Citrus Sinensis ID: 017932

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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-------360---
Protein Sequence
MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQTLEKEREEIEDDGNGAVEANADDKEEEEEESESKREKSIKVGRQVKRRGGGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHIWPLGAEDENVKQKIGVEDFKNSEEEEEKEQEQEQEHEEEEEEEETSIEQQSKENRSTKADKDVKKRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPLDEADAKSKEKEKQCEQVEEDEPKHKAKRQKKEV
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHccccccccccccccccccccccHHHHHHHccccccHHHHHHHHHHHHHHcccccccccccccccHHHHHHHccccccHHHHHHHHHHcccccccccccHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHccccccHHHHHHHHHHHHHHcccccccccccEEccHHHHHHHccccccHHHHHHHHHccccccccccccHHHHHHHHcccccccccHHHHHHcccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHccHHHcccccccHHHccccHHcccccccccccccccccccccccccccccccccccHHHHHHHccccccHHHHHHHHHHHHHHccccccccccEEEccHHHHHHHccccccHHHHHHHHHHHcccccccccccccccccccccccccccHHHcccccccccccccccHHHccccccccccccccccccccccccccccccHHHHHHHccccccHHHHHHHHHHHHHHccccccccccEEEccHHHHHHHcccccccccHHHHHHHHcccccccccccccccccccccccccccccHHHHcccc
Coil and Loop (DISEMBL)
MVSDSDLVTRLRDILrnsdldtataGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQTLEKEREEieddgngaveanaddkeeeeeeseSKREKSIKVGRQvkrrggggfnklcSLSTQLqkvvgapelaRTEVVKKLWVYIKEnklqdpnnkrkilcdeslqalfgvnsidMFKMNRALSkhiwplgaedenvkqkigvedfknseEEEEKEQEQEQEHEEEEEEEETSIEQQSkenrstkadkdvkkrrggftklcslspdlqtfvgVSELARTEVVKKLWAYIREKnlqdpknrrniICDEALQVLFRVNSINMFQMNKALtrhiwpldeadaksKEKEKQCEqveedepkhkakrqkkev
Flexible Loop (DISEMBL)
MVSDSDLVTRLrdilrnsdldtatagsvrrLLEEDFKVDLSDRKAFVSEQIDLFLQTLEKEreeieddgngaveanaddkeeeeeeseskreksikvgrqvkrrggggfnklcslstqlqkvvgapelartEVVKKLWVYIKenklqdpnnkrkILCDESLQALFGVNSIDMFKMNRALSKHIwplgaedenvkQKIGVEDFKNSEEEEEKEQeqeqeheeeeeeeetsieqqskenrstkadkdvkkrrggftklcslspdlqtfvgvselarTEVVKKLWAYIReknlqdpknrrnIICDEALQVLFRVNSINMFQMNKALTRHIWPLDEADAKSKEKEKqceqveedepkhkakrqkkev
Low Complexity Region (SEG)
MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQTLEKEREEIEDDGNGAVEANADDkeeeeeeseskreksIkvgrqvkrrggggFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHIWPLGAEDENVKQKIGVEDFKNSeeeeekeqeqeqeheeeeeeeetsieqqskeNRSTKADKDVKKRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPLdeadakskekekqceqveedePKHKAKRQKKEV
Disordered region (IsUnstruct)
*************IL********TAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQT*************************************************GGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHIWPLGA***************************************************************GFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPL*********************************
Disordered Region (DISOPRED)
****SDLVTRLRDILRNSDLDTA*********EEDFKVDLSDRKAFVSEQIDLFLQTLEKER**********************************************FNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHIWPLGAEDENVKQKIGVEDFKNSEEEEEKEQEQEQEHEEEEEEEE**************************TKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWP**********************************
Disordered Region (DISEMBL)
MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQTLEKEREEIEDDGNGAVE**********************VGRQVKRRGGGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHIWPLGAEDENVKQKIGVEDF*********************************************KRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPLDEA******************************
Disordered Region (DISPRO)
***DSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQTLEKE************************************************NKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHIWPLG*****************************************************************FTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPLDE*******************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxSIKVGRQVKRRGGGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHIWPLGAEDENVKQKIGxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxNRSTKADKDVKKRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPxxxxxxxxxxxxxxxxxxxxxEPKHKAKRQKKEV
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	363	2.2.26 [Sep-21-2011]
O74503	233	Upstream activation facto	yes	no	0.473	0.738	0.344	8e-20
Q08747	228	Upstream activation facto	yes	no	0.482	0.767	0.323	2e-18
Q05024	226	Protein TRI1 OS=Saccharom	no	no	0.242	0.389	0.477	9e-16
Q9FMT4	534	SWI/SNF complex component	no	no	0.269	0.183	0.284	4e-06
Q61466	515	SWI/SNF-related matrix-as	yes	no	0.181	0.128	0.345	2e-05
Q2TBN1	515	SWI/SNF-related matrix-as	yes	no	0.099	0.069	0.392	3e-05
Q96GM5	515	SWI/SNF-related matrix-as	no	no	0.099	0.069	0.392	3e-05
Q9SIV5	1773	Zinc finger CCCH domain-c	no	no	0.223	0.045	0.341	9e-05
Q9P7S3	425	SWI/SNF and RSC complexes	no	no	0.201	0.171	0.328	0.0001

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

 Score = 98.2 bits (243), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 63/183 (34%), Positives = 103/183 (56%), Gaps = 11/183 (6%)

Query: 9   TRLRDILRNSDLDTATAGSVRRLLEEDFKVDLS----DRKAFVSEQIDLFL-----QTLE 59
           T ++ IL   D  T +A  VR+LLEE  KVDLS    D  A + +  D        ++LE
Sbjct: 6   TDIKQILGTVDRQTVSAKQVRQLLEERRKVDLSAHKKDLNALILKCFDETAAPSEKESLE 65

Query: 60  KEREEIEDDGNGAVEANADDKEEEEEESESKREKSIKVGRQVKRR--GGGGFNKLCSLST 117
           K+    +  G  A E   ++ ++  + +  ++E   + G++ + +       NK   LS 
Sbjct: 66  KQAPARKTKGKRATENGTEEGKKPAKRTRKRKEDGEEGGKRKRNQDPANNPLNKPMKLSP 125

Query: 118 QLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNR 177
           +L + +G  +L+R + VKKLW YIK + LQDPN+KR ILCD+ L+++F V+++ MF MN+
Sbjct: 126 KLAEFLGLEQLSRPQTVKKLWEYIKAHDLQDPNDKRTILCDDKLKSVFEVDTLHMFTMNK 185

Query: 178 ALS 180
            L+
Sbjct: 186 YLT 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 = 93.6 bits (231), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 65/201 (32%), Positives = 106/201 (52%), Gaps = 26/201 (12%)

Query: 1   MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDL-SDRKA---FVSEQIDLF-- 54
           M   +D  T +  +L + DL+T T   VR  L+E + +D+ S  KA    + + +DL   
Sbjct: 1   MAELNDYSTMIDILLSDMDLETVTTKKVRMALKEVYAIDVESQGKAINKLIRKHLDLVKE 60

Query: 55  -------LQTLEKEREEIEDDGNGAVEANADDKEEEEEESESKREKSIKVGRQVKRRGGG 107
                  L+ L KE   +  +    +  +     EE+ +SE+K       G  V+++ G 
Sbjct: 61  RPRFERSLEDLLKENATLAIELTKEITVSKRSSGEEKNDSETK-------GTHVEKKKGT 113

Query: 108 GF-----NKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQ 162
                   +  +LS  L  ++G  EL RTEVV++LW YIK + LQ+PNNK++ILCDE L+
Sbjct: 114 VSKSPISTRKVTLSKSLASLLGEHELTRTEVVRRLWAYIKAHNLQNPNNKKEILCDEKLE 173

Query: 163 ALFGVNSIDMFKMNRALSKHI 183
            + G  S +MF+M++ L+ H+
Sbjct: 174 LILG-KSTNMFEMHKILASHM 193

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 = 84.7 bits (208), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 43/90 (47%), Positives = 62/90 (68%), Gaps = 2/90 (2%)

Query: 259 LSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQ 318
           LS  LQ F+G  EL RT+VVK +W YI+E +LQ+PK+RR I+CDE ++ +F    + MF 
Sbjct: 126 LSAPLQKFLGSEELPRTQVVKMIWQYIKEHDLQNPKDRREILCDEKMEPIFG-KKMTMFS 184

Query: 319 MNKALTRHIWPLDEADAKSKEKEKQCEQVE 348
           MNK LT+H++  DE   K +E++KQ  + E
Sbjct: 185 MNKLLTKHLFNPDEI-VKHEEEQKQTPEKE 213

May be involved in transcription regulation.

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

>sp|Q9FMT4|SNF12_ARATH SWI/SNF complex component SNF12 homolog OS=Arabidopsis thaliana GN=At5g14170 PE=1 SV=1

 Score = 52.8 bits (125), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 31/109 (28%), Positives = 52/109 (47%), Gaps = 11/109 (10%)

Query: 88  ESKREKSIKVGRQVKRRGGGGFNKLC-----------SLSTQLQKVVGAPELARTEVVKK 136
           E+ R  + + G ++KR+G   F                LST L  V+G     R  ++  
Sbjct: 283 ENARSPAPQEGFEIKRKGNQEFAASIRLEMNYVPEKFKLSTALMDVLGIEVETRPRIIAA 342

Query: 137 LWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHIWP 185
           +W Y+K  KLQ+PN+     CD +LQ +FG   +    +++ +S H+ P
Sbjct: 343 IWHYVKARKLQNPNDPSFFNCDAALQKVFGEEKLKFTMVSQKISHHLSP 391

Involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology).

Arabidopsis thaliana (taxid: 3702)

>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 = 50.4 bits (119), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 28/81 (34%), Positives = 42/81 (51%), Gaps = 15/81 (18%)

Query: 98  GRQVKRRGGGGFNKLCS-------------LSTQLQKVVGAPELARTEVVKKLWVYIKEN 144
           G QVKR   G  N  C+             L  +L +++G     R  +++ LW YIK +
Sbjct: 269 GFQVKR--PGDVNVRCTVLLMLDYQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTH 326

Query: 145 KLQDPNNKRKILCDESLQALF 165
           KLQDP+ +  +LCD+ LQ +F
Sbjct: 327 KLQDPHEREFVLCDKYLQQIF 347

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|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 = 50.1 bits (118), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/51 (39%), Positives = 29/51 (56%)

Query: 259 LSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLF 309
           L P L   +G+    R  +++ LW YI+   LQDP  R  +ICD+ LQ +F
Sbjct: 297 LDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVICDKYLQQIF 347

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 = 50.1 bits (118), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/51 (39%), Positives = 29/51 (56%)

Query: 259 LSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLF 309
           L P L   +G+    R  +++ LW YI+   LQDP  R  +ICD+ LQ +F
Sbjct: 297 LDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVICDKYLQQIF 347

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

 Score = 48.5 bits (114), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 29/85 (34%), Positives = 43/85 (50%), Gaps = 4/85 (4%)

Query: 270 SELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWP 329
           S L   EV   L AYI+  NL+DP+ +  +ICD  LQ LF  + +  F+M   L  H   
Sbjct: 825 SFLPMLEVQTLLLAYIKRYNLRDPRRKSQVICDSRLQNLFGKSHVGHFEMLNLLDSHFLK 884

Query: 330 LDEADAKSKEKEKQCEQVEEDEPKH 354
            ++  A     + Q + V+ +EP H
Sbjct: 885 KEQNQA----DDIQGDIVDTEEPNH 905

Arabidopsis thaliana (taxid: 3702)

>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 = 48.1 bits (113), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/73 (32%), Positives = 41/73 (56%)

Query: 259 LSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQ 318
           LS      +G+ E  R ++V  LW YI+   LQD + +R I CD+AL+ LF  + +   +
Sbjct: 208 LSKAFANILGIREGTRPDIVSYLWQYIKFHRLQDMEEKRLINCDKALRDLFEADRLYFPR 267

Query: 319 MNKALTRHIWPLD 331
           + + + R + P+D
Sbjct: 268 IPELMNRFLEPID 280

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)

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	363
224123268	384	predicted protein [Populus trichocarpa]	0.991	0.937	0.604	1e-104
224103519	458	predicted protein [Populus trichocarpa]	0.939	0.744	0.551	1e-100
255561659	614	brg-1 associated factor, putative [Ricin	0.887	0.524	0.570	7e-96
297847268	372	SWIB complex BAF60b domain-containing pr	0.964	0.940	0.516	4e-90
5430749	386	Hypothetical Protein [Arabidopsis thalia	0.920	0.865	0.508	6e-87
42562626	372	SWIB complex BAF60b domain-containing pr	0.914	0.892	0.508	1e-86
15230276	462	SWIB complex BAF60b domain-containing pr	0.964	0.757	0.489	5e-85
9280327	452	unnamed protein product [Arabidopsis tha	0.953	0.765	0.502	9e-85
297830558	463	SWIB complex BAF60b domain-containing pr	0.955	0.749	0.478	6e-84
449461413	332	PREDICTED: upstream activation factor su	0.867	0.948	0.474	2e-74

>gi|224123268|ref|XP_002330274.1| predicted protein [Populus trichocarpa] gi|222871309|gb|EEF08440.1| predicted protein [Populus trichocarpa]

 Score =  384 bits (987), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 231/382 (60%), Positives = 276/382 (72%), Gaps = 22/382 (5%)

Query: 1   MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQTLE- 59
           MVSDSDLVTRLR+ILR SDLDTATAGS+RR LEED  VDLS++K F+ EQID FL+T   
Sbjct: 1   MVSDSDLVTRLREILRRSDLDTATAGSIRRQLEEDLGVDLSEKKKFIREQIDTFLETFNG 60

Query: 60  --------KEREEIEDDGNGAVEANADDKEEEEEESESKREKSIKVGRQVKRRGGGGFNK 111
                    E E  E+D  G  E   D  +EEEEE E++ ++S    +  K R  GGF K
Sbjct: 61  GEGKSENVSENENTENDAVGDEENENDAVKEEEEEVETETKESKGSNKTGKVRKRGGFTK 120

Query: 112 LCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSID 171
           L SLS QLQ VVG PELARTEVVKKLW YI+EN LQDP N++KI CDE+L+A+F VNSID
Sbjct: 121 LSSLSPQLQAVVGVPELARTEVVKKLWAYIRENNLQDPKNRKKIKCDEALRAVFRVNSID 180

Query: 172 MFKMNRALSKHIWPLGAED----ENVKQKIGVED---FKNSEEEEEKEQEQEQEHEEEEE 224
           MF+M++ALSKHIWPL  ED     NVKQK   ED   F N  +   +E+E+++E EEEE 
Sbjct: 181 MFQMSKALSKHIWPLTGEDGTFFNNVKQKEKCEDSNDFGNEGDNGGEEEEEQEEEEEEEV 240

Query: 225 EEETSIEQQSKENRSTKADKDVKKRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAY 284
           ++E++  +  K  +S K D++VKKR GGFTKLCSLSP LQ  VGV ELART VVKKLWAY
Sbjct: 241 KKESN-GRSKKGRKSAKVDENVKKRGGGFTKLCSLSPQLQELVGVPELARTGVVKKLWAY 299

Query: 285 IREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPLDEADAKSKE--KEK 342
           IREKNLQDPKN+RNIICDE+L+ LF V+SI+MFQMNKAL++HIW + E DA S    KEK
Sbjct: 300 IREKNLQDPKNKRNIICDESLRALFDVDSIDMFQMNKALSKHIWAVCEEDAPSNSSPKEK 359

Query: 343 QCEQVEE---DEPKHKAKRQKK 361
             +Q  E   DEPK K KRQKK
Sbjct: 360 GAKQGREEDPDEPKQKEKRQKK 381

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224103519|ref|XP_002313088.1| predicted protein [Populus trichocarpa] gi|222849496|gb|EEE87043.1| predicted protein [Populus trichocarpa]

 Score =  371 bits (952), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 208/377 (55%), Positives = 256/377 (67%), Gaps = 36/377 (9%)

Query: 1   MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQTLEK 60
           MVSDSDLV RLR+ILR+SDLDTATA S+RR LEEDF VDLS++K F+ EQID FL+TL K
Sbjct: 1   MVSDSDLVARLREILRSSDLDTATASSIRRQLEEDFGVDLSEKKKFIREQIDTFLETLNK 60

Query: 61  EREEIEDDGNGAVEANADDKEEEEEESESKRE---------------KSIKVGRQVKRRG 105
                 D  +G V  N D++ +  E+ E++ +               K      +V++RG
Sbjct: 61  G-----DGQSGNVTENEDNENDTVEDDENENDGIKEEEEEDSETKESKGSDKTEKVRKRG 115

Query: 106 GGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALF 165
           G  F KL SLS QLQ VVG PELARTEVVKKLW YI+EN LQDP N++KI CDE+L+A+F
Sbjct: 116 G--FAKLSSLSPQLQAVVGVPELARTEVVKKLWAYIRENNLQDPKNRKKIKCDEALRAVF 173

Query: 166 GVNSIDMFKMNRALSKHIWPLGAEDENVKQKIGVEDFKNSEEEEEKEQEQEQEHEEEEEE 225
            VNSIDMF+MN+ALSKHIWPL  E+     K     FK+  +   +     ++ ++EEE 
Sbjct: 174 HVNSIDMFQMNKALSKHIWPLTGENGTFLNK-----FKDINDSGSEGDNGGEQEDDEEEV 228

Query: 226 EETSIEQQSKENRSTKADKDVKKRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYI 285
           ++ S E+  K  RS K D+DVKKR GGFTKLCSLSP LQ  VGV ELART VVKKLWAYI
Sbjct: 229 KKESNERSKKGRRSAKVDEDVKKRGGGFTKLCSLSPQLQELVGVPELARTGVVKKLWAYI 288

Query: 286 REKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPLDEADAKSKEKEKQCE 345
           REKNLQDPKN+RNIICDE+L+ +F V+SI+MFQMNKALT+HIW + E D  S        
Sbjct: 289 REKNLQDPKNKRNIICDESLRSIFDVDSIDMFQMNKALTKHIWAVREEDGMSPSNS---- 344

Query: 346 QVEEDEPKHKAKRQKKE 362
                 PK K  +Q +E
Sbjct: 345 -----SPKKKGTKQGRE 356

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255561659|ref|XP_002521839.1| brg-1 associated factor, putative [Ricinus communis] gi|223538877|gb|EEF40475.1| brg-1 associated factor, putative [Ricinus communis]

 Score =  357 bits (915), Expect = 7e-96,   Method: Compositional matrix adjust.
 Identities = 203/356 (57%), Positives = 254/356 (71%), Gaps = 34/356 (9%)

Query: 1   MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQTLEK 60
           MVSDSDLVTRLR+IL++SDL+TATAGSVRR LEE F VDLSDRKAF+ EQID +L+TLE 
Sbjct: 1   MVSDSDLVTRLREILQDSDLNTATAGSVRRKLEEVFGVDLSDRKAFIREQIDSYLETLEN 60

Query: 61  EREEIEDDGNGAVEANADD-------------KEEEEEESESKREKSIKVGRQVKRRGGG 107
           + +E E++     E + ++             K+EE +E+E   E   +  ++ K+RGGG
Sbjct: 61  DNKEDEEEDKPENEMHNEEENENENDAAEENEKQEENDENEQSEES--ERSKKAKKRGGG 118

