Citrus Sinensis ID: 018492

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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-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-----
Protein Sequence
MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHPTPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQFPQELNFSQPQPSQAAAPPPQPHSNVSKAEAFPQISAEVAKENPPVGAKRRGGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLEPTKESSKRFKPDAESTTEGMESGPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHFLRQS
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHccccccHHcHHHHHHHHHHHHcccccHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccHHHHHHHccccccHHHHHHHHHHHHHHcccccccccccEEccHHHHHHHcccccHHHHHHHHHHHccccccccccccccccccccccccccccccccccHHHHHHHHHccccccHHHHHHHHHHHHHHHHcccccccccccEEccHHHHHHHccccccHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccHHHHHHHHHHHHHHccccccccccEEEccHHHHHHHccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHccccccccHHHHHHHHHHHHHHccccccccccEEEEcHHHHHHHcccccccEEHHHHHcccccEccc
Coil and Loop (DISEMBL)
MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKlgldlshkagfIRDQISLLlrshptpqqvatntqpqpqpqpqqlppkdhftlqhhpqfslppqqfpphfalhhphphlpqfpqelnfsqpqpsqaaapppqphsnvskaeafpqisaevakenppvgakrrggpgglnkvcgvspelqavvgqpamprTEIVKQLWAYIRKnnlqdpsnkrkiicddalRVVFETDCTDMFKMNKLLAKhiipleptkesskrfkpdaesttegmesgpsSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNhledplnsMVILCDAKLRELLGCESISALGIQEMLARNHFLRQS
Flexible Loop (DISEMBL)
MVSDQEIAKGVetllrqsdrnastSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHPTPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQFPQELNFSQPQPSQAAAPPPQPHSNVSKAEAFPQISaevakenppvgakRRGGPGGLNKVCGVSPELqavvgqpampRTEIVKQLWAYIRknnlqdpsnkrkiicDDALRVVFETDCTDMFKMNKLLAKhiipleptkesskrfkpdaesttegmesgpssVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHFLRQS
Low Complexity Region (SEG)
MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHptpqqvatntqpqpqpqpqqlppKDHFTlqhhpqfslppqqfpphfalhhphphlpqfpqELNFsqpqpsqaaapppqpHSNVSKAEAFPQISAEVAKENPPVGAKRRGGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLEPTKESSKRFKPDAESTTEGMESGPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHFLRQS
Disordered region (IsUnstruct)
***************************GVVKQLEAKLGLDLSHKAGFIRDQISLLL**********************************************************************************************************************KVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIP****************************VIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNH*****
Disordered Region (DISOPRED)
MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISL***************************************************************************************************************************GVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLEPTKESSKRFK**AESTTEGMESGPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHF****
Disordered Region (DISEMBL)
MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHPT******************LPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQFPQELN*********************KAEAFPQISAEVAKENPPVGAKRRGGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLEPT**********************SSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHFLRQS
Disordered Region (DISPRO)
******IAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRS*******************************************************************************************************************NKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPL******************************SEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHFL***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHPTPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQFPQELNFSQPQPSQAAAPPPQPHSNVSKAEAFPQISAEVAKENPPVGAKRRGGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLEPTKESSKRFKPDAESTTEGMESGPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHFLRQS
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	355	2.2.26 [Sep-21-2011]
O74503	233	Upstream activation facto	yes	no	0.247	0.377	0.445	4e-14
Q08747	228	Upstream activation facto	yes	no	0.205	0.320	0.434	6e-13
Q05024	226	Protein TRI1 OS=Saccharom	no	no	0.287	0.451	0.392	7e-12
Q9P7S3	425	SWI/SNF and RSC complexes	no	no	0.202	0.169	0.351	6e-05
Q2TBN1	515	SWI/SNF-related matrix-as	yes	no	0.340	0.234	0.220	9e-05
Q96GM5	515	SWI/SNF-related matrix-as	no	no	0.233	0.161	0.291	0.0001
Q61466	515	SWI/SNF-related matrix-as	yes	no	0.233	0.161	0.281	0.0002
Q196Z0	282	Putative SWIB domain-cont	N/A	no	0.284	0.358	0.324	0.0005
Q9FT92	553	Uncharacterized protein A	no	no	0.143	0.092	0.381	0.0008
Q9SIV5	1773	Zinc finger CCCH domain-c	no	no	0.154	0.031	0.366	0.0008

>sp|O74503|UAF30_SCHPO Upstream activation factor subunit spp27 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=spp27 PE=1 SV=1

 Score = 79.3 bits (194), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 41/92 (44%), Positives = 56/92 (60%), Gaps = 4/92 (4%)

Query: 157 KENPPVGAKRRGG--PGG--LNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQD 212
           KE+   G KR+    P    LNK   +SP+L   +G   + R + VK+LW YI+ ++LQD
Sbjct: 97  KEDGEEGGKRKRNQDPANNPLNKPMKLSPKLAEFLGLEQLSRPQTVKKLWEYIKAHDLQD 156

Query: 213 PSNKRKIICDDALRVVFETDCTDMFKMNKLLA 244
           P++KR I+CDD L+ VFE D   MF MNK L 
Sbjct: 157 PNDKRTILCDDKLKSVFEVDTLHMFTMNKYLT 188

Component of the UAF (upstream activation factor) complex which interacts with the upstream element of the RNA polymerase I promoter and forms a stable preinitiation complex. UAF seems to stimulate basal transcription to a fully activated level.
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q08747|UAF30_YEAST Upstream activation factor subunit UAF30 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=UAF30 PE=1 SV=1

 Score = 75.5 bits (184), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 33/76 (43%), Positives = 57/76 (75%), Gaps = 3/76 (3%)

Query: 179 VSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFK 238
           +S  L +++G+  + RTE+V++LWAYI+ +NLQ+P+NK++I+CD+ L ++     T+MF+
Sbjct: 126 LSKSLASLLGEHELTRTEVVRRLWAYIKAHNLQNPNNKKEILCDEKLELIL-GKSTNMFE 184

Query: 239 MNKLLAKHIIPLEPTK 254
           M+K+LA H+   EP K
Sbjct: 185 MHKILASHMT--EPKK 198

Nonessential component of the UAF (upstream activation factor) complex which interacts with the upstream element of the RNA polymerase I promoter and forms a stable preinitiation complex. Together with SPT15/TBP UAF seems to stimulate basal transcription to a fully activated level. UAF30 seems to play a role in silencing transcription by RNA polymerase II.

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

>sp|Q05024|TRI1_YEAST Protein TRI1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TRI1 PE=1 SV=1

 Score = 72.0 bits (175), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 42/107 (39%), Positives = 66/107 (61%), Gaps = 5/107 (4%)

Query: 172 GLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFET 231
            + KV   +P LQ  +G   +PRT++VK +W YI++++LQ+P ++R+I+CD+ +  +F  
Sbjct: 120 SVRKVLLSAP-LQKFLGSEELPRTQVVKMIWQYIKEHDLQNPKDRREILCDEKMEPIFGK 178

Query: 232 DCTDMFKMNKLLAKHII-PLEPTK-ESSKRFKPDAESTTEGMESGPS 276
             T MF MNKLL KH+  P E  K E  ++  P+ E   E  ES P+
Sbjct: 179 KMT-MFSMNKLLTKHLFNPDEIVKHEEEQKQTPEKEIKLEN-ESLPN 223

May be involved in transcription regulation.

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

>sp|Q9P7S3|SSR3_SCHPO SWI/SNF and RSC complexes subunit ssr3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ssr3 PE=1 SV=1

 Score = 48.9 bits (115), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 26/74 (35%), Positives = 41/74 (55%)

Query: 179 VSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFK 238
           +S     ++G     R +IV  LW YI+ + LQD   KR I CD ALR +FE D     +
Sbjct: 208 LSKAFANILGIREGTRPDIVSYLWQYIKFHRLQDMEEKRLINCDKALRDLFEADRLYFPR 267

Query: 239 MNKLLAKHIIPLEP 252
           + +L+ + + P++P
Sbjct: 268 IPELMNRFLEPIDP 281

Component of the chromatin structure remodeling complex (RSC), which is involved in transcription regulation and nucleosome positioning. Controls particularly membrane and organelle development genes. Part of the SWI/SNF complex, an ATP-dependent chromatin remodeling complex, 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.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q2TBN1|SMRD1_BOVIN SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1 OS=Bos taurus GN=SMARCD1 PE=2 SV=1

 Score = 48.1 bits (113), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 32/145 (22%), Positives = 62/145 (42%), Gaps = 24/145 (16%)

Query: 170 PGGLNKVCGV-------------SPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNK 216
           PG +N  C V              P L  ++G     R  I++ LW YI+ + LQDP  +
Sbjct: 275 PGDVNVRCTVLLMLDYQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHER 334

Query: 217 RKIICDDALRVVFETDCTDMFKMNK-----------LLAKHIIPLEPTKESSKRFKPDAE 265
             +ICD  L+ +FE+      ++ +           ++  H+I ++P  +         E
Sbjct: 335 EFVICDKYLQQIFESQRMKFSEIPQRLHALLMPPEPIIINHVISVDPNDQKKTACYDIDE 394

Query: 266 STTEGMESGPSSVIISEALAKFLGT 290
              + +++  +S ++S A  + + T
Sbjct: 395 EVDDTLKTQMNSFLLSTASQQEIAT 419

Involved in chromatin remodeling. Has a strong influence on the Vitamin D-mediated transcriptional activity from an enhancer Vitamin D receptor element (VDRE). May be a link between mammalian SWI-SNF-like chromatin remodeling complexes and the vitamin D receptor (VDR) heterodimer. Mediates critical interactions between nuclear receptors and the BRG1/SMARCA4 chromatin-remodeling complex for transactivation. 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|Q96GM5|SMRD1_HUMAN SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1 OS=Homo sapiens GN=SMARCD1 PE=1 SV=2

 Score = 48.1 bits (113), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 28/96 (29%), Positives = 45/96 (46%), Gaps = 13/96 (13%)

Query: 170 PGGLNKVCGV-------------SPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNK 216
           PG +N  C V              P L  ++G     R  I++ LW YI+ + LQDP  +
Sbjct: 275 PGDVNVRCTVLLMLDYQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHER 334

Query: 217 RKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLEP 252
             +ICD  L+ +FE+      ++ + L   ++P EP
Sbjct: 335 EFVICDKYLQQIFESQRMKFSEIPQRLHALLMPPEP 370

Involved in chromatin remodeling. 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). Has a strong influence on the Vitamin D-mediated transcriptional activity from an enhancer Vitamin D receptor element (VDRE). May be a link between mammalian SWI-SNF-like chromatin remodeling complexes and the vitamin D receptor (VDR) heterodimer. Mediates critical interactions between nuclear receptors and the BRG1/SMARCA4 chromatin-remodeling complex for transactivation. 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|Q61466|SMRD1_MOUSE SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1 OS=Mus musculus GN=Smarcd1 PE=1 SV=3

 Score = 47.0 bits (110), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 27/96 (28%), Positives = 45/96 (46%), Gaps = 13/96 (13%)

Query: 170 PGGLNKVCGV-------------SPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNK 216
           PG +N  C V              P L  ++G     R  I++ LW YI+ + LQDP  +
Sbjct: 275 PGDVNVRCTVLLMLDYQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHER 334

Query: 217 RKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLEP 252
             ++CD  L+ +FE+      ++ + L   ++P EP
Sbjct: 335 EFVLCDKYLQQIFESQRMKFSEIPQRLHALLMPPEP 370

Involved in chromatin remodeling. Has a strong influence on the Vitamin D-mediated transcriptional activity from an enhancer Vitamin D receptor element (VDRE). May be a link between mammalian SWI-SNF-like chromatin remodeling complexes and the vitamin D receptor (VDR) heterodimer. Mediates critical interactions between nuclear receptors and the BRG1/SMARCA4 chromatin-remodeling complex for transactivation. 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|Q196Z0|VF306_IIV3 Putative SWIB domain-containing protein 070L OS=Invertebrate iridescent virus 3 GN=IIV3-070L PE=3 SV=1

 Score = 45.8 bits (107), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 38/117 (32%), Positives = 52/117 (44%), Gaps = 16/117 (13%)

Query: 233 CTDMFKMNKLLAKHIIPLEPTKESSKRFKPDA--ESTTEGMESGPSSVIISEALAKFLG- 289
           C D     K L K+          + R++P    ES   G+E      +ISEA+A F   
Sbjct: 67  CKDAKDAKKFLEKY---------KNIRYRPKRTRESHNTGLEK---PRMISEAMATFADW 114

Query: 290 -TGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEM 345
             G  E  + + TK +  YIK N L D  N  +IL DAKL++LL  +    L    M
Sbjct: 115 EYGKTEKSRYDVTKYLCAYIKDNDLRDASNKTIILPDAKLKKLLQVDDSVVLKYPTM 171

Psorophora ferox (taxid: 7183)

>sp|Q9FT92|Y5843_ARATH Uncharacterized protein At5g08430 OS=Arabidopsis thaliana GN=At5g08430 PE=1 SV=2

 Score = 45.1 bits (105), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 31/55 (56%)

Query: 192 MPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKH 246
           + R ++   +  YI K  L DPSNK+K++CD  L ++F T      K+  LL KH
Sbjct: 52  ISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKH 106

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SIV5|C3H19_ARATH Zinc finger CCCH domain-containing protein 19 OS=Arabidopsis thaliana GN=NERD PE=1 SV=3

 Score = 45.1 bits (105), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%)

Query: 192 MPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLE 251
           +P  E+   L AYI++ NL+DP  K ++ICD  L+ +F       F+M  LL  H +  E
Sbjct: 827 LPMLEVQTLLLAYIKRYNLRDPRRKSQVICDSRLQNLFGKSHVGHFEMLNLLDSHFLKKE 886

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	355
255559072	397	brg-1 associated factor, putative [Ricin	0.971	0.869	0.672	1e-137
359495550	344	PREDICTED: uncharacterized protein LOC10	0.940	0.970	0.684	1e-129
225469998	347	PREDICTED: uncharacterized protein LOC10	0.940	0.962	0.673	1e-128
147816096	339	hypothetical protein VITISV_022315 [Viti	0.926	0.970	0.673	1e-125
356562640	329	PREDICTED: uncharacterized protein LOC10	0.904	0.975	0.661	1e-118
118485716	385	unknown [Populus trichocarpa]	0.983	0.906	0.621	1e-118
224086383	421	predicted protein [Populus trichocarpa]	0.952	0.802	0.614	1e-112
356522045	332	PREDICTED: uncharacterized protein LOC10	0.898	0.960	0.654	1e-111
255645561	332	unknown [Glycine max]	0.895	0.957	0.645	1e-108
225460811	331	PREDICTED: uncharacterized protein LOC10	0.923	0.990	0.597	1e-103

>gi|255559072|ref|XP_002520558.1| brg-1 associated factor, putative [Ricinus communis] gi|223540218|gb|EEF41791.1| brg-1 associated factor, putative [Ricinus communis]

 Score =  494 bits (1271), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 269/400 (67%), Positives = 297/400 (74%), Gaps = 55/400 (13%)

Query: 1   MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHP 60
           MVSDQ+IAKGVET+LRQSD NA TSL+GVV+QLEAKLGLDLSHKAGFIRDQISLLLRSHP
Sbjct: 8   MVSDQDIAKGVETVLRQSDPNAVTSLDGVVQQLEAKLGLDLSHKAGFIRDQISLLLRSHP 67

Query: 61  TPQQVATNTQPQPQPQPQ-------------------QLPPKDHFTLQHHPQFSLPPQQF 101
           T    AT+T                             L  KDHF LQHHPQF    QQF
Sbjct: 68  TTVTTATSTSSSAVTHQPAPPPLQQQQQQPHLHPQNLHLSQKDHFALQHHPQF----QQF 123

Query: 102 PPHFALHHPHPHLPQ-----FPQELNFSQPQPSQAAAPPPQPHSNV-------------- 142
           P HFAL+  HPH        FPQ+LNF QPQ       P Q H++V              
Sbjct: 124 PAHFALNPHHPHHHHHHHQVFPQDLNFRQPQV------PAQTHASVPPQQHQQQRQQPPP 177

Query: 143 -SKAEAFPQ----ISAEVAKENPPVGAKRRGGPGGLNKVCGVSPELQAVVGQPAMPRTEI 197
            +K E F Q    + +E+ KE+ PVGAKRRGGPGGLNKVCGVSPELQA+VG+PA+PRTEI
Sbjct: 178 IAKNEVFSQNATPVPSELPKESAPVGAKRRGGPGGLNKVCGVSPELQAIVGEPALPRTEI 237

Query: 198 VKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLEPTKES- 256
           VKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLEPTKES 
Sbjct: 238 VKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLEPTKESA 297

Query: 257 -SKRFKPDAESTTEGMESGPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLED 315
            +KR K D ESTTE  E G S ++ISEALAKFLGTGGREM Q EA++RVWEYIKVN LED
Sbjct: 298 QAKRAKVDVESTTENAEPGASVIVISEALAKFLGTGGREMTQLEASRRVWEYIKVNRLED 357

Query: 316 PLNSMVILCDAKLRELLGCESISALGIQEMLARNHFLRQS 355
           PLNSMVILCDAKLRELLGCESISA+G++EMLAR+H  ++S
Sbjct: 358 PLNSMVILCDAKLRELLGCESISAVGVEEMLARHHLFKRS 397

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495550|ref|XP_003635018.1| PREDICTED: uncharacterized protein LOC100853436 [Vitis vinifera] gi|297741808|emb|CBI33113.3| unnamed protein product [Vitis vinifera]

 Score =  466 bits (1200), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 250/365 (68%), Positives = 272/365 (74%), Gaps = 31/365 (8%)

Query: 1   MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHP 60
           MVSDQ+IAKGVETLLRQS+ N+ TSLNGVVKQLEAKLGLDLSHKA FIRDQIS LLRSHP
Sbjct: 1   MVSDQDIAKGVETLLRQSEPNSFTSLNGVVKQLEAKLGLDLSHKAVFIRDQISFLLRSHP 60

Query: 61  TPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQFPQE 120
            P                 LPPKDHF LQ HPQF  P  Q P HFAL H  P     P++
Sbjct: 61  QP-----------------LPPKDHFALQQHPQFLSPHPQIPSHFALQHHRPP----PED 99

Query: 121 LNFSQP----QPSQAAAPPPQPHSNVSKAEAFPQISAEVA----KENPPVGAKRRGGPGG 172
           LNF  P    Q  Q    P     ++ K EAF Q +A VA    KE+ P   KRRGG GG
Sbjct: 100 LNFLYPLPQPQQHQPQTQPQPQPHHLPKGEAFLQNAASVAAQAPKESAPAAPKRRGGSGG 159

Query: 173 LNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETD 232
           LNKVCGVS ELQAVVG+P MPRT+IVKQLWAYIRKNNLQDPSNKRKIICDDALR+VFETD
Sbjct: 160 LNKVCGVSTELQAVVGEPTMPRTQIVKQLWAYIRKNNLQDPSNKRKIICDDALRLVFETD 219

Query: 233 CTDMFKMNKLLAKHIIPLEPTKESS--KRFKPDAESTTEGMESGPSSVIISEALAKFLGT 290
            TDMFKMNKLLAKHIIPLEP++ESS  KR K D ES TE  E+ PS V+IS+ALA F GT
Sbjct: 220 STDMFKMNKLLAKHIIPLEPSRESSQAKRLKVDVESATESSEASPSPVMISDALATFFGT 279

Query: 291 GGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNH 350
           G REMLQ EA +RVWEYIKVN LEDPLNSM ILCDAKLREL GCESISALG+ EMLAR+H
Sbjct: 280 GEREMLQEEALRRVWEYIKVNQLEDPLNSMAILCDAKLRELFGCESISALGVSEMLARHH 339

Query: 351 FLRQS 355
             ++S
Sbjct: 340 LFKRS 344

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225469998|ref|XP_002278125.1| PREDICTED: uncharacterized protein LOC100267408 [Vitis vinifera] gi|297741803|emb|CBI33108.3| unnamed protein product [Vitis vinifera]

 Score =  465 bits (1197), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 248/368 (67%), Positives = 273/368 (74%), Gaps = 34/368 (9%)

Query: 1   MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHP 60
           MVSDQ+IAKGVETLLRQS+ N+ TSLNG+VKQLEAKLGLDLSHKA FIRDQIS LLRSHP
Sbjct: 1   MVSDQDIAKGVETLLRQSEPNSFTSLNGIVKQLEAKLGLDLSHKAVFIRDQISFLLRSHP 60

Query: 61  TPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQFPQE 120
            P                 LPPKDHF LQ HPQF  P  Q P HFAL H  P     P++
Sbjct: 61  QP-----------------LPPKDHFALQQHPQFLSPHPQIPSHFALQHHRPP----PED 99

Query: 121 LNFSQP-------QPSQAAAPPPQPHSNVSKAEAFPQISAEVA----KENPPVGAKRRGG 169
           LNF  P         +Q    P     ++ K EAF Q +A VA    KE+ P  AKRRGG
Sbjct: 100 LNFLYPLPQPQPQTQTQPQPQPQTQPHHLPKGEAFLQNAASVAAQAPKESAPAAAKRRGG 159

Query: 170 PGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVF 229
            GGLNKVCGVS ELQAVVG+P MPRT+IVKQLWAYIRKNNLQDPSNKRKIICDDALR+VF
Sbjct: 160 SGGLNKVCGVSTELQAVVGEPTMPRTQIVKQLWAYIRKNNLQDPSNKRKIICDDALRLVF 219

Query: 230 ETDCTDMFKMNKLLAKHIIPLEPTKESS--KRFKPDAESTTEGMESGPSSVIISEALAKF 287
           ETD TDMFKMNKLLAKHIIPLEP++ESS  KR K D ES TE  E+ PS V+IS+ALA F
Sbjct: 220 ETDSTDMFKMNKLLAKHIIPLEPSRESSQAKRLKVDVESATESSEASPSPVMISDALATF 279

Query: 288 LGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLA 347
            GTG REMLQ EA +RVWEYIKVN LEDPLNSM ILCDAKL+EL GCESISALG+ EMLA
Sbjct: 280 FGTGEREMLQEEALRRVWEYIKVNQLEDPLNSMAILCDAKLQELFGCESISALGVSEMLA 339

Query: 348 RNHFLRQS 355
           R+H  ++S
Sbjct: 340 RHHLFKRS 347

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147816096|emb|CAN72895.1| hypothetical protein VITISV_022315 [Vitis vinifera]

 Score =  453 bits (1166), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 246/365 (67%), Positives = 268/365 (73%), Gaps = 36/365 (9%)

Query: 1   MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHP 60
           MVSDQ+IAKGVETLLRQS+ N+ TSLNGVVKQLEAKLGLDLSHKA FIRDQIS LLRSHP
Sbjct: 1   MVSDQDIAKGVETLLRQSEPNSFTSLNGVVKQLEAKLGLDLSHKAXFIRDQISFLLRSHP 60

Query: 61  TPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQFPQE 120
            P                 LPPKDHF LQ HPQF  P  Q P HFAL H  P     P++
Sbjct: 61  QP-----------------LPPKDHFALQQHPQFLSPHPQIPSHFALQHHRPP----PED 99

