARCB1 / INI1; InterPro: IPR006939 SNF5 is a component of the yeast SWI/SNF complex, which is an ATP-dependent nucleosome-remodelling complex that regulates the transcription of a subset of yeast genes

Probab=99.72  E-value=1.2e-17  Score=149.17  Aligned_cols=72  Identities=36%  Similarity=0.631  Sum_probs=66.6

Q ss_pred             CCceeeeeEEEEEe-CCeeeeeceeecCCCCCCCHHHHHHHHHHHcCCCCCChHHHHHHHHHHHHHHHHHHHH
Q 026518           91 TAEKIVPIKLDLRV-NHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAIQSV  162 (237)
Q Consensus        91 ~~e~~v~I~Ldi~~-~~~~l~D~FeWdL~~~~~tPE~FA~~lc~DLgL~~~ef~~aIa~sIreQl~~~~~~~~  162 (237)
                      ..+.+|||+|||.+ ++++|+|+|.||+|++.+|||+||.+||.||+||...|+++|+.+|++||.+|+..+.
T Consensus         5 ~~e~LVPIRLdie~~~~~klrD~FlWNlne~~itpe~FA~~lc~Dl~lp~~~~~~~I~~sI~~Qi~e~~~~a~   77 (244)
T PF04855_consen    5 LPENLVPIRLDIEIRDGYKLRDTFLWNLNEPLITPEEFAEILCEDLDLPPSFFVQQIANSIREQIEEYASVAA   77 (244)
T ss_pred             CCceeeeEEEEeecCCCceEEEEEEeeCCCCCCCHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHHHHhhhh
Confidence            46789999999999 9999999999999999999999999999999999634799999999999999987654

SNF5 is a key component of all SWI/SNF-class complexes characterised so far []. This family consists of the conserved region of SNF5, including a direct repeat motif. SNF5 is essential for the assembly promoter targeting and chromatin remodelling activity of the SWI-SNF complex []. SNF5 is also known as SMARCB1, for SWI/SNF-related, matrix-associated, actin-dependent regulator of chromatin, subfamily b, member 1, and also INI1 for integrase interactor 1. Loss-of function mutations in SNF5 are thought to contribute to oncogenesis in malignant rhabdoid tumours (MRTs) [].; GO: 0006338 chromatin remodeling, 0000228 nuclear chromosome

>KOG1649 consensus SWI-SNF chromatin remodeling complex, Snf5 subunit [Chromatin structure and dynamics; Transcription]

Probab=99.72  E-value=6.3e-18  Score=156.86  Aligned_cols=70  Identities=29%  Similarity=0.554  Sum_probs=65.6

Q ss_pred             CCCceeeeeEEEEEeCCeeeeeceeecCCCCCCCHHHHHHHHHHHcCCCCCChHHHHHHHHHHHHHHHHH
Q 026518           90 YTAEKIVPIKLDLRVNHTLIKDHFLWDLNNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAI  159 (237)
Q Consensus        90 ~~~e~~v~I~Ldi~~~~~~l~D~FeWdL~~~~~tPE~FA~~lc~DLgL~~~ef~~aIa~sIreQl~~~~~  159 (237)
                      ++.+.+|||+|||+++|++|+|+|.||.|++.+|||+||+++|+||+|+...|+++||.+|++||..|..
T Consensus       172 ~~~e~lVPIRLDie~dg~klrDtFtWN~ndk~itpe~FAei~c~Dldl~~~~~v~qIa~sIq~Qied~~~  241 (397)
T KOG1649|consen  172 ETPEVLVPIRLDIELDGQKLRDTFTWNKNDKLITPEMFAEILCKDLDLPPATFVTQIAQSIQQQIEDYEP  241 (397)
T ss_pred             CCCceeeeEEEeeecccchhhhhcccccCCccCCHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHhcCC
Confidence            3578999999999999999999999999999999999999999999997569999999999999998753

>PF09070 PFU: PFU (PLAA family ubiquitin binding); InterPro: IPR015155 The PFU (for PLAA family ubiquitin binding domain) is an ubiquitin binding domain with no homology to several known ubiquitin binding domains (e

Probab=88.50  E-value=1.3  Score=35.80  Aligned_cols=38  Identities=24%  Similarity=0.367  Sum_probs=30.2