Query: 108 GFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGV 167
            F  LCSLS QL K VG  ELARTEVVKKLW YI+EN LQDP N+R I CDE+L+ LF V
Sbjct: 119 -FTMLCSLSPQLHKFVGVSELARTEVVKKLWAYIRENDLQDPKNRRIIKCDEALRDLFRV 177

Query: 168 NSIDMFKMNRALSKHIWPLGAEDENVKQKIGVEDFKNSEEEEEKEQEQEQEHEEEEEEEE 227
           NSI+MF+MN+ALSKHIWPL A+ E         +    EEE+E+    E  ++  +EEE+
Sbjct: 178 NSINMFQMNKALSKHIWPLTAQAE-------ASNDPGKEEEDEEGSVSEGSNDPSKEEED 230

Query: 228 TSIE-----------QQSKENRSTKADKDVKKRRGGFTKLCSLSPDLQTFVGVSELARTE 276
              +           ++SK+ R+TK +KDVKKR GGFTKLCSLSP LQ F+G S+ ARTE
Sbjct: 231 EEEKMEEDEEEEEDNKRSKKGRATKVNKDVKKRGGGFTKLCSLSPQLQEFIGESKSARTE 290

Query: 277 VVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPLDE 332
           VVKKLW YIRE NLQDPKNRR I+CDE+L+ LFRV+SINMFQMNK L++HIWPL+E
Sbjct: 291 VVKKLWVYIRENNLQDPKNRRIILCDESLRALFRVDSINMFQMNKVLSKHIWPLNE 346

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297847268|ref|XP_002891515.1| SWIB complex BAF60b domain-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297337357|gb|EFH67774.1| SWIB complex BAF60b domain-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  337 bits (865), Expect = 4e-90,   Method: Compositional matrix adjust.
 Identities = 192/372 (51%), Positives = 254/372 (68%), Gaps = 22/372 (5%)

Query: 1   MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQT--- 57
           MVSDSDLVT+LR+ILR+SDL+T T  SVRR LE  F V+L+D+KAFV EQID FL++   
Sbjct: 1   MVSDSDLVTQLREILRSSDLETTTPASVRRQLEAYFGVELTDKKAFVREQIDAFLESEAL 60

Query: 58  LEKEREEIEDDGNGAVEANADDKEEEEEESESKREKSIKVGRQVKRRGGGGFNKLCSLST 117
           LE + EE E+D NG       + EE  E  + K E  +K      ++ GGGFNK+C LS 
Sbjct: 61  LESKPEEEEEDCNGD-----QNDEEGSENDDDKTEPPVKA-----KKRGGGFNKICQLSP 110

Query: 118 QLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNR 177
           QL+K +G  +LARTEVVKK+W YI+++ LQDP N+R ILCD+SL +LF V +IDMF+MN+
Sbjct: 111 QLEKFLGTSQLARTEVVKKMWAYIRQHDLQDPKNRRNILCDDSLHSLFRVKTIDMFQMNK 170

Query: 178 ALSKHIWPLGAEDENVKQKIGVEDFKNSEEEEEKE-----QEQEQEHEEEEEEEETSIEQ 232
           AL+KHIWPL   D  VK   G ++ + S E  EKE       +  E    EEE+ +  ++
Sbjct: 171 ALAKHIWPLNDGDGCVKNVKGEDEDETSGERYEKEVKIEEAVENNEEVSGEEEDRSVRKR 230

Query: 233 QSKENRSTKADKDVKKRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQD 292
           + K+ +  K+++  KK+ GGFTK+CSLSP+LQ F G ++LARTEVV+ LW YI+E NLQD
Sbjct: 231 KRKKRKPAKSEEKPKKKGGGFTKVCSLSPELQAFTGTAQLARTEVVRMLWKYIKENNLQD 290

Query: 293 PKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPL---DEADAKS-KEKEKQCEQVE 348
           P ++R IICDE+L+ LF V SINMFQMNK LT+HIWPL   DEA   +  EK KQ  ++E
Sbjct: 291 PSDKRTIICDESLRSLFPVESINMFQMNKQLTKHIWPLVQEDEAGTTNDSEKGKQKMKME 350

Query: 349 EDEPKHKAKRQK 360
            D    +A  +K
Sbjct: 351 IDADNDEANDEK 362

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|5430749|gb|AAD43149.1|AC007504_4 Hypothetical Protein [Arabidopsis thaliana]

 Score =  327 bits (838), Expect = 6e-87,   Method: Compositional matrix adjust.
 Identities = 190/374 (50%), Positives = 250/374 (66%), Gaps = 40/374 (10%)

Query: 1   MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQT--- 57
           MVSDSDLVT+LR+ILR+SDL+T T  SVRR LE  F V+L+D+KAFV EQID FL++   
Sbjct: 1   MVSDSDLVTQLREILRSSDLETTTPASVRRQLEVYFGVELTDKKAFVREQIDAFLESDAL 60

Query: 58  LEKEREEIEDDGNGAVEANADDKEEEEEESESKREKSIKVGRQVKRRGGGGFNKLCSLST 117
           LE + E+ E+D NG       + EE  E  + K E  +K      ++ GGGFNK+C LS 
Sbjct: 61  LESKPEQEEEDCNGD-----QNDEEGSENDDDKTELPVKA-----KKRGGGFNKICQLSP 110

Query: 118 QLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNR 177
           QL+K +G  +LARTEVVKK+W YI+E+ LQDP N+R ILCDESL +LF V +I+MF+MN+
Sbjct: 111 QLEKFLGTSQLARTEVVKKMWAYIREHDLQDPTNRRNILCDESLHSLFRVKTINMFQMNK 170

Query: 178 ALSKHIWPLGAEDENVKQKIGVEDFKNSEEEEEKEQEQEQEHEE--------------EE 223
           AL+KHIW L   D       G   FKN +EE+  E   E++ ++               E
Sbjct: 171 ALAKHIWALNDGD-------GC--FKNVKEEDVDETSGERDEKDVKIEEALENNEEESRE 221

Query: 224 EEEETSIEQQSKENRSTKADKDVKKRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWA 283
           EE+ +  +++ K+ +  K+++  KK+ GGFTK+CSLSP+LQ F G  +LARTEVVK LW 
Sbjct: 222 EEDRSVRKRKRKKRKPAKSEEKPKKKGGGFTKVCSLSPELQAFTGTPQLARTEVVKMLWK 281

Query: 284 YIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPL---DEADAKS-KE 339
           YI+E NLQDP ++R IICDE+L+ LF V SINMFQMNK L +HIWPL   DEA   +  E
Sbjct: 282 YIKENNLQDPSDKRTIICDESLRSLFPVESINMFQMNKQLAKHIWPLVQEDEAGTTNDPE 341

Query: 340 KEKQCEQVEEDEPK 353
           K KQ  ++E DE K
Sbjct: 342 KGKQKMKMETDEVK 355

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42562626|ref|NP_175375.2| SWIB complex BAF60b domain-containing protein [Arabidopsis thaliana] gi|63003862|gb|AAY25460.1| At1g49520 [Arabidopsis thaliana] gi|332194317|gb|AEE32438.1| SWIB complex BAF60b domain-containing protein [Arabidopsis thaliana]

 Score =  326 bits (836), Expect = 1e-86,   Method: Compositional matrix adjust.
 Identities = 189/372 (50%), Positives = 249/372 (66%), Gaps = 40/372 (10%)

Query: 1   MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQT--- 57
           MVSDSDLVT+LR+ILR+SDL+T T  SVRR LE  F V+L+D+KAFV EQID FL++   
Sbjct: 1   MVSDSDLVTQLREILRSSDLETTTPASVRRQLEVYFGVELTDKKAFVREQIDAFLESDAL 60

Query: 58  LEKEREEIEDDGNGAVEANADDKEEEEEESESKREKSIKVGRQVKRRGGGGFNKLCSLST 117
           LE + E+ E+D NG       + EE  E  + K E  +K      ++ GGGFNK+C LS 
Sbjct: 61  LESKPEQEEEDCNGD-----QNDEEGSENDDDKTELPVKA-----KKRGGGFNKICQLSP 110

Query: 118 QLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNR 177
           QL+K +G  +LARTEVVKK+W YI+E+ LQDP N+R ILCDESL +LF V +I+MF+MN+
Sbjct: 111 QLEKFLGTSQLARTEVVKKMWAYIREHDLQDPTNRRNILCDESLHSLFRVKTINMFQMNK 170

Query: 178 ALSKHIWPLGAEDENVKQKIGVEDFKNSEEEEEKEQEQEQEHEE--------------EE 223
           AL+KHIW L   D       G   FKN +EE+  E   E++ ++               E
Sbjct: 171 ALAKHIWALNDGD-------GC--FKNVKEEDVDETSGERDEKDVKIEEALENNEEESRE 221

Query: 224 EEEETSIEQQSKENRSTKADKDVKKRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWA 283
           EE+ +  +++ K+ +  K+++  KK+ GGFTK+CSLSP+LQ F G  +LARTEVVK LW 
Sbjct: 222 EEDRSVRKRKRKKRKPAKSEEKPKKKGGGFTKVCSLSPELQAFTGTPQLARTEVVKMLWK 281

Query: 284 YIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPL---DEADAKS-KE 339
           YI+E NLQDP ++R IICDE+L+ LF V SINMFQMNK L +HIWPL   DEA   +  E
Sbjct: 282 YIKENNLQDPSDKRTIICDESLRSLFPVESINMFQMNKQLAKHIWPLVQEDEAGTTNDPE 341

Query: 340 KEKQCEQVEEDE 351
           K KQ  ++E DE
Sbjct: 342 KGKQKMKMETDE 353

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15230276|ref|NP_188538.1| SWIB complex BAF60b domain-containing protein [Arabidopsis thaliana] gi|332642670|gb|AEE76191.1| SWIB complex BAF60b domain-containing protein [Arabidopsis thaliana]

 Score =  320 bits (821), Expect = 5e-85,   Method: Compositional matrix adjust.
 Identities = 193/394 (48%), Positives = 255/394 (64%), Gaps = 44/394 (11%)

Query: 1   MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQTLEK 60
           MVSD DLVTRLR+IL +SDL+TAT  SVRR LE DF VDL+D+KA++ +QID FL++   
Sbjct: 1   MVSDLDLVTRLREILGSSDLNTATPASVRRQLEADFGVDLTDKKAYIRDQIDTFLES--- 57

Query: 61  EREEIEDDGNGAVE-----------ANADDKEEEEEESESKR-------EKSIKVGRQVK 102
                    NGAVE            NAD+ + E E  + +         +  K  R VK
Sbjct: 58  ---------NGAVEDKPESPKVEEYINADEIKAEIEGGDGEDLDGDGSGSEEEKEERPVK 108

Query: 103 -RRGGGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESL 161
            ++ GGG  K+  LS QL+KVVGA +L RTEVVKK+W YI+E  LQDP ++RKI+CDE L
Sbjct: 109 AKKRGGGITKVSQLSPQLEKVVGASQLGRTEVVKKMWAYIREKDLQDPKDRRKIVCDELL 168

Query: 162 QALFGVNSIDMFKMNRALSKHIWPLGAEDENVKQKIGVEDFKNSEEEEEKEQEQEQEHEE 221
            +LF V +I+MF+MN+AL+KHIWPLG  D      +  ED   + E  +K+ EQ +E EE
Sbjct: 169 HSLFRVKTINMFQMNKALTKHIWPLGDGD-GCANDVKEEDEDEASEGTDKKGEQSEEVEE 227

Query: 222 EEEEEET-----SIEQQSKENRSTKADKDVKKRRGGFTKLCSLSPDLQTFVGVSELARTE 276
            +EEE       S+ ++ ++  +   +K  +K  GGF K+CSLSP+LQ F GV+ELARTE
Sbjct: 228 NKEEESEEQEVRSLRKRKRKKPAKSVEKPKRKGGGGFAKVCSLSPELQAFTGVTELARTE 287

Query: 277 VVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPLDE---- 332
           VVK LW YI+E NLQDP ++R+IICDE+ + LF V SINMFQMNK LT+HIWPL++    
Sbjct: 288 VVKLLWKYIKENNLQDPNDKRSIICDESFRSLFPVESINMFQMNKQLTKHIWPLEDNAGE 347

Query: 333 -ADAKSKEKEKQCEQVEED--EPKHKAKRQKKEV 363
              +KS +  KQ  + + D  EP  K K+QKKEV
Sbjct: 348 SVSSKSPKNGKQKMESDGDSEEPNEKDKKQKKEV 381

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|9280327|dbj|BAB01706.1| unnamed protein product [Arabidopsis thaliana]

 Score =  320 bits (819), Expect = 9e-85,   Method: Compositional matrix adjust.
 Identities = 195/388 (50%), Positives = 249/388 (64%), Gaps = 42/388 (10%)

Query: 1   MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQTLEK 60
           MVSD DLVTRLR+IL +SDL+TAT  SVRR LE DF VDL+D+KA++ +QID FL++   
Sbjct: 1   MVSDLDLVTRLREILGSSDLNTATPASVRRQLEADFGVDLTDKKAYIRDQIDTFLES--- 57

Query: 61  EREEIEDDGNGAVEANADDKEEEEEESESKR--------EKSIKVGRQVK-RRGGGGFNK 111
                    NGAVE    DK E E E              +  K  R VK ++ GGG  K
Sbjct: 58  ---------NGAVE----DKPEAEIEGGDGEDLDGDGSGSEEEKEERPVKAKKRGGGITK 104

Query: 112 LCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSID 171
           +  LS QL+KVVGA +L RTEVVKK+W YI+E  LQDP ++RKI+CDE L +LF V +I+
Sbjct: 105 VSQLSPQLEKVVGASQLGRTEVVKKMWAYIREKDLQDPKDRRKIVCDELLHSLFRVKTIN 164

Query: 172 MFKMNRALSKHIWPLGAEDENVKQKIGVEDFKNSEEEEEKEQEQEQEHEEEEEEEETSIE 231
           MF+MN+AL+KHIWPLG  D      +  ED   + E  +K+ EQ +E EE +EEE    E
Sbjct: 165 MFQMNKALTKHIWPLGDGD-GCANDVKEEDEDEASEGTDKKGEQSEEVEENKEEESEEQE 223

Query: 232 QQS-------KENRSTKADKDVKKRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAY 284
            +S       K   +   +K  +K  GGF K+CSLSP+LQ F GV+ELARTEVVK LW Y
Sbjct: 224 VRSLRKRKRKKNRPAKSVEKPKRKGGGGFAKVCSLSPELQAFTGVTELARTEVVKLLWKY 283

Query: 285 IREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPLDE-----ADAKSKE 339
           I+E NLQDP ++R+IICDE+ + LF V SINMFQMNK LT+HIWPL++       +KS +
Sbjct: 284 IKENNLQDPNDKRSIICDESFRSLFPVESINMFQMNKQLTKHIWPLEDNAGESVSSKSPK 343

Query: 340 KEKQCEQVEED----EPKHKAKRQKKEV 363
             KQ  + + D    EP  K K+QKKEV
Sbjct: 344 NGKQKMESDGDTDSEEPNEKDKKQKKEV 371

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297830558|ref|XP_002883161.1| SWIB complex BAF60b domain-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297329001|gb|EFH59420.1| SWIB complex BAF60b domain-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  317 bits (812), Expect = 6e-84,   Method: Compositional matrix adjust.
 Identities = 190/397 (47%), Positives = 258/397 (64%), Gaps = 50/397 (12%)

Query: 1   MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQTLEK 60
           MVSD DLVTRLR+IL +SDL+TAT  SVRR LE DF +DL+D+KA++ +QID FL++   
Sbjct: 1   MVSDLDLVTRLREILGSSDLNTATPASVRRQLEADFGIDLTDKKAYIRDQIDTFLES--- 57

Query: 61  EREEIEDDGNGAVEANADDKEEEEEESESKREKSIKV----------------------G 98
                    NGAVE    DK E  +  E    + IK                        
Sbjct: 58  ---------NGAVE----DKPESSKPEEDINAEEIKAEIEGGDGEDLDGDGSESEEEKEE 104

Query: 99  RQVK-RRGGGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILC 157
           R VK ++ GGGF K+  LS QL+KVVGA +L RTEVVKK+W YI+EN LQDP ++RKI+C
Sbjct: 105 RPVKAKKRGGGFTKVSQLSPQLEKVVGASQLGRTEVVKKMWAYIRENDLQDPKDRRKIVC 164

Query: 158 DESLQALFGVNSIDMFKMNRALSKHIWPLGAED---ENVKQKIGVEDFKNSEEEEEKEQE 214
           DE L +LF V +I+MF+M++AL+KHIWPLG  D    NVK++   E  + ++++ ++ +E
Sbjct: 165 DELLHSLFRVKTINMFQMSKALTKHIWPLGDGDGCANNVKEEDEEEASEGTDKKGDQSEE 224

Query: 215 QEQEHEEEEEEEET-SIEQQSKENRSTKADKDVKKRRGGFTKLCSLSPDLQTFVGVSELA 273
            E+  EEE EEEE  S+ ++ ++  +   +K  +K  GGF K+CSLSP+LQ F GV+ELA
Sbjct: 225 VEENKEEESEEEEVRSLRKRKRKKPAKSVEKPKRKGGGGFAKVCSLSPELQAFTGVTELA 284

Query: 274 RTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPLDE- 332
           RTEVVK LW YI+E NLQDP ++R IICDE+L+ LF   SINMFQM+K LT+HIWPL++ 
Sbjct: 285 RTEVVKMLWKYIKENNLQDPNDKRIIICDESLRSLFPFESINMFQMSKLLTKHIWPLEDN 344

Query: 333 ------ADAKSKEKEKQCEQVEEDEPKHKAKRQKKEV 363
                 +++    K+K     + +EP  K K+QKKEV
Sbjct: 345 AGESVSSNSPKNGKQKMESDGDSEEPNEKDKKQKKEV 381

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449461413|ref|XP_004148436.1| PREDICTED: upstream activation factor subunit UAF30-like [Cucumis sativus]

 Score =  285 bits (730), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 161/339 (47%), Positives = 229/339 (67%), Gaps = 24/339 (7%)

Query: 1   MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQTLEK 60
           MVSDS+L++RLRD LRNSDL+T T   VRR LEEDF +DLSD+K F+ EQ+DLFLQT E 
Sbjct: 1   MVSDSELISRLRDFLRNSDLNTTTTAIVRRKLEEDFGIDLSDKKLFIREQVDLFLQT-EH 59

Query: 61  ER---------EEI-EDDGNGAVEANADDKEEEEEESESKREKSIKVGRQVKRRGGGGFN 110
           E+         EE+ ++DG+  ++   +D + E+ +++++ ++  K   +  ++ GGGF 
Sbjct: 60  EKAVQEGYAHCEEVHQEDGDENLKMETEDGDSEDGDNDNEDDEKGKTSSEKVKKRGGGFT 119

Query: 111 KLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSI 170
           KLCSLS QLQ+ +GAPE+ARTEVVK+LW +I+EN LQDP+N+R ILCDE L+ALFGVNSI
Sbjct: 120 KLCSLSPQLQEFIGAPEMARTEVVKQLWNHIRENNLQDPSNRRNILCDEPLKALFGVNSI 179

Query: 171 DMFKMNRALSKHIWPLGAEDENVKQKIGVEDFKNSEEEEEKEQEQEQEHEEEEEEEETSI 230
           +MF+MN+ALSKHIWPL + D    +    E  +  ++ +EK Q++ Q+  +EE+ ++   
Sbjct: 180 NMFQMNKALSKHIWPLESNDVIPAKSSQKEKPQKEKQPKEKPQKKRQKQGKEEDSDD--- 236

Query: 231 EQQSKENRSTKADKDVKKRRGGFTKLCSLSPDLQTFVGVSE--LARTEVVKKLWAYIREK 288
                   S + DK  KK + GF     LS  L  F+G  E  L R++VVK++W YI++ 
Sbjct: 237 --------SAREDKRQKKGKSGFLAPLPLSNALVAFLGTGEDALPRSDVVKRMWDYIKQN 288

Query: 289 NLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHI 327
           NLQDP ++R IICDE L+ LF V+S N F ++K L  H 
Sbjct: 289 NLQDPSDKRRIICDERLKELFDVDSFNGFTVSKLLATHF 327

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	363
TAIR|locus:2010197	372	AT1G49520 "AT1G49520" [Arabido	0.878	0.857	0.480	1.1e-73
TAIR|locus:2085894	462	AT3G19080 [Arabidopsis thalian	1.0	0.785	0.435	1.3e-70
TAIR|locus:2132055	385	AT4G22360 "AT4G22360" [Arabido	0.250	0.236	0.510	1.3e-42
UNIPROTKB|G4MMD0	285	MGG_01988 "Uncharacterized pro	0.223	0.284	0.518	3.4e-23
POMBASE|SPCC285.17	233	spp27 "RNA polymerase I upstre	0.192	0.300	0.485	2e-21
FB|FBgn0035370	244	CG1240 [Drosophila melanogaste	0.217	0.323	0.430	2.7e-19
SGD|S000004846	226	TRI1 "Non-essential sumoylated	0.214	0.345	0.487	8.1e-19
SGD|S000005821	228	UAF30 "Subunit of UAF (upstrea	0.498	0.793	0.297	1.6e-17
ASPGD|ASPL0000053508	279	AN0360 [Emericella nidulans (t	0.242	0.315	0.422	2.7e-17
TAIR|locus:2060469	141	AT2G14880 "AT2G14880" [Arabido	0.187	0.482	0.434	4.9e-13

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

 Score = 744 (267.0 bits), Expect = 1.1e-73, P = 1.1e-73
 Identities = 163/339 (48%), Positives = 213/339 (62%)

Query:     1 MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQT--- 57
             MVSDSDLVT+LR+ILR+SDL+T T  SVRR LE  F V+L+D+KAFV EQID FL++   
Sbjct:     1 MVSDSDLVTQLREILRSSDLETTTPASVRRQLEVYFGVELTDKKAFVREQIDAFLESDAL 60

Query:    58 LEKEREEIEDDGNGAVEANADDXXXXXXXXXXXXXXXIXXXXXXXXXXXXXFNKLCSLST 117
             LE + E+ E+D NG  + N ++                             FNK+C LS 
Sbjct:    61 LESKPEQEEEDCNG--DQNDEEGSENDDDKTELPVKA--------KKRGGGFNKICQLSP 110

Query:   118 QLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNR 177
             QL+K +G  +LARTEVVKK+W YI+E+ LQDP N+R ILCDESL +LF V +I+MF+MN+
Sbjct:   111 QLEKFLGTSQLARTEVVKKMWAYIREHDLQDPTNRRNILCDESLHSLFRVKTINMFQMNK 170

Query:   178 ALSKHIWPLGAED---ENVKQKIGVEDF---KNSXXXXXXXXXXXXXXXXXXXXXXXXXX 231
             AL+KHIW L   D   +NVK++  V++    ++                           
Sbjct:   171 ALAKHIWALNDGDGCFKNVKEE-DVDETSGERDEKDVKIEEALENNEEESREEEDRSVRK 229

Query:   232 XXXXXNRSTKADKDVKKRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQ 291
                   +  K+++  KK+ GGFTK+CSLSP+LQ F G  +LARTEVVK LW YI+E NLQ
Sbjct:   230 RKRKKRKPAKSEEKPKKKGGGFTKVCSLSPELQAFTGTPQLARTEVVKMLWKYIKENNLQ 289

Query:   292 DPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPL 330
             DP ++R IICDE+L+ LF V SINMFQMNK L +HIWPL
Sbjct:   290 DPSDKRTIICDESLRSLFPVESINMFQMNKQLAKHIWPL 328

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 = 715 (256.8 bits), Expect = 1.3e-70, P = 1.3e-70
 Identities = 166/381 (43%), Positives = 218/381 (57%)

Query:     1 MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQT--- 57
             MVSD DLVTRLR+IL +SDL+TAT  SVRR LE DF VDL+D+KA++ +QID FL++   
Sbjct:     1 MVSDLDLVTRLREILGSSDLNTATPASVRRQLEADFGVDLTDKKAYIRDQIDTFLESNGA 60

Query:    58 LEKERE--EIEDDGNG-AVEANADDXXXXXXXXXXXXXXXIXXXX-XXXXXXXXXFNKLC 113
             +E + E  ++E+  N   ++A  +                                 K+ 
Sbjct:    61 VEDKPESPKVEEYINADEIKAEIEGGDGEDLDGDGSGSEEEKEERPVKAKKRGGGITKVS 120

Query:   114 SLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMF 173
              LS QL+KVVGA +L RTEVVKK+W YI+E  LQDP ++RKI+CDE L +LF V +I+MF
Sbjct:   121 QLSPQLEKVVGASQLGRTEVVKKMWAYIREKDLQDPKDRRKIVCDELLHSLFRVKTINMF 180

Query:   174 KMNRALSKHIWPLGAED---ENVKQKIGVEDFKNSXXXXXXXXXXXXXXXXXXXXXXXXX 230
             +MN+AL+KHIWPLG  D    +VK++   E  + +                         
Sbjct:   181 QMNKALTKHIWPLGDGDGCANDVKEEDEDEASEGTDKKGEQSEEVEENKEEESEEQEVRS 240

Query:   231 XXXXXXNRSTKA-DKDVKKRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKN 289
                    +  K+ +K  +K  GGF K+CSLSP+LQ F GV+ELARTEVVK LW YI+E N
Sbjct:   241 LRKRKRKKPAKSVEKPKRKGGGGFAKVCSLSPELQAFTGVTELARTEVVKLLWKYIKENN 300

Query:   290 LQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPLXXXXXXXXXXXX------- 342
             LQDP ++R+IICDE+ + LF V SINMFQMNK LT+HIWPL                   
Sbjct:   301 LQDPNDKRSIICDESFRSLFPVESINMFQMNKQLTKHIWPLEDNAGESVSSKSPKNGKQK 360

Query:   343 XXXXXXXXXPKHKAKRQKKEV 363
                      P  K K+QKKEV
Sbjct:   361 MESDGDSEEPNEKDKKQKKEV 381

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009506 "plasmodesma" evidence=IDA

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

 Score = 257 (95.5 bits), Expect = 1.3e-42, Sum P(3) = 1.3e-42
 Identities = 47/92 (51%), Positives = 68/92 (73%)

Query:   110 NKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNS 169
             NK+C +S +L+ VVG P L RTE+V++LW YI++N LQDP+NKRKI+CD++L+ +F  + 
Sbjct:   198 NKVCRVSPELEVVVGEPALPRTEIVRQLWAYIRKNNLQDPSNKRKIICDDALRVVFETDC 257

Query:   170 IDMFKMNRALSKHIWPLG-AEDENVKQKIGVE 200
              DMFKMN+ L+KHI PL  ++D    +K   E
Sbjct:   258 TDMFKMNKLLAKHILPLDPSKDSGQAKKAKTE 289

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 = 225 (84.3 bits), Expect = 3.4e-23, Sum P(2) = 3.4e-23
 Identities = 42/81 (51%), Positives = 58/81 (71%)

Query:   109 FNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVN 168
             F K   LS  L +V G P L+R +VVKKLW +IK N LQDPN+KR+ILCDE +QA+F  +
Sbjct:   205 FQKPFHLSASLAEVCGEPTLSRPQVVKKLWEHIKGNNLQDPNDKRQILCDEKMQAVFKQS 264

Query:   169 SIDMFKMNRALSKHIWPLGAE 189
             S++MF MN+ +  H++P+  E
Sbjct:   265 SLNMFAMNKLIGSHLYPVDEE 285

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 188 (71.2 bits), Expect = 2.0e-21, Sum P(2) = 2.0e-21
 Identities = 34/70 (48%), Positives = 51/70 (72%)

Query:   255 KLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSI 314
             K   LSP L  F+G+ +L+R + VKKLW YI+  +LQDP ++R I+CD+ L+ +F V+++
Sbjct:   119 KPMKLSPKLAEFLGLEQLSRPQTVKKLWEYIKAHDLQDPNDKRTILCDDKLKSVFEVDTL 178

Query:   315 NMFQMNKALT 324
             +MF MNK LT
Sbjct:   179 HMFTMNKYLT 188

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

FB|FBgn0035370 CG1240 [Drosophila melanogaster (taxid:7227)]

 Score = 176 (67.0 bits), Expect = 2.7e-19, Sum P(2) = 2.7e-19
 Identities = 34/79 (43%), Positives = 50/79 (63%)

Query:   248 KRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQV 307
             ++  GFT+  +LSP+L   +G S L R EVVKK+WA I+E++L DPKN++  ICD+ L  
Sbjct:   163 RKSTGFTRAYNLSPELSALMGESSLPRHEVVKKVWAIIKERDLYDPKNKQFAICDDELMK 222

Query:   308 LFRVNSINMFQMNKALTRH 326
             + ++     F M K L  H
Sbjct:   223 VMKIRRFRTFGMLKHLKPH 241

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0003677 "DNA binding" evidence=IEA

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

 Score = 199 (75.1 bits), Expect = 8.1e-19, Sum P(2) = 8.1e-19
 Identities = 40/82 (48%), Positives = 58/82 (70%)

Query:   115 LSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFK 174
             LS  LQK +G+ EL RT+VVK +W YIKE+ LQ+P ++R+ILCDE ++ +FG   + MF 
Sbjct:   126 LSAPLQKFLGSEELPRTQVVKMIWQYIKEHDLQNPKDRREILCDEKMEPIFG-KKMTMFS 184

Query:   175 MNRALSKHIWPLGAEDENVKQK 196
             MN+ L+KH++     DE VK +
Sbjct:   185 MNKLLTKHLFN---PDEIVKHE 203

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

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

 Score = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 58/195 (29%), Positives = 98/195 (50%)

Query:     1 MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDL-SDRKAF---VSEQIDLFLQ 56
             M   +D  T +  +L + DL+T T   VR  L+E + +D+ S  KA    + + +DL  +
Sbjct:     1 MAELNDYSTMIDILLSDMDLETVTTKKVRMALKEVYAIDVESQGKAINKLIRKHLDLVKE 60

Query:    57 T--LEKEREEI-EDDGNGAVEANADDXXXXXXXX-----XXXXXXXIXXXXXXXXXXXXX 108
                 E+  E++ +++   A+E   +                     +             
Sbjct:    61 RPRFERSLEDLLKENATLAIELTKEITVSKRSSGEEKNDSETKGTHVEKKKGTVSKSPIS 120

Query:   109 FNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVN 168
               K+ +LS  L  ++G  EL RTEVV++LW YIK + LQ+PNNK++ILCDE L+ + G  
Sbjct:   121 TRKV-TLSKSLASLLGEHELTRTEVVRRLWAYIKAHNLQNPNNKKEILCDEKLELILG-K 178

Query:   169 SIDMFKMNRALSKHI 183
             S +MF+M++ L+ H+
Sbjct:   179 STNMFEMHKILASHM 193

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

ASPGD|ASPL0000053508 AN0360 [Emericella nidulans (taxid:162425)]

 Score = 188 (71.2 bits), Expect = 2.7e-17, Sum P(2) = 2.7e-17
 Identities = 38/90 (42%), Positives = 60/90 (66%)

Query:   240 TKADKDVKKRRGGFTKLCSLSPDLQTFVG-VSELARTEVVKKLWAYIREKNLQDPKNRRN 298
             +++ K V  R GGF K  +LSP L   +G  + L+R + VKKLW YI E +LQDP +RR 
Sbjct:   187 SESGKKVN-RSGGFHKPLNLSPALSALLGGAATLSRPQTVKKLWEYIHEHDLQDPSDRRQ 245

Query:   299 IICDEALQVLFRVNSINMFQMNKALTRHIW 328
             I CD+ ++ +F+ + I+MF M K L+++++
Sbjct:   246 IRCDDPMRAVFKQDRIHMFTMTKILSQNLY 275

GO:0008150 "biological_process" evidence=ND

GO:0005730 "nucleolus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

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

 Score = 173 (66.0 bits), Expect = 4.9e-13, P = 4.9e-13
 Identities = 30/69 (43%), Positives = 49/69 (71%)

Query:   115 LSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALF-GVNSIDMF 173
             +S ++Q +V  PE+ART+ +K++W YIKE+ LQDP NKR+ILCDE L+ +F G + +   
Sbjct:    71 VSPEMQDIVELPEIARTQALKRIWAYIKEHDLQDPQNKREILCDEKLKKIFEGRDRVGFL 130

Query:   174 KMNRALSKH 182
             ++ + +  H
Sbjct:   131 EIAKLIGPH 139

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

Your Input: estExt_Genewise1_v1.C_1300082 hypothetical protein (384 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	363
pfam02201	76	pfam02201, SWIB, SWIB/MDM2 domain	2e-33
pfam02201	76	pfam02201, SWIB, SWIB/MDM2 domain	3e-31
smart00151	77	smart00151, SWIB, SWI complex, BAF60b domains	1e-30
smart00151	77	smart00151, SWIB, SWI complex, BAF60b domains	2e-30
COG5531	237	COG5531, COG5531, SWIB-domain-containing proteins	5e-26
COG5531	237	COG5531, COG5531, SWIB-domain-containing proteins	2e-23
PRK06319	860	PRK06319, PRK06319, DNA topoisomerase I/SWI domain	2e-17
PRK06319	860	PRK06319, PRK06319, DNA topoisomerase I/SWI domain	1e-15
PRK14724	987	PRK14724, PRK14724, DNA topoisomerase III; Provisi	7e-14
pfam08766	54	pfam08766, DEK_C, DEK C terminal domain	7e-12
PRK14724	987	PRK14724, PRK14724, DNA topoisomerase III; Provisi	1e-11
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	3e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	5e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	0.001

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

 Score =  118 bits (299), Expect = 2e-33
 Identities = 42/76 (55%), Positives = 54/76 (71%)

Query: 253 FTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVN 312
            TK   LSPDL  F+G  EL+RTEVVKKLW YI+E NLQDPKN+R I+CDE L+ +F  +
Sbjct: 1   LTKPFPLSPDLAKFLGAGELSRTEVVKKLWQYIKEHNLQDPKNKRIILCDEKLKSIFGGD 60

Query: 313 SINMFQMNKALTRHIW 328
            +  F+M+K L+ H  
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|145386 pfam02201, SWIB, SWIB/MDM2 domain

 Score =  112 bits (283), Expect = 3e-31
 Identities = 42/76 (55%), Positives = 53/76 (69%)

Query: 109 FNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVN 168
             K   LS  L K +GA EL+RTEVVKKLW YIKE+ LQDP NKR ILCDE L+++FG +
Sbjct: 1   LTKPFPLSPDLAKFLGAGELSRTEVVKKLWQYIKEHNLQDPKNKRIILCDEKLKSIFGGD 60

Query: 169 SIDMFKMNRALSKHIW 184
            +  F+M++ LS H  
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|128456 smart00151, SWIB, SWI complex, BAF60b domains

 Score =  111 bits (279), Expect = 1e-30
 Identities = 41/77 (53%), Positives = 58/77 (75%)

Query: 109 FNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVN 168
             K  +LS +L KV+GAPE+ RTE++K+LW YIKE+ LQDP NKR+ILCD  L+ +FG +
Sbjct: 1   ITKKVTLSPELAKVLGAPEMTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKD 60

Query: 169 SIDMFKMNRALSKHIWP 185
            +DMF+MN+ L+ H+  
Sbjct: 61  RMDMFEMNKLLTPHLIK 77

Length = 77

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

 Score =  110 bits (278), Expect = 2e-30
 Identities = 37/77 (48%), Positives = 55/77 (71%)

Query: 253 FTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVN 312
            TK  +LSP+L   +G  E+ RTE++K+LW YI+E NLQDP+N+R I+CD  L+ +F  +
Sbjct: 1   ITKKVTLSPELAKVLGAPEMTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKD 60

Query: 313 SINMFQMNKALTRHIWP 329
            ++MF+MNK LT H+  
Sbjct: 61  RMDMFEMNKLLTPHLIK 77

Length = 77

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

 Score =  104 bits (260), Expect = 5e-26
 Identities = 58/222 (26%), Positives = 93/222 (41%), Gaps = 13/222 (5%)

Query: 14  ILRNSDLDTATAGSVRRLLEEDFKVDLSDRK----AFVSEQIDLFLQTLEKEREEIEDDG 69
            L+  + DT     V +LL  ++ V L  R       + ++ D   +     R+E  +  
Sbjct: 14  WLQLDERDTNNEKDVGKLLFSEWTVRLEGRFKDNNDLIRDKFDSLAEEPRVLRKEKYNIT 73

Query: 70  NGAVEANADDKEEEEEESESKREKSIKV----GRQVKR----RGGGGFNKLCSLSTQLQK 121
                 N   KEE+     SK  ++         + K+           +   LS +L  
Sbjct: 74  RKTTGKNDLPKEEDSSLPSSKETENGDTEGKETDKKKKSSTISKNSPSGEKVKLSPKLAA 133

Query: 122 VVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSK 181
           ++G     R E VKKLW YIK++ LQDPNNKR ILCD  L+ + G + IDMF++ + LS 
Sbjct: 134 ILGLEPGTRPEAVKKLWKYIKKHNLQDPNNKRLILCDSKLKKVLGSDPIDMFELTKPLSP 193

Query: 182 HIWPLGAE-DENVKQKIGVEDFKNSEEEEEKEQEQEQEHEEE 222
           H+     +  +         D +   E +  +Q      +E 
Sbjct: 194 HLIKYTIDVSKAPTYGGTTLDIEIPLENDSLQQLPTLYTKEI 235

Length = 237

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

 Score = 97.1 bits (242), Expect = 2e-23
 Identities = 39/152 (25%), Positives = 66/152 (43%), Gaps = 10/152 (6%)

Query: 203 KNSEEEEEKEQEQEQEHEEEEEEEETSIEQQSKENRSTKADKDVKKRRGGFTKLCSLSPD 262
              +EE+      ++    + E +ET  +++S                    +   LSP 
Sbjct: 81  DLPKEEDSSLPSSKETENGDTEGKETDKKKKSSTISKNSP----------SGEKVKLSPK 130

Query: 263 LQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKA 322
           L   +G+    R E VKKLW YI++ NLQDP N+R I+CD  L+ +   + I+MF++ K 
Sbjct: 131 LAAILGLEPGTRPEAVKKLWKYIKKHNLQDPNNKRLILCDSKLKKVLGSDPIDMFELTKP 190