Query: 121 LNFSQP----QPSQAAAPPPQPHSNVSKAEAFPQISAEVA----KENPPVGAKRRGGPGG 172
           LNF  P    Q  Q    P     ++ K EAF Q +A VA    KE+ P   KRRGG GG
Sbjct: 100 LNFLYPLPQPQQHQPQTQPQPQPHHLPKGEAFLQNAASVAAQAPKESAPAAXKRRGGSGG 159

Query: 173 LNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETD 232
           LNKVCGVS ELQAVVG+P MPRT+IVKQLWAYIRKNNLQDPSNKRKIICDDALR+VFETD
Sbjct: 160 LNKVCGVSTELQAVVGEPTMPRTQIVKQLWAYIRKNNLQDPSNKRKIICDDALRLVFETD 219

Query: 233 CTDMFKMNKLLAKHIIPLEPTKESS--KRFKPDAESTTEGMESGPSSVIISEALAKFLGT 290
            TDMFKMNKLLAKHIIPLEP++ESS  KR K D ES TE  E+ PS V+IS+ALA F GT
Sbjct: 220 STDMFKMNKLLAKHIIPLEPSRESSQAKRLKVDVESATESSEASPSPVMISDALATFFGT 279

Query: 291 GGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNH 350
           G REMLQ EA +RVWEYIK     DPLNSM ILCDAKLREL GCESISALG+ EMLAR+H
Sbjct: 280 GEREMLQEEALRRVWEYIK-----DPLNSMAILCDAKLRELFGCESISALGVSEMLARHH 334

Query: 351 FLRQS 355
             ++S
Sbjct: 335 LFKRS 339

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356562640|ref|XP_003549577.1| PREDICTED: uncharacterized protein LOC100804281 [Glycine max]

 Score =  432 bits (1111), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 238/360 (66%), Positives = 266/360 (73%), Gaps = 39/360 (10%)

Query: 1   MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHP 60
           MV+DQ+IAKGVE+LLR SD N+ T++NGVV+QLEAKLGLDLSHKA FIRDQI  LLRS P
Sbjct: 1   MVTDQDIAKGVESLLRHSDPNSITTVNGVVQQLEAKLGLDLSHKASFIRDQIDHLLRSQP 60

Query: 61  TPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQFPQE 120
             Q  A      P P P     KD+F    H Q   P   F PHFALH           E
Sbjct: 61  --QTFA------PHPPPLH---KDYFA--PHTQLHFPTTHFAPHFALH----------DE 97

Query: 121 LNFSQ-PQPSQAAAPPPQPHSNVSKAEAFPQISA---EVAKENPPVGAKRRGGPGGLNKV 176
           +NF Q P P     PPP+      K E FP  +    +V KE+   G+KRRGG GGLNKV
Sbjct: 98  INFLQHPHP-----PPPR------KVETFPPQNVAPPQVPKESVQTGSKRRGGAGGLNKV 146

Query: 177 CGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDM 236
           CGVSPELQAVVG+PAMPRTEIV+QLWAYI+KNNLQDP NKRKIICDDALR+VFETDCTDM
Sbjct: 147 CGVSPELQAVVGEPAMPRTEIVRQLWAYIKKNNLQDPGNKRKIICDDALRLVFETDCTDM 206

Query: 237 FKMNKLLAKHIIPLEPTKES-SKRFKPDAESTTEGMESGPSSVIISEALAKFLGTGGREM 295
           FKMN+LLAKHIIPL PTKES +KR K D E  TE  E  PS+V ISEALAKFLGT GREM
Sbjct: 207 FKMNQLLAKHIIPLGPTKESQAKRVKVDTEIKTESAEPAPSTVAISEALAKFLGTEGREM 266

Query: 296 LQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHFLRQS 355
            Q+EA + VWEYIK++HLEDPLNSMVILCDAKL+ELLGCESISALGI EMLAR+H  +QS
Sbjct: 267 QQSEAIRLVWEYIKLHHLEDPLNSMVILCDAKLQELLGCESISALGIPEMLARHHLFKQS 326

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118485716|gb|ABK94708.1| unknown [Populus trichocarpa]

 Score =  431 bits (1107), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 243/391 (62%), Positives = 272/391 (69%), Gaps = 42/391 (10%)

Query: 1   MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHP 60
           MV+DQEIAKGVET+LRQ+D +A TSLNGVV+QLEAKLGLDLSHKA FIRDQI LLLRSHP
Sbjct: 1   MVTDQEIAKGVETVLRQADPSAVTSLNGVVQQLEAKLGLDLSHKAAFIRDQIDLLLRSHP 60

Query: 61  TPQQ--------VATNTQPQPQPQPQ--------QLPPKDHFTLQHHPQFSLPPQQFPPH 104
                       V T   P PQ Q           L PKDHF LQ   QF       P H
Sbjct: 61  ITTTASATAPASVTTTGHPPPQHQAFQFQQGQALNLTPKDHFALQFQQQF------HPSH 114

Query: 105 FALHHPHPHLPQ-----------FPQELNFSQPQPSQAAAPPPQPHSNVSKAEAFPQ--- 150
           FA+H  H H  Q           F Q+LNF QPQ       PP       +         
Sbjct: 115 FAIHPHHQHQHQHHPQQHHQHQVFSQDLNFRQPQAVVTPPAPPPQLQAQQQHRQTQHVQN 174

Query: 151 ---ISAEVAKEN-PPVGAKRRGGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIR 206
              ++ EVAKE+  PVG+KRRGGPGGLNKVCGVSPELQA+VG+PA+PRTEIVKQLW YIR
Sbjct: 175 AGVVTNEVAKESSAPVGSKRRGGPGGLNKVCGVSPELQAIVGEPALPRTEIVKQLWQYIR 234

Query: 207 KNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLEPTKESS--KRFKPDA 264
           KNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPL+P+KESS  KR K D 
Sbjct: 235 KNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLQPSKESSQAKRAKVDV 294

Query: 265 ESTTEGMESGPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILC 324
           E+ TE  E G S V ISE LA+FLGT  REM Q EA++RVWEYIK+  LEDPLNSM I C
Sbjct: 295 ETPTENTEPGASLVGISERLAEFLGTTEREMTQTEASRRVWEYIKLKQLEDPLNSMAIQC 354

Query: 325 DAKLRELLGCESISALGIQEMLARNHFLRQS 355
           D KLR+LLGCESISA+G+ E+LAR+H  ++S
Sbjct: 355 DTKLRDLLGCESISAVGVGEVLARHHLFKRS 385

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224086383|ref|XP_002307875.1| predicted protein [Populus trichocarpa] gi|222853851|gb|EEE91398.1| predicted protein [Populus trichocarpa]

 Score =  411 bits (1056), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 238/387 (61%), Positives = 263/387 (67%), Gaps = 49/387 (12%)

Query: 1   MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHP 60
           MV+DQEIAKGVET+LRQ+D +A TSLNGVV+QLEAKLGLDLSHKA FIRDQI LLLRSHP
Sbjct: 1   MVTDQEIAKGVETVLRQADPSAVTSLNGVVQQLEAKLGLDLSHKAAFIRDQIDLLLRSHP 60

Query: 61  TPQQ--------VATNTQPQPQPQPQ--------QLPPKDHFTLQHHPQFSLPPQQFPPH 104
                       V T   P PQ Q           L PKDHF LQ   QF       P H
Sbjct: 61  ITTTASATAPASVTTTGHPPPQHQAFQFQQGQALNLTPKDHFALQFQQQFH------PSH 114

Query: 105 FALHHPHPHLPQ-----------FPQELNFSQPQPSQAAAPPPQPHSNVSKAEAFPQ--- 150
           FA+H  H H  Q           F Q+LNF QPQ       PP       +         
Sbjct: 115 FAIHPHHQHQHQHHPQQHHQHQVFSQDLNFRQPQAVVTPPAPPPQLQAQQQHRQTQHVQN 174

Query: 151 ---ISAEVAKEN-PPVGAKRRGGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIR 206
              ++ EVAKE+  PVG+KRRGGPGGLNKVCGVSPELQA+VG+PA+PRTEIVKQLW YIR
Sbjct: 175 AGVVTNEVAKESSAPVGSKRRGGPGGLNKVCGVSPELQAIVGEPALPRTEIVKQLWQYIR 234

Query: 207 KNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLEPT-------KESS-- 257
           KNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPL+P+       KESS  
Sbjct: 235 KNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLQPSSMFYDNYKESSQA 294

Query: 258 KRFKPDAESTTEGMESGPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPL 317
           KR K D E+ TE  E G S V ISE LA+FLGT  REM Q EA++RVWEYIK+  LEDPL
Sbjct: 295 KRAKVDVETPTENTEPGASLVGISERLAEFLGTTEREMTQTEASRRVWEYIKLKQLEDPL 354

Query: 318 NSMVILCDAKLRELLGCESISALGIQE 344
           NSM I CD KLR+LLGCESISA+G+ E
Sbjct: 355 NSMAIQCDTKLRDLLGCESISAVGVGE 381

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356522045|ref|XP_003529660.1| PREDICTED: uncharacterized protein LOC100788173 [Glycine max]

 Score =  408 bits (1049), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 239/365 (65%), Positives = 266/365 (72%), Gaps = 46/365 (12%)

Query: 1   MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHP 60
           MV+DQ+IAKGVE+LLR SD N+ T++NGVV+QLEAKLGLDLSHKA FIRDQI  LLRS  
Sbjct: 1   MVTDQDIAKGVESLLRHSDPNSITTVNGVVQQLEAKLGLDLSHKASFIRDQIDHLLRS-- 58

Query: 61  TPQQVATNTQPQ---PQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQF 117
                    QPQ   P P P     KD+F    HPQ   P   FP HFALH         
Sbjct: 59  ---------QPQAFVPHPPPLH---KDYFA--PHPQPHFPTTHFPSHFALH--------- 95

Query: 118 PQELNFSQPQPSQAAAPPPQPHSNVSKAEAFPQISA------EVAKENPPVGAKRRGGPG 171
             E+NF Q       APPP       K E FP  +A      +V KE+   GAKRRGG G
Sbjct: 96  -DEINFQQ----HPRAPPP------CKVETFPPQNAHTVAPPQVPKESVQTGAKRRGGAG 144

Query: 172 GLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFET 231
           GLNKVCGVSPELQAVVG+PAMPRTEIV+QLWAYI+KNNLQDP NKRKIICDDALR+VFET
Sbjct: 145 GLNKVCGVSPELQAVVGEPAMPRTEIVRQLWAYIKKNNLQDPGNKRKIICDDALRLVFET 204

Query: 232 DCTDMFKMNKLLAKHIIPLEPTKES-SKRFKPDAESTTEGMESGPSSVIISEALAKFLGT 290
           DCTDMFKMN+LLAKHIIPL PTKES +KR K DAE   E  E   S+V+ISEALAKFLGT
Sbjct: 205 DCTDMFKMNQLLAKHIIPLGPTKESQAKRVKLDAEIKIESAEPASSTVVISEALAKFLGT 264

Query: 291 GGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNH 350
            GREM QAEA + VWEYIK++HLEDPLN+MVILCDAKL+ELLGCESISALGI EMLAR+H
Sbjct: 265 EGREMQQAEAIRLVWEYIKLHHLEDPLNAMVILCDAKLQELLGCESISALGIPEMLARHH 324

Query: 351 FLRQS 355
             +QS
Sbjct: 325 LFKQS 329

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255645561|gb|ACU23275.1| unknown [Glycine max]

 Score =  397 bits (1020), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 235/364 (64%), Positives = 261/364 (71%), Gaps = 46/364 (12%)

Query: 1   MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHP 60
           MV+DQ+IAKGVE+LLR SD N+ T++NGVV+QLEAKLGLDLSHKA FIRDQI  LLRS  
Sbjct: 1   MVTDQDIAKGVESLLRHSDPNSITTVNGVVQQLEAKLGLDLSHKASFIRDQIDHLLRS-- 58

Query: 61  TPQQVATNTQPQ---PQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQF 117
                    QPQ   P P P     KD+F    HPQ   P   FP HFALH         
Sbjct: 59  ---------QPQAFVPHPPPLH---KDYFA--PHPQPHFPTTHFPSHFALH--------- 95

Query: 118 PQELNFSQPQPSQAAAPPPQPHSNVSKAEAFPQISA------EVAKENPPVGAKRRGGPG 171
             E+NF Q       APPP       K E FP  +A      +V KE+   GAKRRGG G
Sbjct: 96  -DEINFQQ----HPRAPPP------CKVETFPPQNAHTVAPPQVPKESVQTGAKRRGGAG 144

Query: 172 GLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFET 231
           GLNKVCGVSPELQAVVG+PAMPRTEIV+QLWAYI+KNNLQDP NKRKIICDDALR+VFET
Sbjct: 145 GLNKVCGVSPELQAVVGEPAMPRTEIVRQLWAYIKKNNLQDPGNKRKIICDDALRLVFET 204

Query: 232 DCTDMFKMNKLLAKHIIPLEPTKES-SKRFKPDAESTTEGMESGPSSVIISEALAKFLGT 290
           DCTDMFKMN+LLAKHIIPL PTKES +KR K DAE   E  E    +V+I EALAKFLGT
Sbjct: 205 DCTDMFKMNQLLAKHIIPLGPTKESQAKRVKLDAEIKIESAEPASFTVVIFEALAKFLGT 264

Query: 291 GGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNH 350
            GREM QAEA + VWEYIK+ HLEDPLN+MVILCDAKL+ELLGCESI ALGI EMLAR+H
Sbjct: 265 EGREMQQAEAIRLVWEYIKLPHLEDPLNAMVILCDAKLQELLGCESIFALGIPEMLARHH 324

Query: 351 FLRQ 354
             +Q
Sbjct: 325 LFKQ 328

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225460811|ref|XP_002275854.1| PREDICTED: uncharacterized protein LOC100264067 [Vitis vinifera] gi|297737516|emb|CBI26717.3| unnamed protein product [Vitis vinifera]

 Score =  381 bits (979), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 214/358 (59%), Positives = 249/358 (69%), Gaps = 30/358 (8%)

Query: 1   MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHP 60
           MV+D+ IA+ +++L+R+S  +  TS+NGVV QLE+KLGL+LSHK  FIR QI L  +SH 
Sbjct: 1   MVTDEAIAEALDSLIRESTPSQFTSINGVVLQLESKLGLNLSHKLEFIRSQIHLFFQSHQ 60

Query: 61  TPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQFPQE 120
              Q      P  Q  P     KDHFTLQ    FS  P  F PH              ++
Sbjct: 61  PQSQPPPPQPPSQQQPP-----KDHFTLQQATNFSTGPPNFAPHRT------------ED 103

Query: 121 LNFSQPQPSQAAAPPPQPHSNVSKAEAFPQISAEVAKENPPVGAKRRGGPGGLNKVCGVS 180
           LNF +       A        V+  EA PQ SA         G KRRGGPGGLNKVCGVS
Sbjct: 104 LNFRRDPTPAPPAE--PTGGPVAVPEAPPQESARA-------GTKRRGGPGGLNKVCGVS 154

Query: 181 PELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMN 240
           PELQ +VGQPA+PRTEIVKQLWAYIR+NNLQDPSNKRKIIC+D LR+VFETD TDMFKMN
Sbjct: 155 PELQTIVGQPALPRTEIVKQLWAYIRRNNLQDPSNKRKIICNDELRLVFETDSTDMFKMN 214

Query: 241 KLLAKHIIPLEPTKES---SKRFKPDAESTTEGMESGPSSVIISEALAKFLGTGGREMLQ 297
           KLLAKHIIPLEPTK+S   SK+ K DA + T+  ESGP  V+ISEALA F GT GREMLQ
Sbjct: 215 KLLAKHIIPLEPTKQSGEQSKKLKVDAGAGTKSSESGP-YVVISEALANFFGTSGREMLQ 273

Query: 298 AEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHFLRQS 355
           +E  +RVWEYIKVNHLEDPLNSMVILCDAKL+E+ GCESISALGI E+L R+H  ++S
Sbjct: 274 SEVLRRVWEYIKVNHLEDPLNSMVILCDAKLQEIFGCESISALGIPEILMRHHLCKRS 331

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	355
TAIR|locus:2132055	385	AT4G22360 "AT4G22360" [Arabido	0.566	0.522	0.684	4.3e-92
TAIR|locus:2085894	462	AT3G19080 [Arabidopsis thalian	0.526	0.404	0.429	1.2e-47
TAIR|locus:2010197	372	AT1G49520 "AT1G49520" [Arabido	0.301	0.287	0.513	1.1e-33
UNIPROTKB|G4MMD0	285	MGG_01988 "Uncharacterized pro	0.309	0.385	0.363	1.4e-18
TAIR|locus:2116189	144	AT4G34290 "AT4G34290" [Arabido	0.270	0.666	0.408	1.3e-15
SGD|S000004846	226	TRI1 "Non-essential sumoylated	0.270	0.424	0.4	8.8e-15
POMBASE|SPCC285.17	233	spp27 "RNA polymerase I upstre	0.245	0.373	0.450	8.8e-15
TAIR|locus:2060469	141	AT2G14880 "AT2G14880" [Arabido	0.256	0.645	0.387	8.8e-15
SGD|S000005821	228	UAF30 "Subunit of UAF (upstrea	0.233	0.364	0.425	3.2e-14
TAIR|locus:505006294	109	AT2G35605 "AT2G35605" [Arabido	0.256	0.834	0.414	1.7e-13

TAIR|locus:2132055 AT4G22360 "AT4G22360" [Arabidopsis thaliana (taxid:3702)]

 Score = 726 (260.6 bits), Expect = 4.3e-92, Sum P(2) = 4.3e-92
 Identities = 143/209 (68%), Positives = 168/209 (80%)

Query:   154 EVAKENPPVGAKRRGGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDP 213
             +  KE+ P G KR+GGPGGLNKVC VSPEL+ VVG+PA+PRTEIV+QLWAYIRKNNLQDP
Sbjct:   178 QAPKESAPAGTKRKGGPGGLNKVCRVSPELEVVVGEPALPRTEIVRQLWAYIRKNNLQDP 237

Query:   214 SNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLEPTKES--SKRFKPDAES---TT 268
             SNKRKIICDDALRVVFETDCTDMFKMNKLLAKHI+PL+P+K+S  +K+ K + E+   TT
Sbjct:   238 SNKRKIICDDALRVVFETDCTDMFKMNKLLAKHILPLDPSKDSGQAKKAKTEVETKTETT 297

Query:   269 EGMESGP--SSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDA 326
             E + S    S+V +SE L KF GTG  EM   E  +RVWEYIK+N+LEDP+N M I CD 
Sbjct:   298 EPISSTAISSTVTLSEPLGKFFGTGETEMADEEIIRRVWEYIKLNNLEDPVNPMAIQCDE 357

Query:   327 KLRELLGCESISALGIQEMLARNHFLRQS 355
             KLR+LLGCESISA+GI EML R H  +QS
Sbjct:   358 KLRDLLGCESISAVGINEML-RRHMYKQS 385

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2085894 AT3G19080 [Arabidopsis thaliana (taxid:3702)]

 Score = 407 (148.3 bits), Expect = 1.2e-47, Sum P(2) = 1.2e-47
 Identities = 88/205 (42%), Positives = 124/205 (60%)

Query:   165 KRRGGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDA 224
             KR+GG GG  KVC +SPELQA  G   + RTE+VK LW YI++NNLQDP++KR IICD++
Sbjct:   257 KRKGG-GGFAKVCSLSPELQAFTGVTELARTEVVKLLWKYIKENNLQDPNDKRSIICDES 315

Query:   225 LRVVFETDCTDMFKMNKLLAKHIIPLEP------TKESSKRFKP------DAESTTEGME 272
              R +F  +  +MF+MNK L KHI PLE       + +S K  K       D+E   E  +
Sbjct:   316 FRSLFPVESINMFQMNKQLTKHIWPLEDNAGESVSSKSPKNGKQKMESDGDSEEPNEKDK 375

Query:   273 SGPSSVI----ISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKL 328
                  V+    +S+AL KFLG G   + +A+  KR+WEYI  N L+DP +   ++CD KL
Sbjct:   376 KQKKEVLAPLPLSDALVKFLGDGENSLSRADVVKRLWEYINHNDLQDPSDKRRVICDEKL 435

Query:   329 RELLGCESISALGIQEMLARNHFLR 353
             +EL   +S     + ++L  NHF++
Sbjct:   436 KELFEVDSFEDTSVSKLLT-NHFIK 459

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2010197 AT1G49520 "AT1G49520" [Arabidopsis thaliana (taxid:3702)]

 Score = 283 (104.7 bits), Expect = 1.1e-33, Sum P(2) = 1.1e-33
 Identities = 56/109 (51%), Positives = 73/109 (66%)

Query:   165 KRRGGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDA 224
             K++GG  G  KVC +SPELQA  G P + RTE+VK LW YI++NNLQDPS+KR IICD++
Sbjct:   245 KKKGG--GFTKVCSLSPELQAFTGTPQLARTEVVKMLWKYIKENNLQDPSDKRTIICDES 302

Query:   225 LRVVFETDCTDMFKMNKLLAKHIIPLEPTKESSKRFKPDAESTTEGMES 273
             LR +F  +  +MF+MNK LAKHI PL    E+     P+       ME+
Sbjct:   303 LRSLFPVESINMFQMNKQLAKHIWPLVQEDEAGTTNDPEKGKQKMKMET 351

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|G4MMD0 MGG_01988 "Uncharacterized protein" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 224 (83.9 bits), Expect = 1.4e-18, P = 1.4e-18
 Identities = 40/110 (36%), Positives = 72/110 (65%)

Query:   142 VSKAEAFPQISAEVAKENPPVGAKRRGGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQL 201
             V+K ++  +++A+  ++    G ++R   GG  K   +S  L  V G+P + R ++VK+L
Sbjct:   174 VTKKKSKAKVAADDDEDLSGDGTQKRKAGGGFQKPFHLSASLAEVCGEPTLSRPQVVKKL 233

Query:   202 WAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLE 251
             W +I+ NNLQDP++KR+I+CD+ ++ VF+    +MF MNKL+  H+ P++
Sbjct:   234 WEHIKGNNLQDPNDKRQILCDEKMQAVFKQSSLNMFAMNKLIGSHLYPVD 283

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2116189 AT4G34290 "AT4G34290" [Arabidopsis thaliana (taxid:3702)]

 Score = 196 (74.1 bits), Expect = 1.3e-15, P = 1.3e-15
 Identities = 40/98 (40%), Positives = 61/98 (62%)

Query:   152 SAEVAKENPPVGAKRRGGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQ 211
             SA  A  +P    K R  P G+ K   VS  +Q VVG P +PRT+ +K++WAYI++++LQ
Sbjct:    48 SAAAASSDPTTTTKTRE-PRGIMKPRPVSQAMQDVVGVPEIPRTQALKRIWAYIKEHDLQ 106

Query:   212 DPSNKRKIICDDALRVVFE-TDCTDMFKMNKLLAKHII 248
             DP NKR I+CD+ L+ +FE  +     ++ KL+  H +
Sbjct:   107 DPQNKRDILCDEKLKKIFEGKERVGFLEIAKLIGPHFL 144

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

SGD|S000004846 TRI1 "Non-essential sumoylated protein of unknown function" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 188 (71.2 bits), Expect = 8.8e-15, P = 8.8e-15
 Identities = 40/100 (40%), Positives = 63/100 (63%)

Query:   179 VSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFK 238
             +S  LQ  +G   +PRT++VK +W YI++++LQ+P ++R+I+CD+ +  +F    T MF 
Sbjct:   126 LSAPLQKFLGSEELPRTQVVKMIWQYIKEHDLQNPKDRREILCDEKMEPIFGKKMT-MFS 184

