Citrus Sinensis ID: 009056

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-----
MSANNNNPAKSLGQTSSPFANAGMGSPSMPMNPGFPQSQAQAQMGAGFPSQFQLSQAQALAQAHQSKMHAQVAQAQAAHAQLQAHLQAQGLSINQFQNAGIGNLGSSSPSNLTPGNASLKRMPQKPPVRPPVVPMSNMVSPLKAMELTSAARRKKQKLPEKQLQERVAAILPESALYTQLLEFEARVDAALTRKKVDIQEALKNPPCLQKTLRIYVFNTFANQIKTIPKKPNAEPPTWTLKIIGRILEDGVDPDQPGMVQKSNPLYPKFSSFFKRVTISLDQRLYPDNHIIVWENSRSPAPHEGFEVKRKGDKEFTVNIRLEMNYVPEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLSPPQPIHLEHKIKLSGNSPVGTACYDVLVDVPFPIQRELSTLLANADKNKEIDQCDEAICSAIRKIHEHRRRRAFFLGFSQSPVEFINTLIESQSKDLKLVAGEGSRSAEKERRSDFFNQPWVEDAVIRYLNRKPAAGSDAPGST
cccccccccccccccccccccccccccccccccccccccHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEEEEEcccccccccccccccccccEEEEEEEEccccccccccccccccccccccccHHHHHHEEccccccccccccccccccccccccccccccccccccccEEEEEccccccccccccHHHHHHcccccccHHHHHHHHHHHHHHccccccccccEEEccHHHHHHHccccccHHHHHHHHHcccccccccEEEEEEEccccccccccEEEEEEcccccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHccccccccHHccccccccHHHHHHHHHHHHccccccccccccc
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccEEEEEEEEEEccccccccccccccccccEEEEEEEEEEccccccccccccccccccccccHHHHHcEEEEEccccccccccEEEEEccccccccccEEEEccccccEEEEEEEEEccccccccccHHHHHHHccccccHHHHHHHHHHHHHHcccccccccccEcccHHHHHHHcccccccHHHHHHHHHHccccccEEEEEEEEEccccccccEEEEEEEEcccHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHccccccHHHHHcHHHHcccHHHHHHHHHHHHcHHHHHHHcccc
msannnnpakslgqtsspfanagmgspsmpmnpgfpqsqaqaqmgagfpsqFQLSQAQALAQAHQSKMHAQVAQAQAAHAQLQAHLQAQGLSINqfqnagignlgssspsnltpgnaslkrmpqkppvrppvvpmsnmvsplKAMELTSAARRKKQKLPEKQLQERVAAILPESALYTQLLEFEARVDAALTRKKVDIQealknppclqktLRIYVFNTFANqiktipkkpnaepptwtLKIIGRiledgvdpdqpgmvqksnplypkfsSFFKRVTIsldqrlypdnhiivwensrspaphegfevkrkgdkeFTVNIRLEmnyvpekfklspplmevlgievdtrpRIIAAIWHYVKARklqhpndpsiftcdpplqkvfgeekmKFTMVSQKIsqhlsppqpihlehkiklsgnspvgtacydvlvdvpfpIQRELSTLLanadknkeidqCDEAICSAIRKIHEHRRRRAfflgfsqsPVEFINTLIESQSKDLKlvagegsrsaekerrsdffnqpwvEDAVIRYLnrkpaagsdapgst
msannnnpakslgqtsSPFANAGMGSPSMPMNPGFPQSQAQAQMGAGFPSQFQLSQAQALAQAHQSKMHAQVAQAQAAHAQLQAHLQAQGLSINQFQNAGIGNLGSSSPSNLTPGNASLKRMPQKPPVRPPVVPMSNMVSPLKAMELTSAARRKKQKLPEKQLQERVAAILPESALYTQLLEFEARVDAALTRKKVdiqealknppclqktLRIYVFNTFANQIktipkkpnaepptWTLKIIGRILEDGVDPDQPGMVQKSNPLYPKFSSFFKRVTISLDQRLYPDNHIIvwensrspaphegfevkrkgdkeftVNIRLEmnyvpekfklsppLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLSPPQPIHLEHKIKLSGNSPVGTACYDVLVDVPFPIQRELSTLLanadknkeidqCDEAICSAIRKIHEHRRRRAFFLGFSQSPVEFINTLIESQSKDLKLVAGEgsrsaekerrsdffnqpwVEDAVIRYLNrkpaagsdapgst
MSANNNNPAKSLGQTSSPFANAGMGSPSMPMNPGFPQSQAQAQMGAGFPsqfqlsqaqalaqahqsKMhaqvaqaqaahaqlqahlqaqGLSINQFQNAGIGNLGSSSPSNLTPGNASLkrmpqkppvrppvvpmsnmvspLKAMELTSAArrkkqklpekqlqerVAAILPESALYTQLLEFEARVDAALTRKKVDIQEALKNPPCLQKTLRIYVFNTFANQIKTIPKKPNAEPPTWTLKIIGRILEDGVDPDQPGMVQKSNPLYPKFSSFFKRVTISLDQRLYPDNHIIVWENSRSPAPHEGFEVKRKGDKEFTVNIRLEMNYVPEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLSPPQPIHLEHKIKLSGNSPVGTACYDVLVDVPFPIQRELSTLLANADKNKEIDQCDEAICSAIRKIHEHRRRRAFFLGFSQSPVEFINTLIESQSKDLKLVAGEGSRSAEKERRSDFFNQPWVEDAVIRYLNRKPAAGSDAPGST
**********************************************************************************************************************************************************************VAAILPESALYTQLLEFEARVDAALTRKKVDIQEALKNPPCLQKTLRIYVFNTFANQIKTIPKKPNAEPPTWTLKIIGRILEDGV************PLYPKFSSFFKRVTISLDQRLYPDNHIIVWEN*****************KEFTVNIRLEMNYVPEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEE*MKFT*******************HKIKLSGNSPVGTACYDVLVDVPFPIQRELSTLLANADKNKEIDQCDEAICSAIRKIHEHRRRRAFFLGFSQSPVEFINTLIE************************FFNQPWVEDAVIRYL**************
********************************************************************************************************************************************************************ERVAAILPESALYTQLLEFEARVDAALTRKKVDIQEALKNPPCLQKTLRIYVFNTF******************TLKIIGRILE************************************************************************LEMNYVPEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLSPPQPIHLEHKIKLSGNSPVGTACYDVLVDVPFPIQRELST*****D**KEIDQCDEAICSAIRKIHEHRRRRAFFLGFSQSPVEFINTLIESQSKDLKLVAGEG***AEKERRSDFFNQPWVEDAVIRYL**************
************GQTSSPFANAGMGSPSMPMNPGFPQS*********************************************AHLQAQGLSINQFQNAGIGNLGSSSPSNLTPG************VRPPVVPMSNMVSPLKAMELTS*************LQERVAAILPESALYTQLLEFEARVDAALTRKKVDIQEALKNPPCLQKTLRIYVFNTFANQIKTIPKKPNAEPPTWTLKIIGRILEDGVDPDQPGMVQKSNPLYPKFSSFFKRVTISLDQRLYPDNHIIVWENSRSPAPHEGFEVKRKGDKEFTVNIRLEMNYVPEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLSPPQPIHLEHKIKLSGNSPVGTACYDVLVDVPFPIQRELSTLLANADKNKEIDQCDEAICSAIRKIHEHRRRRAFFLGFSQSPVEFINTLIESQSKDLKL**************SDFFNQPWVEDAVIRYLNRKP**********
********************************************************AQ*L**********QV***********AHL*A********************************************************************KLPEKQLQERVAAILPESALYTQLLEFEARVDAALTRKKVDIQEALKNPPCLQKTLRIYVFNTFANQIKT******AEPPTWTLKIIGRILED*****************PKFSSFFKRVTISLDQRLYPDNHIIVWENSRSPAPHEGFEVKRKGDKEFTVNIRLEMNYVPEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLSPPQPIHLEHKIKLSGNSPVGTACYDVLVDVPFPIQRELSTLLANADKNKEIDQCDEAICSAIRKIHEHRRRRAFFLGFSQSPVEFINTLIESQSKDLKLVAGEGSRSAEKERRSDFFNQPWVEDAVIRYLNRKPAA********
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MSANNNNPAKSLGQTSSPFANAGMGSPSMPMNPGFPQSQAQAQMGAGFPSQFQLSQAQALAQAHQSKMHAQVAQAQAAHAQLQAHLQAQGLSINQFQNAGIGNLGSSSPSNLTPGNASLKRMPQKPPVRPPVVPMSNMVSPLKAMELTSAARRKKQKLPEKQLQERVAAILPESALYTQLLEFEARVDAALTRKKVDIQEALKNPPCLQKTLRIYVFNTFANQIKTIPKKPNAEPPTWTLKIIGRILEDGVDPDQPGMVQKSNPLYPKFSSFFKRVTISLDQRLYPDNHIIVWENSRSPAPHEGFEVKRKGDKEFTVNIRLEMNYVPEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLSPPQPIHLEHKIKLSGNSPVGTACYDVLVDVPFPIQRELSTLLANADKNKEIDQCDEAICSAIRKIHEHRRRRAFFLGFSQSPVEFINTLIESQSKDLKLVAGEGSRSAEKERRSDFFNQPWVEDAVIRYLNRKPAAGSDAPGST
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query545 2.2.26 [Sep-21-2011]
Q9FMT4534 SWI/SNF complex component yes no 0.974 0.994 0.750 0.0
Q61466515 SWI/SNF-related matrix-as yes no 0.686 0.726 0.384 5e-75
Q96GM5515 SWI/SNF-related matrix-as yes no 0.686 0.726 0.384 5e-75
Q2TBN1515 SWI/SNF-related matrix-as yes no 0.686 0.726 0.384 2e-74
Q6P9Z1483 SWI/SNF-related matrix-as no no 0.658 0.743 0.367 3e-69
Q6STE5483 SWI/SNF-related matrix-as no no 0.658 0.743 0.367 3e-69
Q99JR8531 SWI/SNF-related matrix-as no no 0.715 0.734 0.334 1e-63
Q92925531 SWI/SNF-related matrix-as no no 0.715 0.734 0.329 2e-63
O54772531 SWI/SNF-related matrix-as no no 0.715 0.734 0.329 2e-63
E1BJD1531 SWI/SNF-related matrix-as no no 0.704 0.723 0.324 2e-62
>sp|Q9FMT4|SNF12_ARATH SWI/SNF complex component SNF12 homolog OS=Arabidopsis thaliana GN=At5g14170 PE=1 SV=1 Back     alignment and function desciption
 Score =  803 bits (2073), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 410/546 (75%), Positives = 457/546 (83%), Gaps = 15/546 (2%)

Query: 1   MSANNNNPAKSLGQTSSPFANAGMGSPSMPMNPGFPQSQAQAQMGAGFPSQFQLSQAQAL 60
           MS NNNNP K  G    PF N GM S S+P N GF    AQ+ M A           QA 
Sbjct: 1   MSGNNNNPQKPQGSAPLPFGNPGMASASVPGNQGF----AQSHMAA---------NFQAQ 47

Query: 61  AQAHQSKMHAQVAQAQAAHAQLQAHLQAQGLSINQFQNA-GIGNLGSSSPSNLTPGNASL 119
            Q  Q++  A         AQLQA LQAQG+++NQ Q + GIG LG SSPS  TPG+ ++
Sbjct: 48  FQFSQAQALAHAQAQSKVQAQLQAQLQAQGMTMNQAQGSPGIGGLGPSSPSLTTPGSLNM 107

Query: 120 KRMPQKPPVRPPVVPMSN-MVSPLKAMELTSAARRKKQKLPEKQLQERVAAILPESALYT 178
           KR  QKPP+RPP  P SN  +SP++ MELT AAR+KKQKLPEK LQERVAAILPESALYT
Sbjct: 108 KRFQQKPPMRPPGAPASNNTISPMRTMELTPAARKKKQKLPEKSLQERVAAILPESALYT 167

Query: 179 QLLEFEARVDAALTRKKVDIQEALKNPPCLQKTLRIYVFNTFANQIKTIPKKPNAEPPTW 238
           QLLEFE+RVDAALTRKKVDIQEALKNPPC+QKTLRIYVFN+FANQ  TIP  PNA+PPTW
Sbjct: 168 QLLEFESRVDAALTRKKVDIQEALKNPPCIQKTLRIYVFNSFANQNNTIPGNPNADPPTW 227

