Citrus Sinensis ID: 019767

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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------
Protein Sequence
MAAKSPVKEPPGTSAVNPTTPLAPPPVKPELPSSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKTLKWEDKETKSSAASAESSSALKETSKRLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQLSCRLWLVSRLLKLLLEQL
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccEEccccccccccccccHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHcccccEEHHHHHHHccccHHHHHHHHHHHHHccccccccccccccccccccccccccccccHHHHHccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccHHHHHHHHccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHcccHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccccccccEEEEcccccHcccccHHHHHHHHcHHHHccccccccHHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHHHHHHHHHHHHHHEEEEEEEEEEccccEEEEEEEEEEHHHHHHHHcccccccccccccccccccHHHcccccHHHHcHHHHccccccccccccHcEcccccccccccccHHHHHHHHHHHHHHcccHHHHHHHHccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
maakspvkeppgtsavnpttplapppvkpelpsssepdvvnvpsysrwfsfdsisecevkflpeffdsrspsknprvyrYYRDSIVKHyrenpsrkitftDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKtlkwedketkssaasaesSSALKETSKRLCNGCktlctiacfacdkydltlcarcyvrgnhrvgvsssdfrrveiseearsdwtEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFiklpfgqefickesdsedvdnkffsinnpsdavsesenvgatspskrmrltpladasnpIMAQLSCRLWLVSRLLKLLLEQL
Flexible Loop (DISEMBL)
maakspvkeppgtsavnpttplapPPVKPELPSSSEPDVVNVPSYSRWFSFDSISECEVKFLpeffdsrspsknprvYRYYRDSivkhyrenpsrkitftdvrrtlvgdvgSIRRVFDFLETWGLINYFASVKTLKWEDKETkssaasaesssalkETSKRLCNGCKTLCTIACFACDKYDLTLCARCYVRgnhrvgvsssdfrrveiseearsdwtekeTLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSinnpsdavsesenvgatspskrmrltpLADASNPIMAQLSCRLWLVSRLLKLLLEQL
Low Complexity Region (SEG)
MAAKSPVKEPPGTSavnpttplapppvkpelpsssepDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKTLKWedketkssaasaesssalketskRLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQLSCRlwlvsrllkllleql
Disordered region (IsUnstruct)
***************************************VNVPSYSRWFSFDSISECEVKFLPEFFD*******PRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKTLKW***********************RLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEI******DWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICK**********************************************PIMAQLSCRLWLVSRLLKLLL***
Disordered Region (DISOPRED)
***************************************VNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKTLKWEDKETK**************TSKRLCNGCKTLCTIACFACDKYDLTLCARCYVRG********SDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFI*************************************************IMAQLSCRLWLVSRLLKLLLEQL
Disordered Region (DISEMBL)
****************NPTTPLAP**************VVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKTLKW*********************SKRLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSD**************KRMRLTPLADASNPIMAQLSCRLWLVSRLLKLLLEQL
Disordered Region (DISPRO)
*******************************PSSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKTLKWEDKETKSSAASAESSSALKETSKRLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFIC*******************************SPSKRMRLTPLADASNPIMAQLSCRLWLVSRLLKLLLEQL
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAAKSPVKEPPGTSAVNPTTPLAPPPVKPELPSSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKTLKWEDKETKSSAASAESSSALKETSKRLCNGCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQLSCRLWLVSRLLKLLLEQL
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	336	2.2.26 [Sep-21-2011]
Q84JG2	469	SWI/SNF complex subunit S	yes	no	0.934	0.669	0.592	1e-108
Q8W475	512	SWI/SNF complex subunit S	no	no	0.833	0.546	0.297	6e-33
O14470	503	SWI/SNF and RSC complexes	yes	no	0.648	0.433	0.309	1e-31
Q9XI07	807	SWI/SNF complex subunit S	no	no	0.705	0.293	0.303	2e-30
P32591	825	SWI/SNF complex subunit S	yes	no	0.821	0.334	0.276	7e-29
P43609	557	Chromatin structure-remod	no	no	0.669	0.403	0.298	2e-27
Q6PDG5	1213	SWI/SNF complex subunit S	yes	no	0.639	0.177	0.336	4e-26
Q8TAQ2	1214	SWI/SNF complex subunit S	yes	no	0.639	0.177	0.336	4e-26
P97496	1104	SWI/SNF complex subunit S	no	no	0.651	0.198	0.32	1e-22
Q92922	1105	SWI/SNF complex subunit S	no	no	0.651	0.198	0.32	3e-22

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

 Score =  391 bits (1004), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 196/331 (59%), Positives = 253/331 (76%), Gaps = 17/331 (5%)

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 VSESENVGATSPSKRMRLTPLADASNPIMAQ 317
            SE  +   +SP+KR++LTPLADASNPIMAQ
Sbjct: 298 ESEGIDKDGSSPNKRIKLTPLADASNPIMAQ 328

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

 Score =  141 bits (356), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 103/346 (29%), Positives = 164/346 (47%), Gaps = 66/346 (19%)

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 ---------SDAVSESENVGATSPSKRMRLTPLADASNPIMAQLSC 320
                     D V+E E      P+KR R+  +++  + +M Q++ 
Sbjct: 305 EETETREEKEDRVNEDE-----PPAKRKRVALISEGDSSLMKQVAA 345

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

 Score =  137 bits (345), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 86/278 (30%), Positives = 129/278 (46%), Gaps = 60/278 (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 LQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPF 259
           L LLEAI  +GDDW ++A HV  ++++ C+ HF+++P 
Sbjct: 256 LLLLEAIETYGDDWNQIALHVGSRTKEQCLIHFLQIPI 293

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

 Score =  133 bits (335), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 88/290 (30%), Positives = 141/290 (48%), Gaps = 53/290 (18%)

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-DVGSIRRVFDFLETWGLINYFASVKTLKW- 137
            +R++IV  Y ENP + +T +D +  + G D+    RVF FL+ WG+INY A+ ++    
Sbjct: 216 EFRNAIVSKYVENPEKTLTISDCQGLVDGVDIEDFARVFRFLDHWGIINYCATAQSHPGP 275

Query: 138 --------EDKETKSSAASAESSS------------------------ALKETSKRL--- 162
                   ED   + +  SA  +S                        +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 SEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLP 258
            ++   +WT++ETL LLEA+  + ++W ++A HV  KS+  CI HF++LP
Sbjct: 396 GDQDGDNWTDQETLLLLEAVELYNENWVQIADHVGSKSKAQCILHFLRLP 445

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 =  128 bits (321), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 95/343 (27%), Positives = 152/343 (44%), Gaps = 67/343 (19%)

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  RENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKTLKWE-------DKET 142
           R NP+   + T  RR + GD  ++ R+  FL  WGLINY    K L             T
Sbjct: 355 RLNPNEYFSVTTARRNVSGDAAALFRLHKFLTKWGLINYQVDSKLLPKNIEPPLTSQYST 414

Query: 143 KSSA-------ASAESSSALKETS--KRLCNGCKTLCTIACFACD---KYDLTLCARCYV 190
           +  A        S + S  L + +  K++ N   +  T+  +  +   KYD         
Sbjct: 415 RHDAPRGLFPFESYKPSVQLPDMAKLKKMMNTSDSESTLYKYLKESKRKYDEITHPPSTT 474

Query: 191 ------------RGNHRVGVSSS---DFRRVEISEEAR------------SDWTEKETLQ 223
                       + N+ V  S+S   D   +E  E +R             +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 SDAVSESENVGATSPSKRMRLTPLADASNPIMAQLSCRLWLVS 326
            D   + +N     P K     P + + NP+++ ++  + LV+
Sbjct: 577 GDGNGKGDNDNGLGPLKYAPHLPFSKSENPVLSTIAFLVGLVN 619

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

 Score =  123 bits (308), Expect = 2e-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 CNGCKTL-CTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEIS-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|Q6PDG5|SMRC2_MOUSE SWI/SNF complex subunit SMARCC2 OS=Mus musculus GN=Smarcc2 PE=1 SV=2

 Score =  119 bits (297), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 78/232 (33%), Positives = 117/232 (50%), Gaps = 17/232 (7%)

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 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFI 264
             +WTE+ETL LLEA+  + DDW KV++HV  +++ +CI HF++LP    ++
Sbjct: 598 TREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLRLPIEDPYL 649

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

 Score =  119 bits (297), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 78/232 (33%), Positives = 117/232 (50%), Gaps = 17/232 (7%)

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 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFI 264
             +WTE+ETL LLEA+  + DDW KV++HV  +++ +CI HF++LP    ++
Sbjct: 598 TREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLRLPIEDPYL 649

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

 Score =  107 bits (267), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 72/225 (32%), Positives = 113/225 (50%), Gaps = 6/225 (2%)

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 ETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFI 264
           ETL LLEA+  + DDW KV++HV  +++ +CI HF++LP    ++
Sbjct: 626 ETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLRLPIEDPYL 670

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 =  106 bits (264), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 72/225 (32%), Positives = 113/225 (50%), Gaps = 6/225 (2%)

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 ETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFI 264
           ETL LLEA+  + DDW KV++HV  +++ +CI HF++LP    ++
Sbjct: 627 ETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLRLPIEDPYL 671

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	336
225457648	492	PREDICTED: SWI/SNF complex subunit SWI3B	0.940	0.642	0.599	1e-118
449455734	493	PREDICTED: SWI/SNF complex subunit SWI3B	0.922	0.628	0.598	1e-112
449485249	555	PREDICTED: SWI/SNF complex subunit SWI3B	0.919	0.556	0.596	1e-112
224061835	500	chromatin remodeling complex subunit [Po	0.922	0.62	0.606	1e-112
356517915	491	PREDICTED: SWI/SNF complex subunit SWI3B	0.869	0.594	0.655	1e-111
356508475	484	PREDICTED: SWI/SNF complex subunit SWI3B	0.851	0.590	0.65	1e-108
30685774	469	SWI/SNF complex subunit SWI3B [Arabidops	0.934	0.669	0.592	1e-106
2459441	432	putative SWI/SNF complex subunit SW13 [A	0.934	0.726	0.592	1e-106
297823155	468	ATSWI3B [Arabidopsis lyrata subsp. lyrat	0.934	0.670	0.587	1e-105
255576209	482	DNA binding protein, putative [Ricinus c	0.848	0.591	0.611	1e-103

>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 =  431 bits (1109), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 205/342 (59%), Positives = 261/342 (76%), Gaps = 26/342 (7%)

Query: 1   MAAKSPVKEPPGTSAVNPT-----TPLAPPPVKPELP-------------SSSEPDVVNV 42
           MAA+SP+K+P G S    T     +    P VK E+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 KFFSINNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQ 317
           KF    + SDA    EN+G +S SK+MRLTPL+DASNPIMAQ
Sbjct: 300 KFSQAKDQSDAGFGQENIGTSSASKKMRLTPLSDASNPIMAQ 341

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  411 bits (1057), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 194/324 (59%), Positives = 255/324 (78%), Gaps = 14/324 (4%)

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 RKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDAVS--ESENV 293
           +KVAQHV G++E++C+  F+KLP G++F     DSE +DN     +  S  ++   +  +
Sbjct: 274 KKVAQHVGGRTERECVAQFVKLPLGEQF-HGYPDSEHIDNNCTVKDEASANLTLESTGKI 332

Query: 294 GATSPSKRMRLTPLADASNPIMAQ 317
           G + P+KR+RL+PLADASNPIMAQ
Sbjct: 333 GTSIPNKRIRLSPLADASNPIMAQ 356

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 =  410 bits (1054), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 194/325 (59%), Positives = 257/325 (79%), Gaps = 16/325 (4%)

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 KKVAQHVGGRTERECVAQFVKLPLGEQF-HGYPDSEHIDNN-CTVKDEASANLMLESTGK 393

Query: 293 VGATSPSKRMRLTPLADASNPIMAQ 317
           +G + P+KR+RL+PLADASNPIMAQ
Sbjct: 394 IGTSIPNKRIRLSPLADASNPIMAQ 418

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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 =  409 bits (1052), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 211/348 (60%), Positives = 258/348 (74%), Gaps = 38/348 (10%)

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 SEDVDNKFFSINNPSDAVSESENVGATSPSKRMRLTPLADASNPIMAQ 317
             DVD+K+  I +  D  S     G+ S SK++RL+PL DASNPIMAQ
Sbjct: 294 VGDVDSKYNQIKDCDDDESGRNGNGSPSTSKKIRLSPLVDASNPIMAQ 341

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  407 bits (1045), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 204/311 (65%), Positives = 246/311 (79%), Gaps = 19/311 (6%)

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 LADASNPIMAQ 317
           LADASNPIMAQ
Sbjct: 328 LADASNPIMAQ 338

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 =  396 bits (1018), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 195/300 (65%), Positives = 241/300 (80%), Gaps = 14/300 (4%)

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

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 =  391 bits (1004), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 196/331 (59%), Positives = 253/331 (76%), Gaps = 17/331 (5%)

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 VSESENVGATSPSKRMRLTPLADASNPIMAQ 317
            SE  +   +SP+KR++LTPLADASNPIMAQ
Sbjct: 298 ESEGIDKDGSSPNKRIKLTPLADASNPIMAQ 328

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|2459441|gb|AAB80676.1| putative SWI/SNF complex subunit SW13 [Arabidopsis thaliana]

 Score =  390 bits (1003), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 196/331 (59%), Positives = 253/331 (76%), Gaps = 17/331 (5%)

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 VSESENVGATSPSKRMRLTPLADASNPIMAQ 317
            SE  +   +SP+KR++LTPLADASNPIMAQ
Sbjct: 298 ESEGIDKDGSSPNKRIKLTPLADASNPIMAQ 328

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 =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 194/330 (58%), Positives = 248/330 (75%), Gaps = 16/330 (4%)

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 SESENVGATSPSKRMRLTPLADASNPIMAQ 317
           SE  +   +SP+KRM+LTPLADASNPIMAQ
Sbjct: 298 SEGIDKDCSSPNKRMKLTPLADASNPIMAQ 327

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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 =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 194/317 (61%), Positives = 245/317 (77%), Gaps = 32/317 (10%)

Query: 10  PPGTSAVNPTTPLAPPPVKPELPSSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSR 69
           PP T   N  TP  PPP       SS+ DVV++PSYSRWFS++SI ECEV+FLP+FFDSR
Sbjct: 43  PPST---NNVTPRPPPP-------SSDADVVHIPSYSRWFSWNSIHECEVRFLPDFFDSR 92

Query: 70  SPSKNPRVYRYYRDSIVKHYRE-NPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLINY 128
           SPSKNPRVY+YYR+SI+K +R+ NPS 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 RMRLTPLADASNPIMAQ 317
           +MRLTPLADASNPIM Q
Sbjct: 320 KMRLTPLADASNPIMGQ 336

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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	336
TAIR|locus:2051028	469	SWI3B "switch subunit 3" [Arab	0.824	0.590	0.604	4.5e-91
TAIR|locus:2043263	512	SWI3A "SWITCH/sucrose nonferme	0.285	0.187	0.458	7.4e-38
POMBASE|SPAC23H3.10	503	ssr2 "SWI/SNF and RSC complex	0.258	0.172	0.505	6.8e-35
DICTYBASE|DDB_G0277033	1223	swi3 "SWIRM domain-containing	0.264	0.072	0.539	3.3e-34
ZFIN|ZDB-GENE-080514-3	1089	smarcc1a "SWI/SNF related, mat	0.258	0.079	0.482	3.2e-32
UNIPROTKB|G4MV88	704	MGG_01720 "Transcription regul	0.258	0.123	0.540	5.2e-32
POMBASE|SPAC17G6.10	527	ssr1 "SWI/SNF and RSC complex	0.264	0.168	0.494	5.5e-32
SGD|S000003712	825	SWI3 "Subunit of the SWI/SNF c	0.279	0.113	0.468	9.6e-32
ASPGD|ASPL0000005061	681	AN6705 [Emericella nidulans (t	0.276	0.136	0.505	2.7e-31
CGD|CAL0003837	561	orf19.7234 [Candida albicans (	0.282	0.169	0.479	6.2e-31

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

 Score = 908 (324.7 bits), Expect = 4.5e-91, P = 4.5e-91
 Identities = 173/286 (60%), Positives = 217/286 (75%)

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--ATSPSKRMRLTPLADASNPIMAQ 317
                F  I + SD + ESE +    +SP+KR++LTPLADASNPIMAQ
Sbjct:   285 LEMFDQIKD-SD-IPESEGIDKDGSSPNKRIKLTPLADASNPIMAQ 328

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 = 7.4e-38, Sum P(2) = 7.4e-38
 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

POMBASE|SPAC23H3.10 ssr2 "SWI/SNF and RSC complex subunit Ssr2" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 230 (86.0 bits), Expect = 6.8e-35, Sum P(2) = 6.8e-35
 Identities = 44/87 (50%), Positives = 56/87 (64%)

Query:    42 VPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTD 101
             VPSY+ WF    I + E +  PEFF+ +SP K P +Y+ YRD ++  YR  P+  +T T 
Sbjct:    20 VPSYAGWFDMSKIHDIERRSNPEFFNGKSPLKTPSIYKDYRDFMINSYRLEPNEYLTVTA 79

Query:   102 VRRTLVGDVGSIRRVFDFLETWGLINY 128
              RR LVGDV +I RV  FLE WGLINY
Sbjct:    80 CRRNLVGDVCAIIRVHAFLEQWGLINY 106

GO:0000790 "nuclear chromatin" evidence=IC

GO:0003677 "DNA binding" evidence=ISM

GO:0005737 "cytoplasm" evidence=IDA

GO:0006338 "chromatin remodeling" evidence=NAS

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

GO:0008270 "zinc ion binding" evidence=IEA

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

GO:0016586 "RSC complex" evidence=IDA

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

 Score = 251 (93.4 bits), Expect = 3.3e-34, Sum P(2) = 3.3e-34
 Identities = 48/89 (53%), Positives = 58/89 (65%)

Query:    43 PSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDV 102
             PS   WF  + I E E   LPEFF  +SPSK P VY+ YRD ++  Y +NP + +T T +
Sbjct:   644 PSQCTWFKMERIHEVEKNQLPEFFTGKSPSKTPEVYKEYRDFMINTYLQNPYQYLTLTAI 703

Query:   103 RRTLVGDVGSIRRVFDFLETWGLINYFAS 131
             RR LVGDV SI RV  FLE WGLINYF +
Sbjct:   704 RRNLVGDVCSILRVHSFLEHWGLINYFVN 732

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-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 = 3.2e-32, Sum P(2) = 3.2e-32
 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|G4MV88 MGG_01720 "Transcription regulatory protein SWI3" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 244 (91.0 bits), Expect = 5.2e-32, Sum P(2) = 5.2e-32
 Identities = 47/87 (54%), Positives = 60/87 (68%)

Query:    42 VPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTD 101
             +PSY+ WF  ++I+  E K LPEFF+SR+ SK P VY+ YRD ++  YR NP+  +T T 
Sbjct:   139 LPSYTVWFDMNAINNIEKKALPEFFNSRNRSKTPAVYKDYRDFMINTYRLNPAEYLTVTA 198

Query:   102 VRRTLVGDVGSIRRVFDFLETWGLINY 128
              RR L GDV +I RV  FLE WGLINY
Sbjct:   199 CRRNLAGDVCAIMRVHAFLEQWGLINY 225

GO:0008150 "biological_process" evidence=ND

POMBASE|SPAC17G6.10 ssr1 "SWI/SNF and RSC complex subunit Ssr1" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 234 (87.4 bits), Expect = 5.5e-32, Sum P(2) = 5.5e-32
 Identities = 44/89 (49%), Positives = 57/89 (64%)

Query:    40 VNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITF 99
             V VP +++WF F  + E E K  PEFFD ++ SK P VY+ YRD ++  +R N    +TF
Sbjct:    52 VEVPEWAQWFDFSKVHEIEKKQNPEFFDGKNTSKTPEVYKEYRDFMISTFRLNSKVYLTF 111

Query:   100 TDVRRTLVGDVGSIRRVFDFLETWGLINY 128
             T  RR L GDV ++ RV  FLE WGLINY
Sbjct:   112 TACRRNLAGDVCAVLRVHRFLEQWGLINY 140

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=NAS

GO:0000790 "nuclear chromatin" evidence=IC

GO:0003677 "DNA binding" evidence=ISM

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0006338 "chromatin remodeling" evidence=ISO

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

GO:0016586 "RSC complex" evidence=IDA

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

SGD|S000003712 SWI3 "Subunit of the SWI/SNF chromatin remodeling complex" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 233 (87.1 bits), Expect = 9.6e-32, Sum P(2) = 9.6e-32
 Identities = 44/94 (46%), Positives = 58/94 (61%)

Query:    42 VPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTD 101
             +PSYS+WF+ + I   EV+ LPEFF +R PSK P VY  YR+ +V  YR NP+   + T 
Sbjct:   307 IPSYSKWFNLEKIHSIEVQSLPEFFTNRIPSKTPEVYMRYRNFMVNSYRLNPNEYFSVTT 366

Query:   102 VRRTLVGDVGSIRRVFDFLETWGLINYFASVKTL 135
              RR + GD  ++ R+  FL  WGLINY    K L
Sbjct:   367 ARRNVSGDAAALFRLHKFLTKWGLINYQVDSKLL 400

GO:0003682 "chromatin binding" evidence=IEA

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

GO:0003677 "DNA binding" evidence=IEA;IMP;IDA

GO:0005634 "nucleus" evidence=IEA;IDA

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

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

GO:0000436 "carbon catabolite activation of transcription from RNA polymerase II promoter" evidence=IMP

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

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

GO:0044109 "cellular alcohol catabolic process" evidence=IMP

GO:0005987 "sucrose catabolic process" evidence=IMP

GO:0031496 "positive regulation of mating type switching" evidence=IMP

GO:0042393 "histone binding" evidence=IPI

ASPGD|ASPL0000005061 AN6705 [Emericella nidulans (taxid:162425)]

 Score = 232 (86.7 bits), Expect = 2.7e-31, Sum P(2) = 2.7e-31
 Identities = 47/93 (50%), Positives = 57/93 (61%)

Query:    42 VPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTD 101
             +PSYS WF   +I   E K L EFF+ R+ SK P VY+ YRD ++  YR NP   +T T 
Sbjct:   107 LPSYSTWFDMHTIHPIEKKALAEFFNGRNRSKTPAVYKDYRDFMINTYRLNPIEYLTVTA 166

Query:   102 VRRTLVGDVGSIRRVFDFLETWGLINYFASVKT 134
              RR L GDV +I RV  FLE WGLINY    +T
Sbjct:   167 CRRNLAGDVCAIMRVHSFLEQWGLINYQVDPQT 199