Query:   239 MNKLLAKHII-PLEPTK-ESSKRFKPDAESTTEGMESGPS 276
             MNKLL KH+  P E  K E  ++  P+ E   E  ES P+
Sbjct:   185 MNKLLTKHLFNPDEIVKHEEEQKQTPEKEIKLEN-ESLPN 223

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA;IDA

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

GO:0005737 "cytoplasm" evidence=IEA;IDA

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

GO:0008150 "biological_process" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0005730 "nucleolus" evidence=IEA;IDA

POMBASE|SPCC285.17 spp27 "RNA polymerase I upstream activation factor complex subunit Spp27" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 188 (71.2 bits), Expect = 8.8e-15, P = 8.8e-15
 Identities = 41/91 (45%), Positives = 56/91 (61%)

Query:   157 KENPPVGAKRRGG--PGG--LNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQD 212
             KE+   G KR+    P    LNK   +SP+L   +G   + R + VK+LW YI+ ++LQD
Sbjct:    97 KEDGEEGGKRKRNQDPANNPLNKPMKLSPKLAEFLGLEQLSRPQTVKKLWEYIKAHDLQD 156

Query:   213 PSNKRKIICDDALRVVFETDCTDMFKMNKLL 243
             P++KR I+CDD L+ VFE D   MF MNK L
Sbjct:   157 PNDKRTILCDDKLKSVFEVDTLHMFTMNKYL 187

GO:0000500 "RNA polymerase I upstream activating factor complex" evidence=NAS

GO:0003677 "DNA binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0045943 "positive regulation of transcription from RNA polymerase I promoter" evidence=TAS

GO:0001168 "RNA polymerase I upstream control element sequence-specific DNA binding transcription factor activity" evidence=TAS

TAIR|locus:2060469 AT2G14880 "AT2G14880" [Arabidopsis thaliana (taxid:3702)]

 Score = 188 (71.2 bits), Expect = 8.8e-15, P = 8.8e-15
 Identities = 36/93 (38%), Positives = 60/93 (64%)

Query:   157 KENPPVGAKRRGGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNK 216
             + + P    +R  P G+ K   VSPE+Q +V  P + RT+ +K++WAYI++++LQDP NK
Sbjct:    50 ESSEPTATNKRV-PRGIMKPRPVSPEMQDIVELPEIARTQALKRIWAYIKEHDLQDPQNK 108

Query:   217 RKIICDDALRVVFE-TDCTDMFKMNKLLAKHII 248
             R+I+CD+ L+ +FE  D     ++ KL+  H +
Sbjct:   109 REILCDEKLKKIFEGRDRVGFLEIAKLIGPHFL 141

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

SGD|S000005821 UAF30 "Subunit of UAF (upstream activation factor)" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 183 (69.5 bits), Expect = 3.2e-14, P = 3.2e-14
 Identities = 37/87 (42%), Positives = 61/87 (70%)

Query:   170 PGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVF 229
             P    KV  +S  L +++G+  + RTE+V++LWAYI+ +NLQ+P+NK++I+CD+ L ++ 
Sbjct:   118 PISTRKVT-LSKSLASLLGEHELTRTEVVRRLWAYIKAHNLQNPNNKKEILCDEKLELIL 176

Query:   230 ETDCTDMFKMNKLLAKHIIPLEPTKES 256
                 T+MF+M+K+LA H+   EP K S
Sbjct:   177 GKS-TNMFEMHKILASHMT--EPKKIS 200

GO:0005730 "nucleolus" evidence=IEA;IDA

GO:0042790 "transcription of nuclear large rRNA transcript from RNA polymerase I promoter" evidence=IMP

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

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

GO:0003677 "DNA binding" evidence=IEA

GO:0001168 "RNA polymerase I upstream control element sequence-specific DNA binding transcription factor activity" evidence=IMP

GO:0001165 "RNA polymerase I upstream control element sequence-specific DNA binding" evidence=IDA

GO:0006325 "chromatin organization" evidence=IMP

GO:0005634 "nucleus" evidence=IEA

GO:0000500 "RNA polymerase I upstream activating factor complex" evidence=IDA

TAIR|locus:505006294 AT2G35605 "AT2G35605" [Arabidopsis thaliana (taxid:3702)]

 Score = 177 (67.4 bits), Expect = 1.7e-13, P = 1.7e-13
 Identities = 39/94 (41%), Positives = 58/94 (61%)

Query:   155 VAKENPPVGAKRRGGPG-GLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDP 213
             +AK     GAK  G  G G+ KV  VS  L   +G+  + RT  VK++W YI+ NNLQ+P
Sbjct:    12 MAKAASSTGAKT-GRQGTGILKVVPVSKPLANFIGENEVSRTTAVKKIWEYIKLNNLQNP 70

Query:   214 SNKRKIICDDALRVVFE-TDCTDMFKMNKLLAKH 246
              NKR+I+CD+ L+ +F   D     +++KLL++H
Sbjct:    71 VNKREILCDEQLKTIFSGKDTVGFLEISKLLSQH 104

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	355
smart00151	77	smart00151, SWIB, SWI complex, BAF60b domains	2e-36
pfam02201	76	pfam02201, SWIB, SWIB/MDM2 domain	3e-32
COG5531	237	COG5531, COG5531, SWIB-domain-containing proteins	6e-22
pfam02201	76	pfam02201, SWIB, SWIB/MDM2 domain	4e-18
PRK06319	860	PRK06319, PRK06319, DNA topoisomerase I/SWI domain	2e-15
PRK14724	987	PRK14724, PRK14724, DNA topoisomerase III; Provisi	5e-15
smart00151	77	smart00151, SWIB, SWI complex, BAF60b domains	3e-14
pfam08766	54	pfam08766, DEK_C, DEK C terminal domain	1e-11
COG5531	237	COG5531, COG5531, SWIB-domain-containing proteins	7e-10
PRK06319	860	PRK06319, PRK06319, DNA topoisomerase I/SWI domain	1e-07
pfam09770	804	pfam09770, PAT1, Topoisomerase II-associated prote	4e-07
PRK14724	987	PRK14724, PRK14724, DNA topoisomerase III; Provisi	3e-06
pfam09770	804	pfam09770, PAT1, Topoisomerase II-associated prote	3e-06
PHA03247	3151	PHA03247, PHA03247, large tegument protein UL36; P	2e-04
pfam09770	804	pfam09770, PAT1, Topoisomerase II-associated prote	4e-04
pfam09770	804	pfam09770, PAT1, Topoisomerase II-associated prote	0.001
pfam09770	804	pfam09770, PAT1, Topoisomerase II-associated prote	0.001
pfam09770	804	pfam09770, PAT1, Topoisomerase II-associated prote	0.001
PRK03427	333	PRK03427, PRK03427, cell division protein ZipA; Pr	0.001
pfam09770	804	pfam09770, PAT1, Topoisomerase II-associated prote	0.002
pfam09770	804	pfam09770, PAT1, Topoisomerase II-associated prote	0.002
pfam07271	279	pfam07271, Cytadhesin_P30, Cytadhesin P30/P32	0.002
pfam03153	332	pfam03153, TFIIA, Transcription factor IIA, alpha/	0.002
PRK03427	333	PRK03427, PRK03427, cell division protein ZipA; Pr	0.004

>gnl|CDD|128456 smart00151, SWIB, SWI complex, BAF60b domains

 Score =  126 bits (318), Expect = 2e-36
 Identities = 42/77 (54%), Positives = 55/77 (71%)

Query: 173 LNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETD 232
           + K   +SPEL  V+G P M RTEI+K+LW YI+++NLQDP NKR+I+CD  L  +F  D
Sbjct: 1   ITKKVTLSPELAKVLGAPEMTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKD 60

Query: 233 CTDMFKMNKLLAKHIIP 249
             DMF+MNKLL  H+I 
Sbjct: 61  RMDMFEMNKLLTPHLIK 77

Length = 77

>gnl|CDD|145386 pfam02201, SWIB, SWIB/MDM2 domain

 Score =  115 bits (290), Expect = 3e-32
 Identities = 36/76 (47%), Positives = 52/76 (68%)

Query: 173 LNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETD 232
           L K   +SP+L   +G   + RTE+VK+LW YI+++NLQDP NKR I+CD+ L+ +F  D
Sbjct: 1   LTKPFPLSPDLAKFLGAGELSRTEVVKKLWQYIKEHNLQDPKNKRIILCDEKLKSIFGGD 60

Query: 233 CTDMFKMNKLLAKHII 248
               F+M+KLL+ H I
Sbjct: 61  RVGFFEMSKLLSSHFI 76

This family includes the SWIB domain and the MDM2 domain. The p53-associated protein (MDM2) is an inhibitor of the p53 tumour suppressor gene binding the transactivation domain and down regulating the ability of p53 to activate transcription. This family contains the p53 binding domain of MDM2. Length = 76

>gnl|CDD|227818 COG5531, COG5531, SWIB-domain-containing proteins implicated in chromatin remodeling [Chromatin structure and dynamics]

 Score = 92.9 bits (231), Expect = 6e-22
 Identities = 35/73 (47%), Positives = 50/73 (68%)

Query: 179 VSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFK 238
           +SP+L A++G     R E VK+LW YI+K+NLQDP+NKR I+CD  L+ V  +D  DMF+
Sbjct: 127 LSPKLAAILGLEPGTRPEAVKKLWKYIKKHNLQDPNNKRLILCDSKLKKVLGSDPIDMFE 186

Query: 239 MNKLLAKHIIPLE 251
           + K L+ H+I   
Sbjct: 187 LTKPLSPHLIKYT 199

Length = 237

>gnl|CDD|145386 pfam02201, SWIB, SWIB/MDM2 domain

 Score = 77.3 bits (191), Expect = 4e-18
 Identities = 29/73 (39%), Positives = 48/73 (65%), Gaps = 3/73 (4%)

Query: 280 ISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISA 339
           +S  LAKFLG G  E+ + E  K++W+YIK ++L+DP N  +ILCD KL+ + G + +  
Sbjct: 7   LSPDLAKFLGAG--ELSRTEVVKKLWQYIKEHNLQDPKNKRIILCDEKLKSIFGGDRVGF 64

Query: 340 LGIQEMLARNHFL 352
             + ++L+  HF+
Sbjct: 65  FEMSKLLSS-HFI 76

This family includes the SWIB domain and the MDM2 domain. The p53-associated protein (MDM2) is an inhibitor of the p53 tumour suppressor gene binding the transactivation domain and down regulating the ability of p53 to activate transcription. This family contains the p53 binding domain of MDM2. Length = 76

>gnl|CDD|235778 PRK06319, PRK06319, DNA topoisomerase I/SWI domain fusion protein; Validated

 Score = 77.6 bits (191), Expect = 2e-15
 Identities = 29/70 (41%), Positives = 45/70 (64%)

Query: 179 VSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFK 238
            SP L A++G   + R E  K++W YI+++ LQ P NK+ II D  L+ V   D  DMF+
Sbjct: 790 PSPALAAMIGAEPVGRGEATKKVWDYIKEHGLQSPENKKLIIPDSKLQGVIGPDPIDMFQ 849

Query: 239 MNKLLAKHII 248
           ++K L++H+I
Sbjct: 850 LSKKLSQHLI 859

Length = 860

>gnl|CDD|237803 PRK14724, PRK14724, DNA topoisomerase III; Provisional

 Score = 76.1 bits (187), Expect = 5e-15
 Identities = 42/117 (35%), Positives = 59/117 (50%), Gaps = 8/117 (6%)

Query: 131 AAAPPPQPHSNVSKAEAFPQISAEVAKENPPVGAKRRGGPGGLNKVCGVSPELQAVVGQP 190
            AA P        KA A    +   A + P   AK++  P         S  L AV+G  
Sbjct: 878 KAAKP------AKKAAAKKVAAKTAAAKTPRKAAKKKAAPPAAGL--KPSAALAAVIGAE 929

Query: 191 AMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHI 247
            + R E++K+LW YI+ NNLQDP++KR I  D  LR VF  D   MF++  ++ KH+
Sbjct: 930 PVARPEVIKKLWDYIKANNLQDPADKRAINADAKLRPVFGKDQVTMFELAGIVGKHL 986

Length = 987

>gnl|CDD|128456 smart00151, SWIB, SWI complex, BAF60b domains

 Score = 67.0 bits (164), Expect = 3e-14
 Identities = 30/78 (38%), Positives = 45/78 (57%), Gaps = 3/78 (3%)

Query: 275 PSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGC 334
              V +S  LAK LG    EM + E  KR+WEYIK ++L+DP N   ILCD+KL ++ G 
Sbjct: 2   TKKVTLSPELAKVLGAP--EMTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGK 59

Query: 335 ESISALGIQEMLARNHFL 352
           + +    + ++L   H +
Sbjct: 60  DRMDMFEMNKLLTP-HLI 76

Length = 77

>gnl|CDD|204056 pfam08766, DEK_C, DEK C terminal domain

 Score = 59.0 bits (144), Expect = 1e-11
 Identities = 20/55 (36%), Positives = 35/55 (63%), Gaps = 1/55 (1%)

Query: 3  SDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLR 57
          +D+EI + +  +LR++D   + +   + K+LEA+LG+DLS +  FI+D I   L 
Sbjct: 1  TDEEIKEEIREILREADLE-TVTKKQIRKELEARLGVDLSERKAFIKDLIEEFLA 54

DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C terminal of DEK and is of clinical importance since it can reverse the characteristic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family. This domain is also found in chitin synthase proteins and in protein phosphatases. Length = 54

>gnl|CDD|227818 COG5531, COG5531, SWIB-domain-containing proteins implicated in chromatin remodeling [Chromatin structure and dynamics]

 Score = 58.2 bits (141), Expect = 7e-10
 Identities = 33/86 (38%), Positives = 49/86 (56%), Gaps = 5/86 (5%)

Query: 253 TKESSKRFKPDAESTTEGMESGPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNH 312
            KE+ K+ K    S      SG   V +S  LA  LG       + EA K++W+YIK ++
Sbjct: 103 GKETDKKKKSSTISKNS--PSGEK-VKLSPKLAAILGL--EPGTRPEAVKKLWKYIKKHN 157

Query: 313 LEDPLNSMVILCDAKLRELLGCESIS 338
           L+DP N  +ILCD+KL+++LG + I 
Sbjct: 158 LQDPNNKRLILCDSKLKKVLGSDPID 183

Length = 237

>gnl|CDD|235778 PRK06319, PRK06319, DNA topoisomerase I/SWI domain fusion protein; Validated

 Score = 53.3 bits (128), Expect = 1e-07
 Identities = 29/94 (30%), Positives = 50/94 (53%), Gaps = 4/94 (4%)

Query: 253 TKESSKRFKPDAESTTEGMESGPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNH 312
            K   K+ K  ++ TT+       +   S ALA  +G     + + EATK+VW+YIK + 
Sbjct: 765 AKTVKKKSKAKSKKTTKKRAGPLYTP--SPALAAMIGA--EPVGRGEATKKVWDYIKEHG 820

Query: 313 LEDPLNSMVILCDAKLRELLGCESISALGIQEML 346
           L+ P N  +I+ D+KL+ ++G + I    + + L
Sbjct: 821 LQSPENKKLIIPDSKLQGVIGPDPIDMFQLSKKL 854

Length = 860

>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1

 Score = 51.3 bits (123), Expect = 4e-07
 Identities = 21/84 (25%), Positives = 21/84 (25%)

Query: 58  SHPTPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQF 117
                   A    P P   PQQ PP          Q   PP   PP      P P     
Sbjct: 218 QFLPAPSQAPAQPPLPPQLPQQPPPLQQPQFPGLSQQMPPPPPQPPQQQQQPPQPQAQPP 277

Query: 118 PQELNFSQPQPSQAAAPPPQPHSN 141
           PQ      P   Q    P  P   
Sbjct: 278 PQNQPTPHPGLPQGQNAPLPPPQQ 301

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

>gnl|CDD|237803 PRK14724, PRK14724, DNA topoisomerase III; Provisional

 Score = 48.8 bits (116), Expect = 3e-06
 Identities = 22/58 (37%), Positives = 35/58 (60%), Gaps = 2/58 (3%)

Query: 281 SEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESIS 338
           S ALA  +G     + + E  K++W+YIK N+L+DP +   I  DAKLR + G + ++
Sbjct: 919 SAALAAVIGAE--PVARPEVIKKLWDYIKANNLQDPADKRAINADAKLRPVFGKDQVT 974

Length = 987

>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1

 Score = 49.0 bits (117), Expect = 3e-06
 Identities = 21/84 (25%), Positives = 22/84 (26%), Gaps = 1/84 (1%)

Query: 57  RSHPTPQQVATNTQPQ-PQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLP 115
           R    PQQ      P  PQP                P  +      PP      P    P
Sbjct: 187 RQAAFPQQGPPEQPPGYPQPPQGHPEQVQPQQFLPAPSQAPAQPPLPPQLPQQPPPLQQP 246

Query: 116 QFPQELNFSQPQPSQAAAPPPQPH 139
           QFP       P P Q      QP 
Sbjct: 247 QFPGLSQQMPPPPPQPPQQQQQPP 270

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional

 Score = 43.0 bits (101), Expect = 2e-04
 Identities = 27/114 (23%), Positives = 32/114 (28%), Gaps = 8/114 (7%)

Query: 57   RSHPTPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQ 116
            R    P  V+ +T+    P  Q   P         PQ   PPQ  P       P P  P 
Sbjct: 2884 RRLARPA-VSRSTESFALPPDQPERPP-------QPQAPPPPQPQPQPPPPPQPQPPPPP 2935

Query: 117  FPQELNFSQPQPSQAAAPPPQPHSNVSKAEAFPQISAEVAKENPPVGAKRRGGP 170
             P+      P    A A  P          A       V +   P  A  R  P
Sbjct: 2936 PPRPQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRFRVPQPAPSREAP 2989

Length = 3151

>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1

 Score = 42.1 bits (99), Expect = 4e-04
 Identities = 22/100 (22%), Positives = 32/100 (32%), Gaps = 2/100 (2%)

Query: 63  QQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQFPQELN 122
           Q       PQ    PQQ+ P+     Q       PP+  PP +            PQ+  
Sbjct: 162 QLQQRQQAPQLPQPPQQVLPQGMPPRQAAFPQQGPPE-QPPGYPQPPQGHPEQVQPQQFL 220

Query: 123 FSQPQ-PSQAAAPPPQPHSNVSKAEAFPQISAEVAKENPP 161
            +  Q P+Q   PP  P       +      ++     PP
Sbjct: 221 PAPSQAPAQPPLPPQLPQQPPPLQQPQFPGLSQQMPPPPP 260

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1

 Score = 40.5 bits (95), Expect = 0.001
 Identities = 24/82 (29%), Positives = 28/82 (34%), Gaps = 5/82 (6%)

Query: 61  TPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPH----FALHHPHPHLPQ 116
            PQ +       PQ  P + PP  +          + PQQF P      A     P LPQ
Sbjct: 180 LPQGMPPRQAAFPQQGPPEQPPG-YPQPPQGHPEQVQPQQFLPAPSQAPAQPPLPPQLPQ 238

Query: 117 FPQELNFSQPQPSQAAAPPPQP 138
            P  L   Q        PPP P
Sbjct: 239 QPPPLQQPQFPGLSQQMPPPPP 260

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1

 Score = 40.1 bits (94), Expect = 0.001
 Identities = 21/105 (20%), Positives = 29/105 (27%), Gaps = 4/105 (3%)

Query: 60  PTPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQFPQ 119
           P  Q +     P+    PQQ PP+      +       P+Q  P   L  P     Q P 
Sbjct: 175 PPQQVLPQGMPPRQAAFPQQGPPE--QPPGYPQPPQGHPEQVQPQQFLPAPSQAPAQPPL 232

Query: 120 ELNFSQPQPSQAAAPPPQPHSNVSKAEAFPQISAEVAKENPPVGA 164
                Q  P       P     +      PQ   +  +   P   
Sbjct: 233 PPQLPQQPPPLQQPQFPGLSQQM--PPPPPQPPQQQQQPPQPQAQ 275

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1

 Score = 40.1 bits (94), Expect = 0.001
 Identities = 22/102 (21%), Positives = 28/102 (27%), Gaps = 1/102 (0%)

Query: 59  HPTPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHL-PQF 117
            P    ++    P P   PQQ         Q  PQ    P    P        P   PQ 
Sbjct: 245 QPQFPGLSQQMPPPPPQPPQQQQQPPQPQAQPPPQNQPTPHPGLPQGQNAPLPPPQQPQL 304

Query: 118 PQELNFSQPQPSQAAAPPPQPHSNVSKAEAFPQISAEVAKEN 159
              +   Q Q             +  + EA  Q  A+ AK  
Sbjct: 305 LPLVQQPQGQQRGPQFREQLVQLSQQQREALSQEEAKRAKRR 346

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

>gnl|CDD|235124 PRK03427, PRK03427, cell division protein ZipA; Provisional

 Score = 40.0 bits (94), Expect = 0.001
 Identities = 22/108 (20%), Positives = 28/108 (25%)

Query: 58  SHPTPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQF 117
           + P+PQ          QP+     P +      H      P   P     + P P  P  
Sbjct: 84  ARPSPQHQYQPPYASAQPRQPVQQPPEAQVPPQHAPRPAQPAPQPVQQPAYQPQPEQPLQ 143

Query: 118 PQELNFSQPQPSQAAAPPPQPHSNVSKAEAFPQISAEVAKENPPVGAK 165
                   P P    + P         AE       E   E  PV  K
Sbjct: 144 QPVSPQVAPAPQPVHSAPQPAQQAFQPAEPVAAPQPEPVAEPAPVMDK 191

Length = 333

>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1

 Score = 39.8 bits (93), Expect = 0.002
 Identities = 24/91 (26%), Positives = 29/91 (31%), Gaps = 10/91 (10%)

Query: 56  LRSHPTPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQF------SLPPQQFPPHFALH- 108
           L     P       Q Q  PQPQ  PP  +     HP         LPP Q P    L  
Sbjct: 251 LSQQMPPPPPQPPQQQQQPPQPQAQPPPQN-QPTPHPGLPQGQNAPLPPPQQPQLLPLVQ 309

Query: 109 --HPHPHLPQFPQELNFSQPQPSQAAAPPPQ 137
                   PQF ++L     Q  +A +    
Sbjct: 310 QPQGQQRGPQFREQLVQLSQQQREALSQEEA 340

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1

 Score = 39.8 bits (93), Expect = 0.002
 Identities = 24/93 (25%), Positives = 27/93 (29%), Gaps = 11/93 (11%)

Query: 59  HPTPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQFP 118
            P  QQ       Q  P P   PP      Q   Q   P  Q PP     +     P  P
Sbjct: 240 PPPLQQPQFPGLSQQMPPPPPQPP------QQQQQPPQPQAQPPP----QNQPTPHPGLP 289

Query: 119 QELNFSQPQPSQAAAPP-PQPHSNVSKAEAFPQ 150
           Q  N   P P Q    P  Q      +   F +
Sbjct: 290 QGQNAPLPPPQQPQLLPLVQQPQGQQRGPQFRE 322

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

>gnl|CDD|219358 pfam07271, Cytadhesin_P30, Cytadhesin P30/P32

 Score = 39.3 bits (91), Expect = 0.002
 Identities = 28/118 (23%), Positives = 34/118 (28%), Gaps = 26/118 (22%)