Query: 239 TLKIIGRILEDGVDPDQPGMVQKSNPLYPKFSSFFKRVTISLDQRLYPDNHIIVWENSRS 298
           TLKIIGRILEDGVDPDQPG VQK+NPL+PKFSSFFKRVT+SLDQRLYP+N +I+WEN+RS
Sbjct: 228 TLKIIGRILEDGVDPDQPGFVQKANPLHPKFSSFFKRVTVSLDQRLYPENPLIIWENARS 287

Query: 299 PAPHEGFEVKRKGDKEFTVNIRLEMNYVPEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYV 358
           PAP EGFE+KRKG++EF  +IRLEMNYVPEKFKLS  LM+VLGIEV+TRPRIIAAIWHYV
Sbjct: 288 PAPQEGFEIKRKGNQEFAASIRLEMNYVPEKFKLSTALMDVLGIEVETRPRIIAAIWHYV 347

Query: 359 KARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLSPPQPIHLEHKIKLSGNS 418
           KARKLQ+PNDPS F CD  LQKVFGEEK+KFTMVSQKIS HLSPP PIHLEHKIKLSGN+
Sbjct: 348 KARKLQNPNDPSFFNCDAALQKVFGEEKLKFTMVSQKISHHLSPPPPIHLEHKIKLSGNN 407

Query: 419 PVGTACYDVLVDVPFPIQRELSTLLANADKNKEIDQCDEAICSAIRKIHEHRRRRAFFLG 478
           P  +ACYDVLVDVPFPIQR+L+ LLANA+KNKEI+ CDEAIC+AIRKIHEHRRRRAFFLG
Sbjct: 408 PAVSACYDVLVDVPFPIQRDLNNLLANAEKNKEIEACDEAICAAIRKIHEHRRRRAFFLG 467

Query: 479 FSQSPVEFINTLIESQSKDLKLVAGEGSRSAEKERRSDFFNQPWVEDAVIRYLNRKPAAG 538
           FSQSPVEFIN LIESQSKDLK+VAGE SR+AE+ERRSDFFNQPWVEDAVIRYLNR+PAAG
Sbjct: 468 FSQSPVEFINALIESQSKDLKVVAGEASRNAERERRSDFFNQPWVEDAVIRYLNRRPAAG 527

Query: 539 SDAPGS 544
           +D PGS
Sbjct: 528 NDGPGS 533
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 Back     alignment and function description
>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 Back     alignment and function description
>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 Back     alignment and function description
>sp|Q6P9Z1|SMRD3_MOUSE SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3 OS=Mus musculus GN=Smarcd3 PE=1 SV=2 Back     alignment and function description
>sp|Q6STE5|SMRD3_HUMAN SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3 OS=Homo sapiens GN=SMARCD3 PE=1 SV=1 Back     alignment and function description
>sp|Q99JR8|SMRD2_MOUSE SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2 OS=Mus musculus GN=Smarcd2 PE=2 SV=2 Back     alignment and function description
>sp|Q92925|SMRD2_HUMAN SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2 OS=Homo sapiens GN=SMARCD2 PE=1 SV=3 Back     alignment and function description
>sp|O54772|SMRD2_RAT SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2 OS=Rattus norvegicus GN=Smarcd2 PE=2 SV=3 Back     alignment and function description
>sp|E1BJD1|SMRD2_BOVIN SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2 OS=Bos taurus GN=SMARCD2 PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query545
255561723572 brg-1 associated factor, putative [Ricin 0.977 0.931 0.819 0.0
224055719555 chromatin remodeling complex subunit [Po 0.981 0.963 0.845 0.0
449455860547 PREDICTED: SWI/SNF complex component SNF 1.0 0.996 0.815 0.0
225451428548 PREDICTED: SWI/SNF complex component SNF 1.0 0.994 0.832 0.0
147766681548 hypothetical protein VITISV_041986 [Viti 1.0 0.994 0.830 0.0
356511807543 PREDICTED: SWI/SNF complex component SNF 0.994 0.998 0.798 0.0
356571363543 PREDICTED: SWI/SNF complex component SNF 0.994 0.998 0.791 0.0
297811539534 SWIB complex BAF60b domain-containing pr 0.974 0.994 0.754 0.0
15241324534 SWI/SNF complex component SNF12-like pro 0.974 0.994 0.750 0.0
224129088408 chromatin remodeling complex subunit [Po 0.748 1.0 0.904 0.0
>gi|255561723|ref|XP_002521871.1| brg-1 associated factor, putative [Ricinus communis] gi|223538909|gb|EEF40507.1| brg-1 associated factor, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  918 bits (2372), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 460/561 (81%), Positives = 489/561 (87%), Gaps = 28/561 (4%)

Query: 11  SLGQTSSPFANAGMGSPSMPMNPGFPQSQAQAQMGAGFPSQFQLSQAQALAQAHQSKMHA 70
           SLGQ+SSPF NAGM +PS P+NP F QSQ+QAQMG GF SQFQLSQAQA AQA       
Sbjct: 14  SLGQSSSPFGNAGMVNPSAPINPAFSQSQSQAQMGTGFQSQFQLSQAQATAQAQLKAQQV 73

Query: 71  --------------------------QVAQAQAAHAQLQAHLQAQGLSINQFQNAGIGNL 104
                                      VAQ Q+A AQ QAHLQ  GLS++Q QNAGI NL
Sbjct: 74  HAQAQAQAQAQAQAQAAHLQARAQAAHVAQVQSAQAQFQAHLQ--GLSLSQAQNAGIANL 131

Query: 105 GSSSPSNLTPGNASLKRMPQKPPVRPPVVPMSNMVSPLKAMELTSAARRKKQKLPEKQLQ 164
           GSSSPS  TPG+ + KR+PQKPPVRPP VPM+NM+SPLK M+LT AARRKKQKLPEKQLQ
Sbjct: 132 GSSSPSFTTPGSMNAKRLPQKPPVRPPGVPMANMISPLKNMDLTPAARRKKQKLPEKQLQ 191

Query: 165 ERVAAILPESALYTQLLEFEARVDAALTRKKVDIQEALKNPPCLQKTLRIYVFNTFANQI 224
           +RVAAILPESALYTQLLEFEARVDAAL RKKVDIQEALK+PPC QKTLRIYVFNTFANQI
Sbjct: 192 DRVAAILPESALYTQLLEFEARVDAALNRKKVDIQEALKSPPCTQKTLRIYVFNTFANQI 251