Q ss_pred             EEecCCCCCCCHHHHHHHHHHHcCCChHHHHHHHHHHHHHH
Q 026518           38 FTWNPSDPDSEVVVFAKRTVRDLKLPPQFITQIAQSIQTQL   78 (237)
Q Consensus        38 F~WNlne~~itpe~FA~~lc~Dl~lp~~~~~~I~~sI~~Qi   78 (237)
                      .-.|.+|   .|..-|+.+|.+.+||..|..+|++-|.+..
T Consensus        73 LpyN~~d---nP~~aAq~Fi~~n~Lp~~yl~qI~~FI~~N~  110 (116)
T PF09070_consen   73 LPYNKGD---NPYEAAQKFIERNNLPQSYLDQIANFIIQNT  110 (116)
T ss_dssp             EEE-TTS----HHHHHHHHHHHHT--CCHHHHHHHHHHHHH
T ss_pred             CCccCCC---CHHHHHHHHHHHcCCCHHHHHHHHHHHHHcC
Confidence            4567777   7999999999999999999999999998864

g., UIM, NZF, UBA, UEV, UBP, or CUE domains). The PFU domain appears to be unique to the PLAA family of proteins. A single member of this family of proteins exists in every eukaryotic species examined. Each of these homologues possesses identical domain structure: an N-terminal domain containing seven WD40 repeats, a central PFU domain, and a C-terminal PUL domain, which directly binds to Cdc48, a member of the AAA-ATPase family of molecular chaperone []. In addition to ubiquitin, the PFU domain of DOA1 has been shown to bind to the SH3 domain []. Secondary structure predictions of the PFU domain suggest the presence of an extensive length of beta-sheet, N-terminal to an alpha-helical region []. Some proteins known to contain a PFU domain include: Saccharomyces cerevisiae DOA1 (UFD3, ZZZ4), involved in the ubiquitin conjugation pathway. DOA1 participates in the regulation of the ubiquitin conjugation pathway involving CDC48 by hindering multiubiquitination of substrates at the CDC48 chaperone. Schizosaccharomyces pombe ubiquitin homeostasis protein Lub1, acts as a negative regulator of vacuole-dependent ubiquitin degradation. Mammalian phospholipase A-2-activating protein (PLA2P, PLAA), the homologue of DOA1. PLA2P plays an important role in the regulation of specific inflammatory disease processes. ; PDB: 2K8B_B 2K8A_A 2K8C_B 2K89_A 3L3F_X 3PST_A 3PSP_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	237
2k89_A	80	PLA2P, PLAP, phospholipase A-2-activating protein;	92.88
2lru_A	98	Serine/threonine-protein kinase WNK1; autoinhibito	84.69

>2k89_A PLA2P, PLAP, phospholipase A-2-activating protein; ubiquitin binding, WD repeat, protein binding; NMR {Homo sapiens} PDB: 2k8a_A 2k8b_B 2k8c_B

Probab=92.88  E-value=0.27  Score=36.20  Aligned_cols=39  Identities=26%  Similarity=0.365  Sum_probs=34.9

Q ss_pred             EEecCCCCCCCHHHHHHHHHHHcCCChHHHHHHHHHHHHHHH
Q 026518           38 FTWNPSDPDSEVVVFAKRTVRDLKLPPQFITQIAQSIQTQLT   79 (237)
Q Consensus        38 F~WNlne~~itpe~FA~~lc~Dl~lp~~~~~~I~~sI~~Qi~   79 (237)
                      .-.|.+|   .|-.-|+.+|++.+||..|..+|++-|.+...
T Consensus        33 LpyN~~d---nP~~aAqkFi~~n~Lp~~yldqI~~FI~~N~~   71 (80)
T 2k89_A           33 LPYNTSD---DPWLTAYNFLQKNDLNPMFLDQVAKFIIDNTK   71 (80)
T ss_dssp             EEECTTS---CHHHHHHHHHHHHTCCTTHHHHHHHHHHHHHS
T ss_pred             cCccCCC---CHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence            4578888   79999999999999999999999999998654

>2lru_A Serine/threonine-protein kinase WNK1; autoinhibitory domain, PF2 domain, transferase; NMR {Rattus norvegicus}

Probab=84.69  E-value=0.2  Score=38.28  Aligned_cols=45  Identities=22%  Similarity=0.272  Sum_probs=39.0

Q ss_pred             ceeecCCCCCCCHHHHHHHHHHHcCCCCCChHHHHHHHHHHHHHHHHH
Q 026518          112 HFLWDLNNYESDPEEFARTFCNDMGIEDPEVGPAVAFAIREQLYEIAI  159 (237)
Q Consensus       112 ~FeWdL~~~~~tPE~FA~~lc~DLgL~~~ef~~aIa~sIreQl~~~~~  159 (237)
                      +|..||..  .+|+.+|.-+|..+.|+ .+=...||..|+.++..+++
T Consensus        49 eF~Fdle~--Dta~eVA~EMVe~~~l~-e~D~~~VaklI~~~v~~~~r   93 (98)
T 2lru_A           49 EFSFDLER--DVPEDVAQEMVESGYVC-EGDHKTMAKAIKDRVSLIKR   93 (98)
Confidence            68899975  69999999999999999 47788999999999876654

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Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

No hit with probability above 80.00