Query: 58  SHPTPQQVATNTQPQPQ----PQPQQLPPKDHFTLQHHPQFSLPP--QQFPPHFALHHPH 111
           + P    VA N QPQ Q    P PQQ      F     P   + P   Q PPH     P+
Sbjct: 142 TQPAGVNVANNPQPQVQPQFGPNPQQRINPQRFGFPMQPNMGMRPGFNQMPPHMPGMPPN 201

Query: 112 PHLPQFPQELNFS--------------------QPQPSQAAAPPPQPHSNVSKAEAFP 149
              P F                           +PQP     P      N+ +   F 
Sbjct: 202 QMRPGFNPMPGMPPRPGFNQNPNMMPNMNRPGFRPQPGGFNHPGTPMGPNMQQRPGFN 259

This family consists of several Mycoplasma species specific Cytadhesin P32 and P30 proteins. P30 has been found to be membrane associated and localised on the tip organelle. It is thought that it is important in cytadherence and virulence. Length = 279

>gnl|CDD|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit

 Score = 39.3 bits (92), Expect = 0.002
 Identities = 25/174 (14%), Positives = 41/174 (23%), Gaps = 23/174 (13%)

Query: 58  SHPTPQQVATNTQPQPQPQPQQLPPKDHFTLQHH---------PQFSLPPQQFPPHFALH 108
             P  Q      QP P    Q LP  D                  F+LP     P     
Sbjct: 56  PPPVAQLPQPLPQPPPTQALQALPAGDQQQHNTPTGSPAANPPATFALPAGPAGPTIQTE 115

Query: 109 HPHPHLPQFP-----QELNFSQPQPSQAAAPPP-QPHSNVSKAEAFPQISAEVAKENPPV 162
               +  Q P        N    QP+Q  A    Q       +   P       K +   
Sbjct: 116 PGQLYPVQVPVMVTQNPANSPLDQPAQQRALQQLQQRYGAPASGQLPSQQQSAQKNDESQ 175

Query: 163 GAKRRGGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNK 216
             ++  G     +  G   +    + +        +++    + +         
Sbjct: 176 LQQQPNGETPPQQTDGAGDDESEALVR--------LREADGTLEQRIKGAEGGG 221

Transcription initiation factor IIA (TFIIA) is a heterotrimer, the three subunits being known as alpha, beta, and gamma, in order of molecular weight. The N and C-terminal domains of the gamma subunit are represented in pfam02268 and pfam02751, respectively. This family represents the precursor that yields both the alpha and beta subunits. The TFIIA heterotrimer is an essential general transcription initiation factor for the expression of genes transcribed by RNA polymerase II. Together with TFIID, TFIIA binds to the promoter region; this is the first step in the formation of a pre-initiation complex (PIC). Binding of the rest of the transcription machinery follows this step. After initiation, the PIC does not completely dissociate from the promoter. Some components, including TFIIA, remain attached and re-initiate a subsequent round of transcription. Length = 332

>gnl|CDD|235124 PRK03427, PRK03427, cell division protein ZipA; Provisional

 Score = 38.5 bits (90), Expect = 0.004
 Identities = 27/99 (27%), Positives = 33/99 (33%), Gaps = 6/99 (6%)

Query: 60  PTPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQFPQ 119
           P  Q       PQ  P+P Q  P+      + PQ   P QQ         P P     PQ
Sbjct: 104 PVQQPPEAQVPPQHAPRPAQPAPQPVQQPAYQPQPEQPLQQPVSPQVAPAPQPVHSA-PQ 162

Query: 120 ELNFSQPQPSQAAAPPPQPHSNVSKAEAFPQISAEVAKE 158
               +       AAP P+P      AE  P +     KE
Sbjct: 163 PAQQAFQPAEPVAAPQPEPV-----AEPAPVMDKPKRKE 196

Length = 333

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	355
KOG1946	240	consensus RNA polymerase I transcription factor UA	99.96
PF02201	76	SWIB: SWIB/MDM2 domain; InterPro: IPR003121 The SW	99.91
smart00151	77	SWIB SWI complex, BAF60b domains.	99.9
PF02201	76	SWIB: SWIB/MDM2 domain; InterPro: IPR003121 The SW	99.9
smart00151	77	SWIB SWI complex, BAF60b domains.	99.89
KOG1946	240	consensus RNA polymerase I transcription factor UA	99.88
COG5531	237	SWIB-domain-containing proteins implicated in chro	99.85
COG5531	237	SWIB-domain-containing proteins implicated in chro	99.81
PRK14724	987	DNA topoisomerase III; Provisional	99.76
PRK14724	987	DNA topoisomerase III; Provisional	99.75
KOG2570	420	consensus SWI/SNF transcription activation complex	99.65
KOG2570	420	consensus SWI/SNF transcription activation complex	99.54
PF08766	54	DEK_C: DEK C terminal domain; InterPro: IPR014876	99.47
PRK06319	860	DNA topoisomerase I/SWI domain fusion protein; Val	99.35
PRK06319	860	DNA topoisomerase I/SWI domain fusion protein; Val	99.33
KOG2266	594	consensus Chromatin-associated protein Dek and rel	98.62

>KOG1946 consensus RNA polymerase I transcription factor UAF [Transcription]

Probab=99.96  E-value=3.6e-29  Score=235.44  Aligned_cols=182  Identities=26%  Similarity=0.397  Sum_probs=138.3

Q ss_pred             CCCHHHHHHHHHHHhhhcCCCCCccHHHHHHHHHHHhCCCCccchhHHHHHHHHHhcCCCCCccccCCCCCCCCCCCCCC
Q 018492            1 MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHPTPQQVATNTQPQPQPQPQQL   80 (355)
Q Consensus         1 m~Sd~el~~~i~~iL~~aDL~t~~T~k~Vr~qLE~~fgvDLs~kK~~I~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~   80 (355)
                      |.+.......+..||...|+++ +|.+.||+.++..||++++..+..++..|...+.......                 
T Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~-lt~~~vr~~~~~~~~v~~~~~k~~~~~~~~~~~~~~~~~~-----------------   62 (240)
T KOG1946|consen    1 MDSLSWEYLFKDYILSLKDQET-LTPDDVRRAMAPRSGVDGTAQKSLLAKAIDESSDEDSALP-----------------   62 (240)
T ss_pred             CcchhhhhhhhHHHhccccccc-CCHHHHHHHhccccCCCCcchhhhhhhhhhcccccccccc-----------------
Confidence            5677888889999999999986 8999999999999999999999999999987664321110                 


Q ss_pred             CCCCcccccCCCCCCCCCCCCCCCccCCCCCCCCCCCccccccCCCCCCCCCCCCCCCCCcccccccCCcchhhhhccCC
Q 018492           81 PPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQFPQELNFSQPQPSQAAAPPPQPHSNVSKAEAFPQISAEVAKENP  160 (355)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (355)
                       .++.                       +..    ....     .              . .   ......  ..  .+.
T Consensus        63 -~k~~-----------------------~~k----~~~~-----~--------------~-~---~~~~~~--~~--~~~   87 (240)
T KOG1946|consen   63 -VKGS-----------------------KKK----KRGS-----K--------------T-R---SRKPKS--LE--SSG   87 (240)
T ss_pred             -cccc-----------------------ccc----cccc-----c--------------c-c---cccCcc--cc--ccc
Confidence             0000                       000    0000     0              0 0   000000  00  001


Q ss_pred             CCCCCccCCCCCCCccccCCHHHHHhhCCCCCCHHHHHHHHHHHHHHcCCCCCCCCCccccChhhhhhhhcCccChHHHH
Q 018492          161 PVGAKRRGGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMN  240 (355)
Q Consensus       161 ~~~~k~~~~~~g~~k~~~lSpeLa~~lG~~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cDdkLk~lF~~d~i~~~~m~  240 (355)
                      ....+.+..++|+++.|.||+.|+.|+|.++++|++|++.||+|||+||||||.||+.|+||++|+.||+..+|+||+|+
T Consensus        88 ~~~~~~~~~~~g~~kl~~ls~~L~~~~G~~~lsR~~vvk~iw~YIke~nLqDP~nkr~IlCDekL~~iF~~k~v~~fem~  167 (240)
T KOG1946|consen   88 EKNKKKKKASWGSTKLIPLSPSLARFVGTSELSRTDVVKKIWAYIKEHNLQDPKNKREILCDEKLKSIFGKKRVGMFEML  167 (240)
T ss_pred             ccchhccccCcCcccccccCHHHHhhcccccccHHHHHHHHHHHHHHhccCCccccCeeeeHHHHHHHhccCccceeeHH
Confidence            11111112458999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhccCCCCCCcc
Q 018492          241 KLLAKHIIPLEPTKE  255 (355)
Q Consensus       241 klL~~Hl~p~dp~~~  255 (355)
                      +||.+||++......
T Consensus       168 KLL~~H~~~~~d~~~  182 (240)
T KOG1946|consen  168 KLLTKHFLKNQDMVG  182 (240)
T ss_pred             HHHHHhccCcccccc
Confidence            999999999887643

>PF02201 SWIB: SWIB/MDM2 domain; InterPro: IPR003121 The SWI/SNF family of complexes, which are conserved from yeast to humans, are ATP-dependent chromatin-remodelling proteins that facilitate transcription activation []

Probab=99.91  E-value=1.5e-25  Score=176.88  Aligned_cols=76  Identities=38%  Similarity=0.730  Sum_probs=70.7

Q ss_pred             CCccccccHHHHHHhcCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCchhHHhhhccCccchhhHHHHHHhccC
Q 018492          274 GPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHF  351 (355)
Q Consensus       274 ~~~~~~lS~~La~flG~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CDekLk~Lfg~~~i~~~~~~klL~~H~~  351 (355)
                      ++++|+||++|++|+|..  ++||++|+++||+|||+||||||.|++.|+||++|+.|||+++|++++|+++|.+||+
T Consensus         1 ~~k~~~ls~~L~~~lg~~--~~sr~~v~~~lw~YIk~~~L~dp~~k~~I~cD~~L~~lf~~~~v~~~~i~~~l~~hl~   76 (76)
T PF02201_consen    1 FPKRFKLSPELAEFLGED--ELSRSEVVKRLWQYIKENNLQDPKDKRIIICDEKLKKLFGKDSVNFFEIPKLLKPHLI   76 (76)
T ss_dssp             -EEEEHHHHHHHHHTT-S--CEEHHHHHHHHHHHHHHTTSBESSSTTEEE-TTSHHHHHHTSECSEEETTHHHHHHHE
T ss_pred             CCCCccCCHHHHHHhCCC--CCCHHHHHHHHHHHHHHhcCCCcccCceEecCHHHHHHhCCCeecHhhHHHHHHHhcC
Confidence            467899999999999995  7999999999999999999999999999999999999999999999999999999985

The mammalian complexes are made up of 9-12 proteins called BAFs (BRG1-associated factors). The BAF60 family have at least three members: BAF60a, which is ubiquitous, BAF60b and BAF60c, which are expressed in muscle and pancreatic tissues, respectively. BAF60b is present in alternative forms of the SWI/SNF complex, including complex B (SWIB), which lacks BAF60a. The SWIB domain is a conserved region found within the BAF60b proteins [], and can be found fused to the C terminus of DNA topoisomerase in Chlamydia. MDM2 is an oncoprotein that acts as a cellular inhibitor of the p53 tumour suppressor by binding to the transactivation domain of p53 and suppressing its ability to activate transcription []. p53 acts in response to DNA damage, inducing cell cycle arrest and apoptosis. Inactivation of p53 is a common occurrence in neoplastic transformations. The core of MDM2 folds into an open bundle of four helices, which is capped by two small 3-stranded beta-sheets. It consists of a duplication of two structural repeats. MDM2 has a deep hydrophobic cleft on which the p53 alpha-helix binds; p53 residues involved in transactivation are buried deep within the cleft of MDM2, thereby concealing the p53 transactivation domain. The SWIB and MDM2 domains are homologous and share a common fold.; GO: 0005515 protein binding; PDB: 1V31_A 3FE7_A 3JZQ_B 3EQY_B 2VYR_A 3JZO_A 3DAB_E 3LBJ_E 3FEA_A 3FDO_A ....

>smart00151 SWIB SWI complex, BAF60b domains

Probab=99.90  E-value=6.9e-24  Score=167.79  Aligned_cols=77  Identities=55%  Similarity=0.975  Sum_probs=74.6

Q ss_pred             CCccccCCHHHHHhhCCCCCCHHHHHHHHHHHHHHcCCCCCCCCCccccChhhhhhhhcCccChHHHHHHHHhccCC
Q 018492          173 LNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIP  249 (355)
Q Consensus       173 ~~k~~~lSpeLa~~lG~~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cDdkLk~lF~~d~i~~~~m~klL~~Hl~p  249 (355)
                      ++++|.||++|++|+|..++||++|+++||+|||.||||||+|++.|+||+.|+.+||++++.|++|+++|++||.|
T Consensus         1 ~~~~~~ls~~L~~~lg~~~~tr~ev~~~lw~YIk~n~L~d~~~k~~i~~D~~L~~l~~~~~v~~~~~~~ll~~Hl~~   77 (77)
T smart00151        1 ITKKVTLSPELAKVLGAPEMTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKDRMDMFEMNKLLTPHLIK   77 (77)
T ss_pred             CCCcccCCHHHHHHhCCCcCcHHHHHHHHHHHHHHhcccCCccCCEEecCHHHHHHHCcCeecHHHHHHHHHHHcCC
Confidence            36789999999999999999999999999999999999999999999999999999999999999999999999975

>PF02201 SWIB: SWIB/MDM2 domain; InterPro: IPR003121 The SWI/SNF family of complexes, which are conserved from yeast to humans, are ATP-dependent chromatin-remodelling proteins that facilitate transcription activation []

Probab=99.90  E-value=5e-25  Score=173.90  Aligned_cols=76  Identities=46%  Similarity=0.888  Sum_probs=71.3

Q ss_pred             CCccccCCHHHHHhhCCCCCCHHHHHHHHHHHHHHcCCCCCCCCCccccChhhhhhhhcCccChHHHHHHHHhccC
Q 018492          173 LNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHII  248 (355)
Q Consensus       173 ~~k~~~lSpeLa~~lG~~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cDdkLk~lF~~d~i~~~~m~klL~~Hl~  248 (355)
                      |+++|.||++|++++|..++||++|++.||+||++||||||+|++.|+||+.|+.||++++|.|++|+++|++||.
T Consensus         1 ~~k~~~ls~~L~~~lg~~~~sr~~v~~~lw~YIk~~~L~dp~~k~~I~cD~~L~~lf~~~~v~~~~i~~~l~~hl~   76 (76)
T PF02201_consen    1 FPKRFKLSPELAEFLGEDELSRSEVVKRLWQYIKENNLQDPKDKRIIICDEKLKKLFGKDSVNFFEIPKLLKPHLI   76 (76)
T ss_dssp             -EEEEHHHHHHHHHTT-SCEEHHHHHHHHHHHHHHTTSBESSSTTEEE-TTSHHHHHHTSECSEEETTHHHHHHHE
T ss_pred             CCCCccCCHHHHHHhCCCCCCHHHHHHHHHHHHHHhcCCCcccCceEecCHHHHHHhCCCeecHhhHHHHHHHhcC
Confidence            5788999999999999999999999999999999999999999999999999999999999999999999999984

The mammalian complexes are made up of 9-12 proteins called BAFs (BRG1-associated factors). The BAF60 family have at least three members: BAF60a, which is ubiquitous, BAF60b and BAF60c, which are expressed in muscle and pancreatic tissues, respectively. BAF60b is present in alternative forms of the SWI/SNF complex, including complex B (SWIB), which lacks BAF60a. The SWIB domain is a conserved region found within the BAF60b proteins [], and can be found fused to the C terminus of DNA topoisomerase in Chlamydia. MDM2 is an oncoprotein that acts as a cellular inhibitor of the p53 tumour suppressor by binding to the transactivation domain of p53 and suppressing its ability to activate transcription []. p53 acts in response to DNA damage, inducing cell cycle arrest and apoptosis. Inactivation of p53 is a common occurrence in neoplastic transformations. The core of MDM2 folds into an open bundle of four helices, which is capped by two small 3-stranded beta-sheets. It consists of a duplication of two structural repeats. MDM2 has a deep hydrophobic cleft on which the p53 alpha-helix binds; p53 residues involved in transactivation are buried deep within the cleft of MDM2, thereby concealing the p53 transactivation domain. The SWIB and MDM2 domains are homologous and share a common fold.; GO: 0005515 protein binding; PDB: 1V31_A 3FE7_A 3JZQ_B 3EQY_B 2VYR_A 3JZO_A 3DAB_E 3LBJ_E 3FEA_A 3FDO_A ....

>smart00151 SWIB SWI complex, BAF60b domains

Probab=99.89  E-value=1.1e-23  Score=166.70  Aligned_cols=76  Identities=38%  Similarity=0.687  Sum_probs=72.9

Q ss_pred             CccccccHHHHHHhcCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCchhHHhhhccCccchhhHHHHHHhccCC
Q 018492          275 PSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHFL  352 (355)
Q Consensus       275 ~~~~~lS~~La~flG~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CDekLk~Lfg~~~i~~~~~~klL~~H~~~  352 (355)
                      +++|.||++|+.|+|.  .++||++|+++||+|||.||||||.|++.|+||+.|++|||+++|.|++|+++|++||.+
T Consensus         2 ~~~~~ls~~L~~~lg~--~~~tr~ev~~~lw~YIk~n~L~d~~~k~~i~~D~~L~~l~~~~~v~~~~~~~ll~~Hl~~   77 (77)
T smart00151        2 TKKVTLSPELAKVLGA--PEMTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKDRMDMFEMNKLLTPHLIK   77 (77)
T ss_pred             CCcccCCHHHHHHhCC--CcCcHHHHHHHHHHHHHHhcccCCccCCEEecCHHHHHHHCcCeecHHHHHHHHHHHcCC
Confidence            4789999999999998  499999999999999999999999999999999999999999999999999999999864

>KOG1946 consensus RNA polymerase I transcription factor UAF [Transcription]

Probab=99.88  E-value=3.3e-23  Score=195.16  Aligned_cols=81  Identities=31%  Similarity=0.644  Sum_probs=77.3

Q ss_pred             CCCCccccccHHHHHHhcCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCchhHHhhhccCccchhhHHHHHHhccC
Q 018492          272 ESGPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHF  351 (355)
Q Consensus       272 ~~~~~~~~lS~~La~flG~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CDekLk~Lfg~~~i~~~~~~klL~~H~~  351 (355)
                      .|..+.+.||+.|+.|+|..  ++||.+|+++||+|||+||||||.||+.|+||++|+.|||..+|+||+|++||.+||+
T Consensus        98 ~g~~kl~~ls~~L~~~~G~~--~lsR~~vvk~iw~YIke~nLqDP~nkr~IlCDekL~~iF~~k~v~~fem~KLL~~H~~  175 (240)
T KOG1946|consen   98 WGSTKLIPLSPSLARFVGTS--ELSRTDVVKKIWAYIKEHNLQDPKNKREILCDEKLKSIFGKKRVGMFEMLKLLTKHFL  175 (240)
T ss_pred             cCcccccccCHHHHhhcccc--cccHHHHHHHHHHHHHHhccCCccccCeeeeHHHHHHHhccCccceeeHHHHHHHhcc
Confidence            46789999999999999984  9999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCC
Q 018492          352 LRQ  354 (355)
Q Consensus       352 ~~~  354 (355)
                      ..+
T Consensus       176 ~~~  178 (240)
T KOG1946|consen  176 KNQ  178 (240)
T ss_pred             Ccc
Confidence            864

>COG5531 SWIB-domain-containing proteins implicated in chromatin remodeling [Chromatin structure and dynamics]

Probab=99.85  E-value=1.4e-21  Score=183.19  Aligned_cols=82  Identities=43%  Similarity=0.727  Sum_probs=78.1

Q ss_pred             CCCCCccccCCHHHHHhhCCCCCCHHHHHHHHHHHHHHcCCCCCCCCCccccChhhhhhhhcCccChHHHHHHHHhccCC
Q 018492          170 PGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIP  249 (355)
Q Consensus       170 ~~g~~k~~~lSpeLa~~lG~~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cDdkLk~lF~~d~i~~~~m~klL~~Hl~p  249 (355)
                      ++-....+.+|+.||.|||..++||++||+.||+|||.||||||+|||.|.||++|+.|||.+.+.||+|.++|.+|+++
T Consensus       118 ~~~~~~~~~lS~~La~ilG~~~~tr~~~v~~lw~YIk~h~lq~~~nkr~I~~D~~L~~v~g~~p~~mf~~~k~l~~hl~~  197 (237)
T COG5531         118 NSPSGEKVKLSPKLAAILGLEPGTRPEAVKKLWKYIKKHNLQDPNNKRLILCDSKLKKVLGSDPIDMFELTKPLSPHLIK  197 (237)
T ss_pred             ccCCCCceecCHHHHHHhCCCCCCccHHHHHHHHHHHHhcCCCccccceecccHHHHHHhCCCchhhhhhhcccccceec
Confidence            44577889999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             CC
Q 018492          250 LE  251 (355)
Q Consensus       250 ~d  251 (355)
                      .+
T Consensus       198 ~~  199 (237)
T COG5531         198 YT  199 (237)
T ss_pred             Cc
Confidence            54

>COG5531 SWIB-domain-containing proteins implicated in chromatin remodeling [Chromatin structure and dynamics]

Probab=99.81  E-value=2.5e-20  Score=174.75  Aligned_cols=80  Identities=34%  Similarity=0.583  Sum_probs=76.3

Q ss_pred             CCCCCccccccHHHHHHhcCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCchhHHhhhccCccchhhHHHHHHhcc
Q 018492          271 MESGPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNH  350 (355)
Q Consensus       271 ~~~~~~~~~lS~~La~flG~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CDekLk~Lfg~~~i~~~~~~klL~~H~  350 (355)
                      .+....+|.+|+.||.|||.+  ++||++||+.||+|||.||||||.|||.|+||++|+.|||.+.|.||+|.++|.+|+
T Consensus       118 ~~~~~~~~~lS~~La~ilG~~--~~tr~~~v~~lw~YIk~h~lq~~~nkr~I~~D~~L~~v~g~~p~~mf~~~k~l~~hl  195 (237)
T COG5531         118 NSPSGEKVKLSPKLAAILGLE--PGTRPEAVKKLWKYIKKHNLQDPNNKRLILCDSKLKKVLGSDPIDMFELTKPLSPHL  195 (237)
T ss_pred             ccCCCCceecCHHHHHHhCCC--CCCccHHHHHHHHHHHHhcCCCccccceecccHHHHHHhCCCchhhhhhhcccccce
Confidence            345678999999999999995  999999999999999999999999999999999999999999999999999999999


Q ss_pred             CC
Q 018492          351 FL  352 (355)
Q Consensus       351 ~~  352 (355)
                      ++
T Consensus       196 ~~  197 (237)
T COG5531         196 IK  197 (237)
T ss_pred             ec
Confidence            87

>PRK14724 DNA topoisomerase III; Provisional

Probab=99.76  E-value=9.1e-19  Score=192.85  Aligned_cols=76  Identities=41%  Similarity=0.680  Sum_probs=73.8