Query: 225 KTIPKKPNAEPPTWTLKIIGRILEDGVDPDQPGMVQKSNPLYPKFSSFFKRVTISLDQRL 284
           +TIPKKPNA+PPTWTLKI+GRILEDG+DPDQPG+VQKSNPLYPKFSSFFKRVTI LDQRL
Sbjct: 252 RTIPKKPNADPPTWTLKIVGRILEDGIDPDQPGVVQKSNPLYPKFSSFFKRVTIMLDQRL 311

Query: 285 YPDNHIIVWENSRSPAPHEGFEVKRKGDKEFTVNIRLEMNYVPEKFKLSPPLMEVLGIEV 344
           YPDNH+IVWE+SR+PAPHEGFEVKRKGDKEFTV IRLEMNYVPEK+KLSP LMEVLGIEV
Sbjct: 312 YPDNHMIVWEHSRTPAPHEGFEVKRKGDKEFTVTIRLEMNYVPEKYKLSPALMEVLGIEV 371

Query: 345 DTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLSPPQ 404
           DTRPRIIAAIWHYVKARKLQ+P DPS F CDPPL KVFGE KMKFTMVSQKISQHLS PQ
Sbjct: 372 DTRPRIIAAIWHYVKARKLQNPEDPSFFNCDPPLHKVFGEAKMKFTMVSQKISQHLSSPQ 431

Query: 405 PIHLEHKIKLSGNSPVGTACYDVLVDVPFPIQRELSTLLANADKNKEIDQCDEAICSAIR 464
           PI LEHKIKLSGNSP GTACYDV+VDVPFPIQRELSTLLANA+KNKEID CDEAICSAIR
Sbjct: 432 PIVLEHKIKLSGNSPAGTACYDVVVDVPFPIQRELSTLLANAEKNKEIDTCDEAICSAIR 491

Query: 465 KIHEHRRRRAFFLGFSQSPVEFINTLIESQSKDLKLVAGEGSRSAEKERRSDFFNQPWVE 524
           KIHEHRRRRAFFLGFSQSPVEFIN LIESQS+DLKLVAGEGSRSAEKERR+DFFNQPWVE
Sbjct: 492 KIHEHRRRRAFFLGFSQSPVEFINALIESQSRDLKLVAGEGSRSAEKERRADFFNQPWVE 551

Query: 525 DAVIRYLNRKPAAGSDAPGST 545
           DAVIRYLNRKP AGSDAPGST
Sbjct: 552 DAVIRYLNRKPTAGSDAPGST 572

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224055719|ref|XP_002298619.1| chromatin remodeling complex subunit [Populus trichocarpa] gi|222845877|gb|EEE83424.1| chromatin remodeling complex subunit [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449455860|ref|XP_004145668.1| PREDICTED: SWI/SNF complex component SNF12 homolog [Cucumis sativus] gi|449515744|ref|XP_004164908.1| PREDICTED: SWI/SNF complex component SNF12 homolog [Cucumis sativus] Back     alignment and taxonomy information
>gi|225451428|ref|XP_002273749.1| PREDICTED: SWI/SNF complex component SNF12 homolog [Vitis vinifera] Back     alignment and taxonomy information
>gi|147766681|emb|CAN60756.1| hypothetical protein VITISV_041986 [Vitis vinifera] Back     alignment and taxonomy information
>gi|356511807|ref|XP_003524614.1| PREDICTED: SWI/SNF complex component SNF12 homolog [Glycine max] Back     alignment and taxonomy information
>gi|356571363|ref|XP_003553847.1| PREDICTED: SWI/SNF complex component SNF12 homolog [Glycine max] Back     alignment and taxonomy information
>gi|297811539|ref|XP_002873653.1| SWIB complex BAF60b domain-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297319490|gb|EFH49912.1| SWIB complex BAF60b domain-containing protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|15241324|ref|NP_196921.1| SWI/SNF complex component SNF12-like protein [Arabidopsis thaliana] gi|73622093|sp|Q9FMT4.1|SNF12_ARATH RecName: Full=SWI/SNF complex component SNF12 homolog gi|9757798|dbj|BAB08296.1| unnamed protein product [Arabidopsis thaliana] gi|17473640|gb|AAL38282.1| unknown protein [Arabidopsis thaliana] gi|31711950|gb|AAP68331.1| At5g14170 [Arabidopsis thaliana] gi|332004612|gb|AED91995.1| SWI/SNF complex component SNF12-like protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|224129088|ref|XP_002328887.1| chromatin remodeling complex subunit [Populus trichocarpa] gi|222839317|gb|EEE77654.1| chromatin remodeling complex subunit [Populus trichocarpa] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query545
TAIR|locus:2174638534 CHC1 "AT5G14170" [Arabidopsis 0.974 0.994 0.679 1.2e-191
TAIR|locus:2078713458 AT3G01890 "AT3G01890" [Arabido 0.706 0.840 0.730 1.2e-153
UNIPROTKB|F1MTG9515 SMARCD1 "SWI/SNF-related matri 0.662 0.700 0.384 2.1e-68
UNIPROTKB|Q96GM5515 SMARCD1 "SWI/SNF-related matri 0.662 0.700 0.382 7.2e-68
MGI|MGI:1933623515 Smarcd1 "SWI/SNF related, matr 0.662 0.700 0.382 7.2e-68
RGD|1305406515 Smarcd1 "SWI/SNF related, matr 0.662 0.700 0.382 7.2e-68
UNIPROTKB|H9KZE0516 SMARCD1 "Uncharacterized prote 0.662 0.699 0.382 9.2e-68
UNIPROTKB|Q2TBN1515 SMARCD1 "SWI/SNF-related matri 0.662 0.700 0.382 1.9e-67
ZFIN|ZDB-GENE-080509-2476 smarcd3b "SWI/SNF related, mat 0.642 0.735 0.383 1.3e-66
FB|FBgn0025463515 Bap60 "Brahma associated prote 0.673 0.712 0.378 3.6e-66
TAIR|locus:2174638 CHC1 "AT5G14170" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1857 (658.8 bits), Expect = 1.2e-191, P = 1.2e-191
 Identities = 371/546 (67%), Positives = 413/546 (75%)

