Citrus Sinensis ID: 012334

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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-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460------
Protein Sequence
MAAKSPVKEPPGTSAVNPTTPLAPPPVKPELPSSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKTLKWEDKETKSSAASAESSSALKETSKRLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQAAFLSALAGVEIAEVAARAAVTTLSDVDDRASKGSLMRNTRQQEAGVASNGDATQNALARASVDASSLIEKEELDVEKAISGIVEVQMKEIQDKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLFHKSNARKNGDRTEENVKTDVS
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccEEccccccccccccccHHHHHHcHHHcccccccccHHHHHHHHHHHHHHHHHcccccEEHHHHHHHHcccHHHHHHHHHHHHHHccccccccccccccccccccccccccccHHHHHHHcccccccccccccHHHHcccccccccccccccccccccccccccccHHHccccccccccHHHHHHHHHHHHHHcccHHHHHHHHccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccHHHHHHHHHHHHHHHccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccccccccEEEEcccccHcccccHHHHHHHHcHHHHccccccccHHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHHHHHHHHHHHHHHEEEEEEEEEEccccEEEEEEEEEEHHHHHHHHccccccccccccccHHccccHHccccccccccHHHcccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccHHHHHHHHccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHcHHcccHHHHHHHccccHHHHHccccccccHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHcHHHcccccccc
Coil and Loop (DISEMBL)
maakspvkeppgtsavnpttplapppvkpelpsssepdvvnvpsysrwfsfdsisecevkflpeffdsrspsknprvyrYYRDSIVKHyrenpsrkitftDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKtlkwedketkssaasaesSSALKETSKRLCNGCktlctiacfacdkydltlcarcyvrgnhrvgvsssdfrrveiseearsdwtEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFiklpfgqefickesdsedvdnkffsinnpsdavsesenvgatspskrmrltpladasnpIMAQAAFLSALAGVEIAEVAARAAVTTlsdvddraskgslmrntrqqeagvasngdaTQNALARASVDASSLIEKEELDVEKAISGIVEVQMKEIQDKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLFHksnarkngdrteenvktdvs
Flexible Loop (DISEMBL)
maakspvkeppgtsavnpttplapPPVKPELPSSSEPDVVNVPSYSRWFSFDSISECEVKFLpeffdsrspsknprvYRYYRDSivkhyrenpsrkitftdvrrtlvgdvgSIRRVFDFLETWGLINYFASVKTLKWEDKETkssaasaesssalkETSKRLCNGCKTLCTIACFACDKYDLTLCARCYVRgnhrvgvsssdfrrveiseearsdwtekeTLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSinnpsdavsesenvgatspskrmrLTPLADASNPIMAQAAFLSALAGVEIAEVAARAAvttlsdvddraskgslmrntrqqeagvasngdaTQNALARASVDASSLIEKEELDVEKAISGIVEVQMKEIQDKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLfhksnarkngdrteenvktdvs
Low Complexity Region (SEG)
MAAKSPVKEPPGTSavnpttplapppvkpelpsssepDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKTLKWedketkssaasaesssalketskRLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQAAFLSALagveiaevaaraavTTLSDVDDRASKGSLMRNTRQQEAGVASNGDATQNALARASVDASSLIEKEELDVEKAISGIVEVQMKEIQDKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLFHKSNARKNGDRTEENVKTDVS
Disordered region (IsUnstruct)
***************************************VNVPSYSRWFSFDSISECEVKFLPEFFD*******PRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKTLKW***********************RLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEI******DWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICK***********************************************IMAQAAFLSALAGVEIAEVAARAAVTTL*************************************************LDVEKAISGIVEVQMKEIQDKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLFH********************
Disordered Region (DISOPRED)
***************************************VNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKTLKWEDKETKSSAASAESSSALKETSKRLCNGCKTLCTIACFACDKYDLTLCARCY*******************SE*A**DWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFI*********************************************************************************************************************************EKAISGIVEVQMKEIQDKIIRFESLDLQMEEEWK**EQVKNLLFVDQLS************************
Disordered Region (DISEMBL)
****************NPTTPLAP**************VVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKTLKW*********************SKRLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSD**************KRMRLTPLADASNPIMAQAAFLSALAGVEIAEVAARAAVTTLSDVDDRASKGSLMRN**************TQNALARASVDASSLIEKEELDVEKAISGIVEVQMKEIQDKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLFHKSNAR***************
Disordered Region (DISPRO)
*********************************SSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKTLKWEDKETKSSAASAESSSALKETSKRLCNGCKTLCTIACFACDKYDLTLCARCYVRG*********************SDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFIC**********************************KRMRLTPLADASNPIMAQAAFLSALAGVEIAEVAARAAVTTLSDVDDRA**GS******************************SSLIEKEELDVEKAISGIVEVQMKEIQDKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLFHKSN*****************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAAKSPVKEPPGTSAVNPTTPLAPPPVKPELPSSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKTLKWEDKETKSSAASAESSSALKETSKRLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQAAFLSALAGVEIAEVAARAAVTTLSDVDDRASKGSLMRNTRQQEAGVASNGDATQNALARASVDASSLIEKEELDVEKAISGIVEVQMKEIQDKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLFHKSNARKNGDRTEENVKTDVS
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	466	2.2.26 [Sep-21-2011]
Q84JG2	469	SWI/SNF complex subunit S	yes	no	0.974	0.968	0.591	1e-149
Q9XI07	807	SWI/SNF complex subunit S	no	no	0.877	0.506	0.259	8e-42
Q8W475	512	SWI/SNF complex subunit S	no	no	0.866	0.789	0.286	4e-39
P32591	825	SWI/SNF complex subunit S	yes	no	0.826	0.466	0.246	2e-35
O14470	503	SWI/SNF and RSC complexes	yes	no	0.766	0.709	0.258	3e-33
Q8TAQ2	1214	SWI/SNF complex subunit S	yes	no	0.633	0.242	0.289	1e-30
Q6PDG5	1213	SWI/SNF complex subunit S	yes	no	0.633	0.243	0.289	1e-30
P43609	557	Chromatin structure-remod	no	no	0.482	0.403	0.298	1e-27
P97496	1104	SWI/SNF complex subunit S	no	no	0.688	0.290	0.276	7e-25
Q92922	1105	SWI/SNF complex subunit S	no	no	0.542	0.228	0.287	1e-24

>sp|Q84JG2|SWI3B_ARATH SWI/SNF complex subunit SWI3B OS=Arabidopsis thaliana GN=SWI3B PE=1 SV=1

 Score =  527 bits (1358), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 279/472 (59%), Positives = 355/472 (75%), Gaps = 18/472 (3%)

Query: 1   MAAKSPVKEPPGTSAVNPTTP---------LAPPPVKPELPSSS-EPDVVNVPSYSRWFS 50
           MA K+P  +P G+  + P+TP          A      +LPSSS + D ++VPSYS WFS
Sbjct: 1   MAMKAP--DPGGSGEILPSTPSLSETTSGGAAAASKSAQLPSSSSDIDNIHVPSYSSWFS 58

Query: 51  FDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDV 110
           +  I++CEV+ LPEFFDSRS SKNP+ Y Y R+SI+K YR++  RKI+FTDVRRTLV DV
Sbjct: 59  WTDINDCEVRSLPEFFDSRSSSKNPKFYLYLRNSIIKQYRDDHPRKISFTDVRRTLVSDV 118

Query: 111 GSIRRVFDFLETWGLINY--FASVKTLKWEDKETKSSA--ASAESSSALKETSKRLCNGC 166
            SIRRVFDFL++WGLINY   AS K LKWE+KE   SA  A++E ++ +KET+KR CNGC
Sbjct: 119 VSIRRVFDFLDSWGLINYNSSASAKPLKWEEKEAGKSAGDAASEPATTVKETAKRNCNGC 178

Query: 167 KTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLE 226
           K +C+IACFACDKYDLTLCARCYVR N+RVG++SS+F+RVEISEE++ +W++KE L LLE
Sbjct: 179 KAICSIACFACDKYDLTLCARCYVRSNYRVGINSSEFKRVEISEESKPEWSDKEILLLLE 238

Query: 227 AIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDA 286
           A+MH+GDDW+KVA HV G++EKDC++ F+KLPFG++F+ KESDSED    F  I +    
Sbjct: 239 AVMHYGDDWKKVASHVIGRTEKDCVSQFVKLPFGEQFV-KESDSEDGLEMFDQIKDSDIP 297

Query: 287 VSESENVGATSPSKRMRLTPLADASNPIMAQAAFLSALAGVEIAEVAARAAVTTLSDVDD 346
            SE  +   +SP+KR++LTPLADASNPIMAQAAFLSALAG  +AE AARAAV  LSDVD 
Sbjct: 298 ESEGIDKDGSSPNKRIKLTPLADASNPIMAQAAFLSALAGTNVAEAAARAAVRALSDVDY 357

Query: 347 RASKGSLMRNTRQQEAGVASNGDATQNALARASVDASSLIEKEELDVEKAISGIVEVQMK 406
            A K +  R+  +Q+A  AS+G+ T+N   RA  DA SLIEKEE +VE AI   VEV+MK
Sbjct: 358 EADKNA-SRDPNRQDANAASSGETTRNESERAWADAKSLIEKEEHEVEGAIKETVEVEMK 416

Query: 407 EIQDKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLFHKSNARKNGDRTE 458
           +I+D+I+ FE LDL+ME   KQLE+V+NLLFVDQL++ FH   ARK  DR E
Sbjct: 417 KIRDRIVHFEKLDLEMERSRKQLEEVRNLLFVDQLNIFFHTRKARKTEDRIE 468

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

>sp|Q9XI07|SWI3C_ARATH SWI/SNF complex subunit SWI3C OS=Arabidopsis thaliana GN=SWI3C PE=1 SV=1

 Score =  171 bits (434), Expect = 8e-42,   Method: Compositional matrix adjust.
 Identities = 128/493 (25%), Positives = 228/493 (46%), Gaps = 84/493 (17%)

Query: 22  LAPPPV-KPELPSSSEPDVVNV-PSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYR 79
           ++PPP+   E       D+V+V P +S WF+ +++   E + +P+FF  +SP+  P  Y 
Sbjct: 156 ISPPPIMDGEGVVKRFGDLVHVLPMHSDWFAPNTVDRLERQVVPQFFSGKSPNHTPESYM 215

Query: 80  YYRDSIVKHYRENPSRKITFTDVRRTLVG-DVGSIRRVFDFLETWGLINYFASVKT---- 134
            +R++IV  Y ENP + +T +D +  + G D+    RVF FL+ WG+INY A+ ++    
Sbjct: 216 EFRNAIVSKYVENPEKTLTISDCQGLVDGVDIEDFARVFRFLDHWGIINYCATAQSHPGP 275

Query: 135 ----------------------------LKWEDKETKSSAASAESS-SALKETSKRL--- 162
                                       +K++    +       SS  +L   S  L   
Sbjct: 276 LRDVSDVREDTNGEVNVPSAALTSIDSLIKFDKPNCRHKGGEVYSSLPSLDGDSPDLDIR 335

Query: 163 ---------CNGC-KTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVE----I 208
                    CN C + L T+   +  K D+ LC  C+  G   VG S  DF RV+     
Sbjct: 336 IREHLCDSHCNHCSRPLPTVYFQSQKKGDILLCCDCFHHGRFVVGHSCLDFVRVDPMKFY 395

Query: 209 SEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEF----- 263
            ++   +WT++ETL LLEA+  + ++W ++A HV  KS+  CI HF++LP          
Sbjct: 396 GDQDGDNWTDQETLLLLEAVELYNENWVQIADHVGSKSKAQCILHFLRLPVEDGLLDNVE 455

Query: 264 ICKESDSEDVDNKFFSINNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQAAFLSA 323
           +   +++E+  N +   +  +D+  +            ++L P   + NP+MA  AFL++
Sbjct: 456 VSGVTNTENPTNGY--DHKGTDSNGDLPGYSEQGSDTEIKL-PFVKSPNPVMALVAFLAS 512

Query: 324 LAGVEIAEVAARAAVTTLSDVDDRASKG------SLMRNTRQQEAGV----ASNGDATQN 373
             G  +A   A  +++ LS+ D   S+G      SL+    QQ+ G     + NG   Q 
Sbjct: 513 AVGPRVAASCAHESLSVLSEDDRMKSEGMQGKEASLLDGENQQQDGAHKTSSQNGAEAQT 572

Query: 374 -------------ALARASVDASSLIEKEELDVEKAISGIVEVQMKEIQDKIIRFESLDL 420
                         L+ A+  A    + EE ++++  + IV  Q+K ++ K+ +F  ++ 
Sbjct: 573 PLPQDKVMAAFRAGLSAAATKAKLFADHEEREIQRLSANIVNHQLKRMELKLKQFAEIET 632

Query: 421 QMEEEWKQLEQVK 433
            + +E +Q+E+ +
Sbjct: 633 LLMKECEQVEKTR 645

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

Arabidopsis thaliana (taxid: 3702)

>sp|Q8W475|SWI3A_ARATH SWI/SNF complex subunit SWI3A OS=Arabidopsis thaliana GN=SWI3A PE=1 SV=1

 Score =  162 bits (411), Expect = 4e-39,   Method: Compositional matrix adjust.
 Identities = 142/495 (28%), Positives = 237/495 (47%), Gaps = 91/495 (18%)

Query: 34  SSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENP 93
           S+E ++  +P+ S WF +D I E E +   EFF   S ++ P+VY+ YRD I+  +RE+ 
Sbjct: 7   SAEIELYTIPAQSSWFLWDDIHEIERREFAEFFTESSITRTPKVYKEYRDFIINKFREDT 66

Query: 94  SRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKT------------------- 134
            R++TFT VR+ LVGDV  +++VF FLE WGLIN+ +S+K                    
Sbjct: 67  CRRLTFTSVRKFLVGDVNLLQKVFLFLEKWGLINFSSSLKKNDHLLSVDNAKIEQGTPAG 126

Query: 135 -----------------LKWEDKETKSSAASAESSSALKETSKR-----LCNGCKTLCTI 172
                            L  E  ET        S S +    K+     +C  C   C  
Sbjct: 127 IRVTATPNSLRPITAPPLVEERVETGIKVPPLTSYSDVFSDLKKPDHVLVCAHCGERCDS 186

Query: 173 ACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFG 232
             +  +K  + +C +C+  GN+    ++ DF+   I   A + WTE+E L LLE+++  G
Sbjct: 187 PFYQHNKGIVNICEKCFKNGNYGENNTADDFKL--IGNSAAAVWTEEEILLLLESVLKHG 244

Query: 233 DDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESD-------SEDVDNKFFSINNP-- 283
           DDW  ++Q VS KS  DCI+  I+LPFG+  +   S        +ED + +    +    
Sbjct: 245 DDWELISQSVSTKSRLDCISKLIELPFGEFLMGSASGRLNPSILTEDENTEQVQTDGQEH 304

Query: 284 ---------SDAVSESENVGATSPSKRMRLTPLADASNPIMAQAAFLSALAGVEIAEVAA 334
                     D V+E E      P+KR R+  +++  + +M Q A +++  G  +A  AA
Sbjct: 305 EETETREEKEDRVNEDE-----PPAKRKRVALISEGDSSLMKQVAAMASKVGPSVATAAA 359

Query: 335 RAAVTT----------LSDVDDRAS----KGSLMRNTRQQEAGVASNG-DATQNAL-ARA 378
           +AA+            + D DD ++    + +  ++T  +E     +G      AL  RA
Sbjct: 360 KAALAALCDEASCPKEIFDTDDYSNFTVDRANGEKDTDMEEQQEEKDGPQGLPVALRIRA 419

Query: 379 SVDASS---------LIEKEELDVEKAISGIVEVQMKEIQDKIIRFESLDLQMEEEWKQL 429
           SV  +          L ++EE ++E+  + ++E Q+K++Q K+   + L+  M+EE K +
Sbjct: 420 SVATALGAAAAQAKILADQEEREMEQLAATVIEQQLKKLQSKLKFLDDLESIMDEEEKVI 479

Query: 430 EQVKNLLFVDQLSVL 444
           E VK  +  +++SVL
Sbjct: 480 EGVKETIIQERVSVL 494

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

Arabidopsis thaliana (taxid: 3702)

>sp|P32591|SWI3_YEAST SWI/SNF complex subunit SWI3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SWI3 PE=1 SV=1

 Score =  150 bits (380), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 113/459 (24%), Positives = 200/459 (43%), Gaps = 74/459 (16%)

Query: 30  ELPSSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHY 89
           E+P + E   + +PSYS+WF+ + I   EV+ LPEFF +R PSK P VY  YR+ +V  Y
Sbjct: 298 EIPQAHE---IVIPSYSKWFNLEKIHSIEVQSLPEFFTNRIPSKTPEVYMRYRNFMVNSY 354

Query: 90  RENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKTLKWEDKETKSSAASA 149
           R NP+   + T  RR + GD  ++ R+  FL  WGLINY    K L    +   +S  S 
Sbjct: 355 RLNPNEYFSVTTARRNVSGDAAALFRLHKFLTKWGLINYQVDSKLLPKNIEPPLTSQYST 414

Query: 150 --------------ESSSALKETS--KRLCNGCKTLCTIACFACD---KYDLTLCARCYV 190
                         + S  L + +  K++ N   +  T+  +  +   KYD         
Sbjct: 415 RHDAPRGLFPFESYKPSVQLPDMAKLKKMMNTSDSESTLYKYLKESKRKYDEITHPPSTT 474

Query: 191 ------------RGNHRVGVSSS---------------DFRRVEISEEARSDWTEKETLQ 223
                       + N+ V  S+S                 ++V+I E+   +W++++  +
Sbjct: 475 DDENGDKNDNGGKMNNEVSTSTSMTGDANLLEEGETSRPLKKVKILEQIDENWSKEDLQK 534

Query: 224 LLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNP 283
           LL+ I  FG DW KVA++V  KS + CI  F++LP   +F+                   
Sbjct: 535 LLKGIQEFGADWYKVAKNVGNKSPEQCILRFLQLPIEDKFLY------------------ 576

Query: 284 SDAVSESENVGATSPSKRMRLTPLADASNPIMAQAAFLSALAGVEIAEVAARAAVTTLSD 343
            D   + +N     P K     P + + NP+++  AFL  L   +  +   + A+ +   
Sbjct: 577 GDGNGKGDNDNGLGPLKYAPHLPFSKSENPVLSTIAFLVGLVNPKTVQSMTQRAIQSAES 636

Query: 344 VDDRASKGSLMRNTRQQEAGVASNGDATQNALARASVDASSLIEKEELDVEKAISGIVEV 403
           +  +  + S  +     + G       ++ A++     +      EE  +    + ++ +
Sbjct: 637 IKSQKEEISDQKPIEHIKEG-------SEIAISSLGYRSHIFATNEERQMNFLTNELIRL 689

Query: 404 QMKEIQDKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLS 442
           QM+++  K+   + L+  ME E K LE+ +  L + +L+
Sbjct: 690 QMEKLDAKLNHLKKLEKFMELERKTLERQQENLLIQRLN 728

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

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

>sp|O14470|SSR2_SCHPO SWI/SNF and RSC complexes subunit ssr2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ssr2 PE=1 SV=3

 Score =  143 bits (360), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 118/457 (25%), Positives = 196/457 (42%), Gaps = 100/457 (21%)

Query: 40  VNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITF 99
           + VPSY+ WF    I + E +  PEFF+ +SP K P +Y+ YRD ++  YR  P+  +T 
Sbjct: 18  IIVPSYAGWFDMSKIHDIERRSNPEFFNGKSPLKTPSIYKDYRDFMINSYRLEPNEYLTV 77

Query: 100 TDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKT------------------------- 134
           T  RR LVGDV +I RV  FLE WGLINY    +T                         
Sbjct: 78  TACRRNLVGDVCAIIRVHAFLEQWGLINYQIDPETRPAFRLPPISGHVQAISNTPIVTQE 137

Query: 135 -------------------LKWEDKETKSSAASAESSSALKETSK--------RLCNGCK 167
                              +K E+K    S  + E +S  +E  K        ++C  C 
Sbjct: 138 MLAQHPPPSTVGGSSSQEFVKLEEKHYSPSLNAMEQTSPKEEDEKSDKVPRVDKVCFTCG 197

Query: 168 TLCTIACF---ACDKYDLTLCARCYVRGNHRVGVSSSD---FRRVEISEEARSDWTEKET 221
             C+   +      KYD  +C  CY +G      +SSD      ++ + +    W+ +ET
Sbjct: 198 VNCSQTWYHNLKNKKYD--ICPNCYKQGRFSSSFNSSDFLCMDAIDFNHDEEKPWSNQET 255

Query: 222 LQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSIN 281
           L LLEAI  +GDDW ++A HV  ++++ C+ HF+++P                     I 
Sbjct: 256 LLLLEAIETYGDDWNQIALHVGSRTKEQCLIHFLQIP---------------------IE 294

Query: 282 NPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQAAFLSALAGVEIAEVAARAAVTTL 341
           +P     +    G  SP K+  L P  +  NP+++   +L+++    + E     +V   
Sbjct: 295 DPYRQKLQ----GDFSPFKKGFL-PFDENENPVLSTLTYLASIVQQGMKERKQNESVKQ- 348

Query: 342 SDVDDRASKGSLMRNTRQQEAGVASNGDATQNALARASVDASSLIEKEELDVEKAISGIV 401
               + +   S  +N  ++ A           AL  A+  A  +   E   + + +  ++
Sbjct: 349 ---GETSFGNSEFKNPLERVAYY---------ALKSAAQKAKLIAAFENRQLRRLVFSLI 396

Query: 402 EVQMKEIQDKIIRFESLDLQMEEEWKQLE-QVKNLLF 437
           + Q++++Q K+   E L+     E  +L+ + KNLL 
Sbjct: 397 QAQLEKLQLKMKVLEQLEKMCSLELSELDLRGKNLLL 433

Component of the chromatin structure remodeling complex (RSC), which is involved in transcription regulation and nucleosome positioning. Controls particularly membrane and organelle development genes. Part of the SWI/SNF complex, an ATP-dependent chromatin remodeling complex, required for the positive and negative regulation of gene expression of a large number of genes. It changes chromatin structure by altering DNA-histone contacts within a nucleosome, leading eventually to a change in nucleosome position, thus facilitating or repressing binding of gene-specific transcription factors.

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

>sp|Q8TAQ2|SMRC2_HUMAN SWI/SNF complex subunit SMARCC2 OS=Homo sapiens GN=SMARCC2 PE=1 SV=1

 Score =  135 bits (339), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 98/338 (28%), Positives = 157/338 (46%), Gaps = 43/338 (12%)

Query: 42  VPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTD 101
           +PSY+ WF ++S+   E + LPEFF+ ++ SK P +Y  YR+ ++  YR NP   +T T 
Sbjct: 426 IPSYAAWFDYNSVHAIERRALPEFFNGKNKSKTPEIYLAYRNFMIDTYRLNPQEYLTSTA 485

Query: 102 VRRTLVGDVGSIRRVFDFLETWGLINYF--ASVKTLKWEDKETKSSAASAESSSALKETS 159
            RR L GDV +I RV  FLE WGLINY   A  +        T      A++ S L    
Sbjct: 486 CRRNLAGDVCAIMRVHAFLEQWGLINYQVDAESRPTPMGPPPTSHFHVLADTPSGLVPLQ 545

Query: 160 KRLCNGCKTLCTIACF-------ACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEA 212
            +          +  F         D  +  L    Y + N    V S    + + +  A
Sbjct: 546 PKTPQQTSASQQMLNFPDKGKEKPTDMQNFGLRTDMYTKKN----VPS----KSKAAASA 597

Query: 213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSED 272
             +WTE+ETL LLEA+  + DDW KV++HV  +++ +CI HF++LP    ++    DSE 
Sbjct: 598 TREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLRLPIEDPYL---EDSE- 653

Query: 273 VDNKFFSINNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQAAFLSALAGVEIAEV 332
                              ++G  +     +  P + + NP+M+  AFL+++    +A  
Sbjct: 654 ------------------ASLGPLA----YQPIPFSQSGNPVMSTVAFLASVVDPRVASA 691

Query: 333 AARAAVTTLSDVDDRASKGSLMRNTRQQEAGVASNGDA 370
           AA++A+   S + +      +  + R+ E      G A
Sbjct: 692 AAKSALEEFSKMKEEVPTALVEAHVRKVEEAAKVTGKA 729

Involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). Can stimulate the ATPase activity of the catalytic subunit of these complexes. May be required for CoREST dependent repression of neuronal specific gene promoters in non-neuronal cells. 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.

Homo sapiens (taxid: 9606)

>sp|Q6PDG5|SMRC2_MOUSE SWI/SNF complex subunit SMARCC2 OS=Mus musculus GN=Smarcc2 PE=1 SV=2

 Score =  134 bits (338), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 98/338 (28%), Positives = 157/338 (46%), Gaps = 43/338 (12%)

Query: 42  VPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTD 101
           +PSY+ WF ++S+   E + LPEFF+ ++ SK P +Y  YR+ ++  YR NP   +T T 
Sbjct: 426 IPSYAAWFDYNSVHAIERRALPEFFNGKNKSKTPEIYLAYRNFMIDTYRLNPQEYLTSTA 485

Query: 102 VRRTLVGDVGSIRRVFDFLETWGLINYF--ASVKTLKWEDKETKSSAASAESSSALKETS 159
            RR L GDV +I RV  FLE WGLINY   A  +        T      A++ S L    
Sbjct: 486 CRRNLAGDVCAIMRVHAFLEQWGLINYQVDAESRPTPMGPPPTSHFHVLADTPSGLVPLQ 545

Query: 160 KRLCNGCKTLCTIACF-------ACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEA 212
            +          +  F         D  +  L    Y + N    V S    + + +  A
Sbjct: 546 PKPPQQSSASQQMLNFPEKGKEKPADMQNFGLRTDMYTKKN----VPS----KSKAAASA 597

Query: 213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSED 272
             +WTE+ETL LLEA+  + DDW KV++HV  +++ +CI HF++LP    ++    DSE 
Sbjct: 598 TREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLRLPIEDPYL---EDSE- 653

Query: 273 VDNKFFSINNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQAAFLSALAGVEIAEV 332
                              ++G  +     +  P + + NP+M+  AFL+++    +A  
Sbjct: 654 ------------------ASLGPLA----YQPIPFSQSGNPVMSTVAFLASVVDPRVASA 691

Query: 333 AARAAVTTLSDVDDRASKGSLMRNTRQQEAGVASNGDA 370
           AA++A+   S + +      +  + R+ E      G A
Sbjct: 692 AAKSALEEFSKMKEEVPTALVEAHVRKVEEAAKVTGKA 729

Involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). Can stimulate the ATPase activity of the catalytic subunit of these complexes. May be required for CoREST dependent repression of neuronal specific gene promoters in non-neuronal cells. 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.

Mus musculus (taxid: 10090)

>sp|P43609|RSC8_YEAST Chromatin structure-remodeling complex protein RSC8 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RSC8 PE=1 SV=1

 Score =  125 bits (313), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 85/285 (29%), Positives = 125/285 (43%), Gaps = 60/285 (21%)

Query: 40  VNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITF 99
           V +PS++ WF    I E E +  P+FF+  S  K P+ Y+  R+ I+  YR +P   +T 
Sbjct: 80  VIIPSFASWFDISKIHEIEKRSNPDFFNDSSRFKTPKAYKDTRNFIINTYRLSPYEYLTI 139

Query: 100 TDVRRTLVGDVGSIRRVFDFLETWGLINY------------------------------- 128
           T VRR +  DV SI ++  FLE WGLINY                               
Sbjct: 140 TAVRRNVAMDVASIVKIHAFLEKWGLINYQIDPRTKPSLIGPSFTGHFQVVLDTPQGLKP 199

Query: 129 FASVKTLKWE-----------DKE-------TKSSAASAESSSALKETSKR--------L 162
           F     +K E            KE        K+   SA+  +AL++ S+         +
Sbjct: 200 FLPENVIKQEVEGGDGAEPQVKKEFPVNLTIKKNVYDSAQDFNALQDESRNSRQIHKVYI 259

Query: 163 CNGCKT-LCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEIS-EEARSDWTEKE 220
           C+ C      +        D  LC+RC+  G+      SSDF R+E +    + +W+++E
Sbjct: 260 CHTCGNESINVRYHNLRARDTNLCSRCFQEGHFGANFQSSDFIRLENNGNSVKKNWSDQE 319

Query: 221 TLQLLEAIMHFGDDWRKVAQHVSG-KSEKDCITHFIKLPFGQEFI 264
            L LLE I  + D W K+A HV G K  +DCI  F+ LP    +I
Sbjct: 320 MLLLLEGIEMYEDQWEKIADHVGGHKRVEDCIEKFLSLPIEDNYI 364

Component of the chromatin structure-remodeling complex (RSC), which is involved in transcription regulation and nucleosome positioning. RSC is responsible for the transfer of a histone octamer from a nucleosome core particle to naked DNA. The reaction requires ATP and involves an activated RSC-nucleosome intermediate. Remodeling reaction also involves DNA translocation, DNA twist and conformational change. As a reconfigurer of centromeric and flanking nucleosomes, RSC complex is required both for proper kinetochore function in chromosome segregation and, via a PKC1-dependent signaling pathway, for organization of the cellular cytoskeleton. This subunit is essential for mitotic growth and for repression of CHA1 expression.

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

>sp|P97496|SMRC1_MOUSE SWI/SNF complex subunit SMARCC1 OS=Mus musculus GN=Smarcc1 PE=1 SV=2

 Score =  115 bits (288), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 98/354 (27%), Positives = 161/354 (45%), Gaps = 33/354 (9%)

Query: 42  VPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTD 101
           +PSY+ WF ++ I   E + LPEFF+ ++ SK P +Y  YR+ ++  YR NP   +T T 
Sbjct: 450 IPSYASWFDYNCIHVIERRALPEFFNGKNKSKTPEIYLAYRNFMIDTYRLNPQEYLTSTA 509

Query: 102 VRRTLVGDVGSIRRVFDFLETWGLINYFASVKT--LKWEDKETKSSAASAESSSALKETS 159
            RR L GDV ++ RV  FLE WGL+NY    ++  +      T      A++ S L    
Sbjct: 510 CRRNLTGDVCAVMRVHAFLEQWGLVNYQVDPESRPMAMGPPPTPHFNVLADTPSGLVPLH 569

Query: 160 KRLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEK 219
            R          +  F     +  +  + +     R  + S           A  +WTE+
Sbjct: 570 LR-SPQVPAAQQMLNFPEKNKEKPIDLQNF---GLRTDIYSKKTLAKSKGASAGREWTEQ 625

Query: 220 ETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFS 279
           ETL LLEA+  + DDW KV++HV  +++ +CI HF++LP    ++               
Sbjct: 626 ETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLRLPIEDPYL--------------- 670

Query: 280 INNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQAAFLSALAGVEIAEVAARAAVT 339
                      EN  A+      +  P + + NP+M+  AFL+++    +A  AA+AA+ 
Sbjct: 671 -----------ENSDASLGPLAYQPVPFSQSGNPVMSTVAFLASVVDPRVASAAAKAALE 719

Query: 340 TLSDVDDRASKGSLMRNTRQ-QEAGVASNGDATQNALARASVDASSLIEKEELD 392
             S V +      +  + ++ QEA  AS        L  + +  +   E E+L+
Sbjct: 720 EFSRVREEVPLELVEAHVKKVQEAARASGKVDPTYGLESSCIAGTGPDEPEKLE 773

Involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). May stimulate the ATPase activity of the catalytic subunit of the complex. 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|Q92922|SMRC1_HUMAN SWI/SNF complex subunit SMARCC1 OS=Homo sapiens GN=SMARCC1 PE=1 SV=3

 Score =  114 bits (286), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 82/285 (28%), Positives = 132/285 (46%), Gaps = 32/285 (11%)

Query: 42  VPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTD 101
           +PSY+ WF ++ I   E + LPEFF+ ++ SK P +Y  YR+ ++  YR NP   +T T 
Sbjct: 451 IPSYASWFDYNCIHVIERRALPEFFNGKNKSKTPEIYLAYRNFMIDTYRLNPQEYLTSTA 510

Query: 102 VRRTLVGDVGSIRRVFDFLETWGLINYFASVKT--LKWEDKETKSSAASAESSSALKETS 159
            RR L GDV ++ RV  FLE WGL+NY    ++  +      T      A++ S L    
Sbjct: 511 CRRNLTGDVCAVMRVHAFLEQWGLVNYQVDPESRPMAMGPPPTPHFNVLADTPSGLVPLH 570

Query: 160 KRLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEK 219
            R          +  F     +  +  + +     R  + S           A  +WTE+
Sbjct: 571 LR-SPQVPAAQQMLNFPEKNKEKPVDLQNF---GLRTDIYSKKTLAKSKGASAGREWTEQ 626

Query: 220 ETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFS 279
           ETL LLEA+  + DDW KV++HV  +++ +CI HF++LP    ++               
Sbjct: 627 ETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLRLPIEDPYL--------------- 671

Query: 280 INNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQAAFLSAL 324
                      EN  A+      +  P + + NP+M+  AFL+++
Sbjct: 672 -----------ENSDASLGPLAYQPVPFSQSGNPVMSTVAFLASV 705

Involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). May stimulate the ATPase activity of the catalytic subunit of the complex. 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.

Homo sapiens (taxid: 9606)

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	466
225457648	492	PREDICTED: SWI/SNF complex subunit SWI3B	0.993	0.941	0.606	1e-165
224061835	500	chromatin remodeling complex subunit [Po	0.980	0.914	0.607	1e-158
255576209	482	DNA binding protein, putative [Ricinus c	0.924	0.894	0.631	1e-154
356517915	491	PREDICTED: SWI/SNF complex subunit SWI3B	0.942	0.894	0.626	1e-153
356508475	484	PREDICTED: SWI/SNF complex subunit SWI3B	0.909	0.876	0.620	1e-148
30685774	469	SWI/SNF complex subunit SWI3B [Arabidops	0.974	0.968	0.591	1e-147
297823155	468	ATSWI3B [Arabidopsis lyrata subsp. lyrat	0.974	0.970	0.590	1e-145
449455734	493	PREDICTED: SWI/SNF complex subunit SWI3B	0.914	0.864	0.565	1e-139
449485249	555	PREDICTED: SWI/SNF complex subunit SWI3B	0.914	0.767	0.565	1e-139
357467183	483	SWI/SNF complex subunit SMARCC2 [Medicag	0.905	0.873	0.575	1e-134

>gi|225457648|ref|XP_002275451.1| PREDICTED: SWI/SNF complex subunit SWI3B [Vitis vinifera] gi|297745602|emb|CBI40767.3| unnamed protein product [Vitis vinifera]

 Score =  588 bits (1517), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 299/493 (60%), Positives = 377/493 (76%), Gaps = 30/493 (6%)

Query: 1   MAAKSPVKEPPG------------TSAVNPTT----PLAPP--PVKPELPSSSEPDVVNV 42
           MAA+SP+K+P G            +S++ PT     P+A    P    +P +SEP+ +N+
Sbjct: 1   MAAQSPIKDPIGASTETLTQQPDSSSSIIPTVKSEIPVAASASPSVGIVPRASEPETINI 60

Query: 43  PSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDV 102
           PSYSRWFS++++ ECEV+FLPEFFD+RSPSKNPRVY+YYR+SI+  +R+NPSRK+TFTDV
Sbjct: 61  PSYSRWFSWNNVHECEVRFLPEFFDARSPSKNPRVYKYYRNSIILSFRQNPSRKLTFTDV 120

Query: 103 RRTLVGDVGSIRRVFDFLETWGLINYFASV--KTLKWEDKETKSSAASAESSSALKET-- 158
           R+ LVGDVGSIRRVFDFLE WGLINY  S   + LKWE+K+ KS  AS+ +  A      
Sbjct: 121 RKILVGDVGSIRRVFDFLEAWGLINYSGSALKQPLKWEEKDNKSGGASSHTGDAGGGAVE 180

Query: 159 ---SKRLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSD 215
               +R C+GCK+LC+IACFACDK+DLTLCARCYVRGN+RVGV+SSDFRRVEISE+ ++ 
Sbjct: 181 SIPKRRWCSGCKSLCSIACFACDKFDLTLCARCYVRGNYRVGVNSSDFRRVEISEDTKAG 240

Query: 216 WTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDN 275
           WT+KETL LLEA++H+GDDW+KVA+HV G++EK+C+THFIKL FG++++   S S DVDN
Sbjct: 241 WTDKETLHLLEAVLHYGDDWKKVAEHVGGRNEKECVTHFIKLSFGEQYLGHTS-SGDVDN 299

Query: 276 KFFSINNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQAAFLSALAGVEIAEVAAR 335
           KF    + SDA    EN+G +S SK+MRLTPL+DASNPIMAQAAFLSAL GVE+AE AAR
Sbjct: 300 KFSQAKDQSDAGFGQENIGTSSASKKMRLTPLSDASNPIMAQAAFLSALVGVEVAEAAAR 359

Query: 336 AAVTTLSDVDDRASK---GSLMRNTRQQEAGVASNGDATQNALARASVDASSLIEKEELD 392
           AAV +LSDVD R  K   GS     R Q+  V SNG+ T N L  A VDA SL+E+EELD
Sbjct: 360 AAVASLSDVDPRKMKEGLGSFANGARIQDPNVESNGNTTSNVLEGAYVDAKSLLEREELD 419

Query: 393 VEKAISGIVEVQMKEIQDKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLFHKSNARK 452
           VE+AISGI EVQMKEI+DKI+ FE  +L ME+EW+QL+Q+KNLLFVDQL++LF K+ A K
Sbjct: 420 VERAISGITEVQMKEIRDKIVHFEEFELHMEKEWQQLQQMKNLLFVDQLTLLFQKAAAPK 479

Query: 453 NGD-RTEENVKTD 464
            G+    ENV+TD
Sbjct: 480 TGELMGGENVRTD 492

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224061835|ref|XP_002300622.1| chromatin remodeling complex subunit [Populus trichocarpa] gi|222842348|gb|EEE79895.1| chromatin remodeling complex subunit [Populus trichocarpa]

 Score =  563 bits (1450), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 308/507 (60%), Positives = 377/507 (74%), Gaps = 50/507 (9%)

Query: 1   MAAKSPVKEPPGTSAVNPTTPLAPPPVKPEL--PSSS--------------EPDVVNVPS 44
           MA+ SP   PP   +++P  PL+   VKPE+  P+++              EPDVV++PS
Sbjct: 1   MASVSPA--PP---SLHPKIPLSST-VKPEIQPPTTAAPSPRPPQPPPPSSEPDVVHIPS 54

Query: 45  YSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRR 104
           YSRWFS+D+I ECEV+FLPEFFDSRSPSKNP VY+YYR+SI+  +R+NPS K+TFT++R+
Sbjct: 55  YSRWFSWDNIHECEVRFLPEFFDSRSPSKNPSVYKYYRNSIISQFRKNPSAKLTFTEIRK 114

Query: 105 TLVGDVGSIRRVFDFLETWGLINYFASVKTLKWEDKETKSS---------------AASA 149
           TLVGDVGSIRRVFDFL+ WGLINY    K LKWED +  SS                A  
Sbjct: 115 TLVGDVGSIRRVFDFLDAWGLINYSPLNKQLKWEDGKDSSSKTAASPAGGGGGDGGTAGD 174

Query: 150 ESSSALKETSKRLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEIS 209
            ++S  K+  KRLC+GCK+LC+IACF CDKYD+TLCARCYVRGN+RVGVSSSDFRRVEIS
Sbjct: 175 ANASNTKDNCKRLCSGCKSLCSIACFFCDKYDITLCARCYVRGNYRVGVSSSDFRRVEIS 234

Query: 210 EEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESD 269
           EEAR+DWTEKETLQLLEA+MH+ DDW+KVAQHV G+SEKDCITHFIKLPFG+ F    +D
Sbjct: 235 EEARTDWTEKETLQLLEAVMHYRDDWKKVAQHVGGRSEKDCITHFIKLPFGEVFT-DYTD 293

Query: 270 SEDVDNKFFSINNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQAAFLSALAGVEI 329
             DVD+K+  I +  D  S     G+ S SK++RL+PL DASNPIMAQAAFLSALAG E+
Sbjct: 294 VGDVDSKYNQIKDCDDDESGRNGNGSPSTSKKIRLSPLVDASNPIMAQAAFLSALAGTEV 353

Query: 330 AEVAARAAVTTLSDVDDRASKGSL---MRNTRQQEAGVASNGDATQNALARASVDASSLI 386
           AE AARAAVTTL++V+   SKGSL    R T+  ++GVASNGD   +A  +A +DA+SL+
Sbjct: 354 AEAAARAAVTTLTEVEYGGSKGSLEFVSRVTKHLDSGVASNGDTNLSASVKACLDANSLL 413

Query: 387 EKEELDVEKAISGIVEVQMKEIQDKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLFH 446
           EKEE DVE+AIS I EVQMKEIQDKI+RFE LDLQME+EW+QL+Q+KNLLF DQLSVL  
Sbjct: 414 EKEESDVERAISRITEVQMKEIQDKILRFEELDLQMEKEWQQLDQMKNLLFADQLSVLSK 473

Query: 447 KS---------NARKNGDRTEENVKTD 464
           +S         +  K  +R +EN KTD
Sbjct: 474 RSVTTKIDERGSTLKAEERGDENAKTD 500

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255576209|ref|XP_002528998.1| DNA binding protein, putative [Ricinus communis] gi|223531538|gb|EEF33368.1| DNA binding protein, putative [Ricinus communis]

 Score =  551 bits (1419), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 293/464 (63%), Positives = 366/464 (78%), Gaps = 33/464 (7%)

Query: 10  PPGTSAVNPTTPLAPPPVKPELPSSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSR 69
           PP T+ V   TP  PPP       SS+ DVV++PSYSRWFS++SI ECEV+FLP+FFDSR
Sbjct: 43  PPSTNNV---TPRPPPP-------SSDADVVHIPSYSRWFSWNSIHECEVRFLPDFFDSR 92

Query: 70  SPSKNPRVYRYYRDSIVKHYREN-PSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINY 128
           SPSKNPRVY+YYR+SI+K +R+N PS KITFT+VR+TLVGDVGSIRRVFDFLE WGLINY
Sbjct: 93  SPSKNPRVYKYYRNSIIKCFRQNNPSVKITFTEVRKTLVGDVGSIRRVFDFLEAWGLINY 152

Query: 129 FASV--KTLKWEDKETKSSAA------SAESSSALKETSKRLCNGCKTLCTIACFACDKY 180
           F S   K LKWEDK+ KSSA+      SA+S+   ++ +KRLC+GC+++C+IACF CDK+
Sbjct: 153 FPSALSKPLKWEDKDAKSSASADVKGNSADSTPPKRDATKRLCSGCQSVCSIACFVCDKF 212

Query: 181 DLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQ 240
           DLTLCARCYVRG             + + EE RS+WTEKETLQLLEA+ HFGDDW+KVA 
Sbjct: 213 DLTLCARCYVRGT------------IALVEEIRSEWTEKETLQLLEAVTHFGDDWKKVAL 260

Query: 241 HVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDAVSESENVGATSPSK 300
           HV G+SE+DC++HFIKLPFG++F    +D  ++++K+  + + SDAV  SE++ ++S SK
Sbjct: 261 HVPGRSERDCVSHFIKLPFGEQF-AGYTDLGELNDKYDQVKDSSDAVCGSESIDSSSSSK 319

Query: 301 RMRLTPLADASNPIMAQAAFLSALAGVEIAEVAARAAVTTLSDVDDRASKGSLMRNTRQQ 360
           +MRLTPLADASNPIM QAAFLSALAG E+AE AARAAVT LS+   ++S GS  R+TR+Q
Sbjct: 320 KMRLTPLADASNPIMGQAAFLSALAGTEVAEAAARAAVTALSE-PSKSSLGSFSRSTREQ 378

Query: 361 EAGVASNGDATQNALARASVDASSLIEKEELDVEKAISGIVEVQMKEIQDKIIRFESLDL 420
            A  ASNG+A QN   R S+DA+SL+EKEELD E+AIS +VEVQ+KEIQDKIIRFE LDL
Sbjct: 379 GAIDASNGNAEQNGCERTSLDANSLLEKEELDAERAISRLVEVQLKEIQDKIIRFEKLDL 438

Query: 421 QMEEEWKQLEQVKNLLFVDQLSVLFHKSNARKNGDRTEENVKTD 464
            ME+EW+QLEQVKNLLFVDQL++LFHK +A K  +  EENV+T+
Sbjct: 439 LMEKEWQQLEQVKNLLFVDQLTLLFHKKSAPKTEEHVEENVRTE 482

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356517915|ref|XP_003527631.1| PREDICTED: SWI/SNF complex subunit SWI3B-like [Glycine max]

 Score =  548 bits (1412), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 289/461 (62%), Positives = 360/461 (78%), Gaps = 22/461 (4%)

Query: 23  APPPVKPELP-----SSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRV 77
           A   VKPE P     +S+E +V+ VPSYSRWFS+DSI ECEV+ LPEFF+S   SK+PRV
Sbjct: 31  AASAVKPEAPLSDSKASAEANVIVVPSYSRWFSWDSIDECEVRHLPEFFES--ASKSPRV 88

Query: 78  YRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFAS---VKT 134
           Y+YYR+SIVK++R NP+RKITFTDVR+TLVGDVGSIRRVFDFLETWGLINY  S    K 
Sbjct: 89  YKYYRNSIVKYFRYNPTRKITFTDVRKTLVGDVGSIRRVFDFLETWGLINYHPSSSLTKP 148

Query: 135 LKWEDKETKSSAAS--AESSSA-LKETSKRLCNGCKTLCTIACFACDKYDLTLCARCYVR 191
           LKW+DKETKS +AS   ESSSA  KE +KRLC+GCK +CTIACFACDKYDLTLCARCYVR
Sbjct: 149 LKWDDKETKSDSASNTTESSSAPAKENTKRLCSGCKVVCTIACFACDKYDLTLCARCYVR 208

Query: 192 GNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCI 251
           GN+RVGV+SSDFRRVEISEE ++DW EKET  LLEAI H+ DDW++V+QHV G++EK+C+
Sbjct: 209 GNYRVGVNSSDFRRVEISEETKTDWNEKETTNLLEAITHYSDDWKRVSQHVPGRTEKECV 268

Query: 252 THFIKLPFGQEFICKE-----SDSEDVDNKFFSINNPSDAVSESENVGATSPSKRMRLTP 306
            HF+KLPF  +F   +     + ++D  N    + N +DA SE + V +  P+KRMRLTP
Sbjct: 269 AHFLKLPFVDQFQHYQQHPAVNGTDDSCNPLKRVTN-ADAESELDTVASAEPNKRMRLTP 327

Query: 307 LADASNPIMAQAAFLSALAGVEIAEVAARAAVTTLSDV--DDRASKGSLMRNTRQQEAGV 364
           LADASNPIMAQAAFLSALAG E+A+ AA+AA+TTLS+V    + +  S  RNT  Q+AG+
Sbjct: 328 LADASNPIMAQAAFLSALAGSEVAQAAAQAALTTLSEVYKATKINYRSFPRNTLLQDAGI 387

Query: 365 ASNGDATQNALARASVDASSLIEKEELDVEKAISGIVEVQMKEIQDKIIRFESLDLQMEE 424
            SNG  T ++   + + A+  +EKEELDVEKAIS I+EVQMK IQDK+++FE LDL ME+
Sbjct: 388 MSNGGNTSDSFQGSRLHANIQLEKEELDVEKAISEIIEVQMKNIQDKLVQFEDLDLLMEK 447

Query: 425 EWKQLEQVKNLLFVDQLSVLFHKSNARKNGDRTE-ENVKTD 464
           E +QLEQ+KN+ F+DQL++LFHKS+A K G+  E  NVKT+
Sbjct: 448 EGQQLEQMKNMFFLDQLTLLFHKSSAPKTGECQEGNNVKTN 488

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356508475|ref|XP_003522982.1| PREDICTED: SWI/SNF complex subunit SWI3B-like [Glycine max]

 Score =  532 bits (1371), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 273/440 (62%), Positives = 348/440 (79%), Gaps = 16/440 (3%)

Query: 29  PELPSSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKH 88
           P+  +S+E +V+ VPSYSRWFS+DSI ECE + LPEFF+S   SK+PRVY+YYR+SIVK+
Sbjct: 48  PDSKTSAEANVIVVPSYSRWFSWDSIDECEARHLPEFFES--ASKSPRVYKYYRNSIVKY 105

Query: 89  YRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFAS---VKTLKWEDKETKS- 144
           +R NP+RKITFTDVR+TLVGDVGSIRRVFDFLETWGLINY  S    K LKW+DKETKS 
Sbjct: 106 FRYNPTRKITFTDVRKTLVGDVGSIRRVFDFLETWGLINYHPSSSLTKPLKWDDKETKSD 165

Query: 145 --SAASAESSSALKETSKRLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSD 202
             S ++  SS+ +KE +KRLC+GCK +CTIACFACDKYDLTLCARCYVRGN+RVGV+SSD
Sbjct: 166 SASNSTESSSAPVKENTKRLCSGCKVVCTIACFACDKYDLTLCARCYVRGNYRVGVNSSD 225

Query: 203 FRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQE 262
           FRRVEISEE ++DW+EKE   LLEAI H+GDDW++V+QHV G++EK+C+ HF+KLPF  +
Sbjct: 226 FRRVEISEETKTDWSEKEITNLLEAISHYGDDWKRVSQHVPGRTEKECVAHFLKLPFANQ 285

Query: 263 FICKE-----SDSEDVDNKFFSINNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQ 317
           F   +     + ++D  N    + N +DA SE + V +  PSKRMRLTPLADASNPIMAQ
Sbjct: 286 FQHYQQHPAVNGTDDGCNLLKMVTN-ADAESELDTVASAEPSKRMRLTPLADASNPIMAQ 344

Query: 318 AAFLSALAGVEIAEVAARAAVTTLSDV--DDRASKGSLMRNTRQQEAGVASNGDATQNAL 375
           AAFLSALAG E+A+ AA+AA+TTLS+V    + +  +  RNT  Q+AG+ SNG  T ++ 
Sbjct: 345 AAFLSALAGSEVAQAAAQAALTTLSEVYKATKINYRAFPRNTLLQDAGITSNGGNTSDSF 404

Query: 376 ARASVDASSLIEKEELDVEKAISGIVEVQMKEIQDKIIRFESLDLQMEEEWKQLEQVKNL 435
             + + A+  +EKEELDVEKAIS I+EVQMK IQDK++ FE LDL ME+E +Q+EQ+KN+
Sbjct: 405 QGSRLHANIQLEKEELDVEKAISEIIEVQMKNIQDKLVHFEDLDLLMEKEGQQMEQMKNM 464

Query: 436 LFVDQLSVLFHKSNARKNGD 455
            F+DQL++LFHKS+A K G+
Sbjct: 465 FFLDQLTLLFHKSSAPKTGE 484

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30685774|ref|NP_180919.2| SWI/SNF complex subunit SWI3B [Arabidopsis thaliana] gi|75327834|sp|Q84JG2.1|SWI3B_ARATH RecName: Full=SWI/SNF complex subunit SWI3B; Short=AtSWI3B; AltName: Full=Transcription regulatory protein SWI3B gi|28393376|gb|AAO42112.1| putative SWI/SNF complex subunit SW13 [Arabidopsis thaliana] gi|28827566|gb|AAO50627.1| putative SWI/SNF complex subunit SW13 [Arabidopsis thaliana] gi|330253765|gb|AEC08859.1| SWI/SNF complex subunit SWI3B [Arabidopsis thaliana]

 Score =  527 bits (1358), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 279/472 (59%), Positives = 355/472 (75%), Gaps = 18/472 (3%)

Query: 1   MAAKSPVKEPPGTSAVNPTTP---------LAPPPVKPELPSSS-EPDVVNVPSYSRWFS 50
           MA K+P  +P G+  + P+TP          A      +LPSSS + D ++VPSYS WFS
Sbjct: 1   MAMKAP--DPGGSGEILPSTPSLSETTSGGAAAASKSAQLPSSSSDIDNIHVPSYSSWFS 58

Query: 51  FDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDV 110
           +  I++CEV+ LPEFFDSRS SKNP+ Y Y R+SI+K YR++  RKI+FTDVRRTLV DV
Sbjct: 59  WTDINDCEVRSLPEFFDSRSSSKNPKFYLYLRNSIIKQYRDDHPRKISFTDVRRTLVSDV 118

Query: 111 GSIRRVFDFLETWGLINY--FASVKTLKWEDKETKSSA--ASAESSSALKETSKRLCNGC 166
            SIRRVFDFL++WGLINY   AS K LKWE+KE   SA  A++E ++ +KET+KR CNGC
Sbjct: 119 VSIRRVFDFLDSWGLINYNSSASAKPLKWEEKEAGKSAGDAASEPATTVKETAKRNCNGC 178

Query: 167 KTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLE 226
           K +C+IACFACDKYDLTLCARCYVR N+RVG++SS+F+RVEISEE++ +W++KE L LLE
Sbjct: 179 KAICSIACFACDKYDLTLCARCYVRSNYRVGINSSEFKRVEISEESKPEWSDKEILLLLE 238

Query: 227 AIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDA 286
           A+MH+GDDW+KVA HV G++EKDC++ F+KLPFG++F+ KESDSED    F  I +    
Sbjct: 239 AVMHYGDDWKKVASHVIGRTEKDCVSQFVKLPFGEQFV-KESDSEDGLEMFDQIKDSDIP 297

Query: 287 VSESENVGATSPSKRMRLTPLADASNPIMAQAAFLSALAGVEIAEVAARAAVTTLSDVDD 346
            SE  +   +SP+KR++LTPLADASNPIMAQAAFLSALAG  +AE AARAAV  LSDVD 
Sbjct: 298 ESEGIDKDGSSPNKRIKLTPLADASNPIMAQAAFLSALAGTNVAEAAARAAVRALSDVDY 357

Query: 347 RASKGSLMRNTRQQEAGVASNGDATQNALARASVDASSLIEKEELDVEKAISGIVEVQMK 406
            A K +  R+  +Q+A  AS+G+ T+N   RA  DA SLIEKEE +VE AI   VEV+MK
Sbjct: 358 EADKNA-SRDPNRQDANAASSGETTRNESERAWADAKSLIEKEEHEVEGAIKETVEVEMK 416

Query: 407 EIQDKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLFHKSNARKNGDRTE 458
           +I+D+I+ FE LDL+ME   KQLE+V+NLLFVDQL++ FH   ARK  DR E
Sbjct: 417 KIRDRIVHFEKLDLEMERSRKQLEEVRNLLFVDQLNIFFHTRKARKTEDRIE 468

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297823155|ref|XP_002879460.1| ATSWI3B [Arabidopsis lyrata subsp. lyrata] gi|297325299|gb|EFH55719.1| ATSWI3B [Arabidopsis lyrata subsp. lyrata]

 Score =  520 bits (1340), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 278/471 (59%), Positives = 350/471 (74%), Gaps = 17/471 (3%)

Query: 1   MAAKSPVKEPPGTSAVNPTTP---------LAPPPVKPELPSSSEPDVVNVPSYSRWFSF 51
           MA K+P  +  G+  + P TP          A         SSS+ D + VPSYSRWFS+
Sbjct: 1   MAMKAP--DSGGSGEILPNTPSLSETTSGVAAALQSPQPPSSSSDIDTIYVPSYSRWFSW 58

Query: 52  DSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVG 111
             I++CEV+ LPEFFDSRS SKNP+ Y Y R+SI+K YR++  RKI+FTDVRRTLV DV 
Sbjct: 59  TGINDCEVRSLPEFFDSRSSSKNPKFYLYLRNSIIKQYRDDHPRKISFTDVRRTLVSDVV 118

Query: 112 SIRRVFDFLETWGLINYF--ASVKTLKWEDKETKSSA--ASAESSSALKETSKRLCNGCK 167
           SIRRVFDFL++WGLINY   AS K LKW++KE   S   A++E S+ +KET+KR+CNGCK
Sbjct: 119 SIRRVFDFLDSWGLINYTSSASAKPLKWDEKEAGKSVGDAASEPSTTVKETAKRICNGCK 178

Query: 168 TLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEA 227
           ++C+IACFACDKYDLTLCARCYVR N+RVG++SS+F+RVEISEE++  W+EKE L LLEA
Sbjct: 179 SICSIACFACDKYDLTLCARCYVRSNYRVGINSSEFKRVEISEESKIQWSEKEILLLLEA 238

Query: 228 IMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDAV 287
           +MH+GDDW+KVA HV+G++EKDC++ F+KLPFG++F+ KESD ED    F  I   +   
Sbjct: 239 VMHYGDDWKKVAPHVTGRTEKDCVSQFVKLPFGEQFV-KESDFEDGLEAFDQIKGSAIPE 297

Query: 288 SESENVGATSPSKRMRLTPLADASNPIMAQAAFLSALAGVEIAEVAARAAVTTLSDVDDR 347
           SE  +   +SP+KRM+LTPLADASNPIMAQAAFLSALAG  +AE AARAAVT LSDVD  
Sbjct: 298 SEGIDKDCSSPNKRMKLTPLADASNPIMAQAAFLSALAGTNVAEAAARAAVTALSDVDYD 357

Query: 348 ASKGSLMRNTRQQEAGVASNGDATQNALARASVDASSLIEKEELDVEKAISGIVEVQMKE 407
           A K +   + R QEA  AS+G+ T+N   RA  DA SLIEKEE +VE AI   VEV+MK+
Sbjct: 358 ADKNASGDSNR-QEANGASSGETTRNDSERAWADAKSLIEKEEQEVEVAIKETVEVEMKK 416

Query: 408 IQDKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLFHKSNARKNGDRTE 458
           I+D+I+ FE LDL+ME   KQLE++KNLLFVDQL++ FH   AR + DR E
Sbjct: 417 IRDRIVHFEKLDLEMERSRKQLEEMKNLLFVDQLNIFFHTRKARTSEDRVE 467

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449455734|ref|XP_004145606.1| PREDICTED: SWI/SNF complex subunit SWI3B-like [Cucumis sativus]

 Score =  501 bits (1291), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 259/458 (56%), Positives = 345/458 (75%), Gaps = 32/458 (6%)

Query: 7   VKEPPGTSAVNPTTPLAPPPVKPELPSSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFF 66
           ++ PP  S   P+   AP P   +LP S+ PD +++PSYSRWFS++ I ECEV+FLPEFF
Sbjct: 34  IETPPSDSGQTPSAVPAPTPRPEDLPQSTSPDPIHLPSYSRWFSWNGIHECEVRFLPEFF 93

Query: 67  DSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLI 126
           DSRSPSKNPRVY+Y R+SIVK++RE PS+KITFTD+R+TLV DVGSIRRVFDFLE WGLI
Sbjct: 94  DSRSPSKNPRVYKYLRNSIVKNFRECPSKKITFTDIRKTLVADVGSIRRVFDFLEAWGLI 153

Query: 127 NYFASV--KTLKWEDKETKSSAASAES---------SSALKETSKRLCNGCKTLCTIACF 175
           NY  S   K LKW+D+++KS+A+++ +         SSA K+ SKR+C+GCK++C+IACF
Sbjct: 154 NYSPSALSKPLKWDDRDSKSNASASNTGEPGGGSANSSAPKDASKRVCSGCKSICSIACF 213

Query: 176 ACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDW 235
           ACDK+DLTLCARCYVRGN+RVGVSSSDFRRVEI+++ R+DWT+KETL LLEA+ H+GDDW
Sbjct: 214 ACDKFDLTLCARCYVRGNYRVGVSSSDFRRVEINDDTRTDWTDKETLHLLEALTHYGDDW 273

Query: 236 RKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDA---VSESEN 292
           +KVAQHV G++E++C+  F+KLP G++F     DSE +DN   ++ + + A   +  +  
Sbjct: 274 KKVAQHVGGRTERECVAQFVKLPLGEQFH-GYPDSEHIDNN-CTVKDEASANLTLESTGK 331

Query: 293 VGATSPSKRMRLTPLADASNPIMAQAAFLSALAGVEIAEVAARAAVTTLSDVD---DRAS 349
           +G + P+KR+RL+PLADASNPIMAQAAFLS+L GVE+AE AA+AAV  LS++D   D   
Sbjct: 332 IGTSIPNKRIRLSPLADASNPIMAQAAFLSSLVGVEVAEAAAQAAVIKLSEMDFGGDGEI 391

Query: 350 KGSLMRNTRQQEAGVASNGDATQNALARASVDASSLIEKEELDVEKAISGIVEVQMKEIQ 409
              + RN  +Q    AS+G +    L+R S           +D+EKAIS IV VQMKEI 
Sbjct: 392 AIPVARNIGEQGNDAASHGGS---CLSRGST----------MDMEKAISHIVNVQMKEIV 438

Query: 410 DKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLFHK 447
           DK+  FE  +LQME+ +KQL+Q+K++LFVDQL++LF+K
Sbjct: 439 DKLNGFEEGELQMEKVFKQLDQMKSMLFVDQLNLLFNK 476

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449485249|ref|XP_004157113.1| PREDICTED: SWI/SNF complex subunit SWI3B-like [Cucumis sativus]

 Score =  501 bits (1289), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 259/458 (56%), Positives = 346/458 (75%), Gaps = 32/458 (6%)

Query: 7   VKEPPGTSAVNPTTPLAPPPVKPELPSSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFF 66
           ++ PP  S   P+   AP P   +LP S+ PD +++PSYSRWFS++ I ECEV+FLPEFF
Sbjct: 96  IETPPSDSGQTPSAVPAPTPRPEDLPQSTSPDPIHLPSYSRWFSWNGIHECEVRFLPEFF 155

Query: 67  DSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLI 126
           DSRSPSKNPRVY+Y R+SIVK++RE PS+KITFTD+R+TLV DVGSIRRVFDFLE WGLI
Sbjct: 156 DSRSPSKNPRVYKYLRNSIVKNFRECPSKKITFTDIRKTLVADVGSIRRVFDFLEAWGLI 215

Query: 127 NYFASV--KTLKWEDKETKSSAASAES---------SSALKETSKRLCNGCKTLCTIACF 175
           NY  S   K LKW+D+++KS+A+++ +         SSA K+ SKR+C+GCK++C+IACF
Sbjct: 216 NYSPSALSKPLKWDDRDSKSNASASNTGEPGGGSANSSAPKDASKRVCSGCKSICSIACF 275

Query: 176 ACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDW 235
           ACDK+DLTLCARCYVRGN+RVGVSSSDFRRVEI+++ R+DWT+KETL LLEA+ H+GDDW
Sbjct: 276 ACDKFDLTLCARCYVRGNYRVGVSSSDFRRVEINDDTRTDWTDKETLHLLEALTHYGDDW 335

Query: 236 RKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDA---VSESEN 292
           +KVAQHV G++E++C+  F+KLP G++F     DSE +DN   ++ + + A   +  +  
Sbjct: 336 KKVAQHVGGRTERECVAQFVKLPLGEQFH-GYPDSEHIDNN-CTVKDEASANLMLESTGK 393

Query: 293 VGATSPSKRMRLTPLADASNPIMAQAAFLSALAGVEIAEVAARAAVTTLSDVD---DRAS 349
           +G + P+KR+RL+PLADASNPIMAQAAFLS+L GVE+AE AA+AAV  LS++D   D   
Sbjct: 394 IGTSIPNKRIRLSPLADASNPIMAQAAFLSSLVGVEVAEAAAQAAVIKLSEMDFGGDGEI 453

Query: 350 KGSLMRNTRQQEAGVASNGDATQNALARASVDASSLIEKEELDVEKAISGIVEVQMKEIQ 409
              + RN  +Q    AS+G +    L+R S           +D+EKAIS IV+VQMKEI 
Sbjct: 454 AIPVARNIGEQGNDAASHGGS---CLSRGST----------MDMEKAISHIVDVQMKEIV 500

Query: 410 DKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLFHK 447
           DK+  FE  +LQME+ +KQL+Q+K++LFVDQL++LF+K
Sbjct: 501 DKLNGFEEGELQMEKVFKQLDQMKSMLFVDQLNLLFNK 538

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357467183|ref|XP_003603876.1| SWI/SNF complex subunit SMARCC2 [Medicago truncatula] gi|355492924|gb|AES74127.1| SWI/SNF complex subunit SMARCC2 [Medicago truncatula]

 Score =  486 bits (1250), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 260/452 (57%), Positives = 338/452 (74%), Gaps = 30/452 (6%)

Query: 18  PTTPLAPPPVKPELPSSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRV 77
           P  PL      PE  +SS+ +++ VPS+SRWFS+DSI ECE++ +PE       SKNPRV
Sbjct: 41  PEVPL------PEAKTSSDANLILVPSHSRWFSWDSIHECEIRNIPE------SSKNPRV 88

Query: 78  YRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFAS---VKT 134
           Y+YYR+SIVK +R NP+RKITFTDVR+TLVGDVGSIRRVFDFLE WGLINY  S    K 
Sbjct: 89  YKYYRNSIVKFFRFNPNRKITFTDVRKTLVGDVGSIRRVFDFLEAWGLINYHPSSSLSKP 148

Query: 135 LKWEDKETKSSAA--SAES-SSALKETSKRLCNGCKTLCTIACFACDKYDLTLCARCYVR 191
           LKWEDK+TK  AA  SAES S A  + +KR+C+GCK LC +ACFAC+K ++TLCARC++R
Sbjct: 149 LKWEDKDTKPDAASNSAESPSPAPVKEAKRICSGCKNLCVMACFACEKNNMTLCARCFIR 208

Query: 192 GNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCI 251
           GN+R+G+S+++F+RVEISEE +++WTEKETL LLEAI +FGDDW++VA  V G+++K+C+
Sbjct: 209 GNYRIGMSNTEFKRVEISEETKNEWTEKETLNLLEAITNFGDDWKRVAHQVVGRTDKECV 268

Query: 252 THFIKLPFGQEFI-CKESDSED-VDNKFFSINNPSDAVSESENVGATSPSKRMRLTPLAD 309
             F++LPFG +F+    S+S   +D+    +  P  A  ESE V +   SKRM LTPLAD
Sbjct: 269 ARFLELPFGDQFLHYPHSESAPCIDDGSDQLKPPVAAECESETVPSDKSSKRMCLTPLAD 328

Query: 310 ASNPIMAQAAFLSALAGVEIAEVAARAAVTTLSDV--DDRASKGSLMRNTRQQEAGVASN 367
           ASNPIMAQAAFLSALAG E+A+ AA+AA+T+LS+V    R +  S  RNT QQ+A VASN
Sbjct: 329 ASNPIMAQAAFLSALAGTEVAQAAAQAALTSLSNVYKSTRINYRSFPRNTLQQDAAVASN 388

Query: 368 G----DATQNALARASVDASSLIEKEELDVEKAISGIVEVQMKEIQDKIIRFESLDLQME 423
           G    D+ Q +L RA++     +EKEE DVEKAIS + EVQMK IQDK+I FE LD+ ME
Sbjct: 389 GGNASDSIQGSLLRANLQ----LEKEESDVEKAISEVTEVQMKNIQDKLINFEDLDVLME 444

Query: 424 EEWKQLEQVKNLLFVDQLSVLFHKSNARKNGD 455
           +E +QLEQ K+L F+DQL++LF K++A   G+
Sbjct: 445 KERQQLEQTKSLFFLDQLNLLFRKTSAPTTGE 476

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	466
TAIR|locus:2051028	469	SWI3B "switch subunit 3" [Arab	0.894	0.889	0.576	1.8e-126
TAIR|locus:2043263	512	SWI3A "SWITCH/sucrose nonferme	0.206	0.187	0.458	4.7e-43
DICTYBASE|DDB_G0277033	1223	swi3 "SWIRM domain-containing	0.549	0.209	0.265	1e-40
ZFIN|ZDB-GENE-060503-273	961	smarcc1b "SWI/SNF related, mat	0.186	0.090	0.471	5.6e-36
ZFIN|ZDB-GENE-080514-3	1089	smarcc1a "SWI/SNF related, mat	0.186	0.079	0.482	2.3e-35
UNIPROTKB|F1PVA9	1092	SMARCC2 "Uncharacterized prote	0.186	0.079	0.482	1.6e-34
UNIPROTKB|F1N4N6	1094	SMARCC2 "Uncharacterized prote	0.186	0.079	0.482	1.6e-34
UNIPROTKB|F1SM00	1167	LOC100621845 "Uncharacterized	0.186	0.074	0.482	2.1e-34
UNIPROTKB|I3LRY4	1212	I3LRY4 "Uncharacterized protei	0.186	0.071	0.482	2.4e-34
MGI|MGI:1915344	1213	Smarcc2 "SWI/SNF related, matr	0.186	0.071	0.482	2.4e-34

TAIR|locus:2051028 SWI3B "switch subunit 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 1242 (442.3 bits), Expect = 1.8e-126, P = 1.8e-126
 Identities = 246/427 (57%), Positives = 308/427 (72%)

Query:    38 DVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKI 97
             D ++VPSYS WFS+  I++CEV+ LPEFFDSRS SKNP+ Y Y R+SI+K YR++  RKI
Sbjct:    46 DNIHVPSYSSWFSWTDINDCEVRSLPEFFDSRSSSKNPKFYLYLRNSIIKQYRDDHPRKI 105

Query:    98 TFTDVRRTLVGDVGSIRRVFDFLETWGLINY--FASVKTLKWXXXXXXXXXXXXXX--XX 153
             +FTDVRRTLV DV SIRRVFDFL++WGLINY   AS K LKW                  
Sbjct:   106 SFTDVRRTLVSDVVSIRRVFDFLDSWGLINYNSSASAKPLKWEEKEAGKSAGDAASEPAT 165

Query:   154 XXXXXXXRLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEAR 213
                    R CNGCK +C+IACFACDKYDLTLCARCYVR N+RVG++SS+F+RVEISEE++
Sbjct:   166 TVKETAKRNCNGCKAICSIACFACDKYDLTLCARCYVRSNYRVGINSSEFKRVEISEESK 225

Query:   214 SDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDV 273
              +W++KE L LLEA+MH+GDDW+KVA HV G++EKDC++ F+KLPFG++F+ KESDSED 
Sbjct:   226 PEWSDKEILLLLEAVMHYGDDWKKVASHVIGRTEKDCVSQFVKLPFGEQFV-KESDSEDG 284

Query:   274 DNKFFSINNPSDAVSESENVG--ATSPSKRMRLTPLADASNPIMAQAAFLSALXXXXXXX 331
                F  I + SD + ESE +    +SP+KR++LTPLADASNPIMAQAAFLSAL       
Sbjct:   285 LEMFDQIKD-SD-IPESEGIDKDGSSPNKRIKLTPLADASNPIMAQAAFLSALAGTNVAE 342

Query:   332 XXXXXXXTTLSDVDDRASKGSLMRNTRQQEAGVASNGDATQNALARASVDASSLIEKEEL 391
                      LSDVD  A K +  R+  +Q+A  AS+G+ T+N   RA  DA SLIEKEE 
Sbjct:   343 AAARAAVRALSDVDYEADKNA-SRDPNRQDANAASSGETTRNESERAWADAKSLIEKEEH 401

Query:   392 DVEKAISGIVEVQMKEIQDKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLFHKSNAR 451
             +VE AI   VEV+MK+I+D+I+ FE LDL+ME   KQLE+V+NLLFVDQL++ FH   AR
Sbjct:   402 EVEGAIKETVEVEMKKIRDRIVHFEKLDLEMERSRKQLEEVRNLLFVDQLNIFFHTRKAR 461

Query:   452 KNGDRTE 458
             K  DR E
Sbjct:   462 KTEDRIE 468

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0005515 "protein binding" evidence=IPI

GO:0006338 "chromatin remodeling" evidence=ISS

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

GO:0040029 "regulation of gene expression, epigenetic" evidence=RCA

GO:0048573 "photoperiodism, flowering" evidence=RCA

TAIR|locus:2043263 SWI3A "SWITCH/sucrose nonfermenting 3A" [Arabidopsis thaliana (taxid:3702)]

 Score = 241 (89.9 bits), Expect = 4.7e-43, Sum P(3) = 4.7e-43
 Identities = 44/96 (45%), Positives = 66/96 (68%)

Query:    38 DVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKI 97
             ++  +P+ S WF +D I E E +   EFF   S ++ P+VY+ YRD I+  +RE+  R++
Sbjct:    11 ELYTIPAQSSWFLWDDIHEIERREFAEFFTESSITRTPKVYKEYRDFIINKFREDTCRRL 70

Query:    98 TFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVK 133
             TFT VR+ LVGDV  +++VF FLE WGLIN+ +S+K
Sbjct:    71 TFTSVRKFLVGDVNLLQKVFLFLEKWGLINFSSSLK 106

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006338 "chromatin remodeling" evidence=ISS

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

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

GO:0040029 "regulation of gene expression, epigenetic" evidence=RCA

DICTYBASE|DDB_G0277033 swi3 "SWIRM domain-containing protein Swi3" [Dictyostelium discoideum (taxid:44689)]

 Score = 258 (95.9 bits), Expect = 1.0e-40, Sum P(2) = 1.0e-40
 Identities = 73/275 (26%), Positives = 127/275 (46%)

Query:   182 LTLCARCYVRGNHRVGVS---SSDFRRVEISEEA--RSDWTEKETLQLLEAIMHFGDDWR 236
             + LC  C+      +  S      F+++E+ E +     WT++ETL LLEA+  + D W 
Sbjct:   881 ILLCNNCFTNDQTFIDHSHLIKDQFKKIELPEPSPLEDQWTDQETLLLLEALDIYSDSWN 940

Query:   237 KVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDAVSESENVGAT 296
              VA HV  KS++ C+  F+KLP  + ++      ED   K  S+  PS   S S   G++
Sbjct:   941 DVADHVKTKSKEQCLLQFLKLPIEEPYL------EDNITKSISLQPPS---SNSILNGSS 991

Query:   297 SPSKRMRLTPLADASNPIMAQAAFLSALXXXXXXXXXXXXXXTTLS--DVDDRASKGSLM 354
             S +           +NPI++  +FLS                  L+  + D   +     
Sbjct:   992 SNNNNNNNNNQQLLNNPIVSMISFLSTSVSSEVASAAAKAATDVLNKENGDSMITDNDND 1051

Query:   355 RNTRQQEAGVASNGDATQNALARASVDASSLIEKEELDVEKAISGIVEVQMKEIQDKIIR 414
              N    +  + +   AT   LA  S+ A +L + EE +++  I  I+ VQ K+++ K+  
Sbjct:  1052 DNDHLSKVNIQAAASAT---LAATSIKAKALSKSEEREIQSLILKIINVQTKKLELKLKC 1108

Query:   415 FESLDLQMEEEWKQLEQVKNLLFVDQLSVLFHKSN 449
             +  ++  +E+E  QLE+ +  LF ++ S+L    N
Sbjct:  1109 YSEMENALEKEKNQLEKERQALFSERFSLLKASQN 1143

GO:0003682 "chromatin binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

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

GO:0006338 "chromatin remodeling" evidence=ISS

GO:0005634 "nucleus" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

ZFIN|ZDB-GENE-060503-273 smarcc1b "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1b" [Danio rerio (taxid:7955)]

 Score = 225 (84.3 bits), Expect = 5.6e-36, Sum P(4) = 5.6e-36
 Identities = 41/87 (47%), Positives = 57/87 (65%)

Query:    42 VPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTD 101
             VP+Y+ WF ++ I + E + LPEFF+ ++ SK P +Y  YR+ ++  YR NP   +T T 
Sbjct:   427 VPTYASWFDYNCIHQIERRALPEFFNGKNKSKTPEIYLAYRNFMIDTYRLNPQEYLTSTS 486

Query:   102 VRRTLVGDVGSIRRVFDFLETWGLINY 128
              RR L GDV ++ RV  FLE WGLINY
Sbjct:   487 SRRNLTGDVCALIRVHSFLEQWGLINY 513

GO:0003677 "DNA binding" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

ZFIN|ZDB-GENE-080514-3 smarcc1a "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1a" [Danio rerio (taxid:7955)]

 Score = 236 (88.1 bits), Expect = 2.3e-35, Sum P(4) = 2.3e-35
 Identities = 42/87 (48%), Positives = 58/87 (66%)

Query:    42 VPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTD 101
             +PSY+ WF ++SI E E + LPEFF+ ++ SK P +Y  YR+ ++  YR NP   +T T 
Sbjct:   446 IPSYAAWFDYNSIHEIERRALPEFFNGKNKSKTPEIYLAYRNFMIDTYRLNPQEYLTSTS 505

Query:   102 VRRTLVGDVGSIRRVFDFLETWGLINY 128
              RR L GDV ++ RV  FLE WGL+NY
Sbjct:   506 CRRNLTGDVCAVMRVHAFLEQWGLVNY 532

GO:0005634 "nucleus" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

UNIPROTKB|F1PVA9 SMARCC2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 229 (85.7 bits), Expect = 1.6e-34, Sum P(3) = 1.6e-34
 Identities = 42/87 (48%), Positives = 57/87 (65%)