Q ss_pred             CCccccCCHHHHHhhCCCCCCHHHHHHHHHHHHHHcCCCCCCCCCccccChhhhhhhhcCccChHHHHHHHHhccC
Q 018492          173 LNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHII  248 (355)
Q Consensus       173 ~~k~~~lSpeLa~~lG~~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cDdkLk~lF~~d~i~~~~m~klL~~Hl~  248 (355)
                      +...+.|||+|++|||..++||++||++||+|||.||||||.|||.|+||++|+.|||++++.||+|+++|++||.
T Consensus       912 ~~~~~~ls~~La~~lg~~~~~r~~v~~~lW~YIK~~~Lqdp~~k~~i~cD~~L~~vfg~~~~~~~~~~~~l~~hl~  987 (987)
T PRK14724        912 PAAGLKPSAALAAVIGAEPVARPEVIKKLWDYIKANNLQDPADKRAINADAKLRPVFGKDQVTMFELAGIVGKHLS  987 (987)
T ss_pred             cccccCCCHHHHHHhCCCcCCHHHHHHHHHHHHHHccCCCcccCCeeccchHHHHHhCCCcccHHHHHHHHHHhcC
Confidence            6678999999999999999999999999999999999999999999999999999999999999999999999984

>PRK14724 DNA topoisomerase III; Provisional

Probab=99.75  E-value=1.1e-18  Score=192.16  Aligned_cols=75  Identities=29%  Similarity=0.571  Sum_probs=72.4

Q ss_pred             CCccccccHHHHHHhcCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCchhHHhhhccCccchhhHHHHHHhcc
Q 018492          274 GPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNH  350 (355)
Q Consensus       274 ~~~~~~lS~~La~flG~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CDekLk~Lfg~~~i~~~~~~klL~~H~  350 (355)
                      +..+|.||++|+.|||.+  ++||++||++||+|||.||||||.|+|.|+||++|+.|||+++|.||+|+++|++||
T Consensus       912 ~~~~~~ls~~La~~lg~~--~~~r~~v~~~lW~YIK~~~Lqdp~~k~~i~cD~~L~~vfg~~~~~~~~~~~~l~~hl  986 (987)
T PRK14724        912 PAAGLKPSAALAAVIGAE--PVARPEVIKKLWDYIKANNLQDPADKRAINADAKLRPVFGKDQVTMFELAGIVGKHL  986 (987)
T ss_pred             cccccCCCHHHHHHhCCC--cCCHHHHHHHHHHHHHHccCCCcccCCeeccchHHHHHhCCCcccHHHHHHHHHHhc
Confidence            456999999999999995  899999999999999999999999999999999999999999999999999999997

>KOG2570 consensus SWI/SNF transcription activation complex subunit [Chromatin structure and dynamics; Transcription]

Probab=99.65  E-value=7.9e-17  Score=160.22  Aligned_cols=81  Identities=33%  Similarity=0.583  Sum_probs=78.3

Q ss_pred             ccCCHHHHHhhCCCCCCHHHHHHHHHHHHHHcCCCCCCCCCccccChhhhhhhhcCccChHHHHHHHHhccCCCCCCccc
Q 018492          177 CGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLEPTKES  256 (355)
Q Consensus       177 ~~lSpeLa~~lG~~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cDdkLk~lF~~d~i~~~~m~klL~~Hl~p~dp~~~~  256 (355)
                      |++||.|+.+||....||++||.+||.|||.|+||||.++.+|+||..|+.+||++++.|.+|+.+|++||.|++|+-..
T Consensus       209 fklsp~La~lLGi~t~Trp~iI~alWqYIk~n~Lqd~~e~~~incD~~l~qif~~~rl~F~elp~~l~~lL~P~dPIvi~  288 (420)
T KOG2570|consen  209 FKLSPRLANLLGIHTGTRPDIVTALWQYIKTNKLQDPEDSDFINCDKALEQIFGVDRLKFPELPQLLNPLLSPPDPIVID  288 (420)
T ss_pred             cccCHHHHHHhhhccCcchHHHHHHHHHHHHhccCCcccchhhcchHHHHHhhcccccccccchhhhhhccCCCCCeeec
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999765


Q ss_pred             c
Q 018492          257 S  257 (355)
Q Consensus       257 ~  257 (355)
                      .
T Consensus       289 h  289 (420)
T KOG2570|consen  289 H  289 (420)
T ss_pred             c
Confidence            3

>KOG2570 consensus SWI/SNF transcription activation complex subunit [Chromatin structure and dynamics; Transcription]

Probab=99.54  E-value=4e-15  Score=148.18  Aligned_cols=77  Identities=27%  Similarity=0.488  Sum_probs=73.4

Q ss_pred             CCccccccHHHHHHhcCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCchhHHhhhccCccchhhHHHHHHhccCC
Q 018492          274 GPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHFL  352 (355)
Q Consensus       274 ~~~~~~lS~~La~flG~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CDekLk~Lfg~~~i~~~~~~klL~~H~~~  352 (355)
                      .|..|+|||.||.+||+.  +.||++||..||.|||.|+||||.++.+|+||.-|+++||++++.|.+|+.+|++|+..
T Consensus       205 ~P~~fklsp~La~lLGi~--t~Trp~iI~alWqYIk~n~Lqd~~e~~~incD~~l~qif~~~rl~F~elp~~l~~lL~P  281 (420)
T KOG2570|consen  205 QPEEFKLSPRLANLLGIH--TGTRPDIVTALWQYIKTNKLQDPEDSDFINCDKALEQIFGVDRLKFPELPQLLNPLLSP  281 (420)
T ss_pred             CCcccccCHHHHHHhhhc--cCcchHHHHHHHHHHHHhccCCcccchhhcchHHHHHhhcccccccccchhhhhhccCC
Confidence            467799999999999995  89999999999999999999999999999999999999999999999999999999854

>PF08766 DEK_C: DEK C terminal domain; InterPro: IPR014876 DEK is a chromatin associated protein that is linked with cancers and autoimmune disease

Probab=99.47  E-value=6.7e-14  Score=103.68  Aligned_cols=54  Identities=33%  Similarity=0.612  Sum_probs=45.2

Q ss_pred             CHHHHHHHHHHHhhhcCCCCCccHHHHHHHHHHHhCCCCccchhHHHHHHHHHhc
Q 018492            3 SDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLR   57 (355)
Q Consensus         3 Sd~el~~~i~~iL~~aDL~t~~T~k~Vr~qLE~~fgvDLs~kK~~I~~~i~~~l~   57 (355)
                      ||++|...|++||+++||++ +|.+.||++||++||+||++||.||+++|+.+|.
T Consensus         1 td~~i~~~i~~iL~~~dl~~-vT~k~vr~~Le~~~~~dL~~~K~~I~~~I~~~l~   54 (54)
T PF08766_consen    1 TDEEIREAIREILREADLDT-VTKKQVREQLEERFGVDLSSRKKFIKELIDEFLS   54 (54)
T ss_dssp             -HHHHHHHHHHHHTTS-GGG---HHHHHHHHHHH-SS--SHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHhH-hhHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhC
Confidence            79999999999999999997 8899999999999999999999999999999874

This domain is found at the C-terminal of DEK and is of clinical importance since it can reverse the characteristic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients []. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family []. This domain is also found in chitin synthase proteins like Q8TF96 from SWISSPROT, and in protein phosphatases such as Q6NN85 from SWISSPROT. ; PDB: 1Q1V_A.

>PRK06319 DNA topoisomerase I/SWI domain fusion protein; Validated

Probab=99.35  E-value=6.6e-13  Score=145.28  Aligned_cols=76  Identities=32%  Similarity=0.509  Sum_probs=72.3

Q ss_pred             CccccccHHHHHHhcCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCchhHHhhhccCccchhhHHHHHHhccCC
Q 018492          275 PSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHFL  352 (355)
Q Consensus       275 ~~~~~lS~~La~flG~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CDekLk~Lfg~~~i~~~~~~klL~~H~~~  352 (355)
                      ..+|.+|++|+.++|+.  +++|.++++.||+|||.|+||||.|||.|+||++|+.+||++.+.||.|+++|++|+.+
T Consensus       785 ~~~~~~S~~La~~~g~~--~~sr~~~~~~lw~yIk~~~lqdp~~Kr~i~~d~kl~kvf~~~~~~~~~~~k~l~~hl~~  860 (860)
T PRK06319        785 GPLYTPSPALAAMIGAE--PVGRGEATKKVWDYIKEHGLQSPENKKLIIPDSKLQGVIGPDPIDMFQLSKKLSQHLIK  860 (860)
T ss_pred             ccccccccccccccCcC--ccCchHHHHHHHHHHHHhcccCccccccCCCchhhhhhhCcCccchhhhHHHHHhhhcC
Confidence            45689999999999984  89999999999999999999999999999999999999999999999999999999864

>PRK06319 DNA topoisomerase I/SWI domain fusion protein; Validated

Probab=99.33  E-value=1.2e-12  Score=143.17  Aligned_cols=75  Identities=39%  Similarity=0.667  Sum_probs=71.7

Q ss_pred             CccccCCHHHHHhhCCCCCCHHHHHHHHHHHHHHcCCCCCCCCCccccChhhhhhhhcCccChHHHHHHHHhccC
Q 018492          174 NKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHII  248 (355)
Q Consensus       174 ~k~~~lSpeLa~~lG~~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cDdkLk~lF~~d~i~~~~m~klL~~Hl~  248 (355)
                      ...|.+|++|+.++|...++|+++++.||+|||.|+||||.|||.|+||++|+.+|+++.+.||.|+++|+.|+.
T Consensus       785 ~~~~~~S~~La~~~g~~~~sr~~~~~~lw~yIk~~~lqdp~~Kr~i~~d~kl~kvf~~~~~~~~~~~k~l~~hl~  859 (860)
T PRK06319        785 GPLYTPSPALAAMIGAEPVGRGEATKKVWDYIKEHGLQSPENKKLIIPDSKLQGVIGPDPIDMFQLSKKLSQHLI  859 (860)
T ss_pred             ccccccccccccccCcCccCchHHHHHHHHHHHHhcccCccccccCCCchhhhhhhCcCccchhhhHHHHHhhhc
Confidence            344779999999999999999999999999999999999999999999999999999999999999999999985

>KOG2266 consensus Chromatin-associated protein Dek and related proteins, contains SAP DNA binding domain [Chromatin structure and dynamics]

Probab=98.62  E-value=3.8e-08  Score=100.08  Aligned_cols=60  Identities=30%  Similarity=0.558  Sum_probs=57.6

Q ss_pred             CCHHHHHHHHHHHhhhcCCCCCccHHHHHHHHHHHhCCCCccchhHHHHHHHHHhcCCCCC
Q 018492            2 VSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKLGLDLSHKAGFIRDQISLLLRSHPTP   62 (355)
Q Consensus         2 ~Sd~el~~~i~~iL~~aDL~t~~T~k~Vr~qLE~~fgvDLs~kK~~I~~~i~~~l~~~~~~   62 (355)
                      |||.+|...|..||..|||++ +|.+.|.++|-++|++||++||.||..+|..+|+.+.+.
T Consensus       520 PTdeelk~~V~kILk~vdfnt-aTm~dIlKkl~~~f~~dLt~rK~~IK~~Ike~I~~~~de  579 (594)
T KOG2266|consen  520 PTDEELKEVVKKILKEVDFNT-ATMKDILKKLYAKFPIDLTHRKDFIKDTIKELINKMADE  579 (594)
T ss_pred             CcHHHHHHHHHHHHHhcCcch-hhHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHhcch
Confidence            899999999999999999996 999999999999999999999999999999999988664

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	355
1uhr_A	93	Solution Structure Of The Swib Domain Of Mouse Brg1		6e-07
1v32_A	101	Solution Structure Of The SwibMDM2 DOMAIN OF THE Hy		2e-04

>pdb|1UHR|A Chain A, Solution Structure Of The Swib Domain Of Mouse Brg1- Associated Factor 60a Length = 93

Iteration: 1
 Score = 51.6 bits (122), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 26/89 (29%), Positives = 45/89 (50%)
Query: 169 GPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVV 228
           G  G      + P L  ++G     R  I++ LW YI+ + LQDP  +  ++CD  L+ +
Sbjct: 4   GSSGQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQI 63
Query: 229 FETDCTDMFKMNKLLAKHIIPLEPTKESS 257
           FE+      ++ + L   ++P EP+  SS
Sbjct: 64  FESQRMKFSEIPQRLHALLMPPEPSGPSS 92

>pdb|1V32|A Chain A, Solution Structure Of The SwibMDM2 DOMAIN OF THE Hypothetical Protein At5g08430 From Arabidopsis Thaliana Length = 101

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/55 (38%), Positives = 31/55 (56%)
Query: 192 MPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKH 246
           + R ++   +  YI K  L DPSNK+K++CD  L ++F T      K+  LL KH
Sbjct: 35  ISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKH 89

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	355
1v31_A	93	Hypothetical protein RAFL11-05-P19; SWI/SNF comple	1e-33
1v31_A	93	Hypothetical protein RAFL11-05-P19; SWI/SNF comple	6e-16
1uhr_A	93	SWI/SNF related, matrix associated, actin dependen	1e-33
1uhr_A	93	SWI/SNF related, matrix associated, actin dependen	4e-15
1v32_A	101	AT5G08430, hypothetical protein RAFL09-47-K03; SWI	3e-31
1v32_A	101	AT5G08430, hypothetical protein RAFL09-47-K03; SWI	9e-18
1m2v_B	926	SEC24, protein transport protein SEC24, SEC24P, SE	2e-07
1m2v_B	926	SEC24, protein transport protein SEC24, SEC24P, SE	6e-06
1m2v_B	926	SEC24, protein transport protein SEC24, SEC24P, SE	4e-04
1ycq_A	107	MDM2, MDM2; anti-oncogene, DNA-binding, transcript	6e-05
1ycq_A	107	MDM2, MDM2; anti-oncogene, DNA-binding, transcript	1e-04

>1v31_A Hypothetical protein RAFL11-05-P19; SWI/SNF complex subunit, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: a.42.1.1 Length = 93

 Score =  119 bits (299), Expect = 1e-33
 Identities = 24/91 (26%), Positives = 44/91 (48%)

Query: 167 RGGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALR 226
             G  G+ +   +S  L  V+G     R  I+  +W Y++   LQ+P++     CD AL+
Sbjct: 2   SSGSSGVPEKFKLSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQ 61

Query: 227 VVFETDCTDMFKMNKLLAKHIIPLEPTKESS 257
            VF  +      +++ ++ H+ P  P+  SS
Sbjct: 62  KVFGEEKLKFTMVSQKISHHLSPPPPSGPSS 92

>1v31_A Hypothetical protein RAFL11-05-P19; SWI/SNF complex subunit, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: a.42.1.1 Length = 93

 Score = 71.3 bits (175), Expect = 6e-16
 Identities = 17/74 (22%), Positives = 32/74 (43%), Gaps = 3/74 (4%)

Query: 278 VIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESI 337
             +S AL   LG       +      +W Y+K   L++P +     CDA L+++ G E +
Sbjct: 12  FKLSTALMDVLGI--EVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQKVFGEEKL 69

Query: 338 SALGIQEMLARNHF 351
               + + ++  H 
Sbjct: 70  KFTMVSQKISH-HL 82

>1uhr_A SWI/SNF related, matrix associated, actin dependent regulator of chromatin subfamily...; structural genomics, chromatin remodeling; NMR {Mus musculus} SCOP: a.42.1.1 Length = 93

 Score =  118 bits (298), Expect = 1e-33
 Identities = 26/90 (28%), Positives = 45/90 (50%)

Query: 168 GGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRV 227
            G  G      + P L  ++G     R  I++ LW YI+ + LQDP  +  ++CD  L+ 
Sbjct: 3   SGSSGQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQ 62

Query: 228 VFETDCTDMFKMNKLLAKHIIPLEPTKESS 257
           +FE+      ++ + L   ++P EP+  SS
Sbjct: 63  IFESQRMKFSEIPQRLHALLMPPEPSGPSS 92

>1uhr_A SWI/SNF related, matrix associated, actin dependent regulator of chromatin subfamily...; structural genomics, chromatin remodeling; NMR {Mus musculus} SCOP: a.42.1.1 Length = 93

 Score = 69.0 bits (169), Expect = 4e-15
 Identities = 18/78 (23%), Positives = 34/78 (43%), Gaps = 3/78 (3%)

Query: 275 PSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGC 334
           P    +   LA+ LG       +    + +W+YIK + L+DP     +LCD  L+++   
Sbjct: 9   PPQFKLDPRLARLLGI--HTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIFES 66

Query: 335 ESISALGIQEMLARNHFL 352
           + +    I + L     +
Sbjct: 67  QRMKFSEIPQRLHA-LLM 83

>1v32_A AT5G08430, hypothetical protein RAFL09-47-K03; SWI/SNF complex subunit, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.42.1.1 Length = 101

 Score =  113 bits (283), Expect = 3e-31
 Identities = 25/84 (29%), Positives = 39/84 (46%), Gaps = 6/84 (7%)

Query: 180 SPELQAVVG------QPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDC 233
           S +L   +          + R ++   +  YI K  L DPSNK+K++CD  L ++F T  
Sbjct: 17  SRQLIEFLHSLGKDTSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRT 76

Query: 234 TDMFKMNKLLAKHIIPLEPTKESS 257
               K+  LL KH    + +  SS
Sbjct: 77  IFRMKVYDLLEKHYKENQDSGPSS 100

>1v32_A AT5G08430, hypothetical protein RAFL09-47-K03; SWI/SNF complex subunit, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.42.1.1 Length = 101

 Score = 76.8 bits (189), Expect = 9e-18
 Identities = 19/76 (25%), Positives = 38/76 (50%), Gaps = 5/76 (6%)

Query: 281 SEALAKFLGTGGR----EMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCES 336
           S  L +FL + G+     + + + +  + +YI    L DP N   ++CD +L  L G  +
Sbjct: 17  SRQLIEFLHSLGKDTSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRT 76

Query: 337 ISALGIQEMLARNHFL 352
           I  + + ++L + H+ 
Sbjct: 77  IFRMKVYDLLEK-HYK 91

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926

 Score = 51.8 bits (123), Expect = 2e-07
 Identities = 24/134 (17%), Positives = 33/134 (24%), Gaps = 9/134 (6%)

Query: 57  RSHPTPQ-QVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHF--------AL 107
           R +P  Q Q   N  P  QP     P         + Q  +PPQ   P          A 
Sbjct: 7   RVYPQAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQ 66

Query: 108 HHPHPHLPQFPQELNFSQPQPSQAAAPPPQPHSNVSKAEAFPQISAEVAKENPPVGAKRR 167
              H  + Q    +N           P       V      P    +     P  G    
Sbjct: 67  EQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSA 126

Query: 168 GGPGGLNKVCGVSP 181
                +  +  + P
Sbjct: 127 AMGQNMRPMNQLYP 140

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926

 Score = 47.1 bits (111), Expect = 6e-06
 Identities = 18/102 (17%), Positives = 29/102 (28%)

Query: 60  PTPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQFPQ 119
              QQ  T  Q Q   Q  Q     +    H+     P     P   +    P   Q   
Sbjct: 56  MGQQQFLTPAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQP 115

Query: 120 ELNFSQPQPSQAAAPPPQPHSNVSKAEAFPQISAEVAKENPP 161
               +  QPS A     +P + +   +   ++   +     P
Sbjct: 116 MAAPAYGQPSAAMGQNMRPMNQLYPIDLLTELPPPITDLTLP 157

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926

 Score = 41.3 bits (96), Expect = 4e-04
 Identities = 15/111 (13%), Positives = 24/111 (21%)

Query: 60  PTPQQVATNTQPQPQPQPQQLPPKDHFTLQHHPQFSLPPQQFPPHFALHHPHPHLPQFPQ 119
           P     +   Q    P  +QL  +            L         A   P   +     
Sbjct: 49  PQGAVPSMGQQQFLTPAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTP 108

Query: 120 ELNFSQPQPSQAAAPPPQPHSNVSKAEAFPQISAEVAKENPPVGAKRRGGP 170
                QP  + A   P        +          + +  PP+       P
Sbjct: 109 LQQQQQPMAAPAYGQPSAAMGQNMRPMNQLYPIDLLTELPPPITDLTLPPP 159

>1ycq_A MDM2, MDM2; anti-oncogene, DNA-binding, transcription regulation, nuclear protein, complex (oncogene protein/peptide), phosphorylation, activator; 2.30A {Xenopus laevis} SCOP: a.42.1.1 Length = 107

 Score = 41.1 bits (95), Expect = 6e-05
 Identities = 17/71 (23%), Positives = 27/71 (38%), Gaps = 4/71 (5%)

Query: 283 ALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILC-DAKLRELLGCESIS--- 338
           +L K  G         E    + +YI    L D     ++ C +  L EL G +  S   
Sbjct: 20  SLLKSAGAQKETFTMKEVIYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQEFSVKE 79

Query: 339 ALGIQEMLARN 349
              +  M++RN
Sbjct: 80  PRRLYAMISRN 90

>1ycq_A MDM2, MDM2; anti-oncogene, DNA-binding, transcription regulation, nuclear protein, complex (oncogene protein/peptide), phosphorylation, activator; 2.30A {Xenopus laevis} SCOP: a.42.1.1 Length = 107

 Score = 39.9 bits (92), Expect = 1e-04
 Identities = 12/71 (16%), Positives = 29/71 (40%), Gaps = 4/71 (5%)

Query: 194 RTEIVKQLWAYIRKNNLQDPSNKRKIIC-DDALRVVFETD---CTDMFKMNKLLAKHIIP 249
             E++  L  YI    L D   +  + C +D L  +F        +  ++  +++++++ 
Sbjct: 34  MKEVIYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQEFSVKEPRRLYAMISRNLVS 93

Query: 250 LEPTKESSKRF 260
               + S   F
Sbjct: 94  ANVKESSEDIF 104

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	355
1v31_A	93	Hypothetical protein RAFL11-05-P19; SWI/SNF comple	99.95
1uhr_A	93	SWI/SNF related, matrix associated, actin dependen	99.94
1v31_A	93	Hypothetical protein RAFL11-05-P19; SWI/SNF comple	99.93
1v32_A	101	AT5G08430, hypothetical protein RAFL09-47-K03; SWI	99.93
1uhr_A	93	SWI/SNF related, matrix associated, actin dependen	99.93
1v32_A	101	AT5G08430, hypothetical protein RAFL09-47-K03; SWI	99.92
1q1v_A	70	DEK protein; winged-helix motif, DNA binding prote	99.65
3dac_M	130	MDM4 protein; MDMX, MDM4, HDMX, HDM4, MDM-4, MDM-X	97.49
3fea_A	100	MDM4 protein; HDMX, HDM4,human MDM4, human MDMX, p	97.18
2z5s_M	140	MDM4 protein, zebrafish MDMX; MDMX, MDM4, acetylat	97.07
1ycq_A	107	MDM2, MDM2; anti-oncogene, DNA-binding, transcript	96.99
3dac_M	130	MDM4 protein; MDMX, MDM4, HDMX, HDM4, MDM-4, MDM-X	96.9
2axi_A	115	Ubiquitin-protein ligase E3 MDM2; drug design, pro	96.68
3fea_A	100	MDM4 protein; HDMX, HDM4,human MDM4, human MDMX, p	96.64
1z1m_A	119	Ubiquitin-protein ligase E3 MDM2; peptide-binding	96.52
2z5s_M	140	MDM4 protein, zebrafish MDMX; MDMX, MDM4, acetylat	96.46
1z1m_A	119	Ubiquitin-protein ligase E3 MDM2; peptide-binding	96.31
1ycq_A	107	MDM2, MDM2; anti-oncogene, DNA-binding, transcript	96.28
2axi_A	115	Ubiquitin-protein ligase E3 MDM2; drug design, pro	95.76

>1v31_A Hypothetical protein RAFL11-05-P19; SWI/SNF complex subunit, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: a.42.1.1

Probab=99.95  E-value=2.8e-29  Score=204.34  Aligned_cols=89  Identities=26%  Similarity=0.524  Sum_probs=84.7

Q ss_pred             CCCCCCCccccCCHHHHHhhCCCCCCHHHHHHHHHHHHHHcCCCCCCCCCccccChhhhhhhhcCccChHHHHHHHHhcc
Q 018492          168 GGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHI  247 (355)
Q Consensus       168 ~~~~g~~k~~~lSpeLa~~lG~~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cDdkLk~lF~~d~i~~~~m~klL~~Hl  247 (355)
                      +|..+++.+|.||++|++|||..++||++||++||+|||.||||||+|||.|+||++|+.|||+++|.||+|+++|++||
T Consensus         3 ~~~~~~p~~~~lS~~La~~lG~~~~sr~evvk~lW~YIK~n~Lqdp~~k~~I~cD~~L~~lfg~~~v~~~~~~klL~~Hl   82 (93)
T 1v31_A            3 SGSSGVPEKFKLSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQKVFGEEKLKFTMVSQKISHHL   82 (93)
T ss_dssp             SSCCSSCCCEECCHHHHHHSCCSEECSHHHHHHHHHHHHHTTCBCSSCSSEEECCSHHHHHSCSSEEETTTTHHHHHHHC
T ss_pred             CCCCCCCCccccCHHHHHHHCCCccCHHHHHHHHHHHHHHccCcCcccCceeehhHHHHHHhCCCcccHHHHHHHHHHhc
Confidence            35566779999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCccc
Q 018492          248 IPLEPTKES  256 (355)
Q Consensus       248 ~p~dp~~~~  256 (355)
                      .|++|+..+
T Consensus        83 ~p~~Pi~~~   91 (93)
T 1v31_A           83 SPPPPSGPS   91 (93)
T ss_dssp             BCCCCSSCC
T ss_pred             CCCCCeeCC
Confidence            999999754

>1uhr_A SWI/SNF related, matrix associated, actin dependent regulator of chromatin subfamily...; structural genomics, chromatin remodeling; NMR {Mus musculus} SCOP: a.42.1.1

Probab=99.94  E-value=3.2e-28  Score=198.14  Aligned_cols=83  Identities=28%  Similarity=0.582  Sum_probs=80.1

Q ss_pred             CccccCCHHHHHhhCCCCCCHHHHHHHHHHHHHHcCCCCCCCCCccccChhhhhhhhcCccChHHHHHHHHhccCCCCCC
Q 018492          174 NKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLEPT  253 (355)
Q Consensus       174 ~k~~~lSpeLa~~lG~~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cDdkLk~lF~~d~i~~~~m~klL~~Hl~p~dp~  253 (355)
                      ..+|.||++|++|||..++||++||++||+|||.||||||+|||.|+||++|+.|||+++|.||+|+++|++||.|++|+
T Consensus         9 p~~~~lS~~La~~lG~~~~sr~evvk~lW~YIK~n~Lqdp~~k~~I~cD~~Lk~lfg~~~v~~~~~~klL~~Hl~p~~PI   88 (93)
T 1uhr_A            9 PPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIFESQRMKFSEIPQRLHALLMPPEPS   88 (93)
T ss_dssp             CCEEEECTTHHHHTCCSEEEHHHHHHHHHHHHHHTTCBCSSCSSEECCCTTHHHHTCCSSEEGGGSHHHHHHHEECSSCC
T ss_pred             CCccCcCHHHHHHHCCCccCHHHHHHHHHHHHHhccCCCccccceeechHHHHHHhCCCcccHHHHHHHHHHhcCCCCCe
Confidence            45799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccc
Q 018492          254 KES  256 (355)
Q Consensus       254 ~~~  256 (355)
                      ..+
T Consensus        89 ~i~   91 (93)
T 1uhr_A           89 GPS   91 (93)
T ss_dssp             CSS
T ss_pred             eCC
Confidence            754

>1v31_A Hypothetical protein RAFL11-05-P19; SWI/SNF complex subunit, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: a.42.1.1

Probab=99.93  E-value=9.5e-27  Score=189.41  Aligned_cols=80  Identities=21%  Similarity=0.401  Sum_probs=76.0

Q ss_pred             CCCCccccccHHHHHHhcCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCchhHHhhhccCccchhhHHHHHHhccC
Q 018492          272 ESGPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHF  351 (355)
Q Consensus       272 ~~~~~~~~lS~~La~flG~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CDekLk~Lfg~~~i~~~~~~klL~~H~~  351 (355)
                      ...+++|+||++||+|||..  ++||++|+++||+|||.||||||.||+.|+||++|+.|||+++|.||+|+++|++||.
T Consensus         6 ~~~p~~~~lS~~La~~lG~~--~~sr~evvk~lW~YIK~n~Lqdp~~k~~I~cD~~L~~lfg~~~v~~~~~~klL~~Hl~   83 (93)
T 1v31_A            6 SGVPEKFKLSTALMDVLGIE--VETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQKVFGEEKLKFTMVSQKISHHLS   83 (93)
T ss_dssp             CSSCCCEECCHHHHHHSCCS--EECSHHHHHHHHHHHHHTTCBCSSCSSEEECCSHHHHHSCSSEEETTTTHHHHHHHCB
T ss_pred             CCCCCccccCHHHHHHHCCC--ccCHHHHHHHHHHHHHHccCcCcccCceeehhHHHHHHhCCCcccHHHHHHHHHHhcC
Confidence            34689999999999999984  8999999999999999999999999999999999999999999999999999999997


Q ss_pred             CC
Q 018492          352 LR  353 (355)
Q Consensus       352 ~~  353 (355)
                      ..
T Consensus        84 p~   85 (93)
T 1v31_A           84 PP   85 (93)
T ss_dssp             CC
T ss_pred             CC
Confidence            64

>1v32_A AT5G08430, hypothetical protein RAFL09-47-K03; SWI/SNF complex subunit, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.42.1.1

Probab=99.93  E-value=3.5e-26  Score=188.71  Aligned_cols=78  Identities=24%  Similarity=0.371  Sum_probs=73.0

Q ss_pred             cccccHHHHHHh---cCCC-CccCHHHHHHHHHHHHHHcCCCCCCCCCcccCchhHHhhhccCccchhhHHHHHHhccCC
Q 018492          277 SVIISEALAKFL---GTGG-REMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHFL  352 (355)
Q Consensus       277 ~~~lS~~La~fl---G~~~-~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CDekLk~Lfg~~~i~~~~~~klL~~H~~~  352 (355)
                      .-++|++|++||   |.++ +++||++||++||+|||+||||||.|||.|+||++|+.|||+++|.||+|+++|.+||.+
T Consensus        13 ~~w~S~eLa~fl~~iG~~~~~~~sR~eVvk~lW~YIK~nnLQdp~~Kr~I~cD~kLk~lFg~~~v~~~~m~klL~~Hl~~   92 (101)
T 1v32_A           13 VGWGSRQLIEFLHSLGKDTSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKHYKE   92 (101)
T ss_dssp             SSSSCHHHHHHHHHHTCCCSSCCCHHHHHHHHHHHHHHHTCBCSSCTTEEECCSHHHHHTCCSEEETTHHHHHHHHHSCS
T ss_pred             cccCCHHHHHHHHHcCCCCccccCHHHHHHHHHHHHHhhcCcCcccCCeeeccHHHHHHHCCCcccHHHHHHHHHHHcCc
Confidence            447999999999   8743 579999999999999999999999999999999999999999999999999999999998


Q ss_pred             CC
Q 018492          353 RQ  354 (355)
Q Consensus       353 ~~  354 (355)
                      ++
T Consensus        93 ~~   94 (101)
T 1v32_A           93 NQ   94 (101)
T ss_dssp             CC
T ss_pred             cc
Confidence            63

>1uhr_A SWI/SNF related, matrix associated, actin dependent regulator of chromatin subfamily...; structural genomics, chromatin remodeling; NMR {Mus musculus} SCOP: a.42.1.1

Probab=99.93  E-value=1.7e-26  Score=188.02  Aligned_cols=78  Identities=23%  Similarity=0.447  Sum_probs=74.8

Q ss_pred             CCccccccHHHHHHhcCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCchhHHhhhccCccchhhHHHHHHhccCCC
Q 018492          274 GPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHFLR  353 (355)
Q Consensus       274 ~~~~~~lS~~La~flG~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CDekLk~Lfg~~~i~~~~~~klL~~H~~~~  353 (355)
                      .|++|+||++||+|+|..  ++||++|+++||+|||.||||||.||+.|+||++|+.|||+++|.||+|+++|++||...
T Consensus         8 ~p~~~~lS~~La~~lG~~--~~sr~evvk~lW~YIK~n~Lqdp~~k~~I~cD~~Lk~lfg~~~v~~~~~~klL~~Hl~p~   85 (93)
T 1uhr_A            8 QPPQFKLDPRLARLLGIH--TQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIFESQRMKFSEIPQRLHALLMPP   85 (93)
T ss_dssp             SCCEEEECTTHHHHTCCS--EEEHHHHHHHHHHHHHHTTCBCSSCSSEECCCTTHHHHTCCSSEEGGGSHHHHHHHEECS
T ss_pred             CCCccCcCHHHHHHHCCC--ccCHHHHHHHHHHHHHhccCCCccccceeechHHHHHHhCCCcccHHHHHHHHHHhcCCC
Confidence            578999999999999984  999999999999999999999999999999999999999999999999999999999764

>1v32_A AT5G08430, hypothetical protein RAFL09-47-K03; SWI/SNF complex subunit, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.42.1.1

Probab=99.92  E-value=2.2e-25  Score=183.94  Aligned_cols=76  Identities=32%  Similarity=0.469  Sum_probs=71.7

Q ss_pred             ccCCHHHHHhh---CC---CCCCHHHHHHHHHHHHHHcCCCCCCCCCccccChhhhhhhhcCccChHHHHHHHHhccCCC
Q 018492          177 CGVSPELQAVV---GQ---PAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPL  250 (355)
Q Consensus       177 ~~lSpeLa~~l---G~---~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cDdkLk~lF~~d~i~~~~m~klL~~Hl~p~  250 (355)
                      -.+|++|++||   |.   .++||++||++||+|||+||||||.|||.|+||++|+.|||+++|.||+|+++|++||.+.
T Consensus        14 ~w~S~eLa~fl~~iG~~~~~~~sR~eVvk~lW~YIK~nnLQdp~~Kr~I~cD~kLk~lFg~~~v~~~~m~klL~~Hl~~~   93 (101)
T 1v32_A           14 GWGSRQLIEFLHSLGKDTSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKHYKEN   93 (101)
T ss_dssp             SSSCHHHHHHHHHHTCCCSSCCCHHHHHHHHHHHHHHHTCBCSSCTTEEECCSHHHHHTCCSEEETTHHHHHHHHHSCSC
T ss_pred             ccCCHHHHHHHHHcCCCCccccCHHHHHHHHHHHHHhhcCcCcccCCeeeccHHHHHHHCCCcccHHHHHHHHHHHcCcc
Confidence            36899999999   98   5799999999999999999999999999999999999999999999999999999999876


Q ss_pred             CC
Q 018492          251 EP  252 (355)
Q Consensus       251 dp  252 (355)
                      +.
T Consensus        94 ~e   95 (101)
T 1v32_A           94 QD   95 (101)
T ss_dssp             CC
T ss_pred             cc
Confidence            43

>1q1v_A DEK protein; winged-helix motif, DNA binding protein; NMR {Homo sapiens} SCOP: a.159.4.1

Probab=99.65  E-value=1.5e-16  Score=123.00  Aligned_cols=57  Identities=18%  Similarity=0.388  Sum_probs=55.0

Q ss_pred             CCCHHHHHHHHHHHhhhcCCCCCccHHHHHHHHHHHh-CCCCccchhHHHHHHHHHhcC
Q 018492            1 MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKL-GLDLSHKAGFIRDQISLLLRS   58 (355)
Q Consensus         1 m~Sd~el~~~i~~iL~~aDL~t~~T~k~Vr~qLE~~f-gvDLs~kK~~I~~~i~~~l~~   58 (355)
                      +|||++|...|++||++|||++ +|++.||++||++| |+||++||+||+.+|+.+|++
T Consensus        11 ~Psd~ei~~~I~~IL~~aDL~t-vT~K~VR~~Le~~~pg~dLs~kK~~I~~~I~~~L~~   68 (70)
T 1q1v_A           11 PPTDEELKETIKKLLASANLEE-VTMKQICKKVYENYPTYDLTERKDFIKTTVKELISL   68 (70)
T ss_dssp             CCCHHHHHHHHHHHHTTSCGGG-CCHHHHHHHHHHHCSSSCCSHHHHHHHHHHHHHHHS
T ss_pred             CcCHHHHHHHHHHHHHhCCHHH-HhHHHHHHHHHHHccCCCChHHHHHHHHHHHHHHhc
Confidence            6999999999999999999997 99999999999999 999999999999999999975

>3dac_M MDM4 protein; MDMX, MDM4, HDMX, HDM4, MDM-4, MDM-X, MDM2, HDM2, nucleus, oncogene, apoptosis, cell cycle, disease mutation; 1.80A {Danio rerio}

Probab=97.49  E-value=0.00017  Score=61.10  Aligned_cols=76  Identities=28%  Similarity=0.366  Sum_probs=65.7

Q ss_pred             cccccHHHHHHh---cCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCc-hhHHhhhccCccchhh---HHHHHHhc
Q 018492          277 SVIISEALAKFL---GTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCD-AKLRELLGCESISALG---IQEMLARN  349 (355)
Q Consensus       277 ~~~lS~~La~fl---G~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CD-ekLk~Lfg~~~i~~~~---~~klL~~H  349 (355)
                      .++--+.|-.+|   |......|..+|+-.+=+||-.+.|.||.+..+|.|- +.|.+|||+++|++.+   |.++|.++
T Consensus        24 ~Vrpk~~lL~iLq~aGA~~dvfT~keVm~YLgqYI~~KqLyd~~~qhiV~C~~D~LG~llGv~sFSVkdp~~L~~mL~~N  103 (130)
T 3dac_M           24 QVHPRAPLLQILKVAGAQEEVFTVKEVMHYLGQYIMMKQLYDKQRQHIVHCHDDPLGELLEVGSFSVKNPSPLYEMLKRN  103 (130)
T ss_dssp             EEEECHHHHHHHHHTTCCCSSEEHHHHHHHHHHHHHHHTCBCSSSTTEEECTTSHHHHHHTSSEEETTSCHHHHHHHHHH
T ss_pred             ecCCcHHHHHHHHHhccCcceeehHHHHHHHHHhhhhhhccCccccceeEeCCcccccccCCcceeecCcHHHHHHHHhh
Confidence            456666777776   6655689999999999999999999999999999995 5788999999999998   99999998


Q ss_pred             cCC
Q 018492          350 HFL  352 (355)
Q Consensus       350 ~~~  352 (355)
                      ++.
T Consensus       104 Lv~  106 (130)
T 3dac_M          104 LVI  106 (130)
T ss_dssp             EEE
T ss_pred             eec
Confidence            864

>3fea_A MDM4 protein; HDMX, HDM4,human MDM4, human MDMX, protein-protein interaction, metal-binding; HET: PM3 6CW; 1.33A {Homo sapiens} SCOP: a.42.1.0 PDB: 3fe7_A* 3u15_A* 2vyr_A 3lbj_E* 3fdo_A 3dab_A 3jzp_A 3jzo_A 3jzq_A 3eqy_A

Probab=97.18  E-value=0.00044  Score=56.32  Aligned_cols=77  Identities=30%  Similarity=0.378  Sum_probs=65.0

Q ss_pred             cccccHHHHHHh---cCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCc-hhHHhhhccCccchh---hHHHHHHhc
Q 018492          277 SVIISEALAKFL---GTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCD-AKLRELLGCESISAL---GIQEMLARN  349 (355)
Q Consensus       277 ~~~lS~~La~fl---G~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CD-ekLk~Lfg~~~i~~~---~~~klL~~H  349 (355)
                      .++--+.|-++|   |......|..+|+-.+=+||-.+.|.||.+..+|.|. +.|-++||+++|++.   .+.++|.+|
T Consensus        15 ~Vrpk~~lL~iLq~aGA~~d~fT~keVm~YLgqYI~~KqLyd~~~qhiV~C~~D~LG~l~G~~sFsvkdp~~l~~ml~~n   94 (100)
T 3fea_A           15 QVRPKLPLLKILHAAGAQGEMFTVKEVMHYLGQYIMVKQLYDQQEQHMVYCGGDLLGELLGRQSFSVKDPSPLYDMLRKN   94 (100)
T ss_dssp             CBEECHHHHHHHHHTTCCSSCBCHHHHHHHHHHHHHHTTCEETTEEEEEECTTSHHHHHHTCSEEETTCCHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHhccCcceeehHHHHHHHHHhhhhhhccCccccceEEeCCCccccccCCcceeecCchHHHHHHHhh
Confidence            455566777776   6555689999999999999999999999999999995 567899999999988   889999998


Q ss_pred             cCCC
Q 018492          350 HFLR  353 (355)
Q Consensus       350 ~~~~  353 (355)
                      ++.-
T Consensus        95 Lv~~   98 (100)
T 3fea_A           95 LVTL   98 (100)
T ss_dssp             EEC-
T ss_pred             ceec
Confidence            8653

>2z5s_M MDM4 protein, zebrafish MDMX; MDMX, MDM4, acetylation, activator, anti-oncogene, apoptosis, cell cycle, cytoplasm, disease mutation, DNA- binding; 2.30A {Danio rerio} PDB: 2z5t_M

Probab=97.07  E-value=0.00081  Score=57.32  Aligned_cols=75  Identities=28%  Similarity=0.342  Sum_probs=62.8

Q ss_pred             cccccHHHHHHh---cCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCc-hhHHhhhccCccchhhHH---HHHHhc
Q 018492          277 SVIISEALAKFL---GTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCD-AKLRELLGCESISALGIQ---EMLARN  349 (355)
Q Consensus       277 ~~~lS~~La~fl---G~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CD-ekLk~Lfg~~~i~~~~~~---klL~~H  349 (355)
                      .++--+.|-+||   |......|+-+|+-.|-+||-.+.|.|+.+..+|.|. +.|-+||||.+|++-+..   ++|.+.
T Consensus        23 ~VrPk~~LLkiLq~aGA~~~~fT~keVm~YLGqYIm~KqLYD~~~qhiV~C~~D~LG~l~Gv~sFSVKdp~~ly~ML~~N  102 (140)
T 2z5s_M           23 QVHPRAPLLQILKVAGAQEEVFTLKEVMHYLGQYIMMKQLYDKQRQHIVHCHDDPLGELLEVGSFSVKNPSPVYEMLKRN  102 (140)
T ss_dssp             CBEECHHHHHHHHHTTCCCSCBCHHHHHHHHHHHHHHHTCBCSSSTTEEECTTSHHHHHHTSSEEETTBCHHHHHHHHHH
T ss_pred             eecCcHHHHHHHHHhCcccceeeHHHHHHHHHHHHHHhhhcccccCcEEeeCCcccccccCccceeecCcHHHHHHHHHh
Confidence            777888888888   5555689999999999999999999999999999996 556899999999887655   555554


Q ss_pred             cC
Q 018492          350 HF  351 (355)
Q Consensus       350 ~~  351 (355)
                      ++
T Consensus       103 Lv  104 (140)
T 2z5s_M          103 LV  104 (140)
T ss_dssp             EE
T ss_pred             cc
Confidence            43

>1ycq_A MDM2, MDM2; anti-oncogene, DNA-binding, transcription regulation, nuclear protein, complex (oncogene protein/peptide), phosphorylation, activator; 2.30A {Xenopus laevis} SCOP: a.42.1.1

Probab=96.99  E-value=0.0015  Score=53.74  Aligned_cols=71  Identities=23%  Similarity=0.320  Sum_probs=58.2

Q ss_pred             cccccHHHHHHh---cCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCc-hhHHhhhccCccchhhHHHHHH
Q 018492          277 SVIISEALAKFL---GTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCD-AKLRELLGCESISALGIQEMLA  347 (355)
Q Consensus       277 ~~~lS~~La~fl---G~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CD-ekLk~Lfg~~~i~~~~~~klL~  347 (355)
                      .++-.+.|.++|   |......|+.+|+-.+-+||-.+.|.|+.+.++|.|. +.|-+|||+.+|++-+...+..
T Consensus        11 ~VrPk~~LLklL~~~GA~~~~fT~keVm~YLgqYI~~KqLyd~~~qhiV~C~~D~LG~l~g~~~Fsvkdp~~l~~   85 (107)
T 1ycq_A           11 LVQPTPLLLSLLKSAGAQKETFTMKEVIYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQEFSVKEPRRLYA   85 (107)
T ss_dssp             CBEECHHHHHHHHHTTCCCSCBCHHHHHHHHHHHHHHHTCBCSSSTTEEECTTSHHHHHHTCSEEETTCHHHHHH
T ss_pred             ccCccHHHHHHHHHhccccceeeehhhhhhHHHHHhHHhhcccccCcEEeeCCcccccccCccceeecCcHHHHH
Confidence            455566677766   5544689999999999999999999999999999996 5568999999999887664443

>3dac_M MDM4 protein; MDMX, MDM4, HDMX, HDM4, MDM-4, MDM-X, MDM2, HDM2, nucleus, oncogene, apoptosis, cell cycle, disease mutation; 1.80A {Danio rerio}

Probab=96.90  E-value=0.00091  Score=56.66  Aligned_cols=76  Identities=18%  Similarity=0.341  Sum_probs=64.4

Q ss_pred             ccCCHHHHHhh---CC--CCCCHHHHHHHHHHHHHHcCCCCCCCCCccccC-hhhhhhhhcCccChHH---HHHHHHhcc
Q 018492          177 CGVSPELQAVV---GQ--PAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICD-DALRVVFETDCTDMFK---MNKLLAKHI  247 (355)
Q Consensus       177 ~~lSpeLa~~l---G~--~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cD-dkLk~lF~~d~i~~~~---m~klL~~Hl  247 (355)
                      .+--++|-.+|   |.  ...|..+|+-.|.+||-.+.|.||.+...|.|- |.|..+||+++|.+-+   +.+.|.++|
T Consensus        25 Vrpk~~lL~iLq~aGA~~dvfT~keVm~YLgqYI~~KqLyd~~~qhiV~C~~D~LG~llGv~sFSVkdp~~L~~mL~~NL  104 (130)
T 3dac_M           25 VHPRAPLLQILKVAGAQEEVFTVKEVMHYLGQYIMMKQLYDKQRQHIVHCHDDPLGELLEVGSFSVKNPSPLYEMLKRNL  104 (130)
T ss_dssp             EEECHHHHHHHHHTTCCCSSEEHHHHHHHHHHHHHHHTCBCSSSTTEEECTTSHHHHHHTSSEEETTSCHHHHHHHHHHE
T ss_pred             cCCcHHHHHHHHHhccCcceeehHHHHHHHHHhhhhhhccCccccceeEeCCcccccccCCcceeecCcHHHHHHHHhhe
Confidence            33456666665   54  578999999999999999999999999999996 8899999999999987   999999999