Query: 323 LTRHIWPLDEADAKSKEKEKQCEQVEEDEPKH 354
           L+ H+       +K+         +E      
Sbjct: 191 LSPHLIKYTIDVSKAPTYGGTTLDIEIPLEND 222

Length = 237

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

 Score = 83.7 bits (207), Expect = 2e-17
 Identities = 36/104 (34%), Positives = 58/104 (55%), Gaps = 5/104 (4%)

Query: 80  KEEEEEESESKREKSIKVGRQVKRRGGGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWV 139
            + +  ++  K+ K+       KR G      L + S  L  ++GA  + R E  KK+W 
Sbjct: 760 TKGKAAKTVKKKSKAKSKKTTKKRAG-----PLYTPSPALAAMIGAEPVGRGEATKKVWD 814

Query: 140 YIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHI 183
           YIKE+ LQ P NK+ I+ D  LQ + G + IDMF++++ LS+H+
Sbjct: 815 YIKEHGLQSPENKKLIIPDSKLQGVIGPDPIDMFQLSKKLSQHL 858

Length = 860

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

 Score = 77.9 bits (192), Expect = 1e-15
 Identities = 36/97 (37%), Positives = 55/97 (56%), Gaps = 3/97 (3%)

Query: 231 EQQSKENRSTKADKDVKKRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNL 290
            +  K+    K+ K  KKR G    L + SP L   +G   + R E  KK+W YI+E  L
Sbjct: 765 AKTVKKKSKAKSKKTTKKRAG---PLYTPSPALAAMIGAEPVGRGEATKKVWDYIKEHGL 821

Query: 291 QDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHI 327
           Q P+N++ II D  LQ +   + I+MFQ++K L++H+
Sbjct: 822 QSPENKKLIIPDSKLQGVIGPDPIDMFQLSKKLSQHL 858

Length = 860

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

 Score = 72.7 bits (178), Expect = 7e-14
 Identities = 32/68 (47%), Positives = 44/68 (64%)

Query: 116 STQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKM 175
           S  L  V+GA  +AR EV+KKLW YIK N LQDP +KR I  D  L+ +FG + + MF++
Sbjct: 919 SAALAAVIGAEPVARPEVIKKLWDYIKANNLQDPADKRAINADAKLRPVFGKDQVTMFEL 978

Query: 176 NRALSKHI 183
              + KH+
Sbjct: 979 AGIVGKHL 986

Length = 987

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

 Score = 59.4 bits (145), Expect = 7e-12
 Identities = 23/53 (43%), Positives = 36/53 (67%)

Query: 3  SDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFL 55
          +D ++   +R+ILR +DL+T T   +R+ LE    VDLS+RKAF+ + I+ FL
Sbjct: 1  TDEEIKEEIREILREADLETVTKKQIRKELEARLGVDLSERKAFIKDLIEEFL 53

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|237803 PRK14724, PRK14724, DNA topoisomerase III; Provisional

 Score = 65.7 bits (160), Expect = 1e-11
 Identities = 26/68 (38%), Positives = 41/68 (60%)

Query: 260 SPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQM 319
           S  L   +G   +AR EV+KKLW YI+  NLQDP ++R I  D  L+ +F  + + MF++
Sbjct: 919 SAALAAVIGAEPVARPEVIKKLWDYIKANNLQDPADKRAINADAKLRPVFGKDQVTMFEL 978

Query: 320 NKALTRHI 327
              + +H+
Sbjct: 979 AGIVGKHL 986

Length = 987

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 45.8 bits (108), Expect = 3e-05
 Identities = 21/56 (37%), Positives = 31/56 (55%)

Query: 187 GAEDENVKQKIGVEDFKNSEEEEEKEQEQEQEHEEEEEEEETSIEQQSKENRSTKA 242
           G +          E+ +  EEEEE+E+E+E+E EEEEEE E  +  +  E R  +A
Sbjct: 851 GVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENEEPLSLEWPETRQKQA 906

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 45.0 bits (106), Expect = 5e-05
 Identities = 23/46 (50%), Positives = 30/46 (65%)

Query: 188 AEDENVKQKIGVEDFKNSEEEEEKEQEQEQEHEEEEEEEETSIEQQ 233
            +DE      G  D  +SEEEEE+E+E+E+E EEEEEEEE   E +
Sbjct: 846 KQDEKGVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENE 891

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 40.4 bits (94), Expect = 0.001
 Identities = 19/49 (38%), Positives = 32/49 (65%)

Query: 189 EDENVKQKIGVEDFKNSEEEEEKEQEQEQEHEEEEEEEETSIEQQSKEN 237
           + E  + + GV+    S+  + +E+E+E+E EEEEEEEE   E++ +EN
Sbjct: 842 QGEAKQDEKGVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEEN 890

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	363
KOG1946	240	consensus RNA polymerase I transcription factor UA	99.97
COG5531	237	SWIB-domain-containing proteins implicated in chro	99.91
PF02201	76	SWIB: SWIB/MDM2 domain; InterPro: IPR003121 The SW	99.9
PF02201	76	SWIB: SWIB/MDM2 domain; InterPro: IPR003121 The SW	99.9
smart00151	77	SWIB SWI complex, BAF60b domains.	99.9
smart00151	77	SWIB SWI complex, BAF60b domains.	99.9
KOG1946	240	consensus RNA polymerase I transcription factor UA	99.89
COG5531	237	SWIB-domain-containing proteins implicated in chro	99.83
PRK14724	987	DNA topoisomerase III; Provisional	99.78
PRK14724	987	DNA topoisomerase III; Provisional	99.77
KOG2570	420	consensus SWI/SNF transcription activation complex	99.75
KOG2570	420	consensus SWI/SNF transcription activation complex	99.69
PF08766	54	DEK_C: DEK C terminal domain; InterPro: IPR014876	99.51
PRK06319	860	DNA topoisomerase I/SWI domain fusion protein; Val	99.34
PRK06319	860	DNA topoisomerase I/SWI domain fusion protein; Val	99.34
KOG2266	594	consensus Chromatin-associated protein Dek and rel	98.34

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

Probab=99.97  E-value=8.1e-32  Score=254.14  Aligned_cols=181  Identities=35%  Similarity=0.461  Sum_probs=141.0

Q ss_pred             CCChhHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHhCCCChhhHHHHHHHHHHHHhhhhhhhhhccccCCchhhcccCc-
Q 017932            1 MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQTLEKEREEIEDDGNGAVEANADD-   79 (363)
Q Consensus         1 mvsd~ei~~~I~~IL~~sDl~tvT~k~VR~~LE~~~gvDLs~kK~~I~~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~-   79 (363)
                      |.+...+...++.||...+++++|...||++++..||++++..+..++.+|...+...... +..   ...... .... 
T Consensus         1 ~~~~~~~~~~~~~~l~~~~~~~lt~~~vr~~~~~~~~v~~~~~k~~~~~~~~~~~~~~~~~-~~k---~~~~k~-~~~~~   75 (240)
T KOG1946|consen    1 MDSLSWEYLFKDYILSLKDQETLTPDDVRRAMAPRSGVDGTAQKSLLAKAIDESSDEDSAL-PVK---GSKKKK-RGSKT   75 (240)
T ss_pred             CcchhhhhhhhHHHhcccccccCCHHHHHHHhccccCCCCcchhhhhhhhhhccccccccc-ccc---cccccc-ccccc
Confidence            6788999999999999999999999999999999999999999999999998877542110 000   000000 0000 


Q ss_pred             chhhHHhhHHhhhhhccccccccccCCCCCCccccCcHHHHhhhCCCCccHHHHHHHHHHHHHHcCCCCCCCCCcccCCh
Q 017932           80 KEEEEEESESKREKSIKVGRQVKRRGGGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDE  159 (363)
Q Consensus        80 ~~~~~~~~~~~~~~~~k~~~~~k~k~~~g~~k~~~LSp~La~~lG~~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cDe  159 (363)
                      ........+.....+.     .+++.++|+++.|.|||.|+.|+|.+++||++||+.||+|||+||||||.|||.|+||+
T Consensus        76 ~~~~~~~~~~~~~~~~-----~~~~~~~g~~kl~~ls~~L~~~~G~~~lsR~~vvk~iw~YIke~nLqDP~nkr~IlCDe  150 (240)
T KOG1946|consen   76 RSRKPKSLESSGEKNK-----KKKKASWGSTKLIPLSPSLARFVGTSELSRTDVVKKIWAYIKEHNLQDPKNKREILCDE  150 (240)
T ss_pred             ccccCcccccccccch-----hccccCcCcccccccCHHHHhhcccccccHHHHHHHHHHHHHHhccCCccccCeeeeHH
Confidence            0000000000000111     12335689999999999999999999999999999999999999999999999999999


Q ss_pred             hHhhhhcCCccChhhHHHHHhccCCCCCCCCc
Q 017932          160 SLQALFGVNSIDMFKMNRALSKHIWPLGAEDE  191 (363)
Q Consensus       160 ~Lk~lF~~d~i~~~~m~k~L~~Hl~p~~p~~~  191 (363)
                      +|+.|||..+|+||+|+++|.+||++...+..
T Consensus       151 kL~~iF~~k~v~~fem~KLL~~H~~~~~d~~~  182 (240)
T KOG1946|consen  151 KLKSIFGKKRVGMFEMLKLLTKHFLKNQDMVG  182 (240)
T ss_pred             HHHHHhccCccceeeHHHHHHHhccCcccccc
Confidence            99999999999999999999999999888654

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

Probab=99.91  E-value=2.2e-25  Score=209.30  Aligned_cols=182  Identities=31%  Similarity=0.414  Sum_probs=129.2

Q ss_pred             HHHHHHHHHHhcCCCCCcCHHHHHHHHHHHhCCCChhhHHHHHHHHHHHHhhhhhhhhhcc--ccCCchhhc---ccCcc
Q 017932            6 DLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQTLEKEREEIE--DDGNGAVEA---NADDK   80 (363)
Q Consensus         6 ei~~~I~~IL~~sDl~tvT~k~VR~~LE~~~gvDLs~kK~~I~~~I~~~l~~~~~~~~~~~--~~~~~~~~~---~~~~~   80 (363)
                      .+..++..+|+..+..+++.+.|++.+...++++|..+..+++..+...+.+... .+...  ...++....   ++...
T Consensus         6 ~~~~~~~~~~~~~e~~~~~ek~v~~~~~~~~~~~l~~r~k~~~~~~~~~~~s~~~-~~~~~~~~k~~~~r~~~~~~~~~~   84 (237)
T COG5531           6 RYGTMNDSWLQLDERDTNNEKDVGKLLFSEWTVRLEGRFKDNNDLIRDKFDSLAE-EPRVLRKEKYNITRKTTGKNDLPK   84 (237)
T ss_pred             ccccccceeeecccccccChhhcccccchhhheehhhhhhhccchhhhhhhhhcc-cchhhhhhhhccCccccccccccc
Confidence            3456788899999999999999999999999999999999999999877665421 11000  000000000   00000


Q ss_pred             hhhHHhhHHhh-hh---hccccccccc----cCCCCCCccccCcHHHHhhhCCCCccHHHHHHHHHHHHHHcCCCCCCCC
Q 017932           81 EEEEEESESKR-EK---SIKVGRQVKR----RGGGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNK  152 (363)
Q Consensus        81 ~~~~~~~~~~~-~~---~~k~~~~~k~----k~~~g~~k~~~LSp~La~~lG~~~~sR~~vvk~lW~YIk~nnLqDp~nk  152 (363)
                      +.+....+.++ +.   ..+.+.++++    ..++.+...|.|||.||.|||..++||++||+.||+||+.||||||+|+
T Consensus        85 ~~~~~~~s~k~~~n~~te~k~~~~~k~~~~~~~~~~~~~~~~lS~~La~ilG~~~~tr~~~v~~lw~YIk~h~lq~~~nk  164 (237)
T COG5531          85 EEDSSLPSSKETENGDTEGKETDKKKKSSTISKNSPSGEKVKLSPKLAAILGLEPGTRPEAVKKLWKYIKKHNLQDPNNK  164 (237)
T ss_pred             ccccccCcchhhhcCccccccccccccccccccccCCCCceecCHHHHHHhCCCCCCccHHHHHHHHHHHHhcCCCcccc
Confidence            00000000000 00   0000111111    1245577889999999999999999999999999999999999999999


Q ss_pred             CcccCChhHhhhhcCCccChhhHHHHHhccCCCCCC
Q 017932          153 RKILCDESLQALFGVNSIDMFKMNRALSKHIWPLGA  188 (363)
Q Consensus       153 r~I~cDe~Lk~lF~~d~i~~~~m~k~L~~Hl~p~~p  188 (363)
                      |+|+||++|+.|||.+.+.||+|++.|++|+.+++-
T Consensus       165 r~I~~D~~L~~v~g~~p~~mf~~~k~l~~hl~~~~~  200 (237)
T COG5531         165 RLILCDSKLKKVLGSDPIDMFELTKPLSPHLIKYTI  200 (237)
T ss_pred             ceecccHHHHHHhCCCchhhhhhhcccccceecCcc
Confidence            999999999999999999999999999999999644

>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=1.8e-25  Score=176.97  Aligned_cols=76  Identities=54%  Similarity=0.953  Sum_probs=71.4

Q ss_pred             CcccccCCHHHHhhhCCCCccHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhccCccChhhHHHHHHccCC
Q 017932          253 FTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIW  328 (363)
Q Consensus       253 ~~~~~~LS~~La~flG~~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD~kLk~LFg~d~i~~~~i~klL~~Hl~  328 (363)
                      |+++|.||++|++|+|..++||++|+++||+||++||||||.|++.|+||+.|+.|||+++|+|++|+++|++||.
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            6789999999999999999999999999999999999999999999999999999999999999999999999973

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 ....

>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=1.9e-25  Score=176.78  Aligned_cols=75  Identities=51%  Similarity=0.927  Sum_probs=70.7

Q ss_pred             CCccccCcHHHHhhhCCCCccHHHHHHHHHHHHHHcCCCCCCCCCcccCChhHhhhhcCCccChhhHHHHHhccC
Q 017932          109 FNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHI  183 (363)
Q Consensus       109 ~~k~~~LSp~La~~lG~~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cDe~Lk~lF~~d~i~~~~m~k~L~~Hl  183 (363)
                      |+++|.|||+|++++|..++||++|+++||+||++||||||+|++.|+||+.|+.|||+++|+||+|+++|++||
T Consensus         1 ~~k~~~ls~~L~~~lg~~~~sr~~v~~~lw~YIk~~~L~dp~~k~~I~cD~~L~~lf~~~~v~~~~i~~~l~~hl   75 (76)
T PF02201_consen    1 FPKRFKLSPELAEFLGEDELSRSEVVKRLWQYIKENNLQDPKDKRIIICDEKLKKLFGKDSVNFFEIPKLLKPHL   75 (76)
T ss_dssp             -EEEEHHHHHHHHHTT-SCEEHHHHHHHHHHHHHHTTSBESSSTTEEE-TTSHHHHHHTSECSEEETTHHHHHHH
T ss_pred             CCCCccCCHHHHHHhCCCCCCHHHHHHHHHHHHHHhcCCCcccCceEecCHHHHHHhCCCeecHhhHHHHHHHhc
Confidence            577899999999999999999999999999999999999999999999999999999999999999999999997

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=3.4e-24  Score=170.06  Aligned_cols=76  Identities=49%  Similarity=0.936  Sum_probs=74.3

Q ss_pred             cccccCCHHHHhhhCCCCccHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhccCccChhhHHHHHHccCCC
Q 017932          254 TKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWP  329 (363)
Q Consensus       254 ~~~~~LS~~La~flG~~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD~kLk~LFg~d~i~~~~i~klL~~Hl~p  329 (363)
                      +++|.||++|+.|+|..++||++|+++||+||+.||||||.|++.|+||+.|+.|||+++|.|++|+++|++||.|
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 TKKVTLSPELAKVLGAPEMTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKDRMDMFEMNKLLTPHLIK   77 (77)
T ss_pred             CCcccCCHHHHHHhCCCcCcHHHHHHHHHHHHHHhcccCCccCCEEecCHHHHHHHCcCeecHHHHHHHHHHHcCC
Confidence            6789999999999999999999999999999999999999999999999999999999999999999999999975

>smart00151 SWIB SWI complex, BAF60b domains

Probab=99.90  E-value=4.2e-24  Score=169.56  Aligned_cols=76  Identities=54%  Similarity=0.993  Sum_probs=74.0

Q ss_pred             CccccCcHHHHhhhCCCCccHHHHHHHHHHHHHHcCCCCCCCCCcccCChhHhhhhcCCccChhhHHHHHhccCCC
Q 017932          110 NKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHIWP  185 (363)
Q Consensus       110 ~k~~~LSp~La~~lG~~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cDe~Lk~lF~~d~i~~~~m~k~L~~Hl~p  185 (363)
                      +++|.|||+|++|+|..++||++|+++||+||+.||||||+|++.|+||+.|+.+||++++.|++|+++|++||.|
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 TKKVTLSPELAKVLGAPEMTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKDRMDMFEMNKLLTPHLIK   77 (77)
T ss_pred             CCcccCCHHHHHHhCCCcCcHHHHHHHHHHHHHHhcccCCccCCEEecCHHHHHHHCcCeecHHHHHHHHHHHcCC
Confidence            5789999999999999999999999999999999999999999999999999999999999999999999999975

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

Probab=99.89  E-value=7.3e-24  Score=200.23  Aligned_cols=87  Identities=53%  Similarity=0.857  Sum_probs=83.7

Q ss_pred             CCCCCcccccCCHHHHhhhCCCCccHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhccCccChhhHHHHHHccCC
Q 017932          249 RRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIW  328 (363)
Q Consensus       249 ~~~g~~~~~~LS~~La~flG~~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD~kLk~LFg~d~i~~~~i~klL~~Hl~  328 (363)
                      .++|+++.+.||+.|+.|+|...+||.+|++.||+|||+||||||.|++.|+||++|+.|||...|+||+|++||.+||+
T Consensus        96 ~~~g~~kl~~ls~~L~~~~G~~~lsR~~vvk~iw~YIke~nLqDP~nkr~IlCDekL~~iF~~k~v~~fem~KLL~~H~~  175 (240)
T KOG1946|consen   96 ASWGSTKLIPLSPSLARFVGTSELSRTDVVKKIWAYIKEHNLQDPKNKREILCDEKLKSIFGKKRVGMFEMLKLLTKHFL  175 (240)
T ss_pred             cCcCcccccccCHHHHhhcccccccHHHHHHHHHHHHHHhccCCccccCeeeeHHHHHHHhccCccceeeHHHHHHHhcc
Confidence            34799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCccch
Q 017932          329 PLDEADA  335 (363)
Q Consensus       329 p~~pi~~  335 (363)
                      +......
T Consensus       176 ~~~d~~~  182 (240)
T KOG1946|consen  176 KNQDMVG  182 (240)
T ss_pred             Ccccccc
Confidence            9988764

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

Probab=99.83  E-value=2.7e-21  Score=181.80  Aligned_cols=82  Identities=38%  Similarity=0.701  Sum_probs=78.8

Q ss_pred             CCCCcccccCCHHHHhhhCCCCccHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhccCccChhhHHHHHHccCCC
Q 017932          250 RGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWP  329 (363)
Q Consensus       250 ~~g~~~~~~LS~~La~flG~~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD~kLk~LFg~d~i~~~~i~klL~~Hl~p  329 (363)
                      ++.+..+|.||+.||.|||..++||++||+.||+||+.||||||.|+|.|+||++|+.|||.+.+.||+|.++|.+|+.+
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            55678999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             CC
Q 017932          330 LD  331 (363)
Q Consensus       330 ~~  331 (363)
                      .+
T Consensus       198 ~~  199 (237)
T COG5531         198 YT  199 (237)
T ss_pred             Cc
Confidence            54

>PRK14724 DNA topoisomerase III; Provisional

Probab=99.78  E-value=1.7e-19  Score=199.16  Aligned_cols=77  Identities=42%  Similarity=0.652  Sum_probs=74.3

Q ss_pred             CCCccccCcHHHHhhhCCCCccHHHHHHHHHHHHHHcCCCCCCCCCcccCChhHhhhhcCCccChhhHHHHHhccCC
Q 017932          108 GFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHIW  184 (363)
Q Consensus       108 g~~k~~~LSp~La~~lG~~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cDe~Lk~lF~~d~i~~~~m~k~L~~Hl~  184 (363)
                      .+...+.|||+|++|||..++||++||++||+|||.||||||.|+|.|+||++|+.|||+++|+||+|+++|++||.
T Consensus       911 ~~~~~~~ls~~La~~lg~~~~~r~~v~~~lW~YIK~~~Lqdp~~k~~i~cD~~L~~vfg~~~~~~~~~~~~l~~hl~  987 (987)
T PRK14724        911 PPAAGLKPSAALAAVIGAEPVARPEVIKKLWDYIKANNLQDPADKRAINADAKLRPVFGKDQVTMFELAGIVGKHLS  987 (987)
T ss_pred             ccccccCCCHHHHHHhCCCcCCHHHHHHHHHHHHHHccCCCcccCCeeccchHHHHHhCCCcccHHHHHHHHHHhcC
Confidence            36678999999999999999999999999999999999999999999999999999999999999999999999984

>PRK14724 DNA topoisomerase III; Provisional

Probab=99.77  E-value=3.3e-19  Score=196.96  Aligned_cols=77  Identities=34%  Similarity=0.596  Sum_probs=74.9

Q ss_pred             CCcccccCCHHHHhhhCCCCccHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhccCccChhhHHHHHHccCC
Q 017932          252 GFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIW  328 (363)
Q Consensus       252 g~~~~~~LS~~La~flG~~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD~kLk~LFg~d~i~~~~i~klL~~Hl~  328 (363)
                      .|..++.|||+|+.|||..++||++|+++||+|||.||||||.|+|.|+||++|+.|||+++|.||+|+++|++||.
T Consensus       911 ~~~~~~~ls~~La~~lg~~~~~r~~v~~~lW~YIK~~~Lqdp~~k~~i~cD~~L~~vfg~~~~~~~~~~~~l~~hl~  987 (987)
T PRK14724        911 PPAAGLKPSAALAAVIGAEPVARPEVIKKLWDYIKANNLQDPADKRAINADAKLRPVFGKDQVTMFELAGIVGKHLS  987 (987)
T ss_pred             ccccccCCCHHHHHHhCCCcCCHHHHHHHHHHHHHHccCCCcccCCeeccchHHHHHhCCCcccHHHHHHHHHHhcC
Confidence            47789999999999999999999999999999999999999999999999999999999999999999999999984

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

Probab=99.75  E-value=9.8e-19  Score=174.21  Aligned_cols=95  Identities=34%  Similarity=0.553  Sum_probs=87.1

Q ss_pred             cccccccCCCC-----------CCccccCcHHHHhhhCCCCccHHHHHHHHHHHHHHcCCCCCCCCCcccCChhHhhhhc
Q 017932           98 GRQVKRRGGGG-----------FNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFG  166 (363)
Q Consensus        98 ~~~~k~k~~~g-----------~~k~~~LSp~La~~lG~~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cDe~Lk~lF~  166 (363)
                      |+++||.+.-.           .+..|+|||.|+.+||..+.||+.||.+||.||+.|+||||+++.+|+||..|+++||
T Consensus       183 Gf~VKR~Gd~~v~ctIll~l~~~P~~fklsp~La~lLGi~t~Trp~iI~alWqYIk~n~Lqd~~e~~~incD~~l~qif~  262 (420)
T KOG2570|consen  183 GFQVKRPGDRNVRCTILLLLDYQPEEFKLSPRLANLLGIHTGTRPDIVTALWQYIKTNKLQDPEDSDFINCDKALEQIFG  262 (420)
T ss_pred             ceeeeccCCCccceEEEEeeccCCcccccCHHHHHHhhhccCcchHHHHHHHHHHHHhccCCcccchhhcchHHHHHhhc
Confidence            78887765432           2234689999999999999999999999999999999999999999999999999999


Q ss_pred             CCccChhhHHHHHhccCCCCCCCCcc
Q 017932          167 VNSIDMFKMNRALSKHIWPLGAEDEN  192 (363)
Q Consensus       167 ~d~i~~~~m~k~L~~Hl~p~~p~~~~  192 (363)
                      ++++.|..|+.+|++||.|++||.++
T Consensus       263 ~~rl~F~elp~~l~~lL~P~dPIvi~  288 (420)
T KOG2570|consen  263 VDRLKFPELPQLLNPLLSPPDPIVID  288 (420)
T ss_pred             ccccccccchhhhhhccCCCCCeeec
Confidence            99999999999999999999999995

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

Probab=99.69  E-value=1.5e-17  Score=165.88  Aligned_cols=85  Identities=29%  Similarity=0.535  Sum_probs=81.7

Q ss_pred             CCcccccCCHHHHhhhCCCCccHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhccCccChhhHHHHHHccCCCCC
Q 017932          252 GFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPLD  331 (363)
Q Consensus       252 g~~~~~~LS~~La~flG~~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD~kLk~LFg~d~i~~~~i~klL~~Hl~p~~  331 (363)
                      +-+..|+|||.||.+||+..-||++||.+||.|||.|+||||.++.+|.||..|+++||++++.|..|+.+|++||.|++
T Consensus       204 ~~P~~fklsp~La~lLGi~t~Trp~iI~alWqYIk~n~Lqd~~e~~~incD~~l~qif~~~rl~F~elp~~l~~lL~P~d  283 (420)
T KOG2570|consen  204 YQPEEFKLSPRLANLLGIHTGTRPDIVTALWQYIKTNKLQDPEDSDFINCDKALEQIFGVDRLKFPELPQLLNPLLSPPD  283 (420)
T ss_pred             cCCcccccCHHHHHHhhhccCcchHHHHHHHHHHHHhccCCcccchhhcchHHHHHhhcccccccccchhhhhhccCCCC
Confidence            34556899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccchh
Q 017932          332 EADAK  336 (363)
Q Consensus       332 pi~~~  336 (363)
                      ||.++
T Consensus       284 PIvi~  288 (420)
T KOG2570|consen  284 PIVID  288 (420)
T ss_pred             Ceeec
Confidence            99997

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

Probab=99.51  E-value=2.4e-14  Score=106.41  Aligned_cols=54  Identities=52%  Similarity=0.781  Sum_probs=45.7

Q ss_pred             ChhHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHhCCCChhhHHHHHHHHHHHHh
Q 017932            3 SDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQ   56 (363)
Q Consensus         3 sd~ei~~~I~~IL~~sDl~tvT~k~VR~~LE~~~gvDLs~kK~~I~~~I~~~l~   56 (363)
                      ||++|...|++||+++||+++|.++||++|++.||+||+++|+||+++|+.||.
T Consensus         1 td~~i~~~i~~iL~~~dl~~vT~k~vr~~Le~~~~~dL~~~K~~I~~~I~~~l~   54 (54)
T PF08766_consen    1 TDEEIREAIREILREADLDTVTKKQVREQLEERFGVDLSSRKKFIKELIDEFLS   54 (54)
T ss_dssp             -HHHHHHHHHHHHTTS-GGG--HHHHHHHHHHH-SS--SHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHhHhhHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhC
Confidence            799999999999999999999999999999999999999999999999999874

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=99.34  E-value=7.1e-13  Score=145.49  Aligned_cols=73  Identities=42%  Similarity=0.732  Sum_probs=70.6

Q ss_pred             cccCcHHHHhhhCCCCccHHHHHHHHHHHHHHcCCCCCCCCCcccCChhHhhhhcCCccChhhHHHHHhccCC
Q 017932          112 LCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHIW  184 (363)
Q Consensus       112 ~~~LSp~La~~lG~~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cDe~Lk~lF~~d~i~~~~m~k~L~~Hl~  184 (363)
                      .|.+|+.|+.++|...++|+++++.||+||+.|+||||.|+|.|+||++|+.|||++.+.||.|+++|++||.
T Consensus       787 ~~~~S~~La~~~g~~~~sr~~~~~~lw~yIk~~~lqdp~~Kr~i~~d~kl~kvf~~~~~~~~~~~k~l~~hl~  859 (860)
T PRK06319        787 LYTPSPALAAMIGAEPVGRGEATKKVWDYIKEHGLQSPENKKLIIPDSKLQGVIGPDPIDMFQLSKKLSQHLI  859 (860)
T ss_pred             ccccccccccccCcCccCchHHHHHHHHHHHHhcccCccccccCCCchhhhhhhCcCccchhhhHHHHHhhhc
Confidence            4669999999999999999999999999999999999999999999999999999999999999999999985

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

Probab=99.34  E-value=7.9e-13  Score=145.12  Aligned_cols=75  Identities=39%  Similarity=0.690  Sum_probs=72.1

Q ss_pred             cccccCCHHHHhhhCCCCccHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhccCccChhhHHHHHHccCC
Q 017932          254 TKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIW  328 (363)
Q Consensus       254 ~~~~~LS~~La~flG~~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD~kLk~LFg~d~i~~~~i~klL~~Hl~  328 (363)
                      ..+|.+|+.|+.|+|..+++|+++++.||+||+.|+||||.|++.|+||++|+.+||++.+.||.|+++|++||.
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            345889999999999999999999999999999999999999999999999999999999999999999999985

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

Probab=98.34  E-value=6.7e-07  Score=91.46  Aligned_cols=59  Identities=27%  Similarity=0.510  Sum_probs=56.3

Q ss_pred             CCChhHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHhCCCChhhHHHHHHHHHHHHhhhh
Q 017932            1 MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDRKAFVSEQIDLFLQTLE   59 (363)
Q Consensus         1 mvsd~ei~~~I~~IL~~sDl~tvT~k~VR~~LE~~~gvDLs~kK~~I~~~I~~~l~~~~   59 (363)
                      .|||++|...|..||..+||+++|.+.|-++|-+.|++||+++|.||..+|...|..+.
T Consensus       519 ePTdeelk~~V~kILk~vdfntaTm~dIlKkl~~~f~~dLt~rK~~IK~~Ike~I~~~~  577 (594)
T KOG2266|consen  519 EPTDEELKEVVKKILKEVDFNTATMKDILKKLYAKFPIDLTHRKDFIKDTIKELINKMA  577 (594)
T ss_pred             CCcHHHHHHHHHHHHHhcCcchhhHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHhc
Confidence            39999999999999999999999999999999999999999999999999999988663

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	363
1v31_A	93	Solution Structure Of The SwibMDM2 DOMAIN OF THE Hy		1e-06
1v31_A	93	Solution Structure Of The SwibMDM2 DOMAIN OF THE Hy		8e-04
1uhr_A	93	Solution Structure Of The Swib Domain Of Mouse Brg1		3e-06
1v32_A	101	Solution Structure Of The SwibMDM2 DOMAIN OF THE Hy		2e-04

>pdb|1V31|A Chain A, Solution Structure Of The SwibMDM2 DOMAIN OF THE Hypothetical Protein At5g14170 From Arabidopsis Thaliana Length = 93

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 38/69 (55%)
Query: 115 LSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFK 174
           LST L  V+G     R  ++  +W Y+K  KLQ+PN+     CD +LQ +FG   +    
Sbjct: 14  LSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQKVFGEEKLKFTM 73
Query: 175 MNRALSKHI 183
           +++ +S H+
Sbjct: 74  VSQKISHHL 82

>pdb|1V31|A Chain A, Solution Structure Of The SwibMDM2 DOMAIN OF THE Hypothetical Protein At5g14170 From Arabidopsis Thaliana Length = 93

Iteration: 1
 Score = 41.2 bits (95), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 17/69 (24%), Positives = 35/69 (50%)
Query: 259 LSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQ 318
           LS  L   +G+    R  ++  +W Y++ + LQ+P +     CD ALQ +F    +    
Sbjct: 14  LSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQKVFGEEKLKFTM 73
Query: 319 MNKALTRHI 327
           +++ ++ H+
Sbjct: 74  VSQKISHHL 82

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 36/71 (50%)
Query: 259 LSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQ 318
           L P L   +G+    R  +++ LW YI+   LQDP  R  ++CD+ LQ +F    +   +
Sbjct: 14  LDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIFESQRMKFSE 73
Query: 319 MNKALTRHIWP 329
           + + L   + P
Sbjct: 74  IPQRLHALLMP 84

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/55 (38%), Positives = 33/55 (60%)
Query: 128 LARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKH 182
           ++R +V   +  YI +  L DP+NK+K++CD+ L  LFG  +I   K+   L 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	363
1v31_A	93	Hypothetical protein RAFL11-05-P19; SWI/SNF comple	9e-34
1v31_A	93	Hypothetical protein RAFL11-05-P19; SWI/SNF comple	3e-33
1uhr_A	93	SWI/SNF related, matrix associated, actin dependen	6e-33
1uhr_A	93	SWI/SNF related, matrix associated, actin dependen	8e-33
1v32_A	101	AT5G08430, hypothetical protein RAFL09-47-K03; SWI	2e-25
1v32_A	101	AT5G08430, hypothetical protein RAFL09-47-K03; SWI	3e-24
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-06
1q1v_A	70	DEK protein; winged-helix motif, DNA binding prote	2e-06
1ycq_A	107	MDM2, MDM2; anti-oncogene, DNA-binding, transcript	8e-06
1ycq_A	107	MDM2, MDM2; anti-oncogene, DNA-binding, transcript	7e-05

>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 (300), Expect = 9e-34
 Identities = 20/91 (21%), Positives = 40/91 (43%)

Query: 247 KKRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQ 306
                G  +   LS  L   +G+    R  ++  +W Y++ + LQ+P +     CD ALQ
Sbjct: 2   SSGSSGVPEKFKLSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQ 61

Query: 307 VLFRVNSINMFQMNKALTRHIWPLDEADAKS 337
            +F    +    +++ ++ H+ P   +   S
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 =  117 bits (296), Expect = 3e-33
 Identities = 26/84 (30%), Positives = 42/84 (50%)

Query: 103 RRGGGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQ 162
             G  G  +   LST L  V+G     R  ++  +W Y+K  KLQ+PN+     CD +LQ
Sbjct: 2   SSGSSGVPEKFKLSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQ 61

Query: 163 ALFGVNSIDMFKMNRALSKHIWPL 186
            +FG   +    +++ +S H+ P 
Sbjct: 62  KVFGEEKLKFTMVSQKISHHLSPP 85

>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 =  117 bits (294), Expect = 6e-33
 Identities = 24/83 (28%), Positives = 42/83 (50%)

Query: 104 RGGGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQA 163
            G  G      L  +L +++G     R  +++ LW YIK +KLQDP+ +  +LCD+ LQ 
Sbjct: 3   SGSSGQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQ 62

Query: 164 LFGVNSIDMFKMNRALSKHIWPL 186
           +F    +   ++ + L   + P 
Sbjct: 63  IFESQRMKFSEIPQRLHALLMPP 85

>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 =  117 bits (294), Expect = 8e-33
 Identities = 23/91 (25%), Positives = 40/91 (43%)

Query: 247 KKRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQ 306
                G      L P L   +G+    R  +++ LW YI+   LQDP  R  ++CD+ LQ
Sbjct: 2   SSGSSGQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQ 61

Query: 307 VLFRVNSINMFQMNKALTRHIWPLDEADAKS 337
            +F    +   ++ + L   + P + +   S
Sbjct: 62  QIFESQRMKFSEIPQRLHALLMPPEPSGPSS 92

>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 = 98.0 bits (244), Expect = 2e-25
 Identities = 20/84 (23%), Positives = 39/84 (46%), Gaps = 6/84 (7%)

Query: 260 SPDLQTFVGV------SELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNS 313
           S  L  F+          ++R +V   +  YI ++ L DP N++ ++CD+ L +LF   +
Sbjct: 17  SRQLIEFLHSLGKDTSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRT 76

Query: 314 INMFQMNKALTRHIWPLDEADAKS 337
           I   ++   L +H     ++   S
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 = 94.5 bits (235), Expect = 3e-24
 Identities = 26/87 (29%), Positives = 40/87 (45%), Gaps = 1/87 (1%)

Query: 106 GGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALF 165
           G G  +L      L K      ++R +V   +  YI +  L DP+NK+K++CD+ L  LF
Sbjct: 14  GWGSRQLIEFLHSLGKDTSE-MISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLF 72

Query: 166 GVNSIDMFKMNRALSKHIWPLGAEDEN 192
           G  +I   K+   L KH         +
Sbjct: 73  GTRTIFRMKVYDLLEKHYKENQDSGPS 99

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 50.2 bits (119), Expect = 7e-07
 Identities = 62/489 (12%), Positives = 115/489 (23%), Gaps = 191/489 (39%)

Query: 32  LEEDFKVDL-----SD--RKAFVSEQID--------------LFLQTLEKEREEIEDDGN 70
            E+ F  +       D  +     E+ID              LF   L K+ E ++    
Sbjct: 25  FEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVE 84

Query: 71  GAVEANAD-----------DKEEEEEESESKREKSIKVG-----RQVKRR---------- 104
             +  N                        +R++            V R           
Sbjct: 85  EVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQAL 144

Query: 105 ------------GGGGFNKLCSLSTQLQKVVGAPELARTEVVKKL------WVYIKE--- 143
                       G  G  K     T +     A ++  +  V+        W+ +K    
Sbjct: 145 LELRPAKNVLIDGVLGSGK-----TWV-----ALDVCLSYKVQCKMDFKIFWLNLKNCNS 194

Query: 144 -----NKLQ------DPNNKRKILCDESLQALFGVNSI-----DMFKM---NRAL----- 179
                  LQ      DPN       D S      ++SI      + K       L     
Sbjct: 195 PETVLEMLQKLLYQIDPNWT--SRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN 252

Query: 180 --SKHIWPLGAEDENVKQKI-------GVEDFKNSEEEEEKEQEQEQEHEEEEEEEE--- 227
             +   W       N+  KI        V DF ++        +        +E +    
Sbjct: 253 VQNAKAW----NAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL 308

Query: 228 ----TSIEQQSKENRST---------KADKDVKKRRGGFTK-------------LCSLSP 261
                  +   +E  +T         ++ +D       +               L  L P
Sbjct: 309 KYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEP 368

Query: 262 --------DLQTF---VGVSELARTEVVKKLWAYIRE------------KNL--QDPKNR 296
                    L  F     +       ++  +W  + +             +L  + PK  
Sbjct: 369 AEYRKMFDRLSVFPPSAHIPT----ILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES 424

Query: 297 RNIICDEALQVLFRVNSINMFQMNKALTRHIWPLDEADAKSKEKE--------------K 342
              I    + +  +V   N + +++++  H       D+                    K
Sbjct: 425 TISIPS--IYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLK 482

Query: 343 QCEQVEEDE 351
             E  E   
Sbjct: 483 NIEHPERMT 491

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 47.9 bits (113), Expect = 4e-06
 Identities = 61/408 (14%), Positives = 129/408 (31%), Gaps = 114/408 (27%)

Query: 6   DLVTRLRDILRNSDLDTATAGSVRRLLEEDFKVDLSDR---KAFVSEQIDLFLQTLEKER 62
            +   LR +L++   +         LL      ++ +     AF     +L  + L   R
Sbjct: 229 SIQAELRRLLKSKPYENC-------LLVLL---NVQNAKAWNAF-----NLSCKILLTTR 273

Query: 63  E-EIEDDGNGAVEANADDKEE----EEEESESKREKSIKVGRQVKRRGGGGFNKLCSLST 117
             ++ D  + A   +            +E +S   K +    Q   R      ++ + + 
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR------EVLTTNP 327

Query: 118 QLQKVVGA---PELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFK 174
           +   ++       LA  +     W ++  +KL        I  + SL  L      +  K
Sbjct: 328 RRLSIIAESIRDGLATWD----NWKHVNCDKL-----TTII--ESSLNVL---EPAEYRK 373

Query: 175 MNRALSKHIWPLGAEDENVKQKIGVEDFKNSEEEEEKEQEQEQEHEEEEEEEETSIEQQS 234
           M   LS  ++P      ++   +    + +  + +             +  + + +E+Q 
Sbjct: 374 MFDRLS--VFP---PSAHIPTILLSLIWFDVIKSDV-------MVVVNKLHKYSLVEKQP 421

Query: 235 KENRST----------KADKDVKKRR------GGFTKLCS--LSPDLQ-----TFVG--- 268
           KE+  +          K + +    R             S  L P        + +G   
Sbjct: 422 KESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHL 481

Query: 269 -VSELA-RTEVVKKLW---AYIREK----------------NLQDPKNRRNIICDEALQV 307
              E   R  + + ++    ++ +K                 LQ  K  +  ICD   + 
Sbjct: 482 KNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKY 541

Query: 308 LFRVNSINMF--QMNKALTR-------HIWPLDEADAKSKEKEKQCEQ 346
              VN+I  F  ++ + L          I  + E +A  +E  KQ ++
Sbjct: 542 ERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQR 589

>1q1v_A DEK protein; winged-helix motif, DNA binding protein; NMR {Homo sapiens} SCOP: a.159.4.1 Length = 70

 Score = 44.5 bits (105), Expect = 2e-06
 Identities = 11/54 (20%), Positives = 30/54 (55%), Gaps = 1/54 (1%)

Query: 3  SDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDF-KVDLSDRKAFVSEQIDLFL 55
          +D +L   ++ +L +++L+  T   + + + E++   DL++RK F+   +   +
Sbjct: 13 TDEELKETIKKLLASANLEEVTMKQICKKVYENYPTYDLTERKDFIKTTVKELI 66

>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 = 43.4 bits (101), Expect = 8e-06
 Identities = 20/82 (24%), Positives = 35/82 (42%), Gaps = 6/82 (7%)

Query: 115 LSTQLQKVVGAPE--LARTEVVKKLWVYIKENKLQDPNNKRKILC-DESLQALFGVNSID 171
           L   L K  GA +      EV+  L  YI   +L D   +  + C ++ L  LFGV    
Sbjct: 17  LLLSLLKSAGAQKETFTMKEVIYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQEFS 76

Query: 172 MFKMNR---ALSKHIWPLGAED 190
           + +  R    +S+++     ++
Sbjct: 77  VKEPRRLYAMISRNLVSANVKE 98

>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 = 40.7 bits (94), Expect = 7e-05
 Identities = 15/70 (21%), Positives = 31/70 (44%), Gaps = 4/70 (5%)

Query: 270 SELARTEVVKKLWAYIREKNLQDPKNRRNIIC-DEALQVLFRVNSINMFQMNK---ALTR 325
                 EV+  L  YI  K L D K +  + C ++ L  LF V   ++ +  +    ++R
Sbjct: 30  ETFTMKEVIYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQEFSVKEPRRLYAMISR 89

Query: 326 HIWPLDEADA 335
           ++   +  ++
Sbjct: 90  NLVSANVKES 99

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	363
1v31_A	93	Hypothetical protein RAFL11-05-P19; SWI/SNF comple	99.96
1v31_A	93	Hypothetical protein RAFL11-05-P19; SWI/SNF comple	99.96
1uhr_A	93	SWI/SNF related, matrix associated, actin dependen	99.95
1uhr_A	93	SWI/SNF related, matrix associated, actin dependen	99.95
1v32_A	101	AT5G08430, hypothetical protein RAFL09-47-K03; SWI	99.92
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	97.25
3fea_A	100	MDM4 protein; HDMX, HDM4,human MDM4, human MDMX, p	97.0
1z1m_A	119	Ubiquitin-protein ligase E3 MDM2; peptide-binding	96.88
2z5s_M	140	MDM4 protein, zebrafish MDMX; MDMX, MDM4, acetylat	96.86
1ycq_A	107	MDM2, MDM2; anti-oncogene, DNA-binding, transcript	96.83
3dac_M	130	MDM4 protein; MDMX, MDM4, HDMX, HDM4, MDM-4, MDM-X	96.66
2axi_A	115	Ubiquitin-protein ligase E3 MDM2; drug design, pro	96.39
3fea_A	100	MDM4 protein; HDMX, HDM4,human MDM4, human MDMX, p	96.27
1z1m_A	119	Ubiquitin-protein ligase E3 MDM2; peptide-binding	96.26
2z5s_M	140	MDM4 protein, zebrafish MDMX; MDMX, MDM4, acetylat	95.93
1ycq_A	107	MDM2, MDM2; anti-oncogene, DNA-binding, transcript	95.91
2axi_A	115	Ubiquitin-protein ligase E3 MDM2; drug design, pro	95.37

>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=99.96  E-value=1.2e-29  Score=207.26  Aligned_cols=89  Identities=22%  Similarity=0.499  Sum_probs=85.0

Q ss_pred             CCCCCcccccCCHHHHhhhCCCCccHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhccCccChhhHHHHHHccCC
Q 017932          249 RRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIW  328 (363)
Q Consensus       249 ~~~g~~~~~~LS~~La~flG~~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD~kLk~LFg~d~i~~~~i~klL~~Hl~  328 (363)
                      +..+++.+|.||++||+|||..++||++|+++||+|||.||||||.||+.|+||++|+.|||+++|.||+|+++|++||.
T Consensus         4 ~~~~~p~~~~lS~~La~~lG~~~~sr~evvk~lW~YIK~n~Lqdp~~k~~I~cD~~L~~lfg~~~v~~~~~~klL~~Hl~   83 (93)
T 1v31_A            4 GSSGVPEKFKLSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQKVFGEEKLKFTMVSQKISHHLS   83 (93)
T ss_dssp             SCCSSCCCEECCHHHHHHSCCSEECSHHHHHHHHHHHHHTTCBCSSCSSEEECCSHHHHHSCSSEEETTTTHHHHHHHCB
T ss_pred             CCCCCCCccccCHHHHHHHCCCccCHHHHHHHHHHHHHHccCcCcccCceeehhHHHHHHhCCCcccHHHHHHHHHHhcC
Confidence            34568899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCccchhh
Q 017932          329 PLDEADAKS  337 (363)
Q Consensus       329 p~~pi~~~~  337 (363)
                      |++||.+.+
T Consensus        84 p~~Pi~~~~   92 (93)
T 1v31_A           84 PPPPSGPSS   92 (93)
T ss_dssp             CCCCSSCCC
T ss_pred             CCCCeeCCC
Confidence            999998753

>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=99.96  E-value=1.4e-29  Score=206.72  Aligned_cols=86  Identities=29%  Similarity=0.549  Sum_probs=82.9

Q ss_pred             CCCCccccCcHHHHhhhCCCCccHHHHHHHHHHHHHHcCCCCCCCCCcccCChhHhhhhcCCccChhhHHHHHhccCCCC
Q 017932          107 GGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHIWPL  186 (363)
Q Consensus       107 ~g~~k~~~LSp~La~~lG~~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cDe~Lk~lF~~d~i~~~~m~k~L~~Hl~p~  186 (363)
                      .+++.+|.|||+||+|||..++||++||++||+|||.||||||+|||.|+||++|+.|||+++|.||+|+++|++||.|+
T Consensus         6 ~~~p~~~~lS~~La~~lG~~~~sr~evvk~lW~YIK~n~Lqdp~~k~~I~cD~~L~~lfg~~~v~~~~~~klL~~Hl~p~   85 (93)
T 1v31_A            6 SGVPEKFKLSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQKVFGEEKLKFTMVSQKISHHLSPP   85 (93)
T ss_dssp             CSSCCCEECCHHHHHHSCCSEECSHHHHHHHHHHHHHTTCBCSSCSSEEECCSHHHHHSCSSEEETTTTHHHHHHHCBCC
T ss_pred             CCCCCccccCHHHHHHHCCCccCHHHHHHHHHHHHHHccCcCcccCceeehhHHHHHHhCCCcccHHHHHHHHHHhcCCC
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCcc
Q 017932          187 GAEDEN  192 (363)
Q Consensus       187 ~p~~~~  192 (363)
                      +|+.+.
T Consensus        86 ~Pi~~~   91 (93)
T 1v31_A           86 PPSGPS   91 (93)
T ss_dssp             CCSSCC
T ss_pred             CCeeCC
Confidence            999874

>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=99.95  E-value=5.1e-29  Score=203.46  Aligned_cols=86  Identities=27%  Similarity=0.589  Sum_probs=82.7

Q ss_pred             CCcccccCCHHHHhhhCCCCccHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhccCccChhhHHHHHHccCCCCC
Q 017932          252 GFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPLD  331 (363)
Q Consensus       252 g~~~~~~LS~~La~flG~~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD~kLk~LFg~d~i~~~~i~klL~~Hl~p~~  331 (363)
                      ..+.+|.||++||+|+|..++||++|+++||+|||.||||||.||+.|+||++|+.|||+++|.||+|+++|++||.|++
T Consensus         7 ~~p~~~~lS~~La~~lG~~~~sr~evvk~lW~YIK~n~Lqdp~~k~~I~cD~~Lk~lfg~~~v~~~~~~klL~~Hl~p~~   86 (93)
T 1uhr_A            7 GQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIFESQRMKFSEIPQRLHALLMPPE   86 (93)
T ss_dssp             SSCCEEEECTTHHHHTCCSEEEHHHHHHHHHHHHHHTTCBCSSCSSEECCCTTHHHHTCCSSEEGGGSHHHHHHHEECSS
T ss_pred             cCCCccCcCHHHHHHHCCCccCHHHHHHHHHHHHHhccCCCccccceeechHHHHHHhCCCcccHHHHHHHHHHhcCCCC
Confidence            35679999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccchhh
Q 017932          332 EADAKS  337 (363)
Q Consensus       332 pi~~~~  337 (363)
                      ||.+.+
T Consensus        87 PI~i~~   92 (93)
T 1uhr_A           87 PSGPSS   92 (93)
T ss_dssp             CCCSSC
T ss_pred             CeeCCC
Confidence            998864

>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=99.95  E-value=5.4e-29  Score=203.31  Aligned_cols=84  Identities=26%  Similarity=0.526  Sum_probs=80.9

Q ss_pred             CCccccCcHHHHhhhCCCCccHHHHHHHHHHHHHHcCCCCCCCCCcccCChhHhhhhcCCccChhhHHHHHhccCCCCCC
Q 017932          109 FNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHIWPLGA  188 (363)
Q Consensus       109 ~~k~~~LSp~La~~lG~~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cDe~Lk~lF~~d~i~~~~m~k~L~~Hl~p~~p  188 (363)
                      .+.+|.|||+||+|||..++||++||++||+|||.||||||.|||.|+||++|+.|||+++|.||+|+++|++||.|++|
T Consensus         8 ~p~~~~lS~~La~~lG~~~~sr~evvk~lW~YIK~n~Lqdp~~k~~I~cD~~Lk~lfg~~~v~~~~~~klL~~Hl~p~~P   87 (93)
T 1uhr_A            8 QPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIFESQRMKFSEIPQRLHALLMPPEP   87 (93)
T ss_dssp             SCCEEEECTTHHHHTCCSEEEHHHHHHHHHHHHHHTTCBCSSCSSEECCCTTHHHHTCCSSEEGGGSHHHHHHHEECSSC
T ss_pred             CCCccCcCHHHHHHHCCCccCHHHHHHHHHHHHHhccCCCccccceeechHHHHHHhCCCcccHHHHHHHHHHhcCCCCC
Confidence            34579999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcc
Q 017932          189 EDEN  192 (363)
Q Consensus       189 ~~~~  192 (363)
                      +.+.
T Consensus        88 I~i~   91 (93)
T 1uhr_A           88 SGPS   91 (93)
T ss_dssp             CCSS
T ss_pred             eeCC
Confidence            9874

>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=8.1e-26  Score=187.09  Aligned_cols=74  Identities=34%  Similarity=0.478  Sum_probs=70.7

Q ss_pred             cCcHHHHhhh---CC---CCccHHHHHHHHHHHHHHcCCCCCCCCCcccCChhHhhhhcCCccChhhHHHHHhccCCCCC
Q 017932          114 SLSTQLQKVV---GA---PELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHIWPLG  187 (363)
Q Consensus       114 ~LSp~La~~l---G~---~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cDe~Lk~lF~~d~i~~~~m~k~L~~Hl~p~~  187 (363)
                      .+||+|++||   |.   .++||++||++||+|||+||||||.|||.|+||++|+.|||+++|+||+|+++|++||.+..
T Consensus        15 w~S~eLa~fl~~iG~~~~~~~sR~eVvk~lW~YIK~nnLQdp~~Kr~I~cD~kLk~lFg~~~v~~~~m~klL~~Hl~~~~   94 (101)
T 1v32_A           15 WGSRQLIEFLHSLGKDTSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKHYKENQ   94 (101)
T ss_dssp             SSCHHHHHHHHHHTCCCSSCCCHHHHHHHHHHHHHHHTCBCSSCTTEEECCSHHHHHTCCSEEETTHHHHHHHHHSCSCC
T ss_pred             cCCHHHHHHHHHcCCCCccccCHHHHHHHHHHHHHhhcCcCcccCCeeeccHHHHHHHCCCcccHHHHHHHHHHHcCccc
Confidence            5899999999   98   57999999999999999999999999999999999999999999999999999999998753

>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=1.7e-25  Score=185.08  Aligned_cols=76  Identities=26%  Similarity=0.467  Sum_probs=72.0

Q ss_pred             ccCCHHHHhhh---CC---CCccHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhccCccChhhHHHHHHccCCCC
Q 017932          257 CSLSPDLQTFV---GV---SELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPL  330 (363)
Q Consensus       257 ~~LS~~La~fl---G~---~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD~kLk~LFg~d~i~~~~i~klL~~Hl~p~  330 (363)
                      -.+|++||+||   |.   .++||++|+++||+|||.||||||.|||.|+||++|+.|||+++|.||+|+++|++||.+.
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   88   5799999999999999999999999999999999999999999999999999999999986


Q ss_pred             Cc
Q 017932          331 DE  332 (363)
Q Consensus       331 ~p  332 (363)
                      +.
T Consensus        94 ~e   95 (101)
T 1v32_A           94 QD   95 (101)
T ss_dssp             CC
T ss_pred             cc
Confidence            53

>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=123.35  Aligned_cols=56  Identities=20%  Similarity=0.464  Sum_probs=55.0

Q ss_pred             CCChhHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHh-CCCChhhHHHHHHHHHHHHh
Q 017932            1 MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDF-KVDLSDRKAFVSEQIDLFLQ   56 (363)
Q Consensus         1 mvsd~ei~~~I~~IL~~sDl~tvT~k~VR~~LE~~~-gvDLs~kK~~I~~~I~~~l~   56 (363)
                      ||||++|...|++||++|||++||.|+||++|++.| |+||+++|+||+.+|+.||+
T Consensus        11 ~Psd~ei~~~I~~IL~~aDL~tvT~K~VR~~Le~~~pg~dLs~kK~~I~~~I~~~L~   67 (70)
T 1q1v_A           11 PPTDEELKETIKKLLASANLEEVTMKQICKKVYENYPTYDLTERKDFIKTTVKELIS   67 (70)
T ss_dssp             CCCHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHCSSSCCSHHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHhCCHHHHhHHHHHHHHHHHccCCCChHHHHHHHHHHHHHHh
Confidence            799999999999999999999999999999999999 99999999999999999996

>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=97.25  E-value=0.00023  Score=60.53  Aligned_cols=81  Identities=25%  Similarity=0.360  Sum_probs=66.4

Q ss_pred             cccCCHHHHhhh---CC--CCccHHHHHHHHHHHHhhcCCCCCCCCCccccc-hhhhhhhccCccChhh---HHHHHHcc
Q 017932          256 LCSLSPDLQTFV---GV--SELARTEVVKKLWAYIREKNLQDPKNRRNIICD-EALQVLFRVNSINMFQ---MNKALTRH  326 (363)
Q Consensus       256 ~~~LS~~La~fl---G~--~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD-~kLk~LFg~d~i~~~~---i~klL~~H  326 (363)
                      .++--+.|-.||   |.  ...|..+|+..+=+||-.+.|.||.+..+|.|- +.|..+||+++|++.+   +..+|.++
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            344556777776   54  489999999999999999999999999999996 8899999999999998   99999999


Q ss_pred             CCCCCccchh
Q 017932          327 IWPLDEADAK  336 (363)
Q Consensus       327 l~p~~pi~~~  336 (363)
                      |.++..-+.+
T Consensus       104 Lv~~~~~~a~  113 (130)
T 3dac_M          104 LVILNNSDAA  113 (130)
T ss_dssp             EEEC------
T ss_pred             eecccCcchH
Confidence            9998755544

>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=97.00  E-value=0.00042  Score=56.64  Aligned_cols=75  Identities=21%  Similarity=0.308  Sum_probs=63.6

Q ss_pred             ccCCHHHHhhh---CC--CCccHHHHHHHHHHHHhhcCCCCCCCCCccccc-hhhhhhhccCccChh---hHHHHHHccC
Q 017932          257 CSLSPDLQTFV---GV--SELARTEVVKKLWAYIREKNLQDPKNRRNIICD-EALQVLFRVNSINMF---QMNKALTRHI  327 (363)
Q Consensus       257 ~~LS~~La~fl---G~--~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD-~kLk~LFg~d~i~~~---~i~klL~~Hl  327 (363)
                      ++--+.|-.+|   |.  +..|..+|+..+=+||-.+.|.||.+..+|.|. +.|..+||+++|++.   .+..+|.+||
T Consensus        16 Vrpk~~lL~iLq~aGA~~d~fT~keVm~YLgqYI~~KqLyd~~~qhiV~C~~D~LG~l~G~~sFsvkdp~~l~~ml~~nL   95 (100)
T 3fea_A           16 VRPKLPLLKILHAAGAQGEMFTVKEVMHYLGQYIMVKQLYDQQEQHMVYCGGDLLGELLGRQSFSVKDPSPLYDMLRKNL   95 (100)
T ss_dssp             BEECHHHHHHHHHTTCCSSCBCHHHHHHHHHHHHHHTTCEETTEEEEEECTTSHHHHHHTCSEEETTCCHHHHHHHHHHE
T ss_pred             cCCcHHHHHHHHHhccCcceeehHHHHHHHHHhhhhhhccCccccceEEeCCCccccccCCcceeecCchHHHHHHHhhc
Confidence            44456777776   54  489999999999999999999999999999996 889999999999998   7888999988


Q ss_pred             CCCC
Q 017932          328 WPLD  331 (363)
Q Consensus       328 ~p~~  331 (363)
                      ..+.
T Consensus        96 v~~~   99 (100)
T 3fea_A           96 VTLA   99 (100)
T ss_dssp             EC--
T ss_pred             eecC
Confidence            7653

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

Probab=96.88  E-value=0.0017  Score=54.50  Aligned_cols=76  Identities=29%  Similarity=0.328  Sum_probs=62.1

Q ss_pred             cccCCHHHHhhh---CC--CCccHHHHHHHHHHHHhhcCCCCCCCCCccccc-hhhhhhhccCccChhhHHHHHHccCCC
Q 017932          256 LCSLSPDLQTFV---GV--SELARTEVVKKLWAYIREKNLQDPKNRRNIICD-EALQVLFRVNSINMFQMNKALTRHIWP  329 (363)
Q Consensus       256 ~~~LS~~La~fl---G~--~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD-~kLk~LFg~d~i~~~~i~klL~~Hl~p  329 (363)
                      .++-.+.|-.||   |.  ...|+-+|+..+-+||-.+.|.|+.+..+|.|. +.|..|||+.+|++-+...+...|..-
T Consensus        27 ~VrPk~~LLkiLq~aGA~~~vfT~keV~~YLgqYIm~KqLyd~~~qhiV~C~~D~LG~l~g~~~Fsvkdp~~l~~ml~~n  106 (119)
T 1z1m_A           27 LVRPKPLLLKLLKSVGAQKDTYTMKEVLFYLGQYIMTKRLYDEKQQHIVYCSNDLLGDLFGVPSFSVKEHRKIYTMIYRN  106 (119)
T ss_dssp             CCCCSTTSHHHHHHHTCCCSCCCTTHHHHHHHHHHHTTTCSCSSSSCEECCTTSHHHHHSCCSCEETTCHHHHHHHHSCS
T ss_pred             cccccHHHHHHHHHhccccceeechheeehhhhhhhHhhhcccccCcEEeeCCcccccccCccceeecCcHHHHHHHHHh
Confidence            455566666666   54  378999999999999999999999999999997 778999999999998777666655544


Q ss_pred             CC
Q 017932          330 LD  331 (363)
Q Consensus       330 ~~  331 (363)
                      +-
T Consensus       107 Lv  108 (119)
T 1z1m_A          107 LV  108 (119)
T ss_dssp             CC
T ss_pred             cc
Confidence            33

>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=96.86  E-value=0.0015  Score=55.90  Aligned_cols=77  Identities=23%  Similarity=0.328  Sum_probs=65.3

Q ss_pred             ccccCCHHHHhhh---CC--CCccHHHHHHHHHHHHhhcCCCCCCCCCccccc-hhhhhhhccCccChhhHH---HHHHc
Q 017932          255 KLCSLSPDLQTFV---GV--SELARTEVVKKLWAYIREKNLQDPKNRRNIICD-EALQVLFRVNSINMFQMN---KALTR  325 (363)
Q Consensus       255 ~~~~LS~~La~fl---G~--~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD-~kLk~LFg~d~i~~~~i~---klL~~  325 (363)
                      ..++--+.|-.||   |.  ...|+-+|+-.|=+||-.+.|.|+.+..+|.|. +.|..||||.+|++-+..   ++|.+
T Consensus        22 ~~VrPk~~LLkiLq~aGA~~~~fT~keVm~YLGqYIm~KqLYD~~~qhiV~C~~D~LG~l~Gv~sFSVKdp~~ly~ML~~  101 (140)
T 2z5s_M           22 TQVHPRAPLLQILKVAGAQEEVFTLKEVMHYLGQYIMMKQLYDKQRQHIVHCHDDPLGELLEVGSFSVKNPSPVYEMLKR  101 (140)
T ss_dssp             CCBEECHHHHHHHHHTTCCCSCBCHHHHHHHHHHHHHHHTCBCSSSTTEEECTTSHHHHHHTSSEEETTBCHHHHHHHHH
T ss_pred             ceecCcHHHHHHHHHhCcccceeeHHHHHHHHHHHHHHhhhcccccCcEEeeCCcccccccCccceeecCcHHHHHHHHH
Confidence            3667778888888   54  389999999999999999999999999999997 788999999999998665   66666


Q ss_pred             cCCCCC
Q 017932          326 HIWPLD  331 (363)
Q Consensus       326 Hl~p~~  331 (363)
                      -|.+..
T Consensus       102 NLv~~~  107 (140)
T 2z5s_M          102 NLVILN  107 (140)
T ss_dssp             HEECC-
T ss_pred             hccccc
Confidence            666665

>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=96.83  E-value=0.0016  Score=53.77  Aligned_cols=75  Identities=25%  Similarity=0.420  Sum_probs=60.6

Q ss_pred             cccCCHHHHhhh---CC--CCccHHHHHHHHHHHHhhcCCCCCCCCCccccc-hhhhhhhccCccChhhHH---HHHHcc
Q 017932          256 LCSLSPDLQTFV---GV--SELARTEVVKKLWAYIREKNLQDPKNRRNIICD-EALQVLFRVNSINMFQMN---KALTRH  326 (363)
Q Consensus       256 ~~~LS~~La~fl---G~--~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD-~kLk~LFg~d~i~~~~i~---klL~~H  326 (363)
                      .++-.+.|-.+|   |.  ...|+.+|+-.+=+||-.+.|.|+.+..+|.|. +.|..||||.+|++-+..   ++|.+.
T Consensus        11 ~VrPk~~LLklL~~~GA~~~~fT~keVm~YLgqYI~~KqLyd~~~qhiV~C~~D~LG~l~g~~~Fsvkdp~~l~~ml~~n   90 (107)
T 1ycq_A           11 LVQPTPLLLSLLKSAGAQKETFTMKEVIYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQEFSVKEPRRLYAMISRN   90 (107)
T ss_dssp             CBEECHHHHHHHHHTTCCCSCBCHHHHHHHHHHHHHHHTCBCSSSTTEEECTTSHHHHHHTCSEEETTCHHHHHHHHHTT
T ss_pred             ccCccHHHHHHHHHhccccceeeehhhhhhHHHHHhHHhhcccccCcEEeeCCcccccccCccceeecCcHHHHHHHHHh
Confidence            344556666776   44  378999999999999999999999999999997 778999999999998777   455554


Q ss_pred             CCCC
Q 017932          327 IWPL  330 (363)
Q Consensus       327 l~p~  330 (363)
                      +.+.
T Consensus        91 Lv~~   94 (107)
T 1ycq_A           91 LVSA   94 (107)
T ss_dssp             EEES
T ss_pred             cccc
Confidence            4443

>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=96.66  E-value=0.0015  Score=55.44  Aligned_cols=74  Identities=23%  Similarity=0.359  Sum_probs=64.0

Q ss_pred             CcHHHHhhh---CC--CCccHHHHHHHHHHHHHHcCCCCCCCCCcccCC-hhHhhhhcCCccChhh---HHHHHhccCCC
Q 017932          115 LSTQLQKVV---GA--PELARTEVVKKLWVYIKENKLQDPNNKRKILCD-ESLQALFGVNSIDMFK---MNRALSKHIWP  185 (363)
Q Consensus       115 LSp~La~~l---G~--~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cD-e~Lk~lF~~d~i~~~~---m~k~L~~Hl~p  185 (363)
                      --|.|-.||   |.  ...|..+|+-.|=+||-.+.|.||.+...|.|- +.|..+||+++|++.+   +...|.++|.+
T Consensus        27 pk~~lL~iLq~aGA~~dvfT~keVm~YLgqYI~~KqLyd~~~qhiV~C~~D~LG~llGv~sFSVkdp~~L~~mL~~NLv~  106 (130)
T 3dac_M           27 PRAPLLQILKVAGAQEEVFTVKEVMHYLGQYIMMKQLYDKQRQHIVHCHDDPLGELLEVGSFSVKNPSPLYEMLKRNLVI  106 (130)
T ss_dssp             ECHHHHHHHHHTTCCCSSEEHHHHHHHHHHHHHHHTCBCSSSTTEEECTTSHHHHHHTSSEEETTSCHHHHHHHHHHEEE
T ss_pred             CcHHHHHHHHHhccCcceeehHHHHHHHHHhhhhhhccCccccceeEeCCcccccccCCcceeecCcHHHHHHHHhheec
Confidence            346676666   64  578999999999999999999999999999996 7899999999999998   99999999988


Q ss_pred             CCC
Q 017932          186 LGA  188 (363)
Q Consensus       186 ~~p  188 (363)
                      +..
T Consensus       107 ~~~  109 (130)
T 3dac_M          107 LNN  109 (130)
T ss_dssp             C--
T ss_pred             ccC
Confidence            763

>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=96.39  E-value=0.0017  Score=54.20  Aligned_cols=72  Identities=29%  Similarity=0.353  Sum_probs=58.8

Q ss_pred             cccCCHHHHhhh---CC--CCccHHHHHHHHHHHHhhcCCCCCCCCCccccc-hhhhhhhccCccChhhHHHHHHccC
Q 017932          256 LCSLSPDLQTFV---GV--SELARTEVVKKLWAYIREKNLQDPKNRRNIICD-EALQVLFRVNSINMFQMNKALTRHI  327 (363)
Q Consensus       256 ~~~LS~~La~fl---G~--~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD-~kLk~LFg~d~i~~~~i~klL~~Hl  327 (363)
                      .++-.+.|-.||   |.  ...|+.+|+-.+=+||-.+.|.||.+..+|.|. +.|..||||.+|++-+...+...+.
T Consensus        11 ~VrPk~~LLklLq~~GA~~~vfT~keVm~YLgqYIm~KqLyd~~~qhiV~C~~D~LG~l~g~~~Fsvkdp~~l~~ml~   88 (115)
T 2axi_A           11 LVRPKPLLLKLLKSVGAQKDTYTMKEVLFYLGQYIMTKRLYDEKQQHIVYCSNDLLGDLFGVPSFSVKEHRKIYTMIY   88 (115)
T ss_dssp             EEEECHHHHHHHHHTTCCCSCEEHHHHHHHHHHHHHHHTCEETTEEEEEECTTSHHHHHHSSSEEETTCHHHHHHHHH
T ss_pred             ccCccHHHHHHHHHhccccceeechhheehhhhhhhHhhhcccccCcEEeeCCcccccccCccceeecCcHHHHHHHH
Confidence            344456666776   44  378999999999999999999999999999997 7789999999999987666555443

>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=96.27  E-value=0.0029  Score=51.72  Aligned_cols=72  Identities=26%  Similarity=0.387  Sum_probs=61.6

Q ss_pred             CcHHHHhhh---CC--CCccHHHHHHHHHHHHHHcCCCCCCCCCcccCC-hhHhhhhcCCccChh---hHHHHHhccCCC
Q 017932          115 LSTQLQKVV---GA--PELARTEVVKKLWVYIKENKLQDPNNKRKILCD-ESLQALFGVNSIDMF---KMNRALSKHIWP  185 (363)
Q Consensus       115 LSp~La~~l---G~--~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cD-e~Lk~lF~~d~i~~~---~m~k~L~~Hl~p  185 (363)
                      --|.|-.+|   |.  ...|..+|+..|=+||-.+.|.||.+...|.|- +.|-.+||+++|++.   .+...|.+||..
T Consensus        18 pk~~lL~iLq~aGA~~d~fT~keVm~YLgqYI~~KqLyd~~~qhiV~C~~D~LG~l~G~~sFsvkdp~~l~~ml~~nLv~   97 (100)
T 3fea_A           18 PKLPLLKILHAAGAQGEMFTVKEVMHYLGQYIMVKQLYDQQEQHMVYCGGDLLGELLGRQSFSVKDPSPLYDMLRKNLVT   97 (100)
T ss_dssp             ECHHHHHHHHHTTCCSSCBCHHHHHHHHHHHHHHTTCEETTEEEEEECTTSHHHHHHTCSEEETTCCHHHHHHHHHHEEC
T ss_pred             CcHHHHHHHHHhccCcceeehHHHHHHHHHhhhhhhccCccccceEEeCCCccccccCCcceeecCchHHHHHHHhhcee
Confidence            346666666   54  578999999999999999999999999999996 788999999999887   888899998866


Q ss_pred             C
Q 017932          186 L  186 (363)
Q Consensus       186 ~  186 (363)
                      +
T Consensus        98 ~   98 (100)
T 3fea_A           98 L   98 (100)
T ss_dssp             -
T ss_pred             c
Confidence            4

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

Probab=96.26  E-value=0.0077  Score=50.52  Aligned_cols=77  Identities=25%  Similarity=0.315  Sum_probs=61.6

Q ss_pred             ccCcHHHHhhh---CC--CCccHHHHHHHHHHHHHHcCCCCCCCCCcccCC-hhHhhhhcCCccChhhHHHHHhccCCCC
Q 017932          113 CSLSTQLQKVV---GA--PELARTEVVKKLWVYIKENKLQDPNNKRKILCD-ESLQALFGVNSIDMFKMNRALSKHIWPL  186 (363)
Q Consensus       113 ~~LSp~La~~l---G~--~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cD-e~Lk~lF~~d~i~~~~m~k~L~~Hl~p~  186 (363)
                      .+..+.|-.||   |.  ...|+.+|+..|=+||-...|.|+.+..+|.|. +.|-.|||+..|++.+-..+...|...+
T Consensus        28 VrPk~~LLkiLq~aGA~~~vfT~keV~~YLgqYIm~KqLyd~~~qhiV~C~~D~LG~l~g~~~Fsvkdp~~l~~ml~~nL  107 (119)
T 1z1m_A           28 VRPKPLLLKLLKSVGAQKDTYTMKEVLFYLGQYIMTKRLYDEKQQHIVYCSNDLLGDLFGVPSFSVKEHRKIYTMIYRNL  107 (119)
T ss_dssp             CCCSTTSHHHHHHHTCCCSCCCTTHHHHHHHHHHHTTTCSCSSSSCEECCTTSHHHHHSCCSCEETTCHHHHHHHHSCSC
T ss_pred             ccccHHHHHHHHHhccccceeechheeehhhhhhhHhhhcccccCcEEeeCCcccccccCccceeecCcHHHHHHHHHhc
Confidence            33445555555   54  568899999999999999999999999999997 7789999999999888777776666555


Q ss_pred             CCC
Q 017932          187 GAE  189 (363)
Q Consensus       187 ~p~  189 (363)
                      -..
T Consensus       108 v~~  110 (119)
T 1z1m_A          108 VVV  110 (119)
T ss_dssp             CCC
T ss_pred             ccc
Confidence            443

>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=95.93  E-value=0.0083  Score=51.32  Aligned_cols=76  Identities=22%  Similarity=0.330  Sum_probs=62.4

Q ss_pred             cccCcHHHHhhh---CC--CCccHHHHHHHHHHHHHHcCCCCCCCCCcccCC-hhHhhhhcCCccChhhHH---HHHhcc
Q 017932          112 LCSLSTQLQKVV---GA--PELARTEVVKKLWVYIKENKLQDPNNKRKILCD-ESLQALFGVNSIDMFKMN---RALSKH  182 (363)
Q Consensus       112 ~~~LSp~La~~l---G~--~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cD-e~Lk~lF~~d~i~~~~m~---k~L~~H  182 (363)
                      .++.-|.|-.||   |.  ...|+.+|+-.|=+||-...|.|+.+..+|.|. +.|-.|||+..|++.+..   +.|.+.
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            455567888887   54  578999999999999999999999999999996 778999999999887655   666666


Q ss_pred             CCCCC
Q 017932          183 IWPLG  187 (363)
Q Consensus       183 l~p~~  187 (363)
                      |.+..
T Consensus       103 Lv~~~  107 (140)
T 2z5s_M          103 LVILN  107 (140)
T ss_dssp             EECC-
T ss_pred             ccccc
Confidence            65554

>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=95.91  E-value=0.0088  Score=49.37  Aligned_cols=73  Identities=25%  Similarity=0.376  Sum_probs=58.3

Q ss_pred             cCcHHHHhhh---CC--CCccHHHHHHHHHHHHHHcCCCCCCCCCcccCC-hhHhhhhcCCccChhhHHHHHhccCCCC
Q 017932          114 SLSTQLQKVV---GA--PELARTEVVKKLWVYIKENKLQDPNNKRKILCD-ESLQALFGVNSIDMFKMNRALSKHIWPL  186 (363)
Q Consensus       114 ~LSp~La~~l---G~--~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cD-e~Lk~lF~~d~i~~~~m~k~L~~Hl~p~  186 (363)
                      +-.+.|-.+|   |.  ...|+.+|+..|=+||-...|.|+.+...|.|. |.|-.+||+..|++.+...+...|...+
T Consensus        13 rPk~~LLklL~~~GA~~~~fT~keVm~YLgqYI~~KqLyd~~~qhiV~C~~D~LG~l~g~~~Fsvkdp~~l~~ml~~nL   91 (107)
T 1ycq_A           13 QPTPLLLSLLKSAGAQKETFTMKEVIYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQEFSVKEPRRLYAMISRNL   91 (107)
T ss_dssp             EECHHHHHHHHHTTCCCSCBCHHHHHHHHHHHHHHHTCBCSSSTTEEECTTSHHHHHHTCSEEETTCHHHHHHHHHTTE
T ss_pred             CccHHHHHHHHHhccccceeeehhhhhhHHHHHhHHhhcccccCcEEeeCCcccccccCccceeecCcHHHHHHHHHhc
Confidence            3445666665   54  568999999999999999999999999999997 7789999999998887775544444333

>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=95.37  E-value=0.0076  Score=50.23  Aligned_cols=73  Identities=26%  Similarity=0.355  Sum_probs=58.7

Q ss_pred             cCcHHHHhhh---CC--CCccHHHHHHHHHHHHHHcCCCCCCCCCcccCC-hhHhhhhcCCccChhhHHHHHhccCCCC
Q 017932          114 SLSTQLQKVV---GA--PELARTEVVKKLWVYIKENKLQDPNNKRKILCD-ESLQALFGVNSIDMFKMNRALSKHIWPL  186 (363)
Q Consensus       114 ~LSp~La~~l---G~--~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cD-e~Lk~lF~~d~i~~~~m~k~L~~Hl~p~  186 (363)
                      +-.+.|-.||   |.  ...|+.+|+-.+=+||-...|.|+.+..+|.|. |.|-.|||+..|++.+-..+...+...+
T Consensus        13 rPk~~LLklLq~~GA~~~vfT~keVm~YLgqYIm~KqLyd~~~qhiV~C~~D~LG~l~g~~~Fsvkdp~~l~~ml~~nL   91 (115)
T 2axi_A           13 RPKPLLLKLLKSVGAQKDTYTMKEVLFYLGQYIMTKRLYDEKQQHIVYCSNDLLGDLFGVPSFSVKEHRKIYTMIYRNL   91 (115)
T ss_dssp             EECHHHHHHHHHTTCCCSCEEHHHHHHHHHHHHHHHTCEETTEEEEEECTTSHHHHHHSSSEEETTCHHHHHHHHHTTE
T ss_pred             CccHHHHHHHHHhccccceeechhheehhhhhhhHhhhcccccCcEEeeCCcccccccCccceeecCcHHHHHHHHHhc
Confidence            3455666666   54  568999999999999999999999999999997 7789999999998887666555554443

---

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	363
d1v31a_	93	a.42.1.1 (A:) Hypothetical protein AT5G14170 (rafl	3e-30
d1v31a_	93	a.42.1.1 (A:) Hypothetical protein AT5G14170 (rafl	2e-29
d1uhra_	93	a.42.1.1 (A:) SWI/SNF related regulator of chromat	7e-30
d1uhra_	93	a.42.1.1 (A:) SWI/SNF related regulator of chromat	1e-28
d1v32a_	101	a.42.1.1 (A:) Hypothetical protein AT5G08430 (rafl	5e-22
d1v32a_	101	a.42.1.1 (A:) Hypothetical protein AT5G08430 (rafl	8e-21
d1q1va_	70	a.159.4.1 (A:) DEK C-terminal domain {Human (Homo	2e-10

>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 =  109 bits (273), Expect = 3e-30
 Identities = 20/91 (21%), Positives = 40/91 (43%)

Query: 247 KKRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQ 306
                G  +   LS  L   +G+    R  ++  +W Y++ + LQ+P +     CD ALQ
Sbjct: 2   SSGSSGVPEKFKLSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQ 61

Query: 307 VLFRVNSINMFQMNKALTRHIWPLDEADAKS 337
            +F    +    +++ ++ H+ P   +   S
Sbjct: 62  KVFGEEKLKFTMVSQKISHHLSPPPPSGPSS 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 =  107 bits (268), Expect = 2e-29
 Identities = 26/83 (31%), Positives = 42/83 (50%)

Query: 104 RGGGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQA 163
            G  G  +   LST L  V+G     R  ++  +W Y+K  KLQ+PN+     CD +LQ 
Sbjct: 3   SGSSGVPEKFKLSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQK 62

Query: 164 LFGVNSIDMFKMNRALSKHIWPL 186
           +FG   +    +++ +S H+ P 
Sbjct: 63  VFGEEKLKFTMVSQKISHHLSPP 85

>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 =  107 bits (270), Expect = 7e-30
 Identities = 23/91 (25%), Positives = 40/91 (43%)

Query: 247 KKRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQ 306
                G      L P L   +G+    R  +++ LW YI+   LQDP  R  ++CD+ LQ
Sbjct: 2   SSGSSGQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQ 61

Query: 307 VLFRVNSINMFQMNKALTRHIWPLDEADAKS 337
            +F    +   ++ + L   + P + +   S
Sbjct: 62  QIFESQRMKFSEIPQRLHALLMPPEPSGPSS 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 =  104 bits (262), Expect = 1e-28
 Identities = 24/83 (28%), Positives = 42/83 (50%)

Query: 104 RGGGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQA 163
            G  G      L  +L +++G     R  +++ LW YIK +KLQDP+ +  +LCD+ LQ 
Sbjct: 3   SGSSGQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQ 62

Query: 164 LFGVNSIDMFKMNRALSKHIWPL 186
           +F    +   ++ + L   + P 
Sbjct: 63  IFESQRMKFSEIPQRLHALLMPP 85

>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 = 87.6 bits (217), Expect = 5e-22
 Identities = 20/84 (23%), Positives = 39/84 (46%), Gaps = 6/84 (7%)

Query: 260 SPDLQTFVGV------SELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNS 313
           S  L  F+          ++R +V   +  YI ++ L DP N++ ++CD+ L +LF   +
Sbjct: 17  SRQLIEFLHSLGKDTSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRT 76

Query: 314 INMFQMNKALTRHIWPLDEADAKS 337
           I   ++   L +H     ++   S
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 = 84.1 bits (208), Expect = 8e-21
 Identities = 26/80 (32%), Positives = 39/80 (48%), Gaps = 1/80 (1%)

Query: 106 GGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALF 165
           G G  +L      L K      ++R +V   +  YI +  L DP+NK+K++CD+ L  LF
Sbjct: 14  GWGSRQLIEFLHSLGKDTSE-MISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLF 72

Query: 166 GVNSIDMFKMNRALSKHIWP 185
           G  +I   K+   L KH   
Sbjct: 73  GTRTIFRMKVYDLLEKHYKE 92

>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 = 54.3 bits (131), Expect = 2e-10
 Identities = 11/56 (19%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 1  MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDFK-VDLSDRKAFVSEQIDLFL 55
            +D +L   ++ +L +++L+  T   + + + E++   DL++RK F+   +   +
Sbjct: 11 PPTDEELKETIKKLLASANLEEVTMKQICKKVYENYPTYDLTERKDFIKTTVKELI 66

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	363
d1v31a_	93	Hypothetical protein AT5G14170 (rafl11-05-p19) {Th	99.96
d1v31a_	93	Hypothetical protein AT5G14170 (rafl11-05-p19) {Th	99.96
d1uhra_	93	SWI/SNF related regulator of chromatin (BRG1-assoc	99.95
d1uhra_	93	SWI/SNF related regulator of chromatin (BRG1-assoc	99.95
d1v32a_	101	Hypothetical protein AT5G08430 (rafl09-47-k03) {Th	99.89
d1v32a_	101	Hypothetical protein AT5G08430 (rafl09-47-k03) {Th	99.88
d1q1va_	70	DEK C-terminal domain {Human (Homo sapiens) [TaxId	99.62
d1ttva_	107	MDM2 {African clawed frog (Xenopus laevis) [TaxId:	97.73
d2axia1	85	MDM2 {Human (Homo sapiens) [TaxId: 9606]}	97.63
d1ttva_	107	MDM2 {African clawed frog (Xenopus laevis) [TaxId:	97.55
d2axia1	85	MDM2 {Human (Homo sapiens) [TaxId: 9606]}	97.53

>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=3.2e-30  Score=208.66  Aligned_cols=88  Identities=30%  Similarity=0.559  Sum_probs=85.1

Q ss_pred             cCCCCCCccccCcHHHHhhhCCCCccHHHHHHHHHHHHHHcCCCCCCCCCcccCChhHhhhhcCCccChhhHHHHHhccC
Q 017932          104 RGGGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHI  183 (363)
Q Consensus       104 k~~~g~~k~~~LSp~La~~lG~~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cDe~Lk~lF~~d~i~~~~m~k~L~~Hl  183 (363)
                      ++++||+++|.|||+||+|||..++||++|+++||+||++||||||+|+|.|+||++|+.|||+++|+||+|+++|++||
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            56899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCc
Q 017932          184 WPLGAEDE  191 (363)
Q Consensus       184 ~p~~p~~~  191 (363)
                      .|++|...
T Consensus        83 ~p~~P~~~   90 (93)
T d1v31a_          83 SPPPPSGP   90 (93)
T ss_dssp             BCCCCSSC
T ss_pred             CCCCCCCC
Confidence            99998654

>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=5.5e-30  Score=207.30  Aligned_cols=88  Identities=22%  Similarity=0.496  Sum_probs=84.9

Q ss_pred             cCCCCCcccccCCHHHHhhhCCCCccHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhccCccChhhHHHHHHccC
Q 017932          248 KRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHI  327 (363)
Q Consensus       248 ~~~~g~~~~~~LS~~La~flG~~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD~kLk~LFg~d~i~~~~i~klL~~Hl  327 (363)
                      .+++||+++|.||++||+|||..++||++|+++||+||+.||||||.|++.|+||++|+.|||+++|+|++|+++|++||
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            46789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCccch
Q 017932          328 WPLDEADA  335 (363)
Q Consensus       328 ~p~~pi~~  335 (363)
                      .|++|-..
T Consensus        83 ~p~~P~~~   90 (93)
T d1v31a_          83 SPPPPSGP   90 (93)
T ss_dssp             BCCCCSSC
T ss_pred             CCCCCCCC
Confidence            99998654

>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=99.95  E-value=4.9e-30  Score=207.58  Aligned_cols=87  Identities=25%  Similarity=0.570  Sum_probs=84.2

Q ss_pred             cCCCCCcccccCCHHHHhhhCCCCccHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhccCccChhhHHHHHHccC
Q 017932          248 KRRGGFTKLCSLSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHI  327 (363)
Q Consensus       248 ~~~~g~~~~~~LS~~La~flG~~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD~kLk~LFg~d~i~~~~i~klL~~Hl  327 (363)
                      ++++||+.+|+||++|++|||..++||++|+++||+||+.||||||.|+|.|+||+.|+.|||+++|+|++|+++|++||
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             CCCCccc
Q 017932          328 WPLDEAD  334 (363)
Q Consensus       328 ~p~~pi~  334 (363)
                      .|++|..
T Consensus        83 ~p~eP~~   89 (93)
T d1uhra_          83 MPPEPSG   89 (93)
T ss_dssp             ECSSCCC
T ss_pred             CCCCCCC
Confidence            9999864

>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=99.95  E-value=6.1e-30  Score=207.03  Aligned_cols=88  Identities=27%  Similarity=0.551  Sum_probs=84.4

Q ss_pred             cCCCCCCccccCcHHHHhhhCCCCccHHHHHHHHHHHHHHcCCCCCCCCCcccCChhHhhhhcCCccChhhHHHHHhccC
Q 017932          104 RGGGGFNKLCSLSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHI  183 (363)
Q Consensus       104 k~~~g~~k~~~LSp~La~~lG~~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cDe~Lk~lF~~d~i~~~~m~k~L~~Hl  183 (363)
                      .+.+||+.+|.|||+|++|||..++||++|+++||+||++||||||+|+|+|+||+.|+.|||+++|+||+|+++|++||
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            46799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCc
Q 017932          184 WPLGAEDE  191 (363)
Q Consensus       184 ~p~~p~~~  191 (363)
                      .|++|...
T Consensus        83 ~p~eP~~~   90 (93)
T d1uhra_          83 MPPEPSGP   90 (93)
T ss_dssp             ECSSCCCS
T ss_pred             CCCCCCCC
Confidence            99998543

>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=99.89  E-value=5.6e-24  Score=174.02  Aligned_cols=74  Identities=26%  Similarity=0.467  Sum_probs=69.8

Q ss_pred             CCHHHHhhhC---C---CCccHHHHHHHHHHHHhhcCCCCCCCCCccccchhhhhhhccCccChhhHHHHHHccCCCCCc
Q 017932          259 LSPDLQTFVG---V---SELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRHIWPLDE  332 (363)
Q Consensus       259 LS~~La~flG---~---~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD~kLk~LFg~d~i~~~~i~klL~~Hl~p~~p  332 (363)
                      .|++|++|||   .   ..+||++|++.||+|||+||||||.|+|.|+||++|+.|||+++|+||+|+++|++||.+..+
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            7999999985   3   489999999999999999999999999999999999999999999999999999999988654

>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=9.1e-24  Score=172.75  Aligned_cols=74  Identities=32%  Similarity=0.456  Sum_probs=69.2

Q ss_pred             CcHHHHhhhC---C---CCccHHHHHHHHHHHHHHcCCCCCCCCCcccCChhHhhhhcCCccChhhHHHHHhccCCCCCC
Q 017932          115 LSTQLQKVVG---A---PELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKHIWPLGA  188 (363)
Q Consensus       115 LSp~La~~lG---~---~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cDe~Lk~lF~~d~i~~~~m~k~L~~Hl~p~~p  188 (363)
                      .|++|++|||   .   +.+||++|++.||+|||+||||||.|||.|+||++|+.|||+++|+||+|+++|++||.+-.+
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            5999999984   3   579999999999999999999999999999999999999999999999999999999987544

>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=99.62  E-value=2.7e-16  Score=120.12  Aligned_cols=56  Identities=20%  Similarity=0.464  Sum_probs=54.9

Q ss_pred             CCChhHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHh-CCCChhhHHHHHHHHHHHHh
Q 017932            1 MVSDSDLVTRLRDILRNSDLDTATAGSVRRLLEEDF-KVDLSDRKAFVSEQIDLFLQ   56 (363)
Q Consensus         1 mvsd~ei~~~I~~IL~~sDl~tvT~k~VR~~LE~~~-gvDLs~kK~~I~~~I~~~l~   56 (363)
                      +|||++|...|++||++|||++||.|+||++||+.| |+||+++|.||+.+|+.||.
T Consensus        11 ~ptd~ei~~~i~~IL~~aDL~tvT~K~IR~~LE~~~~g~dL~~rK~~I~~~I~~~Ls   67 (70)
T d1q1va_          11 PPTDEELKETIKKLLASANLEEVTMKQICKKVYENYPTYDLTERKDFIKTTVKELIS   67 (70)
T ss_dssp             CCCHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHCSSSCCSHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHhhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHh
Confidence            699999999999999999999999999999999999 99999999999999999996

>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=97.73  E-value=1.2e-05  Score=63.93  Aligned_cols=77  Identities=26%  Similarity=0.440  Sum_probs=67.0

Q ss_pred             ccccCCHHHHhhh---CC--CCccHHHHHHHHHHHHhhcCCCCCCCCCccccc-hhhhhhhccCccChhh---HHHHHHc
Q 017932          255 KLCSLSPDLQTFV---GV--SELARTEVVKKLWAYIREKNLQDPKNRRNIICD-EALQVLFRVNSINMFQ---MNKALTR  325 (363)
Q Consensus       255 ~~~~LS~~La~fl---G~--~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD-~kLk~LFg~d~i~~~~---i~klL~~  325 (363)
                      ..++..|.|-.+|   |.  +..|.-+|+-.|-+||..++|.|+.+.++|.|- +.|..|||+++|+.-+   +..+|.+
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            4456678888887   54  489999999999999999999999999999995 7799999999999987   6777999


Q ss_pred             cCCCCC
Q 017932          326 HIWPLD  331 (363)
Q Consensus       326 Hl~p~~  331 (363)
                      |+.|..
T Consensus        90 nLv~v~   95 (107)
T d1ttva_          90 NLVSAN   95 (107)
T ss_dssp             TEEEEC
T ss_pred             hhhccc
Confidence            997664

>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=97.63  E-value=1.2e-05  Score=61.70  Aligned_cols=71  Identities=27%  Similarity=0.389  Sum_probs=62.0

Q ss_pred             ccCCHHHHhhh---CC--CCccHHHHHHHHHHHHhhcCCCCCCCCCccccc-hhhhhhhccCccChhh---HHHHHHccC
Q 017932          257 CSLSPDLQTFV---GV--SELARTEVVKKLWAYIREKNLQDPKNRRNIICD-EALQVLFRVNSINMFQ---MNKALTRHI  327 (363)
Q Consensus       257 ~~LS~~La~fl---G~--~~~sR~~vvk~lW~YIK~nnLqDp~nkr~I~cD-~kLk~LFg~d~i~~~~---i~klL~~Hl  327 (363)
                      ++..|.|-.+|   |.  +..|.-+|+-.|-+||..++|.||.+.++|.|- +.|..+||+++|+.-+   +..+|.+||
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            34557777777   44  489999999999999999999999999999995 6799999999999988   888888876

>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=97.55  E-value=3.1e-05  Score=61.60  Aligned_cols=76  Identities=24%  Similarity=0.416  Sum_probs=65.4

Q ss_pred             cccCcHHHHhhh---CC--CCccHHHHHHHHHHHHHHcCCCCCCCCCcccCC-hhHhhhhcCCccChhh---HHHHHhcc
Q 017932          112 LCSLSTQLQKVV---GA--PELARTEVVKKLWVYIKENKLQDPNNKRKILCD-ESLQALFGVNSIDMFK---MNRALSKH  182 (363)
Q Consensus       112 ~~~LSp~La~~l---G~--~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cD-e~Lk~lF~~d~i~~~~---m~k~L~~H  182 (363)
                      .++.-|.|-.+|   |.  +..|.-+|+-.|=+||....|.|+.+.++|.|- |.|-.|||+.+|++.+   +...|.+|
T Consensus        11 lVrPkp~LL~~L~~~GA~~~~fT~keVm~yLgqYIm~K~LyD~~~qhiV~C~~D~LG~llgv~sFsVke~r~l~~ml~rn   90 (107)
T d1ttva_          11 LVQPTPLLLSLLKSAGAQKETFTMKEVLYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQEFSVKEHRRIYAMISRN   90 (107)
T ss_dssp             CEEECHHHHHHHHHTTCCSSCBCHHHHHHHHHHHHHHHTCBCSSCTTEECCSSCHHHHHHTCSCEETTCHHHHHHHHHTT
T ss_pred             ccCCCHHHHHHHHHcCCCcceeeHHHHHHHHHHHHHHHHhcCcccCceEecCCchHHhhcCCCceeecCcHHHHHHHHhh
Confidence            345568888887   54  678999999999999999999999999999995 7799999999998877   77779999


Q ss_pred             CCCCC
Q 017932          183 IWPLG  187 (363)
Q Consensus       183 l~p~~  187 (363)
                      |.|..
T Consensus        91 Lv~v~   95 (107)
T d1ttva_          91 LVSAN   95 (107)
T ss_dssp             EEEEC
T ss_pred             hhccc
Confidence            96654

>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=97.53  E-value=2.2e-05  Score=60.15  Aligned_cols=70  Identities=26%  Similarity=0.409  Sum_probs=61.1

Q ss_pred             cCcHHHHhhh---CC--CCccHHHHHHHHHHHHHHcCCCCCCCCCcccCC-hhHhhhhcCCccChhh---HHHHHhccC
Q 017932          114 SLSTQLQKVV---GA--PELARTEVVKKLWVYIKENKLQDPNNKRKILCD-ESLQALFGVNSIDMFK---MNRALSKHI  183 (363)
Q Consensus       114 ~LSp~La~~l---G~--~~~sR~~vvk~lW~YIk~nnLqDp~nkr~I~cD-e~Lk~lF~~d~i~~~~---m~k~L~~Hl  183 (363)
                      +.-|.|-.+|   |.  +..|.-+|+-.|=+||....|.||.+.++|.|- |.|-.+||+.++++.+   +...|.+||
T Consensus         5 rPkp~Ll~~L~~~GA~~~~fT~kqVm~yLgqYIm~K~LyD~~~qhiV~C~~D~LG~l~gv~sFsVk~~r~l~~ml~rnL   83 (85)
T d2axia1           5 RPKPLLLKLLKSVGAQKDTYTMKEVLFYLGQYIMTKRLYDEKQQHIVYCSNDLLGDLFGVPSFSVKEHRKIYTMIYRNL   83 (85)
T ss_dssp             EECHHHHHHHHHTTCCCSCEEHHHHHHHHHHHHHHHTCEETTEEEEEECTTSHHHHHHSSSEEETTCHHHHHHHHHTTE
T ss_pred             cCcHHHHHHHHHcCCCcceeeHHHHHHHHHHHHHHHHhcCcccCceEecCCchHHhhcCCCceeecCcHHHHHHHHhcc
Confidence            4457787777   54  678999999999999999999999999999995 7799999999998887   888888876