GO:0016586 "RSC complex" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0015616 "DNA translocase activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0006368 "transcription elongation from RNA polymerase II promoter" evidence=IEA

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

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

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=IEA

GO:0006303 "double-strand break repair via nonhomologous end joining" evidence=IEA

GO:0006337 "nucleosome disassembly" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

CGD|CAL0003837 orf19.7234 [Candida albicans (taxid:5476)]

 Score = 219 (82.2 bits), Expect = 6.2e-31, Sum P(3) = 6.2e-31
 Identities = 46/96 (47%), Positives = 59/96 (61%)

Query:    40 VNVPSYSRWFSFDSISECEVKFLPEFF-DSRSPSKNPRVYRYYRDSIVKHYRENPSRKIT 98
             V VPS+++WF    I + E K LP+FF +  S  K+ + Y+Y RD IV  +R NP   +T
Sbjct:    63 VIVPSFAKWFDLSKIHDIEKKSLPDFFVEDGSGYKSSQDYKYIRDFIVNTFRLNPKEYLT 122

Query:    99 FTDVRRTLVGDVGSIRRVFDFLETWGLINYFASVKT 134
              T VRR L GDV +I R+  FLE WGLINY    KT
Sbjct:   123 ITAVRRNLSGDVTNIIRIHQFLEQWGLINYQIDPKT 158

GO:0016586 "RSC complex" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0006368 "transcription elongation from RNA polymerase II promoter" evidence=IEA

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

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=IEA

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

GO:0006303 "double-strand break repair via nonhomologous end joining" evidence=IEA

GO:0006337 "nucleosome disassembly" evidence=IEA

GO:0015616 "DNA translocase activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

---

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	0.5921	0.9345	0.6695	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	336
COG5259	531	COG5259, RSC8, RSC chromatin remodeling complex su	6e-46
pfam04433	80	pfam04433, SWIRM, SWIRM domain	5e-31
pfam00249	47	pfam00249, Myb_DNA-binding, Myb-like DNA-binding d	6e-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	8e-04

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

 Score =  163 bits (413), Expect = 6e-46
 Identities = 94/295 (31%), Positives = 137/295 (46%), Gaps = 56/295 (18%)

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 LEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFS 279
           LE I  +GDDW KVA+HV  K+++ CI HF++LP    ++ K     D       
Sbjct: 291 LEGIEMYGDDWDKVARHVGTKTKEQCILHFLQLPIEDNYLSKGDGKGDNSKGRLP 345

Length = 531

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

 Score =  111 bits (281), Expect = 5e-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 = 51.0 bits (123), Expect = 6e-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 = 48.8 bits (117), 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 = 48.3 bits (116), 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 = 52.8 bits (126), 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 = 8e-04
 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	336
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	99.95
KOG0457	438	consensus Histone acetyltransferase complex SAGA/A	99.88
COG5114	432	Histone acetyltransferase complex SAGA/ADA, subuni	99.78
PF00249	48	Myb_DNA-binding: Myb-like DNA-binding domain; Inte	99.33
PF13921	60	Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB:	99.09
smart00717	49	SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-bindi	99.08
cd00167	45	SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding do	99.0
PLN03000	881	amine oxidase	98.92
PLN02328	808	lysine-specific histone demethylase 1 homolog	98.8
PLN03212	249	Transcription repressor MYB5; Provisional	98.67
TIGR01557	57	myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF c	98.52
PLN03091	459	hypothetical protein; Provisional	98.5
cd02336	45	ZZ_RSC8 Zinc finger, ZZ type. Zinc finger present	98.45
KOG0048	238	consensus Transcription factor, Myb superfamily [T	98.4
PLN03212	249	Transcription repressor MYB5; Provisional	98.28
PLN02529	738	lysine-specific histone demethylase 1	98.26
PLN03091	459	hypothetical protein; Provisional	98.07
KOG0048	238	consensus Transcription factor, Myb superfamily [T	97.82
KOG0049	939	consensus Transcription factor, Myb superfamily [T	97.64
cd02335	49	ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present	97.34
KOG0049	939	consensus Transcription factor, Myb superfamily [T	96.89
cd02249	46	ZZ Zinc finger, ZZ type. Zinc finger present in dy	96.88
PF13837	90	Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain;	96.62
PLN02976	1713	amine oxidase	96.58
cd02340	43	ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger pre	96.52
smart00291	44	ZnF_ZZ Zinc-binding domain, present in Dystrophin,	96.43
cd02343	48	ZZ_EF Zinc finger, ZZ type. Zinc finger present in	96.39
cd02338	49	ZZ_PCMF_like Zinc finger, ZZ type. Zinc finger pre	96.22
KOG0051	607	consensus RNA polymerase I termination factor, Myb	96.21
cd02345	49	ZZ_dah Zinc finger, ZZ type. Zinc finger present i	96.17
cd02334	49	ZZ_dystrophin Zinc finger, ZZ type. Zinc finger pr	95.79
cd02341	48	ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present	95.61
PF00569	46	ZZ: Zinc finger, ZZ type; InterPro: IPR000433 Zinc	95.47
KOG0050	617	consensus mRNA splicing protein CDC5 (Myb superfam	94.97
cd02337	41	ZZ_CBP Zinc finger, ZZ type. Zinc finger present i	94.93
KOG0051	607	consensus RNA polymerase I termination factor, Myb	94.72
cd02344	45	ZZ_HERC2 Zinc finger, ZZ type. Zinc finger present	94.54
PF13873	78	Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain	94.32
KOG0050	617	consensus mRNA splicing protein CDC5 (Myb superfam	94.22
cd02339	45	ZZ_Mind_bomb Zinc finger, ZZ type. Zinc finger pre	93.84
KOG4167	907	consensus Predicted DNA-binding protein, contains	92.91
COG5147	512	REB1 Myb superfamily proteins, including transcrip	92.42
COG5118	507	BDP1 Transcription initiation factor TFIIIB, Bdp1	92.37
COG5147	512	REB1 Myb superfamily proteins, including transcrip	92.04
KOG4329	445	consensus DNA-binding protein [General function pr	91.84
TIGR02894	161	DNA_bind_RsfA transcription factor, RsfA family. I	91.69
KOG4468	782	consensus Polycomb-group transcriptional regulator	90.84
KOG4282	345	consensus Transcription factor GT-2 and related pr	90.54
PF09111	118	SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain	88.51
PF08914	65	Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR0150	83.79
KOG1279	506	consensus Chromatin remodeling factor subunit and	83.0
cd02342	43	ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger pre	81.87
KOG3554	693	consensus Histone deacetylase complex, MTA1 compon	81.61
PF12776	96	Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain;	80.1

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

Probab=100.00  E-value=9.5e-76  Score=577.08  Aligned_cols=274  Identities=34%  Similarity=0.602  Sum_probs=227.0

Q ss_pred             CCCCCceeecCCCCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHHhccchHHH
Q 019767           33 SSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGS  112 (336)
Q Consensus        33 ~~~q~~~ivIPs~s~WF~~~~ih~iE~~~lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r~~l~gDv~~  112 (336)
                      --+|+|+|+||||+.||++.+||+||+++.||||+||+++|||++|++||||||++||+||++|||+|+||||++|||++
T Consensus        45 l~~Q~~piiiPs~a~WFd~SKiHeIE~~snPeFF~~rs~~KTP~vYk~YR~FminsyRL~p~eYLtvTa~RRNvagDV~a  124 (531)
T COG5259          45 LMEQTHPIIIPSYAEWFDGSKIHEIEKRSNPEFFNGRSPSKTPEVYKDYRNFMINSYRLNPNEYLTVTACRRNVAGDVAA  124 (531)
T ss_pred             hhccCCceeccchhhhccccccccccccCCchhhcCCCCCCCHHHHHHHHhhccceeecCCcceEEeeeehhccchhHHH
Confidence            36899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhcccccCCCC--Cccccccccccc-----Cccc-----------c-C----------------CCcch---
Q 019767          113 IRRVFDFLETWGLINYFAS--VKTLKWEDKETK-----SSAA-----------S-A----------------ESSSA---  154 (336)
Q Consensus       113 i~Rih~FLe~wGlINy~~~--~kP~~~~~~~~~-----~~~~-----------~-~----------------s~~~~---  154 (336)
                      |.|||+|||+|||||||++  ++|....+.-+.     .|+.           + +                ...|.   
T Consensus       125 ivrvHrFLekWGLINYqvdp~trPs~IgPplt~h~q~l~dtP~gl~p~l~~~~~~~~~~~a~~~e~~~~k~~~~sps~~~  204 (531)
T COG5259         125 IVRVHRFLEKWGLINYQVDPGTRPSTIGPPLTSHFQDLHDTPRGLSPFLPWGPINQRVLGAKEIEYETHKEENYSPSLKS  204 (531)
T ss_pred             HHHHHHHHHHhcceeeccCCCCCccccCCCcchhhHHHhhCccccccccCCCCccccccccchhhhhhhccCCCCchhhh
Confidence            9999999999999999999  666544321111     0000           0 0                00011   


Q ss_pred             -----------hhcccc---ccCCCCCCcccccccccc-CCCccchhhhhccCCCCCCCCCCCceecccCcc-cCCCCCH
Q 019767          155 -----------LKETSK---RLCNGCKTLCTIACFACD-KYDLTLCARCYVRGNHRVGVSSSDFRRVEISEE-ARSDWTE  218 (336)
Q Consensus       155 -----------~~~~~k---~~C~~C~~~~~~~~~~c~-k~d~~LC~~CF~~G~~~~~~~s~df~ki~~~~~-~~~~WT~  218 (336)
                                 +.+.+.   ..|..||+.+...+|+-. ..+..+|..||..|+|+.+..++||+++++... ....||+
T Consensus       205 ~~k~s~~k~~el~~~~~~~~~~C~~cG~~~~~t~y~nlra~~~n~C~~C~~qg~f~s~~~ssDf~~v~~~~~~~dk~WS~  284 (531)
T COG5259         205 PKKESQGKVDELKDHSEKHPSSCSCCGNKSFNTRYHNLRAEKYNSCSECYDQGRFPSEFTSSDFKPVTISLLIRDKNWSR  284 (531)
T ss_pred             hhhhcCCCccccccccccCCceeeccCccccchhhhhhhhhhcccchHHHhcCcCCCccccccchhhhhhcccccccccH
Confidence                       111122   579999999887666543 246779999999999999999999999987655 5669999


Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcCCCCCcccCCCCCCccccccccccCCCCCccccccccCCCCC
Q 019767          219 KETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDAVSESENVGATSP  298 (336)
Q Consensus       219 eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~lPIeD~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  298 (336)
                      +|+++|||||++||++|++||.|||+||++||+.||++|||+|+||.+ .+   .   + ..+                 
T Consensus       285 qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~LPieD~~l~k-~~---~---~-~~~-----------------  339 (531)
T COG5259         285 QELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQLPIEDNYLSK-GD---G---K-GDN-----------------  339 (531)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcCCcchhhhhc-cc---C---c-CCC-----------------
Confidence            999999999999999999999999999999999999999999999921 11   0   0 000                 


Q ss_pred             CccCCcccccCCCCcHHHHHHHHHhhhhHHHHHHH
Q 019767          299 SKRMRLTPLADASNPIMAQLSCRLWLVSRLLKLLL  333 (336)
Q Consensus       299 ~~~~~~~Pfs~a~NPvms~vAFLas~V~p~~~~~~  333 (336)
                        .....||..++|||||+|+|||++|.|.++...
T Consensus       340 --~~G~~~f~~seNPVlstis~L~~iV~p~v~s~~  372 (531)
T COG5259         340 --SKGRLPFDGSENPVLSTISFLAGIVNPRVQSEK  372 (531)
T ss_pred             --CCCccccccCCCchhhHHHHHHHhcCHHHHHHH
Confidence              012479999999999999999999999976543

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

Probab=100.00  E-value=4.2e-70  Score=551.56  Aligned_cols=288  Identities=36%  Similarity=0.654  Sum_probs=228.7

Q ss_pred             cCCCCCCCCCC-CCCCCCCCCCCceeecCCCCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCC
Q 019767           16 VNPTTPLAPPP-VKPELPSSSEPDVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPS   94 (336)
Q Consensus        16 ~~~~~~~~~~~-~~~~~~~~~q~~~ivIPs~s~WF~~~~ih~iE~~~lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~   94 (336)
                      -|+++.+.+.. ..++.-.+.|+|.|+||||++||++++||+||++++||||+|++++|||++|++||||||++||+||.
T Consensus        22 ~~~~~~~~~~~~~~~~~~~~~q~~~i~iPs~a~WFd~~~ih~iE~rs~pEFF~gks~sktPe~Y~~yRnfii~tyrlnp~  101 (506)
T KOG1279|consen   22 ESQETLGGPAAHDAAKTVVSEQTHFIIIPSYAAWFDKSDIHDIERRSLPEFFNGKSKSKTPEVYMKYRNFIINTYRLNPQ  101 (506)
T ss_pred             cCcccccccchhhhcccccccccceeecccHHhhcChhhhhhHHhccchhhhcCCCCCCCHHHHHHHHHhhhhhhccCcc
Confidence            56666665322 22222268999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cceeHHHHHHhccchHHHHHHHHHhhhhcccccCCCC--CcccccccccccC-----cccc-----CC--Cc--c-----
Q 019767           95 RKITFTDVRRTLVGDVGSIRRVFDFLETWGLINYFAS--VKTLKWEDKETKS-----SAAS-----AE--SS--S-----  153 (336)
Q Consensus        95 ~yLT~t~~r~~l~gDv~~i~Rih~FLe~wGlINy~~~--~kP~~~~~~~~~~-----~~~~-----~s--~~--~-----  153 (336)
                      +|||+|+|||+++|||++|+|||+|||+||||||+++  ++|..+++..+..     +...     .+  +.  +     
T Consensus       102 ~ylt~ta~rrnl~gDv~ai~Rvh~FlE~WGLINy~~d~e~rp~~~~p~~t~h~~~~~~tp~~~~~~~~~~~~~~~~~~~~  181 (506)
T KOG1279|consen  102 EYLTFTACRRNLAGDVCAIARVHAFLEQWGLINYQVDAESRPHPIEPPETSHFQVLADTPRGLAPLTPEDPQSQPDLGNP  181 (506)
T ss_pred             cchhHHHHHhcccchHHHHHHHHhhHHhhcccccccChhhCCcccCCCcccccccccCCCcccccCCCCCcccccccccc
Confidence            9999999999999999999999999999999999999  6777665432221     1110     00  00  0     


Q ss_pred             ------hhhccccccCCCCCCccccccccccC--------CCccchhhhhccCCCCCCCCCCCceecccCcccCCCCCHH
Q 019767          154 ------ALKETSKRLCNGCKTLCTIACFACDK--------YDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEK  219 (336)
Q Consensus       154 ------~~~~~~k~~C~~C~~~~~~~~~~c~k--------~d~~LC~~CF~~G~~~~~~~s~df~ki~~~~~~~~~WT~e  219 (336)
                            .-.+.....|+.|...+...|+.|.+        .++.+|..||..|+++..+...||+.+  .+..+..||++
T Consensus       182 ~~~~~~~~~~~~~~~~~~~~~l~~~~c~~~~~~~~~~~~~~~~~~c~~c~~~g~~~~~~~~~Df~~~--~~~~~~~WT~q  259 (506)
T KOG1279|consen  182 RMETLSLESKIKSLHINAGEHLCAIHCFIKEDPYYYDLTNRDVNLCADCYDQGEFPSEFKKSDFKVI--GESARPNWTEQ  259 (506)
T ss_pred             ccccccccccccccccChHhhccccchhccccchhhhcchhhhhhhHHHHhcCCccCccccccchhc--cccCCCCccHH
Confidence                  00111223345444444455554443        357899999999999999999999333  34567899999


Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcCCCCCcccCCCCCCccccccccccCCCCCccccccccCCCCCC
Q 019767          220 ETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDSEDVDNKFFSINNPSDAVSESENVGATSPS  299 (336)
Q Consensus       220 E~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~lPIeD~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  299 (336)
                      |+++|||||++||++|.+||.|||+||++||+.||++|||+|+|+ ...+.     .+                    .+
T Consensus       260 E~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~LPieD~~l-~~~~~-----~~--------------------~~  313 (506)
T KOG1279|consen  260 ETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRLPIEDPYL-AKSEA-----SL--------------------GP  313 (506)
T ss_pred             HHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhcCccchhh-hhccc-----cc--------------------Cc
Confidence            999999999999999999999999999999999999999999999 43321     11                    12


Q ss_pred             ccCCcccccCCCCcHHHHHHHHHhhhhHHHHH
Q 019767          300 KRMRLTPLADASNPIMAQLSCRLWLVSRLLKL  331 (336)
Q Consensus       300 ~~~~~~Pfs~a~NPvms~vAFLas~V~p~~~~  331 (336)
                      ..+.+.+|++-+|||||+++||+++|||.++.
T Consensus       314 ~~~~~~~~sq~gnpv~s~~~~l~~~vdP~~~~  345 (506)
T KOG1279|consen  314 LSYGPVPFSQDGNPVMSTVAFLASVVDPVVKS  345 (506)
T ss_pred             cccCCCccccCCCccccHHHHHHhccCchhhh
Confidence            23467889999999999999999999996543

>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=99.95  E-value=2.1e-28  Score=195.00  Aligned_cols=85  Identities=47%  Similarity=0.897  Sum_probs=78.0

Q ss_pred             eecCCCCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHHhccc-hHHHHHHHHH
Q 019767           40 VNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVG-DVGSIRRVFD  118 (336)
Q Consensus        40 ivIPs~s~WF~~~~ih~iE~~~lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r~~l~g-Dv~~i~Rih~  118 (336)
                      +++|++++||+++.+|++|++.+||||.|    ++|+.|+.|||.||+.|+.||.+|||+++||+.+.| |+..+.|||+
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            46899999999999999999999999997    789999999999999999999999999999999996 9999999999


Q ss_pred             hhhhcccccC
Q 019767          119 FLETWGLINY  128 (336)
Q Consensus       119 FLe~wGlINy  128 (336)
                      ||++||+|||
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=99.88  E-value=4.9e-23  Score=203.38  Aligned_cols=104  Identities=27%  Similarity=0.629  Sum_probs=94.8

Q ss_pred             ccccCCCCCCccc----cccccccCCCccchhhhhccCCC-CCCCCCCCceecccC--cccCCCCCHHHHHHHHHHHHHh
Q 019767          159 SKRLCNGCKTLCT----IACFACDKYDLTLCARCYVRGNH-RVGVSSSDFRRVEIS--EEARSDWTEKETLQLLEAIMHF  231 (336)
Q Consensus       159 ~k~~C~~C~~~~~----~~~~~c~k~d~~LC~~CF~~G~~-~~~~~s~df~ki~~~--~~~~~~WT~eE~~~LLeav~~y  231 (336)
                      .++.|++|..+++    ++|++|.  |++||..||+.|.+ +.|..+|.|++++..  .....+||++||++||||+++|
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            5899999999875    6788885  67899999999998 778899999999874  3567899999999999999999


Q ss_pred             C-CCHHHHHHHhCCCCHHHHHHHHhcCCCCCccc
Q 019767          232 G-DDWRKVAQHVSGKSEKDCITHFIKLPFGQEFI  264 (336)
Q Consensus       232 G-~nW~~IA~~VgtrT~~qC~~hf~~lPIeD~fl  264 (336)
                      | |||++||+|||+||.++|+.||++.+++.++.
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=99.78  E-value=1.1e-19  Score=173.86  Aligned_cols=104  Identities=24%  Similarity=0.559  Sum_probs=93.1

Q ss_pred             ccccCCCCCCccc----cccccccCCCccchhhhhccCCC-CCCCCCCCceecccC--cccCCCCCHHHHHHHHHHHHHh
Q 019767          159 SKRLCNGCKTLCT----IACFACDKYDLTLCARCYVRGNH-RVGVSSSDFRRVEIS--EEARSDWTEKETLQLLEAIMHF  231 (336)
Q Consensus       159 ~k~~C~~C~~~~~----~~~~~c~k~d~~LC~~CF~~G~~-~~~~~s~df~ki~~~--~~~~~~WT~eE~~~LLeav~~y  231 (336)
                      .+++|+.|..+|+    ++|.+|.  +++||..||++|.+ +.|...|+|++++.+  .....+|+++||++|+++.+..
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            4789999999987    5666666  57799999999998 567789999999865  4567899999999999999999


Q ss_pred             C-CCHHHHHHHhCCCCHHHHHHHHhcCCCCCccc
Q 019767          232 G-DDWRKVAQHVSGKSEKDCITHFIKLPFGQEFI  264 (336)
Q Consensus       232 G-~nW~~IA~~VgtrT~~qC~~hf~~lPIeD~fl  264 (336)
                      | |||++||+|||.|++++|+.||+++++|..|.
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=99.33  E-value=2e-12  Score=92.23  Aligned_cols=45  Identities=40%  Similarity=0.927  Sum_probs=40.2

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCC-HHHHHHHhC-CCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFGDD-WRKVAQHVS-GKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~n-W~~IA~~Vg-trT~~qC~~hf~~l  257 (336)
                      +..||.+|+.+|++||.+||.+ |..||++|| +||..||+.||.++
T Consensus         1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~   47 (48)
T PF00249_consen    1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNL   47 (48)
T ss_dssp             S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhh
Confidence            3689999999999999999966 999999999 99999999999864

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=99.09  E-value=1.5e-10  Score=85.66  Aligned_cols=41  Identities=34%  Similarity=0.857  Sum_probs=37.5

Q ss_pred             CCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 019767          216 WTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (336)
Q Consensus       216 WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~  256 (336)
                      ||.+|+.+|++++.+||.+|.+||+++|+||+.+|..||..
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=99.08  E-value=2.5e-10  Score=78.92  Aligned_cols=44  Identities=30%  Similarity=0.810  Sum_probs=42.2

Q ss_pred             CCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          214 SDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       214 ~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ..||.+|+.+|++++.+|| .+|..||+++++||+.+|+.||..+
T Consensus         2 ~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~   46 (49)
T smart00717        2 GEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNL   46 (49)
T ss_pred             CCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHH
Confidence            5799999999999999999 9999999999999999999999875

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

Probab=99.00  E-value=7.9e-10  Score=75.36  Aligned_cols=43  Identities=37%  Similarity=0.851  Sum_probs=41.0

Q ss_pred             CCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          215 DWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       215 ~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .||.+|+.+|+.++.+|| ++|..||+.+++||..+|+.||.++
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.

>PLN03000 amine oxidase

Probab=98.92  E-value=1.4e-09  Score=118.03  Aligned_cols=83  Identities=24%  Similarity=0.368  Sum_probs=72.3

Q ss_pred             CCCCCCCCCCCCHHHHhh--CccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHHhccc-hHHHHHHHHHhh
Q 019767           44 SYSRWFSFDSISECEVKF--LPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVG-DVGSIRRVFDFL  120 (336)
Q Consensus        44 s~s~WF~~~~ih~iE~~~--lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r~~l~g-Dv~~i~Rih~FL  120 (336)
                      .++.-|+.|.+++.|..+  || -..    ...+..|+.|||.||.+|+.||..+||+++|...+.. -...+.++|+||
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            457899999999999777  77 222    2578999999999999999999999999999977654 358899999999


Q ss_pred             hhcccccCCCC
Q 019767          121 ETWGLINYFAS  131 (336)
Q Consensus       121 e~wGlINy~~~  131 (336)
                      +++|+|||++.
T Consensus       161 ~r~G~in~g~~  171 (881)
T PLN03000        161 VTHGYINFGIA  171 (881)
T ss_pred             HHcCcccHHHH
Confidence            99999999987

>PLN02328 lysine-specific histone demethylase 1 homolog

Probab=98.80  E-value=6.4e-09  Score=112.35  Aligned_cols=83  Identities=22%  Similarity=0.306  Sum_probs=74.4

Q ss_pred             CCCCCCCCCCCHHHHhh-CccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHHhcc-chHHHHHHHHHhhhh
Q 019767           45 YSRWFSFDSISECEVKF-LPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLV-GDVGSIRRVFDFLET  122 (336)
Q Consensus        45 ~s~WF~~~~ih~iE~~~-lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r~~l~-gDv~~i~Rih~FLe~  122 (336)
                      .+.-|+.+++|+.|..+ |+....+    ..+..|+.|||.||.+|+.||..+||+++|+..+. -....+.++|.||.+
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            46789999999999888 7777765    57899999999999999999999999999997765 356889999999999


Q ss_pred             cccccCCCC
Q 019767          123 WGLINYFAS  131 (336)
Q Consensus       123 wGlINy~~~  131 (336)
                      .|.|||++.
T Consensus       214 ~g~in~gv~  222 (808)
T PLN02328        214 HGYINFGVA  222 (808)
T ss_pred             cCceeeecc
Confidence            999999998

>PLN03212 Transcription repressor MYB5; Provisional

Probab=98.67  E-value=2.2e-08  Score=94.21  Aligned_cols=46  Identities=24%  Similarity=0.498  Sum_probs=42.8

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC-CCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVS-GKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~Vg-trT~~qC~~hf~~l  257 (336)
                      .+..||.+|+.+|+++|++|| .+|..||+++| +||..||++||.++
T Consensus        24 KRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~   71 (249)
T PLN03212         24 KRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNY   71 (249)
T ss_pred             cCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHh
Confidence            367899999999999999999 79999999996 89999999999975

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

Probab=98.52  E-value=1.7e-07  Score=69.97  Aligned_cols=47  Identities=23%  Similarity=0.545  Sum_probs=41.7

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCH---HHHHHHhC-CC-CHHHHHHHHhcCCC
Q 019767          213 RSDWTEKETLQLLEAIMHFG-DDW---RKVAQHVS-GK-SEKDCITHFIKLPF  259 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG-~nW---~~IA~~Vg-tr-T~~qC~~hf~~lPI  259 (336)
                      +..||++|..++|+||+.|| |||   .+|+++++ ++ |+.||..|+..+.+
T Consensus         3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~   55 (57)
T TIGR01557         3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL   55 (57)
T ss_pred             CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence            45799999999999999999 599   99999887 57 99999999987543

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.

>PLN03091 hypothetical protein; Provisional

Probab=98.50  E-value=1.1e-07  Score=95.56  Aligned_cols=46  Identities=24%  Similarity=0.580  Sum_probs=42.7

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC-CCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVS-GKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~Vg-trT~~qC~~hf~~l  257 (336)
                      .++.||.+||.+|+++|++|| ++|..||+++| +||.+||++||.++
T Consensus        13 rKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~Ny   60 (459)
T PLN03091         13 RKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINY   60 (459)
T ss_pred             cCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhc
Confidence            357899999999999999999 79999999997 89999999999974

>cd02336 ZZ_RSC8 Zinc finger, ZZ type

Probab=98.45  E-value=1.2e-07  Score=67.53  Aligned_cols=44  Identities=32%  Similarity=0.555  Sum_probs=39.2

Q ss_pred             ccCCCCCCccccccccccC-CCccchhhhhccCCCCCCCCCCCce
Q 019767          161 RLCNGCKTLCTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFR  204 (336)
Q Consensus       161 ~~C~~C~~~~~~~~~~c~k-~d~~LC~~CF~~G~~~~~~~s~df~  204 (336)
                      +.|+.|+.+|+..+|+|.+ .+++||..||.+|+++.++.+.||+
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            4699999999988888865 4688999999999999999999984

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.

>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]

Probab=98.40  E-value=2.5e-07  Score=86.79  Aligned_cols=45  Identities=20%  Similarity=0.485  Sum_probs=43.5

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC-CCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVS-GKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG-~nW~~IA~~Vg-trT~~qC~~hf~~l  257 (336)
                      +++||.|||.+|.+.|++|| ++|..||++.| .|+..+|++||.++
T Consensus         9 kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~Ny   55 (238)
T KOG0048|consen    9 KGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNY   55 (238)
T ss_pred             CCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcc
Confidence            68999999999999999999 99999999999 99999999999985

>PLN03212 Transcription repressor MYB5; Provisional

Probab=98.28  E-value=8.6e-07  Score=83.58  Aligned_cols=46  Identities=17%  Similarity=0.338  Sum_probs=43.5

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 019767          211 EARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (336)
Q Consensus       211 ~~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~  256 (336)
                      ..++.||.+|+.+||+.+..||..|..||+++++||..+|+.||..
T Consensus        76 I~kgpWT~EED~lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRWns  121 (249)
T PLN03212         76 VKRGGITSDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNT  121 (249)
T ss_pred             cccCCCChHHHHHHHHHHHhccccHHHHHhhcCCCCHHHHHHHHHH
Confidence            4578999999999999999999999999999999999999999965

>PLN02529 lysine-specific histone demethylase 1

Probab=98.26  E-value=1.1e-06  Score=94.48  Aligned_cols=85  Identities=24%  Similarity=0.287  Sum_probs=70.5

Q ss_pred             CCCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHHhccch-HHHHHHHHHhhhh
Q 019767           44 SYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGD-VGSIRRVFDFLET  122 (336)
Q Consensus        44 s~s~WF~~~~ih~iE~~~lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r~~l~gD-v~~i~Rih~FLe~  122 (336)
                      ..+.=|+.+.+++.|+++.   |-..-..+.++.|+.|||.|+.+|+.||..|||+++++..+.-+ ...|...|+||.+
T Consensus        62 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~yl~irn~il~~w~~np~~~~~~~~a~~~~~~~i~~ci~~c~~~l~~  138 (738)
T PLN02529         62 ALSVGFPIDALLEEEIRAG---VVRELGGKEQNDYIVVRNHILARWRSNVGIWLSKGQIKETVSSEYEHLISAAYDFLLY  138 (738)
T ss_pred             HHHcCCCccccCHHHHhcc---ccCccccccceeeehHHHHHHHHHHHCCceeecHHHHhhhchhhHHHHHHHHHHHHHh
Confidence            4567899999999998662   11122356899999999999999999999999999998876543 4557799999999


Q ss_pred             cccccCCCC
Q 019767          123 WGLINYFAS  131 (336)
Q Consensus       123 wGlINy~~~  131 (336)
                      .|.|||++.
T Consensus       139 ~~~inc~vn  147 (738)
T PLN02529        139 NGYINFGVS  147 (738)
T ss_pred             CCCcceeec
Confidence            999999998

>PLN03091 hypothetical protein; Provisional

Probab=98.07  E-value=4.9e-06  Score=84.00  Aligned_cols=46  Identities=15%  Similarity=0.437  Sum_probs=43.3

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 019767          211 EARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (336)
Q Consensus       211 ~~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~  256 (336)
                      ..++.||.+|+.+||+.+..||..|.+||+++.+||..+|+.||..
T Consensus        65 IkKgpWT~EED~lLLeL~k~~GnKWskIAk~LPGRTDnqIKNRWns  110 (459)
T PLN03091         65 LKRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNS  110 (459)
T ss_pred             ccCCCCCHHHHHHHHHHHHHhCcchHHHHHhcCCCCHHHHHHHHHH
Confidence            4568999999999999999999999999999999999999999975

>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]

Probab=97.82  E-value=2.6e-05  Score=73.27  Aligned_cols=44  Identities=16%  Similarity=0.505  Sum_probs=41.5

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHh
Q 019767          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFI  255 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~  255 (336)
                      .++.||.|||.+|+++...+|..|..||.++++||..++..||.
T Consensus        61 krg~fT~eEe~~Ii~lH~~~GNrWs~IA~~LPGRTDNeIKN~Wn  104 (238)
T KOG0048|consen   61 KRGNFSDEEEDLIIKLHALLGNRWSLIAGRLPGRTDNEVKNHWN  104 (238)
T ss_pred             cCCCCCHHHHHHHHHHHHHHCcHHHHHHhhCCCcCHHHHHHHHH
Confidence            36899999999999999999999999999999999999999884

>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]

Probab=97.64  E-value=6e-05  Score=79.04  Aligned_cols=46  Identities=30%  Similarity=0.701  Sum_probs=43.3

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhc
Q 019767          211 EARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIK  256 (336)
Q Consensus       211 ~~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~~  256 (336)
                      ...+.||.+|+.+|+.||++|| .+|-+|-+.|++|+..||+.||++
T Consensus       358 ikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~n  404 (939)
T KOG0049|consen  358 VKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTN  404 (939)
T ss_pred             ccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHH
Confidence            3468999999999999999999 699999999999999999999987

>cd02335 ZZ_ADA2 Zinc finger, ZZ type

Probab=97.34  E-value=0.00022  Score=51.38  Aligned_cols=46  Identities=24%  Similarity=0.520  Sum_probs=33.8

Q ss_pred             ccCCCCCCcccc-ccccccCC-CccchhhhhccCCC-CCCCCCCCceec
Q 019767          161 RLCNGCKTLCTI-ACFACDKY-DLTLCARCYVRGNH-RVGVSSSDFRRV  206 (336)
Q Consensus       161 ~~C~~C~~~~~~-~~~~c~k~-d~~LC~~CF~~G~~-~~~~~s~df~ki  206 (336)
                      +.|++|+..+.. .++.|... |++||..||..|.. ..+..+|.|+.+
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            369999988754 44544432 78899999999987 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=96.89  E-value=0.00085  Score=70.71  Aligned_cols=45  Identities=29%  Similarity=0.443  Sum_probs=41.6

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCH---HHHHHHHhc
Q 019767          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSE---KDCITHFIK  256 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~---~qC~~hf~~  256 (336)
                      ..+.||-+||..||++|++|| |+|-++|..+|.||.   .-|+.||+.
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 999999999999999   778888876

>cd02249 ZZ Zinc finger, ZZ type

Probab=96.88  E-value=0.0011  Score=47.08  Aligned_cols=44  Identities=25%  Similarity=0.610  Sum_probs=32.2

Q ss_pred             ccCCCCCCccccccccccC-CCccchhhhhccCCCCCCCCCCCcee
Q 019767          161 RLCNGCKTLCTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFRR  205 (336)
Q Consensus       161 ~~C~~C~~~~~~~~~~c~k-~d~~LC~~CF~~G~~~~~~~s~df~k  205 (336)
                      +.|++|+..+.-.+|.|.. .+++||..||+.|. ..+...|.|.+
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            3699999987655666654 36889999999997 44555677754

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.

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

Probab=96.62  E-value=0.0011  Score=52.05  Aligned_cols=44  Identities=25%  Similarity=0.675  Sum_probs=33.1

Q ss_pred             CCCCHHHHHHHHHHHHH------hC------C--CHHHHHHHhC----CCCHHHHHHHHhcC
Q 019767          214 SDWTEKETLQLLEAIMH------FG------D--DWRKVAQHVS----GKSEKDCITHFIKL  257 (336)
Q Consensus       214 ~~WT~eE~~~LLeav~~------yG------~--nW~~IA~~Vg----trT~~qC~~hf~~l  257 (336)
                      ..||.+|+..||+.+..      ++      +  -|..||+.+.    .||+.||..+|-+|
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            57999999999999877      21      1  4999999984    59999999999884

>PLN02976 amine oxidase

Probab=96.58  E-value=0.0023  Score=73.50  Aligned_cols=82  Identities=21%  Similarity=0.267  Sum_probs=70.6

Q ss_pred             CCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHHhcc--------chHHHHHHH
Q 019767           45 YSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLV--------GDVGSIRRV  116 (336)
Q Consensus        45 ~s~WF~~~~ih~iE~~~lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r~~l~--------gDv~~i~Ri  116 (336)
                      -+.-+....+.++||--|.|..--|.   .-+.|+++||.|+-+|-++=.+-|.+++|-  ++        +-..+|.-|
T Consensus       451 v~~gl~a~~~~~~e~~~~k~~lkr~~---~~q~yl~cr~~~l~~w~k~~~~~l~~~~c~--v~~~~~~~e~~~~~l~r~~  525 (1713)
T PLN02976        451 VSAGLKARAVGPIEKIKFKEVLKRKG---GLQEYLECRNMILGLWSKDVSRILPLADCG--VTDTPSEDESPRASLIREV  525 (1713)
T ss_pred             hhccccccccChHHHHHHHHHHHhcc---chHHHHHHHHHHHHHhhhhhhhcccHhhcc--ccCCcccccCchhhHHHHH
Confidence            34556678899999999999997543   578999999999999999999999999994  32        347889999


Q ss_pred             HHhhhhcccccCCCC
Q 019767          117 FDFLETWGLINYFAS  131 (336)
Q Consensus       117 h~FLe~wGlINy~~~  131 (336)
                      +.||++.|.||-|+.
T Consensus       526 ~~fld~~gyin~g~~  540 (1713)
T PLN02976        526 YLFLDQRGYINAGIA  540 (1713)
T ss_pred             HHHhhccCceecccc
Confidence            999999999999987

>cd02340 ZZ_NBR1_like Zinc finger, ZZ type

Probab=96.52  E-value=0.0025  Score=44.86  Aligned_cols=41  Identities=24%  Similarity=0.655  Sum_probs=31.0

Q ss_pred             cCCCCCCccccccccccCC-CccchhhhhccCCCCCCCCCCCceec
Q 019767          162 LCNGCKTLCTIACFACDKY-DLTLCARCYVRGNHRVGVSSSDFRRV  206 (336)
Q Consensus       162 ~C~~C~~~~~~~~~~c~k~-d~~LC~~CF~~G~~~~~~~s~df~ki  206 (336)
                      .|++|+..+.-.+|.|... |++||..||..|   .+ ..|.|.++
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            5999999876566666553 788999999998   33 67777653

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.

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

Probab=96.43  E-value=0.0028  Score=44.56  Aligned_cols=38  Identities=21%  Similarity=0.502  Sum_probs=29.0

Q ss_pred             cccCCCCCCccccccccccC-CCccchhhhhccCCCCCC
Q 019767          160 KRLCNGCKTLCTIACFACDK-YDLTLCARCYVRGNHRVG  197 (336)
Q Consensus       160 k~~C~~C~~~~~~~~~~c~k-~d~~LC~~CF~~G~~~~~  197 (336)
                      ...|+.|+..+...+|.|.. .|++||.+||..|.++..
T Consensus         4 ~~~C~~C~~~i~g~ry~C~~C~d~dlC~~Cf~~~~~~~~   42 (44)
T smart00291        4 SYSCDTCGKPIVGVRYHCLVCPDYDLCQSCFAKGSAGGE   42 (44)
T ss_pred             CcCCCCCCCCCcCCEEECCCCCCccchHHHHhCcCcCCC
Confidence            45799999987655566653 378899999999987643

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].

>cd02343 ZZ_EF Zinc finger, ZZ type

Probab=96.39  E-value=0.003  Score=45.74  Aligned_cols=37  Identities=27%  Similarity=0.783  Sum_probs=27.1

Q ss_pred             cCCCCCCccccccccccC-CCccchhhhhccCCCCCCC
Q 019767          162 LCNGCKTLCTIACFACDK-YDLTLCARCYVRGNHRVGV  198 (336)
Q Consensus       162 ~C~~C~~~~~~~~~~c~k-~d~~LC~~CF~~G~~~~~~  198 (336)
                      .|++|...+...+|.|.+ .|++||..||..|.+..++
T Consensus         2 ~CdgC~~~~~~~RykCl~C~d~DlC~~Cf~~g~~~~~H   39 (48)
T cd02343           2 SCDGCDEIAPWHRYRCLQCTDMDLCKTCFLGGVKPEGH   39 (48)
T ss_pred             CCCCCCCcCCCceEECCCCCCchhHHHHHhCCccCCCC
Confidence            599999876544454432 3788999999999986544

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.

>cd02338 ZZ_PCMF_like Zinc finger, ZZ type

Probab=96.22  E-value=0.0048  Score=44.54  Aligned_cols=44  Identities=30%  Similarity=0.591  Sum_probs=29.3

Q ss_pred             cCCCCC-CccccccccccC-CCccchhhhhccCCCCC-CCCCCCcee
Q 019767          162 LCNGCK-TLCTIACFACDK-YDLTLCARCYVRGNHRV-GVSSSDFRR  205 (336)
Q Consensus       162 ~C~~C~-~~~~~~~~~c~k-~d~~LC~~CF~~G~~~~-~~~s~df~k  205 (336)
                      .|++|+ ..+.-.+|.|.. .|++||.+||..|.... +..+|.|..
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 555533444432 36889999999997644 344777653

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.

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

Probab=96.21  E-value=0.0052  Score=64.75  Aligned_cols=45  Identities=22%  Similarity=0.641  Sum_probs=42.8

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .++.||.+|+..|-..+.++|++|..|++.+| |.|..|+.||.++
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            57899999999999999999999999999997 8999999999985

>cd02345 ZZ_dah Zinc finger, ZZ type

Probab=96.17  E-value=0.0051  Score=44.42  Aligned_cols=43  Identities=26%  Similarity=0.539  Sum_probs=29.1

Q ss_pred             cCCCCCC-ccccccccccC-CCccchhhhhccCCCCC-CCCCCCce
Q 019767          162 LCNGCKT-LCTIACFACDK-YDLTLCARCYVRGNHRV-GVSSSDFR  204 (336)
Q Consensus       162 ~C~~C~~-~~~~~~~~c~k-~d~~LC~~CF~~G~~~~-~~~s~df~  204 (336)
                      .|++|+. ++.-.+|.|.. .|++||.+||..|.... +...|.|.
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 36889999999998643 34556553

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=95.79  E-value=0.0096  Score=43.19  Aligned_cols=41  Identities=29%  Similarity=0.680  Sum_probs=28.0

Q ss_pred             cCCCCCCc-ccc---ccccccCCCccchhhhhccCCCCC-CCCCCCce
Q 019767          162 LCNGCKTL-CTI---ACFACDKYDLTLCARCYVRGNHRV-GVSSSDFR  204 (336)
Q Consensus       162 ~C~~C~~~-~~~---~~~~c~k~d~~LC~~CF~~G~~~~-~~~s~df~  204 (336)
                      .|++|+.. +..   +|..|.  |++||..||..|.+.. +...|.++
T Consensus         2 ~Cd~C~~~pi~g~RykC~~C~--d~DLC~~Cf~~g~~~~~H~~~Hp~~   47 (49)
T cd02334           2 KCNICKEFPITGFRYRCLKCF--NYDLCQSCFFSGRTSKSHKNSHPMK   47 (49)
T ss_pred             CCCCCCCCCceeeeEECCCCC--CcCchHHHHhCCCcCCCCCCCCCee
Confidence            59999964 443   444555  6789999999998754 34555543

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=95.61  E-value=0.012  Score=42.43  Aligned_cols=43  Identities=23%  Similarity=0.512  Sum_probs=29.2

Q ss_pred             ccCCCCCC-ccccccccc---cCCCccchhhhhccCCCCCCCCCCCcee
Q 019767          161 RLCNGCKT-LCTIACFAC---DKYDLTLCARCYVRGNHRVGVSSSDFRR  205 (336)
Q Consensus       161 ~~C~~C~~-~~~~~~~~c---~k~d~~LC~~CF~~G~~~~~~~s~df~k  205 (336)
                      +.|++|+. .+.-..|.|   ...+++||..||..|.  .+..+|.|.+
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            36999998 454444444   4336889999999996  4555666554

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=95.47  E-value=0.0057  Score=43.46  Aligned_cols=39  Identities=28%  Similarity=0.607  Sum_probs=22.6

Q ss_pred             cccCCCCCCc-cccccccccC-CCccchhhhhccCCCCCCC
Q 019767          160 KRLCNGCKTL-CTIACFACDK-YDLTLCARCYVRGNHRVGV  198 (336)
Q Consensus       160 k~~C~~C~~~-~~~~~~~c~k-~d~~LC~~CF~~G~~~~~~  198 (336)
                      ...|++|+.. +.-.+|.|.. .|++||..||..|.+...+
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            4679999984 4444555543 4788999999999865443

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.

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

Probab=94.97  E-value=0.022  Score=59.03  Aligned_cols=44  Identities=23%  Similarity=0.615  Sum_probs=41.2

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhc
Q 019767          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIK  256 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~~  256 (336)
                      .+-|+..||..|--+|.+|| ..|.+|+..+..||+.||..+|..
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            46799999999999999999 679999999999999999999975

>cd02337 ZZ_CBP Zinc finger, ZZ type

Probab=94.93  E-value=0.022  Score=39.80  Aligned_cols=37  Identities=32%  Similarity=0.671  Sum_probs=26.4

Q ss_pred             ccCCCCCCccccccccccC-CCccchhhhhccCCCCCCC
Q 019767          161 RLCNGCKTLCTIACFACDK-YDLTLCARCYVRGNHRVGV  198 (336)
Q Consensus       161 ~~C~~C~~~~~~~~~~c~k-~d~~LC~~CF~~G~~~~~~  198 (336)
                      +.|++|....+ ..+.|.. .|++||..||.++.++..+
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            35999988665 4444433 2788999999998876544

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.

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

Probab=94.72  E-value=0.027  Score=59.57  Aligned_cols=53  Identities=25%  Similarity=0.481  Sum_probs=45.7

Q ss_pred             cCCCCCHHHHHHHHHHHH-------Hh-------C------------CCHHHHHHHhCCCCHHHHHHHHhcCCCCCccc
Q 019767          212 ARSDWTEKETLQLLEAIM-------HF-------G------------DDWRKVAQHVSGKSEKDCITHFIKLPFGQEFI  264 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~-------~y-------G------------~nW~~IA~~VgtrT~~qC~~hf~~lPIeD~fl  264 (336)
                      .++.||-+|+.+||..|+       +|       |            =+|..|++.+|||+..||+.||-+|=+...+.
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            567899999999999995       44       1            27999999999999999999999987776665

>cd02344 ZZ_HERC2 Zinc finger, ZZ type

Probab=94.54  E-value=0.04  Score=39.36  Aligned_cols=42  Identities=26%  Similarity=0.781  Sum_probs=28.0

Q ss_pred             cCCCCCCc-cccccccccC-CCccchhhhhccCCCCCCCCCCCceec
Q 019767          162 LCNGCKTL-CTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFRRV  206 (336)
Q Consensus       162 ~C~~C~~~-~~~~~~~c~k-~d~~LC~~CF~~G~~~~~~~s~df~ki  206 (336)
                      .|++|+.. +.-..|.|.. .|++||..||..+.+.   ..|.|.++
T Consensus         2 ~Cd~C~~~pI~G~RykC~~C~dyDLC~~Cf~~~~H~---~~H~F~ri   45 (45)
T cd02344           2 TCDGCQMFPINGPRFKCRNCDDFDFCENCFKTRKHN---TRHTFGRI   45 (45)
T ss_pred             CCCCCCCCCCccCeEECCCCCCccchHHhhCCCCcC---CCCceeeC
Confidence            59999864 4334444433 3688999999997643   46777654

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.

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

Probab=94.32  E-value=0.096  Score=40.35  Aligned_cols=45  Identities=20%  Similarity=0.430  Sum_probs=38.4

Q ss_pred             CCCCCHHHHHHHHHHHHHhC----C-------------CHHHHHHHhC-----CCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFG----D-------------DWRKVAQHVS-----GKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG----~-------------nW~~IA~~Vg-----trT~~qC~~hf~~l  257 (336)
                      +..||.+|...||+.|++|.    +             -|.+|++.+.     .||..|++.+|.++
T Consensus         2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nl   68 (78)
T PF13873_consen    2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNL   68 (78)
T ss_pred             CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence            35799999999999999985    1             4999999883     59999999999764

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

Probab=94.22  E-value=0.035  Score=57.52  Aligned_cols=45  Identities=20%  Similarity=0.582  Sum_probs=42.1

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .+..|+.+||.+||.+......-|..||..|| ||..||..||..+
T Consensus        58 ~~tews~eederlLhlakl~p~qwrtIa~i~g-r~~~qc~eRy~~l  102 (617)
T KOG0050|consen   58 KKTEWSREEDERLLHLAKLEPTQWRTIADIMG-RTSQQCLERYNNL  102 (617)
T ss_pred             hhhhhhhhHHHHHHHHHHhcCCccchHHHHhh-hhHHHHHHHHHHH
Confidence            45789999999999999999999999999997 8999999999885

>cd02339 ZZ_Mind_bomb Zinc finger, ZZ type

Probab=93.84  E-value=0.059  Score=38.37  Aligned_cols=41  Identities=24%  Similarity=0.606  Sum_probs=26.7

Q ss_pred             cCCCCCC-ccccccccccC-CCccchhhhhccCCCCCCCCCCCcee
Q 019767          162 LCNGCKT-LCTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFRR  205 (336)
Q Consensus       162 ~C~~C~~-~~~~~~~~c~k-~d~~LC~~CF~~G~~~~~~~s~df~k  205 (336)
                      .|++|+. .+.-.+|.|.. .|++||..||..+.+   ...|.|.+
T Consensus         2 ~Cd~C~~~~i~G~RykC~~C~dyDLC~~C~~~~~H---~~~H~f~r   44 (45)
T cd02339           2 ICDTCRKQGIIGIRWKCAECPNYDLCTTCYHGDKH---DLEHRFYR   44 (45)
T ss_pred             CCCCCCCCCcccCeEECCCCCCccchHHHhCCCCC---CCCCCEEe
Confidence            5999994 44334444443 268899999997553   44566654

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.

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

Probab=92.91  E-value=0.15  Score=54.86  Aligned_cols=44  Identities=20%  Similarity=0.422  Sum_probs=41.4

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 019767          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~  256 (336)
                      ...||..|..++-.|+-.|..|+..|++.|.+||..||++.|.-
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            46899999999999999999999999999999999999998853

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

Probab=92.42  E-value=0.12  Score=54.07  Aligned_cols=46  Identities=20%  Similarity=0.621  Sum_probs=43.4

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 019767          211 EARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (336)
Q Consensus       211 ~~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~  256 (336)
                      ..+..|+.+|+..|++.-..+|.-|..||..++.||..+|..+|+.
T Consensus        70 lk~~~~~~eed~~li~l~~~~~~~wstia~~~d~rt~~~~~ery~~  115 (512)
T COG5147          70 LKKKNWSEEEDEQLIDLDKELGTQWSTIADYKDRRTAQQCVERYVN  115 (512)
T ss_pred             cccccccHHHHHHHHHHHHhcCchhhhhccccCccchHHHHHHHHH
Confidence            3467899999999999999999999999999999999999999996

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

Probab=92.37  E-value=0.19  Score=50.58  Aligned_cols=44  Identities=23%  Similarity=0.477  Sum_probs=42.3

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 019767          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~  256 (336)
                      ...||.+|..++-.|+.++|.++.-||...++|...|+..+|++
T Consensus       365 ~~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~  408 (507)
T COG5118         365 ALRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIK  408 (507)
T ss_pred             CCcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHH
Confidence            36899999999999999999999999999999999999999987

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

Probab=92.04  E-value=0.087  Score=55.02  Aligned_cols=43  Identities=21%  Similarity=0.460  Sum_probs=40.6

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHh
Q 019767          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFI  255 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~  255 (336)
                      .+.|+..|+..|+-+++.|| .||..||..++.||++||..||.
T Consensus        20 ~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~   63 (512)
T COG5147          20 GGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWN   63 (512)
T ss_pred             CCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhh
Confidence            46899999999999999999 89999999999999999999993

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

Probab=91.84  E-value=0.23  Score=49.85  Aligned_cols=45  Identities=22%  Similarity=0.429  Sum_probs=40.6

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHH-HHHhCCCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFGDDWRKV-AQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~nW~~I-A~~VgtrT~~qC~~hf~~l  257 (336)
                      -..||.+|=..+=+|++.||.|+..| +..|.+|+..+|+..|..-
T Consensus       277 l~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlW  322 (445)
T KOG4329|consen  277 LSGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLW  322 (445)
T ss_pred             cccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHh
Confidence            36899999999999999999999999 5689999999999988643

>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family

Probab=91.69  E-value=0.18  Score=45.18  Aligned_cols=50  Identities=16%  Similarity=0.409  Sum_probs=42.0

Q ss_pred             CCCCCHHHHHHHHHHHHHhC--C-----CHHHHHHHhCCCCHHHHHHHHhcCCCCCccc
Q 019767          213 RSDWTEKETLQLLEAIMHFG--D-----DWRKVAQHVSGKSEKDCITHFIKLPFGQEFI  264 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG--~-----nW~~IA~~VgtrT~~qC~~hf~~lPIeD~fl  264 (336)
                      .+.||.+||++|-|.|-+|=  |     -.++|++.++ ||+.-|-.||..+ +...|-
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            35799999999999999886  3     5899999995 9999999999875 555565

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.

>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]

Probab=90.84  E-value=0.21  Score=52.86  Aligned_cols=45  Identities=24%  Similarity=0.565  Sum_probs=39.6

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHH----------HHHhCCCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFGDDWRKV----------AQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~nW~~I----------A~~VgtrT~~qC~~hf~~l  257 (336)
                      +..||.+|+.-+.+||.++|.|+++|          -..+..||.+|.+.||.++
T Consensus        88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~  142 (782)
T KOG4468|consen   88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRL  142 (782)
T ss_pred             ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHH
Confidence            67899999999999999999999999          3344569999999999874

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

Probab=90.54  E-value=0.32  Score=47.91  Aligned_cols=45  Identities=31%  Similarity=0.581  Sum_probs=36.4

Q ss_pred             CCCCHHHHHHHHHHHHHhC-----C-----CHHHHHHHh---C-CCCHHHHHHHHhcCC
Q 019767          214 SDWTEKETLQLLEAIMHFG-----D-----DWRKVAQHV---S-GKSEKDCITHFIKLP  258 (336)
Q Consensus       214 ~~WT~eE~~~LLeav~~yG-----~-----nW~~IA~~V---g-trT~~qC~~hf~~lP  258 (336)
                      ..|+.+|++.||++-...-     +     .|..||...   | .||+.||..+|-+|.
T Consensus        55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~  113 (345)
T KOG4282|consen   55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK  113 (345)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence            6899999999999985433     3     499999943   4 499999999997754

>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices

Probab=88.51  E-value=0.56  Score=39.96  Aligned_cols=45  Identities=18%  Similarity=0.434  Sum_probs=36.0

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC----CCHHHHHHHhC------------CCCHHHHHHHHhc
Q 019767          212 ARSDWTEKETLQLLEAIMHFG----DDWRKVAQHVS------------GKSEKDCITHFIK  256 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG----~nW~~IA~~Vg------------trT~~qC~~hf~~  256 (336)
                      .+..||.+||..||-.+.+||    |+|+.|-+.|-            +||+.++..|-..
T Consensus        48 ~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~t  108 (118)
T PF09111_consen   48 KKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNT  108 (118)
T ss_dssp             S-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHH
T ss_pred             CCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHH
Confidence            457899999999999999999    68999988773            7999998877543

It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.

>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif

Probab=83.79  E-value=1.8  Score=33.18  Aligned_cols=44  Identities=16%  Similarity=0.413  Sum_probs=30.4

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-------CC--HHHHHHHhC-CCCHHHHHHHHhc
Q 019767          213 RSDWTEKETLQLLEAIMHFG-------DD--WRKVAQHVS-GKSEKDCITHFIK  256 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG-------~n--W~~IA~~Vg-trT~~qC~~hf~~  256 (336)
                      +..+|.+||..|++-|..+.       ||  |++.++.-. .+|-+-=+.||++
T Consensus         2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K   55 (65)
T PF08914_consen    2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLK   55 (65)
T ss_dssp             -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            35789999999999996543       55  999999766 6798999999987

The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.

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

Probab=83.00  E-value=1.3  Score=46.37  Aligned_cols=92  Identities=7%  Similarity=-0.063  Sum_probs=74.1

Q ss_pred             ecCCCCCCCCCCCCCHHHHhhCccccCCCC-CCCChHHHHHHHHHHHHHHHhCCCccee-----HHHHHHhcc--chHHH
Q 019767           41 NVPSYSRWFSFDSISECEVKFLPEFFDSRS-PSKNPRVYRYYRDSIVKHYRENPSRKIT-----FTDVRRTLV--GDVGS  112 (336)
Q Consensus        41 vIPs~s~WF~~~~ih~iE~~~lpEff~~~~-~~ktp~~Y~~~RN~ii~~yr~np~~yLT-----~t~~r~~l~--gDv~~  112 (336)
                      ..+..+.-++...=+.-.....++|+-+++ ....+..|+.+|..+++.++---..+.+     -+..+++..  +.+-+
T Consensus       185 ~~~~~~~~~~~~~~~~~~l~~~~c~~~~~~~~~~~~~~~~~~c~~c~~~g~~~~~~~~~Df~~~~~~~~~~WT~qE~lLL  264 (506)
T KOG1279|consen  185 TLSLESKIKSLHINAGEHLCAIHCFIKEDPYYYDLTNRDVNLCADCYDQGEFPSEFKKSDFKVIGESARPNWTEQETLLL  264 (506)
T ss_pred             cccccccccccccChHhhccccchhccccchhhhcchhhhhhhHHHHhcCCccCccccccchhccccCCCCccHHHHHHH
Confidence            677778888888888899999999999863 2567888999999999988874444443     455666665  57899


Q ss_pred             HHHHHHhhhhcccccCCCCC
Q 019767          113 IRRVFDFLETWGLINYFASV  132 (336)
Q Consensus       113 i~Rih~FLe~wGlINy~~~~  132 (336)
                      +.+|+.|.+.|+-|+.+|.+
T Consensus       265 LE~ie~y~ddW~kVa~hVg~  284 (506)
T KOG1279|consen  265 LEAIEMYGDDWNKVADHVGT  284 (506)
T ss_pred             HHHHHHhcccHHHHHhccCC
Confidence            99999999999999999984

>cd02342 ZZ_UBA_plant Zinc finger, ZZ type

Probab=81.87  E-value=0.98  Score=32.06  Aligned_cols=31  Identities=32%  Similarity=0.690  Sum_probs=21.0

Q ss_pred             cCCCCCCc-cccccccccC-CCccchhhhhccC
Q 019767          162 LCNGCKTL-CTIACFACDK-YDLTLCARCYVRG  192 (336)
Q Consensus       162 ~C~~C~~~-~~~~~~~c~k-~d~~LC~~CF~~G  192 (336)
                      .|++|+.. +.-..|.|.. .|++||..||.+.
T Consensus         2 ~CDgCg~~PI~G~RykC~~C~dyDLC~~C~~~~   34 (43)
T cd02342           2 QCDGCGVLPITGPRYKSKVKEDYDLCTICFSRM   34 (43)
T ss_pred             CCCCCCCCcccccceEeCCCCCCccHHHHhhhh
Confidence            59999864 4333444432 4788999999873

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.

>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]

Probab=81.61  E-value=1.2  Score=46.13  Aligned_cols=51  Identities=16%  Similarity=0.386  Sum_probs=42.1

Q ss_pred             CCCCHHHHHHHHHHHHHhCCCHHHH-HHHhCCCCHHHHHHHHhcCCCCCccc
Q 019767          214 SDWTEKETLQLLEAIMHFGDDWRKV-AQHVSGKSEKDCITHFIKLPFGQEFI  264 (336)
Q Consensus       214 ~~WT~eE~~~LLeav~~yG~nW~~I-A~~VgtrT~~qC~~hf~~lPIeD~fl  264 (336)
                      ..||+-|-.++-||+++||.|+++| +++++=|+-..+++.|.-.--.|.|.
T Consensus       286 EEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYYmwKttdRYv  337 (693)
T KOG3554|consen  286 EEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYYMWKTTDRYV  337 (693)
T ss_pred             hhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHHHHhhhhHHH
Confidence            5899999999999999999999999 55677788888888776655555554

>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains

Probab=80.10  E-value=2.3  Score=33.54  Aligned_cols=43  Identities=21%  Similarity=0.466  Sum_probs=34.3

Q ss_pred             CCCHHHHHHHHHHHHHh-------C------CCHHHHHHHhC-----CCCHHHHHHHHhcC
Q 019767          215 DWTEKETLQLLEAIMHF-------G------DDWRKVAQHVS-----GKSEKDCITHFIKL  257 (336)
Q Consensus       215 ~WT~eE~~~LLeav~~y-------G------~nW~~IA~~Vg-----trT~~qC~~hf~~l  257 (336)
                      .||.+++..||+.+...       +      ..|+.|++.+.     ..|..||..||-.|
T Consensus         1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~l   61 (96)
T PF12776_consen    1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTL   61 (96)
T ss_pred             CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHH
Confidence            49999999999998544       1      14999998874     46899999998774

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	336
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 = 90.5 bits (223), 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 = 41.2 bits (95), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 27/59 (45%), Positives = 42/59 (71%), Gaps = 1/59 (1%)
Query: 212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESDS 270
           A  +WTE+ETL LLEA+  + DDW KV++HV  +++ +CI HF++LP    ++ + SDS
Sbjct: 17  AGREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLRLPIEDPYL-ENSDS 74

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	336
2fq3_A	104	Transcription regulatory protein SWI3; four-helix	2e-43
2dce_A	111	KIAA1915 protein; swirm domain, structural genomic	1e-37
2yus_A	79	SWI/SNF-related matrix-associated actin- dependent	1e-20
1x41_A	60	Transcriptional adaptor 2-like, isoform B; transcr	2e-14
2elk_A	58	SPCC24B10.08C protein; hypothetical protein, struc	4e-12
2ltp_A	89	Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s	9e-10
2cqr_A	73	RSGI RUH-043, DNAJ homolog subfamily C member 1; m	1e-09
2iw5_B	235	Protein corest, REST corepressor 1; oxidoreductase	7e-09
2cu7_A	72	KIAA1915 protein; nuclear protein, SANT domain, DN	6e-08
4a69_C	94	Nuclear receptor corepressor 2; transcription, hyd	1e-07
2xag_A	852	Lysine-specific histone demethylase 1; amine oxida	2e-07
2z3y_A	662	Lysine-specific histone demethylase 1; chromatin,	2e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-05
2eqr_A	61	N-COR1, N-COR, nuclear receptor corepressor 1; SAN	3e-06
2cjj_A	93	Radialis; plant development, DNA-binding protein,	3e-05
4eef_G	74	F-HB80.4, designed hemagglutinin binding protein;	6e-05
2xag_B	482	REST corepressor 1; amine oxidase, chromatin regul	6e-05
2d9a_A	60	B-MYB, MYB-related protein B; DNA binding, structu	7e-05
2din_A	66	Cell division cycle 5-like protein; MYB_DNA-bindin	2e-04
2yum_A	75	ZZZ3 protein, zinc finger ZZ-type-containing prote	2e-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
1h89_C	159	C-MYB, MYB proto-oncogene protein; transcription/D	3e-04
1tot_A	52	CREB-binding protein; zinc binding, CBP, TAZ2, tra	3e-04

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

 Score =  144 bits (365), Expect = 2e-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 =  129 bits (326), Expect = 1e-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 = 83.4 bits (206), Expect = 1e-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 = 2e-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 = 4e-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 = 53.8 bits (129), Expect = 9e-10
 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 = 52.9 bits (127), Expect = 1e-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 = 54.8 bits (130), Expect = 7e-09
 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 = 6e-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 = 48.0 bits (114), Expect = 1e-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 = 51.9 bits (123), Expect = 2e-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

>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 = 2e-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 = 48.3 bits (114), Expect = 2e-06
 Identities = 59/381 (15%), Positives = 101/381 (26%), Gaps = 140/381 (36%)

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

Query: 102 VRR-----------TLVGDVGS--------------IRRVFDFLETW-GLINYFASVKTL 135
           +R+            + G +GS              ++   DF   W  L N  +    L
Sbjct: 140 LRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL 199

Query: 136 K------------WEDKETKSSAASAESSSALKETSKRL----------------CN--- 164
           +            W  +   SS       S ++   +RL                 N   
Sbjct: 200 EMLQKLLYQIDPNWTSRSDHSSNIKLRIHS-IQAELRRLLKSKPYENCLLVLLNVQNAKA 258

Query: 165 ------GCKTLCTIACFACDKYDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTE 218
                  CK L T           T       R        S+        +      T 
Sbjct: 259 WNAFNLSCKILLT-----------T-------RFKQVTDFLSAATTTHISLDHHSMTLTP 300

Query: 219 KETLQLLEAIMHFG-DDWRKVAQHVS-------GKSEKDCITHFIKLPFGQEFICKESDS 270
            E   LL   +     D  +     +        +S +D +  +        +  K  + 
Sbjct: 301 DEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATW------DNW--KHVNC 352

Query: 271 EDVDNKF-FSINN--PSDAVSESENVGATSPSKRMRLTPLA--DASNPIMAQLSCRLW-- 323
           + +      S+N   P++               R     L+    S  I   L   +W  
Sbjct: 353 DKLTTIIESSLNVLEPAE--------------YRKMFDRLSVFPPSAHIPTILLSLIWFD 398

Query: 324 --------LVSRLL-KLLLEQ 335
                   +V++L    L+E+
Sbjct: 399 VIKSDVMVVVNKLHKYSLVEK 419

>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 = 43.7 bits (102), Expect = 8e-05
 Identities = 41/264 (15%), Positives = 84/264 (31%), Gaps = 88/264 (33%)

Query: 37  PDVVNVPS--YSR-WFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENP 93
           P   ++P+   S  WF  D I    +  + +        K P+       SI    +   
Sbjct: 382 PPSAHIPTILLSLIWF--DVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKL 439

Query: 94  SRKITFTDVRRTLVGDVGSIRRVFDFLETWGLI-----NYFAS-----VKT--------- 134
             +     + R++V D  +I + FD   +  LI      YF S     +K          
Sbjct: 440 ENE---YALHRSIV-DHYNIPKTFD---SDDLIPPYLDQYFYSHIGHHLKNIEHPERMTL 492

Query: 135 -------LKWEDKETKSSAASAESSSALKETSKRLCNGCKTLCTIACFACDKYDLTLCAR 187
                   ++ +++ +  + +  +S ++  T ++L                 Y      +
Sbjct: 493 FRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQL---------------KFY------K 531

Query: 188 CYVRGNHRVGVSSSDFRRVEISEEARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSE 247
            Y+  N         + R                  L+ AI+ F     K+ +++   S+
Sbjct: 532 PYICDNDP------KYER------------------LVNAILDF---LPKIEENLI-CSK 563

Query: 248 KDCITHFIKLPFGQEFICKESDSE 271
              +   I L    E I +E+  +
Sbjct: 564 YTDLLR-IALMAEDEAIFEEAHKQ 586

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

 Score = 43.2 bits (102), 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

>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 = 41.4 bits (97), Expect = 3e-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

>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 = 39.9 bits (93), Expect = 6e-05
 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

>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 = 43.4 bits (100), Expect = 6e-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

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

 Score = 39.1 bits (92), Expect = 7e-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

>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

>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 = 2e-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

>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 = 38.0 bits (89), 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 = 37.6 bits (88), 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

>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 = 39.9 bits (94), Expect = 3e-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

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

 Score = 37.4 bits (87), Expect = 3e-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

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	336
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	99.73
2elk_A	58	SPCC24B10.08C protein; hypothetical protein, struc	99.55
1x41_A	60	Transcriptional adaptor 2-like, isoform B; transcr	99.48
2cqr_A	73	RSGI RUH-043, DNAJ homolog subfamily C member 1; m	99.38
1gvd_A	52	MYB proto-oncogene protein; transcription, transcr	99.31
1guu_A	52	C-MYB, MYB proto-oncogene protein; transcription,	99.3
2d9a_A	60	B-MYB, MYB-related protein B; DNA binding, structu	99.28
1w0t_A	53	Telomeric repeat binding factor 1; telomere, DNA-b	99.28
2cu7_A	72	KIAA1915 protein; nuclear protein, SANT domain, DN	99.24
2yum_A	75	ZZZ3 protein, zinc finger ZZ-type-containing prote	99.24
2dim_A	70	Cell division cycle 5-like protein; MYB_DNA-bindin	99.23
3sjm_A	64	Telomeric repeat-binding factor 2; human telomeric	99.22
1ity_A	69	TRF1; helix-turn-helix, telomeres, DNA binding, MY	99.17
1wgx_A	73	KIAA1903 protein; MYB DNA-binding domain, human cD	99.13
2din_A	66	Cell division cycle 5-like protein; MYB_DNA-bindin	99.08
2llk_A	73	Cyclin-D-binding MYB-like transcription factor 1;	99.04
2ltp_A	89	Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s	98.58
2cjj_A	93	Radialis; plant development, DNA-binding protein,	99.01
2k9n_A	107	MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind	99.0
2eqr_A	61	N-COR1, N-COR, nuclear receptor corepressor 1; SAN	99.0
1gv2_A	105	C-MYB, MYB proto-oncogene protein; transcription,	98.99
3osg_A	126	MYB21; transcription-DNA complex, MYB2, R2R3 domai	98.95
2k9n_A	107	MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind	98.92
1h8a_C	128	AMV V-MYB, MYB transforming protein; transcription	98.91
1gv2_A	105	C-MYB, MYB proto-oncogene protein; transcription,	98.91
3zqc_A	131	MYB3; transcription-DNA complex, DNA-binding prote	98.9
2ckx_A	83	NGTRF1, telomere binding protein TBP1; nuclear pro	98.89
3osg_A	126	MYB21; transcription-DNA complex, MYB2, R2R3 domai	98.89
2iw5_B	235	Protein corest, REST corepressor 1; oxidoreductase	98.87
1h8a_C	128	AMV V-MYB, MYB transforming protein; transcription	98.85
3zqc_A	131	MYB3; transcription-DNA complex, DNA-binding prote	98.82
4gut_A	776	Lysine-specific histone demethylase 1B; histone de	98.71
2roh_A	122	RTBP1, telomere binding protein-1; plant, nucleus,	98.69
2aje_A	105	Telomere repeat-binding protein; DNA-binding, Trp,	98.67
1h89_C	159	C-MYB, MYB proto-oncogene protein; transcription/D	98.66
2z3y_A	662	Lysine-specific histone demethylase 1; chromatin,	98.66
1h89_C	159	C-MYB, MYB proto-oncogene protein; transcription/D	98.66
2cqq_A	72	RSGI RUH-037, DNAJ homolog subfamily C member 1; m	98.62
2yqk_A	63	Arginine-glutamic acid dipeptide repeats protein;	98.61
2juh_A	121	Telomere binding protein TBP1; helix, nucleus, nuc	98.61
2xag_B	482	REST corepressor 1; amine oxidase, chromatin regul	98.56
2crg_A	70	Metastasis associated protein MTA3; transcription	98.44
1x58_A	62	Hypothetical protein 4930532D21RIK; MUS musculus a	98.43
4eef_G	74	F-HB80.4, designed hemagglutinin binding protein;	98.4
4a69_C	94	Nuclear receptor corepressor 2; transcription, hyd	98.34
1ign_A	246	Protein (RAP1); RAP1,yeast,telomeres,homoeodomain,	98.2
2xag_A	852	Lysine-specific histone demethylase 1; amine oxida	97.87
3hm5_A	93	DNA methyltransferase 1-associated protein 1; DNA	97.38
1ug2_A	95	2610100B20RIK gene product; hypothetical protein,	97.31
1fex_A	59	TRF2-interacting telomeric RAP1 protein; helix tur	97.25
2ebi_A	86	DNA binding protein GT-1; DNA-binding domain, phos	96.91
2lr8_A	70	CAsp8-associated protein 2; structural genomics, n	95.73
2cuj_A	108	Transcriptional adaptor 2-like; transcriptional re	96.54
2aqe_A	90	Transcriptional adaptor 2, ADA2 alpha; helix-turn-	96.46
1ofc_X	304	ISWI protein; nuclear protein, chromatin remodelin	96.39
2elj_A	88	Transcriptional adapter 2; YDR448W, structural gen	96.31
2e5r_A	63	Dystrobrevin alpha; ZZ domain, structural genomics	96.18
2xag_B	482	REST corepressor 1; amine oxidase, chromatin regul	96.07
4iej_A	93	DNA methyltransferase 1-associated protein 1; DNA	95.97
2dip_A	98	Zinc finger SWIM domain-containing protein 2; ZZ d	95.44
4b4c_A	211	Chromodomain-helicase-DNA-binding protein 1; chrom	94.76
1irz_A	64	ARR10-B; helix-turn-helix, DNA binding protein; NM	94.72
2fc7_A	82	ZZZ3 protein; structure genomics, ZZ domain, struc	94.69
2xb0_X	270	Chromo domain-containing protein 1; hydrolase, DNA	94.52
1tot_A	52	CREB-binding protein; zinc binding, CBP, TAZ2, tra	93.36
4b4c_A	211	Chromodomain-helicase-DNA-binding protein 1; chrom	92.63
1ofc_X	304	ISWI protein; nuclear protein, chromatin remodelin	91.72
2y9y_A	374	Imitation switch protein 1 (DEL_ATPase); transcrip	89.45
2y9y_A	374	Imitation switch protein 1 (DEL_ATPase); transcrip	82.43

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

Probab=100.00  E-value=1.2e-42  Score=285.54  Aligned_cols=94  Identities=44%  Similarity=0.814  Sum_probs=84.7

Q ss_pred             ceeecCCCCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHHhccchHHHHHHHH
Q 019767           38 DVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVF  117 (336)
Q Consensus        38 ~~ivIPs~s~WF~~~~ih~iE~~~lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r~~l~gDv~~i~Rih  117 (336)
                      |+=..|+++.||++++||++|+++|||||+|++++|||++|++|||+||++||+||.+|||+|+||++|+|||++|+|||
T Consensus         9 ~~~~~p~~s~wF~~~~Ih~iEk~~lPEfF~g~~~~ktpe~Yl~iRN~iI~~yr~nP~~yLT~t~~r~~l~gDv~~i~RVh   88 (104)
T 2fq3_A            9 HHGMASSYSKWFNLEKIHSIEVQSLPEFFTNRIPSKTPEVYMRYRNFMVNSYRLNPNEYFSVTTARRNVSGDAAALFRLH   88 (104)
T ss_dssp             --------CTTCCTTCCCHHHHHHCGGGCCSSCTTSCHHHHHHHHHHHHHHHHHCTTSCCCHHHHHHHSCSCHHHHHHHH
T ss_pred             cCCCCCCcccccCcccCCHHHHHHChHHhcCCCCCCCHHHHHHHHHHHHHHHHhCCceeeeHHHHHHHccccHHHHHHHH
Confidence            34467999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhhcccccCCCC
Q 019767          118 DFLETWGLINYFAS  131 (336)
Q Consensus       118 ~FLe~wGlINy~~~  131 (336)
                      +|||+|||||||++
T Consensus        89 ~FLe~wGLIN~~v~  102 (104)
T 2fq3_A           89 KFLTKWGLINYQVD  102 (104)
T ss_dssp             HHHHHTTSSSSCC-
T ss_pred             HHHHHcCeeccCCC
Confidence            99999999999998

>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=7.8e-42  Score=284.21  Aligned_cols=93  Identities=30%  Similarity=0.468  Sum_probs=90.8

Q ss_pred             ceeecCCCCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHHhc--cchHHHHHH
Q 019767           38 DVVNVPSYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTL--VGDVGSIRR  115 (336)
Q Consensus        38 ~~ivIPs~s~WF~~~~ih~iE~~~lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r~~l--~gDv~~i~R  115 (336)
                      .+++||+|+.||++++||+||+++|||||+|+ ++|||++||+|||+||++||+||.+|||+|+|||+|  .|||++|+|
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 019767          116 VFDFLETWGLINYFAS  131 (336)
Q Consensus       116 ih~FLe~wGlINy~~~  131 (336)
                      ||+|||+|||||||++
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=99.73  E-value=7.6e-18  Score=131.98  Aligned_cols=58  Identities=45%  Similarity=0.955  Sum_probs=53.8

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcCCCCCcccCCCCC
Q 019767          211 EARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLPFGQEFICKESD  269 (336)
Q Consensus       211 ~~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~lPIeD~fl~~~~~  269 (336)
                      ..+..||++|+.+||+||++||++|.+||++||+||.+||+.||+++||+|+|+ .+.+
T Consensus        16 ~~~~~WT~eEd~~Ll~~v~~~G~~W~~IA~~v~~RT~~qcr~r~~~~~i~d~~~-~~~~   73 (79)
T 2yus_A           16 SAGREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLRLPIEDPYL-ENSD   73 (79)
T ss_dssp             CCSCCCCHHHHHHHHHHHHHSSSCHHHHHHHHSSCCHHHHHHHHTTSCCCCSSC-CCCC
T ss_pred             ccCCCcCHHHHHHHHHHHHHhCCCHHHHHHHcCCCCHHHHHHHHHHhccccccc-ccCC
Confidence            456899999999999999999999999999999999999999999999999999 4433

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

Probab=99.55  E-value=5.1e-15  Score=109.10  Aligned_cols=49  Identities=24%  Similarity=0.630  Sum_probs=46.1

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC-CCCHHHHHHHHhcCCCC
Q 019767          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVS-GKSEKDCITHFIKLPFG  260 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~Vg-trT~~qC~~hf~~lPIe  260 (336)
                      .+..||++||.+|+++|++|| +||.+||++|| +||+.||+.||.+++|.
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            467899999999999999999 99999999999 99999999999998873

>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=99.48  E-value=5.1e-14  Score=104.25  Aligned_cols=51  Identities=33%  Similarity=0.754  Sum_probs=46.9

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcCCCCC
Q 019767          211 EARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKLPFGQ  261 (336)
Q Consensus       211 ~~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~~lPIeD  261 (336)
                      ..+..||.+||.+|+++|++|| ++|.+||++|++||..||+.||.++.+..
T Consensus         6 ~~~~~WT~eED~~L~~~v~~~G~~~W~~Ia~~~~~Rt~~qcr~r~~~~l~~~   57 (60)
T 1x41_A            6 SGDPSWTAQEEMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHYMKYFSGP   57 (60)
T ss_dssp             CCCSSSCHHHHHHHHHHHHHTCTTCHHHHHHHHTTSCHHHHHHHHHHHTTCS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHCcCcHHHHHHHhCCCCHHHHHHHHHHHccCC
Confidence            3567899999999999999999 89999999999999999999999876654

>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=99.38  E-value=3e-13  Score=104.39  Aligned_cols=63  Identities=32%  Similarity=0.482  Sum_probs=54.3

Q ss_pred             CCCceecccCcccCCCCCHHHHHHHHHHHHHhC----CCHHHHHHHhCCCCHHHHHHHHhcCCCCCcc
Q 019767          200 SSDFRRVEISEEARSDWTEKETLQLLEAIMHFG----DDWRKVAQHVSGKSEKDCITHFIKLPFGQEF  263 (336)
Q Consensus       200 s~df~ki~~~~~~~~~WT~eE~~~LLeav~~yG----~nW~~IA~~VgtrT~~qC~~hf~~lPIeD~f  263 (336)
                      ..++.+.+.+...+..||.+|+.+|++||.+||    ++|.+||++|++||..||+.||..| ++|+.
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            456666666666788999999999999999999    6899999999999999999999986 56554

>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=99.31  E-value=2e-12  Score=92.69  Aligned_cols=45  Identities=24%  Similarity=0.699  Sum_probs=42.5

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ++.||.+|+.+|+++|++|| ++|..||+++++||..||+.||.++
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            57899999999999999999 5899999999999999999999874

>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=99.30  E-value=2.3e-12  Score=92.29  Aligned_cols=45  Identities=22%  Similarity=0.604  Sum_probs=42.4

Q ss_pred             CCCCCHHHHHHHHHHHHHhCC-CHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFGD-DWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~-nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ++.||.+|+.+|+++|++||. +|..||++|++||..||+.||.++
T Consensus         3 ~~~Wt~eED~~L~~~v~~~G~~~W~~Ia~~~~~Rt~~qcr~Rw~~~   48 (52)
T 1guu_A            3 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKV   48 (52)
T ss_dssp             CCCCCHHHHHHHHHHHHHHCSSCHHHHHHTSTTCCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHhCCCCHHHHHHHcCCCCHHHHHHHHHHH
Confidence            578999999999999999995 999999999999999999999873

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

Probab=99.28  E-value=5e-12  Score=93.17  Aligned_cols=46  Identities=26%  Similarity=0.727  Sum_probs=43.4

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .+..||.+||.+|+++|++|| ++|..||++|++||..||+.||.++
T Consensus         7 ~k~~Wt~eED~~L~~~v~~~G~~~W~~Ia~~~~~Rt~~qcr~Rw~~~   53 (60)
T 2d9a_A            7 GKVKWTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRWLRV   53 (60)
T ss_dssp             CCSCCCHHHHHHHHHHHHHTCTTCHHHHHHHCSSSCHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHHHHHhCCCCHHHHHHHccCCCHHHHHHHHHHH
Confidence            467899999999999999999 7999999999999999999999874

>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=99.28  E-value=4.1e-12  Score=91.52  Aligned_cols=45  Identities=18%  Similarity=0.437  Sum_probs=42.5

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC--CCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVS--GKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG-~nW~~IA~~Vg--trT~~qC~~hf~~l  257 (336)
                      ++.||.+||.+|+++|++|| ++|..||++++  +||..||+.||.++
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            46899999999999999999 89999999999  99999999999864

>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=99.24  E-value=9.7e-12  Score=95.05  Aligned_cols=47  Identities=15%  Similarity=0.341  Sum_probs=44.1

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          211 EARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       211 ~~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ..++.||.+|+.+|+++|++||.+|..||++|++||..||+.||..+
T Consensus         7 ~~~~~WT~eEd~~l~~~~~~~G~~W~~Ia~~~~~Rt~~q~k~r~~~~   53 (72)
T 2cu7_A            7 GYSVKWTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQY   53 (72)
T ss_dssp             SCCCCCCHHHHHHHHHHHHHTCSCHHHHHHHHSSSCHHHHHHHHHHH
T ss_pred             cCCCCCCHHHHHHHHHHHHHHCcCHHHHHHHcCCCCHHHHHHHHHHH
Confidence            34679999999999999999999999999999999999999999874

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

Probab=99.24  E-value=4.2e-12  Score=97.59  Aligned_cols=47  Identities=19%  Similarity=0.473  Sum_probs=43.4

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhC------CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          211 EARSDWTEKETLQLLEAIMHFG------DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       211 ~~~~~WT~eE~~~LLeav~~yG------~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ..+..||.+|+.+|+++|++||      ++|..||++|++||..||+.||.++
T Consensus         6 ~~~~~WT~eEd~~L~~~v~~~g~~~~~~~~W~~IA~~~~~Rt~~qcr~r~~~~   58 (75)
T 2yum_A            6 SGNQLWTVEEQKKLEQLLIKYPPEEVESRRWQKIADELGNRTAKQVASQVQKY   58 (75)
T ss_dssp             CCSSCCCHHHHHHHHHHHHHSCCCSCHHHHHHHHHHHHSSSCHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHhCCCCCCcccHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3467899999999999999999      7899999999999999999999753

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

Probab=99.23  E-value=1.3e-11  Score=93.77  Aligned_cols=46  Identities=26%  Similarity=0.593  Sum_probs=43.5

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .++.||.+|+.+|+++|++|| ++|..||++|++||..||+.||.++
T Consensus         8 k~~~Wt~eED~~L~~~v~~~G~~~W~~Ia~~l~~Rt~~qcr~Rw~~~   54 (70)
T 2dim_A            8 KGGVWRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEW   54 (70)
T ss_dssp             TTCCCCHHHHHHHHHHHHHTCSSCHHHHHHHSTTCCHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHHHHHHCcCCHHHHHHHhcCCCHHHHHHHHHHH
Confidence            457899999999999999999 8999999999999999999999984

>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=99.22  E-value=1.2e-11  Score=92.92  Aligned_cols=46  Identities=11%  Similarity=0.409  Sum_probs=42.3

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC--CCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVS--GKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~Vg--trT~~qC~~hf~~l  257 (336)
                      .+..||.+||.+|+++|++|| ++|..||++++  +||..||+.||.+|
T Consensus        10 kk~~WT~eED~~L~~~V~~~G~~~W~~Ia~~~~~~~Rt~~qcr~Rw~nl   58 (64)
T 3sjm_A           10 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTM   58 (64)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHCTTCHHHHHHHSCCSSCCHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHccCCCchHHHHhhcCCCCCCHHHHHHHHHHH
Confidence            357899999999999999999 79999999977  89999999999764

>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=99.17  E-value=2.6e-11  Score=91.86  Aligned_cols=46  Identities=17%  Similarity=0.424  Sum_probs=43.4

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC--CCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVS--GKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~Vg--trT~~qC~~hf~~l  257 (336)
                      .+..||.+|+.+|+++|++|| ++|..||++++  +||..||+.||.++
T Consensus         9 ~r~~WT~eED~~L~~~v~~~G~~~W~~Ia~~~~~~~Rt~~qcr~Rw~~~   57 (69)
T 1ity_A            9 KRQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRWRTM   57 (69)
T ss_dssp             SCCCCCHHHHHHHHHHHHHHCSSCHHHHHHHSCCSSCCHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCcHHHHHHHcCcCCCCHHHHHHHHHHH
Confidence            467899999999999999999 89999999999  99999999999974

>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=99.13  E-value=5.1e-11  Score=91.89  Aligned_cols=45  Identities=27%  Similarity=0.535  Sum_probs=42.6

Q ss_pred             CCCCCHHHHHHHHHHHHHhC----CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFG----DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG----~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ...||.+|+.+|.+||..|+    ++|++||++||+||.+||+.||..|
T Consensus         8 ~~~WT~eE~k~fe~ALa~~~~~tp~rWe~IA~~V~gKT~eE~~~hY~~l   56 (73)
T 1wgx_A            8 DKEWNEKELQKLHCAFASLPKHKPGFWSEVAAAVGSRSPEECQRKYMEN   56 (73)
T ss_dssp             SSCCCHHHHHHHHHHHHHSCSSSSSHHHHHHHHTTTSCHHHHHHHHHHS
T ss_pred             CCCCCHHHHHHHHHHHHHCCCCCccHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            46899999999999999998    5799999999999999999999998

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

Probab=99.08  E-value=1.1e-10  Score=87.62  Aligned_cols=46  Identities=24%  Similarity=0.645  Sum_probs=41.8

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          211 EARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       211 ~~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ..+..||.+|+.+|+++++.||.+|.+||+.+ +||..||+.||..+
T Consensus         7 ~~k~~WT~eED~~L~~~~~~~g~~W~~Ia~~~-gRt~~qcr~Rw~~~   52 (66)
T 2din_A            7 GKKTEWSREEEEKLLHLAKLMPTQWRTIAPII-GRTAAQCLEHYEFL   52 (66)
T ss_dssp             SSCCCCCHHHHHHHHHHHHHCTTCHHHHHHHH-SSCHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHcCCCHHHHhccc-CcCHHHHHHHHHHH
Confidence            34678999999999999999999999999955 59999999999974

>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=99.04  E-value=3e-10  Score=87.58  Aligned_cols=46  Identities=20%  Similarity=0.382  Sum_probs=43.2

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          211 EARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       211 ~~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ..++.||.+||.+|++++++||.+|..||+++ +||..||+.||..|
T Consensus        21 i~k~~wT~EED~~L~~l~~~~G~kW~~IA~~l-gRt~~q~knRw~~L   66 (73)
T 2llk_A           21 NHVGKYTPEEIEKLKELRIKHGNDWATIGAAL-GRSASSVKDRCRLM   66 (73)
T ss_dssp             CCCCSSCHHHHHHHHHHHHHHSSCHHHHHHHH-TSCHHHHHHHHHHC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHh-CCCHHHHHHHHHHH
Confidence            45789999999999999999999999999999 99999999999875

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

Probab=98.58  E-value=3e-11  Score=96.23  Aligned_cols=47  Identities=21%  Similarity=0.490  Sum_probs=44.0

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          211 EARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       211 ~~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ...+.||.+|+.+|+++|++||.+|..||++|++||..||+.||..+
T Consensus        14 ~~~~~WT~eEd~~l~~~~~~~G~~W~~IA~~l~gRt~~q~k~r~~~~   60 (89)
T 2ltp_A           14 LYFQGWTEEEMGTAKKGLLEHGRNWSAIARMVGSKTVSQCKNFYFNY   60 (89)
Confidence            34679999999999999999999999999999999999999999864

>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=99.01  E-value=2.5e-10  Score=91.89  Aligned_cols=46  Identities=26%  Similarity=0.570  Sum_probs=42.4

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC----CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFG----DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG----~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .+..||.+|+.+|++||.+||    +.|.+||++|++||.+||+.||..|
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            357899999999999999997    5699999999999999999999986

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

Probab=99.00  E-value=4.2e-10  Score=91.82  Aligned_cols=44  Identities=25%  Similarity=0.653  Sum_probs=41.9

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhc
Q 019767          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIK  256 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~~  256 (336)
                      ++.||.+|+.+|+++|++|| ++|..||++|++||..||+.||.+
T Consensus         1 K~~Wt~eED~~L~~~v~~~g~~~W~~Ia~~~~~Rt~~qcr~Rw~~   45 (107)
T 2k9n_A            1 KVKFTEEEDLKLQQLVMRYGAKDWIRISQLMITRNPRQCRERWNN   45 (107)
T ss_dssp             CCSSCHHHHHHHHHHHHHHCSSCHHHHHHHTTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCCHHHHhhhcCCCCHHHHHHHHHH
Confidence            46899999999999999999 699999999999999999999987

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

Probab=99.00  E-value=5.9e-10  Score=82.70  Aligned_cols=45  Identities=18%  Similarity=0.349  Sum_probs=42.2

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 019767          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~  256 (336)
                      ....||++|..++++++.+||.+|..||++|++||..||+.||..
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            347899999999999999999999999999999999999999864

>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=98.99  E-value=4.3e-10  Score=91.09  Aligned_cols=46  Identities=22%  Similarity=0.662  Sum_probs=43.3

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .++.||.+|+.+|+++|++|| ++|..||++|++||..||+.||.++
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            467899999999999999999 5899999999999999999999984

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

Probab=98.95  E-value=7.3e-10  Score=92.99  Aligned_cols=47  Identities=19%  Similarity=0.499  Sum_probs=44.1

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          211 EARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       211 ~~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ..++.||.+|+.+|+++|++||.+|..||+++++||..||+.||.++
T Consensus         9 ~kk~~WT~eED~~L~~~v~~~G~~W~~Ia~~~~~Rt~~qcr~Rw~~~   55 (126)
T 3osg_A            9 AKKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNY   55 (126)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHTTCHHHHHHTCTTCCHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHhCCCHHHHHHHcCCCCHHHHHHHHhhh
Confidence            34688999999999999999999999999999999999999999973

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

Probab=98.92  E-value=1.1e-09  Score=89.34  Aligned_cols=46  Identities=15%  Similarity=0.532  Sum_probs=43.3

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .++.||.+|+.+|++++.+||.+|..||++|++||..||+.||..+
T Consensus        52 ~~~~WT~eEd~~L~~~~~~~G~~W~~Ia~~l~gRt~~~~k~rw~~l   97 (107)
T 2k9n_A           52 RTDPWSPEEDMLLDQKYAEYGPKWNKISKFLKNRSDNNIRNRWMMI   97 (107)
T ss_dssp             TTCCCCHHHHHHHHHHHHHTCSCHHHHHHHHSSSCHHHHHHHHHHH
T ss_pred             cccccCHHHHHHHHHHHHHhCcCHHHHHHHCCCCCHHHHHHHHHHH
Confidence            3579999999999999999999999999999999999999999864

>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=98.91  E-value=1.7e-09  Score=90.69  Aligned_cols=47  Identities=23%  Similarity=0.667  Sum_probs=43.6

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          211 EARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       211 ~~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ..++.||.+|+.+|+++|++|| ++|.+||++|++||..||+.||.++
T Consensus        25 ~~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia~~l~~Rt~~qcr~Rw~~~   72 (128)
T 1h8a_C           25 LNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKGRIGKQCRERWHNH   72 (128)
T ss_dssp             CCCSCCCHHHHHHHHHHHHHTCSCCHHHHHHHSSSCCHHHHHHHHHHT
T ss_pred             CCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHhcCCcHHHHHHHHHHh
Confidence            3468899999999999999999 6899999999999999999999983

>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=98.91  E-value=9.9e-10  Score=88.97  Aligned_cols=46  Identities=22%  Similarity=0.571  Sum_probs=43.2

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .++.||.+|+.+|++++.+||.+|..||++|++||..||+.||..+
T Consensus        55 ~~~~Wt~eEd~~L~~~~~~~G~~W~~Ia~~l~gRt~~~~k~rw~~~  100 (105)
T 1gv2_A           55 KKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNST  100 (105)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHSSCHHHHHTTCTTCCHHHHHHHHHHH
T ss_pred             cccCCCHHHHHHHHHHHHHhCCCHHHHHHHcCCCCHHHHHHHHHHH
Confidence            4678999999999999999999999999999999999999999763

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

Probab=98.90  E-value=8.1e-10  Score=93.24  Aligned_cols=45  Identities=20%  Similarity=0.478  Sum_probs=42.8

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ++.||.+||.+|+++|++|| ++|..||++|++||..||+.||.++
T Consensus         2 Kg~Wt~eED~~L~~~v~~~g~~~W~~Ia~~~~~Rt~~qcr~Rw~~~   47 (131)
T 3zqc_A            2 KGPFTEAEDDLIREYVKENGPQNWPRITSFLPNRSPKQCRERWFNH   47 (131)
T ss_dssp             CSSCCHHHHHHHHHHHHHHCSCCGGGGTTSCTTSCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHhCcCCHHHHHHHHCCCCHHHHHHHHhhc
Confidence            57899999999999999999 8999999999999999999999873

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

Probab=98.89  E-value=1.5e-09  Score=85.56  Aligned_cols=44  Identities=25%  Similarity=0.441  Sum_probs=41.2

Q ss_pred             CCCCHHHHHHHHHHHHHhC-CCHHHHHHH----hCCCCHHHHHHHHhcC
Q 019767          214 SDWTEKETLQLLEAIMHFG-DDWRKVAQH----VSGKSEKDCITHFIKL  257 (336)
Q Consensus       214 ~~WT~eE~~~LLeav~~yG-~nW~~IA~~----VgtrT~~qC~~hf~~l  257 (336)
                      +.||.+|+..|+++|++|| |+|.+|++.    +.+||..+|+.||.++
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            4799999999999999999 799999996    7899999999999885

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

Probab=98.89  E-value=1.2e-09  Score=91.61  Aligned_cols=46  Identities=20%  Similarity=0.596  Sum_probs=43.2

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .++.||.+|+.+|+++|++||.+|..||++|++||..||+.||..+
T Consensus        61 ~~~~WT~eEd~~L~~~v~~~G~~W~~Ia~~l~gRt~~~~k~rw~~l  106 (126)
T 3osg_A           61 SHTPWTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVTI  106 (126)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHCSCHHHHHTTSTTCCHHHHHHHHHHH
T ss_pred             ccccCCHHHHHHHHHHHHHHCcCHHHHHHHcCCCCHHHHHHHHHHH
Confidence            3578999999999999999999999999999999999999999773

>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=98.87  E-value=2.4e-09  Score=98.36  Aligned_cols=47  Identities=23%  Similarity=0.525  Sum_probs=44.0

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          211 EARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       211 ~~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .....||++|..++++|+.+||.||..||++||+||..||+.||...
T Consensus       131 k~s~~WTeEE~~lFleAl~kYGKDW~~IAk~VgTKT~~QcKnfY~~~  177 (235)
T 2iw5_B          131 KCNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVNY  177 (235)
T ss_dssp             CCCSSCCHHHHHHHHHHHHHHSSCHHHHHHHHSSCCHHHHHHHHHHT
T ss_pred             ccCCCCCHHHHHHHHHHHHHHCcCHHHHHHHcCCCCHHHHHHHHHHH
Confidence            34678999999999999999999999999999999999999999864

>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=98.85  E-value=2.9e-09  Score=89.29  Aligned_cols=46  Identities=22%  Similarity=0.579  Sum_probs=43.5

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .++.||.+|+.+|++++.+||.+|..||++|++||..||+.||..+
T Consensus        78 ~~~~WT~eEd~~L~~~~~~~G~~W~~Ia~~l~gRt~~~~k~r~~~~  123 (128)
T 1h8a_C           78 KKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNST  123 (128)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHCSCHHHHGGGSTTCCHHHHHHHHHTT
T ss_pred             ccccCCHHHHHHHHHHHHHHCcCHHHHHHHCCCCCHHHHHHHHHHH
Confidence            3578999999999999999999999999999999999999999875

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

Probab=98.82  E-value=3.3e-09  Score=89.46  Aligned_cols=46  Identities=15%  Similarity=0.503  Sum_probs=43.6

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .++.||.+|+.+|++++.+||.+|..||++|++||..||+.||..+
T Consensus        53 ~~~~Wt~eEd~~L~~~~~~~G~~W~~Ia~~l~gRt~~~~k~rw~~~   98 (131)
T 3zqc_A           53 VKHAWTPEEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSS   98 (131)
T ss_dssp             CCSCCCHHHHHHHHHHHHHSCSCHHHHTTTSTTCCHHHHHHHHHHT
T ss_pred             cCCCCCHHHHHHHHHHHHHHCcCHHHHHHHcCCCCHHHHHHHHHHH
Confidence            3578999999999999999999999999999999999999999885

>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=98.71  E-value=3.4e-08  Score=105.03  Aligned_cols=90  Identities=22%  Similarity=0.272  Sum_probs=75.8

Q ss_pred             CCceeecCCCCCCCCC------------CCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHH
Q 019767           36 EPDVVNVPSYSRWFSF------------DSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVR  103 (336)
Q Consensus        36 q~~~ivIPs~s~WF~~------------~~ih~iE~~~lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r  103 (336)
                      +++...+..|..+|-.            |.|+..|+..||||..+      +.+|+.|||.|+.+|+.||...||...|+
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            4556667778888855            99999999999999975      57999999999999999999999999998


Q ss_pred             Hhcc-------chHHHHHHHHHhhhhcccccCCCC
Q 019767          104 RTLV-------GDVGSIRRVFDFLETWGLINYFAS  131 (336)
Q Consensus       104 ~~l~-------gDv~~i~Rih~FLe~wGlINy~~~  131 (336)
                      +.+.       .++..+.+|++||.++|+||+++.
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

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

Probab=98.69  E-value=1.7e-08  Score=84.97  Aligned_cols=46  Identities=28%  Similarity=0.431  Sum_probs=42.6

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHh----CCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHV----SGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~V----gtrT~~qC~~hf~~l  257 (336)
                      .++.||.+|+..|+++|++|| |+|.+|+++.    .+||..+|..||.++
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            468999999999999999999 7999999985    789999999999885

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

Probab=98.67  E-value=1.5e-08  Score=83.12  Aligned_cols=46  Identities=22%  Similarity=0.380  Sum_probs=42.5

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHh----CCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHV----SGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~V----gtrT~~qC~~hf~~l  257 (336)
                      .+..||.+|+..|+++|++|| |+|.+|++..    .+||..+|..||..+
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            468999999999999999999 7999999976    689999999999885

>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=98.66  E-value=2.4e-08  Score=86.54  Aligned_cols=46  Identities=22%  Similarity=0.662  Sum_probs=43.1

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .++.||.+|+.+|+++|++|| ++|..||+++++||..||+.||..+
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            467999999999999999999 5899999999999999999999874

>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=98.66  E-value=1.9e-08  Score=104.56  Aligned_cols=85  Identities=24%  Similarity=0.502  Sum_probs=74.6

Q ss_pred             CCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHHhc----cchHHHHHHHHHhh
Q 019767           45 YSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTL----VGDVGSIRRVFDFL  120 (336)
Q Consensus        45 ~s~WF~~~~ih~iE~~~lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r~~l----~gDv~~i~Rih~FL  120 (336)
                      +++.|+.+.+|+.|+..|||+..+  +..+...|+.|||.|+.+|+.||..+||..+|...+    ..|-..|.+|++|+
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  222446899999999999999999999999996544    46888999999999


Q ss_pred             hhcccccCCCC
Q 019767          121 ETWGLINYFAS  131 (336)
Q Consensus       121 e~wGlINy~~~  131 (336)
                      .++|+||++..
T Consensus        86 ~~~~~~~~~~~   96 (662)
T 2z3y_A           86 ERHGLINFGIY   96 (662)
T ss_dssp             HHTTSSSCSSC
T ss_pred             HHHHHHhcCCc
Confidence            99999998876

>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=98.66  E-value=2.4e-08  Score=86.56  Aligned_cols=46  Identities=22%  Similarity=0.571  Sum_probs=43.5

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .++.||.+|+.+|++++.+||.+|..||++|++||..+|..||..+
T Consensus       109 ~~~~WT~eEd~~L~~~~~~~g~~W~~Ia~~l~gRt~~~~knr~~~~  154 (159)
T 1h89_C          109 KKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNST  154 (159)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHCSCHHHHHTTSTTCCHHHHHHHHHTT
T ss_pred             cccCCChHHHHHHHHHHHHHCCCHHHHHHHCCCCCHHHHHHHHHHH
Confidence            3578999999999999999999999999999999999999999875

>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=98.62  E-value=3.1e-08  Score=76.09  Aligned_cols=50  Identities=28%  Similarity=0.522  Sum_probs=44.1

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC----CCHHHHHHHhCCCCHHHHHHHHhcCCCCCcc
Q 019767          212 ARSDWTEKETLQLLEAIMHFG----DDWRKVAQHVSGKSEKDCITHFIKLPFGQEF  263 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG----~nW~~IA~~VgtrT~~qC~~hf~~lPIeD~f  263 (336)
                      ....||.+|+.+|..|+.+|+    +.|++||+++ +||.+||+.||..| .+|..
T Consensus         7 ~~~~WT~eE~k~fe~al~~~p~~t~~RW~~IA~~l-gRt~~eV~~~y~~L-~~d~~   60 (72)
T 2cqq_A            7 GAPEWTEEDLSQLTRSMVKFPGGTPGRWEKIAHEL-GRSVTDVTTKAKQL-KDSVT   60 (72)
T ss_dssp             CCCCCCHHHHHHHHHHHHHSCTTCTTHHHHHHHHH-TSCHHHHHHHHHHH-HHSCC
T ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCCcHHHHHHHHh-CCCHHHHHHHHHHH-HHhcC
Confidence            356899999999999999998    4699999999 59999999999998 66643

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

Probab=98.61  E-value=7.1e-08  Score=71.99  Aligned_cols=44  Identities=18%  Similarity=0.507  Sum_probs=41.1

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHH-hCCCCHHHHHHHHh
Q 019767          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQH-VSGKSEKDCITHFI  255 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG~nW~~IA~~-VgtrT~~qC~~hf~  255 (336)
                      ....||++|..++++|+.+||.||..|+++ |++||..||+.+|.
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

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

Probab=98.61  E-value=2.5e-08  Score=83.82  Aligned_cols=46  Identities=26%  Similarity=0.450  Sum_probs=42.6

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHh----CCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHV----SGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~V----gtrT~~qC~~hf~~l  257 (336)
                      .+..||.+|+..|+++|++|| |+|.+|+++.    .+||..+|..||..+
T Consensus        16 ~r~~WT~EEd~~L~~gV~k~G~G~W~~Ia~~~~~~f~~RT~v~lKdRWrnl   66 (121)
T 2juh_A           16 IRRPFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTL   66 (121)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHGGGCHHHHHHHHCSCCSSCCSHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHhccccCCCCHHHHHHHHHHH
Confidence            468999999999999999999 7999999996    689999999999874

>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=98.56  E-value=6.4e-08  Score=97.69  Aligned_cols=46  Identities=24%  Similarity=0.536  Sum_probs=43.5

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 019767          211 EARSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (336)
Q Consensus       211 ~~~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~  256 (336)
                      .....||.+|..++++||.+||.||..||++|||||..||+.||..
T Consensus       378 ~~~~~WT~eE~~~f~~al~~yGkdw~~IA~~VgTKT~~Qvk~fy~~  423 (482)
T 2xag_B          378 KCNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVN  423 (482)
T ss_dssp             CCCSCCCHHHHHHHHHHHHHHTTCHHHHHHHHSSCCHHHHHHHHHH
T ss_pred             ccCCCCCHHHHHHHHHHHHHHCcCHHHHHHHhCCCCHHHHHHHHHH
Confidence            3467899999999999999999999999999999999999999976

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

Probab=98.44  E-value=2.7e-07  Score=70.26  Aligned_cols=51  Identities=20%  Similarity=0.383  Sum_probs=43.9

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHH-hCCCCHHHHHHHHhcCCCCCcc
Q 019767          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQH-VSGKSEKDCITHFIKLPFGQEF  263 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~nW~~IA~~-VgtrT~~qC~~hf~~lPIeD~f  263 (336)
                      ...||++|..++.+|+.+||.||..|+++ |++||..||+.+|-.---.+.|
T Consensus         8 ~~~WT~eE~~~Fe~~l~~yGKdf~~I~~~~v~~Kt~~~~v~fYY~wKkt~~y   59 (70)
T 2crg_A            8 MEEWSASEACLFEEALEKYGKDFNDIRQDFLPWKSLTSIIEYYYMWKTTDRY   59 (70)
T ss_dssp             SCCCCHHHHHHHHHHHHHTCSCHHHHHHTTCSSSCHHHHHHHHHHHHTCCSS
T ss_pred             CCCCCHHHHHHHHHHHHHhCccHHHHHHHHcCCCCHHHHHHHHHhhcCCchH
Confidence            46899999999999999999999999995 9999999999999753333334

>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=98.43  E-value=1.9e-07  Score=69.67  Aligned_cols=46  Identities=22%  Similarity=0.497  Sum_probs=41.7

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHH---HhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFGDDWRKVAQ---HVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG~nW~~IA~---~VgtrT~~qC~~hf~~l  257 (336)
                      .+..||.+|+..|+++|++||.+|.+|+.   .+..||.-....+|.+|
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            46789999999999999999999999995   56789999999999774

>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=98.40  E-value=3.2e-08  Score=76.06  Aligned_cols=43  Identities=28%  Similarity=0.533  Sum_probs=38.9

Q ss_pred             CCCCCHHHHHHHHHHHHHhC----CCHHHHHHHhCCCCHHHHHHHHh
Q 019767          213 RSDWTEKETLQLLEAIMHFG----DDWRKVAQHVSGKSEKDCITHFI  255 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG----~nW~~IA~~VgtrT~~qC~~hf~  255 (336)
                      ...||.+|..+|..||.+|+    +.|++||+.||+||.+||+.||-
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            46899999999999999999    47999999999999999999984

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

Probab=98.34  E-value=5.8e-07  Score=72.23  Aligned_cols=44  Identities=18%  Similarity=0.410  Sum_probs=41.7

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 019767          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~  256 (336)
                      ...||++|..++.+++..||.+|..||++|++||..||+.+|..
T Consensus        43 ~~~WT~eE~~~F~~~~~~~gK~F~~Ia~~l~~Kt~~~cV~~YY~   86 (94)
T 4a69_C           43 MNMWSEQEKETFREKFMQHPKNFGLIASFLERKTVAECVLYYYL   86 (94)
T ss_dssp             TCCCCHHHHHHHHHHHHHSTTCHHHHHHTCTTCCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHcCCCHHHHHHHcCCCCHHHHHHHHhc
Confidence            57899999999999999999999999999999999999999853

>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=98.20  E-value=7.8e-07  Score=82.40  Aligned_cols=46  Identities=11%  Similarity=0.245  Sum_probs=42.0

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCC------HHHHHHHhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFGDD------WRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG~n------W~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .+..||.+|+.+||++|++||..      |.+||+++++||..||+.||..+
T Consensus         7 ~k~~FT~EED~~Ile~v~k~Gn~r~ghk~W~~IAk~LpGRT~nsIRnRw~~~   58 (246)
T 1ign_A            7 NKASFTDEEDEFILDVVRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRFRVY   58 (246)
T ss_dssp             -CCCCCHHHHHHHHHHHHTSGGGTTCSHHHHHHTTTSTTSCHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHHHHHhCcCccccccHHHHHHHcCCCCHHHHHHHHHHH
Confidence            46789999999999999999953      99999999999999999999874

>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=97.87  E-value=1.5e-05  Score=85.67  Aligned_cols=86  Identities=22%  Similarity=0.485  Sum_probs=74.2

Q ss_pred             CCCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHHh----ccchHHHHHHHHHh
Q 019767           44 SYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRT----LVGDVGSIRRVFDF  119 (336)
Q Consensus        44 s~s~WF~~~~ih~iE~~~lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r~~----l~gDv~~i~Rih~F  119 (336)
                      .|.++++.+.+|..|+.+|+++-..  .-....+|+.+||.|+..|+.||...++..+|...    +..|-..|.++++|
T Consensus       178 a~~~r~p~~~~~~~e~~~f~~~~~~--~~~~~~~~~~~rn~i~~~w~~~P~~a~~~~~~~~~~~r~~~~~p~~i~~~~~~  255 (852)
T 2xag_A          178 AFQSRLPHDRMTSQEAACFPDIISG--PQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAPYNSDTVLVHRVHSY  255 (852)
T ss_dssp             HHTTTCCTTSCCHHHHHHCHHHHTS--CHHHHHHHHHHHHHHHHHHHTCTTBCCCHHHHHHHCCTTTTSCHHHHHHHHHH
T ss_pred             HHHhcCCCcccChHHHHHHHHHHHh--hhhhcCeeeEeecchhHHHhcCCHHHhhHHHHHHhCCCcccCCcHHHHHHHHH
Confidence            4688999999999999999998864  11245799999999999999999999998887544    44688999999999


Q ss_pred             hhhcccccCCCC
Q 019767          120 LETWGLINYFAS  131 (336)
Q Consensus       120 Le~wGlINy~~~  131 (336)
                      +.+||+||++..
T Consensus       256 ~~~~~~~~~~~~  267 (852)
T 2xag_A          256 LERHGLINFGIY  267 (852)
T ss_dssp             HHHTTSSSCSSC
T ss_pred             HHHHHHHhcCcc
Confidence            999999998876

>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=97.38  E-value=0.00021  Score=57.30  Aligned_cols=43  Identities=19%  Similarity=0.318  Sum_probs=40.8

Q ss_pred             CCCCHHHHHHHHHHHHHhCCCHHHHHHHh-----CCCCHHHHHHHHhc
Q 019767          214 SDWTEKETLQLLEAIMHFGDDWRKVAQHV-----SGKSEKDCITHFIK  256 (336)
Q Consensus       214 ~~WT~eE~~~LLeav~~yG~nW~~IA~~V-----gtrT~~qC~~hf~~  256 (336)
                      .+||.+|+..|++.+++||-.|-.|++..     ++||.++.+.||-.
T Consensus        31 ~~WTkEETd~Lf~L~~~fdlRW~vI~DRy~~~~~~~Rt~EdLK~RyY~   78 (93)
T 3hm5_A           31 DAWTKAETDHLFDLSRRFDLRFVVIHDRYDHQQFKKRSVEDLKERYYH   78 (93)
T ss_dssp             TTBCHHHHHHHHHHHHHTTTCHHHHHHHSCTTTSCCCCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhCCCeeeehhhhccCCCCCCCHHHHHHHHHH
Confidence            78999999999999999999999999998     47999999999976

>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=97.31  E-value=0.00028  Score=56.21  Aligned_cols=44  Identities=18%  Similarity=0.336  Sum_probs=41.3

Q ss_pred             CCCCHHHHHHHHHHHHHhC---CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          214 SDWTEKETLQLLEAIMHFG---DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       214 ~~WT~eE~~~LLeav~~yG---~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      --||.+|+..+|.+-++-|   +-|..||+.+|+||++|...||.+|
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            4699999999999999999   5899999999999999999999885

>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=97.25  E-value=0.00021  Score=52.53  Aligned_cols=44  Identities=14%  Similarity=0.348  Sum_probs=39.8

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-------C--CHHHHHH-HhCCCCHHHHHHHHhc
Q 019767          213 RSDWTEKETLQLLEAIMHFG-------D--DWRKVAQ-HVSGKSEKDCITHFIK  256 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG-------~--nW~~IA~-~VgtrT~~qC~~hf~~  256 (336)
                      +..||.+||..|++.|.+|.       |  -|+++|+ .+..+|-+.|+.||++
T Consensus         2 R~~FT~edD~~L~~~v~~~~~~~~~~~Gn~iwk~la~~~~~~HtwqSwRdRy~k   55 (59)
T 1fex_A            2 RIAFTDADDVAILTYVKENARSPSSVTGNALWKAMEKSSLTQHSWQSLKDRYLK   55 (59)
T ss_dssp             CCCCCHHHHHHHHHHHHHTCCSTTTTTSSHHHHHHHHSCSSSCCSHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHhccccCCCccHHHHHHHHHhHCCCCCHHHHHHHHHH
Confidence            46799999999999999992       3  4999999 8999999999999987

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

Probab=96.91  E-value=0.00046  Score=53.71  Aligned_cols=45  Identities=18%  Similarity=0.425  Sum_probs=38.2

Q ss_pred             CCCCCHHHHHHHHHHHHHhC----------CCHHHHHHHhC----CCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFG----------DDWRKVAQHVS----GKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG----------~nW~~IA~~Vg----trT~~qC~~hf~~l  257 (336)
                      ...||.+|+++||++.....          ..|+.||+.+.    .||+.||..+|-+|
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            46799999999999986533          26999999875    69999999999884

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

Probab=95.73  E-value=0.00025  Score=53.62  Aligned_cols=43  Identities=19%  Similarity=0.308  Sum_probs=40.1

Q ss_pred             CCCCHHHHHHHHHHHHHhC---CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          214 SDWTEKETLQLLEAIMHFG---DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       214 ~~WT~eE~~~LLeav~~yG---~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      --||.+||..+|...++-|   .-|..||+.+ +||++|...||.+|
T Consensus        15 vlWTReeDR~IL~~cq~~G~s~~tfa~iA~~L-nks~~QV~~RF~~L   60 (70)
T 2lr8_A           15 ILWTRNDDRVILLECQKRGPSSKTFAYLAAKL-DKNPNQVSERFQQL   60 (70)
Confidence            4699999999999999999   4899999999 79999999999985

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

Probab=96.54  E-value=0.0071  Score=49.59  Aligned_cols=70  Identities=20%  Similarity=0.350  Sum_probs=60.2

Q ss_pred             CCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHHhccchHHHHHHHHHhhhhccccc
Q 019767           50 SFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLIN  127 (336)
Q Consensus        50 ~~~~ih~iE~~~lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r~~l~gDv~~i~Rih~FLe~wGlIN  127 (336)
                      +.+-+|+-|++..-..=-      .|..|+.+.+.||.-...+.  .++.++||+.+.-|+.-..||++||.+.|+|+
T Consensus        37 g~~LLs~~E~~LCs~lrL------~P~~YL~iK~~Li~E~~k~g--~lkk~dA~~l~kID~~K~~rIydff~~~GWi~  106 (108)
T 2cuj_A           37 GTEKLNEKEKELCQVVRL------VPGAYLEYKSALLNECHKQG--GLRLAQARALIKIDVNKTRKIYDFLIREGYIT  106 (108)
T ss_dssp             TTTTSCHHHHHHHHHTTC------CHHHHHHHHHHHHHHHHHSS--CCCHHHHHHHHTSCHHHHHHHHHHHHTTTSSC
T ss_pred             CchhcCHHHHHHHHHhCC------CHHHHHHHHHHHHHHHHHcC--CCcHHHHHHHhcccHHHHHHHHHHHHHcCCCC
Confidence            567899999988755433      59999999999999886643  49999999988899999999999999999985

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

Probab=96.46  E-value=0.006  Score=48.36  Aligned_cols=70  Identities=20%  Similarity=0.350  Sum_probs=59.4

Q ss_pred             CCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHHhccchHHHHHHHHHhhhhccccc
Q 019767           50 SFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLIN  127 (336)
Q Consensus        50 ~~~~ih~iE~~~lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r~~l~gDv~~i~Rih~FLe~wGlIN  127 (336)
                      +.+-+|+-|++..-..=-      .|..|+.+...||.-...+.  .++.++||+.+.-|+.-..||++||.+.|+|+
T Consensus        19 ~~~lLs~~E~~LC~~lrL------~P~~YL~~K~~li~E~~~~g--~l~k~da~~~~kiD~~K~~~iydf~~~~Gwi~   88 (90)
T 2aqe_A           19 GTEKLNEKEKELCQVVRL------VPGAYLEYKSALLNECHKQG--GLRLAQARALIKIDVNKTRKIYDFLIREGYIT   88 (90)
T ss_dssp             STTTSCHHHHHHHHHTTC------CHHHHHHHHHHHHHHHHHHS--CCCHHHHHTTSSSSSHHHHHHHHHHHHTTSSC
T ss_pred             CchhcCHHHHHHHHHhCC------CHHHHHHHHHHHHHHHHHcC--CCcHHHHHHHHcccHHHHHHHHHHHHHcCCCC
Confidence            466889999987755433      59999999999999886643  39999999888889999999999999999986

>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=96.39  E-value=0.0029  Score=60.52  Aligned_cols=41  Identities=29%  Similarity=0.572  Sum_probs=38.1

Q ss_pred             CCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHH
Q 019767          214 SDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHF  254 (336)
Q Consensus       214 ~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf  254 (336)
                      .+||..+-..++.|..+|| ++|..||..|++||.+|++.++
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            5799999999999999999 8999999999999999996554

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

Probab=96.31  E-value=0.01  Score=46.83  Aligned_cols=70  Identities=14%  Similarity=0.261  Sum_probs=59.2

Q ss_pred             CCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHHhccchHHHHHHHHHhhhhcccc
Q 019767           50 SFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLI  126 (336)
Q Consensus        50 ~~~~ih~iE~~~lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r~~l~gDv~~i~Rih~FLe~wGlI  126 (336)
                      +.+-+|+-|++..-..=-      .|..|+.+.+.||.-...+ ...++.++||+.+.-|++-..||++||.+.|.|
T Consensus        19 ~~~lLs~~E~~LC~~lrL------~P~~YL~~K~~Li~E~~k~-g~~lkk~da~~~~kiD~~K~~~iydf~~~~Gwi   88 (88)
T 2elj_A           19 DYALLSNDEQQLCIQLKI------LPKPYLVLKEVMFRELLKT-GGNLSKSACRELLNIDPIKANRIYDFFQSQNWM   88 (88)
T ss_dssp             TCSSSCHHHHHHHHHTTC------CHHHHHHHHHHHHHHHHHH-SSCCCHHHHHHHTTSCHHHHHHHHHHHHHTTCC
T ss_pred             CchhcCHHHHHHHHHhCC------CHHHHHHHHHHHHHHHHHh-CCCccHHHHHHHHcccHHHHHHHHHHHHHcCCC
Confidence            456788889887754332      6999999999999988764 457999999988889999999999999999986

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

Probab=96.18  E-value=0.0034  Score=46.60  Aligned_cols=47  Identities=17%  Similarity=0.438  Sum_probs=33.8

Q ss_pred             ccCCCCCCc-cccccccccC-CCccchhhhhccCCCCC-CCCCCCceecc
Q 019767          161 RLCNGCKTL-CTIACFACDK-YDLTLCARCYVRGNHRV-GVSSSDFRRVE  207 (336)
Q Consensus       161 ~~C~~C~~~-~~~~~~~c~k-~d~~LC~~CF~~G~~~~-~~~s~df~ki~  207 (336)
                      ..|++|+.. +.-.+|.|.. .|++||..||..|.... +..+|.|+++.
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            679999976 5434444433 37889999999998644 44688887764

>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=96.07  E-value=0.00099  Score=67.34  Aligned_cols=46  Identities=15%  Similarity=0.380  Sum_probs=0.0

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcCC
Q 019767          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKLP  258 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~lP  258 (336)
                      ...||.+|..++.+++..||.||..|+++|++||..+|+.+|..--
T Consensus       189 ~d~WT~eE~~lFe~al~~yGKdF~~I~~~lp~Ksv~e~V~yYY~WK  234 (482)
T 2xag_B          189 PDEWTVEDKVLFEQAFSFHGKTFHRIQQMLPDKSIASLVKFYYSWK  234 (482)
T ss_dssp             ----------------------------------------------
T ss_pred             ccccCHHHHHHHHHHHHHcCccHHHHHHHcCCCCHHHHHHHhcccc
Confidence            4589999999999999999999999999999999999999986643

>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=95.97  E-value=0.013  Score=46.92  Aligned_cols=44  Identities=18%  Similarity=0.311  Sum_probs=40.4

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhC-----CCCHHHHHHHHhc
Q 019767          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVS-----GKSEKDCITHFIK  256 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~nW~~IA~~Vg-----trT~~qC~~hf~~  256 (336)
                      ..+||.+|+..|++.+++|+-.|--|++...     .||.++-+.||-.
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            3689999999999999999999999999863     6999999999976

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

Probab=95.44  E-value=0.0034  Score=50.58  Aligned_cols=54  Identities=28%  Similarity=0.618  Sum_probs=36.5

Q ss_pred             cccCCCCCCc-cccccccccC-CCccchhhhhccCCCCCCCCCCCceecccCcccCCCCCHHH
Q 019767          160 KRLCNGCKTL-CTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFRRVEISEEARSDWTEKE  220 (336)
Q Consensus       160 k~~C~~C~~~-~~~~~~~c~k-~d~~LC~~CF~~G~~~~~~~s~df~ki~~~~~~~~~WT~eE  220 (336)
                      ...|++|+.. +.-.+|.|.. .|++||..||..|.+    ..|.|.++...   ...|++.|
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            3679999964 4433444432 368899999999963    57899887643   34576544

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

Probab=94.76  E-value=0.021  Score=50.81  Aligned_cols=29  Identities=24%  Similarity=0.656  Sum_probs=26.4

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHH
Q 019767          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQH  241 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG-~nW~~IA~~  241 (336)
                      ...||.+||..||-||.+|| |+|+.|-.-
T Consensus       134 ~~~W~~~~D~~LL~Gi~k~G~g~w~~Ir~D  163 (211)
T 4b4c_A          134 DIDWGKEDDSNLLIGIYEYGYGSWEMIKMD  163 (211)
T ss_dssp             SSCCCHHHHHHHHHHHHHHCTTCHHHHHHC
T ss_pred             CCCccHHHHHHHHHHHHHHCcCcHHHHHhC
Confidence            46799999999999999999 999999764

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

Probab=94.72  E-value=0.052  Score=40.50  Aligned_cols=45  Identities=22%  Similarity=0.406  Sum_probs=39.2

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCC---HHHHHHHhC--CCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFGDD---WRKVAQHVS--GKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~n---W~~IA~~Vg--trT~~qC~~hf~~l  257 (336)
                      +-.||.|....+++||++.|.+   |..|-+.++  +.|.+++..|..++
T Consensus         7 r~~WT~elH~~Fv~Av~~LG~~~AtPk~Il~~M~v~gLT~~~VkSHLQKY   56 (64)
T 1irz_A            7 RVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKF   56 (64)
T ss_dssp             SCSSCHHHHHHHHHHHHHHCTTTCCHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCCcHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            4579999999999999999954   899999987  56999999997653

>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=94.69  E-value=0.034  Score=43.27  Aligned_cols=50  Identities=14%  Similarity=0.272  Sum_probs=34.2

Q ss_pred             cccCCCCCCc-cccccccccC-CC---ccchhhhhccCCCC-CCCCCCCceecccC
Q 019767          160 KRLCNGCKTL-CTIACFACDK-YD---LTLCARCYVRGNHR-VGVSSSDFRRVEIS  209 (336)
Q Consensus       160 k~~C~~C~~~-~~~~~~~c~k-~d---~~LC~~CF~~G~~~-~~~~s~df~ki~~~  209 (336)
                      ...|++|+.. +.-.+|.|.. .|   ++||..||..|.+. .+...|.|.++...
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            4679999963 4333444432 24   88999999998764 44578999887643

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

Probab=94.52  E-value=0.024  Score=53.31  Aligned_cols=30  Identities=27%  Similarity=0.719  Sum_probs=27.2

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHH
Q 019767          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQH  241 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~  241 (336)
                      ....|+.+|+..||-||.+|| |+|+.|..-
T Consensus       167 W~c~W~~~dD~~LLvGIykyGyG~We~Ir~D  197 (270)
T 2xb0_X          167 WSSNWTKEEDEKLLIGVFKYGYGSWTQIRDD  197 (270)
T ss_dssp             SSSCCCHHHHHHHHHHHHHHCTTCHHHHHHC
T ss_pred             CCCCcChHHHHHHHHHHHHHcCCcHHHHhcC
Confidence            457899999999999999999 999999764

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

Probab=93.36  E-value=0.02  Score=40.89  Aligned_cols=42  Identities=26%  Similarity=0.584  Sum_probs=30.0

Q ss_pred             cccCCCCCCccccccccccC-CCccchhhhhccCCCCCCCCCCCceecc
Q 019767          160 KRLCNGCKTLCTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFRRVE  207 (336)
Q Consensus       160 k~~C~~C~~~~~~~~~~c~k-~d~~LC~~CF~~G~~~~~~~s~df~ki~  207 (336)
                      ...|++|+..++ ..|.|.. .|++||..||..|.+     .|.+.++.
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 3354543 378899999999874     46666654

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

Probab=92.63  E-value=0.12  Score=45.82  Aligned_cols=41  Identities=20%  Similarity=0.344  Sum_probs=35.3

Q ss_pred             CCCCCHHHHHHHHHHHHHhC---CCHHHHHHHh--CCCCHHHHHHH
Q 019767          213 RSDWTEKETLQLLEAIMHFG---DDWRKVAQHV--SGKSEKDCITH  253 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG---~nW~~IA~~V--gtrT~~qC~~h  253 (336)
                      -.+||..|...|+.|+.+||   +.|++|++..  ..||.++....
T Consensus         7 ~~~~t~~E~r~fira~~kfG~~~~r~~~I~~da~L~~Ks~~~v~~y   52 (211)
T 4b4c_A            7 IKGFSDAEIRRFIKSYKKFGGPLERLDAIARDAELVDKSETDLRRL   52 (211)
T ss_dssp             -CCSCHHHHHHHHHHHTTCSSGGGCHHHHHHHTTCTTSCHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHCCchhHHHHHHHHhccCCCCHHHHHHH
Confidence            46899999999999999999   6899999874  47999987763

>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=91.72  E-value=0.14  Score=49.01  Aligned_cols=47  Identities=13%  Similarity=0.213  Sum_probs=39.9

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC----CCHHHHHH------------HhCCCCHHHHHHHHhcCC
Q 019767          212 ARSDWTEKETLQLLEAIMHFG----DDWRKVAQ------------HVSGKSEKDCITHFIKLP  258 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG----~nW~~IA~------------~VgtrT~~qC~~hf~~lP  258 (336)
                      .+..||.+|+..||-++.+||    |+|+.|..            .+-+||+.|+..|-..|.
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            445899999988877653

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

Probab=89.45  E-value=0.37  Score=47.25  Aligned_cols=42  Identities=17%  Similarity=0.469  Sum_probs=38.3

Q ss_pred             CCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC-CCCHHHHHHHHhc
Q 019767          214 SDWTEKETLQLLEAIMHFG-DDWRKVAQHVS-GKSEKDCITHFIK  256 (336)
Q Consensus       214 ~~WT~eE~~~LLeav~~yG-~nW~~IA~~Vg-trT~~qC~~hf~~  256 (336)
                      .+||..+=..++.|.++|| ++-..||..|+ +||.+|+. +|.+
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 99999998 4444

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

Probab=82.43  E-value=1.4  Score=43.20  Aligned_cols=46  Identities=15%  Similarity=0.291  Sum_probs=39.2

Q ss_pred             CCCCCHHHHHHHHHHHHHhC----CCHHHHHHHh------------CCCCHHHHHHHHhcCC
Q 019767          213 RSDWTEKETLQLLEAIMHFG----DDWRKVAQHV------------SGKSEKDCITHFIKLP  258 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG----~nW~~IA~~V------------gtrT~~qC~~hf~~lP  258 (336)
                      +..||.+|+..||-+|.+||    |+|++|-..|            -+||+.++..|-..|.
T Consensus       228 ~k~yteeEDRfLL~~l~k~G~~~~g~we~Ir~~Ir~~p~FrFDwF~kSRT~~EL~rRc~tLi  289 (374)
T 2y9y_A          228 KRTYSEEEDRFILLMLFKYGLDRDDVYELVRDEIRDCPLFELDFYFRSRTPVELARRGNTLL  289 (374)
T ss_dssp             CCCSCHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHCSGGGSCHHHHTCCHHHHHHHHHHHH
T ss_pred             CCccCHHHHHHHHHHHHHhccCCCChHHHHHHHHHhCcchhhhHHHhcCCHHHHHHHHHHHH
Confidence            56899999999999999999    7899996664            4799999988876653

---

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	336
d2fq3a1	85	a.4.1.18 (A:311-395) Transcription regulatory prot	2e-37
d2dw4a1	102	a.4.1.18 (A:172-273) Lysine-specific histone demet	3e-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	4e-09
d1x41a1	47	a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, T	2e-06
d2cqra1	60	a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1	3e-06
d2cu7a1	65	a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sap	3e-06
d2crga1	57	a.4.1.3 (A:8-64) Metastasis associated protein MTA	3e-06
d2cjja1	63	a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Anti	1e-05
d1guua_	50	a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus	1e-04
d1igna1	86	a.4.1.6 (A:360-445) DNA-binding domain of rap1 {Ba	8e-04
d1tota1	52	g.44.1.6 (A:1-52) CREB-binding protein, CBP {Mouse	0.001
d1gv2a2	47	a.4.1.3 (A:144-190) c-Myb, DNA-binding domain {Mou	0.001
d1w0ta_	52	a.4.1.4 (A:) DNA-binding domain of human telomeric	0.003

>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 =  127 bits (320), Expect = 2e-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 =  103 bits (259), Expect = 3e-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 = 50.7 bits (121), 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 = 50.2 bits (120), Expect = 4e-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 = 42.2 bits (99), Expect = 2e-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 = 41.9 bits (98), Expect = 3e-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

>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 = 42.2 bits (99), Expect = 3e-06
 Identities = 7/41 (17%), Positives = 19/41 (46%)

Query: 216 WTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK 256
           WT +E     + +  FG  W K+++ +  ++     ++  +
Sbjct: 5   WTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQ 45

>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 = 41.7 bits (98), 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

>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 = 40.7 bits (95), Expect = 1e-05
 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 = 37.0 bits (86), Expect = 1e-04
 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

>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 = 35.7 bits (82), Expect = 8e-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

>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 = 34.4 bits (79), Expect = 0.001
 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

>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 = 34.0 bits (78), Expect = 0.001
 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 = 32.9 bits (75), Expect = 0.003
 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	336
d2fq3a1	85	Transcription regulatory protein swi3 {Baker's yea	100.0
d2dw4a1	102	Lysine-specific histone demethylase 1, LSD1 {Human	99.97
d1x41a1	47	Transcriptional adaptor 2-like, TADA2L, isoform b	99.57
d1gvda_	52	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	99.38
d1guua_	50	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	99.36
d2cu7a1	65	MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 960	99.28
d1gv2a2	47	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	99.28
d2cqra1	60	DnaJ homolog subfamily C member 1 {Human (Homo sap	99.26
d2cjja1	63	Radialis {Garden snapdragon (Antirrhinum majus) [T	99.24
d2iw5b1	65	REST corepressor 1, CoREST {Human (Homo sapiens) [	99.17
d1w0ua_	55	Telomeric repeat binding factor 2, TRF2 {Human (Ho	99.15
d1w0ta_	52	DNA-binding domain of human telomeric protein, hTR	99.15
d1xc5a1	68	Nuclear receptor corepressor 2 {Human (Homo sapien	99.07
d2ckxa1	83	Telomere binding protein TBP1 {Tobacco (Nicotiana	98.88
d1igna1	86	DNA-binding domain of rap1 {Baker's yeast (Sacchar	98.83
d2crga1	57	Metastasis associated protein MTA3 {Mouse (Mus mus	98.8
d1ug2a_	95	2610100b20rik gene product {Mouse (Mus musculus) [	98.52
d2cqqa1	59	DnaJ homolog subfamily C member 1 {Human (Homo sap	98.42
d1wgxa_	73	Hypothetical protein C14orf106 (KIAA1903) {Human (	97.94
d1irza_	64	Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId	97.41
d2cuja1	101	Transcriptional adaptor 2-like, TADA2L {Mouse (Mus	96.93
d1ofcx1	52	SANT domain of the nucleosome remodeling ATPase IS	96.58
d1x58a1	49	Hypothetical protein 4930532d21rik {Mouse (Mus mus	96.05
d2fc7a1	69	Zinc finger ZZ-type-containing protein 3, ZZZ3 {Hu	95.79
d1tota1	52	CREB-binding protein, CBP {Mouse (Mus musculus) [T	92.71
d2dipa1	85	Zinc finger ZZ-type-containing protein 2 {Human (H	91.34
d1fexa_	59	Rap1 {Human (Homo sapiens) [TaxId: 9606]}	90.41
d1ofcx2	128	SLIDE domain of the nucleosome remodeling ATPase I	89.29

>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=1.5e-37  Score=245.51  Aligned_cols=85  Identities=46%  Similarity=0.884  Sum_probs=83.8

Q ss_pred             CCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHHhccchHHHHHHHHHhhhhccc
Q 019767           46 SRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGL  125 (336)
Q Consensus        46 s~WF~~~~ih~iE~~~lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r~~l~gDv~~i~Rih~FLe~wGl  125 (336)
                      |+||++++||+|||++|||||++++.+|||++|+.|||+||++||+||.+|||+|+||+++.||++++.|||+||++||+
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 019767          126 INYFA  130 (336)
Q Consensus       126 INy~~  130 (336)
                      |||||
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=99.97  E-value=3.3e-32  Score=221.39  Aligned_cols=87  Identities=23%  Similarity=0.489  Sum_probs=82.9

Q ss_pred             CCCCCCCCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHHhcc----chHHHHHHHHHh
Q 019767           44 SYSRWFSFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLV----GDVGSIRRVFDF  119 (336)
Q Consensus        44 s~s~WF~~~~ih~iE~~~lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r~~l~----gDv~~i~Rih~F  119 (336)
                      ++++||++|+||++|+++|||||++  +++||+.|+.|||+||++|+.||.+|||+|+|+++|.    ||++++.|||+|
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             hhhcccccCCCCC
Q 019767          120 LETWGLINYFASV  132 (336)
Q Consensus       120 Le~wGlINy~~~~  132 (336)
                      |++||+||||++.
T Consensus        85 L~~~G~INfGv~~   97 (102)
T d2dw4a1          85 LERHGLINFGIYK   97 (102)
T ss_dssp             HHHTTSSSCSSCB
T ss_pred             HHHcCceeeCcCc
Confidence            9999999999993

>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=99.57  E-value=1.1e-15  Score=106.77  Aligned_cols=44  Identities=36%  Similarity=0.872  Sum_probs=41.9

Q ss_pred             CCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          214 SDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       214 ~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .+||.+|+.+||++|++|| +||.+||++||+||+.||+.||.++
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 8999999999999999999999875

>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=99.38  E-value=2.2e-13  Score=96.74  Aligned_cols=46  Identities=24%  Similarity=0.678  Sum_probs=43.4

Q ss_pred             cCCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      .++.||.+||.+|+++|++|| ++|..||+++++||+.||+.||.++
T Consensus         2 ~rg~WT~eED~~L~~~v~~~g~~~W~~Ia~~l~~Rt~~qc~~Rw~~~   48 (52)
T d1gvda_           2 IKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNH   48 (52)
T ss_dssp             CCCSCCHHHHHHHHHHHHHHCTTCHHHHHTTSTTCCHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHhh
Confidence            468999999999999999999 8999999999999999999999873

>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=99.36  E-value=3e-13  Score=95.19  Aligned_cols=44  Identities=25%  Similarity=0.639  Sum_probs=41.9

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHHHHhc
Q 019767          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCITHFIK  256 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~hf~~  256 (336)
                      +..||.+|+.+|+++|++|| ++|..||++|++||+.||+.||.+
T Consensus         1 k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~Rt~~qcr~Rw~~   45 (50)
T d1guua_           1 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQK   45 (50)
T ss_dssp             CCCCCHHHHHHHHHHHHHHCSSCHHHHHHTSTTCCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHh
Confidence            36799999999999999999 799999999999999999999987

>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=99.28  E-value=1.7e-12  Score=95.47  Aligned_cols=45  Identities=16%  Similarity=0.378  Sum_probs=42.4

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ...||.+|+.+|+++|.+||.+|..||++|++||+.||+.||.++
T Consensus         2 ~~~WT~eEd~~l~~~~~~~G~~W~~Ia~~~~~Rt~~q~k~ry~~~   46 (65)
T d2cu7a1           2 SVKWTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQY   46 (65)
T ss_dssp             CCCCCHHHHHHHHHHHHHTCSCHHHHHHHHSSSCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHhcchHHHHHHHcCCCCHHHHHHHHHHH
Confidence            357999999999999999999999999999999999999999763

>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=99.28  E-value=1.5e-12  Score=90.64  Aligned_cols=45  Identities=22%  Similarity=0.587  Sum_probs=42.5

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      +.+||.+||.+|++++++||.+|..||.++++||..||+.||..+
T Consensus         1 K~~WT~eED~~L~~~v~~~G~~W~~Ia~~~~gRt~~~~knr~~~~   45 (47)
T d1gv2a2           1 KTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNST   45 (47)
T ss_dssp             CCCCCHHHHHHHHHHHHHHSSCHHHHHTTCTTCCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHhhHHHHHHhHcCCCCHHHHHHHHHHH
Confidence            468999999999999999999999999999999999999999763

>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=99.26  E-value=2.5e-12  Score=93.48  Aligned_cols=47  Identities=32%  Similarity=0.601  Sum_probs=42.6

Q ss_pred             ccCCCCCHHHHHHHHHHHHHhCC----CHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          211 EARSDWTEKETLQLLEAIMHFGD----DWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       211 ~~~~~WT~eE~~~LLeav~~yG~----nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ..+..||.+|+.+|+++|.+||.    +|.+||++||+||..||+.||.+|
T Consensus        10 ~~~~~WT~eEd~~L~~~v~~~~~~~~~~W~~IA~~l~~Rt~~qc~~R~~~L   60 (60)
T d2cqra1          10 SAEEPWTQNQQKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARYKLL   60 (60)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHSCSSSHHHHHHHGGGCSSSCHHHHHHHHHHH
T ss_pred             cCCCCcCHHHHHHHHHHHHHcCCccchHHHHHHHHcCCCCHHHHHHHHHHC
Confidence            34578999999999999999993    599999999999999999999764

>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=99.24  E-value=3.4e-12  Score=93.68  Aligned_cols=44  Identities=27%  Similarity=0.598  Sum_probs=40.9

Q ss_pred             CCCCHHHHHHHHHHHHHhC-CC---HHHHHHHhCCCCHHHHHHHHhcC
Q 019767          214 SDWTEKETLQLLEAIMHFG-DD---WRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       214 ~~WT~eE~~~LLeav~~yG-~n---W~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ..||.+|+.+|+++|.+|| ++   |.+||++|++||..||+.||..|
T Consensus         2 ~~WT~eEd~~L~~~v~~~~~~~~~~W~~Ia~~l~gRt~~qc~~r~~~L   49 (63)
T d2cjja1           2 RPWSAKENKAFERALAVYDKDTPDRWANVARAVEGRTPEEVKKHYEIL   49 (63)
T ss_dssp             CSCCHHHHHHHHHHHHHSCTTCTTHHHHHHHHSTTCCHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHHHCCCCchHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            5799999999999999999 43   99999999999999999999764

>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=99.17  E-value=1.6e-11  Score=90.41  Aligned_cols=45  Identities=24%  Similarity=0.536  Sum_probs=42.8

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ...||.+|+.+|++++.+||.||..||++||+||..||+.||.++
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

>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=99.15  E-value=1.9e-11  Score=87.45  Aligned_cols=45  Identities=11%  Similarity=0.411  Sum_probs=41.1

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHh--CCCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHV--SGKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG-~nW~~IA~~V--gtrT~~qC~~hf~~l  257 (336)
                      +..||.+|+.+|+++|++|| ++|..||+++  ++||+.||..||.+|
T Consensus         2 r~~WT~eEd~~L~~~V~~~G~~~W~~I~~~~~~~~Rt~~q~k~Rwrn~   49 (55)
T d1w0ua_           2 KQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTM   49 (55)
T ss_dssp             CCCCCHHHHHHHHHHHHHHCTTCHHHHHHHSCCSSCCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHhCCChHHHHHhhcCCCCcCHHHHHHHHHHH
Confidence            46899999999999999999 8999999984  589999999999763

>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=99.15  E-value=2.1e-11  Score=86.33  Aligned_cols=45  Identities=18%  Similarity=0.437  Sum_probs=41.1

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CCHHHHHHHhC--CCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFG-DDWRKVAQHVS--GKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG-~nW~~IA~~Vg--trT~~qC~~hf~~l  257 (336)
                      +..||.+|+.+|+++|++|| ++|..||+..+  +||..||..||.+|
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            46899999999999999999 89999999854  89999999999764

>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=99.07  E-value=3.5e-11  Score=89.28  Aligned_cols=44  Identities=18%  Similarity=0.410  Sum_probs=41.8

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCHHHHHHHhCCCCHHHHHHHHhc
Q 019767          213 RSDWTEKETLQLLEAIMHFGDDWRKVAQHVSGKSEKDCITHFIK  256 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~nW~~IA~~VgtrT~~qC~~hf~~  256 (336)
                      ...||.+|+.+|++++.+||.||..||++|++||..||+.||..
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

>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=98.88  E-value=8.5e-10  Score=84.88  Aligned_cols=44  Identities=25%  Similarity=0.441  Sum_probs=40.1

Q ss_pred             CCCCHHHHHHHHHHHHHhC-CCHHHHHHH----hCCCCHHHHHHHHhcC
Q 019767          214 SDWTEKETLQLLEAIMHFG-DDWRKVAQH----VSGKSEKDCITHFIKL  257 (336)
Q Consensus       214 ~~WT~eE~~~LLeav~~yG-~nW~~IA~~----VgtrT~~qC~~hf~~l  257 (336)
                      +.||.+|+..|+++|++|| ++|..|+++    +.+||..||..||.++
T Consensus         1 r~WT~eEd~~L~~~V~~~G~~~W~~I~~~~~~~~~~Rt~~qck~RWrn~   49 (83)
T d2ckxa1           1 RPFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTL   49 (83)
T ss_dssp             CCCCHHHHHHHHHHHHHHCSSCHHHHHHHHCTTCTTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHCcccHHHHHHHHHhhccCCCHHHHHHHHHHH
Confidence            4799999999999999999 799999997    4579999999999873

>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=98.83  E-value=8.6e-10  Score=85.62  Aligned_cols=45  Identities=11%  Similarity=0.225  Sum_probs=41.6

Q ss_pred             CCCCCHHHHHHHHHHHHHhCC------CHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFGD------DWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~------nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ++.||.+||.+|++.|++||.      +|..||++|++||..||+.||..+
T Consensus         1 k~~WT~eED~~L~~~v~~~g~~~~~~~~W~~IA~~lpgRt~~qcr~Rw~~~   51 (86)
T d1igna1           1 KASFTDEEDEFILDVVRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRFRVY   51 (86)
T ss_dssp             CCCCCHHHHHHHHHHHHTSGGGTTCSHHHHHHTTTSTTSCHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHHhCcCcCCccCHHHHHHHcCCCCHHHHHHHHHHH
Confidence            468999999999999999993      499999999999999999999974

>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=98.80  E-value=3e-09  Score=76.33  Aligned_cols=43  Identities=23%  Similarity=0.453  Sum_probs=40.1

Q ss_pred             CCCCHHHHHHHHHHHHHhCCCHHHHHHH-hCCCCHHHHHHHHhc
Q 019767          214 SDWTEKETLQLLEAIMHFGDDWRKVAQH-VSGKSEKDCITHFIK  256 (336)
Q Consensus       214 ~~WT~eE~~~LLeav~~yG~nW~~IA~~-VgtrT~~qC~~hf~~  256 (336)
                      ..||++|..++++|+.+||.||..|+++ |++||..||+.+|-.
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 799999999999964

>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=98.52  E-value=7.6e-08  Score=75.56  Aligned_cols=46  Identities=17%  Similarity=0.306  Sum_probs=42.4

Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCC---HHHHHHHhCCCCHHHHHHHHhcC
Q 019767          212 ARSDWTEKETLQLLEAIMHFGDD---WRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       212 ~~~~WT~eE~~~LLeav~~yG~n---W~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ....||.|||..||+.++++|..   |..||+.+++||..||+.||..|
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            34679999999999999999965   99999999999999999999874

>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=98.42  E-value=1e-07  Score=68.86  Aligned_cols=43  Identities=33%  Similarity=0.662  Sum_probs=39.4

Q ss_pred             CCCCHHHHHHHHHHHHHhC----CCHHHHHHHhCCCCHHHHHHHHhcC
Q 019767          214 SDWTEKETLQLLEAIMHFG----DDWRKVAQHVSGKSEKDCITHFIKL  257 (336)
Q Consensus       214 ~~WT~eE~~~LLeav~~yG----~nW~~IA~~VgtrT~~qC~~hf~~l  257 (336)
                      ..||.+|..+|-.|+.+|.    +.|++||++| +||.+||+.||-.|
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 59999999999774

>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=97.94  E-value=6.4e-06  Score=60.56  Aligned_cols=48  Identities=29%  Similarity=0.578  Sum_probs=43.1

Q ss_pred             CCCCCHHHHHHHHHHHHHhC----CCHHHHHHHhCCCCHHHHHHHHhcCCCC
Q 019767          213 RSDWTEKETLQLLEAIMHFG----DDWRKVAQHVSGKSEKDCITHFIKLPFG  260 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG----~nW~~IA~~VgtrT~~qC~~hf~~lPIe  260 (336)
                      ...|+.+|..+|=.|+....    |=|.+||..||+||.+||..+|..-|=+
T Consensus         8 d~~W~e~ELqkLh~A~~SlPkh~~gfW~~VA~~VGtRSaeECQ~ky~~~~~~   59 (73)
T d1wgxa_           8 DKEWNEKELQKLHCAFASLPKHKPGFWSEVAAAVGSRSPEECQRKYMENPRG   59 (73)
T ss_dssp             SSCCCHHHHHHHHHHHHHSCSSSSSHHHHHHHHTTTSCHHHHHHHHHHSSSS
T ss_pred             ccccCHHHHHHHHHHHHhcCCCCCccHHHHHHHHccCCHHHHHHHHHhCccc
Confidence            46899999999999999887    6799999999999999999999886433

>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=97.41  E-value=8.5e-05  Score=53.89  Aligned_cols=45  Identities=22%  Similarity=0.431  Sum_probs=38.5

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCH---HHHHHHhC--CCCHHHHHHHHhcC
Q 019767          213 RSDWTEKETLQLLEAIMHFGDDW---RKVAQHVS--GKSEKDCITHFIKL  257 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG~nW---~~IA~~Vg--trT~~qC~~hf~~l  257 (336)
                      +-.||+||..++++||+.+|++|   ..|.++++  ++|.+|+..|..++
T Consensus         7 R~~WT~elH~~Fv~Av~~lG~~~atpk~I~~~m~v~~lT~~qV~SHlQKY   56 (64)
T d1irza_           7 RVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKF   56 (64)
T ss_dssp             SCSSCHHHHHHHHHHHHHHCTTTCCHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHhCccccchHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            45799999999999999999777   68888865  67999999997664

>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=96.93  E-value=0.0012  Score=51.63  Aligned_cols=70  Identities=20%  Similarity=0.353  Sum_probs=61.3

Q ss_pred             CCCCCCHHHHhhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcceeHHHHHHhccchHHHHHHHHHhhhhccccc
Q 019767           50 SFDSISECEVKFLPEFFDSRSPSKNPRVYRYYRDSIVKHYRENPSRKITFTDVRRTLVGDVGSIRRVFDFLETWGLIN  127 (336)
Q Consensus        50 ~~~~ih~iE~~~lpEff~~~~~~ktp~~Y~~~RN~ii~~yr~np~~yLT~t~~r~~l~gDv~~i~Rih~FLe~wGlIN  127 (336)
                      ..+-+|+-|++..-..=-      .|..|+.+.+.||.-+..+  ..++.+++|+...-|++-..||++||.+.|.||
T Consensus        30 ~~~lLs~~E~~LC~~lrL------~P~~YL~~K~~l~~E~~k~--g~l~k~da~~~~kiD~~K~~rIydfl~~~GWi~   99 (101)
T d2cuja1          30 GTEKLNEKEKELCQVVRL------VPGAYLEYKSALLNECHKQ--GGLRLAQARALIKIDVNKTRKIYDFLIREGYIT   99 (101)
T ss_dssp             TTTTSCHHHHHHHHHTTC------CHHHHHHHHHHHHHHHHHS--SCCCHHHHHHHHTSCHHHHHHHHHHHHTTTSSC
T ss_pred             ChhhcCHHHHHHHHHhCC------ChHHHHHHHHHHHHHHHHc--CCCcHHHHHHHhcccHHHHHHHHHHHHHccCcc
Confidence            468899999988755433      5999999999999888774  469999999999999999999999999999997

>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=0.0015  Score=45.28  Aligned_cols=38  Identities=32%  Similarity=0.650  Sum_probs=35.4

Q ss_pred             CCCHHHHHHHHHHHHHhC-CCHHHHHHHhCCCCHHHHHH
Q 019767          215 DWTEKETLQLLEAIMHFG-DDWRKVAQHVSGKSEKDCIT  252 (336)
Q Consensus       215 ~WT~eE~~~LLeav~~yG-~nW~~IA~~VgtrT~~qC~~  252 (336)
                      .|+..|-..++.|.++|| +|-..||..|.+||++|...
T Consensus         1 ~WnrrdF~~Fi~a~ekyGR~d~~~Ia~e~~~Kt~eEV~~   39 (52)
T d1ofcx1           1 AWTKRDFNQFIKANEKYGRDDIDNIAKDVEGKTPEEVIE   39 (52)
T ss_dssp             TCCHHHHHHHHHHHHHHCTTCHHHHTTSSTTCCHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhhHHHHHHHhcCCCHHHHHH
Confidence            499999999999999999 89999999999999999554

>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=96.05  E-value=0.0065  Score=40.57  Aligned_cols=44  Identities=20%  Similarity=0.494  Sum_probs=36.5

Q ss_pred             CCCCHHHHHHHHHHHHHhCCCHHHHHHHhC---CCCHHHHHHHHhcC
Q 019767          214 SDWTEKETLQLLEAIMHFGDDWRKVAQHVS---GKSEKDCITHFIKL  257 (336)
Q Consensus       214 ~~WT~eE~~~LLeav~~yG~nW~~IA~~Vg---trT~~qC~~hf~~l  257 (336)
                      .+||++|...|+.||.++|..|+.|-=..+   +|+.-.-..+|.+|
T Consensus         2 knft~eEv~YL~~GVK~~G~~WNsILWs~PF~~GR~~vdLA~Ky~~l   48 (49)
T d1x58a1           2 KDFTKEEVNYLFHGVKTMGNHWNSILWSFPFQKGRRAVDLAHKYHRL   48 (49)
T ss_dssp             SSCCHHHHHHHHHHHHHHCSCHHHHHHHSCCCTTCCHHHHHHHHHHH
T ss_pred             CcccHHHHHHHHHHHHHhcchhhhhhhccCCCCCchhhHHHHHHHhh
Confidence            579999999999999999999999966553   67877777777653

>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=95.79  E-value=0.0031  Score=45.80  Aligned_cols=49  Identities=12%  Similarity=0.299  Sum_probs=34.0

Q ss_pred             ccccCCCCCCc-cccccccccC----CCccchhhhhccCCCC-CCCCCCCceecc
Q 019767          159 SKRLCNGCKTL-CTIACFACDK----YDLTLCARCYVRGNHR-VGVSSSDFRRVE  207 (336)
Q Consensus       159 ~k~~C~~C~~~-~~~~~~~c~k----~d~~LC~~CF~~G~~~-~~~~s~df~ki~  207 (336)
                      ..+.|++|+.. +.-.+|.|..    .|++||..||..+... .+...|.+..+.
T Consensus        13 ~~~~Cd~C~~~pi~G~R~~C~~Cp~~~d~DLC~~C~~~~~~~~~H~~~H~~~~I~   67 (69)
T d2fc7a1          13 VGFKCDNCGIEPIQGVRWHCQDCPPEMSLDFCDSCSDCLHETDIHKEDHQLEPIY   67 (69)
T ss_dssp             SSCCCSSSCCSSEESCEEEESSSCSSSCCEEEGGGTTCCCCCSSCCSSSCEEEEC
T ss_pred             CCeEcCCCCCcCcCCcccCCCCCCCCCCccchHHhhcCcccCCCCCCCCCEEEee
Confidence            34679999987 3434455543    3799999999998764 344677776653

>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=92.71  E-value=0.012  Score=40.40  Aligned_cols=41  Identities=27%  Similarity=0.602  Sum_probs=29.7

Q ss_pred             ccCCCCCCccccccccccC-CCccchhhhhccCCCCCCCCCCCceecc
Q 019767          161 RLCNGCKTLCTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFRRVE  207 (336)
Q Consensus       161 ~~C~~C~~~~~~~~~~c~k-~d~~LC~~CF~~G~~~~~~~s~df~ki~  207 (336)
                      +.|+.|+..++. .|.|.. .|++||..||..+.+     .|.+.++.
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            469999987753 455543 478899999998765     36676664

>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=91.34  E-value=0.035  Score=41.65  Aligned_cols=41  Identities=29%  Similarity=0.692  Sum_probs=28.5

Q ss_pred             ccCCCCCCc-cccccccccC-CCccchhhhhccCCCCCCCCCCCcee
Q 019767          161 RLCNGCKTL-CTIACFACDK-YDLTLCARCYVRGNHRVGVSSSDFRR  205 (336)
Q Consensus       161 ~~C~~C~~~-~~~~~~~c~k-~d~~LC~~CF~~G~~~~~~~s~df~k  205 (336)
                      ..|++|+.. +.-..|.|.. .|++||..||..+.+    ..|.|..
T Consensus        25 v~Cd~C~~~~i~G~Ry~C~~C~dyDLC~~C~~~~~h----~~H~f~~   67 (85)
T d2dipa1          25 IPCNNCKQFPIEGKCYKCTECIEYHLCQECFDSYCH----LSHTFTF   67 (85)
T ss_dssp             CCCSSSCCSSCCSCEEEESSSSSCEEEHHHHHTTSG----GGSCEEE
T ss_pred             eECCCCCCCCcCcceEEcCCCCCccchHHHHCcCCC----CCCCcce
Confidence            469999875 4445566654 478899999987554    3566653

>d1fexa_ a.4.1.3 (A:) Rap1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Rap1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.41  E-value=0.21  Score=34.80  Aligned_cols=44  Identities=14%  Similarity=0.394  Sum_probs=37.9

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-------CC--HHHHHH-HhCCCCHHHHHHHHhc
Q 019767          213 RSDWTEKETLQLLEAIMHFG-------DD--WRKVAQ-HVSGKSEKDCITHFIK  256 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG-------~n--W~~IA~-~VgtrT~~qC~~hf~~  256 (336)
                      +..+|.+|+..|++-|..+.       ||  |++.++ .+..+|-+.=+.||++
T Consensus         2 R~~fT~eeD~~l~~yv~~~~~~~~~~~Gn~iwk~l~~~~~~~HtwQSwrdRY~K   55 (59)
T d1fexa_           2 RIAFTDADDVAILTYVKENARSPSSVTGNALWKAMEKSSLTQHSWQSLKDRYLK   55 (59)
T ss_dssp             CCCCCHHHHHHHHHHHHHTCCSTTTTTSSHHHHHHHHSCSSSCCSHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHhccCcCCccHHHHHHHHHHhcCCCCCHHHHHHHHHH
Confidence            45799999999999999885       44  999996 6778899999999976

>d1ofcx2 a.4.1.13 (X:851-978) SLIDE 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: SLIDE domain
domain: SLIDE domain of the nucleosome remodeling ATPase ISWI
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=89.29  E-value=0.22  Score=39.92  Aligned_cols=44  Identities=14%  Similarity=0.257  Sum_probs=37.3

Q ss_pred             CCCCCHHHHHHHHHHHHHhC-CC---HHHHHHHhC------------CCCHHHHHHHHhc
Q 019767          213 RSDWTEKETLQLLEAIMHFG-DD---WRKVAQHVS------------GKSEKDCITHFIK  256 (336)
Q Consensus       213 ~~~WT~eE~~~LLeav~~yG-~n---W~~IA~~Vg------------trT~~qC~~hf~~  256 (336)
                      +..+|.+|+..||-++.+|| |+   |+.|-+.|.            +||+.++..|-..
T Consensus        49 ~k~yteeEDRfLl~~~~~~G~~~~~~~e~ir~~Ir~~p~FrFDwf~kSRt~~el~rR~~t  108 (128)
T d1ofcx2          49 GKNYTEIEDRFLVCMLHKLGFDKENVYEELRAAIRASPQFRFDWFIKSRTALELQRRCNT  108 (128)
T ss_dssp             CSSCCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHCGGGTTCHHHHTCCHHHHHHHHHH
T ss_pred             CCccCHHHHHHHHHHHHHhcCCCccHHHHHHHHHHhCcchhhhhHhccCCHHHHHHHHHH
Confidence            45699999999999999999 77   999977763            8999998877544