Query:     1 MSANNNNPAKSLGQTSSPFANAGMGSPSMPMNPGFPQSQAQAQMGAGFPXXXXXXXXXXX 60
             MS NNNNP K  G    PF N GM S S+P N GF QS   A   A F            
Sbjct:     1 MSGNNNNPQKPQGSAPLPFGNPGMASASVPGNQGFAQSHMAANFQAQFQFSQAQALAHAQ 60

Query:    61 XXXXXXKMXXXXXXXXXXXXXXXXXXXXXGLSINQFQNA-GIGNLGSSSPSNLTPGNASL 119
                   K+                     G+++NQ Q + GIG LG SSPS  TPG+ ++
Sbjct:    61 AQS---KVQAQLQAQLQAQ----------GMTMNQAQGSPGIGGLGPSSPSLTTPGSLNM 107

Query:   120 XXXXXXXXXXXXXXXXXXXXXX-LKAMELTSAAXXXXXXXXXXXXXXXVAAILPESALYT 178
                                    ++ MELT AA               VAAILPESALYT
Sbjct:   108 KRFQQKPPMRPPGAPASNNTISPMRTMELTPAARKKKQKLPEKSLQERVAAILPESALYT 167

Query:   179 QLLEFEARVDAALTRKKVDIQEALKNPPCLQKTLRIYVFNTFANQIKTIPKKPNAEPPTW 238
             QLLEFE+RVDAALTRKKVDIQEALKNPPC+QKTLRIYVFN+FANQ  TIP  PNA+PPTW
Sbjct:   168 QLLEFESRVDAALTRKKVDIQEALKNPPCIQKTLRIYVFNSFANQNNTIPGNPNADPPTW 227

Query:   239 TLKIIGRILEDGVDPDQPGMVQKSNPLYPKFSSFFKRVTISLDQRLYPDNHIIVWENSRS 298
             TLKIIGRILEDGVDPDQPG VQK+NPL+PKFSSFFKRVT+SLDQRLYP+N +I+WEN+RS
Sbjct:   228 TLKIIGRILEDGVDPDQPGFVQKANPLHPKFSSFFKRVTVSLDQRLYPENPLIIWENARS 287

Query:   299 PAPHEGFEVKRKGDKEFTVNIRLEMNYVPEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYV 358
             PAP EGFE+KRKG++EF  +IRLEMNYVPEKFKLS  LM+VLGIEV+TRPRIIAAIWHYV
Sbjct:   288 PAPQEGFEIKRKGNQEFAASIRLEMNYVPEKFKLSTALMDVLGIEVETRPRIIAAIWHYV 347

Query:   359 KARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLSPPQPIHLEHKIKLSGNS 418
             KARKLQ+PNDPS F CD  LQKVFGEEK+KFTMVSQKIS HLSPP PIHLEHKIKLSGN+
Sbjct:   348 KARKLQNPNDPSFFNCDAALQKVFGEEKLKFTMVSQKISHHLSPPPPIHLEHKIKLSGNN 407

Query:   419 PVGTACYDVLVDVPFPIQRELSTLLANADKNKEIDQCDEAICSAIRKIHEHRRRRAFFLG 478
             P  +ACYDVLVDVPFPIQR+L+ LLANA+KNKEI+ CDEAIC+AIRKIHEHRRRRAFFLG
Sbjct:   408 PAVSACYDVLVDVPFPIQRDLNNLLANAEKNKEIEACDEAICAAIRKIHEHRRRRAFFLG 467

Query:   479 FSQSPVEFINTLIESQSKDLKLVAGEGSRSAEKERRSDFFNQPWVEDAVIRYLNRKPAAG 538
             FSQSPVEFIN LIESQSKDLK+VAGE SR+AE+ERRSDFFNQPWVEDAVIRYLNR+PAAG
Sbjct:   468 FSQSPVEFINALIESQSKDLKVVAGEASRNAERERRSDFFNQPWVEDAVIRYLNRRPAAG 527

Query:   539 SDAPGS 544
             +D PGS
Sbjct:   528 NDGPGS 533
GO:0003674 "molecular_function" evidence=ND
GO:0005634 "nucleus" evidence=ISM
GO:0048364 "root development" evidence=IMP
GO:0006281 "DNA repair" evidence=IMP
GO:0010224 "response to UV-B" evidence=IEP
GO:0000956 "nuclear-transcribed mRNA catabolic process" evidence=RCA
GO:0008284 "positive regulation of cell proliferation" evidence=RCA
TAIR|locus:2078713 AT3G01890 "AT3G01890" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|F1MTG9 SMARCD1 "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q96GM5 SMARCD1 "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
MGI|MGI:1933623 Smarcd1 "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|1305406 Smarcd1 "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|H9KZE0 SMARCD1 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|Q2TBN1 SMARCD1 "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-080509-2 smarcd3b "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3b" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
FB|FBgn0025463 Bap60 "Brahma associated protein 60kD" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q9FMT4SNF12_ARATHNo assigned EC number0.75090.97430.9943yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query545
pfam0220176 pfam02201, SWIB, SWIB/MDM2 domain 7e-19
smart0015177 smart00151, SWIB, SWI complex, BAF60b domains 2e-17
COG5531237 COG5531, COG5531, SWIB-domain-containing proteins 4e-15
PRK06319860 PRK06319, PRK06319, DNA topoisomerase I/SWI domain 2e-07
PRK14724987 PRK14724, PRK14724, DNA topoisomerase III; Provisi 2e-05
>gnl|CDD|145386 pfam02201, SWIB, SWIB/MDM2 domain Back     alignment and domain information 
 Score = 80.7 bits (200), Expect = 7e-19
 Identities = 24/74 (32%), Positives = 40/74 (54%)

Query: 327 PEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEK 386
            + F LSP L + LG    +R  ++  +W Y+K   LQ P +  I  CD  L+ +FG ++
Sbjct: 2   TKPFPLSPDLAKFLGAGELSRTEVVKKLWQYIKEHNLQDPKNKRIILCDEKLKSIFGGDR 61

Query: 387 MKFTMVSQKISQHL 400
           + F  +S+ +S H 
Sbjct: 62  VGFFEMSKLLSSHF 75

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 Back     alignment and domain information
>gnl|CDD|227818 COG5531, COG5531, SWIB-domain-containing proteins implicated in chromatin remodeling [Chromatin structure and dynamics] Back     alignment and domain information
>gnl|CDD|235778 PRK06319, PRK06319, DNA topoisomerase I/SWI domain fusion protein; Validated Back     alignment and domain information
>gnl|CDD|237803 PRK14724, PRK14724, DNA topoisomerase III; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 545
KOG2570420 consensus SWI/SNF transcription activation complex 100.0
COG5531237 SWIB-domain-containing proteins implicated in chro 99.92
smart0015177 SWIB SWI complex, BAF60b domains. 99.86
PF0220176 SWIB: SWIB/MDM2 domain; InterPro: IPR003121 The SW 99.85
KOG1946240 consensus RNA polymerase I transcription factor UA 99.73
PRK14724987 DNA topoisomerase III; Provisional 99.63
PRK06319860 DNA topoisomerase I/SWI domain fusion protein; Val 99.06
PF0336684 YEATS: YEATS family; InterPro: IPR005033 Named the 85.16
>KOG2570 consensus SWI/SNF transcription activation complex subunit [Chromatin structure and dynamics; Transcription] Back     alignment and domain information 
Probab=100.00  E-value=2e-110  Score=865.89  Aligned_cols=378  Identities=46%  Similarity=0.832  Sum_probs=363.1

Q ss_pred             HhcCCCCcch-hhHHHHhhcCchHHHHHHHHHHHHHHHHHHhhhhhHHHHhcCCCCCcceEEEEEEEecccCcccCCCCC
Q 009056          153 RKKQKLPEKQ-LQERVAAILPESALYTQLLEFEARVDAALTRKKVDIQEALKNPPCLQKTLRIYVFNTFANQIKTIPKKP  231 (545)
Q Consensus       153 rkkrk~tDk~-iP~~v~~~vPes~~Y~~L~e~ErrLD~~i~RKrldiqesl~rp~k~~rtLRI~IsNT~enQ~wq~~~~~  231 (545)
                      .||+|+.||. ||+.+.+++||++.|..|+++|+|||++|+|||+||||++++|.+.+|+|||||||||++|+|+..+.+
T Consensus        40 ~kk~kl~dk~~i~~~~~~~ipes~~y~~Ll~~e~Kld~~i~Rk~~diqealK~p~~~kk~LRIyI~ntf~~~~~~~~~~~  119 (420)
T KOG2570|consen   40 LKKKKLADKLNIPQRILELIPESQAYMDLLAFERKLDSTIIRKRLDIQEALKRPPKIKKKLRIYISNTFENQKPSTKDTP  119 (420)
T ss_pred             hhhhhcchhcccCHHHHhhCccHHHHHHHHHHHHHhhhHHHHhhhhHHHHhcCCccccceEEEEEEecccCCCCCCCCCC
Confidence            4677788886 999999999999999999999999999999999999999999999999999999999999999987665


Q ss_pred             CCCCCceEEEEEEEEcCCCCCCCCCCCcCCCCCCCcccccccceeEEeeCCCCC-CCCceeEecCCCCCCCCCceEEeec
Q 009056          232 NAEPPTWTLKIIGRILEDGVDPDQPGMVQKSNPLYPKFSSFFKRVTISLDQRLY-PDNHIIVWENSRSPAPHEGFEVKRK  310 (545)
Q Consensus       232 ~~~~psWtLrIEGRLLdd~~~~~~~~~~~~~~~~~~KFSsFfk~I~VelD~~ly-p~~~~VEW~k~~s~~efDGfeIKR~  310 (545)
                      ++..|+|||||||||||+..+.         .+ ++|||||||+|+|+||+++| |++|.||||+.++++++|||+|||.
T Consensus       120 ~a~~~sWtLriEGrLLd~~~~~---------~~-krkFSsFfkslvIelDk~~y~P~~~lvEW~r~~~~~etdGf~VKR~  189 (420)
T KOG2570|consen  120 EADLPSWTLRIEGRLLDDPVDD---------WG-KRKFSSFFKSLVIELDKDLYGPDNHLVEWHRDPNTNETDGFQVKRP  189 (420)
T ss_pred             CCCCcceeeeeeeeecccCccc---------cc-cccchHHHhhhhhhhhhhhccCccceeeeeecCCCCCcCceeeecc
Confidence            6779999999999999986211         11 69999999999999999887 9999999999889999999999999


Q ss_pred             CCceeeEEEEEeecccCccccCChhHHhhhCCCccChHHHHHHHHHHHHhcCCCCCCCCCeeecChhhhhhhCcCccchh
Q 009056          311 GDKEFTVNIRLEMNYVPEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFT  390 (545)
Q Consensus       311 G~~~~~itI~L~~~~~Per~kLSp~La~~LG~~~~TR~eiv~~LW~YIK~n~Lqdp~dkr~I~cDe~Lk~lFg~d~i~f~  390 (545)
                      ||.++.|+|.|+++++|++|+|||.|+.+||+.+.||++||.+||+|||.|+|||++|+.+|+||..|+.+||+++++|.
T Consensus       190 Gd~~v~ctIll~l~~~P~~fklsp~La~lLGi~t~Trp~iI~alWqYIk~n~Lqd~~e~~~incD~~l~qif~~~rl~F~  269 (420)
T KOG2570|consen  190 GDRNVRCTILLLLDYQPEEFKLSPRLANLLGIHTGTRPDIVTALWQYIKTNKLQDPEDSDFINCDKALEQIFGVDRLKFP  269 (420)
T ss_pred             CCCccceEEEEeeccCCcccccCHHHHHHhhhccCcchHHHHHHHHHHHHhccCCcccchhhcchHHHHHhhcccccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHccCCCCCCceeeeeeecCCCCCCCCceEEEEecCCCchHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHHHH
Q 009056          391 MVSQKISQHLSPPQPIHLEHKIKLSGNSPVGTACYDVLVDVPFPIQRELSTLLANADKNKEIDQCDEAICSAIRKIHEHR  470 (545)
Q Consensus       391 ~l~~lL~~HL~p~~PI~l~ytIrvd~~~~~~~~~yDV~V~v~dpl~~~~~~~l~~~~~~keI~~LD~qIa~~i~~I~~~k  470 (545)
                      +|+.+|++||.|++||+|+|+|+||++++++.+||||+|+|++|++.+|..|+.+++..+||++||++|..++++||+++
T Consensus       270 elp~~l~~lL~P~dPIvi~h~I~v~~~~~~~tacyDIdV~v~~p~~~q~~nfl~~~~~~~eI~alD~kI~~li~~ine~~  349 (420)
T KOG2570|consen  270 ELPQLLNPLLSPPDPIVIDHTISVDGNDTKVTACYDIDVEVEDPRKSQMSNFLASTESQKEIAALDRKITELIQQINESK  349 (420)
T ss_pred             cchhhhhhccCCCCCeeecceeccCCCcccceeEEeeeeccCCccchhhhhhhcchhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhCHHHHHHHHHHHHHHHHHHHhcCCCCCcchhhcccccCchhHHHHHHHHHhcCCCCCCC
Q 009056          471 RRRAFFLGFSQSPVEFINTLIESQSKDLKLVAGEGSRSAEKERRSDFFNQPWVEDAVIRYLNRKPAAGSD  540 (545)
Q Consensus       471 ~rr~F~~~fS~DPv~FI~~wi~SQsrDLkvi~gd~~~~~E~~Rrsefy~qpWV~eAV~rYL~~k~~~~~~  540 (545)
                      .||+||++||+||++||++||+||++||+++.||.++|+|++||++||++|||+|||+||++.+...|..
T Consensus       350 ~rr~Ff~~Fs~dPvefin~wi~Sq~~Dlkv~~gd~~~N~e~eRraefy~qpw~~eav~ry~~~~~~q~r~  419 (420)
T KOG2570|consen  350 ERRDFFLEFSKDPVEFINEWIESQSSDLKVLAGDVSGNPEEERRAEFYKQPWTDEAVSRYMFLKVQQKRQ  419 (420)
T ss_pred             HHHHHHHHhhhCHHHHHHHHHHhcchhhHHhhccccCCHHHHHHHHHHcCccHHHHHHHHHHHHHhhccC
Confidence            9999999999999999999999999999999999999999999999999999999999999999877653

>COG5531 SWIB-domain-containing proteins implicated in chromatin remodeling [Chromatin structure and dynamics] Back     alignment and domain information
>smart00151 SWIB SWI complex, BAF60b domains Back     alignment and domain information
>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 [] Back     alignment and domain information
>KOG1946 consensus RNA polymerase I transcription factor UAF [Transcription] Back     alignment and domain information
>PRK14724 DNA topoisomerase III; Provisional Back     alignment and domain information
>PRK06319 DNA topoisomerase I/SWI domain fusion protein; Validated Back     alignment and domain information
>PF03366 YEATS: YEATS family; InterPro: IPR005033 Named the YEATS family, after `YNK7', `ENL', `AF-9', and `TFIIF small subunit', this family also contains the GAS41 protein Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query545
1v31_A93 Solution Structure Of The SwibMDM2 DOMAIN OF THE Hy 5e-33
1uhr_A93 Solution Structure Of The Swib Domain Of Mouse Brg1 1e-14
>pdb|1V31|A Chain A, Solution Structure Of The SwibMDM2 DOMAIN OF THE Hypothetical Protein At5g14170 From Arabidopsis Thaliana Length = 93 Back     alignment and structure 
Iteration: 1

 Score =  139 bits (349), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 64/75 (85%), Positives = 68/75 (90%)
Query: 326 VPEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEE 385
           VPEKFKLS  LM+VLGIEV+TRPRIIAAIWHYVKARKLQ+PNDPS F CD  LQKVFGEE
Sbjct: 8   VPEKFKLSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQKVFGEE 67
Query: 386 KMKFTMVSQKISQHL 400
           K+KFTMVSQKIS HL
Sbjct: 68  KLKFTMVSQKISHHL 82
>pdb|1UHR|A Chain A, Solution Structure Of The Swib Domain Of Mouse Brg1- Associated Factor 60a Length = 93 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query545
1uhr_A93 SWI/SNF related, matrix associated, actin dependen 5e-27
1v31_A93 Hypothetical protein RAFL11-05-P19; SWI/SNF comple 3e-26
1v32_A101 AT5G08430, hypothetical protein RAFL09-47-K03; SWI 2e-14
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-06
3lj5_A725 Portal protein, protein GP1; DNA ejection, molecul 7e-04
>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 Back     alignment and structure
 Score =  103 bits (259), Expect = 5e-27
 Identities = 35/82 (42%), Positives = 51/82 (62%)

Query: 324 NYVPEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFG 383
           +  P +FKL P L  +LGI   TRP II A+W Y+K  KLQ P++     CD  LQ++F 
Sbjct: 6   SGQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIFE 65

Query: 384 EEKMKFTMVSQKISQHLSPPQP 405
            ++MKF+ + Q++   L PP+P
Sbjct: 66  SQRMKFSEIPQRLHALLMPPEP 87
>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 Back     alignment and structure
>1v32_A AT5G08430, hypothetical protein RAFL09-47-K03; SWI/SNF complex subunit, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.42.1.1 Length = 101 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>3lj5_A Portal protein, protein GP1; DNA ejection, molecular motor, DNA packaging podoviridae, virus assembly, tail tube, trunk domain; 7.50A {Enterobacteria phage P22} Length = 725 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query545
1uhr_A93 SWI/SNF related, matrix associated, actin dependen 99.95
1v31_A93 Hypothetical protein RAFL11-05-P19; SWI/SNF comple 99.95
1v32_A101 AT5G08430, hypothetical protein RAFL09-47-K03; SWI 99.86
3dac_M130 MDM4 protein; MDMX, MDM4, HDMX, HDM4, MDM-4, MDM-X 96.19
1z1m_A119 Ubiquitin-protein ligase E3 MDM2; peptide-binding 95.57
3fea_A100 MDM4 protein; HDMX, HDM4,human MDM4, human MDMX, p 95.35
1ycq_A107 MDM2, MDM2; anti-oncogene, DNA-binding, transcript 95.3
2z5s_M140 MDM4 protein, zebrafish MDMX; MDMX, MDM4, acetylat 95.12
2axi_A115 Ubiquitin-protein ligase E3 MDM2; drug design, pro 93.97
>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 Back     alignment and structure
Probab=99.95  E-value=3.4e-29  Score=215.52  Aligned_cols=88  Identities=40%  Similarity=0.764  Sum_probs=86.3

Q ss_pred             eecccCccccCChhHHhhhCCCccChHHHHHHHHHHHHhcCCCCCCCCCeeecChhhhhhhCcCccchhHHHHHHHccCC
Q 009056          322 EMNYVPEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLS  401 (545)
Q Consensus       322 ~~~~~Per~kLSp~La~~LG~~~~TR~eiv~~LW~YIK~n~Lqdp~dkr~I~cDe~Lk~lFg~d~i~f~~l~~lL~~HL~  401 (545)
                      +++|+|++|+||++|++|||..++||++|+++||+|||.||||||+||+.|+||++|++|||+++|.|++|+++|++||.
T Consensus         4 ~~~~~p~~~~lS~~La~~lG~~~~sr~evvk~lW~YIK~n~Lqdp~~k~~I~cD~~Lk~lfg~~~v~~~~~~klL~~Hl~   83 (93)
T 1uhr_A            4 GSSGQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIFESQRMKFSEIPQRLHALLM   83 (93)
T ss_dssp             CCSSSCCEEEECTTHHHHTCCSEEEHHHHHHHHHHHHHHTTCBCSSCSSEECCCTTHHHHTCCSSEEGGGSHHHHHHHEE
T ss_pred             ccccCCCccCcCHHHHHHHCCCccCHHHHHHHHHHHHHhccCCCccccceeechHHHHHHhCCCcccHHHHHHHHHHhcC
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCceee
Q 009056          402 PPQPIHLE  409 (545)
Q Consensus       402 p~~PI~l~  409 (545)
                      |++||+|+
T Consensus        84 p~~PI~i~   91 (93)
T 1uhr_A           84 PPEPSGPS   91 (93)
T ss_dssp             CSSCCCSS
T ss_pred             CCCCeeCC
Confidence            99999884
>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 Back     alignment and structure
>1v32_A AT5G08430, hypothetical protein RAFL09-47-K03; SWI/SNF complex subunit, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.42.1.1 Back     alignment and structure
>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} Back     alignment and structure
>1z1m_A Ubiquitin-protein ligase E3 MDM2; peptide-binding groove, psudosymmetry, alpha-beta domains; NMR {Homo sapiens} Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>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* Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 545
d1uhra_93 a.42.1.1 (A:) SWI/SNF related regulator of chromat 9e-27
d1v31a_93 a.42.1.1 (A:) Hypothetical protein AT5G14170 (rafl 9e-25
d1v32a_101 a.42.1.1 (A:) Hypothetical protein AT5G08430 (rafl 2e-14
>d1uhra_ a.42.1.1 (A:) SWI/SNF related regulator of chromatin (BRG1-associated factor 60a) {Mouse (Mus musculus) [TaxId: 10090]} Length = 93 Back     information, alignment and structure

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 =  101 bits (254), Expect = 9e-27
 Identities = 35/79 (44%), Positives = 50/79 (63%)

Query: 327 PEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEK 386
           P +FKL P L  +LGI   TRP II A+W Y+K  KLQ P++     CD  LQ++F  ++
Sbjct: 9   PPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIFESQR 68

Query: 387 MKFTMVSQKISQHLSPPQP 405
           MKF+ + Q++   L PP+P
Sbjct: 69  MKFSEIPQRLHALLMPPEP 87
>d1v31a_ a.42.1.1 (A:) Hypothetical protein AT5G14170 (rafl11-05-p19) {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 93 Back     information, alignment and structure
>d1v32a_ a.42.1.1 (A:) Hypothetical protein AT5G08430 (rafl09-47-k03) {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 101 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query545
d1uhra_93 SWI/SNF related regulator of chromatin (BRG1-assoc 99.92
d1v31a_93 Hypothetical protein AT5G14170 (rafl11-05-p19) {Th 99.92
d1v32a_101 Hypothetical protein AT5G08430 (rafl09-47-k03) {Th 99.79
d1ttva_107 MDM2 {African clawed frog (Xenopus laevis) [TaxId: 97.3
d2axia185 MDM2 {Human (Homo sapiens) [TaxId: 9606]} 97.28
>d1uhra_ a.42.1.1 (A:) SWI/SNF related regulator of chromatin (BRG1-associated factor 60a) {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
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=99.92  E-value=1.2e-26  Score=197.72  Aligned_cols=82  Identities=43%  Similarity=0.839  Sum_probs=80.3

Q ss_pred             ccCccccCChhHHhhhCCCccChHHHHHHHHHHHHhcCCCCCCCCCeeecChhhhhhhCcCccchhHHHHHHHccCCCCC
Q 009056          325 YVPEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLSPPQ  404 (545)
Q Consensus       325 ~~Per~kLSp~La~~LG~~~~TR~eiv~~LW~YIK~n~Lqdp~dkr~I~cDe~Lk~lFg~d~i~f~~l~~lL~~HL~p~~  404 (545)
                      ..|++|+||++|++|||++++||++|+++||+|||+||||||+|+++|+||+.|++|||+++|.|++|+++|++||.|++
T Consensus         7 g~p~~~~lS~~La~~lg~~~~sR~~v~k~iw~YIk~n~Lqdp~nkr~I~cD~~L~~lfg~~~v~~~~l~~~L~~Hl~p~e   86 (93)
T d1uhra_           7 GQPPQFKLDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIFESQRMKFSEIPQRLHALLMPPE   86 (93)
T ss_dssp             SSCCEEEECTTHHHHTCCSEEEHHHHHHHHHHHHHHTTCBCSSCSSEECCCTTHHHHTCCSSEEGGGSHHHHHHHEECSS
T ss_pred             CCCCCCCCCHHHHHHHCCCCcCHHHHHHHHHHHHHHhcCCCCCCCCEEecCHHHHHHhCCCeecHHHHHHHHHhhCCCCC
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             Cc
Q 009056          405 PI  406 (545)
Q Consensus       405 PI  406 (545)
                      |.
T Consensus        87 P~   88 (93)
T d1uhra_          87 PS   88 (93)
T ss_dssp             CC
T ss_pred             CC
Confidence            96
>d1v31a_ a.42.1.1 (A:) Hypothetical protein AT5G14170 (rafl11-05-p19) {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
>d1v32a_ a.42.1.1 (A:) Hypothetical protein AT5G08430 (rafl09-47-k03) {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
>d1ttva_ a.42.1.1 (A:) MDM2 {African clawed frog (Xenopus laevis) [TaxId: 8355]} Back     information, alignment and structure
>d2axia1 a.42.1.1 (A:25-109) MDM2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure