Citrus Sinensis ID: 004169

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770

MGYSEEDDDTLTLYVSDYEFLDQNEESISFSVLPLQWDGCDIVGSSEMQVFLHGNIGDGPWNFNEQVIAWKFELSYAQPEIWVLSKQNNWIMLQSPKKSFKNIVRTILITVHWLYCVKQNPEASRKYIREQMLKVFCSYEVEPSENDLLDHMPISREAAERDKDLANSKFLLSFMANHPETNTFHEDVRTTEKPKVIVDWNEDEDSERVDKDENYFAVCAICDDGGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPTEITFSDADENNFQRAWVDLLPNNRILIYCLEHKIISELKTPARDHLKFPGVEGKRKKEDLELLLTEEKDVASKRNIVSESFVADKTVVKKLKLAEVYSGADVGMSNSEIKKRWPRQDVHSLKKPNITDTGRKSLKDIADKSKPSLRKDSTLLKSRSFVVKPGHRNIDGSKMKNSISDRRRMKKVNISQPSVDAEMEKELLALIKDSTSSFNEEEFMKSHIVPITHAHHSKHLLEKSITLGLVEGSVKAVRAALEMLDGGCDIEDAKAVCPPEILCQIFQWKRKLDVYLAPFLHGMRYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQPKVVGYSLDICCYPVLLILDLQTLFNLLNLI

cccccccccccccccEEEEEEEccccEEEEEEccEEccccccccccccEEEEEEEcccccccEEEEEEEEEEcccccccEEEEEEccccEEEccccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccccccHHHHccccHHHHHHHHcHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccccccccccccccccccccHHHHHHHHHHHcccccEEcccccccccccccccccccccEEEccccccEEcccccccccccccccccccccccccccccccEEEEEcccccccccccccccccccccccccHHHHHHHHHHHHcHHcccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHccccccHHHHHHccccccccccccccccHHHHccccccHHHHHHHHHHHHHHccccHHHHHHcccHHHHHHHHHHHccccEEEcccccccccccccccccHHHHHHHHHHHHcEEEEcccEEEEEcccccHHHHHHHHHHHHccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHcc

cccccccccccccccccEEEEccccccEEEEEEEEEEcccccccccccEEEEEEccccccEEEEEEEEEEEEEccccccEEEEEcccccEEEEccccccHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHcccccccccccccccccccccEcccccccccccccccccccEEEEEEcccccEEEEccccHcccccccccccccHHHHcccccccccccccEEccccccccEEEEEEcccccccccccccEEEEEcccccccccHHHHHHccccccccHHHHHHHHHHcccccEcccEEEEEEccccccccccccEEEEEEccHHHHHHccccccccccccccHHHHHHHcccccccEEEEEccccccHHccccccccEEccccccccccccHHHccccEEEEHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccHHHHHccccccccccHcHccHEEEEcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccHHHHHHHccccccccccccccEccEEEcccHHHHHHHHHHHHHHHHccccHHHHHHHccHHHHHHHHHHHHHcHEEEcHHHccccccccccccccHHHHHHHHHHHcHEEccccEEEEEcccccHHHHHHHHHHHHHcccccEccccccccHEEEEEEEEccccHEHHHHHHHHHHHHHHc

mgyseedddtltLYVSDYefldqneesisfsvlplqwdgcdivgssemqvflhgnigdgpwnfNEQVIAWKFELSYAQPEIWVLSKQNNWIMLQSPKKSFKNIVRTILITVHWLYCVKQNPEASRKYIREQMLKVFCSyevepsendlldhmpisreAAERDKDLANSKFLLSFManhpetntfhedvrttekpkvivdwnededservdkdenYFAVCAIcddggdvtfcdgrclrSFHATITAGKNALCQslgytqaqidavpnflcqncvyqehqcfacgmlgssdksssqevfpcvsatcgqfyhpecvskllhpdneSLAEELRERIaagesftcpvhkcfvcqqsedmnVEDLQLAICRrcpkayhrkclpteitfsdadenNFQRAWVDLLPNNRILIYCLEHKIIselktpardhlkfpgvegkrkkEDLELLLTEEKDVASKRNIVSESFVADKTVVKKLKLAEvysgadvgmsnseikkrwprqdvhslkkpnitdtgrKSLKDiadkskpslrkdstllksrsfvvkpghrnidgskmknsisdrrrmkkvnisqpsvDAEMEKELLALIKDstssfneeefmkshivpithahhskHLLEKSITLGLVEGSVKAVRAALEMLdggcdiedakavcppeilCQIFQWKRKLDVYlapflhgmrytsfgrhftkVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEqmgkscsfrnydliqpkvvgysldiccypvLLILDLQTLFNLLNLI

mgyseedddtlTLYVSDYEFLDQNEESISFSVLPLQWDGCDIVGSSEMQVFLHGNIGDGPWNFNEQVIAWKFELSYAQPEIWVLSKQNNWIMLQSPKKSFKNIVRTILITVHWLYCVKQNPEASRKYIREQMLKVFCSYEVEpsendlldhmPISREAAERDKDLANSKFLLSFMANHpetntfhedvrttekpkvivdwnededservdkdeNYFAVCAICDDGGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPTeitfsdadenNFQRAWVDLLPNNRILIYCLEHKIiselktpardhlkfpgvegkrkkedLELLLteekdvaskrnivsesfvadktvvkkLKLAevysgadvgmsnseikkrwprqdvhslkkpnitdtgrkslkdiadkskpslrkdstllksrsfvvkpghrnidgskmknsisdrrrmkkvnisqpsvdaeMEKELLALIKDSTSSFNEEEFMKSHIVPITHAHHSKHLLEKSITLGLVEGSVKAVRAALEMLDGGCDIEDAKAVCPPEILCQIFQWKRKLDVYLAPFLHGMRYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQPKVVGYSLDICCYPVLLILDLQTLFNLLNLI

MGYSEEDDDTLTLYVSDYEFLDQNEESISFSVLPLQWDGCDIVGSSEMQVFLHGNIGDGPWNFNEQVIAWKFELSYAQPEIWVLSKQNNWIMLQSPKKSFKNIVRTILITVHWLYCVKQNPEASRKYIREQMLKVFCSYEVEPSENDLLDHMPISREAAERDKDLANSKFLLSFMANHPETNTFHEDVRTTEKPKVIVDWNEDEDSERVDKDENYFAVCAICDDGGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPTEITFSDADENNFQRAWVDLLPNNRILIYCLEHKIISELKTPARDHLKFPGVEGkrkkedlelllteekDVASKRNIVSESFVADKTVVKKLKLAEVYSGADVGMSNSEIKKRWPRQDVHSLKKPNITDTGRKSLKDIADKSKPSLRKDSTLLKSRSFVVKPGHRNIDGSKMKNSISDRRRMKKVNISQPSVDAEMEKELLALIKDSTSSFNEEEFMKSHIVPITHAHHSKHLLEKSITLGLVEGSVKAVRAALEMLDGGCDIEDAKAVCPPEILCQIFQWKRKLDVYLAPFLHGMRYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQPKVVGYSLDICCYPVllildlqtlfnllnlI

***********TLYVSDYEFLDQNEESISFSVLPLQWDGCDIVGSSEMQVFLHGNIGDGPWNFNEQVIAWKFELSYAQPEIWVLSKQNNWIMLQSPKKSFKNIVRTILITVHWLYCVKQNPEASRKYIREQMLKVFCSYEV****************************FLLSFMA******************KVIVDW***********DENYFAVCAICDDGGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGMLG********EVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPTEITFSDADENNFQRAWVDLLPNNRILIYCLEHKIISELKTPARDHLK***************L**********RNIVSESFVADKTVVKKLKLAEVYSGADV****************************************************************************************************************FMKSHIVPITHAHHSKHLLEKSITLGLVEGSVKAVRAALEMLDGGCDIEDAKAVCPPEILCQIFQWKRKLDVYLAPFLHGMRYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQPKVVGYSLDICCYPVLLILDLQTLFNLLNL*

******D*DTLTLYVSDYEFLDQNEESISFSVLPLQWDGCDIVGSSEMQVFLHGNIGDGPWNFNEQVIAWKFELSYAQPEIWVLSKQNNWIMLQSPKKSFKNIVRTILITVHWLYCVKQNPE*****IREQ*LKVF****************************************************************************ENYFAVCAICDDGGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPTEITFSDADENNFQRAWVDLLPNNRILIYCLEHKII***************************************************************************************************************************************************************************************************************EGSVKAVRAALEMLDGGCDIEDAKAVCPPEILCQIFQWKRKLDVYLAPFLHGMRYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQPKVVGYSLDICCYPVLLILDLQTLFNLLNLI

*********TLTLYVSDYEFLDQNEESISFSVLPLQWDGCDIVGSSEMQVFLHGNIGDGPWNFNEQVIAWKFELSYAQPEIWVLSKQNNWIMLQSPKKSFKNIVRTILITVHWLYCVKQNPEASRKYIREQMLKVFCSYEVEPSENDLLDHMPISREAAERDKDLANSKFLLSFMANHPETNTFHEDVRTTEKPKVIVDWNEDEDSERVDKDENYFAVCAICDDGGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGMLG**********FPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPTEITFSDADENNFQRAWVDLLPNNRILIYCLEHKIISELKTPARDHLKFPGVEGKRKKEDLELLLTEEKDVASKRNIVSESFVADKTVVKKLKLAEVYSGADVGMSNSEIKKRWPRQDVHSLKKPNITDTGRKSLKDIADKSKPSLRKDSTLLKSRSFVVKPGHRNIDGSKMKNSISDRRRMKKVNISQPSVDAEMEKELLALIKDSTSSFNEEEFMKSHIVPITHAHHSKHLLEKSITLGLVEGSVKAVRAALEMLDGGCDIEDAKAVCPPEILCQIFQWKRKLDVYLAPFLHGMRYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQPKVVGYSLDICCYPVLLILDLQTLFNLLNLI