Q ss_pred             CCCCC
Q 018492          248 IPLEP  252 (355)
Q Consensus       248 ~p~dp  252 (355)
                      +++..
T Consensus       105 v~~~~  109 (130)
T 3dac_M          105 VILNN  109 (130)
T ss_dssp             EEC--
T ss_pred             ecccC
Confidence            99874

>2axi_A Ubiquitin-protein ligase E3 MDM2; drug design, protein-protein interactions, ligase, LIGA inhibitor complex; HET: 6CW MPO; 1.40A {Homo sapiens} SCOP: a.42.1.1 PDB: 1ycr_A 2gv2_A* 1t4f_M* 3jzr_A 3g03_A 3tu1_A* 3jzk_A* 1t4e_A* 3lbl_A* 4dij_A* 3lbk_A* 3v3b_A* 3jzs_A 3eqs_A 3iux_A* 3iwy_A* 3lnj_A* 3lnz_A 1rv1_A* 1ttv_A*

Probab=96.68  E-value=0.0014  Score=54.49  Aligned_cols=71  Identities=23%  Similarity=0.283  Sum_probs=58.3

Q ss_pred             cccccHHHHHHh---cCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCc-hhHHhhhccCccchhhHHHHHH
Q 018492          277 SVIISEALAKFL---GTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCD-AKLRELLGCESISALGIQEMLA  347 (355)
Q Consensus       277 ~~~lS~~La~fl---G~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CD-ekLk~Lfg~~~i~~~~~~klL~  347 (355)
                      .++-.+.|.++|   |......|..+|+-.+-+||-.+.|.|+.+..+|.|. +.|-+||||.+|++-+...+..
T Consensus        11 ~VrPk~~LLklLq~~GA~~~vfT~keVm~YLgqYIm~KqLyd~~~qhiV~C~~D~LG~l~g~~~Fsvkdp~~l~~   85 (115)
T 2axi_A           11 LVRPKPLLLKLLKSVGAQKDTYTMKEVLFYLGQYIMTKRLYDEKQQHIVYCSNDLLGDLFGVPSFSVKEHRKIYT   85 (115)
T ss_dssp             EEEECHHHHHHHHHTTCCCSCEEHHHHHHHHHHHHHHHTCEETTEEEEEECTTSHHHHHHSSSEEETTCHHHHHH
T ss_pred             ccCccHHHHHHHHHhccccceeechhheehhhhhhhHhhhcccccCcEEeeCCcccccccCccceeecCcHHHHH
Confidence            455666777776   5444579999999999999999999999999999996 5568999999998886555544

>3fea_A MDM4 protein; HDMX, HDM4,human MDM4, human MDMX, protein-protein interaction, metal-binding; HET: PM3 6CW; 1.33A {Homo sapiens} SCOP: a.42.1.0 PDB: 3fe7_A* 3u15_A* 2vyr_A 3lbj_E* 3fdo_A 3dab_A 3jzp_A 3jzo_A 3jzq_A 3eqy_A

Probab=96.64  E-value=0.0017  Score=52.84  Aligned_cols=74  Identities=19%  Similarity=0.329  Sum_probs=61.8

Q ss_pred             cCCHHHHHhh---CC--CCCCHHHHHHHHHHHHHHcCCCCCCCCCccccC-hhhhhhhhcCccChH---HHHHHHHhccC
Q 018492          178 GVSPELQAVV---GQ--PAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICD-DALRVVFETDCTDMF---KMNKLLAKHII  248 (355)
Q Consensus       178 ~lSpeLa~~l---G~--~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cD-dkLk~lF~~d~i~~~---~m~klL~~Hl~  248 (355)
                      +--++|-.+|   |.  +..|..+|+-.|-+||-.+.|.||.+...|.|. |.|-.+||+++|.+-   .+.+.|.++|+
T Consensus        17 rpk~~lL~iLq~aGA~~d~fT~keVm~YLgqYI~~KqLyd~~~qhiV~C~~D~LG~l~G~~sFsvkdp~~l~~ml~~nLv   96 (100)
T 3fea_A           17 RPKLPLLKILHAAGAQGEMFTVKEVMHYLGQYIMVKQLYDQQEQHMVYCGGDLLGELLGRQSFSVKDPSPLYDMLRKNLV   96 (100)
T ss_dssp             EECHHHHHHHHHTTCCSSCBCHHHHHHHHHHHHHHTTCEETTEEEEEECTTSHHHHHHTCSEEETTCCHHHHHHHHHHEE
T ss_pred             CCcHHHHHHHHHhccCcceeehHHHHHHHHHhhhhhhccCccccceEEeCCCccccccCCcceeecCchHHHHHHHhhce
Confidence            3355666665   54  578999999999999999999999999999996 788999999999886   88888999987


Q ss_pred             CCC
Q 018492          249 PLE  251 (355)
Q Consensus       249 p~d  251 (355)
                      .+.
T Consensus        97 ~~~   99 (100)
T 3fea_A           97 TLA   99 (100)
T ss_dssp             C--
T ss_pred             ecC
Confidence            654

>1z1m_A Ubiquitin-protein ligase E3 MDM2; peptide-binding groove, psudosymmetry, alpha-beta domains; NMR {Homo sapiens}

Probab=96.52  E-value=0.0047  Score=51.62  Aligned_cols=72  Identities=22%  Similarity=0.268  Sum_probs=57.4

Q ss_pred             ccccHHHHHHh---cCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCc-hhHHhhhccCccchhhHHHHHHhc
Q 018492          278 VIISEALAKFL---GTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCD-AKLRELLGCESISALGIQEMLARN  349 (355)
Q Consensus       278 ~~lS~~La~fl---G~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CD-ekLk~Lfg~~~i~~~~~~klL~~H  349 (355)
                      ++-.+.|.+||   |......|..+|+-.+-+||-.+.|.|+.+.++|.|. +.|-+|||+.+|++-+...+...|
T Consensus        28 VrPk~~LLkiLq~aGA~~~vfT~keV~~YLgqYIm~KqLyd~~~qhiV~C~~D~LG~l~g~~~Fsvkdp~~l~~ml  103 (119)
T 1z1m_A           28 VRPKPLLLKLLKSVGAQKDTYTMKEVLFYLGQYIMTKRLYDEKQQHIVYCSNDLLGDLFGVPSFSVKEHRKIYTMI  103 (119)
T ss_dssp             CCCSTTSHHHHHHHTCCCSCCCTTHHHHHHHHHHHTTTCSCSSSSCEECCTTSHHHHHSCCSCEETTCHHHHHHHH
T ss_pred             ccccHHHHHHHHHhccccceeechheeehhhhhhhHhhhcccccCcEEeeCCcccccccCccceeecCcHHHHHHH
Confidence            34444445554   5555689999999999999999999999999999996 556899999999988766665543

>2z5s_M MDM4 protein, zebrafish MDMX; MDMX, MDM4, acetylation, activator, anti-oncogene, apoptosis, cell cycle, cytoplasm, disease mutation, DNA- binding; 2.30A {Danio rerio} PDB: 2z5t_M

Probab=96.46  E-value=0.0032  Score=53.65  Aligned_cols=76  Identities=18%  Similarity=0.332  Sum_probs=62.3

Q ss_pred             cccCCHHHHHhh---CC--CCCCHHHHHHHHHHHHHHcCCCCCCCCCccccC-hhhhhhhhcCccChHH---HHHHHHhc
Q 018492          176 VCGVSPELQAVV---GQ--PAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICD-DALRVVFETDCTDMFK---MNKLLAKH  246 (355)
Q Consensus       176 ~~~lSpeLa~~l---G~--~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cD-dkLk~lF~~d~i~~~~---m~klL~~H  246 (355)
                      ..+--+.|-.||   |.  ...|+-+|+-.|.+||-.+.|.|+.+..+|.|. |.|-.+||+++|.+-+   +.+.|.+-
T Consensus        23 ~VrPk~~LLkiLq~aGA~~~~fT~keVm~YLGqYIm~KqLYD~~~qhiV~C~~D~LG~l~Gv~sFSVKdp~~ly~ML~~N  102 (140)
T 2z5s_M           23 QVHPRAPLLQILKVAGAQEEVFTLKEVMHYLGQYIMMKQLYDKQRQHIVHCHDDPLGELLEVGSFSVKNPSPVYEMLKRN  102 (140)
T ss_dssp             CBEECHHHHHHHHHTTCCCSCBCHHHHHHHHHHHHHHHTCBCSSSTTEEECTTSHHHHHHTSSEEETTBCHHHHHHHHHH
T ss_pred             eecCcHHHHHHHHHhCcccceeeHHHHHHHHHHHHHHhhhcccccCcEEeeCCcccccccCccceeecCcHHHHHHHHHh
Confidence            455567787776   54  578999999999999999999999999999996 7789999999998864   44667777


Q ss_pred             cCCCC
Q 018492          247 IIPLE  251 (355)
Q Consensus       247 l~p~d  251 (355)
                      |++..
T Consensus       103 Lv~~~  107 (140)
T 2z5s_M          103 LVILN  107 (140)
T ss_dssp             EECC-
T ss_pred             ccccc
Confidence            77665

>1z1m_A Ubiquitin-protein ligase E3 MDM2; peptide-binding groove, psudosymmetry, alpha-beta domains; NMR {Homo sapiens}

Probab=96.31  E-value=0.0057  Score=51.12  Aligned_cols=64  Identities=19%  Similarity=0.218  Sum_probs=54.3

Q ss_pred             CCCCHHHHHHHHHHHHHHcCCCCCCCCCccccC-hhhhhhhhcCccChHHHHHHHHhccCCCCCC
Q 018492          190 PAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICD-DALRVVFETDCTDMFKMNKLLAKHIIPLEPT  253 (355)
Q Consensus       190 ~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cD-dkLk~lF~~d~i~~~~m~klL~~Hl~p~dp~  253 (355)
                      ...|+.+|+-.|.+||-.+.|.|+.+...|.|. |.|-.+||+++|.+-+-..+...|...+-..
T Consensus        46 ~vfT~keV~~YLgqYIm~KqLyd~~~qhiV~C~~D~LG~l~g~~~Fsvkdp~~l~~ml~~nLv~~  110 (119)
T 1z1m_A           46 DTYTMKEVLFYLGQYIMTKRLYDEKQQHIVYCSNDLLGDLFGVPSFSVKEHRKIYTMIYRNLVVV  110 (119)
T ss_dssp             SCCCTTHHHHHHHHHHHTTTCSCSSSSCEECCTTSHHHHHSCCSCEETTCHHHHHHHHSCSCCCC
T ss_pred             ceeechheeehhhhhhhHhhhcccccCcEEeeCCcccccccCccceeecCcHHHHHHHHHhcccc
Confidence            577889999999999999999999999999997 7779999999999987666666665554443

>1ycq_A MDM2, MDM2; anti-oncogene, DNA-binding, transcription regulation, nuclear protein, complex (oncogene protein/peptide), phosphorylation, activator; 2.30A {Xenopus laevis} SCOP: a.42.1.1

Probab=96.28  E-value=0.006  Score=50.19  Aligned_cols=75  Identities=17%  Similarity=0.362  Sum_probs=59.1

Q ss_pred             ccCCHHHHHhh---CC--CCCCHHHHHHHHHHHHHHcCCCCCCCCCccccC-hhhhhhhhcCccChHHHH---HHHHhcc
Q 018492          177 CGVSPELQAVV---GQ--PAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICD-DALRVVFETDCTDMFKMN---KLLAKHI  247 (355)
Q Consensus       177 ~~lSpeLa~~l---G~--~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cD-dkLk~lF~~d~i~~~~m~---klL~~Hl  247 (355)
                      .+-.+.|-.+|   |.  ...|+.+|+-.|.+||-.+.|.|+.+...|.|. |.|-.+||+++|.+-+-.   +.|.+-+
T Consensus        12 VrPk~~LLklL~~~GA~~~~fT~keVm~YLgqYI~~KqLyd~~~qhiV~C~~D~LG~l~g~~~Fsvkdp~~l~~ml~~nL   91 (107)
T 1ycq_A           12 VQPTPLLLSLLKSAGAQKETFTMKEVIYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQEFSVKEPRRLYAMISRNL   91 (107)
T ss_dssp             BEECHHHHHHHHHTTCCCSCBCHHHHHHHHHHHHHHHTCBCSSSTTEEECTTSHHHHHHTCSEEETTCHHHHHHHHHTTE
T ss_pred             cCccHHHHHHHHHhccccceeeehhhhhhHHHHHhHHhhcccccCcEEeeCCcccccccCccceeecCcHHHHHHHHHhc
Confidence            34455665555   54  578899999999999999999999999999997 777999999999887655   5555555


Q ss_pred             CCCC
Q 018492          248 IPLE  251 (355)
Q Consensus       248 ~p~d  251 (355)
                      ++..
T Consensus        92 v~~~   95 (107)
T 1ycq_A           92 VSAN   95 (107)
T ss_dssp             EESC
T ss_pred             cccc
Confidence            5544

>2axi_A Ubiquitin-protein ligase E3 MDM2; drug design, protein-protein interactions, ligase, LIGA inhibitor complex; HET: 6CW MPO; 1.40A {Homo sapiens} SCOP: a.42.1.1 PDB: 1ycr_A 2gv2_A* 1t4f_M* 3jzr_A 3g03_A 3tu1_A* 3jzk_A* 1t4e_A* 3lbl_A* 4dij_A* 3lbk_A* 3v3b_A* 3jzs_A 3eqs_A 3iux_A* 3iwy_A* 3lnj_A* 3lnz_A 1rv1_A* 1ttv_A*

Probab=95.76  E-value=0.0052  Score=51.06  Aligned_cols=71  Identities=20%  Similarity=0.277  Sum_probs=56.3

Q ss_pred             ccCCHHHHHhh---CC--CCCCHHHHHHHHHHHHHHcCCCCCCCCCccccC-hhhhhhhhcCccChHHHHHHHHhcc
Q 018492          177 CGVSPELQAVV---GQ--PAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICD-DALRVVFETDCTDMFKMNKLLAKHI  247 (355)
Q Consensus       177 ~~lSpeLa~~l---G~--~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cD-dkLk~lF~~d~i~~~~m~klL~~Hl  247 (355)
                      .+-.+.|-.+|   |.  ...|+.+|+-.|.+||-.+.|.|+.+...|.|. |.|-.+||+++|.+-+-..+...+.
T Consensus        12 VrPk~~LLklLq~~GA~~~vfT~keVm~YLgqYIm~KqLyd~~~qhiV~C~~D~LG~l~g~~~Fsvkdp~~l~~ml~   88 (115)
T 2axi_A           12 VRPKPLLLKLLKSVGAQKDTYTMKEVLFYLGQYIMTKRLYDEKQQHIVYCSNDLLGDLFGVPSFSVKEHRKIYTMIY   88 (115)
T ss_dssp             EEECHHHHHHHHHTTCCCSCEEHHHHHHHHHHHHHHHTCEETTEEEEEECTTSHHHHHHSSSEEETTCHHHHHHHHH
T ss_pred             cCccHHHHHHHHHhccccceeechhheehhhhhhhHhhhcccccCcEEeeCCcccccccCccceeecCcHHHHHHHH
Confidence            34455666665   54  567889999999999999999999999999997 7779999999998875555444443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	355
d1v31a_	93	a.42.1.1 (A:) Hypothetical protein AT5G14170 (rafl	2e-32
d1v31a_	93	a.42.1.1 (A:) Hypothetical protein AT5G14170 (rafl	4e-17
d1uhra_	93	a.42.1.1 (A:) SWI/SNF related regulator of chromat	2e-30
d1uhra_	93	a.42.1.1 (A:) SWI/SNF related regulator of chromat	1e-17
d1v32a_	101	a.42.1.1 (A:) Hypothetical protein AT5G08430 (rafl	1e-24
d1v32a_	101	a.42.1.1 (A:) Hypothetical protein AT5G08430 (rafl	4e-19
d1q1va_	70	a.159.4.1 (A:) DEK C-terminal domain {Human (Homo	1e-09

>d1v31a_ a.42.1.1 (A:) Hypothetical protein AT5G14170 (rafl11-05-p19) {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 93

class: All alpha proteins
fold: SWIB/MDM2 domain
superfamily: SWIB/MDM2 domain
family: SWIB/MDM2 domain
domain: Hypothetical protein AT5G14170 (rafl11-05-p19)
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score =  114 bits (287), Expect = 2e-32
 Identities = 24/89 (26%), Positives = 44/89 (49%)

Query: 169 GPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVV 228
           G  G+ +   +S  L  V+G     R  I+  +W Y++   LQ+P++     CD AL+ V
Sbjct: 4   GSSGVPEKFKLSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQKV 63

Query: 229 FETDCTDMFKMNKLLAKHIIPLEPTKESS 257
           F  +      +++ ++ H+ P  P+  SS
Sbjct: 64  FGEEKLKFTMVSQKISHHLSPPPPSGPSS 92

>d1v31a_ a.42.1.1 (A:) Hypothetical protein AT5G14170 (rafl11-05-p19) {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 93

class: All alpha proteins
fold: SWIB/MDM2 domain
superfamily: SWIB/MDM2 domain
family: SWIB/MDM2 domain
domain: Hypothetical protein AT5G14170 (rafl11-05-p19)
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 73.6 bits (181), Expect = 4e-17
 Identities = 17/72 (23%), Positives = 32/72 (44%), Gaps = 3/72 (4%)

Query: 280 ISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISA 339
           +S AL   LG       +      +W Y+K   L++P +     CDA L+++ G E +  
Sbjct: 14  LSTALMDVLGI--EVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQKVFGEEKLKF 71

Query: 340 LGIQEMLARNHF 351
             + + ++  H 
Sbjct: 72  TMVSQKISH-HL 82

>d1uhra_ a.42.1.1 (A:) SWI/SNF related regulator of chromatin (BRG1-associated factor 60a) {Mouse (Mus musculus) [TaxId: 10090]} Length = 93

class: All alpha proteins
fold: SWIB/MDM2 domain
superfamily: SWIB/MDM2 domain
family: SWIB/MDM2 domain
domain: SWI/SNF related regulator of chromatin (BRG1-associated factor 60a)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  109 bits (274), Expect = 2e-30
 Identities = 26/90 (28%), Positives = 45/90 (50%)

Query: 168 GGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRV 227
            G  G      + P L  ++G     R  I++ LW YI+ + LQDP  +  ++CD  L+ 
Sbjct: 3   SGSSGQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQ 62

Query: 228 VFETDCTDMFKMNKLLAKHIIPLEPTKESS 257
           +FE+      ++ + L   ++P EP+  SS
Sbjct: 63  IFESQRMKFSEIPQRLHALLMPPEPSGPSS 92

>d1uhra_ a.42.1.1 (A:) SWI/SNF related regulator of chromatin (BRG1-associated factor 60a) {Mouse (Mus musculus) [TaxId: 10090]} Length = 93

class: All alpha proteins
fold: SWIB/MDM2 domain
superfamily: SWIB/MDM2 domain
family: SWIB/MDM2 domain
domain: SWI/SNF related regulator of chromatin (BRG1-associated factor 60a)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 74.8 bits (184), Expect = 1e-17
 Identities = 17/73 (23%), Positives = 33/73 (45%), Gaps = 3/73 (4%)

Query: 280 ISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISA 339
           +   LA+ LG       +    + +W+YIK + L+DP     +LCD  L+++   + +  
Sbjct: 14  LDPRLARLLGI--HTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIFESQRMKF 71

Query: 340 LGIQEMLARNHFL 352
             I + L     +
Sbjct: 72  SEIPQRLHA-LLM 83

>d1v32a_ a.42.1.1 (A:) Hypothetical protein AT5G08430 (rafl09-47-k03) {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 101

class: All alpha proteins
fold: SWIB/MDM2 domain
superfamily: SWIB/MDM2 domain
family: SWIB/MDM2 domain
domain: Hypothetical protein AT5G08430 (rafl09-47-k03)
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 94.5 bits (235), Expect = 1e-24
 Identities = 25/84 (29%), Positives = 39/84 (46%), Gaps = 6/84 (7%)

Query: 180 SPELQAVVGQP------AMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDC 233
           S +L   +          + R ++   +  YI K  L DPSNK+K++CD  L ++F T  
Sbjct: 17  SRQLIEFLHSLGKDTSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRT 76

Query: 234 TDMFKMNKLLAKHIIPLEPTKESS 257
               K+  LL KH    + +  SS
Sbjct: 77  IFRMKVYDLLEKHYKENQDSGPSS 100

>d1v32a_ a.42.1.1 (A:) Hypothetical protein AT5G08430 (rafl09-47-k03) {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 101

class: All alpha proteins
fold: SWIB/MDM2 domain
superfamily: SWIB/MDM2 domain
family: SWIB/MDM2 domain
domain: Hypothetical protein AT5G08430 (rafl09-47-k03)
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 79.5 bits (196), Expect = 4e-19
 Identities = 19/76 (25%), Positives = 38/76 (50%), Gaps = 5/76 (6%)

Query: 281 SEALAKFLGTGGR----EMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCES 336
           S  L +FL + G+     + + + +  + +YI    L DP N   ++CD +L  L G  +
Sbjct: 17  SRQLIEFLHSLGKDTSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRT 76

Query: 337 ISALGIQEMLARNHFL 352
           I  + + ++L + H+ 
Sbjct: 77  IFRMKVYDLLEK-HYK 91

>d1q1va_ a.159.4.1 (A:) DEK C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 70

class: All alpha proteins
fold: Another 3-helical bundle
superfamily: DEK C-terminal domain
family: DEK C-terminal domain
domain: DEK C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.6 bits (124), Expect = 1e-09
 Identities = 10/57 (17%), Positives = 28/57 (49%), Gaps = 2/57 (3%)

Query: 1  MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKL-GLDLSHKAGFIRDQISLLL 56
            +D+E+ + ++ LL  ++     ++  + K++       DL+ +  FI+  +  L+
Sbjct: 11 PPTDEELKETIKKLLASANLE-EVTMKQICKKVYENYPTYDLTERKDFIKTTVKELI 66

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	355
d1v31a_	93	Hypothetical protein AT5G14170 (rafl11-05-p19) {Th	99.96
d1uhra_	93	SWI/SNF related regulator of chromatin (BRG1-assoc	99.96
d1uhra_	93	SWI/SNF related regulator of chromatin (BRG1-assoc	99.94
d1v31a_	93	Hypothetical protein AT5G14170 (rafl11-05-p19) {Th	99.94
d1v32a_	101	Hypothetical protein AT5G08430 (rafl09-47-k03) {Th	99.91
d1v32a_	101	Hypothetical protein AT5G08430 (rafl09-47-k03) {Th	99.88
d1q1va_	70	DEK C-terminal domain {Human (Homo sapiens) [TaxId	99.63
d1ttva_	107	MDM2 {African clawed frog (Xenopus laevis) [TaxId:	98.09
d2axia1	85	MDM2 {Human (Homo sapiens) [TaxId: 9606]}	97.96
d1ttva_	107	MDM2 {African clawed frog (Xenopus laevis) [TaxId:	97.74
d2axia1	85	MDM2 {Human (Homo sapiens) [TaxId: 9606]}	97.62

>d1v31a_ a.42.1.1 (A:) Hypothetical protein AT5G14170 (rafl11-05-p19) {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: SWIB/MDM2 domain
superfamily: SWIB/MDM2 domain
family: SWIB/MDM2 domain
domain: Hypothetical protein AT5G14170 (rafl11-05-p19)
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.96  E-value=3.8e-30  Score=207.61  Aligned_cols=89  Identities=26%  Similarity=0.524  Sum_probs=85.6

Q ss_pred             CCCCCCCccccCCHHHHHhhCCCCCCHHHHHHHHHHHHHHcCCCCCCCCCccccChhhhhhhhcCccChHHHHHHHHhcc
Q 018492          168 GGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHI  247 (355)
Q Consensus       168 ~~~~g~~k~~~lSpeLa~~lG~~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cDdkLk~lF~~d~i~~~~m~klL~~Hl  247 (355)
                      .+++||+++|+||++|++|||..++||++|+++||+|||+||||||+|+|.|+||++|+.|||.++|.|++|+++|++||
T Consensus         3 ~~~~G~~~~~~lS~~La~~lg~~~~sR~~v~k~iw~YIk~n~Lqd~~nkr~I~~D~~L~~lfg~~~v~~~~l~~~L~~Hl   82 (93)
T d1v31a_           3 SGSSGVPEKFKLSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQKVFGEEKLKFTMVSQKISHHL   82 (93)
T ss_dssp             SSCCSSCCCEECCHHHHHHSCCSEECSHHHHHHHHHHHHHTTCBCSSCSSEEECCSHHHHHSCSSEEETTTTHHHHHHHC
T ss_pred             CCCCCCcCCccCCHHHHHHHCcCcCcHHHHHHHHHHHHHHhCCCCCCCCCEEecCHHHHHHhCCCcccHHHHHHHHHHhC
Confidence            46799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCccc
Q 018492          248 IPLEPTKES  256 (355)
Q Consensus       248 ~p~dp~~~~  256 (355)
                      .|++|...+
T Consensus        83 ~p~~P~~~~   91 (93)
T d1v31a_          83 SPPPPSGPS   91 (93)
T ss_dssp             BCCCCSSCC
T ss_pred             CCCCCCCCC
Confidence            999997643

>d1uhra_ a.42.1.1 (A:) SWI/SNF related regulator of chromatin (BRG1-associated factor 60a) {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: SWIB/MDM2 domain
superfamily: SWIB/MDM2 domain
family: SWIB/MDM2 domain
domain: SWI/SNF related regulator of chromatin (BRG1-associated factor 60a)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.96  E-value=5.3e-30  Score=206.76  Aligned_cols=88  Identities=27%  Similarity=0.589  Sum_probs=85.2

Q ss_pred             CCCCCCCccccCCHHHHHhhCCCCCCHHHHHHHHHHHHHHcCCCCCCCCCccccChhhhhhhhcCccChHHHHHHHHhcc
Q 018492          168 GGPGGLNKVCGVSPELQAVVGQPAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHI  247 (355)
Q Consensus       168 ~~~~g~~k~~~lSpeLa~~lG~~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cDdkLk~lF~~d~i~~~~m~klL~~Hl  247 (355)
                      +|.+||..+|+||++|++|||.+++||++|+++||+|||+||||||+|+|+|+||++|+.|||+++|.||+|+++|++||
T Consensus         3 ~~~sg~p~~~~lS~~La~~lg~~~~sR~~v~k~iw~YIk~n~Lqdp~nkr~I~cD~~L~~lfg~~~v~~~~l~~~L~~Hl   82 (93)
T d1uhra_           3 SGSSGQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIFESQRMKFSEIPQRLHALL   82 (93)
T ss_dssp             CCCSSSCCEEEECTTHHHHTCCSEEEHHHHHHHHHHHHHHTTCBCSSCSSEECCCTTHHHHTCCSSEEGGGSHHHHHHHE
T ss_pred             CCCCCCCCCCCCCHHHHHHHCCCCcCHHHHHHHHHHHHHHhcCCCCCCCCEEecCHHHHHHhCCCeecHHHHHHHHHhhC
Confidence            46789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCcc
Q 018492          248 IPLEPTKE  255 (355)
Q Consensus       248 ~p~dp~~~  255 (355)
                      .|++|...
T Consensus        83 ~p~eP~~~   90 (93)
T d1uhra_          83 MPPEPSGP   90 (93)
T ss_dssp             ECSSCCCS
T ss_pred             CCCCCCCC
Confidence            99999764

>d1uhra_ a.42.1.1 (A:) SWI/SNF related regulator of chromatin (BRG1-associated factor 60a) {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: SWIB/MDM2 domain
superfamily: SWIB/MDM2 domain
family: SWIB/MDM2 domain
domain: SWI/SNF related regulator of chromatin (BRG1-associated factor 60a)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.94  E-value=7.3e-28  Score=194.12  Aligned_cols=83  Identities=23%  Similarity=0.444  Sum_probs=78.9

Q ss_pred             CCCCCCCccccccHHHHHHhcCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCchhHHhhhccCccchhhHHHHHHh
Q 018492          269 EGMESGPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLAR  348 (355)
Q Consensus       269 ~~~~~~~~~~~lS~~La~flG~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CDekLk~Lfg~~~i~~~~~~klL~~  348 (355)
                      .+..|++++|+||++|++|||..  ++||++|+++||+|||+||||||.|||.|+||++|+.|||+++|.|++|+++|.+
T Consensus         3 ~~~sg~p~~~~lS~~La~~lg~~--~~sR~~v~k~iw~YIk~n~Lqdp~nkr~I~cD~~L~~lfg~~~v~~~~l~~~L~~   80 (93)
T d1uhra_           3 SGSSGQPPQFKLDPRLARLLGIH--TQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIFESQRMKFSEIPQRLHA   80 (93)
T ss_dssp             CCCSSSCCEEEECTTHHHHTCCS--EEEHHHHHHHHHHHHHHTTCBCSSCSSEECCCTTHHHHTCCSSEEGGGSHHHHHH
T ss_pred             CCCCCCCCCCCCCHHHHHHHCCC--CcCHHHHHHHHHHHHHHhcCCCCCCCCEEecCHHHHHHhCCCeecHHHHHHHHHh
Confidence            35668999999999999999995  8999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCC
Q 018492          349 NHFLR  353 (355)
Q Consensus       349 H~~~~  353 (355)
                      ||+..
T Consensus        81 Hl~p~   85 (93)
T d1uhra_          81 LLMPP   85 (93)
T ss_dssp             HEECS
T ss_pred             hCCCC
Confidence            99764

>d1v31a_ a.42.1.1 (A:) Hypothetical protein AT5G14170 (rafl11-05-p19) {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: SWIB/MDM2 domain
superfamily: SWIB/MDM2 domain
family: SWIB/MDM2 domain
domain: Hypothetical protein AT5G14170 (rafl11-05-p19)
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.94  E-value=1.8e-27  Score=191.86  Aligned_cols=83  Identities=22%  Similarity=0.408  Sum_probs=78.9

Q ss_pred             CCCCCCCccccccHHHHHHhcCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCchhHHhhhccCccchhhHHHHHHh
Q 018492          269 EGMESGPSSVIISEALAKFLGTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLAR  348 (355)
Q Consensus       269 ~~~~~~~~~~~lS~~La~flG~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CDekLk~Lfg~~~i~~~~~~klL~~  348 (355)
                      .+++|++++|+||++||+|||..  ++||++|+++||+|||+||||||.|||.|+||++|+.|||+++|.|++|+++|.+
T Consensus         3 ~~~~G~~~~~~lS~~La~~lg~~--~~sR~~v~k~iw~YIk~n~Lqd~~nkr~I~~D~~L~~lfg~~~v~~~~l~~~L~~   80 (93)
T d1v31a_           3 SGSSGVPEKFKLSTALMDVLGIE--VETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQKVFGEEKLKFTMVSQKISH   80 (93)
T ss_dssp             SSCCSSCCCEECCHHHHHHSCCS--EECSHHHHHHHHHHHHHTTCBCSSCSSEEECCSHHHHHSCSSEEETTTTHHHHHH
T ss_pred             CCCCCCcCCccCCHHHHHHHCcC--cCcHHHHHHHHHHHHHHhCCCCCCCCCEEecCHHHHHHhCCCcccHHHHHHHHHH
Confidence            45678999999999999999995  8999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCC
Q 018492          349 NHFLR  353 (355)
Q Consensus       349 H~~~~  353 (355)
                      ||..-
T Consensus        81 Hl~p~   85 (93)
T d1v31a_          81 HLSPP   85 (93)
T ss_dssp             HCBCC
T ss_pred             hCCCC
Confidence            99764

>d1v32a_ a.42.1.1 (A:) Hypothetical protein AT5G08430 (rafl09-47-k03) {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: SWIB/MDM2 domain
superfamily: SWIB/MDM2 domain
family: SWIB/MDM2 domain
domain: Hypothetical protein AT5G08430 (rafl09-47-k03)
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.91  E-value=7.8e-25  Score=178.57  Aligned_cols=76  Identities=24%  Similarity=0.371  Sum_probs=70.8

Q ss_pred             cccHHHHHHhc---CC-CCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCchhHHhhhccCccchhhHHHHHHhccCCCC
Q 018492          279 IISEALAKFLG---TG-GREMLQAEATKRVWEYIKVNHLEDPLNSMVILCDAKLRELLGCESISALGIQEMLARNHFLRQ  354 (355)
Q Consensus       279 ~lS~~La~flG---~~-~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CDekLk~Lfg~~~i~~~~~~klL~~H~~~~~  354 (355)
                      ..|++|++|||   .+ .+++||.+|+++||+|||+||||||.|||.|+||++|+.|||+++|+||+|+++|++||++++
T Consensus        15 ~~S~eL~~FL~~~g~~~~~~~sR~eVtk~iw~YIK~nnLqdp~nkr~I~~D~~L~~Lfg~~~v~~f~i~k~l~~H~~~~~   94 (101)
T d1v32a_          15 WGSRQLIEFLHSLGKDTSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKHYKENQ   94 (101)
T ss_dssp             SSCHHHHHHHHHHTCCCSSCCCHHHHHHHHHHHHHHHTCBCSSCTTEEECCSHHHHHTCCSEEETTHHHHHHHHHSCSCC
T ss_pred             cCCHHHHHHHHhcCCCCcccCCHHHHHHHHHHHHHHhcCCCCccCCEEccCHHHHHHhCCCcccHHHHHHHHHHHcCCcc
Confidence            48999999984   32 358999999999999999999999999999999999999999999999999999999999874

>d1v32a_ a.42.1.1 (A:) Hypothetical protein AT5G08430 (rafl09-47-k03) {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: SWIB/MDM2 domain
superfamily: SWIB/MDM2 domain
family: SWIB/MDM2 domain
domain: Hypothetical protein AT5G08430 (rafl09-47-k03)
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.88  E-value=1e-23  Score=171.86  Aligned_cols=75  Identities=31%  Similarity=0.473  Sum_probs=70.0

Q ss_pred             CCHHHHHhhC---C---CCCCHHHHHHHHHHHHHHcCCCCCCCCCccccChhhhhhhhcCccChHHHHHHHHhccCCCCC
Q 018492          179 VSPELQAVVG---Q---PAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDCTDMFKMNKLLAKHIIPLEP  252 (355)
Q Consensus       179 lSpeLa~~lG---~---~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cDdkLk~lF~~d~i~~~~m~klL~~Hl~p~dp  252 (355)
                      .|++|++|||   .   ..++|++|++.||+|||+||||||.|||.|+||++|+.|||+++|+||+|+++|++||....+
T Consensus        16 ~S~eL~~FL~~~g~~~~~~~sR~eVtk~iw~YIK~nnLqdp~nkr~I~~D~~L~~Lfg~~~v~~f~i~k~l~~H~~~~~~   95 (101)
T d1v32a_          16 GSRQLIEFLHSLGKDTSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKHYKENQD   95 (101)
T ss_dssp             SCHHHHHHHHHHTCCCSSCCCHHHHHHHHHHHHHHHTCBCSSCTTEEECCSHHHHHTCCSEEETTHHHHHHHHHSCSCCC
T ss_pred             CCHHHHHHHHhcCCCCcccCCHHHHHHHHHHHHHHhcCCCCccCCEEccCHHHHHHhCCCcccHHHHHHHHHHHcCCccc
Confidence            6999999984   3   589999999999999999999999999999999999999999999999999999999987654


Q ss_pred             C
Q 018492          253 T  253 (355)
Q Consensus       253 ~  253 (355)
                      .
T Consensus        96 ~   96 (101)
T d1v32a_          96 S   96 (101)
T ss_dssp             C
T ss_pred             c
Confidence            3

>d1q1va_ a.159.4.1 (A:) DEK C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Another 3-helical bundle
superfamily: DEK C-terminal domain
family: DEK C-terminal domain
domain: DEK C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=1.4e-16  Score=121.38  Aligned_cols=57  Identities=18%  Similarity=0.388  Sum_probs=54.6

Q ss_pred             CCCHHHHHHHHHHHhhhcCCCCCccHHHHHHHHHHHh-CCCCccchhHHHHHHHHHhcC
Q 018492            1 MVSDQEIAKGVETLLRQSDRNASTSLNGVVKQLEAKL-GLDLSHKAGFIRDQISLLLRS   58 (355)
Q Consensus         1 m~Sd~el~~~i~~iL~~aDL~t~~T~k~Vr~qLE~~f-gvDLs~kK~~I~~~i~~~l~~   58 (355)
                      +|||++|...|++||++|||++ +|.+.||++||++| |+||++||.||+++|+.+|+.
T Consensus        11 ~ptd~ei~~~i~~IL~~aDL~t-vT~K~IR~~LE~~~~g~dL~~rK~~I~~~I~~~Ls~   68 (70)
T d1q1va_          11 PPTDEELKETIKKLLASANLEE-VTMKQICKKVYENYPTYDLTERKDFIKTTVKELISL   68 (70)
T ss_dssp             CCCHHHHHHHHHHHHTTSCGGG-CCHHHHHHHHHHHCSSSCCSHHHHHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHHHHhCCHHH-hhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHhc
Confidence            6999999999999999999997 88899999999999 999999999999999999964

>d1ttva_ a.42.1.1 (A:) MDM2 {African clawed frog (Xenopus laevis) [TaxId: 8355]}

class: All alpha proteins
fold: SWIB/MDM2 domain
superfamily: SWIB/MDM2 domain
family: SWIB/MDM2 domain
domain: MDM2
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

Probab=98.09  E-value=3.1e-06  Score=67.27  Aligned_cols=77  Identities=25%  Similarity=0.345  Sum_probs=67.0

Q ss_pred             ccccccHHHHHHh---cCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccC-chhHHhhhccCccchhh---HHHHHHh
Q 018492          276 SSVIISEALAKFL---GTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILC-DAKLRELLGCESISALG---IQEMLAR  348 (355)
Q Consensus       276 ~~~~lS~~La~fl---G~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~C-DekLk~Lfg~~~i~~~~---~~klL~~  348 (355)
                      ..++.-+.|-++|   |..+...|.-+|+-.|-+||-.++|.|+.+.++|.| ++.|-+|||+++|+.-+   |..+|.+
T Consensus        10 ~lVrPkp~LL~~L~~~GA~~~~fT~keVm~yLgqYIm~K~LyD~~~qhiV~C~~D~LG~llgv~sFsVke~r~l~~ml~r   89 (107)
T d1ttva_          10 KLVQPTPLLLSLLKSAGAQKETFTMKEVLYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQEFSVKEHRRIYAMISR   89 (107)
T ss_dssp             CCEEECHHHHHHHHHTTCCSSCBCHHHHHHHHHHHHHHHTCBCSSCTTEECCSSCHHHHHHTCSCEETTCHHHHHHHHHT
T ss_pred             cccCCCHHHHHHHHHcCCCcceeeHHHHHHHHHHHHHHHHhcCcccCceEecCCchHHhhcCCCceeecCcHHHHHHHHh
Confidence            4577788888887   655678999999999999999999999999999999 45699999999999887   7777999


Q ss_pred             ccCC
Q 018492          349 NHFL  352 (355)
Q Consensus       349 H~~~  352 (355)
                      |++.
T Consensus        90 nLv~   93 (107)
T d1ttva_          90 NLVS   93 (107)
T ss_dssp             TEEE
T ss_pred             hhhc
Confidence            8864

>d2axia1 a.42.1.1 (A:25-109) MDM2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: SWIB/MDM2 domain
superfamily: SWIB/MDM2 domain
family: SWIB/MDM2 domain
domain: MDM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.96  E-value=2.9e-06  Score=65.03  Aligned_cols=75  Identities=27%  Similarity=0.313  Sum_probs=64.9

Q ss_pred             cccccHHHHHHh---cCCCCccCHHHHHHHHHHHHHHcCCCCCCCCCcccCc-hhHHhhhccCccchhh---HHHHHHhc
Q 018492          277 SVIISEALAKFL---GTGGREMLQAEATKRVWEYIKVNHLEDPLNSMVILCD-AKLRELLGCESISALG---IQEMLARN  349 (355)
Q Consensus       277 ~~~lS~~La~fl---G~~~~~~sR~evvk~lW~YIK~n~LqDp~nkr~I~CD-ekLk~Lfg~~~i~~~~---~~klL~~H  349 (355)
                      .++..+.|-++|   |..+...|.-+|+-.|-+||-.++|.|+.+.++|.|- +.|-+|||+++|+.-+   +..+|.+|
T Consensus         3 lVrPkp~Ll~~L~~~GA~~~~fT~kqVm~yLgqYIm~K~LyD~~~qhiV~C~~D~LG~l~gv~sFsVk~~r~l~~ml~rn   82 (85)
T d2axia1           3 LVRPKPLLLKLLKSVGAQKDTYTMKEVLFYLGQYIMTKRLYDEKQQHIVYCSNDLLGDLFGVPSFSVKEHRKIYTMIYRN   82 (85)
T ss_dssp             EEEECHHHHHHHHHTTCCCSCEEHHHHHHHHHHHHHHHTCEETTEEEEEECTTSHHHHHHSSSEEETTCHHHHHHHHHTT
T ss_pred             cccCcHHHHHHHHHcCCCcceeeHHHHHHHHHHHHHHHHhcCcccCceEecCCchHHhhcCCCceeecCcHHHHHHHHhc
Confidence            355667788777   6556789999999999999999999999999999995 5599999999999887   88888888


Q ss_pred             cC
Q 018492          350 HF  351 (355)
Q Consensus       350 ~~  351 (355)
                      ++
T Consensus        83 Lv   84 (85)
T d2axia1          83 LV   84 (85)
T ss_dssp             EE
T ss_pred             cc
Confidence            74

>d1ttva_ a.42.1.1 (A:) MDM2 {African clawed frog (Xenopus laevis) [TaxId: 8355]}

class: All alpha proteins
fold: SWIB/MDM2 domain
superfamily: SWIB/MDM2 domain
family: SWIB/MDM2 domain
domain: MDM2
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

Probab=97.74  E-value=1.5e-05  Score=63.27  Aligned_cols=75  Identities=17%  Similarity=0.371  Sum_probs=64.5

Q ss_pred             ccCCHHHHHhh---CC--CCCCHHHHHHHHHHHHHHcCCCCCCCCCccccC-hhhhhhhhcCccChHH---HHHHHHhcc
Q 018492          177 CGVSPELQAVV---GQ--PAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICD-DALRVVFETDCTDMFK---MNKLLAKHI  247 (355)
Q Consensus       177 ~~lSpeLa~~l---G~--~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cD-dkLk~lF~~d~i~~~~---m~klL~~Hl  247 (355)
                      .+..|.|-.+|   |.  +..|.-+|+-.|.+||..+.|.|+.+.++|.|- |.|-.+||+++|.+-+   +...|.+++
T Consensus        12 VrPkp~LL~~L~~~GA~~~~fT~keVm~yLgqYIm~K~LyD~~~qhiV~C~~D~LG~llgv~sFsVke~r~l~~ml~rnL   91 (107)
T d1ttva_          12 VQPTPLLLSLLKSAGAQKETFTMKEVLYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQEFSVKEHRRIYAMISRNL   91 (107)
T ss_dssp             EEECHHHHHHHHHTTCCSSCBCHHHHHHHHHHHHHHHTCBCSSCTTEECCSSCHHHHHHTCSCEETTCHHHHHHHHHTTE
T ss_pred             cCCCHHHHHHHHHcCCCcceeeHHHHHHHHHHHHHHHHhcCcccCceEecCCchHHhhcCCCceeecCcHHHHHHHHhhh
Confidence            44577887776   54  688999999999999999999999999999995 7799999999988876   677799999


Q ss_pred             CCCC
Q 018492          248 IPLE  251 (355)
Q Consensus       248 ~p~d  251 (355)
                      ++..
T Consensus        92 v~v~   95 (107)
T d1ttva_          92 VSAN   95 (107)
T ss_dssp             EEEC
T ss_pred             hccc
Confidence            8765

>d2axia1 a.42.1.1 (A:25-109) MDM2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: SWIB/MDM2 domain
superfamily: SWIB/MDM2 domain
family: SWIB/MDM2 domain
domain: MDM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.62  E-value=1.1e-05  Score=61.64  Aligned_cols=72  Identities=18%  Similarity=0.334  Sum_probs=61.0

Q ss_pred             ccCCHHHHHhh---CC--CCCCHHHHHHHHHHHHHHcCCCCCCCCCccccC-hhhhhhhhcCccChHH---HHHHHHhcc
Q 018492          177 CGVSPELQAVV---GQ--PAMPRTEIVKQLWAYIRKNNLQDPSNKRKIICD-DALRVVFETDCTDMFK---MNKLLAKHI  247 (355)
Q Consensus       177 ~~lSpeLa~~l---G~--~~~sR~evvk~LW~YIK~nnLQDp~nkr~I~cD-dkLk~lF~~d~i~~~~---m~klL~~Hl  247 (355)
                      ++..|.|-.+|   |.  +..|.-+|+-.|.+||..+.|.|+.+.++|.|- |.|-.+||+++|.+-+   +...|.+|+
T Consensus         4 VrPkp~Ll~~L~~~GA~~~~fT~kqVm~yLgqYIm~K~LyD~~~qhiV~C~~D~LG~l~gv~sFsVk~~r~l~~ml~rnL   83 (85)
T d2axia1           4 VRPKPLLLKLLKSVGAQKDTYTMKEVLFYLGQYIMTKRLYDEKQQHIVYCSNDLLGDLFGVPSFSVKEHRKIYTMIYRNL   83 (85)
T ss_dssp             EEECHHHHHHHHHTTCCCSCEEHHHHHHHHHHHHHHHTCEETTEEEEEECTTSHHHHHHSSSEEETTCHHHHHHHHHTTE
T ss_pred             ccCcHHHHHHHHHcCCCcceeeHHHHHHHHHHHHHHHHhcCcccCceEecCCchHHhhcCCCceeecCcHHHHHHHHhcc
Confidence            34467777776   54  688999999999999999999999999999995 7799999999998876   788888876


Q ss_pred             C
Q 018492          248 I  248 (355)
Q Consensus       248 ~  248 (355)
                      .
T Consensus        84 v   84 (85)
T d2axia1          84 V   84 (85)
T ss_dssp             E
T ss_pred             c
Confidence            4