Query:    42 VPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTD 101
             +PSY+ WF ++S+   E + LPEFF+ ++ SK P +Y  YR+ ++  YR NP   +T T 
Sbjct:   419 IPSYAAWFDYNSVHAIERRALPEFFNGKNKSKTPEIYLAYRNFMIDTYRLNPQEYLTSTA 478

Query:   102 VRRTLVGDVGSIRRVFDFLETWGLINY 128
              RR L GDV +I RV  FLE WGLINY
Sbjct:   479 CRRNLAGDVCAIMRVHAFLEQWGLINY 505

GO:0005634 "nucleus" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|F1N4N6 SMARCC2 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 229 (85.7 bits), Expect = 1.6e-34, Sum P(3) = 1.6e-34
 Identities = 42/87 (48%), Positives = 57/87 (65%)

Query:    42 VPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTD 101
             +PSY+ WF ++S+   E + LPEFF+ ++ SK P +Y  YR+ ++  YR NP   +T T 
Sbjct:   390 IPSYAAWFDYNSVHAIERRALPEFFNGKNKSKTPEIYLAYRNFMIDTYRLNPQEYLTSTA 449

Query:   102 VRRTLVGDVGSIRRVFDFLETWGLINY 128
              RR L GDV +I RV  FLE WGLINY
Sbjct:   450 CRRNLAGDVCAIMRVHAFLEQWGLINY 476

GO:0071565 "nBAF complex" evidence=IEA

GO:0071564 "npBAF complex" evidence=IEA

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

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA

GO:0017053 "transcriptional repressor complex" evidence=IEA

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

GO:0006338 "chromatin remodeling" evidence=IEA

GO:0006337 "nucleosome disassembly" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|F1SM00 LOC100621845 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 229 (85.7 bits), Expect = 2.1e-34, Sum P(3) = 2.1e-34
 Identities = 42/87 (48%), Positives = 57/87 (65%)

Query:    42 VPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTD 101
             +PSY+ WF ++S+   E + LPEFF+ ++ SK P +Y  YR+ ++  YR NP   +T T 
Sbjct:   438 IPSYAAWFDYNSVHAIERRALPEFFNGKNKSKTPEIYLAYRNFMIDTYRLNPQEYLTSTA 497

Query:   102 VRRTLVGDVGSIRRVFDFLETWGLINY 128
              RR L GDV +I RV  FLE WGLINY
Sbjct:   498 CRRNLAGDVCAIMRVHAFLEQWGLINY 524

GO:0005634 "nucleus" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|I3LRY4 I3LRY4 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 229 (85.7 bits), Expect = 2.4e-34, Sum P(3) = 2.4e-34
 Identities = 42/87 (48%), Positives = 57/87 (65%)

Query:    42 VPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTD 101
             +PSY+ WF ++S+   E + LPEFF+ ++ SK P +Y  YR+ ++  YR NP   +T T 
Sbjct:   392 IPSYAAWFDYNSVHAIERRALPEFFNGKNKSKTPEIYLAYRNFMIDTYRLNPQEYLTSTA 451

Query:   102 VRRTLVGDVGSIRRVFDFLETWGLINY 128
              RR L GDV +I RV  FLE WGLINY
Sbjct:   452 CRRNLAGDVCAIMRVHAFLEQWGLINY 478

GO:0005634 "nucleus" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

MGI|MGI:1915344 Smarcc2 "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2" [Mus musculus (taxid:10090)]

 Score = 229 (85.7 bits), Expect = 2.4e-34, Sum P(3) = 2.4e-34
 Identities = 42/87 (48%), Positives = 57/87 (65%)

Query:    42 VPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTD 101
             +PSY+ WF ++S+   E + LPEFF+ ++ SK P +Y  YR+ ++  YR NP   +T T 
Sbjct:   426 IPSYAAWFDYNSVHAIERRALPEFFNGKNKSKTPEIYLAYRNFMIDTYRLNPQEYLTSTA 485

Query:   102 VRRTLVGDVGSIRRVFDFLETWGLINY 128
              RR L GDV +I RV  FLE WGLINY
Sbjct:   486 CRRNLAGDVCAIMRVHAFLEQWGLINY 512

GO:0003677 "DNA binding" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA

GO:0006337 "nucleosome disassembly" evidence=ISO

GO:0006338 "chromatin remodeling" evidence=ISO

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

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

GO:0007399 "nervous system development" evidence=IEA

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

GO:0016568 "chromatin modification" evidence=IEA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=ISO

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

GO:0071564 "npBAF complex" evidence=IDA

GO:0071565 "nBAF complex" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q84JG2	SWI3B_ARATH	No assigned EC number	0.5911	0.9742	0.9680	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00002934001	SubName- Full=Chromosome chr18 scaffold_137, whole genome shotgun sequence; (486 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00019740001	SubName- Full=Chromosome chr5 scaffold_2, whole genome shotgun sequence; (243 aa)					•		•		0.679
	GSVIVG00026891001	SubName- Full=Chromosome chr15 scaffold_40, whole genome shotgun sequence; (2105 aa)					•		•		0.505
	GSVIVG00015425001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (726 aa)					•		•	•	0.412

---

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	466
COG5259	531	COG5259, RSC8, RSC chromatin remodeling complex su	1e-49
pfam04433	80	pfam04433, SWIRM, SWIRM domain	9e-31
pfam00249	47	pfam00249, Myb_DNA-binding, Myb-like DNA-binding d	5e-09
smart00717	49	smart00717, SANT, SANT SWI3, ADA2, N-CoR and TFIII	3e-08
cd00167	45	cd00167, SANT, 'SWI3, ADA2, N-CoR and TFIIIB' DNA-	4e-08
COG5114	432	COG5114, COG5114, Histone acetyltransferase comple	1e-07
pfam13921	59	pfam13921, Myb_DNA-bind_6, Myb-like DNA-binding do	0.001

>gnl|CDD|227584 COG5259, RSC8, RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]

 Score =  177 bits (449), Expect = 1e-49
 Identities = 117/470 (24%), Positives = 196/470 (41%), Gaps = 108/470 (22%)

Query: 40  VNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITF 99
           + +PSY+ WF    I E E +  PEFF+ RSPSK P VY+ YR+ ++  YR NP+  +T 
Sbjct: 52  IIIPSYAEWFDGSKIHEIEKRSNPEFFNGRSPSKTPEVYKDYRNFMINSYRLNPNEYLTV 111

Query: 100 TDVRRTLVGDVGSIRRVFDFLETWGLINY------------------FASV--------- 132
           T  RR + GDV +I RV  FLE WGLINY                  F  +         
Sbjct: 112 TACRRNVAGDVAAIVRVHRFLEKWGLINYQVDPGTRPSTIGPPLTSHFQDLHDTPRGLSP 171

Query: 133 --------------KTLKWEDKETKSSAASAESS--------SALKETSKRLCNGCKTLC 170
                         K +++E  + ++ + S +S           LK+ S++  + C   C
Sbjct: 172 FLPWGPINQRVLGAKEIEYETHKEENYSPSLKSPKKESQGKVDELKDHSEKHPSSCSC-C 230

Query: 171 TIACFACDKYDL-----TLCARCYVRGNHRVGVSSSDFRRVEISEEARSD-WTEKETLQL 224
               F    ++L       C+ CY +G      +SSDF+ V IS   R   W+ +E L L
Sbjct: 231 GNKSFNTRYHNLRAEKYNSCSECYDQGRFPSEFTSSDFKPVTISLLIRDKNWSRQELLLL 290

Query: 225 LEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPS 284
           LE I  +GDDW KVA+HV  K+++ CI HF++LP    ++ K              N+  
Sbjct: 291 LEGIEMYGDDWDKVARHVGTKTKEQCILHFLQLPIEDNYLSK--------GDGKGDNSKG 342

Query: 285 DAVSESENVGATSPSKRMRLTPLADASNPIMAQAAFLSALAGVEIAEVAARAAVTTLSDV 344
                                P   + NP+++  +FL+ +    +     RA + +    
Sbjct: 343 -------------------RLPFDGSENPVLSTISFLAGIVNPRVQSEKQRAIIKSGKIS 383

Query: 345 D-DRASKGSLMRNTRQQEAGVASNGDATQNALARASVDASSLIEKEELDVEKAISGIVEV 403
             +R S+  +                  + AL      A      EE  +E+  + +++ 
Sbjct: 384 HINRESQEHIEE--------------VIEYALDSGKEKAKLQATNEERKMERLRNVLIQA 429

Query: 404 QMKEIQDKIIRFESLDLQMEEEWKQLEQVKNLLFVDQLSVLFHKSNARKN 453
           Q+++++ K+   + L+     E ++L+           ++L  + NA + 
Sbjct: 430 QLEKLKMKLGHLKELEKSTSLERQELD----------ANLLLRRLNAEEK 469

Length = 531

>gnl|CDD|203011 pfam04433, SWIRM, SWIRM domain

 Score =  113 bits (285), Expect = 9e-31
 Identities = 41/85 (48%), Positives = 49/85 (57%), Gaps = 5/85 (5%)

Query: 44  SYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVR 103
           + S WF  D + E E   LPEFF      K P VY   R+ I+  +R NP + +T TD R
Sbjct: 1   ALSSWFDLDLLHEIEKALLPEFFL-----KTPEVYLKIRNFIINEWRLNPGKYLTKTDAR 55

Query: 104 RTLVGDVGSIRRVFDFLETWGLINY 128
           R L GDV  I RV DFLE WGLIN+
Sbjct: 56  RLLKGDVNKISRVHDFLERWGLINF 80

This SWIRM domain is a small alpha-helical domain of about 85 amino acid residues found in chromosomal proteins. It contains a helix-turn helix motif and binds to DNA. Length = 80

>gnl|CDD|215818 pfam00249, Myb_DNA-binding, Myb-like DNA-binding domain

 Score = 51.8 bits (125), Expect = 5e-09
 Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 1/46 (2%)

Query: 213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL 257
           R  WT +E   L+EA+   G  +W K+A+H+ G+++  C   +   
Sbjct: 1   RGPWTPEEDELLIEAVKKHGNGNWSKIAKHLPGRTDNQCKNRWNNY 46

This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family. Length = 47

>gnl|CDD|197842 smart00717, SANT, SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

 Score = 49.5 bits (119), Expect = 3e-08
 Identities = 13/46 (28%), Positives = 28/46 (60%), Gaps = 1/46 (2%)

Query: 213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL 257
           + +WTE+E   L+E +  +G ++W K+A+ + G++ + C   +  L
Sbjct: 1   KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWRNL 46

Length = 49

>gnl|CDD|238096 cd00167, SANT, 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains

 Score = 49.1 bits (118), Expect = 4e-08
 Identities = 16/43 (37%), Positives = 27/43 (62%), Gaps = 1/43 (2%)

Query: 216 WTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL 257
           WTE+E   LLEA+  +G ++W K+A+ + G++ K C   +  L
Sbjct: 2   WTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44

Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA. Length = 45

>gnl|CDD|227445 COG5114, COG5114, Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]

 Score = 53.2 bits (127), Expect = 1e-07
 Identities = 29/111 (26%), Positives = 47/111 (42%), Gaps = 22/111 (19%)

Query: 160 KRLCNGCKTLCT----IACFACDKYDLTLCARCYVR----GNHRVGVSSSDFRRVE---- 207
           K  C+ C    T    I C  C   DL  C  C+V     G H        +R +E    
Sbjct: 5   KIHCDVCFLDMTDLTFIKCNECPAVDL--CLPCFVNGIETGVHS---PYHGYRIIETNSY 59

Query: 208 -ISEEARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIK 256
            I EE    W   E L L+E +   G  +W  +A ++  +++++  +H++K
Sbjct: 60  PIGEE---GWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLK 107

Length = 432

>gnl|CDD|206092 pfam13921, Myb_DNA-bind_6, Myb-like DNA-binding domain

 Score = 36.9 bits (86), Expect = 0.001
 Identities = 12/41 (29%), Positives = 27/41 (65%), Gaps = 1/41 (2%)

Query: 216 WTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK 256
           WTE+E  +LL+ +  +G+DW+++A+ + G++   C   + +
Sbjct: 1   WTEEEDEKLLKLVEKYGNDWKQIAEEL-GRTPSACRDRWRR 40

This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family. Length = 59

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	466
COG5259	531	RSC8 RSC chromatin remodeling complex subunit RSC8	100.0
KOG1279	506	consensus Chromatin remodeling factor subunit and	100.0
PF04433	86	SWIRM: SWIRM domain; InterPro: IPR007526 The SWIRM	99.94
KOG0457	438	consensus Histone acetyltransferase complex SAGA/A	99.86
COG5114	432	Histone acetyltransferase complex SAGA/ADA, subuni	99.75
PF00249	48	Myb_DNA-binding: Myb-like DNA-binding domain; Inte	99.14
PF13921	60	Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB:	98.91
smart00717	49	SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-bindi	98.87
PLN03000	881	amine oxidase	98.81
cd00167	45	SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding do	98.8
PLN02328	808	lysine-specific histone demethylase 1 homolog	98.69
cd02336	45	ZZ_RSC8 Zinc finger, ZZ type. Zinc finger present	98.48
PLN03212	249	Transcription repressor MYB5; Provisional	98.25
TIGR01557	57	myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF c	98.2
PLN02529	738	lysine-specific histone demethylase 1	98.11
PLN03091	459	hypothetical protein; Provisional	98.04
KOG0048	238	consensus Transcription factor, Myb superfamily [T	97.85
PLN03212	249	Transcription repressor MYB5; Provisional	97.76
PLN03091	459	hypothetical protein; Provisional	97.44
KOG0048	238	consensus Transcription factor, Myb superfamily [T	97.37
cd02335	49	ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present	96.97
KOG0049	939	consensus Transcription factor, Myb superfamily [T	96.95
PLN02976	1713	amine oxidase	96.51
cd02249	46	ZZ Zinc finger, ZZ type. Zinc finger present in dy	96.51
KOG0049	939	consensus Transcription factor, Myb superfamily [T	96.08
cd02343	48	ZZ_EF Zinc finger, ZZ type. Zinc finger present in	96.06
smart00291	44	ZnF_ZZ Zinc-binding domain, present in Dystrophin,	96.01
cd02340	43	ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger pre	96.01
PF13837	90	Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain;	95.64
cd02338	49	ZZ_PCMF_like Zinc finger, ZZ type. Zinc finger pre	95.59
cd02345	49	ZZ_dah Zinc finger, ZZ type. Zinc finger present i	95.49
cd02334	49	ZZ_dystrophin Zinc finger, ZZ type. Zinc finger pr	95.16
cd02341	48	ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present	95.09
PF00569	46	ZZ: Zinc finger, ZZ type; InterPro: IPR000433 Zinc	95.01
KOG0051	607	consensus RNA polymerase I termination factor, Myb	94.18
cd02337	41	ZZ_CBP Zinc finger, ZZ type. Zinc finger present i	93.71
cd02344	45	ZZ_HERC2 Zinc finger, ZZ type. Zinc finger present	93.62
cd02339	45	ZZ_Mind_bomb Zinc finger, ZZ type. Zinc finger pre	93.58
KOG0051	607	consensus RNA polymerase I termination factor, Myb	93.13
KOG0050	617	consensus mRNA splicing protein CDC5 (Myb superfam	91.47
KOG4167	907	consensus Predicted DNA-binding protein, contains	90.98
PF13873	78	Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain	90.79
KOG0050	617	consensus mRNA splicing protein CDC5 (Myb superfam	88.86
COG5118	507	BDP1 Transcription initiation factor TFIIIB, Bdp1	88.22
KOG4282	345	consensus Transcription factor GT-2 and related pr	88.14
TIGR02894	161	DNA_bind_RsfA transcription factor, RsfA family. I	86.22
KOG4329	445	consensus DNA-binding protein [General function pr	85.5
cd02342	43	ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger pre	84.39
COG5147	512	REB1 Myb superfamily proteins, including transcrip	84.38
KOG4468	782	consensus Polycomb-group transcriptional regulator	84.32
COG5147	512	REB1 Myb superfamily proteins, including transcrip	82.2

>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]

Probab=100.00  E-value=3.5e-90  Score=705.45  Aligned_cols=373  Identities=29%  Similarity=0.514  Sum_probs=300.0

Q ss_pred             CCCCCceecCCCCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHhhccchHHHH
Q 012334           34 SSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSI  113 (466)
Q Consensus        34 ~~q~~~ivIPs~~~wF~~~~ih~iE~~~lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r~~l~gDv~~i  113 (466)
                      -+|+|+|+||||+.||++.+||+||+++.||||+||+++|||++|++||||||++||+||++|||+|+||||++||||+|
T Consensus        46 ~~Q~~piiiPs~a~WFd~SKiHeIE~~snPeFF~~rs~~KTP~vYk~YR~FminsyRL~p~eYLtvTa~RRNvagDV~ai  125 (531)
T COG5259          46 MEQTHPIIIPSYAEWFDGSKIHEIEKRSNPEFFNGRSPSKTPEVYKDYRNFMINSYRLNPNEYLTVTACRRNVAGDVAAI  125 (531)
T ss_pred             hccCCceeccchhhhccccccccccccCCchhhcCCCCCCCHHHHHHHHhhccceeecCCcceEEeeeehhccchhHHHH
Confidence            67999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhhcccccCCCC--Cccccccc---------ccccCCcCCC------------------------CCcc-----
Q 012334          114 RRVFDFLETWGLINYFAS--VKTLKWED---------KETKSSAASA------------------------ESSS-----  153 (466)
Q Consensus       114 ~Rvh~FLe~wGlINy~~~--~kP~~~~~---------~~~~~~~~~~------------------------s~~~-----  153 (466)
                      .|||+||++|||||||++  ++|.....         .++.....+.                        ...|     
T Consensus       126 vrvHrFLekWGLINYqvdp~trPs~IgPplt~h~q~l~dtP~gl~p~l~~~~~~~~~~~a~~~e~~~~k~~~~sps~~~~  205 (531)
T COG5259         126 VRVHRFLEKWGLINYQVDPGTRPSTIGPPLTSHFQDLHDTPRGLSPFLPWGPINQRVLGAKEIEYETHKEENYSPSLKSP  205 (531)
T ss_pred             HHHHHHHHHhcceeeccCCCCCccccCCCcchhhHHHhhCccccccccCCCCccccccccchhhhhhhccCCCCchhhhh
Confidence            999999999999999999  66644321         1111111100                        0011     


Q ss_pred             ---------ccccccc---ccccCCCCccccccccccC-CCcccchhhhccCCCCCCCCCCCceecccCcc-cCCCCCHH
Q 012334          154 ---------ALKETSK---RLCNGCKTLCTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFRRVEISEE-ARSDWTEK  219 (466)
Q Consensus       154 ---------~~~~~~k---~~C~~C~~~~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~~s~dF~~~~~~~~-~~~~WT~~  219 (466)
                               ...+.+.   ..|+.||+.+...+|+... .++++|..||.+|+||.+..++||++++.... .+..||++
T Consensus       206 ~k~s~~k~~el~~~~~~~~~~C~~cG~~~~~t~y~nlra~~~n~C~~C~~qg~f~s~~~ssDf~~v~~~~~~~dk~WS~q  285 (531)
T COG5259         206 KKESQGKVDELKDHSEKHPSSCSCCGNKSFNTRYHNLRAEKYNSCSECYDQGRFPSEFTSSDFKPVTISLLIRDKNWSRQ  285 (531)
T ss_pred             hhhcCCCccccccccccCCceeeccCccccchhhhhhhhhhcccchHHHhcCcCCCccccccchhhhhhcccccccccHH
Confidence                     0111222   5799999999877776543 56789999999999999999999999987655 56699999


Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcCCCCCcccCCCCCCcccccccccCCCCCCCcccccccCCCCCC
Q 012334          220 ETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDAVSESENVGATSPS  299 (466)
Q Consensus       220 E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflqLPIeD~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  299 (466)
                      |+++|||||++||++|++||.|||+||++|||+|||+|||+|.||. ..+      ++. .+                  
T Consensus       286 E~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~LPieD~~l~-k~~------~~~-~~------------------  339 (531)
T COG5259         286 ELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQLPIEDNYLS-KGD------GKG-DN------------------  339 (531)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcCCcchhhhh-ccc------CcC-CC------------------
Confidence            9999999999999999999999999999999999999999999992 111      010 00                  


Q ss_pred             cccCcccccCCCChhHHHHHHHHhhcChHHHHHHHHHHHHHhhccCcccccCcccccchhhcccccCCchhHHHHHHHHH
Q 012334          300 KRMRLTPLADASNPIMAQAAFLSALAGVEIAEVAARAAVTTLSDVDDRASKGSLMRNTRQQEAGVASNGDATQNALARAS  379 (466)
Q Consensus       300 ~~~~~~Pfs~~~NPVms~vAFLas~V~P~VAaaAA~aAl~~l~~~~~~~~~~~~~~~~~~~~~~~~~ng~~~~~aL~aAa  379 (466)
                       .....||..++|||||+++||+++|.|+|++..+++.++.-.... ...        ..++    --......+|++++
T Consensus       340 -~~G~~~f~~seNPVlstis~L~~iV~p~v~s~~q~~~~k~g~~~~-~n~--------e~~~----~~~~~~~~al~s~~  405 (531)
T COG5259         340 -SKGRLPFDGSENPVLSTISFLAGIVNPRVQSEKQRAIIKSGKISH-INR--------ESQE----HIEEVIEYALDSGK  405 (531)
T ss_pred             -CCCccccccCCCchhhHHHHHHHhcCHHHHHHHhhhhhhccceec-Ccc--------chhh----HHHHHHHHHHHHHH
Confidence             011369999999999999999999999999888777532111000 000        0000    00012446899999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
Q 012334          380 VDASSLIEKEELDVEKAISGIVEVQMKEIQDKIIRFESLDLQMEEEWKQLEQ---VKNLLFVDQLSVLFH  446 (466)
Q Consensus       380 ~kAk~la~~EErei~~Lv~~iie~QlkKlelKLk~feeLE~~le~Er~~Le~---~r~~l~~dRl~~~~~  446 (466)
                      .+|+++++.|||+|++|+..+|++||+||++||.+|++||+.++.||++|+.   .|+..+.+.+-+...
T Consensus       406 eka~l~~~~Eerkm~rL~~~~iq~qleKlk~Kl~~~k~L~~~~~L~rqeLd~nlll~rl~~~e~l~~~~e  475 (531)
T COG5259         406 EKAKLQATNEERKMERLRNVLIQAQLEKLKMKLGHLKELEKSTSLERQELDANLLLRRLNAEEKLFAIDE  475 (531)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999   555544444443333

>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]

Probab=100.00  E-value=3.1e-81  Score=659.94  Aligned_cols=385  Identities=35%  Similarity=0.618  Sum_probs=308.6

Q ss_pred             CCCCCCceecCCCCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHhhccchHHH
Q 012334           33 SSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGS  112 (466)
Q Consensus        33 ~~~q~~~ivIPs~~~wF~~~~ih~iE~~~lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r~~l~gDv~~  112 (466)
                      .+.|+|.|+||||++||+|++||+||++++||||+|++++|||++|++||||||++||+||.+|||+|+||||++||||+
T Consensus        40 ~~~q~~~i~iPs~a~WFd~~~ih~iE~rs~pEFF~gks~sktPe~Y~~yRnfii~tyrlnp~~ylt~ta~rrnl~gDv~a  119 (506)
T KOG1279|consen   40 VSEQTHFIIIPSYAAWFDKSDIHDIERRSLPEFFNGKSKSKTPEVYMKYRNFIINTYRLNPQEYLTFTACRRNLAGDVCA  119 (506)
T ss_pred             cccccceeecccHHhhcChhhhhhHHhccchhhhcCCCCCCCHHHHHHHHHhhhhhhccCcccchhHHHHHhcccchHHH
Confidence            58899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhcccccCCCC--Cccccccccccc---------CCcCC-CC--Cc--cc-----------ccccccccccC
Q 012334          113 IRRVFDFLETWGLINYFAS--VKTLKWEDKETK---------SSAAS-AE--SS--SA-----------LKETSKRLCNG  165 (466)
Q Consensus       113 i~Rvh~FLe~wGlINy~~~--~kP~~~~~~~~~---------~~~~~-~s--~~--~~-----------~~~~~k~~C~~  165 (466)
                      |+|||+|||+||||||+++  ++|..+++..+.         ....+ .+  +.  +.           ..+.....|+.
T Consensus       120 i~Rvh~FlE~WGLINy~~d~e~rp~~~~p~~t~h~~~~~~tp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  199 (506)
T KOG1279|consen  120 IARVHAFLEQWGLINYQVDAESRPHPIEPPETSHFQVLADTPRGLAPLTPEDPQSQPDLGNPRMETLSLESKIKSLHINA  199 (506)
T ss_pred             HHHHHhhHHhhcccccccChhhCCcccCCCcccccccccCCCcccccCCCCCccccccccccccccccccccccccccCh
Confidence            9999999999999999999  677666432221         11111 00  00  00           00112234555


Q ss_pred             CCCccccccccccC--------CCcccchhhhccCCCCCCCCCCCceecccCcccCCCCCHHHHHHHHHHHHHhCCCHHH
Q 012334          166 CKTLCTIACFACDK--------YDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRK  237 (466)
Q Consensus       166 C~~~~~~~~~~c~k--------~d~~lC~~Cf~~G~~~~~~~s~dF~~~~~~~~~~~~WT~~E~l~LLEaIe~yg~nW~~  237 (466)
                      |...|...|+.|..        .++.+|.+||.+|+++..+...||+.+  ....+..||++|+++|||||++||+||++
T Consensus       200 ~~~l~~~~c~~~~~~~~~~~~~~~~~~c~~c~~~g~~~~~~~~~Df~~~--~~~~~~~WT~qE~lLLLE~ie~y~ddW~k  277 (506)
T KOG1279|consen  200 GEHLCAIHCFIKEDPYYYDLTNRDVNLCADCYDQGEFPSEFKKSDFKVI--GESARPNWTEQETLLLLEAIEMYGDDWNK  277 (506)
T ss_pred             HhhccccchhccccchhhhcchhhhhhhHHHHhcCCccCccccccchhc--cccCCCCccHHHHHHHHHHHHHhcccHHH
Confidence            55555555555543        357899999999999999999999333  34567899999999999999999999999


Q ss_pred             HHHHhCCCCHHHHHHHHhcCCCCCcccCCCCCCcccccccccCCCCCCCcccccccCCCCCCcccCcccccCCCChhHHH
Q 012334          238 VAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQ  317 (466)
Q Consensus       238 IA~~VgtKT~~eCi~hflqLPIeD~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Pfs~~~NPVms~  317 (466)
                      ||.|||+||++|||+|||+|||+|+|+ ...+.     .+                    .+..+.+.||++.+||||++
T Consensus       278 Va~hVg~ks~eqCI~kFL~LPieD~~l-~~~~~-----~~--------------------~~~~~~~~~~sq~gnpv~s~  331 (506)
T KOG1279|consen  278 VADHVGTKSQEQCILKFLRLPIEDPYL-AKSEA-----SL--------------------GPLSYGPVPFSQDGNPVMST  331 (506)
T ss_pred             HHhccCCCCHHHHHHHHHhcCccchhh-hhccc-----cc--------------------CccccCCCccccCCCccccH
Confidence            999999999999999999999999999 33221     01                    01224467899889999999


Q ss_pred             HHHHHhhcChHHHHHHHHHHHHHhhccCccccc-----------------C--cccc-------------cchh-hc---
Q 012334          318 AAFLSALAGVEIAEVAARAAVTTLSDVDDRASK-----------------G--SLMR-------------NTRQ-QE---  361 (466)
Q Consensus       318 vAFLas~V~P~VAaaAA~aAl~~l~~~~~~~~~-----------------~--~~~~-------------~~~~-~~---  361 (466)
                      ++||+++|||+|+..+++.+.....+.......                 +  +.+.             ...+ +.   
T Consensus       332 ~~~l~~~vdP~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~e~~k~~~~~~  411 (506)
T KOG1279|consen  332 VAFLASVVDPVVKSVAAKSAEEKFSKVNEESPLAKIEVSAKGVEEAASKLGGTDKSKFLALSDIACTLPDEEEKLQSKLK  411 (506)
T ss_pred             HHHHHhccCchhhhhhhcccchhhhhhhhcccchhhhHHhhhhHHhhhhhccchhhhhhhhhhhhhcccchHHHHHHHhh
Confidence            999999999999999999999988765432210                 0  0000             0000 00   


Q ss_pred             ccccCC---------chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 012334          362 AGVASN---------GDATQNALARASVDASSLIEKEELDVEKAISGIVEVQMKEIQDKIIRFESLDLQMEEEWKQLEQV  432 (466)
Q Consensus       362 ~~~~~n---------g~~~~~aL~aAa~kAk~la~~EErei~~Lv~~iie~QlkKlelKLk~feeLE~~le~Er~~Le~~  432 (466)
                      ....-+         +.++..+|++||.+|+.+|.+|| +++.+++.+++.||+|+|.||++|++.|+++.+|+++++..
T Consensus       412 ~~~n~~~~k~~e~~~~~a~~~~ls~aa~k~k~la~~ee-~~~s~~~~~~~~q~~k~E~~l~~~~e~e~~~~~e~e~~~~~  490 (506)
T KOG1279|consen  412 AKLNPNKEKTIELGLSTAANAALSAAAVKAKLLAAQEE-RIKSLVALLEETQLKKLEAKLRHFEEAETLLMREREQLERV  490 (506)
T ss_pred             cccccchhhhhHHHHHHHHHHHHHHHHHhhhhhhhHHH-HHHHHhhhhhhhhhhhhhHHHHHHHHHHhhhhhhhhhHHHH
Confidence            000001         23455689999999999999999 99999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 012334          433 KNLLFVDQLSVLFH  446 (466)
Q Consensus       433 r~~l~~dRl~~~~~  446 (466)
                      |+.+..+|..+.-.
T Consensus       491 ~~~~~~~~~~~~~~  504 (506)
T KOG1279|consen  491 RQRLKAERQQFHMA  504 (506)
T ss_pred             HHHHHhcchhhhhh
Confidence            99999999887643

>PF04433 SWIRM: SWIRM domain; InterPro: IPR007526 The SWIRM domain is a small alpha-helical domain of about 85 amino acid residues found in eukaryotic chromosomal proteins

Probab=99.94  E-value=1.6e-27  Score=198.51  Aligned_cols=85  Identities=47%  Similarity=0.897  Sum_probs=78.2

Q ss_pred             eecCCCCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHhhccc-hHHHHHHHHH
Q 012334           40 VNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVG-DVGSIRRVFD  118 (466)
Q Consensus        40 ivIPs~~~wF~~~~ih~iE~~~lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r~~l~g-Dv~~i~Rvh~  118 (466)
                      +++|++++||+++.+|++|++.+||||.|    ++|+.|+.|||.||..|+.||.+|||+++||+.+.| |++.+.|||+
T Consensus         1 ~~~~~~~~~~~~~~l~~~E~~~~~e~~~~----~~p~~Yl~iRn~il~~w~~n~~~~lt~~~~~~~i~~~d~~~~~ri~~   76 (86)
T PF04433_consen    1 VVIPAHSSWFDPDKLSEIEKQLCPEFFIG----KTPEQYLKIRNTILAEWRKNPNKYLTKTDARKLIKGIDVNKIRRIYD   76 (86)
T ss_dssp             -HCHCCHTTTTTTSS-HHHHHHCHHCTTS----CHHHHHHHHHHHHHHHHHHHTTS---HHHHHHHTTSSSHHHHHHHHH
T ss_pred             CCCccccCCCCcccCCHHHHHHhHHHhcc----CChHHHHHHHHHHHHHHHHCCCCcccHHHHHHHccccCHHHHHHHHH
Confidence            47899999999999999999999999998    799999999999999999999999999999999996 9999999999


Q ss_pred             hhhhcccccC
Q 012334          119 FLETWGLINY  128 (466)
Q Consensus       119 FLe~wGlINy  128 (466)
                      ||++||+|||
T Consensus        77 FL~~~G~INf   86 (86)
T PF04433_consen   77 FLERWGLINF   86 (86)
T ss_dssp             HHHHTTSSSS
T ss_pred             HHHHcCccCC
Confidence            9999999998

It is named after the proteins SWI3, RSC8 and MOIRA in which it was first recognised. This domain is predicted to mediate protein-protein interactions in the assembly of chromatin-protein complexes. The SWIRM domain can be linked to different domains, such as the ZZ-type zinc finger (IPR000433 from INTERPRO), the Myb DNA-binding domain (IPR001005 from INTERPRO), the HORMA domain (IPR003511 from INTERPRO), the amino-oxidase domain, the chromo domain (IPR000953 from INTERPRO), and the JAB1/PAD1 domain.; GO: 0005515 protein binding; PDB: 2Z3Y_A 2UXN_A 2Y48_A 2HKO_A 2XAF_A 2X0L_A 2XAJ_A 2UXX_A 2V1D_A 2L3D_A ....

>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]

Probab=99.86  E-value=2.6e-22  Score=206.37  Aligned_cols=104  Identities=27%  Similarity=0.629  Sum_probs=94.6

Q ss_pred             ccccccCCCCccc----cccccccCCCcccchhhhccCCC-CCCCCCCCceecccC--cccCCCCCHHHHHHHHHHHHHh
Q 012334          159 SKRLCNGCKTLCT----IACFACDKYDLTLCARCYVRGNH-RVGVSSSDFRRVEIS--EEARSDWTEKETLQLLEAIMHF  231 (466)
Q Consensus       159 ~k~~C~~C~~~~~----~~~~~c~k~d~~lC~~Cf~~G~~-~~~~~s~dF~~~~~~--~~~~~~WT~~E~l~LLEaIe~y  231 (466)
                      .+++|++|..+++    +.|+.|.  +++||..||+.|.+ +.|.++|+|..++..  .....+||++||++||||+++|
T Consensus        13 ~ky~C~~C~~dit~~i~ikCaeCp--~fdLCl~CFs~GaE~~~H~~~H~Yrim~~~s~~i~~~~WtadEEilLLea~~t~   90 (438)
T KOG0457|consen   13 GKYNCDYCSLDITGLIRIKCAECP--DFDLCLQCFSVGAETGKHQNDHPYRIMDTNSFPILDPSWTADEEILLLEAAETY   90 (438)
T ss_pred             CCCCCccHhHHhccceEEEeecCC--CcchhHHHHhcccccCCCCCCCCceeecCCCCCCCCCCCChHHHHHHHHHHHHh
Confidence            4899999999886    6788886  57799999999997 788899999999874  3567899999999999999999


Q ss_pred             C-CCHHHHHHHhCCCCHHHHHHHHhcCCCCCccc
Q 012334          232 G-DDWRKVAQHVSGKSEKDCITHFIKLPFGQEFI  264 (466)
Q Consensus       232 g-~nW~~IA~~VgtKT~~eCi~hflqLPIeD~fl  264 (466)
                      | |||.+||+|||+||.+||+.||+...++.++.
T Consensus        91 G~GNW~dIA~hIGtKtkeeck~hy~k~fv~s~~~  124 (438)
T KOG0457|consen   91 GFGNWQDIADHIGTKTKEECKEHYLKHFVNSPIF  124 (438)
T ss_pred             CCCcHHHHHHHHcccchHHHHHHHHHHHhcCccc
Confidence            9 99999999999999999999999999999887

>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]

Probab=99.75  E-value=5.9e-19  Score=175.18  Aligned_cols=104  Identities=24%  Similarity=0.559  Sum_probs=93.4

Q ss_pred             ccccccCCCCccc----cccccccCCCcccchhhhccCCC-CCCCCCCCceecccC--cccCCCCCHHHHHHHHHHHHHh
Q 012334          159 SKRLCNGCKTLCT----IACFACDKYDLTLCARCYVRGNH-RVGVSSSDFRRVEIS--EEARSDWTEKETLQLLEAIMHF  231 (466)
Q Consensus       159 ~k~~C~~C~~~~~----~~~~~c~k~d~~lC~~Cf~~G~~-~~~~~s~dF~~~~~~--~~~~~~WT~~E~l~LLEaIe~y  231 (466)
                      .+++|+.|..+|+    +.|..|.  +++||..||.+|.+ +.|+.+|+|++++..  +....+|++.||++|+++.+..
T Consensus         4 ~k~hCdvC~~d~T~~~~i~C~eC~--~~DLC~pCF~~g~~tg~H~pyH~YRiietnsypI~~e~WgadEEllli~~~~Tl   81 (432)
T COG5114           4 VKIHCDVCFLDMTDLTFIKCNECP--AVDLCLPCFVNGIETGVHSPYHGYRIIETNSYPIGEEGWGADEELLLIECLDTL   81 (432)
T ss_pred             ceeeehHHHHhhhcceeeeeeccc--ccceehhhhhccccccccCCCCCeeEeeccCccccCCCcCchHHHHHHHHHHhc
Confidence            3689999999987    5677776  57799999999998 667789999999865  3567899999999999999999


Q ss_pred             C-CCHHHHHHHhCCCCHHHHHHHHhcCCCCCccc
Q 012334          232 G-DDWRKVAQHVSGKSEKDCITHFIKLPFGQEFI  264 (466)
Q Consensus       232 g-~nW~~IA~~VgtKT~~eCi~hflqLPIeD~fl  264 (466)
                      | |||++||+|||.|+++||..||+.+++|..|.
T Consensus        82 GlGNW~dIadyiGsr~kee~k~HylK~y~es~~y  115 (432)
T COG5114          82 GLGNWEDIADYIGSRAKEEIKSHYLKMYDESKYY  115 (432)
T ss_pred             CCCcHHHHHHHHhhhhhHHHHHHHHHHHhhcccc
Confidence            9 99999999999999999999999999999887

>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins

Probab=99.14  E-value=5.8e-11  Score=88.43  Aligned_cols=44  Identities=39%  Similarity=0.912  Sum_probs=39.6

Q ss_pred             CCCCHHHHHHHHHHHHHhCCC-HHHHHHHhC-CCCHHHHHHHHhcC
Q 012334          214 SDWTEKETLQLLEAIMHFGDD-WRKVAQHVS-GKSEKDCITHFIKL  257 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg~n-W~~IA~~Vg-tKT~~eCi~hflqL  257 (466)
                      ..||.+|+.+|++||.+||.+ |..||++|| +||..||+.||.++
T Consensus         2 ~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~   47 (48)
T PF00249_consen    2 GPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNL   47 (48)
T ss_dssp             -SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhh
Confidence            579999999999999999965 999999999 99999999999764

These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....

>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A

Probab=98.91  E-value=1.8e-09  Score=83.58  Aligned_cols=41  Identities=34%  Similarity=0.857  Sum_probs=37.5

Q ss_pred             CCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          216 WTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       216 WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ||.+|+.+|++++..||.+|..||+++|+||+.+|..||..
T Consensus         1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~   41 (60)
T PF13921_consen    1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRN   41 (60)
T ss_dssp             S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHH
Confidence            99999999999999999999999999998999999999999

...

>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

Probab=98.87  E-value=4.1e-09  Score=76.28  Aligned_cols=44  Identities=30%  Similarity=0.810  Sum_probs=42.1

Q ss_pred             CCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          214 SDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ..||.+|+.+|+.++.+|| ++|..||.++++||+.+|..+|..+
T Consensus         2 ~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~   46 (49)
T smart00717        2 GEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNL   46 (49)
T ss_pred             CCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHH
Confidence            5799999999999999999 9999999999999999999999874

>PLN03000 amine oxidase

Probab=98.81  E-value=5e-09  Score=118.83  Aligned_cols=83  Identities=24%  Similarity=0.382  Sum_probs=72.4

Q ss_pred             CCCCCCCCCCCCHHHHhh--CccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHhhccch-HHHHHHHHHhh
Q 012334           44 SYSRWFSFDSISECEVKF--LPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGD-VGSIRRVFDFL  120 (466)
Q Consensus        44 s~~~wF~~~~ih~iE~~~--lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r~~l~gD-v~~i~Rvh~FL  120 (466)
                      .++.-|+.+.+++.|..+  || ...    ...+..|+.|||.||.+|+.||..|||+++|...+..+ ...+.++|+||
T Consensus        86 a~~~~~p~d~l~~~e~~~~~~~-~~~----~~~~~~yl~iRN~il~lW~~np~~~~t~~~a~~~~~~~~~~l~~~~~~~L  160 (881)
T PLN03000         86 ALTAGFPADSLTEEEIEFGVVP-IVG----GIEQVNYILIRNHIISKWRENISSWVTKEMFLGSIPKHCSSLLDSAYNYL  160 (881)
T ss_pred             HHHcCCCcccCCHHHHhccccC-ccc----ccchhhHHHHHHHHHHHHHHCCceeecHHHHhhhcchhHHHHHHHHHHHH
Confidence            456789999999999777  88 222    35789999999999999999999999999999776643 48899999999


Q ss_pred             hhcccccCCCC
Q 012334          121 ETWGLINYFAS  131 (466)
Q Consensus       121 e~wGlINy~~~  131 (466)
                      .++|+|||++.
T Consensus       161 ~r~G~in~g~~  171 (881)
T PLN03000        161 VTHGYINFGIA  171 (881)
T ss_pred             HHcCcccHHHH
Confidence            99999999998

>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains

Probab=98.80  E-value=1e-08  Score=73.13  Aligned_cols=43  Identities=37%  Similarity=0.851  Sum_probs=40.9

Q ss_pred             CCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          215 DWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       215 ~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      .||.+|+.+|+.++.+|| ++|..||+.+++||..+|..||..+
T Consensus         1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~   44 (45)
T cd00167           1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL   44 (45)
T ss_pred             CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence            599999999999999999 9999999999999999999999764

Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.

>PLN02328 lysine-specific histone demethylase 1 homolog

Probab=98.69  E-value=2.1e-08  Score=113.52  Aligned_cols=83  Identities=22%  Similarity=0.306  Sum_probs=74.3

Q ss_pred             CCCCCCCCCCCHHHHhh-CccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHhhcc-chHHHHHHHHHhhhh
Q 012334           45 YSRWFSFDSISECEVKF-LPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLV-GDVGSIRRVFDFLET  122 (466)
Q Consensus        45 ~~~wF~~~~ih~iE~~~-lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r~~l~-gDv~~i~Rvh~FLe~  122 (466)
                      .+.-|+.+.+|+.|..+ |+....+    ..+..|+.|||.||.+|+.||..|||+++|+..+. -....+.++|.||.+
T Consensus       138 ~~~~~p~~~l~~~e~~~~~~~~~~~----~~~~~yl~iRN~il~lW~~np~~~~t~~~a~~~~~~~~~~l~~~~~~~l~~  213 (808)
T PLN02328        138 ISVGFPVDSLTEEEIEANVVSTIGG----TEQANYIVVRNHILARWRSNVSNWLTRDHALESIRAEHKNLVDSAYNFLLE  213 (808)
T ss_pred             HHcCCCCccCCHHHHhhcCcchhcc----cceeehhhHHHHHHHHHHhCCcceecHHHHHhhcchhhHHHHHHHHHHHhc
Confidence            45789999999999887 7777665    57899999999999999999999999999997765 356899999999999


Q ss_pred             cccccCCCC
Q 012334          123 WGLINYFAS  131 (466)
Q Consensus       123 wGlINy~~~  131 (466)
                      .|.|||++.
T Consensus       214 ~g~in~gv~  222 (808)
T PLN02328        214 HGYINFGVA  222 (808)
T ss_pred             cCceeeecc
Confidence            999999998

>cd02336 ZZ_RSC8 Zinc finger, ZZ type

Probab=98.48  E-value=8.3e-08  Score=71.18  Aligned_cols=44  Identities=32%  Similarity=0.555  Sum_probs=39.5

Q ss_pred             ccccCCCCccccccccccC-CCcccchhhhccCCCCCCCCCCCce
Q 012334          161 RLCNGCKTLCTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFR  204 (466)
Q Consensus       161 ~~C~~C~~~~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~~s~dF~  204 (466)
                      +.|+.|+.+|+..+|+|.+ .+++||+.||.+|+||.++.+.||+
T Consensus         1 y~C~~Cg~D~t~vryh~~~~~~~dLC~~CF~~G~f~~~~~s~Dfv   45 (45)
T cd02336           1 YHCFTCGNDCTRVRYHNLKAKKYDLCPSCYQEGRFPSNFQSSDFI   45 (45)
T ss_pred             CcccCCCCccCceEEEecCCCccccChHHHhCcCCCCCCcccccC
Confidence            4799999999988888865 4688999999999999999999995

Zinc finger present in RSC8 and related proteins. RSC8 is a component of the RSC complex, which is closely related to the SWI/SNF complex and is involved in remodeling chromatin structure. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.

>PLN03212 Transcription repressor MYB5; Provisional

Probab=98.25  E-value=9.7e-07  Score=86.74  Aligned_cols=45  Identities=24%  Similarity=0.512  Sum_probs=42.1

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC-CCCHHHHHHHHhcC
Q 012334          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVS-GKSEKDCITHFIKL  257 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~Vg-tKT~~eCi~hflqL  257 (466)
                      ...||.+|+.+|+++|++|| .+|..||+++| +||..||+.||.++
T Consensus        25 Rg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~   71 (249)
T PLN03212         25 RGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNY   71 (249)
T ss_pred             CCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHh
Confidence            56899999999999999999 79999999997 79999999999983

>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class

Probab=98.20  E-value=2.1e-06  Score=66.86  Aligned_cols=46  Identities=24%  Similarity=0.542  Sum_probs=40.6

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCH---HHHHHHhC-CC-CHHHHHHHHhcCC
Q 012334          213 RSDWTEKETLQLLEAIMHFG-DDW---RKVAQHVS-GK-SEKDCITHFIKLP  258 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg-~nW---~~IA~~Vg-tK-T~~eCi~hflqLP  258 (466)
                      ...||++|..++|+||+.|| |||   ..|+++++ ++ |+.||..|+-.+.
T Consensus         3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~   54 (57)
T TIGR01557         3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR   54 (57)
T ss_pred             CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999 699   99999987 57 9999999986543

This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.

>PLN02529 lysine-specific histone demethylase 1

Probab=98.11  E-value=3.5e-06  Score=95.05  Aligned_cols=83  Identities=25%  Similarity=0.343  Sum_probs=70.7

Q ss_pred             CCCCCCCCCCCCHHHHhh--CccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHhhccchH-HHHHHHHHhh
Q 012334           44 SYSRWFSFDSISECEVKF--LPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDV-GSIRRVFDFL  120 (466)
Q Consensus        44 s~~~wF~~~~ih~iE~~~--lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r~~l~gDv-~~i~Rvh~FL  120 (466)
                      .++-=|+.+.+++.|+++  +|+     -..+.+..|+.|||.|+.+|+.||..|||+++++..+.-++ ..|...|+||
T Consensus        62 ~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~yl~irn~il~~w~~np~~~~~~~~a~~~~~~~i~~ci~~c~~~l  136 (738)
T PLN02529         62 ALSVGFPIDALLEEEIRAGVVRE-----LGGKEQNDYIVVRNHILARWRSNVGIWLSKGQIKETVSSEYEHLISAAYDFL  136 (738)
T ss_pred             HHHcCCCccccCHHHHhccccCc-----cccccceeeehHHHHHHHHHHHCCceeecHHHHhhhchhhHHHHHHHHHHHH
Confidence            456789999999999855  443     23578999999999999999999999999999987766544 5677899999


Q ss_pred             hhcccccCCCC
Q 012334          121 ETWGLINYFAS  131 (466)
Q Consensus       121 e~wGlINy~~~  131 (466)
                      .+.|.|||++.
T Consensus       137 ~~~~~inc~vn  147 (738)
T PLN02529        137 LYNGYINFGVS  147 (738)
T ss_pred             HhCCCcceeec
Confidence            99999999998

>PLN03091 hypothetical protein; Provisional

Probab=98.04  E-value=4.6e-06  Score=87.75  Aligned_cols=45  Identities=24%  Similarity=0.597  Sum_probs=41.8

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC-CCCHHHHHHHHhcC
Q 012334          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVS-GKSEKDCITHFIKL  257 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~Vg-tKT~~eCi~hflqL  257 (466)
                      +..||.+|+.+|+++|++|| ++|..||+++| +||..||+.||..+
T Consensus        14 Kg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~Ny   60 (459)
T PLN03091         14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINY   60 (459)
T ss_pred             CCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhc
Confidence            46799999999999999999 89999999998 79999999999873

>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]

Probab=97.85  E-value=1.5e-05  Score=78.41  Aligned_cols=44  Identities=20%  Similarity=0.496  Sum_probs=42.6

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC-CCCHHHHHHHHhc
Q 012334          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVS-GKSEKDCITHFIK  256 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~Vg-tKT~~eCi~hflq  256 (466)
                      ++.||.+|+.+|.+-|++|| ++|..|+++.| .|+-.+|+++|+.
T Consensus         9 kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~N   54 (238)
T KOG0048|consen    9 KGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTN   54 (238)
T ss_pred             CCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhc
Confidence            58999999999999999999 99999999999 8999999999987

>PLN03212 Transcription repressor MYB5; Provisional

Probab=97.76  E-value=2.9e-05  Score=76.47  Aligned_cols=46  Identities=17%  Similarity=0.338  Sum_probs=43.0

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          211 EARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       211 ~~~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      .....||.+|+.+||+.+..||..|..||++|.+||..+|..||..
T Consensus        76 I~kgpWT~EED~lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRWns  121 (249)
T PLN03212         76 VKRGGITSDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNT  121 (249)
T ss_pred             cccCCCChHHHHHHHHHHHhccccHHHHHhhcCCCCHHHHHHHHHH
Confidence            3468999999999999999999999999999999999999999964

>PLN03091 hypothetical protein; Provisional

Probab=97.44  E-value=0.00016  Score=76.38  Aligned_cols=45  Identities=16%  Similarity=0.468  Sum_probs=42.2

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      .+..||.+|+.+||+.+..||..|.+||++|.+||..+|..||..
T Consensus        66 kKgpWT~EED~lLLeL~k~~GnKWskIAk~LPGRTDnqIKNRWns  110 (459)
T PLN03091         66 KRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNS  110 (459)
T ss_pred             cCCCCCHHHHHHHHHHHHHhCcchHHHHHhcCCCCHHHHHHHHHH
Confidence            457899999999999999999999999999999999999998864

>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]

Probab=97.37  E-value=0.00024  Score=69.98  Aligned_cols=42  Identities=17%  Similarity=0.554  Sum_probs=40.1

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHH
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHF  254 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hf  254 (466)
                      +..||.+||.+|+++-..||.-|..||.|+++||..+...||
T Consensus        62 rg~fT~eEe~~Ii~lH~~~GNrWs~IA~~LPGRTDNeIKN~W  103 (238)
T KOG0048|consen   62 RGNFSDEEEDLIIKLHALLGNRWSLIAGRLPGRTDNEVKNHW  103 (238)
T ss_pred             CCCCCHHHHHHHHHHHHHHCcHHHHHHhhCCCcCHHHHHHHH
Confidence            578999999999999999999999999999999999998887

>cd02335 ZZ_ADA2 Zinc finger, ZZ type

Probab=96.97  E-value=0.00079  Score=50.68  Aligned_cols=46  Identities=24%  Similarity=0.501  Sum_probs=33.6

Q ss_pred             ccccCCCCcccc-ccccccC-CCcccchhhhccCCC-CCCCCCCCceec
Q 012334          161 RLCNGCKTLCTI-ACFACDK-YDLTLCARCYVRGNH-RVGVSSSDFRRV  206 (466)
Q Consensus       161 ~~C~~C~~~~~~-~~~~c~k-~d~~lC~~Cf~~G~~-~~~~~s~dF~~~  206 (466)
                      +.|++|+..+.. .++.|.. .|++||..||..|.. ..+..+|.|..+
T Consensus         1 ~~Cd~C~~~~~~g~r~~C~~C~d~dLC~~Cf~~g~~~~~H~~~H~~~~~   49 (49)
T cd02335           1 YHCDYCSKDITGTIRIKCAECPDFDLCLECFSAGAEIGKHRNDHNYRVV   49 (49)
T ss_pred             CCCCCcCCCCCCCcEEECCCCCCcchhHHhhhCcCCCCCCCCCCCeEeC
Confidence            369999987653 4454443 278899999999987 456678888753

Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.

>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]

Probab=96.95  E-value=0.00099  Score=72.97  Aligned_cols=45  Identities=31%  Similarity=0.731  Sum_probs=42.6

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ..+.||.+|+.+|+-||++|| .+|-+|-+.|.+||-.||+.+|++
T Consensus       359 khg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~n  404 (939)
T KOG0049|consen  359 KHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTN  404 (939)
T ss_pred             cCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHH
Confidence            457899999999999999999 699999999999999999999986

>PLN02976 amine oxidase

Probab=96.51  E-value=0.0041  Score=74.58  Aligned_cols=86  Identities=20%  Similarity=0.230  Sum_probs=72.1

Q ss_pred             CCCCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHh------hccchHHHHHHH
Q 012334           43 PSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRR------TLVGDVGSIRRV  116 (466)
Q Consensus        43 Ps~~~wF~~~~ih~iE~~~lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r~------~l~gDv~~i~Rv  116 (466)
                      ..-+.-+....+.+|||-.|.|...-|.   .-+-|+++||.|+-+|-++=.+-|.+++|-=      .-.+-...|.-|
T Consensus       449 aav~~gl~a~~~~~~e~~~~k~~lkr~~---~~q~yl~cr~~~l~~w~k~~~~~l~~~~c~v~~~~~~~e~~~~~l~r~~  525 (1713)
T PLN02976        449 AAVSAGLKARAVGPIEKIKFKEVLKRKG---GLQEYLECRNMILGLWSKDVSRILPLADCGVTDTPSEDESPRASLIREV  525 (1713)
T ss_pred             hhhhccccccccChHHHHHHHHHHHhcc---chHHHHHHHHHHHHHhhhhhhhcccHhhccccCCcccccCchhhHHHHH
Confidence            3444566678899999999999997543   5799999999999999999999999999931      111456889999


Q ss_pred             HHhhhhcccccCCCC
Q 012334          117 FDFLETWGLINYFAS  131 (466)
Q Consensus       117 h~FLe~wGlINy~~~  131 (466)
                      +.||++.|.||-++.
T Consensus       526 ~~fld~~gyin~g~~  540 (1713)
T PLN02976        526 YLFLDQRGYINAGIA  540 (1713)
T ss_pred             HHHhhccCceecccc
Confidence            999999999999988

>cd02249 ZZ Zinc finger, ZZ type

Probab=96.51  E-value=0.0026  Score=47.17  Aligned_cols=44  Identities=25%  Similarity=0.610  Sum_probs=32.6

Q ss_pred             ccccCCCCccccccccccC-CCcccchhhhccCCCCCCCCCCCcee
Q 012334          161 RLCNGCKTLCTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFRR  205 (466)
Q Consensus       161 ~~C~~C~~~~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~~s~dF~~  205 (466)
                      +.|++|+..+.-.+|.|.. .+++||..||..|. ..+...|.|.+
T Consensus         1 ~~C~~C~~~i~g~r~~C~~C~d~dLC~~Cf~~~~-~~H~~~H~~~~   45 (46)
T cd02249           1 YSCDGCLKPIVGVRYHCLVCEDFDLCSSCYAKGK-KGHPPDHSFTE   45 (46)
T ss_pred             CCCcCCCCCCcCCEEECCCCCCCcCHHHHHCcCc-CCCCCCCCEeE
Confidence            3699999987656666643 36889999999997 45555777765

Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.

>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]

Probab=96.08  E-value=0.0053  Score=67.50  Aligned_cols=45  Identities=29%  Similarity=0.443  Sum_probs=41.5

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCH---HHHHHHHhc
Q 012334          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSE---KDCITHFIK  256 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~---~eCi~hflq  256 (466)
                      ..+.||-+|+..||++|++|| |+|-++|-.+|.||.   .-|+.+|+.
T Consensus       411 K~~rW~l~edeqL~~~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~~  459 (939)
T KOG0049|consen  411 KVERWTLVEDEQLLYAVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLIA  459 (939)
T ss_pred             ccCceeecchHHHHHHHHHHccchHHHHHHHccccchhHHHHHHHHHHH
Confidence            357899999999999999999 999999999999998   778888876

>cd02343 ZZ_EF Zinc finger, ZZ type

Probab=96.06  E-value=0.0051  Score=46.38  Aligned_cols=38  Identities=26%  Similarity=0.764  Sum_probs=28.1

Q ss_pred             cccCCCCccccccccccC-CCcccchhhhccCCCCCCCC
Q 012334          162 LCNGCKTLCTIACFACDK-YDLTLCARCYVRGNHRVGVS  199 (466)
Q Consensus       162 ~C~~C~~~~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~~  199 (466)
                      .|++|+..+...+|.|.. .|++||..||..|....++.
T Consensus         2 ~CdgC~~~~~~~RykCl~C~d~DlC~~Cf~~g~~~~~H~   40 (48)
T cd02343           2 SCDGCDEIAPWHRYRCLQCTDMDLCKTCFLGGVKPEGHE   40 (48)
T ss_pred             CCCCCCCcCCCceEECCCCCCchhHHHHHhCCccCCCCC
Confidence            599999876544555532 47889999999999865553

Zinc finger present in proteins with an EF_hand motif. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.

>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein

Probab=96.01  E-value=0.0058  Score=44.91  Aligned_cols=39  Identities=21%  Similarity=0.472  Sum_probs=29.5

Q ss_pred             cccccCCCCccccccccccC-CCcccchhhhccCCCCCCC
Q 012334          160 KRLCNGCKTLCTIACFACDK-YDLTLCARCYVRGNHRVGV  198 (466)
Q Consensus       160 k~~C~~C~~~~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~  198 (466)
                      ...|++|+..+.-.+|.|.. .|++||.+||..|.++..+
T Consensus         4 ~~~C~~C~~~i~g~ry~C~~C~d~dlC~~Cf~~~~~~~~h   43 (44)
T smart00291        4 SYSCDTCGKPIVGVRYHCLVCPDYDLCQSCFAKGSAGGEH   43 (44)
T ss_pred             CcCCCCCCCCCcCCEEECCCCCCccchHHHHhCcCcCCCC
Confidence            45799999977655666643 3788999999999876543

Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].

>cd02340 ZZ_NBR1_like Zinc finger, ZZ type

Probab=96.01  E-value=0.0061  Score=44.79  Aligned_cols=41  Identities=24%  Similarity=0.634  Sum_probs=31.1

Q ss_pred             cccCCCCccccccccccC-CCcccchhhhccCCCCCCCCCCCceec
Q 012334          162 LCNGCKTLCTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFRRV  206 (466)
Q Consensus       162 ~C~~C~~~~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~~s~dF~~~  206 (466)
                      .|++|+..+.-.+|.|.. .+++||..||..|   .+ ..|.|.++
T Consensus         2 ~Cd~C~~~i~G~ry~C~~C~d~dLC~~C~~~~---~H-~~H~f~~~   43 (43)
T cd02340           2 ICDGCQGPIVGVRYKCLVCPDYDLCESCEAKG---VH-PEHAMLKI   43 (43)
T ss_pred             CCCCCCCcCcCCeEECCCCCCccchHHhhCcC---CC-CCCCEEeC
Confidence            599999977656666654 3788999999998   33 77888753

Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.

>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A

Probab=95.64  E-value=0.0067  Score=49.99  Aligned_cols=44  Identities=25%  Similarity=0.675  Sum_probs=33.1

Q ss_pred             CCCCHHHHHHHHHHHHH------hC------C--CHHHHHHHhC----CCCHHHHHHHHhcC
Q 012334          214 SDWTEKETLQLLEAIMH------FG------D--DWRKVAQHVS----GKSEKDCITHFIKL  257 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~------yg------~--nW~~IA~~Vg----tKT~~eCi~hflqL  257 (466)
                      ..||++|+..||+.+..      ++      +  -|..||+.+.    .||+.||..+|-.|
T Consensus         2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L   63 (90)
T PF13837_consen    2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL   63 (90)
T ss_dssp             -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            47999999999999977      21      1  4999999984    49999999999883

>cd02338 ZZ_PCMF_like Zinc finger, ZZ type

Probab=95.59  E-value=0.011  Score=44.49  Aligned_cols=44  Identities=30%  Similarity=0.566  Sum_probs=29.5

Q ss_pred             cccCCC-CccccccccccC-CCcccchhhhccCCCCCCC-CCCCcee
Q 012334          162 LCNGCK-TLCTIACFACDK-YDLTLCARCYVRGNHRVGV-SSSDFRR  205 (466)
Q Consensus       162 ~C~~C~-~~~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~-~s~dF~~  205 (466)
                      .|++|+ .++.-.+|.|.. .|++||..||..|.....| .+|.|..
T Consensus         2 ~C~~C~~~~i~g~R~~C~~C~d~dlC~~Cf~~~~~~~~H~~~H~~~~   48 (49)
T cd02338           2 SCDGCGKSNFTGRRYKCLICYDYDLCADCYDSGVTTERHLFDHPMQC   48 (49)
T ss_pred             CCCCCcCCCcEEeeEEeCCCCCCccchhHHhCCCcCCCCCCCCCEEE
Confidence            599999 555534444432 3688999999999764444 4777653

Zinc finger present in potassium channel modulatory factor (PCMF) 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Human potassium channel modulatory factor 1 or FIGC has been shown to possess intrinsic E3 ubiquitin ligase activity and to promote ubiquitination.

>cd02345 ZZ_dah Zinc finger, ZZ type

Probab=95.49  E-value=0.013  Score=44.19  Aligned_cols=43  Identities=26%  Similarity=0.542  Sum_probs=29.4

Q ss_pred             cccCCCC-ccccccccccC-CCcccchhhhccCCCCCC-CCCCCce
Q 012334          162 LCNGCKT-LCTIACFACDK-YDLTLCARCYVRGNHRVG-VSSSDFR  204 (466)
Q Consensus       162 ~C~~C~~-~~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~-~~s~dF~  204 (466)
                      .|++|+. ++.-.+|.|.. .|++||..||..|....+ ..+|.|.
T Consensus         2 ~C~~C~~~~i~g~R~~C~~C~dydLC~~Cf~~~~~~~~H~~~H~~~   47 (49)
T cd02345           2 SCSACRKQDISGIRFPCQVCRDYSLCLGCYTKGRETKRHNSLHIMY   47 (49)
T ss_pred             cCCCCCCCCceEeeEECCCCCCcCchHHHHhCCCcCCCCCCCCCcc
Confidence            5999998 66544444432 478899999999976443 4566654

Zinc finger present in Drosophila dah and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dah (discontinuous actin hexagon) is a membrane associated protein essential for cortical furrow formation in Drosophila.

>cd02334 ZZ_dystrophin Zinc finger, ZZ type

Probab=95.16  E-value=0.02  Score=43.37  Aligned_cols=43  Identities=28%  Similarity=0.631  Sum_probs=28.2

Q ss_pred             cccCCCCc-cccccccccC-CCcccchhhhccCCCCCCC-CCCCce
Q 012334          162 LCNGCKTL-CTIACFACDK-YDLTLCARCYVRGNHRVGV-SSSDFR  204 (466)
Q Consensus       162 ~C~~C~~~-~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~-~s~dF~  204 (466)
                      .|++|+.. +.-.+|.|.. .|++||..||..|.....| ..|.++
T Consensus         2 ~Cd~C~~~pi~g~RykC~~C~d~DLC~~Cf~~g~~~~~H~~~Hp~~   47 (49)
T cd02334           2 KCNICKEFPITGFRYRCLKCFNYDLCQSCFFSGRTSKSHKNSHPMK   47 (49)
T ss_pred             CCCCCCCCCceeeeEECCCCCCcCchHHHHhCCCcCCCCCCCCCee
Confidence            59999964 4433444432 3688999999999875444 555553

Zinc finger present in dystrophin and dystrobrevin. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dystrophin attaches actin filaments to an integral membrane glycoprotein complex in muscle cells. The ZZ domain in dystrophin has been shown to be essential for binding to the membrane protein beta-dystroglycan.

>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type

Probab=95.09  E-value=0.022  Score=42.98  Aligned_cols=43  Identities=21%  Similarity=0.485  Sum_probs=29.7

Q ss_pred             ccccCCCC-ccccccccccC---CCcccchhhhccCCCCCCCCCCCcee
Q 012334          161 RLCNGCKT-LCTIACFACDK---YDLTLCARCYVRGNHRVGVSSSDFRR  205 (466)
Q Consensus       161 ~~C~~C~~-~~~~~~~~c~k---~d~~lC~~Cf~~G~~~~~~~s~dF~~  205 (466)
                      +.|++|+. .+.-.+|.|..   .+++||..||..|.  .+..+|.|.+
T Consensus         1 y~Cd~C~~~pI~G~R~~C~~C~~~d~DlC~~C~~~~~--~H~~~H~~~~   47 (48)
T cd02341           1 FKCDSCGIEPIPGTRYHCSECDDGDFDLCQDCVVKGE--SHQEDHWLVK   47 (48)
T ss_pred             CCCCCCCCCccccceEECCCCCCCCCccCHHHHhCcC--CCCCCCceee
Confidence            46999997 55544455543   36889999999996  4556666654

Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.

>PF00569 ZZ: Zinc finger, ZZ type; InterPro: IPR000433 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=95.01  E-value=0.0093  Score=44.27  Aligned_cols=39  Identities=28%  Similarity=0.622  Sum_probs=22.9

Q ss_pred             cccccCCCC-ccccccccccC-CCcccchhhhccCCCCCCC
Q 012334          160 KRLCNGCKT-LCTIACFACDK-YDLTLCARCYVRGNHRVGV  198 (466)
Q Consensus       160 k~~C~~C~~-~~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~  198 (466)
                      ...|++|+. .+.-.+|.|.. .|++||..||..|.+...+
T Consensus         4 ~~~C~~C~~~~i~g~Ry~C~~C~d~dLC~~C~~~g~~~~~H   44 (46)
T PF00569_consen    4 GYTCDGCGTDPIIGVRYHCLVCPDYDLCEDCFSKGRHSHNH   44 (46)
T ss_dssp             SCE-SSS-SSSEESSEEEESSSSS-EEEHHHHHH--H-SSS
T ss_pred             CeECcCCCCCcCcCCeEECCCCCCCchhhHHHhCcCCCCCc
Confidence            467999998 44444555542 4788999999999875544

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents ZZ-type zinc finger domains, named because of their ability to bind two zinc ions []. These domains contain 4-6 Cys residues that participate in zinc binding (plus additional Ser/His residues), including a Cys-X2-Cys motif found in other zinc finger domains. These zinc fingers are thought to be involved in protein-protein interactions. The structure of the ZZ domain shows that it belongs to the family of cross-brace zinc finger motifs that include the PHD, RING, and FYVE domains []. ZZ-type zinc finger domains are found in: Transcription factors P300 and CBP. Plant proteins involved in light responses, such as Hrb1. E3 ubiquitin ligases MEX and MIB2 (6.3.2 from EC). Dystrophin and its homologues. Single copies of the ZZ zinc finger occur in the transcriptional adaptor/coactivator proteins P300, in cAMP response element-binding protein (CREB)-binding protein (CBP) and ADA2. CBP provides several binding sites for transcriptional coactivators. The site of interaction with the tumour suppressor protein p53 and the oncoprotein E1A with CBP/P300 is a Cys-rich region that incorporates two zinc-binding motifs: ZZ-type and TAZ2-type. The ZZ-type zinc finger of CBP contains two twisted anti-parallel beta-sheets and a short alpha-helix, and binds two zinc ions []. One zinc ion is coordinated by four cysteine residues via 2 Cys-X2-Cys motifs, and the third zinc ion via a third Cys-X-Cys motif and a His-X-His motif. The first zinc cluster is strictly conserved, whereas the second zinc cluster displays variability in the position of the two His residues. In Arabidopsis thaliana (Mouse-ear cress), the hypersensitive to red and blue 1 (Hrb1) protein, which regulating both red and blue light responses, contains a ZZ-type zinc finger domain []. ZZ-type zinc finger domains have also been identified in the testis-specific E3 ubiquitin ligase MEX that promotes death receptor-induced apoptosis []. MEX has four putative zinc finger domains: one ZZ-type, one SWIM-type and two RING-type. The region containing the ZZ-type and RING-type zinc fingers is required for interaction with UbcH5a and MEX self-association, whereas the SWIM domain was critical for MEX ubiquitination. In addition, the Cys-rich domains of dystrophin, utrophin and an 87kDa post-synaptic protein contain a ZZ-type zinc finger with high sequence identity to P300/CBP ZZ-type zinc fingers. In dystrophin and utrophin, the ZZ-type zinc finger lies between a WW domain (flanked by and EF hand) and the C-terminal coiled-coil domain. Dystrophin is thought to act as a link between the actin cytoskeleton and the extracellular matrix, and perturbations of the dystrophin-associated complex, for example, between dystrophin and the transmembrane glycoprotein beta-dystroglycan, may lead to muscular dystrophy. Dystrophin and its autosomal homologue utrophin interact with beta-dystroglycan via their C-terminal regions, which are comprised of a WW domain, an EF hand domain and a ZZ-type zinc finger domain []. The WW domain is the primary site of interaction between dystrophin or utrophin and dystroglycan, while the EF hand and ZZ-type zinc finger domains stabilise and strengthen this interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1TOT_A 2DIP_A 2FC7_A 2E5R_A.

>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]

Probab=94.18  E-value=0.053  Score=59.89  Aligned_cols=45  Identities=22%  Similarity=0.641  Sum_probs=42.4

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ..+.||.+|+..|-.-+.++|++|..|++.|| |.|..|+.+|-++
T Consensus       383 ~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~lg-r~P~~crd~wr~~  427 (607)
T KOG0051|consen  383 KRGKWTPEEEEELKKLVVEHGNDWKEIGKALG-RMPMDCRDRWRQY  427 (607)
T ss_pred             ccCCCCcchHHHHHHHHHHhcccHHHHHHHHc-cCcHHHHHHHHHh
Confidence            56889999999999999999999999999998 7999999999884

>cd02337 ZZ_CBP Zinc finger, ZZ type

Probab=93.71  E-value=0.053  Score=39.52  Aligned_cols=37  Identities=32%  Similarity=0.671  Sum_probs=26.5

Q ss_pred             ccccCCCCccccccccccC-CCcccchhhhccCCCCCCC
Q 012334          161 RLCNGCKTLCTIACFACDK-YDLTLCARCYVRGNHRVGV  198 (466)
Q Consensus       161 ~~C~~C~~~~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~  198 (466)
                      +.|++|.+..+ ..+.|.. .|++||..||..+.++..+
T Consensus         1 y~C~~C~~~~~-~r~~C~~C~dfDLC~~C~~~~~H~H~~   38 (41)
T cd02337           1 YTCNECKHHVE-TRWHCTVCEDYDLCITCYNTKNHPHKM   38 (41)
T ss_pred             CcCCCCCCcCC-CceECCCCcchhhHHHHhCCCCCCccc
Confidence            36999988766 4444432 3788999999998876543

Zinc finger present in CBP/p300 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. CREB-binding protein (CBP) is a large multidomain protein that provides binding sites for transcriptional coactivators, the role of the ZZ domain in CBP/p300 is unclear.

>cd02344 ZZ_HERC2 Zinc finger, ZZ type

Probab=93.62  E-value=0.067  Score=39.86  Aligned_cols=42  Identities=26%  Similarity=0.761  Sum_probs=28.3

Q ss_pred             cccCCCCc-cccccccccC-CCcccchhhhccCCCCCCCCCCCceec
Q 012334          162 LCNGCKTL-CTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFRRV  206 (466)
Q Consensus       162 ~C~~C~~~-~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~~s~dF~~~  206 (466)
                      .|++|+.. +.-.+|.|.. .|++||..||..+.+   ...|.|.|+
T Consensus         2 ~Cd~C~~~pI~G~RykC~~C~dyDLC~~Cf~~~~H---~~~H~F~ri   45 (45)
T cd02344           2 TCDGCQMFPINGPRFKCRNCDDFDFCENCFKTRKH---NTRHTFGRI   45 (45)
T ss_pred             CCCCCCCCCCccCeEECCCCCCccchHHhhCCCCc---CCCCceeeC
Confidence            59999864 3334454432 368899999999664   356777664

Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.

>cd02339 ZZ_Mind_bomb Zinc finger, ZZ type

Probab=93.58  E-value=0.074  Score=39.56  Aligned_cols=41  Identities=22%  Similarity=0.546  Sum_probs=27.0

Q ss_pred             cccCCCC-ccccccccccC-CCcccchhhhccCCCCCCCCCCCcee
Q 012334          162 LCNGCKT-LCTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFRR  205 (466)
Q Consensus       162 ~C~~C~~-~~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~~s~dF~~  205 (466)
                      .|++|+. .+.-.+|.|.. .|++||..||..+.   +...|.|.+
T Consensus         2 ~Cd~C~~~~i~G~RykC~~C~dyDLC~~C~~~~~---H~~~H~f~r   44 (45)
T cd02339           2 ICDTCRKQGIIGIRWKCAECPNYDLCTTCYHGDK---HDLEHRFYR   44 (45)
T ss_pred             CCCCCCCCCcccCeEECCCCCCccchHHHhCCCC---CCCCCCEEe
Confidence            5999994 44344444443 26889999999755   345566654

Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has been shown to regulate signaling by the Notch ligand Delta in Drosophila melanogaster.

>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]

Probab=93.13  E-value=0.078  Score=58.61  Aligned_cols=53  Identities=25%  Similarity=0.481  Sum_probs=45.7

Q ss_pred             cCCCCCHHHHHHHHHHHH-------Hh-------C------------CCHHHHHHHhCCCCHHHHHHHHhcCCCCCccc
Q 012334          212 ARSDWTEKETLQLLEAIM-------HF-------G------------DDWRKVAQHVSGKSEKDCITHFIKLPFGQEFI  264 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe-------~y-------g------------~nW~~IA~~VgtKT~~eCi~hflqLPIeD~fl  264 (466)
                      ....||-+|+.+||..|+       +|       |            =+|..|++.+|||++.||+.||-+|=+...+-
T Consensus       435 ~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n  513 (607)
T KOG0051|consen  435 NRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFN  513 (607)
T ss_pred             ccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhh
Confidence            457899999999999995       45       1            17999999999999999999999988877665

>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]

Probab=91.47  E-value=0.17  Score=54.82  Aligned_cols=44  Identities=23%  Similarity=0.615  Sum_probs=41.2

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      +..|+..|+..|--+|.+|| ..|..|+..+..||+.||..+|-.
T Consensus         7 ggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e   51 (617)
T KOG0050|consen    7 GGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEE   51 (617)
T ss_pred             cceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHH
Confidence            56899999999999999999 779999999999999999999974

>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]

Probab=90.98  E-value=0.33  Score=54.64  Aligned_cols=44  Identities=20%  Similarity=0.422  Sum_probs=41.4

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ..-||..|..++-.||-.|..|+..|++.|.+||..||+..|.-
T Consensus       619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYt  662 (907)
T KOG4167|consen  619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYT  662 (907)
T ss_pred             cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHH
Confidence            46799999999999999999999999999999999999999853

>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain

Probab=90.79  E-value=0.51  Score=38.08  Aligned_cols=44  Identities=20%  Similarity=0.419  Sum_probs=37.7

Q ss_pred             CCCCHHHHHHHHHHHHHhC----C-------------CHHHHHHHhC-----CCCHHHHHHHHhcC
Q 012334          214 SDWTEKETLQLLEAIMHFG----D-------------DWRKVAQHVS-----GKSEKDCITHFIKL  257 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg----~-------------nW~~IA~~Vg-----tKT~~eCi~hflqL  257 (466)
                      ..||.+|...||+.|+.|.    +             -|..|+..+.     .||..|+..+|-.|
T Consensus         3 ~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nl   68 (78)
T PF13873_consen    3 PNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNL   68 (78)
T ss_pred             CCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence            5799999999999999985    1             5999999993     48999999988654

>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]

Probab=88.86  E-value=0.34  Score=52.56  Aligned_cols=44  Identities=20%  Similarity=0.598  Sum_probs=41.2

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ...|+.+|+.+||.+.......|-.|+.-|| ||..||..||..|
T Consensus        59 ~tews~eederlLhlakl~p~qwrtIa~i~g-r~~~qc~eRy~~l  102 (617)
T KOG0050|consen   59 KTEWSREEDERLLHLAKLEPTQWRTIADIMG-RTSQQCLERYNNL  102 (617)
T ss_pred             hhhhhhhHHHHHHHHHHhcCCccchHHHHhh-hhHHHHHHHHHHH
Confidence            4689999999999999999999999999998 8999999999874

>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]

Probab=88.22  E-value=0.7  Score=48.53  Aligned_cols=44  Identities=23%  Similarity=0.477  Sum_probs=42.5

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ...||..|..++..|+.++|.|+.-|+....+|...|+..+|++
T Consensus       365 ~~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~  408 (507)
T COG5118         365 ALRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIK  408 (507)
T ss_pred             CCcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHH
Confidence            46899999999999999999999999999999999999999998

>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]

Probab=88.14  E-value=0.63  Score=48.18  Aligned_cols=46  Identities=30%  Similarity=0.544  Sum_probs=36.8

Q ss_pred             CCCCHHHHHHHHHHHHHhC-----C-----CHHHHHHHh---C-CCCHHHHHHHHhcCCC
Q 012334          214 SDWTEKETLQLLEAIMHFG-----D-----DWRKVAQHV---S-GKSEKDCITHFIKLPF  259 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg-----~-----nW~~IA~~V---g-tKT~~eCi~hflqLPI  259 (466)
                      ..|+.+|++.||++.....     +     .|..||..+   | .||+.||..+|-.|..
T Consensus        55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k  114 (345)
T KOG4282|consen   55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKK  114 (345)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence            6899999999999985332     4     499999944   4 3999999999977554

>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family

Probab=86.22  E-value=0.74  Score=43.16  Aligned_cols=50  Identities=16%  Similarity=0.409  Sum_probs=40.9

Q ss_pred             CCCCCHHHHHHHHHHHHHhC--C-----CHHHHHHHhCCCCHHHHHHHHhcCCCCCccc
Q 012334          213 RSDWTEKETLQLLEAIMHFG--D-----DWRKVAQHVSGKSEKDCITHFIKLPFGQEFI  264 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg--~-----nW~~IA~~VgtKT~~eCi~hflqLPIeD~fl  264 (466)
                      .+.||.+|+++|-|.|-.|=  |     -++.|++.++ ||+.-|-.+|... +-..|-
T Consensus         4 QDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~-RTsAACGFRWNs~-VRkqY~   60 (161)
T TIGR02894         4 QDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN-RTAAACGFRWNAY-VRKQYE   60 (161)
T ss_pred             ccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc-ccHHHhcchHHHH-HHHHHH
Confidence            36799999999999999886  3     5899999995 9999999999763 344443

In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.

>KOG4329 consensus DNA-binding protein [General function prediction only]

Probab=85.50  E-value=1.1  Score=47.03  Aligned_cols=50  Identities=20%  Similarity=0.377  Sum_probs=42.9

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHH-HHHhCCCCHHHHHHHHhcCCCCCc
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKV-AQHVSGKSEKDCITHFIKLPFGQE  262 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~I-A~~VgtKT~~eCi~hflqLPIeD~  262 (466)
                      -..|+.+|=..+=+||+.||.|+..| +..|.+||.-||+..|.+--....
T Consensus       277 l~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWKkSer  327 (445)
T KOG4329|consen  277 LSGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWKKSER  327 (445)
T ss_pred             cccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhhcCcc
Confidence            47899999999999999999999999 467899999999999876544443

>cd02342 ZZ_UBA_plant Zinc finger, ZZ type

Probab=84.39  E-value=0.67  Score=34.26  Aligned_cols=31  Identities=35%  Similarity=0.743  Sum_probs=21.3

Q ss_pred             cccCCCCc-ccccccccc-CCCcccchhhhccC
Q 012334          162 LCNGCKTL-CTIACFACD-KYDLTLCARCYVRG  192 (466)
Q Consensus       162 ~C~~C~~~-~~~~~~~c~-k~d~~lC~~Cf~~G  192 (466)
                      .|++|+.. +.-..|.|. ..|++||..||...
T Consensus         2 ~CDgCg~~PI~G~RykC~~C~dyDLC~~C~~~~   34 (43)
T cd02342           2 QCDGCGVLPITGPRYKSKVKEDYDLCTICFSRM   34 (43)
T ss_pred             CCCCCCCCcccccceEeCCCCCCccHHHHhhhh
Confidence            59999964 433445554 34788999999864

Zinc finger present in plant ubiquitin-associated (UBA) proteins. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.

>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]

Probab=84.38  E-value=0.9  Score=49.81  Aligned_cols=45  Identities=20%  Similarity=0.655  Sum_probs=42.6

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ....|+.+|+-.|++.=..+|.-|..||..++.+|..+|..+|+.
T Consensus        71 k~~~~~~eed~~li~l~~~~~~~wstia~~~d~rt~~~~~ery~~  115 (512)
T COG5147          71 KKKNWSEEEDEQLIDLDKELGTQWSTIADYKDRRTAQQCVERYVN  115 (512)
T ss_pred             ccccccHHHHHHHHHHHHhcCchhhhhccccCccchHHHHHHHHH
Confidence            357899999999999999999999999999999999999999995

>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]

Probab=84.32  E-value=0.87  Score=50.33  Aligned_cols=44  Identities=23%  Similarity=0.548  Sum_probs=38.6

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHH----------HHHhCCCCHHHHHHHHhc
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKV----------AQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~I----------A~~VgtKT~~eCi~hflq  256 (466)
                      +..||.+|+.-+.+||.+||.|+++|          -..+..||..|...||.+
T Consensus        88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~  141 (782)
T KOG4468|consen   88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYR  141 (782)
T ss_pred             ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHH
Confidence            57899999999999999999999999          333446899999999976

>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]

Probab=82.20  E-value=0.81  Score=50.17  Aligned_cols=42  Identities=21%  Similarity=0.493  Sum_probs=40.2

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHH
Q 012334          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHF  254 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hf  254 (466)
                      .+.|+..|+.-|+-+++.|| .||..||..++.+|+++|..|+
T Consensus        20 ~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw   62 (512)
T COG5147          20 GGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRW   62 (512)
T ss_pred             CCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchh
Confidence            46899999999999999999 8999999999999999999999

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	466
2fq3_A	104	Structure And Function Of The Swirm Domain, A Conse		1e-18
2yus_A	79	Solution Structure Of The Sant Domain Of Human SwiS		8e-04

>pdb|2FQ3|A Chain A, Structure And Function Of The Swirm Domain, A Conserved Protein Module Found In Chromatin Regulatory Complexes Length = 104

Iteration: 1
 Score = 90.9 bits (224), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 41/85 (48%), Positives = 54/85 (63%)
Query: 44  SYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVR 103
           SYS+WF+ + I   EV+ LPEFF +R PSK P VY  YR+ +V  YR NP+   + T  R
Sbjct: 15  SYSKWFNLEKIHSIEVQSLPEFFTNRIPSKTPEVYMRYRNFMVNSYRLNPNEYFSVTTAR 74
Query: 104 RTLVGDVGSIRRVFDFLETWGLINY 128
           R + GD  ++ R+  FL  WGLINY
Sbjct: 75  RNVSGDAAALFRLHKFLTKWGLINY 99

>pdb|2YUS|A Chain A, Solution Structure Of The Sant Domain Of Human SwiSNF- Related Matrix-Associated Actin-Dependent Regulator Of Chromatin Subfamily C Member 1 Length = 79

Iteration: 1
 Score = 41.6 bits (96), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 24/53 (45%), Positives = 38/53 (71%)
Query: 212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFI 264
           A  +WTE+ETL LLEA+  + DDW KV++HV  +++ +CI HF++LP    ++
Sbjct: 17  AGREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLRLPIEDPYL 69

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	466
2fq3_A	104	Transcription regulatory protein SWI3; four-helix	3e-43
2dce_A	111	KIAA1915 protein; swirm domain, structural genomic	3e-37
2yus_A	79	SWI/SNF-related matrix-associated actin- dependent	5e-20
1x41_A	60	Transcriptional adaptor 2-like, isoform B; transcr	3e-14
2elk_A	58	SPCC24B10.08C protein; hypothetical protein, struc	5e-12
2ltp_A	89	Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s	2e-09
2cqr_A	73	RSGI RUH-043, DNAJ homolog subfamily C member 1; m	5e-09
2iw5_B	235	Protein corest, REST corepressor 1; oxidoreductase	5e-08
2cu7_A	72	KIAA1915 protein; nuclear protein, SANT domain, DN	8e-08
4a69_C	94	Nuclear receptor corepressor 2; transcription, hyd	2e-07
2xag_A	852	Lysine-specific histone demethylase 1; amine oxida	3e-07
2eqr_A	61	N-COR1, N-COR, nuclear receptor corepressor 1; SAN	3e-06
2z3y_A	662	Lysine-specific histone demethylase 1; chromatin,	3e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-06
2d9a_A	60	B-MYB, MYB-related protein B; DNA binding, structu	6e-05
1tot_A	52	CREB-binding protein; zinc binding, CBP, TAZ2, tra	6e-05
2cjj_A	93	Radialis; plant development, DNA-binding protein,	7e-05
2xag_B	482	REST corepressor 1; amine oxidase, chromatin regul	9e-05
4eef_G	74	F-HB80.4, designed hemagglutinin binding protein;	1e-04
2dim_A	70	Cell division cycle 5-like protein; MYB_DNA-bindin	2e-04
1guu_A	52	C-MYB, MYB proto-oncogene protein; transcription,	2e-04
2din_A	66	Cell division cycle 5-like protein; MYB_DNA-bindin	2e-04
1h89_C	159	C-MYB, MYB proto-oncogene protein; transcription/D	2e-04
2yum_A	75	ZZZ3 protein, zinc finger ZZ-type-containing prote	3e-04

>2fq3_A Transcription regulatory protein SWI3; four-helix bundle; 1.40A {Saccharomyces cerevisiae} SCOP: a.4.1.18 Length = 104

 Score =  146 bits (371), Expect = 3e-43
 Identities = 42/92 (45%), Positives = 55/92 (59%)

Query: 42  VPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTD 101
             SYS+WF+ + I   EV+ LPEFF +R PSK P VY  YR+ +V  YR NP+   + T 
Sbjct: 13  ASSYSKWFNLEKIHSIEVQSLPEFFTNRIPSKTPEVYMRYRNFMVNSYRLNPNEYFSVTT 72

Query: 102 VRRTLVGDVGSIRRVFDFLETWGLINYFASVK 133
            RR + GD  ++ R+  FL  WGLINY    K
Sbjct: 73  ARRNVSGDAAALFRLHKFLTKWGLINYQVDSK 104

>2dce_A KIAA1915 protein; swirm domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 111

 Score =  131 bits (330), Expect = 3e-37
 Identities = 30/107 (28%), Positives = 45/107 (42%), Gaps = 3/107 (2%)

Query: 30  ELPSSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHY 89
              S  E + +  P        + I E E + +PEFF+ R  +K P  Y   R+ I+  +
Sbjct: 3   SGSSGHEEEELKPPEQEIEIDRNIIQEEEKQAIPEFFEGR-QAKTPERYLKIRNYILDQW 61

Query: 90  RENPSRKITFTDVRRTL--VGDVGSIRRVFDFLETWGLINYFASVKT 134
                + +  T VR  L   GDV  I R+  +LE  G IN+      
Sbjct: 62  EICKPKYLNKTSVRPGLKNCGDVNCIGRIHTYLELIGAINFGCEQAV 108

>2yus_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; SWI/SNF complex 155 kDa subunit, BRG1-associated factor 155; NMR {Homo sapiens} Length = 79

 Score = 83.0 bits (205), Expect = 5e-20
 Identities = 26/75 (34%), Positives = 42/75 (56%), Gaps = 1/75 (1%)

Query: 199 SSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLP 258
           SS    + +    A  +WTE+ETL LLEA+  + DDW KV++HV  +++ +CI HF++LP
Sbjct: 5   SSGTLAKSK-GASAGREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLRLP 63

Query: 259 FGQEFICKESDSEDV 273
               ++         
Sbjct: 64  IEDPYLENSDSGPSS 78

>1x41_A Transcriptional adaptor 2-like, isoform B; transcriptional adaptor protein2, transcriptional activation, MYB domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1 Length = 60

 Score = 66.2 bits (162), Expect = 3e-14
 Identities = 16/49 (32%), Positives = 28/49 (57%), Gaps = 1/49 (2%)

Query: 209 SEEARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIK 256
                  WT +E + LLEA+M  G  +W+ VA  +  K++++C  H++K
Sbjct: 4   GSSGDPSWTAQEEMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHYMK 52

>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics, NPPSFA; NMR {Schizosaccharomyces pombe} Length = 58

 Score = 59.8 bits (145), Expect = 5e-12
 Identities = 12/48 (25%), Positives = 26/48 (54%), Gaps = 2/48 (4%)

Query: 213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHV-SGKSEKDCITHFIKLP 258
             +W   E L L++A    G  +W  +A +V + +++++C  H++K  
Sbjct: 9   DENWGADEELLLIDACETLGLGNWADIADYVGNARTKEECRDHYLKTY 56

>2ltp_A Nuclear receptor corepressor 2; SMRT, TRAC, SGC, structural genomics consortium, NESG, north structural genomics consortium; NMR {Homo sapiens} Length = 89

 Score = 53.4 bits (128), Expect = 2e-09
 Identities = 10/44 (22%), Positives = 19/44 (43%)

Query: 213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK 256
              WTE+E     + ++  G +W  +A+ V  K+   C   +  
Sbjct: 16  FQGWTEEEMGTAKKGLLEHGRNWSAIARMVGSKTVSQCKNFYFN 59

>2cqr_A RSGI RUH-043, DNAJ homolog subfamily C member 1; membrane protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3 Length = 73

 Score = 51.8 bits (124), Expect = 5e-09
 Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 4/63 (6%)

Query: 199 SSSDFRRVEISEEARSDWTEKETLQLLEAIMHF----GDDWRKVAQHVSGKSEKDCITHF 254
            SS   R E +  A   WT+ +   L  A+  +     D W K+A+ V  KS++DCI  +
Sbjct: 4   GSSGSLRKERARSAEEPWTQNQQKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARY 63

Query: 255 IKL 257
             L
Sbjct: 64  KLL 66

>2iw5_B Protein corest, REST corepressor 1; oxidoreductase-transcription regulator complex, oxidoreductase/repressor complex, histone demethylase, FAD; HET: FAD; 2.57A {Homo sapiens} SCOP: a.4.1.3 PDB: 2uxn_B* 2uxx_B* 2y48_B* 2v1d_B* 2x0l_B* Length = 235

 Score = 52.8 bits (125), Expect = 5e-08
 Identities = 21/123 (17%), Positives = 49/123 (39%), Gaps = 5/123 (4%)

Query: 193 NHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCIT 252
             ++      +R  E+ ++  + WT +E L  ++AI  +G D++ ++  +  KS      
Sbjct: 113 KEKLDGGIEPYRLPEVIQKCNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKN 172

Query: 253 HFI--KLPFGQEFICKESDSEDVDNKFFSINNPSDAVSESENVGATSPSKRMRLTPLADA 310
            F+  +  F  + + +E ++E    +    N PS+         +    +     P+ D 
Sbjct: 173 FFVNYRRRFNIDEVLQEWEAEHGKEE---TNGPSNQKPVKSPDNSIKMPEEEDEAPVLDV 229

Query: 311 SNP 313
              
Sbjct: 230 RYA 232

>2cu7_A KIAA1915 protein; nuclear protein, SANT domain, DNA binding, regulation of transcription, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3 Length = 72

 Score = 48.2 bits (115), Expect = 8e-08
 Identities = 8/48 (16%), Positives = 20/48 (41%)

Query: 209 SEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK 256
           S      WT +E     + +  FG  W K+++ +  ++     ++  +
Sbjct: 5   SSGYSVKWTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQ 52

>4a69_C Nuclear receptor corepressor 2; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} PDB: 1xc5_A Length = 94

 Score = 48.3 bits (115), Expect = 2e-07
 Identities = 11/66 (16%), Positives = 29/66 (43%), Gaps = 4/66 (6%)

Query: 189 YVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEK 248
           ++  N  +    +D  +V    +  + W+E+E     E  M    ++  +A  +  K+  
Sbjct: 23  FINMNGLM----ADPMKVYKDRQVMNMWSEQEKETFREKFMQHPKNFGLIASFLERKTVA 78

Query: 249 DCITHF 254
           +C+ ++
Sbjct: 79  ECVLYY 84

>2xag_A Lysine-specific histone demethylase 1; amine oxidase, chromatin regulator, histone inhibitor binding, methylation, nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A {Homo sapiens} PDB: 2xaf_A* 2xah_A* 2xaj_A* 2xaq_A* 2xas_A* 2com_A Length = 852

 Score = 52.3 bits (124), Expect = 3e-07
 Identities = 27/129 (20%), Positives = 49/129 (37%), Gaps = 6/129 (4%)

Query: 4   KSPVKEPPGTSAVNPTTPLAPPPVKPELPSSSEPDVVNVPSYSRWFSFDSISECEVKFLP 63
           +             P  P   PP +       EP  V   ++      D ++  E    P
Sbjct: 138 EEERNAKAEKEKKLPPPPPQAPPEEENESEPEEPSGVEGAAFQSRLPHDRMTSQEAACFP 197

Query: 64  EFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVG----DVGSIRRVFDF 119
           +      P +  +V+ + R+  ++ + +NP  ++TF    + L      D   + RV  +
Sbjct: 198 DI--ISGPQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAPYNSDTVLVHRVHSY 255

Query: 120 LETWGLINY 128
           LE  GLIN+
Sbjct: 256 LERHGLINF 264

>2eqr_A N-COR1, N-COR, nuclear receptor corepressor 1; SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 61

 Score = 43.5 bits (103), Expect = 3e-06
 Identities = 12/58 (20%), Positives = 25/58 (43%), Gaps = 5/58 (8%)

Query: 197 GVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHF 254
           G S S   R  ++      WT+ E     +  +    ++  +A ++  KS  DC+ ++
Sbjct: 1   GSSGSSGDRQFMN-----VWTDHEKEIFKDKFIQHPKNFGLIASYLERKSVPDCVLYY 53

>2z3y_A Lysine-specific histone demethylase 1; chromatin, nucleosome, transcription, LSD1, alternative splicing, chromatin regulator, coiled coil; HET: F2N; 2.25A {Homo sapiens} SCOP: a.4.1.18 c.3.1.2 d.16.1.5 PDB: 2ejr_A* 2z5u_A* 3abt_A* 3abu_A* 2y48_A* 2v1d_A* 2h94_A* 2iw5_A* 2uxn_A* 2uxx_A* 2hko_A* 2dw4_A* 2x0l_A* 2l3d_A Length = 662

 Score = 48.3 bits (114), Expect = 3e-06
 Identities = 22/102 (21%), Positives = 42/102 (41%), Gaps = 6/102 (5%)

Query: 49  FSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVG 108
              D ++  E    P+      P +  +V+ + R+  ++ + +NP  ++TF    + L  
Sbjct: 12  LPHDRMTSQEAACFPDI--ISGPQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEA 69

Query: 109 ----DVGSIRRVFDFLETWGLINYFASVKTLKWEDKETKSSA 146
               D   + RV  +LE  GLIN+    +      K+T    
Sbjct: 70  PYNSDTVLVHRVHSYLERHGLINFGIYKRIKPLPTKKTGKVI 111

>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 = 6e-06
 Identities = 60/448 (13%), Positives = 118/448 (26%), Gaps = 136/448 (30%)

Query: 51  FDSISECEVKFLPEFF--DSRSPSKNPRVYRYYRDSIVKHYRENP-------SRKITFTD 101
            + +     KFL      + R PS   R+Y   RD   + Y +N        SR   +  
Sbjct: 83  VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD---RLYNDNQVFAKYNVSRLQPYLK 139

Query: 102 VRR-----------TLVGDVGSIRRVFDFLETWGLINYFASVKTLKWEDKETKSS-AASA 149
           +R+            + G +GS           G                  K+  A   
Sbjct: 140 LRQALLELRPAKNVLIDGVLGS-----------G------------------KTWVALDV 170

Query: 150 ESSSALKETSKRLCNGCKTLCTIACFACDKYDL----TLCARCYVRGNHRVGVSSSDFRR 205
             S  ++    ++      L  +      +  L     L  +       R   SS+   R
Sbjct: 171 CLSYKVQ---CKMDFKIFWL-NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLR 226

Query: 206 VEISEEARSDWTEKETLQ--LLEAIMHFGDD-WRKVAQHVSGKSEKDCITHFIKLPFGQE 262
           +   +       + +  +  LL  ++    +                    F        
Sbjct: 227 IHSIQAELRRLLKSKPYENCLL--VL---LNVQ-----------NAKAWNAF-------N 263

Query: 263 FICK----ESDSEDVD------NKFFSINNPSDAVSESENVG------ATSPSKRMRLTP 306
             CK        +  D          S+++ S  ++  E            P     L  
Sbjct: 264 LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD---LPR 320

Query: 307 LADASNPIMAQAAFLSALAGVEIAEVAARAAVTTLSDVDDRASKGSLMRNTRQQEAGVAS 366
               +NP         ++    I +  A           D     +  + T   E+ +  
Sbjct: 321 EVLTTNP------RRLSIIAESIRDGLATW---------DNWKHVNCDKLTTIIESSLNV 365

Query: 367 -NGDATQN---ALA--RASVDASSLI------EKEELDVEKAISGIVEVQMKEIQDKIIR 414
                 +     L+    S    +++      +  + DV   ++ + +  + E Q K   
Sbjct: 366 LEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKEST 425

Query: 415 FESLDLQMEEEWKQLEQVKNL--LFVDQ 440
                + +E +  +LE    L    VD 
Sbjct: 426 ISIPSIYLELK-VKLENEYALHRSIVDH 452

>2d9a_A B-MYB, MYB-related protein B; DNA binding, structural genomics, unknown function, NPPSFA; NMR {Mus musculus} Length = 60

 Score = 39.9 bits (94), Expect = 6e-05
 Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 1/40 (2%)

Query: 212 ARSDWTEKETLQLLEAIMHFGD-DWRKVAQHVSGKSEKDC 250
            +  WT +E  QL   +  FG  DW+ +A H   ++++ C
Sbjct: 7   GKVKWTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQC 46

>1tot_A CREB-binding protein; zinc binding, CBP, TAZ2, transferase; NMR {Mus musculus} SCOP: g.44.1.6 Length = 52

 Score = 39.7 bits (93), Expect = 6e-05
 Identities = 13/34 (38%), Positives = 15/34 (44%), Gaps = 4/34 (11%)

Query: 163 CNGCKTLCTIA--CFACDKYDLTLCARCYVRGNH 194
           CN CK        C  C+ YDL  C  CY   +H
Sbjct: 9   CNECKHHVETRWHCTVCEDYDL--CINCYNTKSH 40

>2cjj_A Radialis; plant development, DNA-binding protein, MYB transcription FA DNA-binding, nuclear protein, floral asymmetry; 1.9A {Antirrhinum majus} SCOP: a.4.1.3 Length = 93

 Score = 40.6 bits (95), Expect = 7e-05
 Identities = 12/53 (22%), Positives = 23/53 (43%), Gaps = 4/53 (7%)

Query: 209 SEEARSDWTEKETLQLLEAIMHFGDD----WRKVAQHVSGKSEKDCITHFIKL 257
           +  +   W+ KE      A+  +  D    W  VA+ V G++ ++   H+  L
Sbjct: 4   TRGSGRPWSAKENKAFERALAVYDKDTPDRWANVARAVEGRTPEEVKKHYEIL 56

>2xag_B REST corepressor 1; amine oxidase, chromatin regulator, histone inhibitor binding, methylation, nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A {Homo sapiens} PDB: 2xaf_B* 2xah_B* 2xaj_B* 2xaq_B* 2xas_B* Length = 482

 Score = 43.8 bits (101), Expect = 9e-05
 Identities = 28/243 (11%), Positives = 69/243 (28%), Gaps = 5/243 (2%)

Query: 73  KNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASV 132
            +       +    +   E+   +    +     V      ++     ET   +      
Sbjct: 240 TSVMDRHARKQKREREESEDELEEANGNNPIDIEVDQNKESKKEVPPTETVPQVKKEKHS 299

Query: 133 KTLKWEDKETKSSAASAESSSALKETSKRLCNGCKTLCTIACFACDKYDLTLCARCYVRG 192
              K   K                 ++                   K  +    +     
Sbjct: 300 TQAKNRAKRKPPKGMFLSQEDVEAVSANATAATTVLRQLDMELVSVKRQIQNIKQTNSAL 359

Query: 193 NHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCIT 252
             ++      +R  E+ ++  + WT +E L  ++AI  +G D++ ++  +  KS      
Sbjct: 360 KEKLDGGIEPYRLPEVIQKCNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKN 419

Query: 253 HFI--KLPFGQEFICKESDSEDVDNKFFSINNPSDAVSESENVGATSPSKRMRLTPLADA 310
            F+  +  F  + + +E ++E    +    N PS+         +    +     P+ D 
Sbjct: 420 FFVNYRRRFNIDEVLQEWEAEHGKEE---TNGPSNQKPVKSPDNSIKMPEEEDEAPVLDV 476

Query: 311 SNP 313
              
Sbjct: 477 RYA 479

>4eef_G F-HB80.4, designed hemagglutinin binding protein; immunoglobulin, fusion of virus membrane with membrane, membrane fusion, sialic acid, virion; HET: NAG BMA; 2.70A {Artificial gene} Length = 74

 Score = 39.1 bits (91), Expect = 1e-04
 Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 4/50 (8%)

Query: 209 SEEARSDWTEKETLQLLEAIMHFGDD----WRKVAQHVSGKSEKDCITHF 254
           +  +   W   E +    A+     D    W+KVAQ+V G++ ++   H+
Sbjct: 16  TRGSGRPWKFSENIAFEIALSFTNKDTPDRWKKVAQYVKGRTPEEVKKHY 65

>2dim_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 70

 Score = 38.8 bits (91), Expect = 2e-04
 Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 1/36 (2%)

Query: 216 WTEKETLQLLEAIMHFGD-DWRKVAQHVSGKSEKDC 250
           W   E   L  A+M +G   W ++A  +  KS K C
Sbjct: 12  WRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQC 47

>1guu_A C-MYB, MYB proto-oncogene protein; transcription, transcription regulation, DNA binding, ION bindi proto-oncogene, nuclear protein, activator; 1.6A {Mus musculus} SCOP: a.4.1.3 PDB: 1mbe_A 1mbf_A Length = 52

 Score = 38.3 bits (90), Expect = 2e-04
 Identities = 9/36 (25%), Positives = 20/36 (55%), Gaps = 1/36 (2%)

Query: 216 WTEKETLQLLEAIMHFGD-DWRKVAQHVSGKSEKDC 250
           WT +E  +L + +   G  DW+ +A ++  +++  C
Sbjct: 6   WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQC 41

>2din_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 66

 Score = 38.3 bits (89), Expect = 2e-04
 Identities = 11/45 (24%), Positives = 23/45 (51%), Gaps = 1/45 (2%)

Query: 213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL 257
           +++W+ +E  +LL         WR +A  + G++   C+ H+  L
Sbjct: 9   KTEWSREEEEKLLHLAKLMPTQWRTIAPII-GRTAAQCLEHYEFL 52

>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C Length = 159

 Score = 40.7 bits (96), Expect = 2e-04
 Identities = 10/36 (27%), Positives = 21/36 (58%), Gaps = 1/36 (2%)

Query: 216 WTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDC 250
           WT +E  +L + +   G DDW+ +A ++  +++  C
Sbjct: 9   WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQC 44

>2yum_A ZZZ3 protein, zinc finger ZZ-type-containing protein 3; transcription, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 75

 Score = 38.4 bits (89), Expect = 3e-04
 Identities = 9/47 (19%), Positives = 21/47 (44%), Gaps = 6/47 (12%)

Query: 216 WTEKETLQLLEAIMHFG------DDWRKVAQHVSGKSEKDCITHFIK 256
           WT +E  +L + ++ +         W+K+A  +  ++ K   +   K
Sbjct: 11  WTVEEQKKLEQLLIKYPPEEVESRRWQKIADELGNRTAKQVASQVQK 57

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	466
2fq3_A	104	Transcription regulatory protein SWI3; four-helix	100.0
2dce_A	111	KIAA1915 protein; swirm domain, structural genomic	100.0
2yus_A	79	SWI/SNF-related matrix-associated actin- dependent	99.65
2elk_A	58	SPCC24B10.08C protein; hypothetical protein, struc	99.42
1x41_A	60	Transcriptional adaptor 2-like, isoform B; transcr	99.31
2cqr_A	73	RSGI RUH-043, DNAJ homolog subfamily C member 1; m	99.22
1gvd_A	52	MYB proto-oncogene protein; transcription, transcr	99.08
1guu_A	52	C-MYB, MYB proto-oncogene protein; transcription,	99.06
1wgx_A	73	KIAA1903 protein; MYB DNA-binding domain, human cD	99.04
1w0t_A	53	Telomeric repeat binding factor 1; telomere, DNA-b	99.03
2d9a_A	60	B-MYB, MYB-related protein B; DNA binding, structu	99.03
2yum_A	75	ZZZ3 protein, zinc finger ZZ-type-containing prote	99.01
2cu7_A	72	KIAA1915 protein; nuclear protein, SANT domain, DN	99.0
2dim_A	70	Cell division cycle 5-like protein; MYB_DNA-bindin	98.97
3sjm_A	64	Telomeric repeat-binding factor 2; human telomeric	98.94
1ity_A	69	TRF1; helix-turn-helix, telomeres, DNA binding, MY	98.9
2eqr_A	61	N-COR1, N-COR, nuclear receptor corepressor 1; SAN	98.83
2din_A	66	Cell division cycle 5-like protein; MYB_DNA-bindin	98.82
2cjj_A	93	Radialis; plant development, DNA-binding protein,	98.78
2ltp_A	89	Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s	98.23
2llk_A	73	Cyclin-D-binding MYB-like transcription factor 1;	98.72
2k9n_A	107	MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind	98.71
2iw5_B	235	Protein corest, REST corepressor 1; oxidoreductase	98.69
1gv2_A	105	C-MYB, MYB proto-oncogene protein; transcription,	98.68
3osg_A	126	MYB21; transcription-DNA complex, MYB2, R2R3 domai	98.63
2k9n_A	107	MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind	98.62
1gv2_A	105	C-MYB, MYB proto-oncogene protein; transcription,	98.61
1h8a_C	128	AMV V-MYB, MYB transforming protein; transcription	98.59
2ckx_A	83	NGTRF1, telomere binding protein TBP1; nuclear pro	98.59
3zqc_A	131	MYB3; transcription-DNA complex, DNA-binding prote	98.58
3osg_A	126	MYB21; transcription-DNA complex, MYB2, R2R3 domai	98.58
1h8a_C	128	AMV V-MYB, MYB transforming protein; transcription	98.54
4gut_A	776	Lysine-specific histone demethylase 1B; histone de	98.52
2z3y_A	662	Lysine-specific histone demethylase 1; chromatin,	98.52
3zqc_A	131	MYB3; transcription-DNA complex, DNA-binding prote	98.49
2yqk_A	63	Arginine-glutamic acid dipeptide repeats protein;	98.47
2xag_B	482	REST corepressor 1; amine oxidase, chromatin regul	98.4
2cqq_A	72	RSGI RUH-037, DNAJ homolog subfamily C member 1; m	98.35
2roh_A	122	RTBP1, telomere binding protein-1; plant, nucleus,	98.32
1h89_C	159	C-MYB, MYB proto-oncogene protein; transcription/D	98.32
2aje_A	105	Telomere repeat-binding protein; DNA-binding, Trp,	98.3
1h89_C	159	C-MYB, MYB proto-oncogene protein; transcription/D	98.29
2crg_A	70	Metastasis associated protein MTA3; transcription	98.29
2juh_A	121	Telomere binding protein TBP1; helix, nucleus, nuc	98.23
4eef_G	74	F-HB80.4, designed hemagglutinin binding protein;	98.2
4a69_C	94	Nuclear receptor corepressor 2; transcription, hyd	98.17
1x58_A	62	Hypothetical protein 4930532D21RIK; MUS musculus a	97.97
2xag_A	852	Lysine-specific histone demethylase 1; amine oxida	97.66
1ign_A	246	Protein (RAP1); RAP1,yeast,telomeres,homoeodomain,	97.62
3hm5_A	93	DNA methyltransferase 1-associated protein 1; DNA	96.71
2ebi_A	86	DNA binding protein GT-1; DNA-binding domain, phos	96.33
1ug2_A	95	2610100B20RIK gene product; hypothetical protein,	96.15
1fex_A	59	TRF2-interacting telomeric RAP1 protein; helix tur	95.95
1ofc_X	304	ISWI protein; nuclear protein, chromatin remodelin	95.78
2aqe_A	90	Transcriptional adaptor 2, ADA2 alpha; helix-turn-	95.77
2cuj_A	108	Transcriptional adaptor 2-like; transcriptional re	95.74
2xag_B	482	REST corepressor 1; amine oxidase, chromatin regul	95.69
2e5r_A	63	Dystrobrevin alpha; ZZ domain, structural genomics	95.65
2elj_A	88	Transcriptional adapter 2; YDR448W, structural gen	95.47
2dip_A	98	Zinc finger SWIM domain-containing protein 2; ZZ d	94.99
2lr8_A	70	CAsp8-associated protein 2; structural genomics, n	93.59
4iej_A	93	DNA methyltransferase 1-associated protein 1; DNA	94.49
2fc7_A	82	ZZZ3 protein; structure genomics, ZZ domain, struc	94.35
2xb0_X	270	Chromo domain-containing protein 1; hydrolase, DNA	92.77
4b4c_A	211	Chromodomain-helicase-DNA-binding protein 1; chrom	92.3
1tot_A	52	CREB-binding protein; zinc binding, CBP, TAZ2, tra	90.64
4b4c_A	211	Chromodomain-helicase-DNA-binding protein 1; chrom	89.39
1irz_A	64	ARR10-B; helix-turn-helix, DNA binding protein; NM	88.95
2y9y_A	374	Imitation switch protein 1 (DEL_ATPase); transcrip	86.7
1ofc_X	304	ISWI protein; nuclear protein, chromatin remodelin	85.26

>2fq3_A Transcription regulatory protein SWI3; four-helix bundle; 1.40A {Saccharomyces cerevisiae} SCOP: a.4.1.18

Probab=100.00  E-value=2e-41  Score=289.76  Aligned_cols=93  Identities=44%  Similarity=0.821  Sum_probs=84.7

Q ss_pred             ceecCCCCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHhhccchHHHHHHHHH
Q 012334           39 VVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFD  118 (466)
Q Consensus        39 ~ivIPs~~~wF~~~~ih~iE~~~lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r~~l~gDv~~i~Rvh~  118 (466)
                      +=.-|+|+.||++++||+||+++|||||+|++++|||++|++|||+||++||.||.+|||+|+||++|+|||++|+|||+
T Consensus        10 ~~~~p~~s~wF~~~~Ih~iEk~~lPEfF~g~~~~ktpe~Yl~iRN~iI~~yr~nP~~yLT~t~~r~~l~gDv~~i~RVh~   89 (104)
T 2fq3_A           10 HGMASSYSKWFNLEKIHSIEVQSLPEFFTNRIPSKTPEVYMRYRNFMVNSYRLNPNEYFSVTTARRNVSGDAAALFRLHK   89 (104)
T ss_dssp             -------CTTCCTTCCCHHHHHHCGGGCCSSCTTSCHHHHHHHHHHHHHHHHHCTTSCCCHHHHHHHSCSCHHHHHHHHH
T ss_pred             CCCCCCcccccCcccCCHHHHHHChHHhcCCCCCCCHHHHHHHHHHHHHHHHhCCceeeeHHHHHHHccccHHHHHHHHH
Confidence            34679999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhcccccCCCC
Q 012334          119 FLETWGLINYFAS  131 (466)
Q Consensus       119 FLe~wGlINy~~~  131 (466)
                      |||+|||||||++
T Consensus        90 FLe~wGLIN~~v~  102 (104)
T 2fq3_A           90 FLTKWGLINYQVD  102 (104)
T ss_dssp             HHHHTTSSSSCC-
T ss_pred             HHHHcCeeccCCC
Confidence            9999999999998

>2dce_A KIAA1915 protein; swirm domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=100.00  E-value=1.1e-40  Score=288.92  Aligned_cols=93  Identities=30%  Similarity=0.468  Sum_probs=90.8

Q ss_pred             CceecCCCCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHhhc--cchHHHHHH
Q 012334           38 DVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTL--VGDVGSIRR  115 (466)
Q Consensus        38 ~~ivIPs~~~wF~~~~ih~iE~~~lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r~~l--~gDv~~i~R  115 (466)
                      .+++||+|+.||++++||+||+++|||||+|+ ++|||++|++|||+||++||.||.+|||+|+||++|  .|||++|+|
T Consensus        11 ~~~~iP~~~~wf~~~~ih~iEk~~lPefF~g~-~~ktpe~Yl~iRN~iI~~yr~np~~yLT~t~~rr~L~~~gDv~~i~R   89 (111)
T 2dce_A           11 EELKPPEQEIEIDRNIIQEEEKQAIPEFFEGR-QAKTPERYLKIRNYILDQWEICKPKYLNKTSVRPGLKNCGDVNCIGR   89 (111)
T ss_dssp             CSCCCCSSCCCCCSSCCCHHHHTTSGGGGSCC-SSCCHHHHHHHHHHHHHHHHHHTTSCCCGGGTTTTTSSSSCHHHHHH
T ss_pred             cCCcCCCcccccCcccCCHHHHHhChHHhcCC-cccCHHHHHHHHHHHHHHHHhCCcceeeHHHHHHhcccccCHHHHHH
Confidence            57999999999999999999999999999998 799999999999999999999999999999999999  599999999


Q ss_pred             HHHhhhhcccccCCCC
Q 012334          116 VFDFLETWGLINYFAS  131 (466)
Q Consensus       116 vh~FLe~wGlINy~~~  131 (466)
                      ||+|||+|||||||++
T Consensus        90 Vh~FLe~wGLIN~~~~  105 (111)
T 2dce_A           90 IHTYLELIGAINFGCE  105 (111)
T ss_dssp             HHHHHHHHSSSSCSCT
T ss_pred             HHHHHHHcCeeecCCC
Confidence            9999999999999998

>2yus_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; SWI/SNF complex 155 kDa subunit, BRG1-associated factor 155; NMR {Homo sapiens}

Probab=99.65  E-value=2.7e-16  Score=128.53  Aligned_cols=54  Identities=44%  Similarity=0.970  Sum_probs=52.0

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcCCCCCccc
Q 012334          211 EARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFI  264 (466)
Q Consensus       211 ~~~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflqLPIeD~fl  264 (466)
                      .....||.+|+.+||++|++||++|.+||+|||+||+.||+.||.++||+|+|+
T Consensus        16 ~~~~~WT~eEd~~Ll~~v~~~G~~W~~IA~~v~~RT~~qcr~r~~~~~i~d~~~   69 (79)
T 2yus_A           16 SAGREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLRLPIEDPYL   69 (79)
T ss_dssp             CCSCCCCHHHHHHHHHHHHHSSSCHHHHHHHHSSCCHHHHHHHHTTSCCCCSSC
T ss_pred             ccCCCcCHHHHHHHHHHHHHhCCCHHHHHHHcCCCCHHHHHHHHHHhccccccc
Confidence            346899999999999999999999999999999999999999999999999999

>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics, NPPSFA; NMR {Schizosaccharomyces pombe}

Probab=99.42  E-value=2.2e-13  Score=104.71  Aligned_cols=49  Identities=24%  Similarity=0.630  Sum_probs=46.0

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC-CCCHHHHHHHHhcCCCC
Q 012334          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVS-GKSEKDCITHFIKLPFG  260 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~Vg-tKT~~eCi~hflqLPIe  260 (466)
                      ....||.+|+.+||++|++|| +||.+||++|| +||+.||+.||.+++|.
T Consensus         8 ~~~~WT~eED~~L~~~v~~~G~~~W~~IA~~~~~~Rt~~qcr~r~~~~~~~   58 (58)
T 2elk_A            8 FDENWGADEELLLIDACETLGLGNWADIADYVGNARTKEECRDHYLKTYIE   58 (58)
T ss_dssp             CCCCCCHHHHHHHHHHHHHTTTTCHHHHHHHHCSSCCHHHHHHHHHHHTTC
T ss_pred             CCCCCCHHHHHHHHHHHHHHCcCCHHHHHHHHCCCCCHHHHHHHHHHHccC
Confidence            357899999999999999999 99999999999 89999999999998874

>1x41_A Transcriptional adaptor 2-like, isoform B; transcriptional adaptor protein2, transcriptional activation, MYB domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1

Probab=99.31  E-value=2.1e-12  Score=99.73  Aligned_cols=50  Identities=34%  Similarity=0.767  Sum_probs=46.5

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcCCCCC
Q 012334          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKLPFGQ  261 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hflqLPIeD  261 (466)
                      ....||.+|+.+||++|++|| ++|.+||++|++||+.||+.||.++.+..
T Consensus         7 ~~~~WT~eED~~L~~~v~~~G~~~W~~Ia~~~~~Rt~~qcr~r~~~~l~~~   57 (60)
T 1x41_A            7 GDPSWTAQEEMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHYMKYFSGP   57 (60)
T ss_dssp             CCSSSCHHHHHHHHHHHHHTCTTCHHHHHHHHTTSCHHHHHHHHHHHTTCS
T ss_pred             CCCCCCHHHHHHHHHHHHHHCcCcHHHHHHHhCCCCHHHHHHHHHHHccCC
Confidence            457899999999999999999 89999999999999999999999877654

>2cqr_A RSGI RUH-043, DNAJ homolog subfamily C member 1; membrane protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3

Probab=99.22  E-value=6.9e-12  Score=100.92  Aligned_cols=63  Identities=32%  Similarity=0.482  Sum_probs=53.8

Q ss_pred             CCCceecccCcccCCCCCHHHHHHHHHHHHHhC----CCHHHHHHHhCCCCHHHHHHHHhcCCCCCcc
Q 012334          200 SSDFRRVEISEEARSDWTEKETLQLLEAIMHFG----DDWRKVAQHVSGKSEKDCITHFIKLPFGQEF  263 (466)
Q Consensus       200 s~dF~~~~~~~~~~~~WT~~E~l~LLEaIe~yg----~nW~~IA~~VgtKT~~eCi~hflqLPIeD~f  263 (466)
                      ..++.+.+.+......||.+|+.+|+++|.+||    ++|.+||++|++||..||+.||..| ++|++
T Consensus         5 ~~~~~~~~~~~~~~~~WT~eEd~~L~~al~~~g~~~~~rW~~IA~~vpGRT~~qcr~Ry~~L-~~d~~   71 (73)
T 2cqr_A            5 SSGSLRKERARSAEEPWTQNQQKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARYKLL-VSGPS   71 (73)
T ss_dssp             SSSCCCCCTTTCSSCCCCHHHHHHHHHHHHHSCSSSHHHHHHHGGGCSSSCHHHHHHHHHHH-HSSCC
T ss_pred             ccccccccccccCCCCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHcCCCCHHHHHHHHHHH-HHccc
Confidence            456666666666678999999999999999999    6899999999999999999999986 55543

>1gvd_A MYB proto-oncogene protein; transcription, transcription regulation, C-MYB, DNA binding, ION binding, nuclear protein; 1.45A {Mus musculus} SCOP: a.4.1.3 PDB: 1gv5_A 1mbg_A 1mbh_A

Probab=99.08  E-value=1.3e-10  Score=86.83  Aligned_cols=45  Identities=24%  Similarity=0.699  Sum_probs=42.1

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ...||.+|+.+|+++|++|| ++|..||++|++||..||..||..+
T Consensus         3 k~~Wt~eED~~L~~~v~~~G~~~W~~Ia~~~~~Rt~~qcr~Rw~~~   48 (52)
T 1gvd_A            3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNH   48 (52)
T ss_dssp             CCSCCHHHHHHHHHHHHHHCTTCHHHHHTTSTTCCHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHHHCcChHHHHHHHcCCCCHHHHHHHHHHH
Confidence            46899999999999999999 5899999999999999999999863

>1guu_A C-MYB, MYB proto-oncogene protein; transcription, transcription regulation, DNA binding, ION bindi proto-oncogene, nuclear protein, activator; 1.6A {Mus musculus} SCOP: a.4.1.3 PDB: 1mbe_A 1mbf_A

Probab=99.06  E-value=1.4e-10  Score=86.60  Aligned_cols=44  Identities=23%  Similarity=0.604  Sum_probs=41.6

Q ss_pred             CCCCCHHHHHHHHHHHHHhCC-CHHHHHHHhCCCCHHHHHHHHhc
Q 012334          213 RSDWTEKETLQLLEAIMHFGD-DWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~-nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ...||.+|+.+|+++|++||. +|..||++|++||..||..||..
T Consensus         3 ~~~Wt~eED~~L~~~v~~~G~~~W~~Ia~~~~~Rt~~qcr~Rw~~   47 (52)
T 1guu_A            3 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQK   47 (52)
T ss_dssp             CCCCCHHHHHHHHHHHHHHCSSCHHHHHHTSTTCCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHhCCCCHHHHHHHcCCCCHHHHHHHHHH
Confidence            468999999999999999995 99999999999999999999976

>1wgx_A KIAA1903 protein; MYB DNA-binding domain, human cDNA, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.4.1.3

Probab=99.04  E-value=2.1e-10  Score=92.20  Aligned_cols=46  Identities=28%  Similarity=0.578  Sum_probs=43.1

Q ss_pred             CCCCCHHHHHHHHHHHHHhC----CCHHHHHHHhCCCCHHHHHHHHhcCC
Q 012334          213 RSDWTEKETLQLLEAIMHFG----DDWRKVAQHVSGKSEKDCITHFIKLP  258 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg----~nW~~IA~~VgtKT~~eCi~hflqLP  258 (466)
                      ...||.+|+.+|.+||..|+    ++|++||.+||+||.+||+.||..|+
T Consensus         8 ~~~WT~eE~k~fe~ALa~~~~~tp~rWe~IA~~V~gKT~eE~~~hY~~l~   57 (73)
T 1wgx_A            8 DKEWNEKELQKLHCAFASLPKHKPGFWSEVAAAVGSRSPEECQRKYMENP   57 (73)
T ss_dssp             SSCCCHHHHHHHHHHHHHSCSSSSSHHHHHHHHTTTSCHHHHHHHHHHSS
T ss_pred             CCCCCHHHHHHHHHHHHHCCCCCccHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            46899999999999999998    57999999999999999999999984

>1w0t_A Telomeric repeat binding factor 1; telomere, DNA-binding protein, homeodomain, mitosis, cell cycle; 2.00A {Homo sapiens} SCOP: a.4.1.4 PDB: 1ba5_A

Probab=99.03  E-value=2.7e-10  Score=85.58  Aligned_cols=45  Identities=18%  Similarity=0.437  Sum_probs=42.1

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC--CCCHHHHHHHHhcC
Q 012334          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVS--GKSEKDCITHFIKL  257 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~Vg--tKT~~eCi~hflqL  257 (466)
                      ...||.+|+.+|+++|++|| ++|..||++++  +||..||..+|..+
T Consensus         2 r~~WT~eEd~~L~~~v~~~G~~~W~~Ia~~~~~~~Rt~~qcr~Rw~~~   49 (53)
T 1w0t_A            2 RQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRWRTM   49 (53)
T ss_dssp             CCCCCHHHHHHHHHHHHHHCTTCHHHHHHHSCCSSCCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            36899999999999999999 89999999999  99999999999763

>2d9a_A B-MYB, MYB-related protein B; DNA binding, structural genomics, unknown function, NPPSFA; NMR {Mus musculus}

Probab=99.03  E-value=3.3e-10  Score=87.13  Aligned_cols=45  Identities=27%  Similarity=0.730  Sum_probs=42.6

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ....||.+|+.+|+++|++|| ++|..||++|++||..||..||..
T Consensus         7 ~k~~Wt~eED~~L~~~v~~~G~~~W~~Ia~~~~~Rt~~qcr~Rw~~   52 (60)
T 2d9a_A            7 GKVKWTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRWLR   52 (60)
T ss_dssp             CCSCCCHHHHHHHHHHHHHTCTTCHHHHHHHCSSSCHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHhCCCCHHHHHHHccCCCHHHHHHHHHH
Confidence            357899999999999999999 799999999999999999999986

>2yum_A ZZZ3 protein, zinc finger ZZ-type-containing protein 3; transcription, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.01  E-value=1.7e-10  Score=92.63  Aligned_cols=45  Identities=20%  Similarity=0.493  Sum_probs=42.3

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC------CCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          212 ARSDWTEKETLQLLEAIMHFG------DDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg------~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ....||.+|+.+|+++|++||      ++|..||++|++||..||+.||..
T Consensus         7 ~~~~WT~eEd~~L~~~v~~~g~~~~~~~~W~~IA~~~~~Rt~~qcr~r~~~   57 (75)
T 2yum_A            7 GNQLWTVEEQKKLEQLLIKYPPEEVESRRWQKIADELGNRTAKQVASQVQK   57 (75)
T ss_dssp             CSSCCCHHHHHHHHHHHHHSCCCSCHHHHHHHHHHHHSSSCHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHhCCCCCCcccHHHHHHHhCCCCHHHHHHHHHH
Confidence            457899999999999999999      789999999999999999999974

>2cu7_A KIAA1915 protein; nuclear protein, SANT domain, DNA binding, regulation of transcription, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3

Probab=99.00  E-value=3.7e-10  Score=90.13  Aligned_cols=46  Identities=15%  Similarity=0.354  Sum_probs=43.2

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ....||.+|+.+|++++++||.+|..||++|++||..||..||..+
T Consensus         8 ~~~~WT~eEd~~l~~~~~~~G~~W~~Ia~~~~~Rt~~q~k~r~~~~   53 (72)
T 2cu7_A            8 YSVKWTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQY   53 (72)
T ss_dssp             CCCCCCHHHHHHHHHHHHHTCSCHHHHHHHHSSSCHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHCcCHHHHHHHcCCCCHHHHHHHHHHH
Confidence            3578999999999999999999999999999999999999998764

>2dim_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.97  E-value=6.9e-10  Score=87.96  Aligned_cols=44  Identities=27%  Similarity=0.628  Sum_probs=42.4

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ...||.+|+.+|+++|++|| ++|..||.+|++||..||..||..
T Consensus         9 ~~~Wt~eED~~L~~~v~~~G~~~W~~Ia~~l~~Rt~~qcr~Rw~~   53 (70)
T 2dim_A            9 GGVWRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYE   53 (70)
T ss_dssp             TCCCCHHHHHHHHHHHHHTCSSCHHHHHHHSTTCCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHhcCCCHHHHHHHHHH
Confidence            46899999999999999999 899999999999999999999987

>3sjm_A Telomeric repeat-binding factor 2; human telomeric repeat binding protein 2, telomere, telomeri homeodomain proteins amino acid sequence; HET: DNA; 1.35A {Homo sapiens} PDB: 1xg1_A 1vfc_A 1vf9_A 1w0u_A

Probab=98.94  E-value=9.2e-10  Score=86.23  Aligned_cols=45  Identities=11%  Similarity=0.421  Sum_probs=41.5

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC--CCCHHHHHHHHhcC
Q 012334          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVS--GKSEKDCITHFIKL  257 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~Vg--tKT~~eCi~hflqL  257 (466)
                      ...||.+|+.+|+++|++|| ++|..||++++  +||..||..+|..|
T Consensus        11 k~~WT~eED~~L~~~V~~~G~~~W~~Ia~~~~~~~Rt~~qcr~Rw~nl   58 (64)
T 3sjm_A           11 KQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTM   58 (64)
T ss_dssp             CCCCCHHHHHHHHHHHHHHCTTCHHHHHHHSCCSSCCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHccCCCchHHHHhhcCCCCCCHHHHHHHHHHH
Confidence            46899999999999999999 79999999987  89999999999753

>1ity_A TRF1; helix-turn-helix, telomeres, DNA binding, MYB domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: a.4.1.4 PDB: 1iv6_A

Probab=98.90  E-value=1.5e-09  Score=85.80  Aligned_cols=45  Identities=18%  Similarity=0.413  Sum_probs=42.6

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC--CCCHHHHHHHHhc
Q 012334          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVS--GKSEKDCITHFIK  256 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~Vg--tKT~~eCi~hflq  256 (466)
                      ....||.+|+.+|+++|++|| ++|..||++++  +||..||..||..
T Consensus         9 ~r~~WT~eED~~L~~~v~~~G~~~W~~Ia~~~~~~~Rt~~qcr~Rw~~   56 (69)
T 1ity_A            9 KRQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRWRT   56 (69)
T ss_dssp             SCCCCCHHHHHHHHHHHHHHCSSCHHHHHHHSCCSSCCHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCcHHHHHHHcCcCCCCHHHHHHHHHH
Confidence            357899999999999999999 89999999999  9999999999986

>2eqr_A N-COR1, N-COR, nuclear receptor corepressor 1; SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.83  E-value=5.1e-09  Score=81.09  Aligned_cols=45  Identities=18%  Similarity=0.349  Sum_probs=42.2

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ....||.+|..++++++.+||.+|..||.+|++||..||+.||..
T Consensus        11 ~~~~WT~eE~~~F~~~~~~~gk~w~~Ia~~l~~rt~~~~v~~Yy~   55 (61)
T 2eqr_A           11 FMNVWTDHEKEIFKDKFIQHPKNFGLIASYLERKSVPDCVLYYYL   55 (61)
T ss_dssp             CCCSCCHHHHHHHHHHHHHSTTCHHHHHHHCTTSCHHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHcCCCCHHHHHHHHHH
Confidence            357899999999999999999999999999999999999999864

>2din_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.82  E-value=3.8e-09  Score=82.75  Aligned_cols=45  Identities=22%  Similarity=0.620  Sum_probs=41.1

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ....||.+|+.+|+++++.||.+|..||+.+| ||..||+.||..+
T Consensus         8 ~k~~WT~eED~~L~~~~~~~g~~W~~Ia~~~g-Rt~~qcr~Rw~~~   52 (66)
T 2din_A            8 KKTEWSREEEEKLLHLAKLMPTQWRTIAPIIG-RTAAQCLEHYEFL   52 (66)
T ss_dssp             SCCCCCHHHHHHHHHHHHHCTTCHHHHHHHHS-SCHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHcCCCHHHHhcccC-cCHHHHHHHHHHH
Confidence            35789999999999999999999999999665 9999999999873

>2cjj_A Radialis; plant development, DNA-binding protein, MYB transcription FA DNA-binding, nuclear protein, floral asymmetry; 1.9A {Antirrhinum majus} SCOP: a.4.1.3

Probab=98.78  E-value=4.3e-09  Score=88.33  Aligned_cols=46  Identities=26%  Similarity=0.570  Sum_probs=42.2

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC----CCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          212 ARSDWTEKETLQLLEAIMHFG----DDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg----~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ....||.+|+.+|+++|.+||    +.|.+||++|++||.+||+.||..|
T Consensus         7 ~~~~WT~eEd~~L~~al~~~~~~~~~rW~~IA~~vpGRT~~q~k~ry~~l   56 (93)
T 2cjj_A            7 SGRPWSAKENKAFERALAVYDKDTPDRWANVARAVEGRTPEEVKKHYEIL   56 (93)
T ss_dssp             -CCSCCHHHHHHHHHHHHHSCTTCTTHHHHHHHHSTTCCHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHcCCCCHHHHHHHHHHH
Confidence            356899999999999999997    5699999999999999999999885

>2ltp_A Nuclear receptor corepressor 2; SMRT, TRAC, SGC, structural genomics consortium, NESG, north structural genomics consortium; NMR {Homo sapiens}

Probab=98.23  E-value=8.9e-10  Score=91.63  Aligned_cols=46  Identities=22%  Similarity=0.521  Sum_probs=43.2

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ....||.+|+.+|++++.+||.+|..||.+|++||..||..||..+
T Consensus        15 ~~~~WT~eEd~~l~~~~~~~G~~W~~IA~~l~gRt~~q~k~r~~~~   60 (89)
T 2ltp_A           15 YFQGWTEEEMGTAKKGLLEHGRNWSAIARMVGSKTVSQCKNFYFNY   60 (89)
Confidence            4578999999999999999999999999999999999999999753

>2llk_A Cyclin-D-binding MYB-like transcription factor 1; helix bundle, SGC, structural genomics consortium, NESG, NOR structural genomics consortium; NMR {Homo sapiens}

Probab=98.72  E-value=1.6e-08  Score=81.31  Aligned_cols=45  Identities=20%  Similarity=0.384  Sum_probs=42.4

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ....||.+|+.+|++++.+||.+|..||+++ +||..+|..+|..|
T Consensus        22 ~k~~wT~EED~~L~~l~~~~G~kW~~IA~~l-gRt~~q~knRw~~L   66 (73)
T 2llk_A           22 HVGKYTPEEIEKLKELRIKHGNDWATIGAAL-GRSASSVKDRCRLM   66 (73)
T ss_dssp             CCCSSCHHHHHHHHHHHHHHSSCHHHHHHHH-TSCHHHHHHHHHHC
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCHHHHHHHh-CCCHHHHHHHHHHH
Confidence            4679999999999999999999999999999 99999999999874

>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_A

Probab=98.71  E-value=1.2e-08  Score=87.03  Aligned_cols=43  Identities=26%  Similarity=0.647  Sum_probs=41.2

Q ss_pred             CCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          214 SDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ..||.+|+.+|+++|+.|| ++|..||++|++||+.||..||.+
T Consensus         2 ~~Wt~eED~~L~~~v~~~g~~~W~~Ia~~~~~Rt~~qcr~Rw~~   45 (107)
T 2k9n_A            2 VKFTEEEDLKLQQLVMRYGAKDWIRISQLMITRNPRQCRERWNN   45 (107)
T ss_dssp             CSSCHHHHHHHHHHHHHHCSSCHHHHHHHTTTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCHHHHhhhcCCCCHHHHHHHHHH
Confidence            5799999999999999999 699999999999999999999986

>2iw5_B Protein corest, REST corepressor 1; oxidoreductase-transcription regulator complex, oxidoreductase/repressor complex, histone demethylase, FAD; HET: FAD; 2.57A {Homo sapiens} SCOP: a.4.1.3 PDB: 2uxn_B* 2uxx_B* 2y48_B* 2v1d_B* 2x0l_B*

Probab=98.69  E-value=1.8e-08  Score=96.41  Aligned_cols=46  Identities=24%  Similarity=0.536  Sum_probs=43.2

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          211 EARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       211 ~~~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      .....||++|..++++|+.+||.||..||++||+||..||+.||..
T Consensus       131 k~s~~WTeEE~~lFleAl~kYGKDW~~IAk~VgTKT~~QcKnfY~~  176 (235)
T 2iw5_B          131 KCNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVN  176 (235)
T ss_dssp             CCCSSCCHHHHHHHHHHHHHHSSCHHHHHHHHSSCCHHHHHHHHHH
T ss_pred             ccCCCCCHHHHHHHHHHHHHHCcCHHHHHHHcCCCCHHHHHHHHHH
Confidence            3467899999999999999999999999999999999999999974

>1gv2_A C-MYB, MYB proto-oncogene protein; transcription, DNA binding, ION binding; 1.68A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 PDB: 1mse_C* 1msf_C* 1a5j_A 1idy_A 1idz_A 1mbj_A 1mbk_A

Probab=98.68  E-value=1.9e-08  Score=85.24  Aligned_cols=46  Identities=22%  Similarity=0.662  Sum_probs=42.8

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ....||.+|+.+|+++|++|| ++|..||++|++||..||..||..+
T Consensus         3 ~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~l~~Rt~~qcr~Rw~~~   49 (105)
T 1gv2_A            3 IKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNH   49 (105)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHCTTCHHHHHTTSTTCCHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHHHHHhCCCcHHHHhhhhcCCCHHHHHHHHHhc
Confidence            357899999999999999999 5899999999999999999999883

>3osg_A MYB21; transcription-DNA complex, MYB2, R2R3 domain, DNA binding PR transcription factor; 2.00A {Trichomonas vaginalis} PDB: 3osf_A

Probab=98.63  E-value=3e-08  Score=87.02  Aligned_cols=45  Identities=20%  Similarity=0.521  Sum_probs=43.0

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ....||.+|+.+|+++|++||.+|..||++|++||..||..||..
T Consensus        10 kk~~WT~eED~~L~~~v~~~G~~W~~Ia~~~~~Rt~~qcr~Rw~~   54 (126)
T 3osg_A           10 KKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKN   54 (126)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHTTCHHHHHHTCTTCCHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHhCCCHHHHHHHcCCCCHHHHHHHHhh
Confidence            457899999999999999999999999999999999999999987

>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_A

Probab=98.62  E-value=3.3e-08  Score=84.37  Aligned_cols=45  Identities=16%  Similarity=0.548  Sum_probs=42.6

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ...||.+|+.+|++++..||.+|..||++|++||..+|..||..|
T Consensus        53 ~~~WT~eEd~~L~~~~~~~G~~W~~Ia~~l~gRt~~~~k~rw~~l   97 (107)
T 2k9n_A           53 TDPWSPEEDMLLDQKYAEYGPKWNKISKFLKNRSDNNIRNRWMMI   97 (107)
T ss_dssp             TCCCCHHHHHHHHHHHHHTCSCHHHHHHHHSSSCHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHHHHhCcCHHHHHHHCCCCCHHHHHHHHHHH
Confidence            578999999999999999999999999999999999999999763

>1gv2_A C-MYB, MYB proto-oncogene protein; transcription, DNA binding, ION binding; 1.68A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 PDB: 1mse_C* 1msf_C* 1a5j_A 1idy_A 1idz_A 1mbj_A 1mbk_A

Probab=98.61  E-value=3e-08  Score=83.99  Aligned_cols=45  Identities=22%  Similarity=0.587  Sum_probs=42.5

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ...||.+|+.+|++++..||.+|..||++|++||..+|..||..+
T Consensus        56 ~~~Wt~eEd~~L~~~~~~~G~~W~~Ia~~l~gRt~~~~k~rw~~~  100 (105)
T 1gv2_A           56 KTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNST  100 (105)
T ss_dssp             CCCCCHHHHHHHHHHHHHHSSCHHHHHTTCTTCCHHHHHHHHHHH
T ss_pred             ccCCCHHHHHHHHHHHHHhCCCHHHHHHHcCCCCHHHHHHHHHHH
Confidence            578999999999999999999999999999999999999999753

>1h8a_C AMV V-MYB, MYB transforming protein; transcription/DNA; 2.23A {Avian myeloblastosis virus} SCOP: a.4.1.3 a.4.1.3

Probab=98.59  E-value=6e-08  Score=85.14  Aligned_cols=45  Identities=24%  Similarity=0.731  Sum_probs=42.5

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ....||.+|+.+|+++|++|| ++|..||++|++||..||..||..
T Consensus        26 ~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia~~l~~Rt~~qcr~Rw~~   71 (128)
T 1h8a_C           26 NKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKGRIGKQCRERWHN   71 (128)
T ss_dssp             CCSCCCHHHHHHHHHHHHHTCSCCHHHHHHHSSSCCHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHhcCCcHHHHHHHHHH
Confidence            457899999999999999999 689999999999999999999987

>2ckx_A NGTRF1, telomere binding protein TBP1; nuclear protein; 1.9A {Nicotiana tabacum} SCOP: a.4.1.3 PDB: 2qhb_A

Probab=98.59  E-value=4.7e-08  Score=80.37  Aligned_cols=44  Identities=25%  Similarity=0.441  Sum_probs=40.9

Q ss_pred             CCCCHHHHHHHHHHHHHhC-CCHHHHHHH----hCCCCHHHHHHHHhcC
Q 012334          214 SDWTEKETLQLLEAIMHFG-DDWRKVAQH----VSGKSEKDCITHFIKL  257 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg-~nW~~IA~~----VgtKT~~eCi~hflqL  257 (466)
                      ..||.+|+..|++||++|| |+|.+|+++    +.+||..+|..||..+
T Consensus         1 r~WT~eEd~~L~~gv~k~G~g~W~~I~~~~~~~~~~RT~~~lKdrWrnl   49 (83)
T 2ckx_A            1 RPFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTL   49 (83)
T ss_dssp             CCCCHHHHHHHHHHHHHHCSSCHHHHHHHHCTTCTTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCcHHHHHhhccccCCCCHHHHHHHHHHH
Confidence            3699999999999999999 799999997    7889999999999874

>3zqc_A MYB3; transcription-DNA complex, DNA-binding protein, nucleus; 2.90A {Trichomonas vaginalis}

Probab=98.58  E-value=2.3e-08  Score=88.31  Aligned_cols=44  Identities=20%  Similarity=0.503  Sum_probs=42.1

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ++.||.+|+.+|+++|+.|| +||..||.+|++||..||..||..
T Consensus         2 Kg~Wt~eED~~L~~~v~~~g~~~W~~Ia~~~~~Rt~~qcr~Rw~~   46 (131)
T 3zqc_A            2 KGPFTEAEDDLIREYVKENGPQNWPRITSFLPNRSPKQCRERWFN   46 (131)
T ss_dssp             CSSCCHHHHHHHHHHHHHHCSCCGGGGTTSCTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHhCcCCHHHHHHHHCCCCHHHHHHHHhh
Confidence            46899999999999999999 899999999999999999999987

>3osg_A MYB21; transcription-DNA complex, MYB2, R2R3 domain, DNA binding PR transcription factor; 2.00A {Trichomonas vaginalis} PDB: 3osf_A

Probab=98.58  E-value=3.7e-08  Score=86.46  Aligned_cols=44  Identities=20%  Similarity=0.594  Sum_probs=42.1

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ...||.+|+.+|++++.+||.+|..||++|++||..+|..||..
T Consensus        62 ~~~WT~eEd~~L~~~v~~~G~~W~~Ia~~l~gRt~~~~k~rw~~  105 (126)
T 3osg_A           62 HTPWTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVT  105 (126)
T ss_dssp             CSCCCHHHHHHHHHHHHHHCSCHHHHHTTSTTCCHHHHHHHHHH
T ss_pred             cccCCHHHHHHHHHHHHHHCcCHHHHHHHcCCCCHHHHHHHHHH
Confidence            46899999999999999999999999999999999999999976

>1h8a_C AMV V-MYB, MYB transforming protein; transcription/DNA; 2.23A {Avian myeloblastosis virus} SCOP: a.4.1.3 a.4.1.3

Probab=98.54  E-value=8.2e-08  Score=84.26  Aligned_cols=45  Identities=22%  Similarity=0.595  Sum_probs=42.8

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ...||.+|+.+|++++.+||.+|..||++|++||..+|..||..+
T Consensus        79 ~~~WT~eEd~~L~~~~~~~G~~W~~Ia~~l~gRt~~~~k~r~~~~  123 (128)
T 1h8a_C           79 KTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNST  123 (128)
T ss_dssp             CSCCCHHHHHHHHHHHHHHCSCHHHHGGGSTTCCHHHHHHHHHTT
T ss_pred             cccCCHHHHHHHHHHHHHHCcCHHHHHHHCCCCCHHHHHHHHHHH
Confidence            578999999999999999999999999999999999999999864

>4gut_A Lysine-specific histone demethylase 1B; histone demethylase; HET: FAD PGE; 2.00A {Homo sapiens} PDB: 4gur_A* 4gus_A* 4guu_A* 4fwe_A* 4fwf_A* 4fwj_A* 4gu1_A*

Probab=98.52  E-value=1.6e-07  Score=104.80  Aligned_cols=90  Identities=22%  Similarity=0.272  Sum_probs=76.0

Q ss_pred             CCCceecCCCCCCCCC------------CCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHH
Q 012334           36 EPDVVNVPSYSRWFSF------------DSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVR  103 (466)
Q Consensus        36 q~~~ivIPs~~~wF~~------------~~ih~iE~~~lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r  103 (466)
                      +++...+..|-.+|-.            |.|+..|+..||||..+      +.+|+.|||.|+.+|+.||...||...|+
T Consensus       213 ~~~~~~~~~~~~~~~~~~~~~~a~~~~p~~~~~~e~~~fp~~~~~------~~~yl~irn~il~~w~~np~~~l~~~~~~  286 (776)
T 4gut_A          213 SVHVPGMNRYFQPFYQPNECGKALCVRPDVMELDELYEFPEYSRD------PTMYLALRNLILALWYTNCKEALTPQKCI  286 (776)
T ss_dssp             -----CCCTTCCCBCCTTCCCCSSCBCTTSCCHHHHHHCGGGSSC------CHHHHHHHHHHHHHHHHCTTSCCCHHHHG
T ss_pred             cccccccccccccccCCCccccchhcCCCcCChHHHHhChHHHhc------CceeeeehHHHHHHHHHCCceeeeHHHhh
Confidence            4556667788888866            99999999999999975      57999999999999999999999999998


Q ss_pred             hhcc-------chHHHHHHHHHhhhhcccccCCCC
Q 012334          104 RTLV-------GDVGSIRRVFDFLETWGLINYFAS  131 (466)
Q Consensus       104 ~~l~-------gDv~~i~Rvh~FLe~wGlINy~~~  131 (466)
                      +.+.       .++..+.+|+.||.++|+||+++.
T Consensus       287 ~~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~~~  321 (776)
T 4gut_A          287 PHIIVRGLVRIRCVQEVERILYFMTRKGLINTGVL  321 (776)
T ss_dssp             GGCCCSSTHHHHHHHHHHHHHHHHHHHTSSSCTTC
T ss_pred             hhcccccccccccHHHHHHHHHHHHHhhhhhcccc
Confidence            8763       356778999999999999999876

>2z3y_A Lysine-specific histone demethylase 1; chromatin, nucleosome, transcription, LSD1, alternative splicing, chromatin regulator, coiled coil; HET: F2N; 2.25A {Homo sapiens} SCOP: a.4.1.18 c.3.1.2 d.16.1.5 PDB: 2ejr_A* 2z5u_A* 3abt_A* 3abu_A* 2y48_A* 2v1d_A* 2h94_A* 2iw5_A* 2uxn_A* 2uxx_A* 2hko_A* 2dw4_A* 2x0l_A* 2l3d_A

Probab=98.52  E-value=6.4e-08  Score=105.75  Aligned_cols=85  Identities=22%  Similarity=0.486  Sum_probs=74.8

Q ss_pred             CCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHhh----ccchHHHHHHHHHhh
Q 012334           45 YSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRT----LVGDVGSIRRVFDFL  120 (466)
Q Consensus        45 ~~~wF~~~~ih~iE~~~lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r~~----l~gDv~~i~Rvh~FL  120 (466)
                      +++.|+.+.+|+.|...|||+..+  +..+...|+.|||.|+.+|+.||..+||+.+|.-.    +..|...|.+|+.|+
T Consensus         8 ~~~~l~~~~l~~~E~~~~~~~~~~--~~~~~~~yl~irn~~~~~w~~~~~~~~~~~~~~~~~~r~~~~~~~~i~~~~~~~   85 (662)
T 2z3y_A            8 FQSRLPHDRMTSQEAACFPDIISG--PQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAPYNSDTVLVHRVHSYL   85 (662)
T ss_dssp             HHTTCCTTSCCHHHHHHCHHHHTS--CHHHHHHHHHHHHHHHHHHHTCTTBCCCHHHHHHHSCTTGGGCHHHHHHHHHHH
T ss_pred             HHcCCCCCCCCHHHHHHhHHHHcC--chHHHHHHHHHHHHHHHHHHHCCCcccCHHHHHHhcCCCccCChHHHHHHHHHH
Confidence            568899999999999999999975  22245689999999999999999999999999544    447889999999999


Q ss_pred             hhcccccCCCC
Q 012334          121 ETWGLINYFAS  131 (466)
Q Consensus       121 e~wGlINy~~~  131 (466)
                      .++|+||+++.
T Consensus        86 ~~~~~~~~~~~   96 (662)
T 2z3y_A           86 ERHGLINFGIY   96 (662)
T ss_dssp             HHTTSSSCSSC
T ss_pred             HHHHHHhcCCc
Confidence            99999998877

>3zqc_A MYB3; transcription-DNA complex, DNA-binding protein, nucleus; 2.90A {Trichomonas vaginalis}

Probab=98.49  E-value=1e-07  Score=84.15  Aligned_cols=45  Identities=16%  Similarity=0.513  Sum_probs=42.7

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ...||.+|+.+|++++..||.+|..||++|++||..+|..||..+
T Consensus        54 ~~~Wt~eEd~~L~~~~~~~G~~W~~Ia~~l~gRt~~~~k~rw~~~   98 (131)
T 3zqc_A           54 KHAWTPEEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSS   98 (131)
T ss_dssp             CSCCCHHHHHHHHHHHHHSCSCHHHHTTTSTTCCHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHHHCcCHHHHHHHcCCCCHHHHHHHHHHH
Confidence            468999999999999999999999999999999999999999874

>2yqk_A Arginine-glutamic acid dipeptide repeats protein; structure genomics, SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.47  E-value=2.7e-07  Score=71.88  Aligned_cols=44  Identities=18%  Similarity=0.507  Sum_probs=41.2

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHH-hCCCCHHHHHHHHh
Q 012334          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQH-VSGKSEKDCITHFI  255 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg~nW~~IA~~-VgtKT~~eCi~hfl  255 (466)
                      ....||++|..++++|+.+||.||..|+.+ |++||..||+.+|.
T Consensus         8 ~~~~WT~eE~~~Fe~~l~~yGKdf~~I~~~~v~~Kt~~~~v~fYY   52 (63)
T 2yqk_A            8 IEKCWTEDEVKRFVKGLRQYGKNFFRIRKELLPNKETGELITFYY   52 (63)
T ss_dssp             CCCSCCHHHHHHHHHHHHHTCSCHHHHHHHSCTTSCHHHHHHHHH
T ss_pred             CCCCcCHHHHHHHHHHHHHhCccHHHHHHHHcCCCcHHHHHHHHh
Confidence            357899999999999999999999999996 99999999999985

>2xag_B REST corepressor 1; amine oxidase, chromatin regulator, histone inhibitor binding, methylation, nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A {Homo sapiens} PDB: 2xaf_B* 2xah_B* 2xaj_B* 2xaq_B* 2xas_B*

Probab=98.40  E-value=2.7e-07  Score=97.34  Aligned_cols=45  Identities=24%  Similarity=0.539  Sum_probs=42.8

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ....||.+|..++|+||.+||.||..||++|||||..||+.||..
T Consensus       379 ~~~~WT~eE~~~f~~al~~yGkdw~~IA~~VgTKT~~Qvk~fy~~  423 (482)
T 2xag_B          379 CNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVN  423 (482)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHTTCHHHHHHHHSSCCHHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHHCcCHHHHHHHhCCCCHHHHHHHHHH
Confidence            467899999999999999999999999999999999999999974

>2cqq_A RSGI RUH-037, DNAJ homolog subfamily C member 1; membrane protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3

Probab=98.35  E-value=3.6e-07  Score=73.14  Aligned_cols=48  Identities=27%  Similarity=0.513  Sum_probs=43.3

Q ss_pred             CCCCCHHHHHHHHHHHHHhC----CCHHHHHHHhCCCCHHHHHHHHhcCCCCCc
Q 012334          213 RSDWTEKETLQLLEAIMHFG----DDWRKVAQHVSGKSEKDCITHFIKLPFGQE  262 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg----~nW~~IA~~VgtKT~~eCi~hflqLPIeD~  262 (466)
                      ...||.+|+.+|..++.+|+    +.|++||++|| ||.+||+.||..| .+|.
T Consensus         8 ~~~WT~eE~k~fe~al~~~p~~t~~RW~~IA~~lg-Rt~~eV~~~y~~L-~~d~   59 (72)
T 2cqq_A            8 APEWTEEDLSQLTRSMVKFPGGTPGRWEKIAHELG-RSVTDVTTKAKQL-KDSV   59 (72)
T ss_dssp             CCCCCHHHHHHHHHHHHHSCTTCTTHHHHHHHHHT-SCHHHHHHHHHHH-HHSC
T ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCcHHHHHHHHhC-CCHHHHHHHHHHH-HHhc
Confidence            46899999999999999998    56999999995 9999999999998 6664

>2roh_A RTBP1, telomere binding protein-1; plant, nucleus, DNA binding protein; NMR {Oryza sativa}

Probab=98.32  E-value=5.4e-07  Score=79.04  Aligned_cols=46  Identities=28%  Similarity=0.431  Sum_probs=42.2

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHh----CCCCHHHHHHHHhcC
Q 012334          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHV----SGKSEKDCITHFIKL  257 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~V----gtKT~~eCi~hflqL  257 (466)
                      ....||.+|+..|++||++|| |+|.+|+++.    .+||..+|..+|..|
T Consensus        30 ~r~~WT~EEd~~L~~gV~k~G~g~W~~I~~~~~~~~~~RT~vdlKdRWrnl   80 (122)
T 2roh_A           30 IRRPFTVAEVELLVEAVEHLGTGRWRDVKFRAFENVHHRTYVDLKDKWKTL   80 (122)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHSSSCHHHHHHHHHSSSCCCCHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCChHHHHHHhccccCCCCHHHHHHHHHHH
Confidence            357899999999999999999 7999999986    689999999999874

>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C

Probab=98.32  E-value=5.3e-07  Score=81.82  Aligned_cols=45  Identities=22%  Similarity=0.587  Sum_probs=42.9

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ...||.+|+.+|++++.+||.+|..||++|++||..+|..||..+
T Consensus       110 ~~~WT~eEd~~L~~~~~~~g~~W~~Ia~~l~gRt~~~~knr~~~~  154 (159)
T 1h89_C          110 KTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNST  154 (159)
T ss_dssp             CSCCCHHHHHHHHHHHHHHCSCHHHHHTTSTTCCHHHHHHHHHTT
T ss_pred             ccCCChHHHHHHHHHHHHHCCCHHHHHHHCCCCCHHHHHHHHHHH
Confidence            478999999999999999999999999999999999999999875

>2aje_A Telomere repeat-binding protein; DNA-binding, Trp, MYB motif, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.3

Probab=98.30  E-value=5e-07  Score=77.35  Aligned_cols=46  Identities=22%  Similarity=0.380  Sum_probs=42.0

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHh----CCCCHHHHHHHHhcC
Q 012334          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHV----SGKSEKDCITHFIKL  257 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~V----gtKT~~eCi~hflqL  257 (466)
                      ....||.+|+..|++||++|| |+|.+|++..    .+||..+|..+|..|
T Consensus        12 ~r~~WT~EEd~~L~~gV~k~G~g~W~~I~~~~~~~f~~RT~v~lKdrWrnl   62 (105)
T 2aje_A           12 IRRPFSVAEVEALVQAVEKLGTGRWRDVKLCAFEDADHRTYVDLKDKWKTL   62 (105)
T ss_dssp             CCCSCCHHHHHHHHHHHHHHCSSSHHHHHSSSSSSTTCCCHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhccccCCCCHHHHHHHHHHH
Confidence            357899999999999999999 7999999977    679999999999874

>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C

Probab=98.29  E-value=7e-07  Score=81.04  Aligned_cols=46  Identities=22%  Similarity=0.662  Sum_probs=42.6

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ....||.+|+.+|+++|..|| ++|..||++|++||..||..||..+
T Consensus        57 ~~~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~l~~Rt~~qcr~Rw~~~  103 (159)
T 1h89_C           57 IKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNH  103 (159)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHCSCCHHHHHHTSTTCCHHHHHHHHHHT
T ss_pred             CCCCCChHHHHHHHHHHHHhCcccHHHHHHHcCCCCHHHHHHHHHHH
Confidence            357899999999999999999 5899999999999999999999873

>2crg_A Metastasis associated protein MTA3; transcription factor, helix turn helix, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.3

Probab=98.29  E-value=8.6e-07  Score=70.49  Aligned_cols=45  Identities=22%  Similarity=0.424  Sum_probs=41.7

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHH-hCCCCHHHHHHHHhc
Q 012334          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQH-VSGKSEKDCITHFIK  256 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg~nW~~IA~~-VgtKT~~eCi~hflq  256 (466)
                      ....||++|..++.+|+.+||.||..|+.+ |++||..||+.+|..
T Consensus         7 ~~~~WT~eE~~~Fe~~l~~yGKdf~~I~~~~v~~Kt~~~~v~fYY~   52 (70)
T 2crg_A            7 GMEEWSASEACLFEEALEKYGKDFNDIRQDFLPWKSLTSIIEYYYM   52 (70)
T ss_dssp             SSCCCCHHHHHHHHHHHHHTCSCHHHHHHTTCSSSCHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHhCccHHHHHHHHcCCCCHHHHHHHHHh
Confidence            346899999999999999999999999995 999999999999964

>2juh_A Telomere binding protein TBP1; helix, nucleus, nuclear protein; NMR {Nicotiana glutinosa}

Probab=98.23  E-value=8e-07  Score=77.89  Aligned_cols=45  Identities=24%  Similarity=0.431  Sum_probs=41.8

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHh----CCCCHHHHHHHHhc
Q 012334          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHV----SGKSEKDCITHFIK  256 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~V----gtKT~~eCi~hflq  256 (466)
                      ....||.+|+..|++||++|| |+|.+|+++.    .+||..+|..+|..
T Consensus        16 ~r~~WT~EEd~~L~~gV~k~G~G~W~~Ia~~~~~~f~~RT~v~lKdRWrn   65 (121)
T 2juh_A           16 IRRPFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKT   65 (121)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHGGGCHHHHHHHHCSCCSSCCSHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHhccccCCCCHHHHHHHHHH
Confidence            457999999999999999999 7999999996    67999999999987

>4eef_G F-HB80.4, designed hemagglutinin binding protein; immunoglobulin, fusion of virus membrane with membrane, membrane fusion, sialic acid, virion; HET: NAG BMA; 2.70A {Artificial gene}

Probab=98.20  E-value=1.9e-07  Score=74.66  Aligned_cols=43  Identities=28%  Similarity=0.533  Sum_probs=38.9

Q ss_pred             CCCCCHHHHHHHHHHHHHhC----CCHHHHHHHhCCCCHHHHHHHHh
Q 012334          213 RSDWTEKETLQLLEAIMHFG----DDWRKVAQHVSGKSEKDCITHFI  255 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg----~nW~~IA~~VgtKT~~eCi~hfl  255 (466)
                      ...||.+|..+|-.||.+|+    +.|++||..||+||++||+.||-
T Consensus        20 s~~WT~eE~K~FE~ALa~yp~~tpdRWekIA~~VpGKT~eEVk~hY~   66 (74)
T 4eef_G           20 GRPWKFSENIAFEIALSFTNKDTPDRWKKVAQYVKGRTPEEVKKHYE   66 (74)
T ss_dssp             --CCCTTHHHHHHHHTSSSCSSCCSSSTTTGGGSCSSCHHHHHGGGC
T ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCcHHHHHHHHcCCCCHHHHHHHHH
Confidence            56899999999999999999    47999999999999999999983

>4a69_C Nuclear receptor corepressor 2; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} PDB: 1xc5_A

Probab=98.17  E-value=2.1e-06  Score=72.02  Aligned_cols=45  Identities=18%  Similarity=0.402  Sum_probs=42.1

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ....||.+|-.++.+++..||.||..||++|++||..||+.+|..
T Consensus        42 ~~~~WT~eE~~~F~~~~~~~gK~F~~Ia~~l~~Kt~~~cV~~YY~   86 (94)
T 4a69_C           42 VMNMWSEQEKETFREKFMQHPKNFGLIASFLERKTVAECVLYYYL   86 (94)
T ss_dssp             HTCCCCHHHHHHHHHHHHHSTTCHHHHHHTCTTCCHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHcCCCHHHHHHHcCCCCHHHHHHHHhc
Confidence            357899999999999999999999999999999999999999953

>1x58_A Hypothetical protein 4930532D21RIK; MUS musculus adult MALE testis cDNA, riken FULL-length enriched library, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.1

Probab=97.97  E-value=6.6e-06  Score=63.86  Aligned_cols=46  Identities=22%  Similarity=0.497  Sum_probs=40.6

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHH---HhCCCCHHHHHHHHhcC
Q 012334          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQ---HVSGKSEKDCITHFIKL  257 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg~nW~~IA~---~VgtKT~~eCi~hflqL  257 (466)
                      ....||.+|+..|++||++||.+|.+|+.   ++..||.-....+|-.|
T Consensus         7 ~r~~WT~EE~~~L~~gV~k~G~~W~~I~~~y~f~~~RT~VdLKdk~r~L   55 (62)
T 1x58_A            7 GRKDFTKEEVNYLFHGVKTMGNHWNSILWSFPFQKGRRAVDLAHKYHRL   55 (62)
T ss_dssp             CSSSCCHHHHHHHHHHHHHHCSCHHHHHHHSCCCTTCCHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHhHhHHHHHHhCCCccCcccchHHHHHHHH
Confidence            45789999999999999999999999994   66679999998888654

>2xag_A Lysine-specific histone demethylase 1; amine oxidase, chromatin regulator, histone inhibitor binding, methylation, nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A {Homo sapiens} PDB: 2xaf_A* 2xah_A* 2xaj_A* 2xaq_A* 2xas_A* 2com_A

Probab=97.66  E-value=4.2e-05  Score=86.33  Aligned_cols=87  Identities=22%  Similarity=0.473  Sum_probs=74.6

Q ss_pred             CCCCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHH----hhccchHHHHHHHHH
Q 012334           43 PSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVR----RTLVGDVGSIRRVFD  118 (466)
Q Consensus        43 Ps~~~wF~~~~ih~iE~~~lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r----~~l~gDv~~i~Rvh~  118 (466)
                      ..|.++|+.+.+|..|+.+||++-..  .-....+|+.+||.|+..|+.||...++...|.    |.+..|...|.++++
T Consensus       177 aa~~~r~p~~~~~~~e~~~f~~~~~~--~~~~~~~~~~~rn~i~~~w~~~P~~a~~~~~~~~~~~r~~~~~p~~i~~~~~  254 (852)
T 2xag_A          177 AAFQSRLPHDRMTSQEAACFPDIISG--PQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAPYNSDTVLVHRVHS  254 (852)
T ss_dssp             HHHTTTCCTTSCCHHHHHHCHHHHTS--CHHHHHHHHHHHHHHHHHHHTCTTBCCCHHHHHHHCCTTTTSCHHHHHHHHH
T ss_pred             HHHHhcCCCcccChHHHHHHHHHHHh--hhhhcCeeeEeecchhHHHhcCCHHHhhHHHHHHhCCCcccCCcHHHHHHHH
Confidence            35778999999999999999998764  112456999999999999999999999988874    445578999999999


Q ss_pred             hhhhcccccCCCC
Q 012334          119 FLETWGLINYFAS  131 (466)
Q Consensus       119 FLe~wGlINy~~~  131 (466)
                      |+.+||+||+++.
T Consensus       255 ~~~~~~~~~~~~~  267 (852)
T 2xag_A          255 YLERHGLINFGIY  267 (852)
T ss_dssp             HHHHTTSSSCSSC
T ss_pred             HHHHHHHHhcCcc
Confidence            9999999998876

>1ign_A Protein (RAP1); RAP1,yeast,telomeres,homoeodomain, DNA binding protein/DNA complex; HET: DNA; 2.25A {Saccharomyces cerevisiae} SCOP: a.4.1.6 a.4.1.6 PDB: 3ukg_A

Probab=97.62  E-value=2.9e-05  Score=74.99  Aligned_cols=44  Identities=11%  Similarity=0.258  Sum_probs=41.1

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCC------HHHHHHHhCCCCHHHHHHHHhc
Q 012334          213 RSDWTEKETLQLLEAIMHFGDD------WRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~n------W~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ...||.+|+.+||+.+++||..      |..||+++.+||..+|+.||..
T Consensus         8 k~~FT~EED~~Ile~v~k~Gn~r~ghk~W~~IAk~LpGRT~nsIRnRw~~   57 (246)
T 1ign_A            8 KASFTDEEDEFILDVVRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRFRV   57 (246)
T ss_dssp             CCCCCHHHHHHHHHHHHTSGGGTTCSHHHHHHTTTSTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHhCcCccccccHHHHHHHcCCCCHHHHHHHHHH
Confidence            5689999999999999999853      9999999999999999999976

>3hm5_A DNA methyltransferase 1-associated protein 1; DNA methylation, chromatin, structural genomics consortium, SGC, activator, chromatin regulator; HET: DNA; 1.80A {Homo sapiens}

Probab=96.71  E-value=0.002  Score=53.85  Aligned_cols=44  Identities=18%  Similarity=0.308  Sum_probs=41.1

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHh-----CCCCHHHHHHHHhc
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHV-----SGKSEKDCITHFIK  256 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~IA~~V-----gtKT~~eCi~hflq  256 (466)
                      ..+||.+|+..|++.+++||-.|--|++..     ++||.++...+|-.
T Consensus        30 ~~~WTkEETd~Lf~L~~~fdlRW~vI~DRy~~~~~~~Rt~EdLK~RyY~   78 (93)
T 3hm5_A           30 DDAWTKAETDHLFDLSRRFDLRFVVIHDRYDHQQFKKRSVEDLKERYYH   78 (93)
T ss_dssp             BTTBCHHHHHHHHHHHHHTTTCHHHHHHHSCTTTSCCCCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHhCCCeeeehhhhccCCCCCCCHHHHHHHHHH
Confidence            379999999999999999999999999999     47999999999976

>2ebi_A DNA binding protein GT-1; DNA-binding domain, phosphorylation; HET: DNA; NMR {Arabidopsis thaliana} PDB: 2jmw_A*

Probab=96.33  E-value=0.0019  Score=52.52  Aligned_cols=45  Identities=18%  Similarity=0.425  Sum_probs=38.0

Q ss_pred             CCCCCHHHHHHHHHHHHHhC----------CCHHHHHHHhC----CCCHHHHHHHHhcC
Q 012334          213 RSDWTEKETLQLLEAIMHFG----------DDWRKVAQHVS----GKSEKDCITHFIKL  257 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg----------~nW~~IA~~Vg----tKT~~eCi~hflqL  257 (466)
                      ...||.+|+++||++.....          .-|+.||+.|.    .||+.||..+|-.|
T Consensus         4 ~~~Wt~~Et~~Li~~~~e~~~~f~~~~~~~~~W~~Ia~~m~~~G~~rs~~qC~~K~~nL   62 (86)
T 2ebi_A            4 AETWVQDETRSLIMFRRGMDGLFNTSKSNKHLWEQISSKMREKGFDRSPDMCTDKWRNL   62 (86)
T ss_dssp             SCCCCHHHHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            35799999999999986533          27999999985    59999999999874

>1ug2_A 2610100B20RIK gene product; hypothetical protein, MYB-like DNA binding domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.4.1.3

Probab=96.15  E-value=0.0067  Score=50.31  Aligned_cols=44  Identities=18%  Similarity=0.336  Sum_probs=41.1

Q ss_pred             CCCCHHHHHHHHHHHHHhC---CCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          214 SDWTEKETLQLLEAIMHFG---DDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg---~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      --||.+|+..+|.+-++-|   +-|..||+.+|+||++|...||-+|
T Consensus        34 vlWTRe~DR~IL~~cQ~~G~s~~tFa~iA~~L~Nks~nqV~~RFq~L   80 (95)
T 1ug2_A           34 VLWTREADRVILTMCQEQGAQPHTFSVISQQLGNKTPVEVSHRFREL   80 (95)
T ss_dssp             SSSCHHHHHHHHHHHHHTTSCTTTHHHHHHHHSSCCHHHHHHHHHHH
T ss_pred             EEeccccCHHHHHHHHhcCCChhHHHHHHHHHccCCHHHHHHHHHHH
Confidence            4699999999999999998   5899999999999999999999874

>1fex_A TRF2-interacting telomeric RAP1 protein; helix turn helix, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Synthetic} SCOP: a.4.1.3

Probab=95.95  E-value=0.0057  Score=46.78  Aligned_cols=43  Identities=12%  Similarity=0.319  Sum_probs=39.1

Q ss_pred             CCCCHHHHHHHHHHHHHhC-------C--CHHHHHH-HhCCCCHHHHHHHHhc
Q 012334          214 SDWTEKETLQLLEAIMHFG-------D--DWRKVAQ-HVSGKSEKDCITHFIK  256 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg-------~--nW~~IA~-~VgtKT~~eCi~hflq  256 (466)
                      ..||.+|+..|++-|..|.       |  -|+++++ .+..+|-+.|+.||++
T Consensus         3 ~~FT~edD~~L~~~v~~~~~~~~~~~Gn~iwk~la~~~~~~HtwqSwRdRy~k   55 (59)
T 1fex_A            3 IAFTDADDVAILTYVKENARSPSSVTGNALWKAMEKSSLTQHSWQSLKDRYLK   55 (59)
T ss_dssp             CCCCHHHHHHHHHHHHHTCCSTTTTTSSHHHHHHHHSCSSSCCSHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhccccCCCccHHHHHHHHHhHCCCCCHHHHHHHHHH
Confidence            5799999999999999993       3  4999999 7989999999999986

>1ofc_X ISWI protein; nuclear protein, chromatin remodeling factor, ATPase, SANT domain, nucleosome recognition; HET: GLC G4D; 1.9A {Drosophila melanogaster} SCOP: a.4.1.3 a.4.1.13 a.187.1.1 PDB: 2nog_A

Probab=95.78  E-value=0.0081  Score=60.11  Aligned_cols=41  Identities=29%  Similarity=0.572  Sum_probs=37.8

Q ss_pred             CCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHH
Q 012334          214 SDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHF  254 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hf  254 (466)
                      .+||..+-..++.|.++|| ++|..||..|++||++|...++
T Consensus       111 ~~W~rrdf~~Fi~a~~kyGr~~~~~IA~ev~~Kt~eEV~~Y~  152 (304)
T 1ofc_X          111 TAWTKRDFNQFIKANEKYGRDDIDNIAKDVEGKTPEEVIEYN  152 (304)
T ss_dssp             TTCCHHHHHHHHHHHHHHCTTCHHHHTTSSTTCCHHHHHHHH
T ss_pred             cccCHHHHHHHHHHHHHhCHHHHHHHHHHhcCCCHHHHHHHH
Confidence            6799999999999999999 8999999999999999995443

>2aqe_A Transcriptional adaptor 2, ADA2 alpha; helix-turn-helix; NMR {Mus musculus} SCOP: a.4.1.18 PDB: 2aqf_A

Probab=95.77  E-value=0.011  Score=48.88  Aligned_cols=70  Identities=20%  Similarity=0.374  Sum_probs=58.7

Q ss_pred             CCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHhhccchHHHHHHHHHhhhhccccc
Q 012334           50 SFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLIN  127 (466)
Q Consensus        50 ~~~~ih~iE~~~lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r~~l~gDv~~i~Rvh~FLe~wGlIN  127 (466)
                      +.+-+|+-|++..-..      .=.|..|+.+...||.-...+.  .++.++||..+.-|++-..||++||.+.|+|+
T Consensus        19 ~~~lLs~~E~~LC~~l------rL~P~~YL~~K~~li~E~~~~g--~l~k~da~~~~kiD~~K~~~iydf~~~~Gwi~   88 (90)
T 2aqe_A           19 GTEKLNEKEKELCQVV------RLVPGAYLEYKSALLNECHKQG--GLRLAQARALIKIDVNKTRKIYDFLIREGYIT   88 (90)
T ss_dssp             STTTSCHHHHHHHHHT------TCCHHHHHHHHHHHHHHHHHHS--CCCHHHHHTTSSSSSHHHHHHHHHHHHTTSSC
T ss_pred             CchhcCHHHHHHHHHh------CCCHHHHHHHHHHHHHHHHHcC--CCcHHHHHHHHcccHHHHHHHHHHHHHcCCCC
Confidence            4567888888876532      2359999999999999886643  39999999888899999999999999999996

>2cuj_A Transcriptional adaptor 2-like; transcriptional regulation, nuclear protein, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.18

Probab=95.74  E-value=0.017  Score=49.53  Aligned_cols=70  Identities=20%  Similarity=0.374  Sum_probs=59.3

Q ss_pred             CCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHhhccchHHHHHHHHHhhhhccccc
Q 012334           50 SFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLIN  127 (466)
Q Consensus        50 ~~~~ih~iE~~~lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r~~l~gDv~~i~Rvh~FLe~wGlIN  127 (466)
                      +.+-+|+-|++..-..      .=.|..|+.+.+.||.-+..+.  .++.++||+.+.-|++-..||++||.+.|+|+
T Consensus        37 g~~LLs~~E~~LCs~l------rL~P~~YL~iK~~Li~E~~k~g--~lkk~dA~~l~kID~~K~~rIydff~~~GWi~  106 (108)
T 2cuj_A           37 GTEKLNEKEKELCQVV------RLVPGAYLEYKSALLNECHKQG--GLRLAQARALIKIDVNKTRKIYDFLIREGYIT  106 (108)
T ss_dssp             TTTTSCHHHHHHHHHT------TCCHHHHHHHHHHHHHHHHHSS--CCCHHHHHHHHTSCHHHHHHHHHHHHTTTSSC
T ss_pred             CchhcCHHHHHHHHHh------CCCHHHHHHHHHHHHHHHHHcC--CCcHHHHHHHhcccHHHHHHHHHHHHHcCCCC
Confidence            4568899999876533      2359999999999999986643  49999999988899999999999999999996

>2xag_B REST corepressor 1; amine oxidase, chromatin regulator, histone inhibitor binding, methylation, nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A {Homo sapiens} PDB: 2xaf_B* 2xah_B* 2xaj_B* 2xaq_B* 2xas_B*

Probab=95.69  E-value=0.0018  Score=68.43  Aligned_cols=49  Identities=14%  Similarity=0.337  Sum_probs=0.0

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcCCCCC
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQ  261 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflqLPIeD  261 (466)
                      ...||.+|..++.+++..||.||..|+++|++||..+|+.+|..-=-..
T Consensus       189 ~d~WT~eE~~lFe~al~~yGKdF~~I~~~lp~Ksv~e~V~yYY~WKKt~  237 (482)
T 2xag_B          189 PDEWTVEDKVLFEQAFSFHGKTFHRIQQMLPDKSIASLVKFYYSWKKTR  237 (482)
T ss_dssp             -------------------------------------------------
T ss_pred             ccccCHHHHHHHHHHHHHcCccHHHHHHHcCCCCHHHHHHHhccccccc
Confidence            4589999999999999999999999999999999999999987644443

>2e5r_A Dystrobrevin alpha; ZZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=95.65  E-value=0.0089  Score=46.31  Aligned_cols=47  Identities=17%  Similarity=0.443  Sum_probs=33.7

Q ss_pred             ccccCCCCc-cccccccccC-CCcccchhhhccCCCCCCC-CCCCceecc
Q 012334          161 RLCNGCKTL-CTIACFACDK-YDLTLCARCYVRGNHRVGV-SSSDFRRVE  207 (466)
Q Consensus       161 ~~C~~C~~~-~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~-~s~dF~~~~  207 (466)
                      ..|++|+.. +.-.+|.|.. .|++||..||..|.....+ .+|.|+++.
T Consensus        12 ~~Cd~C~~~pi~G~RykC~~C~d~DLC~~C~~~g~~~~~H~~~H~~~~~~   61 (63)
T 2e5r_A           12 VECSYCHSESMMGFRYRCQQCHNYQLCQDCFWRGHAGGSHSNQHQMKEYT   61 (63)
T ss_dssp             SCCSSSCCCSSCSCEEEESSCSSCEECHHHHHHCCCCSSSCTTCCEEEEC
T ss_pred             CCCcCCCCcceecceEEecCCCCchhHHHHHhCCCcCCCCCCCCCEEEEe
Confidence            689999975 5444445532 3788999999999865444 678887754

>2elj_A Transcriptional adapter 2; YDR448W, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Saccharomyces cerevisiae}

Probab=95.47  E-value=0.021  Score=47.13  Aligned_cols=70  Identities=14%  Similarity=0.285  Sum_probs=58.5

Q ss_pred             CCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHhhccchHHHHHHHHHhhhhcccc
Q 012334           50 SFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLI  126 (466)
Q Consensus        50 ~~~~ih~iE~~~lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r~~l~gDv~~i~Rvh~FLe~wGlI  126 (466)
                      +.+-+|+-|++..-..      .=.|..|+.+.+.||.-+..+ ...++.++||..+.-|++-..||++||.+.|+|
T Consensus        19 ~~~lLs~~E~~LC~~l------rL~P~~YL~~K~~Li~E~~k~-g~~lkk~da~~~~kiD~~K~~~iydf~~~~Gwi   88 (88)
T 2elj_A           19 DYALLSNDEQQLCIQL------KILPKPYLVLKEVMFRELLKT-GGNLSKSACRELLNIDPIKANRIYDFFQSQNWM   88 (88)
T ss_dssp             TCSSSCHHHHHHHHHT------TCCHHHHHHHHHHHHHHHHHH-SSCCCHHHHHHHTTSCHHHHHHHHHHHHHTTCC
T ss_pred             CchhcCHHHHHHHHHh------CCCHHHHHHHHHHHHHHHHHh-CCCccHHHHHHHHcccHHHHHHHHHHHHHcCCC
Confidence            4567888888776432      235999999999999988764 457999999988889999999999999999987

>2dip_A Zinc finger SWIM domain-containing protein 2; ZZ domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.44.1.6

Probab=94.99  E-value=0.0056  Score=51.59  Aligned_cols=54  Identities=28%  Similarity=0.618  Sum_probs=36.6

Q ss_pred             cccccCCCCc-cccccccccC-CCcccchhhhccCCCCCCCCCCCceecccCcccCCCCCHHH
Q 012334          160 KRLCNGCKTL-CTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKE  220 (466)
Q Consensus       160 k~~C~~C~~~-~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~~s~dF~~~~~~~~~~~~WT~~E  220 (466)
                      ...|++|+.. +.-.+|.|.. .|++||..||..|.+    ..|.|.++...   ...|+..|
T Consensus        31 gv~Cd~C~~~pI~G~RykC~~C~d~DLC~~C~~~~~H----~~H~f~~i~~~---~~~w~~~e   86 (98)
T 2dip_A           31 GIPCNNCKQFPIEGKCYKCTECIEYHLCQECFDSYCH----LSHTFTFREKR---NQKWRSLE   86 (98)
T ss_dssp             CCCCSSSCCSSCCSCEEEESSSSSCEEEHHHHHTTSG----GGSCEEECCSS---SCCCEECC
T ss_pred             CCCCcCCCCCCcccCeEECCCCCCccHHHHHHccCCC----CCCCeeEecCC---CCCCcccc
Confidence            3689999963 4434444432 368899999999863    67899887543   34576543

>2lr8_A CAsp8-associated protein 2; structural genomics, northeast structural genomics consortiu PSI-biology, apoptosis; NMR {Homo sapiens}

Probab=93.59  E-value=0.0061  Score=47.95  Aligned_cols=44  Identities=18%  Similarity=0.283  Sum_probs=40.2

Q ss_pred             CCCCCHHHHHHHHHHHHHhC---CCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          213 RSDWTEKETLQLLEAIMHFG---DDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg---~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ---||.+|+-.+|...++-|   .-|..||+.+ +||++|...+|.+|
T Consensus        14 vvlWTReeDR~IL~~cq~~G~s~~tfa~iA~~L-nks~~QV~~RF~~L   60 (70)
T 2lr8_A           14 IILWTRNDDRVILLECQKRGPSSKTFAYLAAKL-DKNPNQVSERFQQL   60 (70)
Confidence            35799999999999999999   4899999999 79999999999885

>4iej_A DNA methyltransferase 1-associated protein 1; DNA methylation, chromatin regulator, repressor, structural joint center for structural genomics; HET: DNA; 1.45A {Homo sapiens} PDB: 3hm5_A*

Probab=94.49  E-value=0.052  Score=45.25  Aligned_cols=44  Identities=18%  Similarity=0.311  Sum_probs=40.5

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhC-----CCCHHHHHHHHhc
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVS-----GKSEKDCITHFIK  256 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~IA~~Vg-----tKT~~eCi~hflq  256 (466)
                      ..+||.+|+..|++.+++|+-.|--|++.-.     .||.++-..||.+
T Consensus        30 ~~~WT~eETd~LfdLc~~fdlRw~vI~DRy~~~~~~~RtvEdLK~RYY~   78 (93)
T 4iej_A           30 DDAWTKAETDHLFDLSRRFDLRFVVIHDRYDHQQFKKRSVEDLKERYYH   78 (93)
T ss_dssp             BTTBCHHHHHHHHHHHHHTTTCHHHHHHHCCTTTSCCCCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHcCCCeEEEeeccccCCCCCCCHHHHHHHHHH
Confidence            4689999999999999999999999999974     6999999999976

>2fc7_A ZZZ3 protein; structure genomics, ZZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.6

Probab=94.35  E-value=0.042  Score=44.70  Aligned_cols=50  Identities=14%  Similarity=0.275  Sum_probs=34.5

Q ss_pred             cccccCCCC-ccccccccccC-CC---cccchhhhccCCCC-CCCCCCCceecccC
Q 012334          160 KRLCNGCKT-LCTIACFACDK-YD---LTLCARCYVRGNHR-VGVSSSDFRRVEIS  209 (466)
Q Consensus       160 k~~C~~C~~-~~~~~~~~c~k-~d---~~lC~~Cf~~G~~~-~~~~s~dF~~~~~~  209 (466)
                      ...|++|+. .+.-.+|.|.. .|   ++||..||..|.+. .+...|.|.++...
T Consensus        21 ~~~Cd~C~~~pI~G~RykC~~C~d~~~yDLC~~C~~~g~~~~~H~~~H~~~~i~~~   76 (82)
T 2fc7_A           21 GFKCDNCGIEPIQGVRWHCQDCPPEMSLDFCDSCSDCLHETDIHKEDHQLEPIYRS   76 (82)
T ss_dssp             SCCCSSSCCSSEESCEEEESSSCSSSCCEEEGGGTTCCCCCSSCCSSSCEEEECSC
T ss_pred             cCCCCCCCCCcceeceEECCcCCCCcceecHHHHHhCccccCCCCCCCCEEEeeCC
Confidence            468999996 34333444432 25   88999999998764 44478999887643

>2xb0_X Chromo domain-containing protein 1; hydrolase, DNA-binding protein, transcription, chromatin REG; HET: GOL; 2.00A {Saccharomyces cerevisiae} PDB: 3ted_A

Probab=92.77  E-value=0.073  Score=52.39  Aligned_cols=32  Identities=25%  Similarity=0.665  Sum_probs=28.3

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHh
Q 012334          211 EARSDWTEKETLQLLEAIMHFG-DDWRKVAQHV  242 (466)
Q Consensus       211 ~~~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~V  242 (466)
                      .....|+.+|+..||-||.+|| |+|+.|-.--
T Consensus       166 ~W~c~W~~~dD~~LLvGIykyGyG~We~Ir~Dp  198 (270)
T 2xb0_X          166 NWSSNWTKEEDEKLLIGVFKYGYGSWTQIRDDP  198 (270)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHHCTTCHHHHHHCT
T ss_pred             CCCCCcChHHHHHHHHHHHHHcCCcHHHHhcCc
Confidence            3457899999999999999999 9999997653

>4b4c_A Chromodomain-helicase-DNA-binding protein 1; chromatin-remodeling, histone acetylation COMP chromatin regulation, transcription; 1.62A {Homo sapiens}

Probab=92.30  E-value=0.095  Score=48.85  Aligned_cols=30  Identities=23%  Similarity=0.614  Sum_probs=27.0

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHh
Q 012334          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHV  242 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~V  242 (466)
                      ...||.+|+..||-||.+|| |+|+.|-.-.
T Consensus       134 ~~~W~~~~D~~LL~Gi~k~G~g~w~~Ir~D~  164 (211)
T 4b4c_A          134 DIDWGKEDDSNLLIGIYEYGYGSWEMIKMDP  164 (211)
T ss_dssp             SSCCCHHHHHHHHHHHHHHCTTCHHHHHHCS
T ss_pred             CCCccHHHHHHHHHHHHHHCcCcHHHHHhCh
Confidence            46799999999999999999 9999987754

>1tot_A CREB-binding protein; zinc binding, CBP, TAZ2, transferase; NMR {Mus musculus} SCOP: g.44.1.6

Probab=90.64  E-value=0.089  Score=39.12  Aligned_cols=42  Identities=26%  Similarity=0.584  Sum_probs=30.2

Q ss_pred             cccccCCCCccccccccccC-CCcccchhhhccCCCCCCCCCCCceecc
Q 012334          160 KRLCNGCKTLCTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFRRVE  207 (466)
Q Consensus       160 k~~C~~C~~~~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~~s~dF~~~~  207 (466)
                      .+.|++|+..++ .+|.|.. .|++||..||..|.+     .|.+.++.
T Consensus         6 ~~~Cd~C~~~ig-~R~~C~~C~dyDLC~~C~~~~~H-----~H~m~~~~   48 (52)
T 1tot_A            6 VYTCNECKHHVE-TRWHCTVCEDYDLCINCYNTKSH-----THKMVKWG   48 (52)
T ss_dssp             CEEETTTTEEES-SEEEESSSSSCEECHHHHHHHCC-----CSSEEEEC
T ss_pred             EEECCCCCCCCc-ceEEcCCCCCchhHHHHHhCCCC-----CCceEEec
Confidence            467999998864 3455532 378899999999874     47776654

>4b4c_A Chromodomain-helicase-DNA-binding protein 1; chromatin-remodeling, histone acetylation COMP chromatin regulation, transcription; 1.62A {Homo sapiens}

Probab=89.39  E-value=0.36  Score=44.87  Aligned_cols=40  Identities=20%  Similarity=0.378  Sum_probs=34.7

Q ss_pred             CCCCCHHHHHHHHHHHHHhC---CCHHHHHHHhC--CCCHHHHHH
Q 012334          213 RSDWTEKETLQLLEAIMHFG---DDWRKVAQHVS--GKSEKDCIT  252 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg---~nW~~IA~~Vg--tKT~~eCi~  252 (466)
                      -.+||..|...|+-|+.+||   +.|+.|++...  .||.++...
T Consensus         7 ~~~~t~~E~r~fira~~kfG~~~~r~~~I~~da~L~~Ks~~~v~~   51 (211)
T 4b4c_A            7 IKGFSDAEIRRFIKSYKKFGGPLERLDAIARDAELVDKSETDLRR   51 (211)
T ss_dssp             -CCSCHHHHHHHHHHHTTCSSGGGCHHHHHHHTTCTTSCHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHCCchhHHHHHHHHhccCCCCHHHHHH
Confidence            36899999999999999999   78999999854  689888765

>1irz_A ARR10-B; helix-turn-helix, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.11

Probab=88.95  E-value=0.87  Score=35.35  Aligned_cols=43  Identities=21%  Similarity=0.368  Sum_probs=37.2

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCC---HHHHHHHhCC--CCHHHHHHHHh
Q 012334          213 RSDWTEKETLQLLEAIMHFGDD---WRKVAQHVSG--KSEKDCITHFI  255 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~n---W~~IA~~Vgt--KT~~eCi~hfl  255 (466)
                      .-.||.+.-..+++||++.|.+   |..|-+.||.  -|.+++..|.-
T Consensus         7 r~~WT~elH~~Fv~Av~~LG~~~AtPk~Il~~M~v~gLT~~~VkSHLQ   54 (64)
T 1irz_A            7 RVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQ   54 (64)
T ss_dssp             SCSSCHHHHHHHHHHHHHHCTTTCCHHHHHHHHCCTTCCHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCCcHHHHHHcCCCCCCHHHHHHHHH
Confidence            4579999999999999999955   8999999984  59999988764

>2y9y_A Imitation switch protein 1 (DEL_ATPase); transcription, nuclear protein complex, chromatin remodeling nucleosome remodeling; 3.25A {Saccharomyces cerevisiae} PDB: 2y9z_A

Probab=86.70  E-value=0.65  Score=47.61  Aligned_cols=42  Identities=17%  Similarity=0.469  Sum_probs=38.1

Q ss_pred             CCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC-CCCHHHHHHHHhc
Q 012334          214 SDWTEKETLQLLEAIMHFG-DDWRKVAQHVS-GKSEKDCITHFIK  256 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg-~nW~~IA~~Vg-tKT~~eCi~hflq  256 (466)
                      .+||..+-..++-|.++|| +|-..||..|+ +||++|.. .|.+
T Consensus       124 ~~WnrrDF~~FI~a~~kyGR~d~~~IA~ev~~~Kt~eEV~-~Y~~  167 (374)
T 2y9y_A          124 TNWNKLEFRKFITVSGKYGRNSIQAIARELAPGKTLEEVR-AYAK  167 (374)
T ss_dssp             CCSCHHHHHHHHHHHHHHCTTCHHHHHSSCCCSSSHHHHH-HHHH
T ss_pred             cccCHHHHHHHHHHHHHhCHhHHHHHHHHHccCCCHHHHH-HHHH
Confidence            6899999999999999999 89999999998 89999987 4443

>1ofc_X ISWI protein; nuclear protein, chromatin remodeling factor, ATPase, SANT domain, nucleosome recognition; HET: GLC G4D; 1.9A {Drosophila melanogaster} SCOP: a.4.1.3 a.4.1.13 a.187.1.1 PDB: 2nog_A

Probab=85.26  E-value=0.66  Score=46.32  Aligned_cols=47  Identities=13%  Similarity=0.213  Sum_probs=39.4

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC----CCHHHHHH------------HhCCCCHHHHHHHHhcCC
Q 012334          212 ARSDWTEKETLQLLEAIMHFG----DDWRKVAQ------------HVSGKSEKDCITHFIKLP  258 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg----~nW~~IA~------------~VgtKT~~eCi~hflqLP  258 (466)
                      .+..||.+|+-.||-+|.+||    |+|+.|-.            ++-+||+.|+..|--.|.
T Consensus       211 k~k~yteeEDRfLL~~l~k~G~~~~g~we~Ir~~Ir~~p~FrFDwf~kSRTp~el~rRc~tLi  273 (304)
T 1ofc_X          211 KGKNYTEIEDRFLVCMLHKLGFDKENVYEELRAAIRASPQFRFDWFIKSRTALELQRRCNTLI  273 (304)
T ss_dssp             CCSSCCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHCGGGTTCHHHHTCCHHHHHHHHHHHH
T ss_pred             CCCccCHHHHHHHHHHHHHhcCCCcchHHHHHHHHHhCcchhhhHHHhcCCHHHHHHHHHHHH
Confidence            346899999999999999999    78999974            455899999887776543

---

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	466
d2fq3a1	85	a.4.1.18 (A:311-395) Transcription regulatory prot	4e-37
d2dw4a1	102	a.4.1.18 (A:172-273) Lysine-specific histone demet	5e-28
d1xc5a1	68	a.4.1.3 (A:413-480) Nuclear receptor corepressor 2	2e-09
d2iw5b1	65	a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Hu	7e-09
d1x41a1	47	a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, T	1e-06
d2cqra1	60	a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1	2e-06
d2crga1	57	a.4.1.3 (A:8-64) Metastasis associated protein MTA	3e-06
d2cu7a1	65	a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sap	3e-06
d2cjja1	63	a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Anti	9e-06
d1guua_	50	a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus	8e-05
d1tota1	52	g.44.1.6 (A:1-52) CREB-binding protein, CBP {Mouse	2e-04
d1igna1	86	a.4.1.6 (A:360-445) DNA-binding domain of rap1 {Ba	7e-04
d1gv2a2	47	a.4.1.3 (A:144-190) c-Myb, DNA-binding domain {Mou	9e-04
d1w0ta_	52	a.4.1.4 (A:) DNA-binding domain of human telomeric	0.002

>d2fq3a1 a.4.1.18 (A:311-395) Transcription regulatory protein swi3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 85

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: SWIRM domain
domain: Transcription regulatory protein swi3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  129 bits (325), Expect = 4e-37
 Identities = 39/83 (46%), Positives = 52/83 (62%)

Query: 46  SRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRT 105
           S+WF+ + I   EV+ LPEFF +R PSK P VY  YR+ +V  YR NP+   + T  RR 
Sbjct: 1   SKWFNLEKIHSIEVQSLPEFFTNRIPSKTPEVYMRYRNFMVNSYRLNPNEYFSVTTARRN 60

Query: 106 LVGDVGSIRRVFDFLETWGLINY 128
           + GD  ++ R+  FL  WGLINY
Sbjct: 61  VSGDAAALFRLHKFLTKWGLINY 83

>d2dw4a1 a.4.1.18 (A:172-273) Lysine-specific histone demethylase 1, LSD1 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: SWIRM domain
domain: Lysine-specific histone demethylase 1, LSD1
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  104 bits (262), Expect = 5e-28
 Identities = 20/89 (22%), Positives = 40/89 (44%), Gaps = 6/89 (6%)

Query: 44  SYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVR 103
           ++      D ++  E    P+      P +  +V+ + R+  ++ + +NP  ++TF    
Sbjct: 7   AFQSRLPHDRMTSQEAACFPDII--SGPQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATL 64

Query: 104 RTLV----GDVGSIRRVFDFLETWGLINY 128
           + L      D   + RV  +LE  GLIN+
Sbjct: 65  QQLEAPYNSDTVLVHRVHSYLERHGLINF 93

>d1xc5a1 a.4.1.3 (A:413-480) Nuclear receptor corepressor 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 68

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Nuclear receptor corepressor 2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.8 bits (124), Expect = 2e-09
 Identities = 10/54 (18%), Positives = 25/54 (46%)

Query: 201 SDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHF 254
           +D  +V    +  + W+E+E     E  M    ++  +A  +  K+  +C+ ++
Sbjct: 5   ADPMKVYKDRQVMNMWSEQEKETFREKFMQHPKNFGLIASFLERKTVAECVLYY 58

>d2iw5b1 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: REST corepressor 1, CoREST
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.8 bits (119), Expect = 7e-09
 Identities = 11/48 (22%), Positives = 24/48 (50%)

Query: 210 EEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL 257
           ++  + WT +E L  ++AI  +G D++ ++  +  KS       F+  
Sbjct: 2   QKCNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVNY 49

>d1x41a1 a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, TADA2L, isoform b {Human (Homo sapiens) [TaxId: 9606]} Length = 47

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Transcriptional adaptor 2-like, TADA2L, isoform b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.0 bits (101), Expect = 1e-06
 Identities = 16/43 (37%), Positives = 28/43 (65%), Gaps = 1/43 (2%)

Query: 215 DWTEKETLQLLEAIMHFGD-DWRKVAQHVSGKSEKDCITHFIK 256
            WT +E + LLEA+M  G  +W+ VA  +  K++++C  H++K
Sbjct: 3   SWTAQEEMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHYMK 45

>d2cqra1 a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 60

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: DnaJ homolog subfamily C member 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.1 bits (101), Expect = 2e-06
 Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 4/57 (7%)

Query: 205 RVEISEEARSDWTEKETLQLLEAIMHFG----DDWRKVAQHVSGKSEKDCITHFIKL 257
           R E +  A   WT+ +   L  A+  +     D W K+A+ V  KS++DCI  +  L
Sbjct: 4   RKERARSAEEPWTQNQQKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARYKLL 60

>d2crga1 a.4.1.3 (A:8-64) Metastasis associated protein MTA3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 57

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Metastasis associated protein MTA3
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.5 bits (100), Expect = 3e-06
 Identities = 10/41 (24%), Positives = 19/41 (46%), Gaps = 1/41 (2%)

Query: 215 DWTEKETLQLLEAIMHFGDDWRKVAQH-VSGKSEKDCITHF 254
           +W+  E     EA+  +G D+  + Q  +  KS    I ++
Sbjct: 3   EWSASEACLFEEALEKYGKDFNDIRQDFLPWKSLTSIIEYY 43

>d2cu7a1 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: MYSM1 (KIAA1915)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.6 bits (100), Expect = 3e-06
 Identities = 7/41 (17%), Positives = 19/41 (46%)

Query: 216 WTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK 256
           WT +E     + +  FG  W K+++ +  ++     ++  +
Sbjct: 5   WTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQ 45

>d2cjja1 a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Antirrhinum majus) [TaxId: 4151]} Length = 63

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Radialis
species: Garden snapdragon (Antirrhinum majus) [TaxId: 4151]

 Score = 41.1 bits (96), Expect = 9e-06
 Identities = 12/48 (25%), Positives = 21/48 (43%), Gaps = 4/48 (8%)

Query: 214 SDWTEKETLQLLEAIMHFGDD----WRKVAQHVSGKSEKDCITHFIKL 257
             W+ KE      A+  +  D    W  VA+ V G++ ++   H+  L
Sbjct: 2   RPWSAKENKAFERALAVYDKDTPDRWANVARAVEGRTPEEVKKHYEIL 49

>d1guua_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 50

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.8 bits (88), Expect = 8e-05
 Identities = 10/45 (22%), Positives = 24/45 (53%), Gaps = 1/45 (2%)

Query: 213 RSDWTEKETLQLLEAIMHFGD-DWRKVAQHVSGKSEKDCITHFIK 256
           ++ WT +E  +L + +   G  DW+ +A ++  +++  C   + K
Sbjct: 1   KTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQK 45

>d1tota1 g.44.1.6 (A:1-52) CREB-binding protein, CBP {Mouse (Mus musculus) [TaxId: 10090]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: ZZ domain
domain: CREB-binding protein, CBP
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.7 bits (85), Expect = 2e-04
 Identities = 13/34 (38%), Positives = 15/34 (44%), Gaps = 4/34 (11%)

Query: 163 CNGCKTLCTIA--CFACDKYDLTLCARCYVRGNH 194
           CN CK        C  C+ YDL  C  CY   +H
Sbjct: 9   CNECKHHVETRWHCTVCEDYDL--CINCYNTKSH 40

>d1igna1 a.4.1.6 (A:360-445) DNA-binding domain of rap1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 86

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of rap1
domain: DNA-binding domain of rap1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 36.5 bits (84), Expect = 7e-04
 Identities = 5/48 (10%), Positives = 19/48 (39%), Gaps = 6/48 (12%)

Query: 213 RSDWTEKETLQLLEAIMHFGD------DWRKVAQHVSGKSEKDCITHF 254
           ++ +T++E   +L+ +            + +++ +V   +       F
Sbjct: 1   KASFTDEEDEFILDVVRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRF 48

>d1gv2a2 a.4.1.3 (A:144-190) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 47

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.8 bits (80), Expect = 9e-04
 Identities = 10/45 (22%), Positives = 24/45 (53%)

Query: 213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL 257
           ++ WTE+E   + +A    G+ W ++A+ + G+++     H+   
Sbjct: 1   KTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNST 45

>d1w0ta_ a.4.1.4 (A:) DNA-binding domain of human telomeric protein, hTRF1 {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of telomeric protein
domain: DNA-binding domain of human telomeric protein, hTRF1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.1 bits (78), Expect = 0.002
 Identities = 8/41 (19%), Positives = 17/41 (41%), Gaps = 3/41 (7%)

Query: 213 RSDWTEKETLQLLEAIMHFGD-DWRKVAQHV--SGKSEKDC 250
           R  W  +E   L   +  +G+ +W K+  H   + ++    
Sbjct: 2   RQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVML 42

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	466
d2fq3a1	85	Transcription regulatory protein swi3 {Baker's yea	100.0
d2dw4a1	102	Lysine-specific histone demethylase 1, LSD1 {Human	99.96
d1x41a1	47	Transcriptional adaptor 2-like, TADA2L, isoform b	99.47
d1gvda_	52	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	99.15
d1guua_	50	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	99.13
d2cu7a1	65	MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 960	99.1
d2cjja1	63	Radialis {Garden snapdragon (Antirrhinum majus) [T	99.08
d2cqra1	60	DnaJ homolog subfamily C member 1 {Human (Homo sap	99.08
d1gv2a2	47	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	99.03
d2iw5b1	65	REST corepressor 1, CoREST {Human (Homo sapiens) [	99.02
d1xc5a1	68	Nuclear receptor corepressor 2 {Human (Homo sapien	98.9
d1w0ua_	55	Telomeric repeat binding factor 2, TRF2 {Human (Ho	98.88
d1w0ta_	52	DNA-binding domain of human telomeric protein, hTR	98.87
d2crga1	57	Metastasis associated protein MTA3 {Mouse (Mus mus	98.7
d2ckxa1	83	Telomere binding protein TBP1 {Tobacco (Nicotiana	98.57
d1igna1	86	DNA-binding domain of rap1 {Baker's yeast (Sacchar	98.41
d2cqqa1	59	DnaJ homolog subfamily C member 1 {Human (Homo sap	98.22
d1ug2a_	95	2610100b20rik gene product {Mouse (Mus musculus) [	98.14
d1wgxa_	73	Hypothetical protein C14orf106 (KIAA1903) {Human (	97.77
d2cuja1	101	Transcriptional adaptor 2-like, TADA2L {Mouse (Mus	96.67
d1irza_	64	Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId	96.65
d1ofcx1	52	SANT domain of the nucleosome remodeling ATPase IS	96.58
d2fc7a1	69	Zinc finger ZZ-type-containing protein 3, ZZZ3 {Hu	95.13
d1x58a1	49	Hypothetical protein 4930532d21rik {Mouse (Mus mus	94.88
d1tota1	52	CREB-binding protein, CBP {Mouse (Mus musculus) [T	90.63
d2dipa1	85	Zinc finger ZZ-type-containing protein 2 {Human (H	88.77

>d2fq3a1 a.4.1.18 (A:311-395) Transcription regulatory protein swi3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: SWIRM domain
domain: Transcription regulatory protein swi3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.4e-36  Score=248.58  Aligned_cols=85  Identities=46%  Similarity=0.884  Sum_probs=83.8

Q ss_pred             CCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHhhccchHHHHHHHHHhhhhccc
Q 012334           46 SRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGL  125 (466)
Q Consensus        46 ~~wF~~~~ih~iE~~~lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r~~l~gDv~~i~Rvh~FLe~wGl  125 (466)
                      |+||++++||+||+++|||||++++++|||++|+.|||+||++|+.||.+|||+|+||+++.||++++.|||+||++||+
T Consensus         1 s~WF~~~~i~~iE~~~lPeff~~~~~~kt~~~Yl~iRN~Il~~w~~np~~~Lt~~~~~~~~~~d~~~~~ri~~FL~~~G~   80 (85)
T d2fq3a1           1 SKWFNLEKIHSIEVQSLPEFFTNRIPSKTPEVYMRYRNFMVNSYRLNPNEYFSVTTARRNVSGDAAALFRLHKFLTKWGL   80 (85)
T ss_dssp             CTTCCTTCCCHHHHHHCGGGCCSSCTTSCHHHHHHHHHHHHHHHHHCTTSCCCHHHHHHHSCSCHHHHHHHHHHHHHTTS
T ss_pred             CCCCCCCcCCHHHHHHCHHHhcCCCCCCCHHHHHHHHHHHHHHHHhCCCeeeeHHHHHhhccCCHHHHHHHHHHHHHcCc
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCC
Q 012334          126 INYFA  130 (466)
Q Consensus       126 INy~~  130 (466)
                      |||||
T Consensus        81 INf~v   85 (85)
T d2fq3a1          81 INYQV   85 (85)
T ss_dssp             SSSCC
T ss_pred             cCccC
Confidence            99997

>d2dw4a1 a.4.1.18 (A:172-273) Lysine-specific histone demethylase 1, LSD1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: SWIRM domain
domain: Lysine-specific histone demethylase 1, LSD1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=2.9e-31  Score=225.07  Aligned_cols=86  Identities=23%  Similarity=0.501  Sum_probs=82.8

Q ss_pred             CCCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHhhcc----chHHHHHHHHHh
Q 012334           44 SYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLV----GDVGSIRRVFDF  119 (466)
Q Consensus        44 s~~~wF~~~~ih~iE~~~lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r~~l~----gDv~~i~Rvh~F  119 (466)
                      ++++||++|+||++|+++|||||++  +++||++|+.|||+||++|+.||.+|||+|+|+++|.    ||++++.|||+|
T Consensus         7 A~~s~l~~d~l~~~E~~~fpe~~~~--~~~~~~~Yl~iRN~Il~~w~~np~~~Lt~~~~~~~l~~~~~~d~~li~ri~~F   84 (102)
T d2dw4a1           7 AFQSRLPHDRMTSQEAACFPDIISG--PQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAPYNSDTVLVHRVHSY   84 (102)
T ss_dssp             HHHTTCCTTSCCHHHHHHCHHHHTS--CHHHHHHHHHHHHHHHHHHHHCTTBCCCHHHHHHHSCTTGGGCHHHHHHHHHH
T ss_pred             HHHccCCCCcCCHHHHHHChHhhcC--CCCCHHHHHHHHHHHHHHHHhCCCeeeeHHHHHhhccccccccHHHHHHHHHH
Confidence            4679999999999999999999987  5789999999999999999999999999999999997    899999999999


Q ss_pred             hhhcccccCCCC
Q 012334          120 LETWGLINYFAS  131 (466)
Q Consensus       120 Le~wGlINy~~~  131 (466)
                      |++||+||||++
T Consensus        85 L~~~G~INfGv~   96 (102)
T d2dw4a1          85 LERHGLINFGIY   96 (102)
T ss_dssp             HHHTTSSSCSSC
T ss_pred             HHHcCceeeCcC
Confidence            999999999999

>d1x41a1 a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, TADA2L, isoform b {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Transcriptional adaptor 2-like, TADA2L, isoform b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.47  E-value=2.2e-14  Score=104.29  Aligned_cols=44  Identities=36%  Similarity=0.872  Sum_probs=41.9

Q ss_pred             CCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          214 SDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      .+||.+|+.+||++|++|| +||..||++||+||+.||+.||.++
T Consensus         2 ~~Wt~eEd~~L~~~v~~~G~~nW~~Ia~~~~~Rt~~Qcr~r~~~~   46 (47)
T d1x41a1           2 PSWTAQEEMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHYMKY   46 (47)
T ss_dssp             SSSCHHHHHHHHHHHHHTCTTCHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHHHCCccHHHHHHHcCCCCHHHHHHHHHHh
Confidence            4699999999999999999 8999999999999999999999874

>d1gvda_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.15  E-value=1.9e-11  Score=90.31  Aligned_cols=44  Identities=25%  Similarity=0.729  Sum_probs=42.2

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ++.||.+|+.+|+++|++|| ++|..||++|++||+.||..||..
T Consensus         3 rg~WT~eED~~L~~~v~~~g~~~W~~Ia~~l~~Rt~~qc~~Rw~~   47 (52)
T d1gvda_           3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHN   47 (52)
T ss_dssp             CCSCCHHHHHHHHHHHHHHCTTCHHHHHTTSTTCCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHh
Confidence            57899999999999999999 899999999999999999999986

>d1guua_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.13  E-value=2.2e-11  Score=89.10  Aligned_cols=43  Identities=26%  Similarity=0.633  Sum_probs=41.2

Q ss_pred             CCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          214 SDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ..||.+|+.+|+++|++|| ++|..||++|++||+.||..||.+
T Consensus         2 ~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~Rt~~qcr~Rw~~   45 (50)
T d1guua_           2 TRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQK   45 (50)
T ss_dssp             CCCCHHHHHHHHHHHHHHCSSCHHHHHHTSTTCCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHh
Confidence            5799999999999999999 899999999999999999999976

>d2cu7a1 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: MYSM1 (KIAA1915)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.10  E-value=4.1e-11  Score=91.87  Aligned_cols=43  Identities=16%  Similarity=0.397  Sum_probs=41.3

Q ss_pred             CCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          214 SDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ..||.+|+.+|+++|.+||.+|..||++|++||+.||..||.+
T Consensus         3 ~~WT~eEd~~l~~~~~~~G~~W~~Ia~~~~~Rt~~q~k~ry~~   45 (65)
T d2cu7a1           3 VKWTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQ   45 (65)
T ss_dssp             CCCCHHHHHHHHHHHHHTCSCHHHHHHHHSSSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhcchHHHHHHHcCCCCHHHHHHHHHH
Confidence            5799999999999999999999999999999999999999975

>d2cjja1 a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Antirrhinum majus) [TaxId: 4151]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Radialis
species: Garden snapdragon (Antirrhinum majus) [TaxId: 4151]

Probab=99.08  E-value=5.1e-11  Score=91.10  Aligned_cols=45  Identities=27%  Similarity=0.577  Sum_probs=41.2

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CC---HHHHHHHhCCCCHHHHHHHHhcC
Q 012334          213 RSDWTEKETLQLLEAIMHFG-DD---WRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg-~n---W~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      +..||.+|+.+|+++|.+|| ++   |.+||++|++||..||..||..|
T Consensus         1 G~~WT~eEd~~L~~~v~~~~~~~~~~W~~Ia~~l~gRt~~qc~~r~~~L   49 (63)
T d2cjja1           1 GRPWSAKENKAFERALAVYDKDTPDRWANVARAVEGRTPEEVKKHYEIL   49 (63)
T ss_dssp             CCSCCHHHHHHHHHHHHHSCTTCTTHHHHHHHHSTTCCHHHHHHHHHHH
T ss_pred             CcCCCHHHHHHHHHHHHHHCCCCchHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            35799999999999999999 43   99999999999999999999764

>d2cqra1 a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: DnaJ homolog subfamily C member 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.08  E-value=5.7e-11  Score=89.95  Aligned_cols=46  Identities=33%  Similarity=0.615  Sum_probs=42.2

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-C---CHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          212 ARSDWTEKETLQLLEAIMHFG-D---DWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg-~---nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ....||.+|+.+|+++|.+|| +   +|.+||++||+||..||+.||.+|
T Consensus        11 ~~~~WT~eEd~~L~~~v~~~~~~~~~~W~~IA~~l~~Rt~~qc~~R~~~L   60 (60)
T d2cqra1          11 AEEPWTQNQQKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARYKLL   60 (60)
T ss_dssp             SSCCCCHHHHHHHHHHHHHSCSSSHHHHHHHGGGCSSSCHHHHHHHHHHH
T ss_pred             CCCCcCHHHHHHHHHHHHHcCCccchHHHHHHHHcCCCCHHHHHHHHHHC
Confidence            457899999999999999999 3   599999999999999999999764

>d1gv2a2 a.4.1.3 (A:144-190) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.03  E-value=1e-10  Score=84.51  Aligned_cols=43  Identities=23%  Similarity=0.603  Sum_probs=41.5

Q ss_pred             CCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          214 SDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ..||.+|+.+||+.+++||.+|..||.++++||..+|..||..
T Consensus         2 ~~WT~eED~~L~~~v~~~G~~W~~Ia~~~~gRt~~~~knr~~~   44 (47)
T d1gv2a2           2 TSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNS   44 (47)
T ss_dssp             CCCCHHHHHHHHHHHHHHSSCHHHHHTTCTTCCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHhhHHHHHHhHcCCCCHHHHHHHHHH
Confidence            6899999999999999999999999999999999999999975

>d2iw5b1 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: REST corepressor 1, CoREST
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.02  E-value=1.6e-10  Score=88.72  Aligned_cols=45  Identities=24%  Similarity=0.536  Sum_probs=42.7

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ...||.+|..+|++++.+||.||..||++||+||..||+.+|..+
T Consensus         5 ~~~WT~eE~~~f~~~~~~~G~~w~~Ia~~~~~kt~~q~~~~y~~~   49 (65)
T d2iw5b1           5 NARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVNY   49 (65)
T ss_dssp             CSSCCHHHHHHHHHHHHHHSSCHHHHHHHHSSCCHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHHhCchHHHHHHHcCCCCHHHHHHHHHHH
Confidence            467999999999999999999999999999999999999999874

>d1xc5a1 a.4.1.3 (A:413-480) Nuclear receptor corepressor 2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Nuclear receptor corepressor 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.90  E-value=2.5e-10  Score=88.33  Aligned_cols=44  Identities=18%  Similarity=0.410  Sum_probs=41.8

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ...||.+|+.+|++++.+||.||..||++|++||..||+.||..
T Consensus        17 ~~~WT~eE~~~f~~~~~~~G~~w~~Ia~~~~~rt~~q~~~~yy~   60 (68)
T d1xc5a1          17 MNMWSEQEKETFREKFMQHPKNFGLIASFLERKTVAECVLYYYL   60 (68)
T ss_dssp             TTCCCTTTHHHHHHHHHHTTSCSSSHHHHTTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHCCcHHHHHHHcCCCCHHHHHHHHHH
Confidence            46799999999999999999999999999999999999999964

>d1w0ua_ a.4.1.4 (A:) Telomeric repeat binding factor 2, TRF2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of telomeric protein
domain: Telomeric repeat binding factor 2, TRF2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.88  E-value=9.5e-10  Score=81.80  Aligned_cols=43  Identities=12%  Similarity=0.387  Sum_probs=39.9

Q ss_pred             CCCCHHHHHHHHHHHHHhC-CCHHHHHHHh--CCCCHHHHHHHHhc
Q 012334          214 SDWTEKETLQLLEAIMHFG-DDWRKVAQHV--SGKSEKDCITHFIK  256 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg-~nW~~IA~~V--gtKT~~eCi~hflq  256 (466)
                      ..||.+|+.+|+++|++|| ++|..||+++  ++||+.||..+|-.
T Consensus         3 ~~WT~eEd~~L~~~V~~~G~~~W~~I~~~~~~~~Rt~~q~k~Rwrn   48 (55)
T d1w0ua_           3 QKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRT   48 (55)
T ss_dssp             CCCCHHHHHHHHHHHHHHCTTCHHHHHHHSCCSSCCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhCCChHHHHHhhcCCCCcCHHHHHHHHHH
Confidence            5799999999999999999 8999999995  48999999999975

>d1w0ta_ a.4.1.4 (A:) DNA-binding domain of human telomeric protein, hTRF1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of telomeric protein
domain: DNA-binding domain of human telomeric protein, hTRF1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.87  E-value=1.2e-09  Score=80.42  Aligned_cols=45  Identities=18%  Similarity=0.437  Sum_probs=40.7

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC--CCCHHHHHHHHhcC
Q 012334          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVS--GKSEKDCITHFIKL  257 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg-~nW~~IA~~Vg--tKT~~eCi~hflqL  257 (466)
                      ...||.+|+.+|+++|++|| ++|..|+++.+  +||..||..+|..|
T Consensus         2 r~~WT~eED~~L~~~v~~~G~~~W~~I~~~~~~~~Rt~~q~r~Rw~nl   49 (52)
T d1w0ta_           2 RQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRWRTM   49 (52)
T ss_dssp             CCCCCHHHHHHHHHHHHHHCTTCHHHHHHHSCCSSCCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCCHHHHHhhcCCCCCCHHHHHHHHHHH
Confidence            35899999999999999999 89999999854  79999999999763

>d2crga1 a.4.1.3 (A:8-64) Metastasis associated protein MTA3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Metastasis associated protein MTA3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.70  E-value=9.1e-09  Score=76.97  Aligned_cols=43  Identities=23%  Similarity=0.453  Sum_probs=40.1

Q ss_pred             CCCCHHHHHHHHHHHHHhCCCHHHHHHH-hCCCCHHHHHHHHhc
Q 012334          214 SDWTEKETLQLLEAIMHFGDDWRKVAQH-VSGKSEKDCITHFIK  256 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg~nW~~IA~~-VgtKT~~eCi~hflq  256 (466)
                      +.||++|..++++|+.+||.||..|+++ |++||..||+.+|-.
T Consensus         2 d~WT~eE~~~F~~~~~~yGKdf~~I~~~~v~~Ks~~~~v~fYY~   45 (57)
T d2crga1           2 EEWSASEACLFEEALEKYGKDFNDIRQDFLPWKSLTSIIEYYYM   45 (57)
T ss_dssp             CCCCHHHHHHHHHHHHHTCSCHHHHHHTTCSSSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHcccHHHHHHHHcCCCCHHHHHHHHHH
Confidence            4799999999999999999999999986 689999999999954

>d2ckxa1 a.4.1.3 (A:578-660) Telomere binding protein TBP1 {Tobacco (Nicotiana tabacum) [TaxId: 4097]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Telomere binding protein TBP1
species: Tobacco (Nicotiana tabacum) [TaxId: 4097]

Probab=98.57  E-value=2.6e-08  Score=79.75  Aligned_cols=43  Identities=23%  Similarity=0.421  Sum_probs=39.5

Q ss_pred             CCCCHHHHHHHHHHHHHhC-CCHHHHHHHh----CCCCHHHHHHHHhc
Q 012334          214 SDWTEKETLQLLEAIMHFG-DDWRKVAQHV----SGKSEKDCITHFIK  256 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg-~nW~~IA~~V----gtKT~~eCi~hflq  256 (466)
                      ..||.+|+..|++||++|| ++|..|++++    .+||..||..+|..
T Consensus         1 r~WT~eEd~~L~~~V~~~G~~~W~~I~~~~~~~~~~Rt~~qck~RWrn   48 (83)
T d2ckxa1           1 RPFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKT   48 (83)
T ss_dssp             CCCCHHHHHHHHHHHHHHCSSCHHHHHHHHCTTCTTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHCcccHHHHHHHHHhhccCCCHHHHHHHHHH
Confidence            3799999999999999999 7999999984    56999999999976

>d1igna1 a.4.1.6 (A:360-445) DNA-binding domain of rap1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of rap1
domain: DNA-binding domain of rap1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.41  E-value=7e-08  Score=77.89  Aligned_cols=43  Identities=12%  Similarity=0.214  Sum_probs=40.4

Q ss_pred             CCCCHHHHHHHHHHHHHhCC------CHHHHHHHhCCCCHHHHHHHHhc
Q 012334          214 SDWTEKETLQLLEAIMHFGD------DWRKVAQHVSGKSEKDCITHFIK  256 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg~------nW~~IA~~VgtKT~~eCi~hflq  256 (466)
                      ..||.+|+.+|++.|.+||.      +|..||++|++||..||..||..
T Consensus         2 ~~WT~eED~~L~~~v~~~g~~~~~~~~W~~IA~~lpgRt~~qcr~Rw~~   50 (86)
T d1igna1           2 ASFTDEEDEFILDVVRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRFRV   50 (86)
T ss_dssp             CCCCHHHHHHHHHHHHTSGGGTTCSHHHHHHTTTSTTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhCcCcCCccCHHHHHHHcCCCCHHHHHHHHHH
Confidence            57999999999999999983      49999999999999999999986

>d2cqqa1 a.4.1.3 (A:8-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: DnaJ homolog subfamily C member 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.22  E-value=5.4e-07  Score=67.62  Aligned_cols=43  Identities=33%  Similarity=0.662  Sum_probs=39.1

Q ss_pred             CCCCHHHHHHHHHHHHHhC----CCHHHHHHHhCCCCHHHHHHHHhcC
Q 012334          214 SDWTEKETLQLLEAIMHFG----DDWRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg----~nW~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ..||.+|..+|-.|+.+|.    +.|+.||++| +||.+||+.||-.|
T Consensus         2 ~eWT~ee~~~le~Al~~~P~gt~~RW~~IA~~v-gkt~~ev~~~~k~l   48 (59)
T d2cqqa1           2 PEWTEEDLSQLTRSMVKFPGGTPGRWEKIAHEL-GRSVTDVTTKAKQL   48 (59)
T ss_dssp             CCCCHHHHHHHHHHHHHSCTTCTTHHHHHHHHH-TSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCcHHHHHHHHHH-CCCHHHHHHHHHHH
Confidence            5799999999999999998    4599999999 49999999999663

>d1ug2a_ a.4.1.3 (A:) 2610100b20rik gene product {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: 2610100b20rik gene product
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.14  E-value=1.7e-06  Score=70.48  Aligned_cols=46  Identities=17%  Similarity=0.306  Sum_probs=42.3

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCC---HHHHHHHhCCCCHHHHHHHHhcC
Q 012334          212 ARSDWTEKETLQLLEAIMHFGDD---WRKVAQHVSGKSEKDCITHFIKL  257 (466)
Q Consensus       212 ~~~~WT~~E~l~LLEaIe~yg~n---W~~IA~~VgtKT~~eCi~hflqL  257 (466)
                      ....||.+|+..||+.++++|..   |..||+.+++||+.||..||.+|
T Consensus        32 ~~~~WTrEEDriIL~~~q~~G~~~~tw~~Ia~~L~~Rs~~qvr~Rf~~L   80 (95)
T d1ug2a_          32 KVVLWTREADRVILTMCQEQGAQPHTFSVISQQLGNKTPVEVSHRFREL   80 (95)
T ss_dssp             CCSSSCHHHHHHHHHHHHHTTSCTTTHHHHHHHHSSCCHHHHHHHHHHH
T ss_pred             ccCCcCHHHHHHHHHHHHHcCCcHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            34679999999999999999966   99999999999999999999874

>d1wgxa_ a.4.1.3 (A:) Hypothetical protein C14orf106 (KIAA1903) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Hypothetical protein C14orf106 (KIAA1903)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.77  E-value=1.7e-05  Score=60.57  Aligned_cols=49  Identities=29%  Similarity=0.576  Sum_probs=43.6

Q ss_pred             CCCCCHHHHHHHHHHHHHhC----CCHHHHHHHhCCCCHHHHHHHHhcCCCCC
Q 012334          213 RSDWTEKETLQLLEAIMHFG----DDWRKVAQHVSGKSEKDCITHFIKLPFGQ  261 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg----~nW~~IA~~VgtKT~~eCi~hflqLPIeD  261 (466)
                      +..|+.+|.++|=.|+....    |=|.+||..||+||.+||..+|..-|=+.
T Consensus         8 d~~W~e~ELqkLh~A~~SlPkh~~gfW~~VA~~VGtRSaeECQ~ky~~~~~~~   60 (73)
T d1wgxa_           8 DKEWNEKELQKLHCAFASLPKHKPGFWSEVAAAVGSRSPEECQRKYMENPRGK   60 (73)
T ss_dssp             SSCCCHHHHHHHHHHHHHSCSSSSSHHHHHHHHTTTSCHHHHHHHHHHSSSSS
T ss_pred             ccccCHHHHHHHHHHHHhcCCCCCccHHHHHHHHccCCHHHHHHHHHhCcccc
Confidence            46899999999999998877    77999999999999999999998865443

>d2cuja1 a.4.1.18 (A:8-108) Transcriptional adaptor 2-like, TADA2L {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: SWIRM domain
domain: Transcriptional adaptor 2-like, TADA2L
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.67  E-value=0.0077  Score=48.97  Aligned_cols=70  Identities=20%  Similarity=0.362  Sum_probs=60.5

Q ss_pred             CCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHhhccchHHHHHHHHHhhhhccccc
Q 012334           50 SFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLIN  127 (466)
Q Consensus        50 ~~~~ih~iE~~~lpeff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLt~t~~r~~l~gDv~~i~Rvh~FLe~wGlIN  127 (466)
                      ..+-+|+-|++..-..=      =.|..|+.+.+.||.-+..+  ..++.++||+.+..|++-..||++||.+.|.||
T Consensus        30 ~~~lLs~~E~~LC~~lr------L~P~~YL~~K~~l~~E~~k~--g~l~k~da~~~~kiD~~K~~rIydfl~~~GWi~   99 (101)
T d2cuja1          30 GTEKLNEKEKELCQVVR------LVPGAYLEYKSALLNECHKQ--GGLRLAQARALIKIDVNKTRKIYDFLIREGYIT   99 (101)
T ss_dssp             TTTTSCHHHHHHHHHTT------CCHHHHHHHHHHHHHHHHHS--SCCCHHHHHHHHTSCHHHHHHHHHHHHTTTSSC
T ss_pred             ChhhcCHHHHHHHHHhC------CChHHHHHHHHHHHHHHHHc--CCCcHHHHHHHhcccHHHHHHHHHHHHHccCcc
Confidence            46889999998765432      35999999999999888774  469999999988999999999999999999998

>d1irza_ a.4.1.11 (A:) Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: GARP response regulators
domain: Arr10-B
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=96.65  E-value=0.0013  Score=49.57  Aligned_cols=44  Identities=23%  Similarity=0.426  Sum_probs=37.2

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCH---HHHHHHhC--CCCHHHHHHHHhc
Q 012334          213 RSDWTEKETLQLLEAIMHFGDDW---RKVAQHVS--GKSEKDCITHFIK  256 (466)
Q Consensus       213 ~~~WT~~E~l~LLEaIe~yg~nW---~~IA~~Vg--tKT~~eCi~hflq  256 (466)
                      .-.||.+|-.++++||+.||++|   ..|.++++  +.|.+++..|.-.
T Consensus         7 R~~WT~elH~~Fv~Av~~lG~~~atpk~I~~~m~v~~lT~~qV~SHlQK   55 (64)
T d1irza_           7 RVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQK   55 (64)
T ss_dssp             SCSSCHHHHHHHHHHHHHHCTTTCCHHHHHHHHCCTTCCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHhCccccchHHHHHHcCCCCCCHHHHHHHHHH
Confidence            35799999999999999999776   68999976  4699999888543

>d1ofcx1 a.4.1.3 (X:799-850) SANT domain of the nucleosome remodeling ATPase ISWI {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: SANT domain of the nucleosome remodeling ATPase ISWI
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.58  E-value=0.0012  Score=47.64  Aligned_cols=40  Identities=28%  Similarity=0.629  Sum_probs=36.3

Q ss_pred             CCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHh
Q 012334          215 DWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFI  255 (466)
Q Consensus       215 ~WT~~E~l~LLEaIe~yg-~nW~~IA~~VgtKT~~eCi~hfl  255 (466)
                      .|+..|-..++.|.++|| +|-..||.+|.+||++| +..|.
T Consensus         1 ~WnrrdF~~Fi~a~ekyGR~d~~~Ia~e~~~Kt~eE-V~~Y~   41 (52)
T d1ofcx1           1 AWTKRDFNQFIKANEKYGRDDIDNIAKDVEGKTPEE-VIEYN   41 (52)
T ss_dssp             TCCHHHHHHHHHHHHHHCTTCHHHHTTSSTTCCHHH-HHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhhHHHHHHHhcCCCHHH-HHHHH
Confidence            499999999999999999 89999999999999999 44444

>d2fc7a1 g.44.1.6 (A:8-76) Zinc finger ZZ-type-containing protein 3, ZZZ3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: ZZ domain
domain: Zinc finger ZZ-type-containing protein 3, ZZZ3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.13  E-value=0.007  Score=45.85  Aligned_cols=48  Identities=13%  Similarity=0.283  Sum_probs=33.6

Q ss_pred             ccccccCCCCc-cccccccccC----CCcccchhhhccCCCCC-CCCCCCceec
Q 012334          159 SKRLCNGCKTL-CTIACFACDK----YDLTLCARCYVRGNHRV-GVSSSDFRRV  206 (466)
Q Consensus       159 ~k~~C~~C~~~-~~~~~~~c~k----~d~~lC~~Cf~~G~~~~-~~~s~dF~~~  206 (466)
                      ..+.|++|+.. +.-.+|.|..    .|++||..||..+.... +...|.+..+
T Consensus        13 ~~~~Cd~C~~~pi~G~R~~C~~Cp~~~d~DLC~~C~~~~~~~~~H~~~H~~~~I   66 (69)
T d2fc7a1          13 VGFKCDNCGIEPIQGVRWHCQDCPPEMSLDFCDSCSDCLHETDIHKEDHQLEPI   66 (69)
T ss_dssp             SSCCCSSSCCSSEESCEEEESSSCSSSCCEEEGGGTTCCCCCSSCCSSSCEEEE
T ss_pred             CCeEcCCCCCcCcCCcccCCCCCCCCCCccchHHhhcCcccCCCCCCCCCEEEe
Confidence            34689999987 3434555543    37999999999987643 4467777665

>d1x58a1 a.4.1.1 (A:8-56) Hypothetical protein 4930532d21rik {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Hypothetical protein 4930532d21rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.88  E-value=0.013  Score=40.64  Aligned_cols=43  Identities=19%  Similarity=0.475  Sum_probs=33.7

Q ss_pred             CCCCHHHHHHHHHHHHHhCCCHHHHHHHhC---CCCHHHHHHHHhc
Q 012334          214 SDWTEKETLQLLEAIMHFGDDWRKVAQHVS---GKSEKDCITHFIK  256 (466)
Q Consensus       214 ~~WT~~E~l~LLEaIe~yg~nW~~IA~~Vg---tKT~~eCi~hflq  256 (466)
                      .+||++|...|+.||.+||..|+.|-=...   +|+.-.--.+|.+
T Consensus         2 knft~eEv~YL~~GVK~~G~~WNsILWs~PF~~GR~~vdLA~Ky~~   47 (49)
T d1x58a1           2 KDFTKEEVNYLFHGVKTMGNHWNSILWSFPFQKGRRAVDLAHKYHR   47 (49)
T ss_dssp             SSCCHHHHHHHHHHHHHHCSCHHHHHHHSCCCTTCCHHHHHHHHHH
T ss_pred             CcccHHHHHHHHHHHHHhcchhhhhhhccCCCCCchhhHHHHHHHh
Confidence            579999999999999999999999965553   3665555555543

>d1tota1 g.44.1.6 (A:1-52) CREB-binding protein, CBP {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: ZZ domain
domain: CREB-binding protein, CBP
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.63  E-value=0.036  Score=39.66  Aligned_cols=41  Identities=27%  Similarity=0.602  Sum_probs=29.8

Q ss_pred             ccccCCCCccccccccccC-CCcccchhhhccCCCCCCCCCCCceecc
Q 012334          161 RLCNGCKTLCTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFRRVE  207 (466)
Q Consensus       161 ~~C~~C~~~~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~~s~dF~~~~  207 (466)
                      +.|++|+..++. +|.|.. .|++||..||..+.+     .|.++++.
T Consensus         7 ~tCd~C~~~i~~-Ry~C~~C~DfDLC~~C~~~~~H-----~H~m~k~~   48 (52)
T d1tota1           7 YTCNECKHHVET-RWHCTVCEDYDLCINCYNTKSH-----THKMVKWG   48 (52)
T ss_dssp             EEETTTTEEESS-EEEESSSSSCEECHHHHHHHCC-----CSSEEEEC
T ss_pred             EECcCCCCcCCC-ceECCCCCCcccHHHHhcCCCc-----CCCeEEec
Confidence            469999987754 455542 478899999998865     36677664

>d2dipa1 g.44.1.6 (A:8-92) Zinc finger ZZ-type-containing protein 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: ZZ domain
domain: Zinc finger ZZ-type-containing protein 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.77  E-value=0.07  Score=41.75  Aligned_cols=42  Identities=29%  Similarity=0.667  Sum_probs=28.8

Q ss_pred             cccccCCCCc-cccccccccC-CCcccchhhhccCCCCCCCCCCCcee
Q 012334          160 KRLCNGCKTL-CTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFRR  205 (466)
Q Consensus       160 k~~C~~C~~~-~~~~~~~c~k-~d~~lC~~Cf~~G~~~~~~~s~dF~~  205 (466)
                      ...|++|+.. +.-.+|.|.. .|++||..||..+..    ..|.|..
T Consensus        24 ~v~Cd~C~~~~i~G~Ry~C~~C~dyDLC~~C~~~~~h----~~H~f~~   67 (85)
T d2dipa1          24 GIPCNNCKQFPIEGKCYKCTECIEYHLCQECFDSYCH----LSHTFTF   67 (85)
T ss_dssp             CCCCSSSCCSSCCSCEEEESSSSSCEEEHHHHHTTSG----GGSCEEE
T ss_pred             CeECCCCCCCCcCcceEEcCCCCCccchHHHHCcCCC----CCCCcce
Confidence            3579999875 4445566653 478899999986543    4566754