*********TLTLYVSDYEFLDQNEESISFSVLPLQWDGCDIVGSSEMQVFLHGNIGDGPWNFNEQVIAWKFELSYAQPEIWVLSKQNNWIMLQSPKKSFKNIVRTILITVHWLYCVKQNPEASRKYIREQMLKVFCSYEVEPSENDLLDHMPISREAAERDKDLANSKFLLSFMAN************************************NYFAVCAICDDGGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGMLGSSD*SSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPTEITFSDADENNFQRAWVDLLPNNRILIYCLEHKIISELKTPARDHLKFPGVEGKRKKEDLELLLTEEKDVASKR*********************************************************************SLRKDSTLLKSRSFVVKPG************************SQPSVDAEMEKELLALIKDSTSSFNEEEFMKSHIVPITHAHHSKHLLEKSITLGLVEGSVKAVRAALEMLDGGCDIEDAKAVCPPEILCQIFQWKRKLDVYLAPFLHGMRYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQPKVVGYSLDICCYPVLLILDLQTLFNLLNLI

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		770	2.2.26 [Sep-21-2011]
Q55FD6		688	PHD finger-containing pro	yes	no	0.201	0.225	0.322	6e-18
Q6P2L6		1439	Histone-lysine N-methyltr	yes	no	0.157	0.084	0.327	1e-12
O88491		2588	Histone-lysine N-methyltr	no	no	0.197	0.058	0.280	1e-11
Q8BVE8		1365	Histone-lysine N-methyltr	no	no	0.194	0.109	0.301	1e-11
Q96L73		2696	Histone-lysine N-methyltr	no	no	0.197	0.056	0.280	2e-11
Q9BZ95		1437	Histone-lysine N-methyltr	no	no	0.158	0.084	0.306	3e-11
O96028		1365	Histone-lysine N-methyltr	no	no	0.159	0.090	0.305	1e-10

>sp\|Q55FD6\|Y8158_DICDI PHD finger-containing protein DDB_G0268158 OS=Dictyostelium discoideum GN=DDB_G0268158 PE=4 SV=1	Back alignment and function desciption

 Score = 93.6 bits (231), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 59/183 (32%), Positives = 88/183 (48%), Gaps = 28/183 (15%)

Query: 199 DWNEDEDSERVDKDENYFAVCAICDDGGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQ 258
           + N+D+  +R  K+E   AVC  C+  G++  CDG CLRSFH +    +N    S     
Sbjct: 122 ETNDDDKPKRPRKNE---AVCTFCEKPGELLMCDGLCLRSFHISCLKARNLYNPSSSSIS 178

Query: 259 --AQIDAVPNFLCQNCVYQEHQCFAC---GMLGSSDKSSSQEVFPCVSATCGQFYHPECV 313
               ID    + C +CV  ++ CF+C   G++G        ++  C    CG+FYH +CV
Sbjct: 179 PVTTIDGTVRWECNDCVSSQNSCFSCKKRGIIGI-------DLMKCKVHQCGKFYHYKCV 231

Query: 314 SKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQSEDMNVEDLQLAICRRCPKAYHR 373
           +      +  LA+ +  +      F CP+H C VC+ S D      Q   C RCP AYH 
Sbjct: 232 A------DYKLAKLINTKTPR---FNCPLHYCSVCEVSGDGK----QSVHCFRCPTAYHV 278

Query: 374 KCL 376
            C+
Sbjct: 279 ICM 281

Dictyostelium discoideum (taxid: 44689)

>sp\|Q6P2L6\|NSD3_MOUSE Histone-lysine N-methyltransferase NSD3 OS=Mus musculus GN=Whsc1l1 PE=1 SV=2	Back alignment and function description

>sp\|O88491\|NSD1_MOUSE Histone-lysine N-methyltransferase, H3 lysine-36 and H4 lysine-20 specific OS=Mus musculus GN=Nsd1 PE=1 SV=1	Back alignment and function description

>sp\|Q8BVE8\|NSD2_MOUSE Histone-lysine N-methyltransferase NSD2 OS=Mus musculus GN=Whsc1 PE=1 SV=2	Back alignment and function description

>sp\|Q96L73\|NSD1_HUMAN Histone-lysine N-methyltransferase, H3 lysine-36 and H4 lysine-20 specific OS=Homo sapiens GN=NSD1 PE=1 SV=1	Back alignment and function description

>sp\|Q9BZ95\|NSD3_HUMAN Histone-lysine N-methyltransferase NSD3 OS=Homo sapiens GN=WHSC1L1 PE=1 SV=1	Back alignment and function description

>sp\|O96028\|NSD2_HUMAN Histone-lysine N-methyltransferase NSD2 OS=Homo sapiens GN=WHSC1 PE=1 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		770
225446989		1216	PREDICTED: uncharacterized protein LOC10	0.953	0.603	0.534	0.0
359494102		1260	PREDICTED: uncharacterized protein LOC10	0.949	0.580	0.520	0.0
147814981		2238	hypothetical protein VITISV_020586 [Viti	0.949	0.326	0.519	0.0
297737514		1201	unnamed protein product [Vitis vinifera]	0.893	0.572	0.511	0.0
255576262		1249	protein binding protein, putative [Ricin	0.953	0.587	0.482	0.0
356569700		1225	PREDICTED: uncharacterized protein LOC10	0.953	0.599	0.457	0.0
357459829		1289	hypothetical protein MTR_3g055370 [Medic	0.959	0.573	0.446	1e-180
356499417		1065	PREDICTED: uncharacterized protein LOC10	0.944	0.682	0.430	1e-169
9758171		1332	unnamed protein product [Arabidopsis tha	0.944	0.545	0.428	1e-166
145359280		1297	enhanced downy mildew 2 [Arabidopsis tha	0.944	0.560	0.428	1e-166

>gi\|225446989\|ref\|XP_002268363.1\| PREDICTED: uncharacterized protein LOC100248222 [Vitis vinifera]	Back alignment and taxonomy information

 Score =  773 bits (1995), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 408/763 (53%), Positives = 531/763 (69%), Gaps = 29/763 (3%)

Query: 1   MGYSEEDDDTLTLYVSDYEFLDQNEESISFSVLPLQWDGCDIVGSSEMQVFLHGNIGDGP 60
           M  S+E+ + L   + DY F+D  +E ISFS+LPLQW   +     +M +FL G+  DG 
Sbjct: 1   MASSDEEGEILPNCIRDYYFVDYKDEPISFSILPLQWSKDENPDGLKMMIFLRGSAYDGL 60

Query: 61  WNFNEQVIAWKFELSYAQPEIWVLSKQNNWIMLQSPKKSFKNIVRTILITVHWLYCVKQN 120
               +QVIAWKFELS  +PEI+VLSK  NW+ LQSP+KSF+NIVRTIL+TV WL+ VK+N
Sbjct: 61  QKIYKQVIAWKFELSSVEPEIFVLSKDKNWMELQSPRKSFQNIVRTILVTVSWLHFVKRN 120

Query: 121 PEASRKYIREQMLKVFCSYEVEPSENDLLDHMPISREAAERDKDLANSKFLLSFMANH-- 178
           PEAS K +   +LK F SYE EPSENDLLDHMP+ +EA +R++DL  SK +L+++     
Sbjct: 121 PEASGKSLWNHLLKSFSSYEFEPSENDLLDHMPLIQEAVKREEDLLKSKCMLTYLPEKTG 180

Query: 179 ------------PETNTFHEDVRTTEKPKVIVDWNEDEDSERVDKDEN--YFAVCAICDD 224
                         +N    DV T  +   I D +++++ E  D+D +  + +VCAICD+
Sbjct: 181 GETALYEGSLVLSSSNIPSSDVHTMRRYTFIDDRDDNDEDEENDEDNDELFDSVCAICDN 240

Query: 225 GGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGM 284
           GG++  C+GRCLRSFHAT+ AG  + C+SLG++ AQ++A+ NFLC+NC YQ+HQCF CGM
Sbjct: 241 GGELLCCEGRCLRSFHATVDAGTESFCESLGFSDAQVEAIQNFLCKNCQYQQHQCFVCGM 300

Query: 285 LGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHK 344
           LGSS++SS  EVF C SATCG+FYHP CV+K LHP N  LA+ L+ +IA G SFTCP+HK
Sbjct: 301 LGSSNESSGAEVFRCASATCGRFYHPYCVAKRLHPMNNILAKHLQNKIAGGVSFTCPLHK 360

Query: 345 CFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPTEITFS-DADENNFQRAWVDLLPNNRI 403
           CFVC++ E+  V+DLQ A+CRRCPKAYHRKCLP  I+F    +EN  QRAW+ LLP NRI
Sbjct: 361 CFVCKRGENKGVDDLQFALCRRCPKAYHRKCLPGNISFECIYNENIMQRAWIGLLP-NRI 419

Query: 404 LIYCLEHKIISELKTPARDHLKFPGVEGKRKKEDLELLLTEEKDVASKRNIVSESFVADK 463
           LIYC+EHKI  +L+TP R+H++FP  E K KK   EL  + EK ++ KRNIVSE F A+ 
Sbjct: 420 LIYCMEHKINRKLRTPERNHIRFPDPESKGKKHVSELPSSNEKVMSKKRNIVSEIFPAES 479

Query: 464 TVVKKLKLAEVYSGADVGMSNSEIKKRWPRQDVHSLKKPNITDTGRKSLKDIADKSKP-- 521
           T VK  KL EV+       S    +KR   Q      K  I D  +K L+D   KS P  
Sbjct: 480 TAVKMTKL-EVHRVVKDVDSTKFFEKRCSSQGFDPPTKQKINDATKKFLRDNV-KSVPVK 537

Query: 522 ---SLRKDSTLLKSRSFVVKPGHRNIDGSKMKNSISDRRRMKKVNISQPSVDAEMEKELL 578
              S+    T    R++ +KP  +NI  SK++   S +  MK+ + SQP +DAE+E  ++
Sbjct: 538 ICASVAVKGTQSSLRNYNIKPKQQNIP-SKVEKITSLKPSMKRASSSQPLMDAELETRIV 596

Query: 579 ALIKDSTSSFNEEEFMKSHIVPITHAHHSKHLLEKSITLGLVEGSVKAVRAALEMLDGGC 638
            L+K +TSSF+ EEF +   V  +   +SK++L+ +IT G VE SVKA+R ALE L+ GC
Sbjct: 597 DLMKSTTSSFSLEEFREKQKVLCS---YSKNVLDSTITQGKVEVSVKAIRTALEKLEKGC 653

Query: 639 DIEDAKAVCPPEILCQIFQWKRKLDVYLAPFLHGMRYTSFGRHFTKVEKLKEIVDRLHWY 698
            IEDAKAVC PE+L QI +WKRKL VYLAPFLHGMRYTSFGRHFTKVEKL+E+VDRLHWY
Sbjct: 654 SIEDAKAVCEPEVLNQIMRWKRKLKVYLAPFLHGMRYTSFGRHFTKVEKLREVVDRLHWY 713

Query: 699 VRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQPK 741
           V+ GD IVDFCCG+NDFSC+MK KL+++GKSCSF+NYDLIQPK
Sbjct: 714 VQHGDMIVDFCCGSNDFSCLMKEKLDKVGKSCSFKNYDLIQPK 756

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|359494102\|ref\|XP_002276879.2\| PREDICTED: uncharacterized protein LOC100243584 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|147814981\|emb\|CAN61366.1\| hypothetical protein VITISV_020586 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|297737514\|emb\|CBI26715.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|255576262\|ref\|XP_002529024.1\| protein binding protein, putative [Ricinus communis] gi\|223531504\|gb\|EEF33335.1\| protein binding protein, putative [Ricinus communis]	Back alignment and taxonomy information

>gi\|356569700\|ref\|XP_003553034.1\| PREDICTED: uncharacterized protein LOC100803073 [Glycine max]	Back alignment and taxonomy information

>gi\|357459829\|ref\|XP_003600195.1\| hypothetical protein MTR_3g055370 [Medicago truncatula] gi\|355489243\|gb\|AES70446.1\| hypothetical protein MTR_3g055370 [Medicago truncatula]	Back alignment and taxonomy information

>gi\|356499417\|ref\|XP_003518537.1\| PREDICTED: uncharacterized protein LOC100806429 [Glycine max]	Back alignment and taxonomy information

>gi\|9758171\|dbj\|BAB08556.1\| unnamed protein product [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|145359280\|ref\|NP_200350.2\| enhanced downy mildew 2 [Arabidopsis thaliana] gi\|334188424\|ref\|NP_001190545.1\| enhanced downy mildew 2 [Arabidopsis thaliana] gi\|332009240\|gb\|AED96623.1\| enhanced downy mildew 2 [Arabidopsis thaliana] gi\|332009241\|gb\|AED96624.1\| enhanced downy mildew 2 [Arabidopsis thaliana]	Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		770
TAIR\|locus:2173857		1297	EDM2 "ENHANCED DOWNY MILDEW 2"	0.548	0.325	0.471	3.1e-164
TAIR\|locus:2162667		677	ELP1 "EDM2-like protein1" [Ara	0.350	0.398	0.391	5.3e-100
DICTYBASE\|DDB_G0268158		688	DDB_G0268158 "PHD zinc finger-	0.233	0.261	0.301	1e-17
MGI\|MGI:1276574		1365	Whsc1 "Wolf-Hirschhorn syndrom	0.112	0.063	0.351	9.7e-09
ZFIN\|ZDB-GENE-080519-2		1873	nsd1b "nuclear receptor bindin	0.131	0.053	0.352	3.5e-07
UNIPROTKB\|F1S8S0		1361	WHSC1 "Uncharacterized protein	0.110	0.062	0.330	5.2e-07
MGI\|MGI:2142581		1439	Whsc1l1 "Wolf-Hirschhorn syndr	0.144	0.077	0.300	1.3e-06
UNIPROTKB\|E1C6X8		1436	WHSC1L1 "Uncharacterized prote	0.248	0.133	0.266	2.2e-06
UNIPROTKB\|D4A3R4		1439	Whsc1l1 "Protein Whsc1l1" [Rat	0.118	0.063	0.336	3.1e-06
RGD\|1308980		1443	Whsc1l1 "Wolf-Hirschhorn syndr	0.118	0.063	0.336	3.1e-06

TAIR\|locus:2173857 EDM2 "ENHANCED DOWNY MILDEW 2" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1058 (377.5 bits), Expect = 3.1e-164, Sum P(2) = 3.1e-164
 Identities = 204/433 (47%), Positives = 294/433 (67%)

Query:     5 EEDDDTLTLYVSDYEFLDQNEESISFSVLPLQWDGCDIVGSSEMQVFLHGNIGDGPWNFN 64
             EE+D ++    S+Y F D ++E +SF+ LP+QW   + V  S +  +L G   +G    +
Sbjct:     8 EEEDFSVPQSASNYYFEDDDKEPVSFARLPIQWSVEEKVDGSGLGFYLRGRSDNGLLPLH 67

Query:    65 EQVIAWKFELSYAQPEIWVLSKQNNWIMLQSPKKSFKNIVRTILITVHWLYCVKQNPEAS 124
             + V AW+++LS  QPEI VL+K N WI L+ P+KS+  ++RT+L+T+H +  +++NP+AS
Sbjct:    68 KLVKAWRYDLSNFQPEISVLTKDNIWIKLEEPRKSYGELIRTVLVTLHSIQFLRRNPQAS 127

Query:   125 RKYIREQMLKVFCSYEVEPSENDLLDHMPISREAAERDKDLANSKFLLSFMANHPETNTF 184
              K + E++ +   SY+V+PS+NDL+DH+ +  EAA+RD++LANSKF+L+F+   P T   
Sbjct:   128 EKALWEKLTRSLRSYDVKPSQNDLVDHIGLIAEAAKRDRNLANSKFILAFLTKKP-TKRR 186

Query:   185 HEDVRTTEKPKVIVDWN----EDEDSERVDKDENYF-AVCAICDDGGDVTFCDGRCLRSF 239
               D    +   ++ D +     DED E  D+D+++F +VCAICD+GG++  C+G CLRSF
Sbjct:   187 LPDEDNAKDDFIVGDEDTYVASDED-ELDDEDDDFFESVCAICDNGGEILCCEGSCLRSF 245

Query:   240 HATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGMLGSSDKSS-SQEVFP 298
             HAT   G+++LC SLG+ + Q++A+  + C NC ++ HQCF C  LGSSD SS + EVF 
Sbjct:   246 HATKKDGEDSLCDSLGFNKMQVEAIQKYFCPNCEHKIHQCFICKNLGSSDNSSGAAEVFQ 305

Query:   299 CVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQSEDMNVED 358
             CVSATCG FYHP CV++ L   N+  +E L  +I AGE +TCP+HKC VC+  E     +
Sbjct:   306 CVSATCGYFYHPHCVTRRLRLGNKEESEALERQIIAGE-YTCPLHKCSVCENGEVKTDSN 364

Query:   359 LQLAICRRCPKAYHRKCLPTEITFSDA-DENNFQRAWVDLLPNNRILIYCLEHKIISELK 417
             LQ A+CRRCPK+YHRKCLP EI+F D  DE+   RAW  LL +NR+LIYC EH+I  EL 
Sbjct:   365 LQFAVCRRCPKSYHRKCLPREISFEDIEDEDILTRAWDGLL-HNRVLIYCQEHEIDEELL 423

Query:   418 TPARDHLKFPGVE 430
             TP RDH+KFP  E
Sbjct:   424 TPVRDHVKFPFTE 436

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0007165 "signal transduction" evidence=IMP

GO:0050832 "defense response to fungus" evidence=IMP

GO:0009911 "positive regulation of flower development" evidence=IMP

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=IMP

TAIR\|locus:2162667 ELP1 "EDM2-like protein1" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

DICTYBASE\|DDB_G0268158 DDB_G0268158 "PHD zinc finger-containing protein" [Dictyostelium discoideum (taxid:44689)]	Back alignment and assigned GO terms

MGI\|MGI:1276574 Whsc1 "Wolf-Hirschhorn syndrome candidate 1 (human)" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-080519-2 nsd1b "nuclear receptor binding SET domain protein 1b" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

UNIPROTKB\|F1S8S0 WHSC1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

MGI\|MGI:2142581 Whsc1l1 "Wolf-Hirschhorn syndrome candidate 1-like 1 (human)" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

UNIPROTKB\|E1C6X8 WHSC1L1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

UNIPROTKB\|D4A3R4 Whsc1l1 "Protein Whsc1l1" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

RGD\|1308980 Whsc1l1 "Wolf-Hirschhorn syndrome candidate 1-like 1" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		770
pfam12047		143	pfam12047, DNMT1-RFD, Cytosine specific DNA methyl	8e-12

>gnl\|CDD\|221394 pfam12047, DNMT1-RFD, Cytosine specific DNA methyltransferase replication foci domain	Back alignment and domain information

 Score = 63.1 bits (154), Expect = 8e-12
 Identities = 26/132 (19%), Positives = 46/132 (34%), Gaps = 13/132 (9%)

Query: 7   DDDTLTLYVSDYEFLDQNEESISFSVLPLQWDGCDIVGSSEMQVF--------LHGNIGD 58
           +D+     ++++   D + E  S   LP++ +  D+  S  ++            G    
Sbjct: 1   EDERPQRKLTNFALYDSDGELCSLETLPIKKNV-DLFISGVIKPIYDDEPSLEGKGVRDK 59

Query: 59  GPWNFNEQVIAWKFELSYAQPEIWVLSKQNNWIMLQSPKKSFK----NIVRTILITVHWL 114
           G   F  ++  W          I  LS    W  L  P KS+      +     +TV  L
Sbjct: 60  GLEIFLGRIKEWTISGGDDGEPIIWLSTDFAWYKLLKPSKSYAPLYEPVFEKARVTVEVL 119

Query: 115 YCVKQNPEASRK 126
             +K+NP     
Sbjct: 120 KFLKRNPRVPDL 131

This domain is part of a cytosine specific DNA methyltransferase enzyme. It functions non-catalytically to target the protein towards replication foci. This allows the DNMT1 protein to methylate the correct residues. This domain targets DMAP1 and HDAC2 to the replication foci during the S phase of mitosis. They are thought to have some importance in conversion of critical histone lysine moieties. Length = 143

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		770
PF12047		146	DNMT1-RFD: Cytosine specific DNA methyltransferase	99.8
KOG4443		694	consensus Putative transcription factor HALR/MLL3,	98.09
COG5034		271	TNG2 Chromatin remodeling protein, contains PhD zi	97.61
KOG4299		613	consensus PHD Zn-finger protein [General function	97.55
KOG4299		613	consensus PHD Zn-finger protein [General function	97.54
PF00628		51	PHD: PHD-finger; InterPro: IPR019787 Zinc finger (	97.52
COG5141		669	PHD zinc finger-containing protein [General functi	97.52
KOG1244		336	consensus Predicted transcription factor Requiem/N	97.48
KOG1973		274	consensus Chromatin remodeling protein, contains P	97.47
smart00249		47	PHD PHD zinc finger. The plant homeodomain (PHD) f	97.39
KOG1512		381	consensus PHD Zn-finger protein [General function	97.35
KOG0955		1051	consensus PHD finger protein BR140/LIN-49 [General	97.27
KOG1244		336	consensus Predicted transcription factor Requiem/N	97.22
KOG4443		694	consensus Putative transcription factor HALR/MLL3,	97.02
KOG0954		893	consensus PHD finger protein [General function pre	96.77
KOG0956		900	consensus PHD finger protein AF10 [General functio	96.74
PF15446		175	zf-PHD-like: PHD/FYVE-zinc-finger like domain	96.7
KOG0383		696	consensus Predicted helicase [General function pre	96.6
smart00249		47	PHD PHD zinc finger. The plant homeodomain (PHD) f	96.12
KOG1473		1414	consensus Nucleosome remodeling factor, subunit NU	95.73
KOG0825		1134	consensus PHD Zn-finger protein [General function	95.35
PF00628		51	PHD: PHD-finger; InterPro: IPR019787 Zinc finger (	95.23
KOG1512		381	consensus PHD Zn-finger protein [General function	94.26
KOG1701		468	consensus Focal adhesion adaptor protein Paxillin	94.12
KOG4323		464	consensus Polycomb-like PHD Zn-finger protein [Gen	94.11
KOG0383		696	consensus Predicted helicase [General function pre	93.38
KOG0825		1134	consensus PHD Zn-finger protein [General function	92.47
PF13832		110	zf-HC5HC2H_2: PHD-zinc-finger like domain	92.22
PF13832		110	zf-HC5HC2H_2: PHD-zinc-finger like domain	92.09
PRK05785		226	hypothetical protein; Provisional	90.33
COG2226		238	UbiE Methylase involved in ubiquinone/menaquinone	89.85
PRK14896		258	ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1	87.53
PRK00274		272	ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1	86.92
PF13771		90	zf-HC5HC2H: PHD-like zinc-binding domain	84.61
KOG0957		707	consensus PHD finger protein [General function pre	83.89
PTZ00338		294	dimethyladenosine transferase-like protein; Provis	82.77
PRK11188		209	rrmJ 23S rRNA methyltransferase J; Provisional	82.29
KOG0957		707	consensus PHD finger protein [General function pre	81.98
KOG4323		464	consensus Polycomb-like PHD Zn-finger protein [Gen	81.44
KOG1973		274	consensus Chromatin remodeling protein, contains P	80.13

>PF12047 DNMT1-RFD: Cytosine specific DNA methyltransferase replication foci domain; InterPro: IPR022702 This domain is part of a cytosine specific DNA methyltransferase enzyme	Back alignment and domain information

Probab=99.80  E-value=9.3e-21  Score=182.19  Aligned_cols=131  Identities=24%  Similarity=0.401  Sum_probs=101.1

Q ss_pred             CCCccccccceeEeecCCCCceEeeeeeeeccccccCCCCcceEEE----------eecccCCccceeeeEEEeeeeccC
Q 004169            7 DDDTLTLYVSDYEFLDQNEESISFSVLPLQWDGCDIVGSSEMQVFL----------HGNIGDGPWNFNEQVIAWKFELSY   76 (770)
Q Consensus         7 ~~e~~~~~v~~y~f~d~~~~~v~fs~lp~~~~~~~~~~~~~~~v~l----------~g~~d~gl~~v~~~v~aW~~~l~~   76 (770)
                      |++.++..++||+|.|++++||+|+.||++|+...-+.|..+.+++          +|..++|++.++.+|++|.+++..
T Consensus         1 ~~~~p~r~L~~f~~~d~~~~~~~le~l~~~~~~~~~~sG~v~~~~~~~~~~~~~~~~g~~~~g~~~~l~~I~~W~i~~~~   80 (146)
T PF12047_consen    1 EDDLPMRSLDDFSFYDSDGEPVSLELLPIEWNVDLFASGVVKPIGLWGDDEPSPKEKGVRDEGVRIRLGPIKEWWIDGGD   80 (146)
T ss_dssp             -SSS-EEEEEEEEEEETTSBB--STTSTTTTT--EEEEEEEEETT-------SSTS-SEEEEC----ES-ECEEEEE-SS
T ss_pred             CCCCcceEEEEEEEEeCCCCEEeeeeccccCCCcccceEEecccCcccccCccccccCccCCCcccceeceeEEEEEecC
Confidence            5788899999999999999999999999999998877777788887          799999999999999999999998


Q ss_pred             CcceEEEEecCCceeEcCCCchh----HHHHHHHHHHHhhhhhhhccCCccchhHHHHHHHhhcc
Q 004169           77 AQPEIWVLSKQNNWIMLQSPKKS----FKNIVRTILITVHWLYCVKQNPEASRKYIREQMLKVFC  137 (770)
Q Consensus        77 ~~p~i~vls~~~~Wi~L~kPr~~----ye~~ir~vlitv~~LhfvkknPe~s~k~l~~~L~K~fs  137 (770)
                      ..|.+.+++.+.+|++|+||+++    |+.++|++.||++++|+|++||+.+..++|++|.++++
T Consensus        81 ~~~~~i~i~T~~awY~L~kPs~~Y~~~y~~~~~~~~l~~~v~~~l~~~~~~~~~s~~d~l~~v~~  145 (146)
T PF12047_consen   81 DGPPIIWISTDYAWYRLMKPSKSYAPWYEPFLRKARLTVRVIHFLKKNPRASDLSYEDLLARVFR  145 (146)
T ss_dssp             SSS-EEEEEESS-EEEE-SB-TTTHHHHCCHHHHHHHHHHHHHHHHHHT---T--HHHHHHHHHH
T ss_pred             CCccEEEEEECCcEEEECCccHHHHHHHHHHHHHHHHHHHHHHHHhhCcccccCCHHHHHHHHhc
Confidence            88899999999999999999999    66789999999999999999999999999999999864

It functions non-catalytically to target the protein towards replication foci. This allows the DNMT1 protein to methylate the correct residues. This domain targets DMAP1 and HDAC2 to the replication foci during the S phase of mitosis. They are thought to have some importance in conversion of critical histone lysine moieties []. A structure exists for the human cytosine specific DNA methyltransferase replication foci domain. ; PDB: 3AV6_A 3AV5_A 3AV4_A 3EPZ_B.

>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]	Back alignment and domain information

>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]	Back alignment and domain information

>KOG4299 consensus PHD Zn-finger protein [General function prediction only]	Back alignment and domain information

>KOG4299 consensus PHD Zn-finger protein [General function prediction only]	Back alignment and domain information

>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule	Back alignment and domain information

>COG5141 PHD zinc finger-containing protein [General function prediction only]	Back alignment and domain information

>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]	Back alignment and domain information

>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]	Back alignment and domain information

>smart00249 PHD PHD zinc finger	Back alignment and domain information

>KOG1512 consensus PHD Zn-finger protein [General function prediction only]	Back alignment and domain information

>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]	Back alignment and domain information

>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]	Back alignment and domain information

>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]	Back alignment and domain information

>KOG0954 consensus PHD finger protein [General function prediction only]	Back alignment and domain information

>KOG0956 consensus PHD finger protein AF10 [General function prediction only]	Back alignment and domain information

>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain	Back alignment and domain information

>KOG0383 consensus Predicted helicase [General function prediction only]	Back alignment and domain information

>smart00249 PHD PHD zinc finger	Back alignment and domain information

>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]	Back alignment and domain information

>KOG0825 consensus PHD Zn-finger protein [General function prediction only]	Back alignment and domain information

>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule	Back alignment and domain information

>KOG1512 consensus PHD Zn-finger protein [General function prediction only]	Back alignment and domain information

>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]	Back alignment and domain information

>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]	Back alignment and domain information

>KOG0383 consensus Predicted helicase [General function prediction only]	Back alignment and domain information

>KOG0825 consensus PHD Zn-finger protein [General function prediction only]	Back alignment and domain information

>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain	Back alignment and domain information

>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain	Back alignment and domain information

>PRK05785 hypothetical protein; Provisional	Back alignment and domain information

>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]	Back alignment and domain information

>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional	Back alignment and domain information

>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed	Back alignment and domain information

>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain	Back alignment and domain information

>KOG0957 consensus PHD finger protein [General function prediction only]	Back alignment and domain information

>PTZ00338 dimethyladenosine transferase-like protein; Provisional	Back alignment and domain information

>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional	Back alignment and domain information

>KOG0957 consensus PHD finger protein [General function prediction only]	Back alignment and domain information

>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]	Back alignment and domain information

>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		770
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-09
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04
3v43_A		112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	2e-06
2kwj_A		114	Zinc finger protein DPF3; acetyl-lysine, transcrip	1e-05
2ysm_A		111	Myeloid/lymphoid or mixed-lineage leukemia protein	2e-05

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

 Score = 59.1 bits (142), Expect = 5e-09
 Identities = 85/673 (12%), Positives = 185/673 (27%), Gaps = 198/673 (29%)

Query: 126 KYIREQMLKVFCSYEVEPSENDLLDHMPISREAAERDKDLANSKFLLSFMANHPETNTFH 185
           K +++    +    E+        DH+ +S++A         +  L   + +  E     
Sbjct: 36  KDVQDMPKSILSKEEI--------DHIIMSKDAVSG------TLRLFWTLLSKQE-EMVQ 80

Query: 186 EDVRTTEKP--KVIVDWNEDEDSERVDKDENYFAVCAICDDGGDVTFCDGRCLRSFHAT- 242
           + V    +   K ++   + E  +       Y        +  D  + D +    ++ + 
Sbjct: 81  KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY-------IEQRDRLYNDNQVFAKYNVSR 133

Query: 243 ---ITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGMLGSSDKSS------- 292
                  + AL +        +    N L    +         G+LGS  K+        
Sbjct: 134 LQPYLKLRQALLE--------LRPAKNVL----ID--------GVLGSG-KTWVALDVCL 172

Query: 293 ---SQEVFPC-VS-ATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFV 347
               Q      +          PE V ++L    + L  ++     +    +  +     
Sbjct: 173 SYKVQCKMDFKIFWLNLKNCNSPETVLEML----QKLLYQIDPNWTSRSDHSSNI----- 223

Query: 348 CQQSEDMNVEDLQLAICRRCPKAYHRKCLPTEITFSDADENNFQRAWV----DLLPNNRI 403
                 + +  +Q  + R      +  CL   +   +      Q A      +L  + +I
Sbjct: 224 -----KLRIHSIQAELRRLLKSKPYENCL---LVLLNV-----QNAKAWNAFNL--SCKI 268

Query: 404 LIYCLEHKIISELKTPARDHLKFPGVEGKRKKEDLELLLTEEKDVASKRNIVSESFVADK 463
           L+     ++   L      H+           +   + LT ++          +S +   
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISL---------DHHSMTLTPDE---------VKSLLLKY 310

Query: 464 TVVKKLKL-AEVYSG-----ADVGMSNSEIKKRWPRQDVHSLKKPNITDTGRKSLKDIAD 517
              +   L  EV +      + +  S  +    W        K  N        L  I +
Sbjct: 311 LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN-----WKHVNC-----DKLTTIIE 360

Query: 518 KSKPSLRKDSTLLKSR--SFVVKPGHRNIDGSKMKNSISDRRRMKKVNISQPSVDAEMEK 575
            S   L  +    +       V P                       +I  P+       
Sbjct: 361 SSLNVL--EPAEYRKMFDRLSVFP--------------------PSAHI--PT------- 389

Query: 576 ELLALIKDSTSSFNEEEFMKSHIVPITHAHHSKHLLEKSITLGLVEGSVKAVRAALEML- 634
            LL+LI       +    +               L + S    LVE   K    ++  + 
Sbjct: 390 ILLSLIWFDVIKSDVMVVVN-------------KLHKYS----LVEKQPKESTISIPSIY 432

Query: 635 -DGGCDIEDAKAVCPPEILCQIFQWKRKLDVY--LAPFLHGMRYTSFGRHFTKVEKLKEI 691
            +    +E+  A+     +   +   +  D    + P+L    Y+  G H   +E  + +
Sbjct: 433 LELKVKLENEYAL--HRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERM 490

Query: 692 VDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNY--DLIQ--PKVVGYSL 747
                 +       +DF      F   ++ K+     + +      + +Q       Y  
Sbjct: 491 TLFRMVF-------LDF-----RF---LEQKIRHDSTAWNASGSILNTLQQLKFYKPYIC 535

Query: 748 DICCYPVLLILDL 760
           D       L+  +
Sbjct: 536 DNDPKYERLVNAI 548

PyMOL of 1vt4

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

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A Length = 112	Back alignment and structure

>2kwj_A Zinc finger protein DPF3; acetyl-lysine, transcription regulation, nucleus, metal BIND protein; HET: ALY; NMR {Homo sapiens} PDB: 2kwk_A 2kwn_A* 2kwo_A* Length = 114	Back alignment and structure

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens} Length = 111	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		770
2ysm_A		111	Myeloid/lymphoid or mixed-lineage leukemia protein	99.39
4gne_A		107	Histone-lysine N-methyltransferase NSD3; zinc fing	99.07
3v43_A		112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	98.97
2kwj_A		114	Zinc finger protein DPF3; acetyl-lysine, transcrip	98.92
2ysm_A		111	Myeloid/lymphoid or mixed-lineage leukemia protein	98.9
3v43_A		112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	98.82
4gne_A		107	Histone-lysine N-methyltransferase NSD3; zinc fing	98.7
1mm2_A		61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	98.69
2kwj_A		114	Zinc finger protein DPF3; acetyl-lysine, transcrip	98.67
1xwh_A		66	Autoimmune regulator; PHD domain, Zn binding domai	98.64
2l5u_A		61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	98.62
1fp0_A		88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	98.59
2puy_A		60	PHD finger protein 21A; PHD finger, histone CODE,	98.57
3u5n_A		207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	98.57
2yql_A		56	PHD finger protein 21A; PHD domain, structural gen	98.5
3o36_A		184	Transcription intermediary factor 1-alpha; TRIM24,	98.48
2lri_C		66	Autoimmune regulator; Zn binding protein domain, a	98.39
2yt5_A		66	Metal-response element-binding transcription facto	98.25
2lbm_A		142	Transcriptional regulator ATRX; metal binding prot	98.25
2l43_A		88	N-teminal domain from histone H3.3, linker, PHD1 f	98.25
2ro1_A		189	Transcription intermediary factor 1-beta; KAP, TIF	98.22
2ku3_A		71	Bromodomain-containing protein 1; PHD finger, chro	98.2
2e6r_A		92	Jumonji/ARID domain-containing protein 1D; PHD dom	98.18
1f62_A		51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	98.11
2k16_A		75	Transcription initiation factor TFIID subunit 3; p	98.1
1wen_A		71	Inhibitor of growth family, member 4; ING1-like pr	98.07
3ql9_A		129	Transcriptional regulator ATRX; zinc finger, trans	98.05
1weu_A		91	Inhibitor of growth family, member 4; structural g	98.04
1wev_A		88	Riken cDNA 1110020M19; structural genomics, PHD do	98.02
2g6q_A		62	Inhibitor of growth protein 2; protein-peptide com	97.89
2e6s_A		77	E3 ubiquitin-protein ligase UHRF2; PHD domain, str	97.87
3asl_A		70	E3 ubiquitin-protein ligase UHRF1; histone reader	97.83
3c6w_A		59	P28ING5, inhibitor of growth protein 5; chromatin,	97.82
2vnf_A		60	ING 4, P29ING4, inhibitor of growth protein 4; ace	97.81
1we9_A		64	PHD finger family protein; structural genomics, PH	97.73
2lv9_A		98	Histone-lysine N-methyltransferase MLL5; zinc fing	97.62
2jmi_A		90	Protein YNG1, ING1 homolog 1; PHD, histone, recogn	97.59
3ask_A		226	E3 ubiquitin-protein ligase UHRF1; histone reader	97.51
2xb1_A		105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	97.5
3asl_A		70	E3 ubiquitin-protein ligase UHRF1; histone reader	97.46
2e6s_A		77	E3 ubiquitin-protein ligase UHRF2; PHD domain, str	97.44
2ri7_A		174	Nucleosome-remodeling factor subunit BPTF; zinc fi	97.43
2vpb_A		65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	97.42
3shb_A		77	E3 ubiquitin-protein ligase UHRF1; unmodified hist	97.37
3shb_A		77	E3 ubiquitin-protein ligase UHRF1; unmodified hist	97.3
1wem_A		76	Death associated transcription factor 1; structura	97.19
1wep_A		79	PHF8; structural genomics, PHD domain, riken struc	97.14
2kgg_A		52	Histone demethylase jarid1A; PHD finger, histone m	97.14
1f62_A		51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	97.1
1fp0_A		88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	97.05
1wee_A		72	PHD finger family protein; structural genomics, PH	97.02
3o70_A		68	PHD finger protein 13; PHF13, structural genomics	97.0
1wew_A		78	DNA-binding family protein; structural genomics, P	96.92
1x4i_A		70	Inhibitor of growth protein 3; structural genomics	96.87
3ask_A		226	E3 ubiquitin-protein ligase UHRF1; histone reader	96.87
2puy_A		60	PHD finger protein 21A; PHD finger, histone CODE,	96.76
2rsd_A		68	E3 SUMO-protein ligase SIZ1; E3 SUMO ligase, plant	96.75
2e6r_A		92	Jumonji/ARID domain-containing protein 1D; PHD dom	96.75
2lri_C		66	Autoimmune regulator; Zn binding protein domain, a	96.75
1mm2_A		61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	96.74
1xwh_A		66	Autoimmune regulator; PHD domain, Zn binding domai	96.7
1wil_A		89	KIAA1045 protein; ring finger domain, structural g	96.52
3o36_A		184	Transcription intermediary factor 1-alpha; TRIM24,	96.49
2l5u_A		61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	96.48
3kqi_A		75	GRC5, PHD finger protein 2; metal-binding, zinc-fi	96.43
2yql_A		56	PHD finger protein 21A; PHD domain, structural gen	96.4
3u5n_A		207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	96.39
1wev_A		88	Riken cDNA 1110020M19; structural genomics, PHD do	96.26
2yt5_A		66	Metal-response element-binding transcription facto	96.2
2ro1_A		189	Transcription intermediary factor 1-beta; KAP, TIF	96.19
3o7a_A		52	PHD finger protein 13 variant; PHF13, zinc finger,	96.15
2lbm_A		142	Transcriptional regulator ATRX; metal binding prot	95.48
3kv5_D		488	JMJC domain-containing histone demethylation prote	95.41
3a1b_A		159	DNA (cytosine-5)-methyltransferase 3A, histone H3;	95.2
2k16_A		75	Transcription initiation factor TFIID subunit 3; p	95.14
3lqh_A		183	Histone-lysine N-methyltransferase MLL; PHD finger	95.03
2ku3_A		71	Bromodomain-containing protein 1; PHD finger, chro	94.86
2lv9_A		98	Histone-lysine N-methyltransferase MLL5; zinc fing	94.72
2l43_A		88	N-teminal domain from histone H3.3, linker, PHD1 f	94.41
3pur_A		528	Lysine-specific demethylase 7 homolog; oxidoreduct	93.49
3ql9_A		129	Transcriptional regulator ATRX; zinc finger, trans	93.29
3kv4_A		447	PHD finger protein 8; epigenetics, histone CODE, c	93.13
2pv0_B		386	DNA (cytosine-5)-methyltransferase 3-like; DNMT3L,	92.89
1we9_A		64	PHD finger family protein; structural genomics, PH	92.4
4bbq_A		117	Lysine-specific demethylase 2A; oxidoreductase, ub	92.2
1wil_A		89	KIAA1045 protein; ring finger domain, structural g	90.95
3lqh_A		183	Histone-lysine N-methyltransferase MLL; PHD finger	90.74
3dou_A		191	Ribosomal RNA large subunit methyltransferase J; c	90.39
2plw_A		201	Ribosomal RNA methyltransferase, putative; malaria	90.32
2xb1_A		105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	90.31
3uwp_A		438	Histone-lysine N-methyltransferase, H3 lysine-79;	89.79
3rsn_A		177	SET1/ASH2 histone methyltransferase complex subun;	89.79
2h1r_A		299	Dimethyladenosine transferase, putative; SGC toron	89.14
2ri7_A		174	Nucleosome-remodeling factor subunit BPTF; zinc fi	88.94
1zq9_A		285	Probable dimethyladenosine transferase; SGC, struc	88.7
2kgg_A		52	Histone demethylase jarid1A; PHD finger, histone m	88.64
1wem_A		76	Death associated transcription factor 1; structura	88.48
3o70_A		68	PHD finger protein 13; PHF13, structural genomics	88.27
2ku7_A		140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	87.13
2nyu_A		196	Putative ribosomal RNA methyltransferase 2; SAM, s	86.77
2vpb_A		65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	86.53
3uzu_A		279	Ribosomal RNA small subunit methyltransferase A; s	86.46
1qam_A		244	ERMC' methyltransferase; rRNA methyltransferase ER	86.44
3lbf_A		210	Protein-L-isoaspartate O-methyltransferase; modifi	86.39
1wep_A		79	PHF8; structural genomics, PHD domain, riken struc	86.04
1i1n_A		226	Protein-L-isoaspartate O-methyltransferase; S-aden	85.87
1wee_A		72	PHD finger family protein; structural genomics, PH	84.96
2okc_A		445	Type I restriction enzyme stysji M protein; NP_813	84.66
1vbf_A		231	231AA long hypothetical protein-L-isoaspartate O-	84.59
1wen_A		71	Inhibitor of growth family, member 4; ING1-like pr	84.37
2g6q_A		62	Inhibitor of growth protein 2; protein-peptide com	84.07
1weu_A		91	Inhibitor of growth family, member 4; structural g	83.6
1ej0_A		180	FTSJ; methyltransferase, adoMet, adenosyl methioni	83.59
3c6w_A		59	P28ING5, inhibitor of growth protein 5; chromatin,	83.43
2px2_A		269	Genome polyprotein [contains: capsid protein C (co	82.98
2vnf_A		60	ING 4, P29ING4, inhibitor of growth protein 4; ace	82.79
3a1b_A		159	DNA (cytosine-5)-methyltransferase 3A, histone H3;	82.55
2ar0_A		541	M.ecoki, type I restriction enzyme ecoki M protein	82.24
3tqs_A		255	Ribosomal RNA small subunit methyltransferase A; p	82.13
2pbf_A		227	Protein-L-isoaspartate O-methyltransferase beta-A	81.79
1wew_A		78	DNA-binding family protein; structural genomics, P	81.56
1yub_A		245	Ermam, rRNA methyltransferase; MLS antibiotics; NM	81.36
3lkd_A		542	Type I restriction-modification system methyltrans	80.82
1r18_A		227	Protein-L-isoaspartate(D-aspartate)-O-methyltrans;	80.74

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}	Back alignment and structure

Probab=99.39  E-value=3.2e-13  Score=123.23  Aligned_cols=102  Identities=25%  Similarity=0.692  Sum_probs=78.5

Q ss_pred             cCCCcccccccCCCCce---eecCCccccccccccccCccccccccCCcccccCCCCcccCccccccCcccccccccCCC
Q 004169          212 DENYFAVCAICDDGGDV---TFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGMLGSS  288 (770)
Q Consensus       212 dd~~d~VC~IC~~gGeL---L~CdG~C~RsFH~~Cl~g~~s~C~sLGlt~~ev~~~~~W~C~eC~~~qhqCfvCgklGss  288 (770)
                      ...++++|.+|+++|++   |.|+ .|+++||+.|+          +++..++ +...|+|++|.    .|.+|++.+. 
T Consensus         3 ~~~~~~~C~~C~~~g~~~~ll~C~-~C~~~~H~~Cl----------~~~~~~~-~~~~W~C~~C~----~C~~C~~~~~-   65 (111)
T 2ysm_A            3 SGSSGANCAVCDSPGDLLDQFFCT-TCGQHYHGMCL----------DIAVTPL-KRAGWQCPECK----VCQNCKQSGE-   65 (111)
T ss_dssp             CCCCCSCBTTTCCCCCTTTSEECS-SSCCEECTTTT----------TCCCCTT-TSTTCCCTTTC----CCTTTCCCSC-
T ss_pred             CCCCCCCCcCCCCCCCCcCCeECC-CCCCCcChHHh----------CCccccc-cccCccCCcCC----cccccCccCC-
Confidence            35678999999999986   9999 59999999984          3333333 35799999998    5999998763 


Q ss_pred             CCCCCCceeeccCCCcCCcCcchhhcccCCCCchhHHHHHHHHHhcCCceecCCcccccCcCC
Q 004169          289 DKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQS  351 (770)
Q Consensus       289 d~ss~~eV~kCsv~~CGrfYH~~CL~~~~~p~~~~~~~el~krV~~g~~F~CPlH~C~~C~~~  351 (770)
                          ...++.|  ..|++.||..|+.+.+..            +. ...|.||  .|..|..+
T Consensus        66 ----~~~ll~C--d~C~~~yH~~Cl~ppl~~------------~P-~g~W~C~--~C~~c~~g  107 (111)
T 2ysm_A           66 ----DSKMLVC--DTCDKGYHTFCLQPVMKS------------VP-TNGWKCK--NCRICISG  107 (111)
T ss_dssp             ----CTTEEEC--SSSCCEEEGGGSSSCCSS------------CC-SSCCCCH--HHHCCSCS
T ss_pred             ----CCCeeEC--CCCCcHHhHHhcCCcccc------------CC-CCCcCCc--CCcCcCCC
Confidence                3579999  799999999999865421            11 2479897  77777664

PyMOL of 2ysm

>4gne_A Histone-lysine N-methyltransferase NSD3; zinc finger, transcription, nuclear protein, transf nuclear protein complex; 1.47A {Homo sapiens} PDB: 4gnd_A 4gnf_A 4gng_A*	Back alignment and structure

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A	Back alignment and structure

>2kwj_A Zinc finger protein DPF3; acetyl-lysine, transcription regulation, nucleus, metal BIND protein; HET: ALY; NMR {Homo sapiens} PDB: 2kwk_A 2kwn_A* 2kwo_A*	Back alignment and structure

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}	Back alignment and structure

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A	Back alignment and structure

>4gne_A Histone-lysine N-methyltransferase NSD3; zinc finger, transcription, nuclear protein, transf nuclear protein complex; 1.47A {Homo sapiens} PDB: 4gnd_A 4gnf_A 4gng_A*	Back alignment and structure

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A	Back alignment and structure

>2kwj_A Zinc finger protein DPF3; acetyl-lysine, transcription regulation, nucleus, metal BIND protein; HET: ALY; NMR {Homo sapiens} PDB: 2kwk_A 2kwn_A* 2kwo_A*	Back alignment and structure

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A	Back alignment and structure

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}	Back alignment and structure

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2	Back alignment and structure

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}	Back alignment and structure

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*	Back alignment and structure

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A	Back alignment and structure

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}	Back alignment and structure

>2yt5_A Metal-response element-binding transcription factor 2; zinc-regulated factor 1, ZIRF1, metal-response element DNA-binding protein M96; NMR {Mus musculus}	Back alignment and structure

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A	Back alignment and structure

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}	Back alignment and structure

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}	Back alignment and structure

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}	Back alignment and structure

>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2	Back alignment and structure

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*	Back alignment and structure

>1wen_A Inhibitor of growth family, member 4; ING1-like protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.50.1.2 PDB: 1wes_A	Back alignment and structure

>3ql9_A Transcriptional regulator ATRX; zinc finger, transcription, lysine trimethylation, protein, histone-binding protein, transcription-structural complex; HET: M3L; 0.93A {Homo sapiens} PDB: 3qla_A* 3qlc_A 3qln_A 2jm1_A	Back alignment and structure

>1weu_A Inhibitor of growth family, member 4; structural genomics, PHD domain, ING1-like protein, DNA binding protein, NPPSFA; NMR {Mus musculus} SCOP: g.50.1.2	Back alignment and structure

>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: g.50.1.2	Back alignment and structure

>2g6q_A Inhibitor of growth protein 2; protein-peptide complex, gene regulation, apoptosis; HET: M3L; 2.00A {Mus musculus}	Back alignment and structure

>2e6s_A E3 ubiquitin-protein ligase UHRF2; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>3asl_A E3 ubiquitin-protein ligase UHRF1; histone reader module, epigenetic regulation, LI binding protein complex; 1.41A {Homo sapiens} PDB: 3sou_A 3sow_A* 3sox_A 3zvy_A 2lgg_A 2lgk_A* 2lgl_A 3t6r_A 3zvz_B	Back alignment and structure

>3c6w_A P28ING5, inhibitor of growth protein 5; chromatin, PHD, ING, epigenetics, alternative splicing, metal-binding, phosphoprotein, zinc; HET: M3L; 1.75A {Homo sapiens} PDB: 2pnx_A*	Back alignment and structure

>2vnf_A ING 4, P29ING4, inhibitor of growth protein 4; acetylation, alternative splicing, anti-oncogene, cell cycle, coiled C nucleus, zinc, zinc-finger, ING4; HET: M3L; 1.76A {Homo sapiens} SCOP: g.50.1.2 PDB: 2k1j_A 2jmq_A 2qic_A*	Back alignment and structure

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2	Back alignment and structure

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}	Back alignment and structure

>2jmi_A Protein YNG1, ING1 homolog 1; PHD, histone, recognition, yeast, protein binding; NMR {Saccharomyces cerevisiae} PDB: 2jmj_A*	Back alignment and structure

>3ask_A E3 ubiquitin-protein ligase UHRF1; histone reader modules, epigenetic regulation, trimethylaion of lysine residue, ligase-DNA binding protein; HET: M3L; 2.90A {Homo sapiens}	Back alignment and structure

>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein, signal transduction, transcription, metal BI WNT proteins; 1.90A {Homo sapiens}	Back alignment and structure

>3asl_A E3 ubiquitin-protein ligase UHRF1; histone reader module, epigenetic regulation, LI binding protein complex; 1.41A {Homo sapiens} PDB: 3sou_A 3sow_A* 3sox_A 3zvy_A 2lgg_A 2lgk_A* 2lgl_A 3t6r_A 3zvz_B	Back alignment and structure

>2e6s_A E3 ubiquitin-protein ligase UHRF2; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>2ri7_A Nucleosome-remodeling factor subunit BPTF; zinc finger, alpha-helical bundle, dimethyl-lysine, bromodom chromatin regulator, metal-binding, nucleus; HET: MLY; 1.45A {Homo sapiens} PDB: 2fsa_A* 2f6n_A 2f6j_A* 3qzv_A* 3uv2_A* 3qzt_A* 3qzs_A* 2fui_A 2fuu_A*	Back alignment and structure

>2vpb_A Hpygo1, pygopus homolog 1; gene regulation, WNT signaling pathway, WNT signaling complex, chromosomal rearrangement, signaling protein; 1.59A {Homo sapiens} PDB: 2vpd_A 2yyr_A* 2dx8_A* 2vp7_A 2vpg_A* 2vpe_A*	Back alignment and structure

>3shb_A E3 ubiquitin-protein ligase UHRF1; unmodified histone, methylation, UHRF1, PHD, ligase-NUCL protein complex; 1.80A {Homo sapiens}	Back alignment and structure

>3shb_A E3 ubiquitin-protein ligase UHRF1; unmodified histone, methylation, UHRF1, PHD, ligase-NUCL protein complex; 1.80A {Homo sapiens}	Back alignment and structure

>1wem_A Death associated transcription factor 1; structural genomics, PHD domain, death inducer- obliterator 1(DIO-1); NMR {Mus musculus} SCOP: g.50.1.2	Back alignment and structure

>1wep_A PHF8; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: g.50.1.2	Back alignment and structure

>2kgg_A Histone demethylase jarid1A; PHD finger, histone modification, leukemia, alternative splicing, chromatin regulator, developmental protein; NMR {Homo sapiens} PDB: 2kgi_A* 3gl6_A*	Back alignment and structure

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2	Back alignment and structure

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2	Back alignment and structure

>1wee_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2	Back alignment and structure

>3o70_A PHD finger protein 13; PHF13, structural genomics consortium, SGC, structural genom type zinc finger, protein binding, zinc ION binding; 1.85A {Homo sapiens}	Back alignment and structure

>1wew_A DNA-binding family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2	Back alignment and structure

>1x4i_A Inhibitor of growth protein 3; structural genomics, PHD domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>3ask_A E3 ubiquitin-protein ligase UHRF1; histone reader modules, epigenetic regulation, trimethylaion of lysine residue, ligase-DNA binding protein; HET: M3L; 2.90A {Homo sapiens}	Back alignment and structure

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}	Back alignment and structure

>2rsd_A E3 SUMO-protein ligase SIZ1; E3 SUMO ligase, plant homeodomain (PHD), histone binding; NMR {Oryza sativa japonica group}	Back alignment and structure

>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}	Back alignment and structure

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A	Back alignment and structure

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A	Back alignment and structure

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3	Back alignment and structure

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A	Back alignment and structure

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}	Back alignment and structure

>3kqi_A GRC5, PHD finger protein 2; metal-binding, zinc-finger, histone-binding, NUC protein; HET: M3L; 1.78A {Homo sapiens} SCOP: g.50.1.2	Back alignment and structure

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*	Back alignment and structure

>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: g.50.1.2	Back alignment and structure

>2yt5_A Metal-response element-binding transcription factor 2; zinc-regulated factor 1, ZIRF1, metal-response element DNA-binding protein M96; NMR {Mus musculus}	Back alignment and structure

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}	Back alignment and structure

>3o7a_A PHD finger protein 13 variant; PHF13, zinc finger, PHD domain, nuclear protein, structural structural genomics consortium, SGC, protein binding; HET: M3L; 1.67A {Homo sapiens}	Back alignment and structure

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A	Back alignment and structure

>3kv5_D JMJC domain-containing histone demethylation protein 1D; epigenetics, histone CODE, jumonji lysine demethylase, metal-binding, zinc, zinc-finger; HET: OGA; 2.39A {Homo sapiens} PDB: 3kv6_A*	Back alignment and structure

>3a1b_A DNA (cytosine-5)-methyltransferase 3A, histone H3; zinc-finger, histone binding, chromosomal protein, DNA damag repair, DNA-binding, methylation; HET: DNA; 2.29A {Homo sapiens} PDB: 3a1a_A*	Back alignment and structure

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*	Back alignment and structure

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A	Back alignment and structure

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}	Back alignment and structure

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}	Back alignment and structure

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}	Back alignment and structure

>3pur_A Lysine-specific demethylase 7 homolog; oxidoreductase-oxidoreductase inhibitor complex; HET: 2HG; 2.10A {Caenorhabditis elegans} PDB: 3n9l_A 3n9m_A* 3n9o_A* 3n9p_A* 3n9q_A* 3n9n_A* 3puq_A*	Back alignment and structure

>3ql9_A Transcriptional regulator ATRX; zinc finger, transcription, lysine trimethylation, protein, histone-binding protein, transcription-structural complex; HET: M3L; 0.93A {Homo sapiens} PDB: 3qla_A* 3qlc_A 3qln_A 2jm1_A	Back alignment and structure

>3kv4_A PHD finger protein 8; epigenetics, histone CODE, covalent histone modifications, jumonji demethylase, mental retardation, metal-binding, zinc; HET: M3L MLY OGA; 2.19A {Homo sapiens}	Back alignment and structure

>2pv0_B DNA (cytosine-5)-methyltransferase 3-like; DNMT3L, unmethylated H3K4, de novo DNA methylation, transferase regulator; HET: DNA; 3.30A {Homo sapiens} PDB: 2pvc_B*	Back alignment and structure

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2	Back alignment and structure

>4bbq_A Lysine-specific demethylase 2A; oxidoreductase, ubiquitin, ligase, ubiquitination, demethyla ZF-CXXC DNA binding domain, CPG island, chromatin; 2.24A {Homo sapiens}	Back alignment and structure

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3	Back alignment and structure

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A	Back alignment and structure

>3dou_A Ribosomal RNA large subunit methyltransferase J; cell division, structural genomics, protein structure initiative, PSI; HET: SAM; 1.45A {Thermoplasma volcanium} SCOP: c.66.1.0	Back alignment and structure

>2plw_A Ribosomal RNA methyltransferase, putative; malaria, SAM, structural genomics, structural genomics consortium, SGC; HET: SAM; 1.70A {Plasmodium falciparum}	Back alignment and structure

>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein, signal transduction, transcription, metal BI WNT proteins; 1.90A {Homo sapiens}	Back alignment and structure

>3uwp_A Histone-lysine N-methyltransferase, H3 lysine-79; epigenetics, tubercidin, structu genomics, structural genomics consortium, SGC; HET: 5ID; 2.05A {Homo sapiens} PDB: 4eqz_A* 3sx0_A* 4er0_A* 4er7_A* 1nw3_A* 4er6_A* 4er5_A* 3qow_A* 3qox_A* 4ek9_A* 4ekg_A* 4eki_A* 4er3_A* 3sr4_A*	Back alignment and structure

>3rsn_A SET1/ASH2 histone methyltransferase complex subun; PHD domain, winged helix domain, binding, transcription; 2.10A {Homo sapiens} PDB: 3s32_A	Back alignment and structure

>2h1r_A Dimethyladenosine transferase, putative; SGC toronto dimethyladenosine transferase, structural genomics, structural genomics consortium; 1.89A {Plasmodium falciparum}	Back alignment and structure

>2ri7_A Nucleosome-remodeling factor subunit BPTF; zinc finger, alpha-helical bundle, dimethyl-lysine, bromodom chromatin regulator, metal-binding, nucleus; HET: MLY; 1.45A {Homo sapiens} PDB: 2fsa_A* 2f6n_A 2f6j_A* 3qzv_A* 3uv2_A* 3qzt_A* 3qzs_A* 2fui_A 2fuu_A*	Back alignment and structure

>1zq9_A Probable dimethyladenosine transferase; SGC, structural genomics, structural genomics consortium; HET: SAM; 1.90A {Homo sapiens} SCOP: c.66.1.24	Back alignment and structure

>2kgg_A Histone demethylase jarid1A; PHD finger, histone modification, leukemia, alternative splicing, chromatin regulator, developmental protein; NMR {Homo sapiens} PDB: 2kgi_A* 3gl6_A*	Back alignment and structure

>1wem_A Death associated transcription factor 1; structural genomics, PHD domain, death inducer- obliterator 1(DIO-1); NMR {Mus musculus} SCOP: g.50.1.2	Back alignment and structure

>3o70_A PHD finger protein 13; PHF13, structural genomics consortium, SGC, structural genom type zinc finger, protein binding, zinc ION binding; 1.85A {Homo sapiens}	Back alignment and structure

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens}	Back alignment and structure

>2nyu_A Putative ribosomal RNA methyltransferase 2; SAM, structural genomics, structural genomics consortium, SGC; HET: SAM; 1.76A {Homo sapiens}	Back alignment and structure

>2vpb_A Hpygo1, pygopus homolog 1; gene regulation, WNT signaling pathway, WNT signaling complex, chromosomal rearrangement, signaling protein; 1.59A {Homo sapiens} PDB: 2vpd_A 2yyr_A* 2dx8_A* 2vp7_A 2vpg_A* 2vpe_A*	Back alignment and structure

>3uzu_A Ribosomal RNA small subunit methyltransferase A; ssgcid, seattle structural genomics center for infectio disease; 1.75A {Burkholderia pseudomallei}	Back alignment and structure

>1qam_A ERMC' methyltransferase; rRNA methyltransferase ERMC', cofactor analogs; 2.20A {Bacillus subtilis} SCOP: c.66.1.24 PDB: 1qan_A* 1qao_A* 1qaq_A* 2erc_A	Back alignment and structure

>3lbf_A Protein-L-isoaspartate O-methyltransferase; modified rossman-type fold, S-adenosyl-L- methionine; HET: SAH; 1.80A {Escherichia coli}	Back alignment and structure

>1wep_A PHF8; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: g.50.1.2	Back alignment and structure

>1i1n_A Protein-L-isoaspartate O-methyltransferase; S-adenosyl homocysteine, protein repair; HET: SAH; 1.50A {Homo sapiens} SCOP: c.66.1.7 PDB: 1kr5_A*	Back alignment and structure

>1wee_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2	Back alignment and structure

>2okc_A Type I restriction enzyme stysji M protein; NP_813429.1, N-6 DNA methylase, type I restriction enzyme ST protein; HET: SAM; 2.20A {Bacteroides thetaiotaomicron vpi-5482} SCOP: c.66.1.45	Back alignment and structure

>1vbf_A 231AA long hypothetical protein-L-isoaspartate O- methyltransferase; trimeric coiled coil assembly; 2.80A {Sulfolobus tokodaii} SCOP: c.66.1.7	Back alignment and structure

>1wen_A Inhibitor of growth family, member 4; ING1-like protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.50.1.2 PDB: 1wes_A	Back alignment and structure

>2g6q_A Inhibitor of growth protein 2; protein-peptide complex, gene regulation, apoptosis; HET: M3L; 2.00A {Mus musculus}	Back alignment and structure

>1weu_A Inhibitor of growth family, member 4; structural genomics, PHD domain, ING1-like protein, DNA binding protein, NPPSFA; NMR {Mus musculus} SCOP: g.50.1.2	Back alignment and structure

>1ej0_A FTSJ; methyltransferase, adoMet, adenosyl methionine, heat shock proteins, 23S ribosomal RNA; HET: SAM; 1.50A {Escherichia coli} SCOP: c.66.1.2 PDB: 1eiz_A*	Back alignment and structure

>3c6w_A P28ING5, inhibitor of growth protein 5; chromatin, PHD, ING, epigenetics, alternative splicing, metal-binding, phosphoprotein, zinc; HET: M3L; 1.75A {Homo sapiens} PDB: 2pnx_A*	Back alignment and structure

>2px2_A Genome polyprotein [contains: capsid protein C (core protein); envelope protein M...; methyltransferase, SAH; HET: SAH; 2.00A {Murray valley encephalitis virus} PDB: 2px4_A* 2px5_A* 2pxa_A* 2pxc_A* 2px8_A* 2oy0_A*	Back alignment and structure

>2vnf_A ING 4, P29ING4, inhibitor of growth protein 4; acetylation, alternative splicing, anti-oncogene, cell cycle, coiled C nucleus, zinc, zinc-finger, ING4; HET: M3L; 1.76A {Homo sapiens} SCOP: g.50.1.2 PDB: 2k1j_A 2jmq_A 2qic_A*	Back alignment and structure

>3a1b_A DNA (cytosine-5)-methyltransferase 3A, histone H3; zinc-finger, histone binding, chromosomal protein, DNA damag repair, DNA-binding, methylation; HET: DNA; 2.29A {Homo sapiens} PDB: 3a1a_A*	Back alignment and structure

>2ar0_A M.ecoki, type I restriction enzyme ecoki M protein; structural genomics, protein structure initiative, nysgxrc; 2.80A {Escherichia coli} SCOP: c.66.1.45 PDB: 2y7c_B 2y7h_B*	Back alignment and structure

>3tqs_A Ribosomal RNA small subunit methyltransferase A; protein synthesis; 1.98A {Coxiella burnetii} SCOP: c.66.1.0	Back alignment and structure

>2pbf_A Protein-L-isoaspartate O-methyltransferase beta-A methyltransferase; protein repair, isoaspartyl formation, P. falciparum; HET: SAH; 2.00A {Plasmodium falciparum}	Back alignment and structure

>1wew_A DNA-binding family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2	Back alignment and structure

>1yub_A Ermam, rRNA methyltransferase; MLS antibiotics; NMR {Streptococcus pneumoniae} SCOP: c.66.1.24	Back alignment and structure

>3lkd_A Type I restriction-modification system methyltransferase subunit; Q5M500_STRT2, STU0711, NESG, SUR80, structural genomics, PSI-2; 2.25A {Streptococcus thermophilus}	Back alignment and structure

>1r18_A Protein-L-isoaspartate(D-aspartate)-O-methyltrans; methyltransferase, isomerization, protein repair, S-adenosyl homocysteine; HET: SAH; 2.20A {Drosophila melanogaster} SCOP: c.66.1.7	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		770
d1mm2a_		61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	98.55
d1fp0a1		70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	98.43
d1f62a_		51	Williams-Beuren syndrome transcription factor, WST	97.6
d1we9a_		64	PHD finger protein At5g26210 {Thale cress (Arabido	97.42
d1wesa_		71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	97.42
d1weva_		88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	97.36
d1wepa_		79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	97.31
d2pnxa1		51	Inhibitor of growth protein 4, Ing4 {Homo sapiens	97.04
d1wewa_		78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	96.93
d1weea_		72	PHD finger protein At1g33420 {Thale cress (Arabido	96.78
d1mm2a_		61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	96.72
d1fp0a1		70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	96.59
d1f62a_		51	Williams-Beuren syndrome transcription factor, WST	96.53
d1wema_		76	Death associated transcription factor 1, Datf1 (DI	96.19
d1weva_		88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	95.71
d1we9a_		64	PHD finger protein At5g26210 {Thale cress (Arabido	93.08
d1wema_		76	Death associated transcription factor 1, Datf1 (DI	91.54
d1wepa_		79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	89.5
d1weea_		72	PHD finger protein At1g33420 {Thale cress (Arabido	89.39
d1wila_		89	Hypothetical protein KIAA1045 {Human (Homo sapiens	88.5
d1ej0a_		180	RNA methyltransferase FtsJ {Escherichia coli [TaxI	84.08
d2ih2a1		223	DNA methylase TaqI, N-terminal domain {Thermus aqu	83.53
d1iyma_		55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	83.35
d1vyxa_		60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	82.89
d1wesa_		71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	80.78
d1wila_		89	Hypothetical protein KIAA1045 {Human (Homo sapiens	80.2

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.55  E-value=2.1e-08  Score=80.72  Aligned_cols=52  Identities=27%  Similarity=0.732  Sum_probs=40.1

Q ss_pred             cCCCcccccccCCCCceeecCCccccccccccccCccccccccCCcccccCCCCcccCcccccc
Q 004169          212 DENYFAVCAICDDGGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQ  275 (770)
Q Consensus       212 dd~~d~VC~IC~~gGeLL~CdG~C~RsFH~~Cl~g~~s~C~sLGlt~~ev~~~~~W~C~eC~~~  275 (770)
                      ++.++++|.+|.++|+||.|+ .|.++||..|+          ++....+ +.+.|+|+.|..+
T Consensus         5 ~d~~~~~C~~C~~~g~lv~Cd-~C~~~~H~~C~----------~~~~~~~-~~~~W~C~~C~~~   56 (61)
T d1mm2a_           5 SDHHMEFCRVCKDGGELLCCD-TCPSSYHIHCL----------NPPLPEI-PNGEWLCPRCTCP   56 (61)
T ss_dssp             SCSSCSSCTTTCCCSSCBCCS-SSCCCBCSSSS----------SSCCSSC-CSSCCCCTTTTTT
T ss_pred             ccCCcCCCcCCCCCCeEEEeC-CCCccCchhhc----------CCCcCcC-CCCcEECCCCcCc
Confidence            356677999999999999999 59999999984          3222222 3578999999743

PyMOL of d1mm2a_

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure

>d1wesa_ g.50.1.2 (A:) PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d2pnxa1 g.50.1.2 (A:195-245) Inhibitor of growth protein 4, Ing4 {Homo sapiens [TaxId: 9606]}	Back information, alignment and structure

>d1wewa_ g.50.1.2 (A:) Sumoylation ligase E3, SIZ1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure

>d1weea_ g.50.1.2 (A:) PHD finger protein At1g33420 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1weea_ g.50.1.2 (A:) PHD finger protein At1g33420 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1ej0a_ c.66.1.2 (A:) RNA methyltransferase FtsJ {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d2ih2a1 c.66.1.27 (A:21-243) DNA methylase TaqI, N-terminal domain {Thermus aquaticus [TaxId: 271]}	Back information, alignment and structure

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}	Back information, alignment and structure

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}	Back information, alignment and structure

>d1wesa_ g.50.1.2 (A:) PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure