Psyllid ID: psy11251

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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
Protein Sequence
MLCPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRKIEQGRTVLKIGGFLPAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTKNKDVHAL
Secondary Structure (PSIPRED)
ccccccccccccccccEEcccccccccccccccccHHHHHcccccccccccccccccccccccccEEccccccccccccccccccccccccccEEccccccccccccccccccccccccccHHHHHHHHccccccccccccccccHHHHcccHHHHHHHHHHHHHHHHHHccccHHHHHHHHcccccccc
Secondary Structure Prediction (SSPRO)
cccEcccccccccccEEEEcccccccccccccccccEEccccccccccccEEEEHHcccccccccEEEEccccccccccccccccccccccccccccEEccccccccccccccHHccccccccHHHHHccccccccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHHcccccHHHHHHccccccccccc
Coil and Loop (DISEMBL)
mlcptqaeksgqpedlvscsdcgrsghptclqftnnMKVSVKQYRWqcieckccsvcgtsdnddqllfcddcdrgyhmyclvppiqtppegswscQLCLKEFHRKIEQGRTVlkiggflpaeTLEKLRKVEgriacdedlklSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERArtknkdvhal
Flexible Loop (DISEMBL)
mlcptqaeksgqpedLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRKIEQgrtvlkiggflpaeTLEKLrkvegriacdedlklsdtlryymrdsDAAKRLLYRRLRCLADYEnanrnlerartknkdvhal
Low Complexity Region (SEG)
MLCPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRKIEQGRTVLKIGGFLPAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTKNKDVHAL
Disordered region (IsUnstruct)
*********************CGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRKIEQGRTVLKIGGFLPAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYE*******************
Disordered Region (DISOPRED)
ML****************CSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRKIEQGRTVLKIGGFLPAETLEK****************************************************************
Disordered Region (DISEMBL)
****************VSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRKIEQGRTVLKIGGFLPAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERA**********
Disordered Region (DISPRO)
MLCPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK****RTVLKIGGFLPAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENA*****************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLCPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRKIEQGRTVLKIGGFLPAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCxxxxxxxxxxxxxxxxxxxxxxxx
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	190	2.2.26 [Sep-21-2011]
P58268	405	Zinc finger protein ubi-d	yes	N/A	0.484	0.227	0.804	5e-43
Q9W636	366	Zinc finger protein ubi-d	N/A	N/A	0.484	0.251	0.804	2e-42
Q9QX66	387	Zinc finger protein neuro	yes	N/A	0.547	0.268	0.711	2e-42
P58270	427	Zinc finger protein DPF3	no	N/A	0.478	0.213	0.813	3e-42
Q92785	391	Zinc finger protein ubi-d	no	N/A	0.515	0.250	0.755	4e-42
Q9W638	388	Zinc finger protein ubi-d	N/A	N/A	0.484	0.237	0.793	5e-42
Q61103	391	Zinc finger protein ubi-d	no	N/A	0.484	0.235	0.793	6e-42
P58269	378	Zinc finger protein DPF3	no	N/A	0.515	0.259	0.744	6e-41
Q92784	378	Zinc finger protein DPF3	no	N/A	0.515	0.259	0.744	6e-41
A9LMC0	391	Zinc finger protein DPF3	no	N/A	0.473	0.230	0.788	9e-41

>sp|P58268|REQU_CHICK Zinc finger protein ubi-d4 OS=Gallus gallus GN=REQ PE=2 SV=1

 Score =  173 bits (439), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 74/92 (80%), Positives = 83/92 (90%)

Query: 8   EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
           +K+GQPE+LVSCSDCGRSGHP+CLQFT  M  +VK YRWQCIECKCC++CGTS+NDDQLL
Sbjct: 298 KKTGQPEELVSCSDCGRSGHPSCLQFTPVMMAAVKTYRWQCIECKCCNICGTSENDDQLL 357

Query: 68  FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCL 99
           FCDDCDRGYHMYCL PP+  PPEGSWSC LCL
Sbjct: 358 FCDDCDRGYHMYCLTPPMSEPPEGSWSCHLCL 389

May be a transcription factor required for the apoptosis response following survival factor withdrawal from myeloid cells. Might also have a role in the development and maturation of lymphoid cells.
Gallus gallus (taxid: 9031)

>sp|Q9W636|REQUB_XENLA Zinc finger protein ubi-d4 B (Fragment) OS=Xenopus laevis GN=req-b PE=2 SV=2

 Score =  172 bits (435), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 74/92 (80%), Positives = 82/92 (89%)

Query: 8   EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
           +KS QPE+LVSCSDCGRSGHP+CLQFT  M  +VK YRWQCIECKCC++CGTS+NDDQLL
Sbjct: 261 KKSNQPEELVSCSDCGRSGHPSCLQFTPVMMAAVKTYRWQCIECKCCNICGTSENDDQLL 320

Query: 68  FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCL 99
           FCDDCDRGYHMYCL PP+  PPEGSWSC LCL
Sbjct: 321 FCDDCDRGYHMYCLSPPVAEPPEGSWSCHLCL 352

May be a transcription factor required for the apoptosis response following survival factor withdrawal from myeloid cells. Might also have a role in the development and maturation of lymphoid cells.

Xenopus laevis (taxid: 8355)

>sp|Q9QX66|DPF1_MOUSE Zinc finger protein neuro-d4 OS=Mus musculus GN=Dpf1 PE=1 SV=2

 Score =  171 bits (434), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 74/104 (71%), Positives = 86/104 (82%)

Query: 2   LCPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSD 61
            C   ++K+G PEDL+SC+DCGRSGHP+CLQFT NM  +V+ YRWQCIECK CS+CGTS+
Sbjct: 276 FCLGGSKKTGCPEDLISCADCGRSGHPSCLQFTVNMTAAVRTYRWQCIECKSCSLCGTSE 335

Query: 62  NDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
           NDDQLLFCDDCDRGYHMYCL PP+  PPEGSWSC LCL+    K
Sbjct: 336 NDDQLLFCDDCDRGYHMYCLSPPMAEPPEGSWSCHLCLRHLKEK 379

May have an important role in developing neurons by participating in regulation of cell survival, possibly as a neurospecific transcription factor. Belongs to 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|P58270|DPF3_CHICK Zinc finger protein DPF3 OS=Gallus gallus GN=DPF3 PE=2 SV=1

 Score =  171 bits (432), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 74/91 (81%), Positives = 82/91 (90%)

Query: 8   EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
           +KSG+PE+LVSCSDCGRSGHPTCLQFT NM  +VK Y+WQCIECK CS+CGTS+NDDQLL
Sbjct: 322 KKSGRPEELVSCSDCGRSGHPTCLQFTTNMTEAVKTYQWQCIECKSCSLCGTSENDDQLL 381

Query: 68  FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
           FCDDCDRGYHMYCL PP+  PPEGSWSC LC
Sbjct: 382 FCDDCDRGYHMYCLNPPVFEPPEGSWSCHLC 412

Muscle-specific component of the BAF complex, a multiprotein complex involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). Specifically binds acetylated lysines on histone 3 and 4. In the complex, it acts as a tissue-specific anchor between histone acetylations and methylations and chromatin remodeling. It thereby probably plays an essential role in heart and skeletal muscle development. Belongs to the neuron-specific chromatin remodeling complex (nBAF complex) and plays a role in neural development.

Gallus gallus (taxid: 9031)

>sp|Q92785|REQU_HUMAN Zinc finger protein ubi-d4 OS=Homo sapiens GN=DPF2 PE=1 SV=2

 Score =  170 bits (431), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 74/98 (75%), Positives = 83/98 (84%)

Query: 8   EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
           +K+GQPE+LVSCSDCGRSGHP+CLQFT  M  +VK YRWQCIECKCC++CGTS+NDDQLL
Sbjct: 284 KKTGQPEELVSCSDCGRSGHPSCLQFTPVMMAAVKTYRWQCIECKCCNICGTSENDDQLL 343

Query: 68  FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
           FCDDCDRGYHMYCL P +  PPEGSWSC LCL     K
Sbjct: 344 FCDDCDRGYHMYCLTPSMSEPPEGSWSCHLCLDLLKEK 381

May be a transcription factor required for the apoptosis response following survival factor withdrawal from myeloid cells. Might also have a role in the development and maturation of lymphoid cells.

Homo sapiens (taxid: 9606)

>sp|Q9W638|REQUA_XENLA Zinc finger protein ubi-d4 A OS=Xenopus laevis GN=req-a PE=2 SV=1

 Score =  170 bits (431), Expect = 5e-42,   Method: Compositional matrix adjust.
 Identities = 73/92 (79%), Positives = 82/92 (89%)

Query: 8   EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
           +K+ Q E+LVSCSDCGRSGHP+CLQFT  M  +VK YRWQCIECKCC++CGTS+NDDQLL
Sbjct: 283 KKTNQSEELVSCSDCGRSGHPSCLQFTAVMMAAVKTYRWQCIECKCCNICGTSENDDQLL 342

Query: 68  FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCL 99
           FCDDCDRGYHMYCLVPP+  PPEGSWSC LCL
Sbjct: 343 FCDDCDRGYHMYCLVPPVAEPPEGSWSCHLCL 374

May be a transcription factor required for the apoptosis response following survival factor withdrawal from myeloid cells. Might also have a role in the development and maturation of lymphoid cells.

Xenopus laevis (taxid: 8355)

>sp|Q61103|REQU_MOUSE Zinc finger protein ubi-d4 OS=Mus musculus GN=Dpf2 PE=1 SV=1

 Score =  170 bits (430), Expect = 6e-42,   Method: Compositional matrix adjust.
 Identities = 73/92 (79%), Positives = 82/92 (89%)

Query: 8   EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
           +K+GQPE+LVSCSDCGRSGHP+CLQFT  M  +VK YRWQCIECKCC++CGTS+NDDQLL
Sbjct: 284 KKTGQPEELVSCSDCGRSGHPSCLQFTPVMMAAVKTYRWQCIECKCCNLCGTSENDDQLL 343

Query: 68  FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCL 99
           FCDDCDRGYHMYCL P +  PPEGSWSC LCL
Sbjct: 344 FCDDCDRGYHMYCLTPSMSEPPEGSWSCHLCL 375

May be a transcription factor required for the apoptosis response following survival factor withdrawal from myeloid cells. Might also have a role in the development and maturation of lymphoid cells.

Mus musculus (taxid: 10090)

>sp|P58269|DPF3_MOUSE Zinc finger protein DPF3 OS=Mus musculus GN=Dpf3 PE=1 SV=2

 Score =  166 bits (421), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 73/98 (74%), Positives = 83/98 (84%)

Query: 8   EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
           +KSG+PE+LVSC+DCGRSGHPTCLQFT NM  +VK Y+WQCIECK C +CGTS+NDDQLL
Sbjct: 273 KKSGRPEELVSCADCGRSGHPTCLQFTLNMTEAVKTYKWQCIECKSCILCGTSENDDQLL 332

Query: 68  FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
           FCDDCDRGYHMYCL PP+  PPEGSWSC LC +    K
Sbjct: 333 FCDDCDRGYHMYCLNPPVAEPPEGSWSCHLCWELLKEK 370

Muscle-specific component of the BAF complex, a multiprotein complex involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). Specifically binds acetylated lysines on histone 3 and 4 (H3K14ac, H3K9ac, H4K5ac, H4K8ac, H4K12ac, H4K16ac). In the complex, it acts as a tissue-specific anchor between histone acetylations and methylations and chromatin remodeling. It thereby probably plays an essential role in heart and skeletal muscle development (By similarity). Belongs to 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|Q92784|DPF3_HUMAN Zinc finger protein DPF3 OS=Homo sapiens GN=DPF3 PE=1 SV=3

 Score =  166 bits (421), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 73/98 (74%), Positives = 83/98 (84%)

Query: 8   EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
           +KSG+PE+LVSC+DCGRSGHPTCLQFT NM  +VK Y+WQCIECK C +CGTS+NDDQLL
Sbjct: 273 KKSGRPEELVSCADCGRSGHPTCLQFTLNMTEAVKTYKWQCIECKSCILCGTSENDDQLL 332

Query: 68  FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
           FCDDCDRGYHMYCL PP+  PPEGSWSC LC +    K
Sbjct: 333 FCDDCDRGYHMYCLNPPVAEPPEGSWSCHLCWELLKEK 370

Belongs to the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth (By similarity). Muscle-specific component of the BAF complex, a multiprotein complex involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). Specifically binds acetylated lysines on histone 3 and 4 (H3K14ac, H3K9ac, H4K5ac, H4K8ac, H4K12ac, H4K16ac). In the complex, it acts as a tissue-specific anchor between histone acetylations and methylations and chromatin remodeling. It thereby probably plays an essential role in heart and skeletal muscle development.

Homo sapiens (taxid: 9606)

>sp|A9LMC0|DPF3_DANRE Zinc finger protein DPF3 OS=Danio rerio GN=dpf3 PE=2 SV=1

 Score =  166 bits (420), Expect = 9e-41,   Method: Compositional matrix adjust.
 Identities = 71/90 (78%), Positives = 81/90 (90%)

Query: 9   KSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLF 68
           K+GQ E+LVSCSDCGRSGHP+CLQFT+NM  +V+ Y+WQCIECK CS+CGTS+NDDQLLF
Sbjct: 288 KTGQAEELVSCSDCGRSGHPSCLQFTDNMMQAVRTYQWQCIECKSCSLCGTSENDDQLLF 347

Query: 69  CDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
           CDDCDRGYHMYCL PP+  PPEGSWSC LC
Sbjct: 348 CDDCDRGYHMYCLKPPMTQPPEGSWSCHLC 377

Muscle-specific component of the BAF complex, a multiprotein complex involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). Specifically binds acetylated lysines on histone 3 and 4. In the complex, it acts as a tissue-specific anchor between histone acetylations and methylations and chromatin remodeling. Belongs to the neuron-specific chromatin remodeling complex (nBAF complex) and may play a role in neural development (By similarity). Plays an essential role in heart and skeletal muscle development.

Danio rerio (taxid: 7955)

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	190
328701324	521	PREDICTED: zinc finger protein ubi-d4-li	0.521	0.190	0.808	1e-46
328701326	458	PREDICTED: zinc finger protein ubi-d4-li	0.521	0.216	0.808	2e-46
321460287	501	hypothetical protein DAPPUDRAFT_308933 [	0.531	0.201	0.801	2e-46
307169876	528	Zinc finger protein ubi-d4 A [Camponotus	0.526	0.189	0.8	3e-46
357607405	513	putative requim, req/dpf2 [Danaus plexip	0.515	0.191	0.836	4e-46
345480756	551	PREDICTED: zinc finger protein DPF3 [Nas	0.526	0.181	0.81	5e-46
383856201	559	PREDICTED: zinc finger protein ubi-d4-li	0.526	0.178	0.8	5e-46
380014950	527	PREDICTED: zinc finger protein DPF3-like	0.526	0.189	0.8	5e-46
332030886	527	Zinc finger protein ubi-d4 [Acromyrmex e	0.526	0.189	0.8	5e-46
340717364	527	PREDICTED: zinc finger protein DPF3-like	0.526	0.189	0.8	6e-46

>gi|328701324|ref|XP_001945217.2| PREDICTED: zinc finger protein ubi-d4-like isoform 1 [Acyrthosiphon pisum]

 Score =  191 bits (484), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 80/99 (80%), Positives = 90/99 (90%)

Query: 7   AEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQL 66
           + KSGQPE L+SCSDCGRSGHPTCLQFT NM +SV +YRWQCIECKCCS+CGTSDNDDQL
Sbjct: 423 SNKSGQPEILISCSDCGRSGHPTCLQFTANMIISVGKYRWQCIECKCCSICGTSDNDDQL 482

Query: 67  LFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
           LFCDDCDRGYH+YCL PP+ +PPEG WSC+LC+KEFH K
Sbjct: 483 LFCDDCDRGYHVYCLTPPLTSPPEGCWSCKLCIKEFHSK 521

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328701326|ref|XP_003241562.1| PREDICTED: zinc finger protein ubi-d4-like isoform 2 [Acyrthosiphon pisum]

 Score =  190 bits (483), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 80/99 (80%), Positives = 90/99 (90%)

Query: 7   AEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQL 66
           + KSGQPE L+SCSDCGRSGHPTCLQFT NM +SV +YRWQCIECKCCS+CGTSDNDDQL
Sbjct: 360 SNKSGQPEILISCSDCGRSGHPTCLQFTANMIISVGKYRWQCIECKCCSICGTSDNDDQL 419

Query: 67  LFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
           LFCDDCDRGYH+YCL PP+ +PPEG WSC+LC+KEFH K
Sbjct: 420 LFCDDCDRGYHVYCLTPPLTSPPEGCWSCKLCIKEFHSK 458

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321460287|gb|EFX71331.1| hypothetical protein DAPPUDRAFT_308933 [Daphnia pulex]

 Score =  190 bits (483), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 81/101 (80%), Positives = 90/101 (89%)

Query: 5   TQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDD 64
           T+ +KSG PE+LVSC+DCGRSGHP+CLQFT NM +SVKQYRWQCIECKCCS+CG SDND+
Sbjct: 401 TENKKSGHPEELVSCADCGRSGHPSCLQFTANMIISVKQYRWQCIECKCCSLCGNSDNDE 460

Query: 65  QLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
           QLLFCDDCDRGYHMYCL PP+  PPEGSWSC LCL  FHRK
Sbjct: 461 QLLFCDDCDRGYHMYCLKPPLSEPPEGSWSCHLCLVSFHRK 501

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307169876|gb|EFN62385.1| Zinc finger protein ubi-d4 A [Camponotus floridanus]

 Score =  190 bits (482), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 80/100 (80%), Positives = 92/100 (92%)

Query: 6   QAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQ 65
           + +K+G  E+LVSCSDCGRSGHPTCLQFT NM VSV++YRWQCIECKCCS+CGTSDNDDQ
Sbjct: 428 ENKKTGGSEELVSCSDCGRSGHPTCLQFTANMIVSVRKYRWQCIECKCCSICGTSDNDDQ 487

Query: 66  LLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
           LLFCDDCDRGYHMYCL PP+ +PPEGSWSC+LC+ EFHR+
Sbjct: 488 LLFCDDCDRGYHMYCLSPPLASPPEGSWSCRLCIAEFHRR 527

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357607405|gb|EHJ65481.1| putative requim, req/dpf2 [Danaus plexippus]

 Score =  189 bits (481), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 82/98 (83%), Positives = 89/98 (90%)

Query: 6   QAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQ 65
           + +K+G PE LVSCSDCGRSGHPTCLQFT NM VSV++YRWQCIECKCCSVCGTSDNDDQ
Sbjct: 416 ENKKTGTPERLVSCSDCGRSGHPTCLQFTVNMIVSVRKYRWQCIECKCCSVCGTSDNDDQ 475

Query: 66  LLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFH 103
           LLFCDDCDRGYHMYCL PP+  PPEGSWSC LC+KEFH
Sbjct: 476 LLFCDDCDRGYHMYCLAPPLDAPPEGSWSCALCIKEFH 513

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345480756|ref|XP_001605917.2| PREDICTED: zinc finger protein DPF3 [Nasonia vitripennis]

 Score =  189 bits (480), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 81/100 (81%), Positives = 92/100 (92%)

Query: 6   QAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQ 65
           + +K+G  E+LVSCSDCGRSGHPTCLQFT NM VSV++YRWQCIECKCCS+CGTSDNDDQ
Sbjct: 451 ENKKTGGSEELVSCSDCGRSGHPTCLQFTANMIVSVRKYRWQCIECKCCSICGTSDNDDQ 510

Query: 66  LLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
           LLFCDDCDRGYHMYCL PP+ +PPEGSWSC+LCL EFHR+
Sbjct: 511 LLFCDDCDRGYHMYCLSPPLTSPPEGSWSCRLCLAEFHRR 550

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383856201|ref|XP_003703598.1| PREDICTED: zinc finger protein ubi-d4-like [Megachile rotundata]

 Score =  189 bits (480), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 80/100 (80%), Positives = 92/100 (92%)

Query: 6   QAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQ 65
           + +K+G  E+LVSCSDCGRSGHPTCLQFT NM VSV++YRWQCIECKCCS+CGTSDNDDQ
Sbjct: 459 ENKKTGGSEELVSCSDCGRSGHPTCLQFTANMIVSVRKYRWQCIECKCCSICGTSDNDDQ 518

Query: 66  LLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
           LLFCDDCDRGYHMYCL PP+ +PPEGSWSC+LC+ EFHR+
Sbjct: 519 LLFCDDCDRGYHMYCLSPPLASPPEGSWSCRLCIAEFHRR 558

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380014950|ref|XP_003691477.1| PREDICTED: zinc finger protein DPF3-like [Apis florea]

 Score =  189 bits (480), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 80/100 (80%), Positives = 92/100 (92%)

Query: 6   QAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQ 65
           + +K+G  E+LVSCSDCGRSGHPTCLQFT NM VSV++YRWQCIECKCCS+CGTSDNDDQ
Sbjct: 427 ENKKTGGSEELVSCSDCGRSGHPTCLQFTANMIVSVRKYRWQCIECKCCSICGTSDNDDQ 486

Query: 66  LLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
           LLFCDDCDRGYHMYCL PP+ +PPEGSWSC+LC+ EFHR+
Sbjct: 487 LLFCDDCDRGYHMYCLSPPLASPPEGSWSCRLCIAEFHRR 526

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332030886|gb|EGI70522.1| Zinc finger protein ubi-d4 [Acromyrmex echinatior]

 Score =  189 bits (479), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 80/100 (80%), Positives = 92/100 (92%)

Query: 6   QAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQ 65
           + +K+G  E+LVSCSDCGRSGHPTCLQFT NM VSV++YRWQCIECKCCS+CGTSDNDDQ
Sbjct: 427 ENKKTGGSEELVSCSDCGRSGHPTCLQFTANMIVSVRKYRWQCIECKCCSICGTSDNDDQ 486

Query: 66  LLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
           LLFCDDCDRGYHMYCL PP+ +PPEGSWSC+LC+ EFHR+
Sbjct: 487 LLFCDDCDRGYHMYCLSPPLASPPEGSWSCRLCIAEFHRR 526

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340717364|ref|XP_003397154.1| PREDICTED: zinc finger protein DPF3-like [Bombus terrestris]

 Score =  189 bits (479), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 80/100 (80%), Positives = 92/100 (92%)

Query: 6   QAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQ 65
           + +K+G  E+LVSCSDCGRSGHPTCLQFT NM VSV++YRWQCIECKCCS+CGTSDNDDQ
Sbjct: 427 ENKKTGGSEELVSCSDCGRSGHPTCLQFTANMIVSVRKYRWQCIECKCCSICGTSDNDDQ 486

Query: 66  LLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
           LLFCDDCDRGYHMYCL PP+ +PPEGSWSC+LC+ EFHR+
Sbjct: 487 LLFCDDCDRGYHMYCLSPPLASPPEGSWSCRLCIAEFHRR 526

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

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	190
FB|FBgn0033015	497	d4 "d4" [Drosophila melanogast	0.510	0.195	0.804	2.3e-46
UNIPROTKB|P58268	405	REQ "Zinc finger protein ubi-d	0.484	0.227	0.804	8.1e-44
UNIPROTKB|F1MED1	388	DPF1 "Uncharacterized protein"	0.542	0.265	0.718	3.5e-43
UNIPROTKB|F1MWC1	387	DPF1 "Uncharacterized protein"	0.542	0.266	0.718	3.5e-43
UNIPROTKB|J3KQY6	388	DPF1 "Zinc finger protein neur	0.542	0.265	0.718	3.5e-43
UNIPROTKB|I3L6G5	417	DPF1 "Uncharacterized protein"	0.542	0.247	0.718	3.5e-43
MGI|MGI:1352748	387	Dpf1 "D4, zinc and double PHD	0.542	0.266	0.718	3.5e-43
UNIPROTKB|F1P0N4	379	DPF3 "Zinc finger protein DPF3	0.510	0.255	0.775	5.7e-43
UNIPROTKB|F1P0N5	416	DPF3 "Zinc finger protein DPF3	0.510	0.233	0.775	5.7e-43
UNIPROTKB|P58270	427	DPF3 "Zinc finger protein DPF3	0.510	0.227	0.775	5.7e-43

FB|FBgn0033015 d4 "d4" [Drosophila melanogaster (taxid:7227)]

 Score = 486 (176.1 bits), Expect = 2.3e-46, P = 2.3e-46
 Identities = 78/97 (80%), Positives = 90/97 (92%)

Query:     8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
             +K+  PE+LVSCSDCGRSGHP+CLQFT NM +SVK+YRWQCIECK CS+CGTSDNDDQLL
Sbjct:   399 KKTNMPEELVSCSDCGRSGHPSCLQFTANMIISVKRYRWQCIECKYCSICGTSDNDDQLL 458

Query:    68 FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHR 104
             FCDDCDRGYHMYCL PP+ TPPEGSWSC+LC++EFH+
Sbjct:   459 FCDDCDRGYHMYCLSPPLVTPPEGSWSCKLCMEEFHK 495

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

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

GO:0005634 "nucleus" evidence=NAS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0007517 "muscle organ development" evidence=IMP

GO:0048813 "dendrite morphogenesis" evidence=IMP

UNIPROTKB|P58268 REQ "Zinc finger protein ubi-d4" [Gallus gallus (taxid:9031)]

 Score = 462 (167.7 bits), Expect = 8.1e-44, P = 8.1e-44
 Identities = 74/92 (80%), Positives = 83/92 (90%)

Query:     8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
             +K+GQPE+LVSCSDCGRSGHP+CLQFT  M  +VK YRWQCIECKCC++CGTS+NDDQLL
Sbjct:   298 KKTGQPEELVSCSDCGRSGHPSCLQFTPVMMAAVKTYRWQCIECKCCNICGTSENDDQLL 357

Query:    68 FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCL 99
             FCDDCDRGYHMYCL PP+  PPEGSWSC LCL
Sbjct:   358 FCDDCDRGYHMYCLTPPMSEPPEGSWSCHLCL 389

GO:0008270 "zinc ion binding" evidence=IEA

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

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

GO:0006915 "apoptotic process" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|F1MED1 DPF1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 456 (165.6 bits), Expect = 3.5e-43, P = 3.5e-43
 Identities = 74/103 (71%), Positives = 86/103 (83%)

Query:     3 CPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDN 62
             C   ++K+G PEDL+SC+DCGRSGHP+CLQFT NM  +V+ YRWQCIECK CS+CGTS+N
Sbjct:   278 CLGGSKKTGCPEDLISCADCGRSGHPSCLQFTVNMTAAVRTYRWQCIECKSCSLCGTSEN 337

Query:    63 DDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
             DDQLLFCDDCDRGYHMYCL PP+  PPEGSWSC LCL+    K
Sbjct:   338 DDQLLFCDDCDRGYHMYCLSPPMAEPPEGSWSCHLCLRHLKEK 380

GO:0071565 "nBAF complex" evidence=IEA

GO:0007399 "nervous system development" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|F1MWC1 DPF1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 456 (165.6 bits), Expect = 3.5e-43, P = 3.5e-43
 Identities = 74/103 (71%), Positives = 86/103 (83%)

Query:     3 CPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDN 62
             C   ++K+G PEDL+SC+DCGRSGHP+CLQFT NM  +V+ YRWQCIECK CS+CGTS+N
Sbjct:   277 CLGGSKKTGCPEDLISCADCGRSGHPSCLQFTVNMTAAVRTYRWQCIECKSCSLCGTSEN 336

Query:    63 DDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
             DDQLLFCDDCDRGYHMYCL PP+  PPEGSWSC LCL+    K
Sbjct:   337 DDQLLFCDDCDRGYHMYCLSPPMAEPPEGSWSCHLCLRHLKEK 379

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|J3KQY6 DPF1 "Zinc finger protein neuro-d4" [Homo sapiens (taxid:9606)]

 Score = 456 (165.6 bits), Expect = 3.5e-43, P = 3.5e-43
 Identities = 74/103 (71%), Positives = 86/103 (83%)

Query:     3 CPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDN 62
             C   ++K+G PEDL+SC+DCGRSGHP+CLQFT NM  +V+ YRWQCIECK CS+CGTS+N
Sbjct:   278 CLGGSKKTGCPEDLISCADCGRSGHPSCLQFTVNMTAAVRTYRWQCIECKSCSLCGTSEN 337

Query:    63 DDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
             DDQLLFCDDCDRGYHMYCL PP+  PPEGSWSC LCL+    K
Sbjct:   338 DDQLLFCDDCDRGYHMYCLSPPMAEPPEGSWSCHLCLRHLKEK 380

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|I3L6G5 DPF1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 456 (165.6 bits), Expect = 3.5e-43, P = 3.5e-43
 Identities = 74/103 (71%), Positives = 86/103 (83%)

Query:     3 CPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDN 62
             C   ++K+G PEDL+SC+DCGRSGHP+CLQFT NM  +V+ YRWQCIECK CS+CGTS+N
Sbjct:   307 CLGGSKKTGCPEDLISCADCGRSGHPSCLQFTVNMTAAVRTYRWQCIECKSCSLCGTSEN 366

Query:    63 DDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
             DDQLLFCDDCDRGYHMYCL PP+  PPEGSWSC LCL+    K
Sbjct:   367 DDQLLFCDDCDRGYHMYCLSPPMAEPPEGSWSCHLCLRHLKEK 409

GO:0071565 "nBAF complex" evidence=IEA

GO:0007399 "nervous system development" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

MGI|MGI:1352748 Dpf1 "D4, zinc and double PHD fingers family 1" [Mus musculus (taxid:10090)]

 Score = 456 (165.6 bits), Expect = 3.5e-43, P = 3.5e-43
 Identities = 74/103 (71%), Positives = 86/103 (83%)

Query:     3 CPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDN 62
             C   ++K+G PEDL+SC+DCGRSGHP+CLQFT NM  +V+ YRWQCIECK CS+CGTS+N
Sbjct:   277 CLGGSKKTGCPEDLISCADCGRSGHPSCLQFTVNMTAAVRTYRWQCIECKSCSLCGTSEN 336

Query:    63 DDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
             DDQLLFCDDCDRGYHMYCL PP+  PPEGSWSC LCL+    K
Sbjct:   337 DDQLLFCDDCDRGYHMYCLSPPMAEPPEGSWSCHLCLRHLKEK 379

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

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

GO:0007399 "nervous system development" evidence=ISO;IMP

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0071565 "nBAF complex" evidence=IDA

UNIPROTKB|F1P0N4 DPF3 "Zinc finger protein DPF3" [Gallus gallus (taxid:9031)]

 Score = 454 (164.9 bits), Expect = 5.7e-43, P = 5.7e-43
 Identities = 76/98 (77%), Positives = 86/98 (87%)

Query:     8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
             +KSG+PE+LVSCSDCGRSGHPTCLQFT NM  +VK Y+WQCIECK CS+CGTS+NDDQLL
Sbjct:   274 KKSGRPEELVSCSDCGRSGHPTCLQFTTNMTEAVKTYQWQCIECKSCSLCGTSENDDQLL 333

Query:    68 FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
             FCDDCDRGYHMYCL PP+  PPEGSWSC LC +E  R+
Sbjct:   334 FCDDCDRGYHMYCLNPPVFEPPEGSWSCHLC-RELLRE 370

GO:0005622 "intracellular" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1P0N5 DPF3 "Zinc finger protein DPF3" [Gallus gallus (taxid:9031)]

 Score = 454 (164.9 bits), Expect = 5.7e-43, P = 5.7e-43
 Identities = 76/98 (77%), Positives = 86/98 (87%)

Query:     8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
             +KSG+PE+LVSCSDCGRSGHPTCLQFT NM  +VK Y+WQCIECK CS+CGTS+NDDQLL
Sbjct:   311 KKSGRPEELVSCSDCGRSGHPTCLQFTTNMTEAVKTYQWQCIECKSCSLCGTSENDDQLL 370

Query:    68 FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
             FCDDCDRGYHMYCL PP+  PPEGSWSC LC +E  R+
Sbjct:   371 FCDDCDRGYHMYCLNPPVFEPPEGSWSCHLC-RELLRE 407

GO:0008270 "zinc ion binding" evidence=IEA

GO:0007399 "nervous system development" evidence=IEA

GO:0071565 "nBAF complex" evidence=IEA

UNIPROTKB|P58270 DPF3 "Zinc finger protein DPF3" [Gallus gallus (taxid:9031)]

 Score = 454 (164.9 bits), Expect = 5.7e-43, P = 5.7e-43
 Identities = 76/98 (77%), Positives = 86/98 (87%)

Query:     8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
             +KSG+PE+LVSCSDCGRSGHPTCLQFT NM  +VK Y+WQCIECK CS+CGTS+NDDQLL
Sbjct:   322 KKSGRPEELVSCSDCGRSGHPTCLQFTTNMTEAVKTYQWQCIECKSCSLCGTSENDDQLL 381

Query:    68 FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
             FCDDCDRGYHMYCL PP+  PPEGSWSC LC +E  R+
Sbjct:   382 FCDDCDRGYHMYCLNPPVFEPPEGSWSCHLC-RELLRE 418

GO:0008270 "zinc ion binding" evidence=IEA

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

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

GO:0007399 "nervous system development" evidence=IEA

GO:0016568 "chromatin modification" evidence=IEA

GO:0005634 "nucleus" 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)
Q9QX66	DPF1_MOUSE	No assigned EC number	0.7115	0.5473	0.2687	yes	N/A
Q09477	YP99_CAEEL	No assigned EC number	0.6236	0.4894	0.25	yes	N/A
P58268	REQU_CHICK	No assigned EC number	0.8043	0.4842	0.2271	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	190
cd07621	219	cd07621, BAR_SNX5_6, The Bin/Amphiphysin/Rvs (BAR)	8e-46
cd07663	218	cd07663, BAR_SNX5, The Bin/Amphiphysin/Rvs (BAR) d	2e-27
cd07662	218	cd07662, BAR_SNX6, The Bin/Amphiphysin/Rvs (BAR) d	8e-25
pfam00628	51	pfam00628, PHD, PHD-finger	1e-09
smart00249	47	smart00249, PHD, PHD zinc finger	4e-08
cd07596	218	cd07596, BAR_SNX, The Bin/Amphiphysin/Rvs (BAR) do	7e-06
cd04718	148	cd04718, BAH_plant_2, BAH, or Bromo Adjacent Homol	4e-05
COG5141	669	COG5141, COG5141, PHD zinc finger-containing prote	2e-04
pfam09325	236	pfam09325, Vps5, Vps5 C terminal like	5e-04
pfam00628	51	pfam00628, PHD, PHD-finger	0.002
cd07630	198	cd07630, BAR_SNX_like, The Bin/Amphiphysin/Rvs (BA	0.003

>gnl|CDD|153305 cd07621, BAR_SNX5_6, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 5 and 6

 Score =  150 bits (380), Expect = 8e-46
 Identities = 58/69 (84%), Positives = 64/69 (92%)

Query: 121 AETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERA 180
           AET EKLRK+EGR+A DEDLKLSDTLRYYMRD+ AAK LLYRRLRCLA+YENAN+NLE+A
Sbjct: 87  AETFEKLRKLEGRVASDEDLKLSDTLRYYMRDTQAAKDLLYRRLRCLANYENANKNLEKA 146

Query: 181 RTKNKDVHA 189
           R KNKDVHA
Sbjct: 147 RAKNKDVHA 155

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Members of this subfamily include SNX5, SNX6, the mammalian SNX32, and similar proteins. SNX5 and SNX6 may be components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. The function of SNX32 is still unknown. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. Length = 219

>gnl|CDD|153347 cd07663, BAR_SNX5, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 5

 Score =  102 bits (256), Expect = 2e-27
 Identities = 44/67 (65%), Positives = 55/67 (82%)

Query: 121 AETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERA 180
           AE  EKLRKVE R+A D+DLKL++ LRYYM + +AAK LLYRR R LADYEN+N+ L++A
Sbjct: 86  AELFEKLRKVEDRVASDQDLKLTELLRYYMLNIEAAKDLLYRRARALADYENSNKALDKA 145

Query: 181 RTKNKDV 187
           R K+KDV
Sbjct: 146 RLKSKDV 152

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX5, abundantly expressed in macrophages, regulates macropinocytosis, a process that enables cells to internalize large amounts of external solutes. It may also be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. It also binds the Fanconi anaemia complementation group A protein (FANCA). SNX5 is localized to a subdomain of early endosome and is recruited to the plasma membrane following EGF stimulation and elevation of PI(3,4)P2 levels. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. Length = 218

>gnl|CDD|153346 cd07662, BAR_SNX6, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 6

 Score = 95.9 bits (238), Expect = 8e-25
 Identities = 44/67 (65%), Positives = 54/67 (80%)

Query: 121 AETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERA 180
           +E  +K RK+E R+A DEDLKLSD L+YY+R+S AAK LLYRR R L DYENAN+ L++A
Sbjct: 86  SELFDKTRKIEARVAADEDLKLSDLLKYYLRESQAAKDLLYRRSRSLVDYENANKALDKA 145

Query: 181 RTKNKDV 187
           R KNKDV
Sbjct: 146 RAKNKDV 152

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX6 forms a stable complex with SNX1 and may be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. It interacts with the receptor serine/threonine kinases from the transforming growth factor-beta family. It also plays roles in enhancing the degradation of EGFR and in regulating the activity of Na,K-ATPase through its interaction with Translationally Controlled Tumor Protein (TCTP). BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. Length = 218

>gnl|CDD|201356 pfam00628, PHD, PHD-finger

 Score = 51.3 bits (123), Expect = 1e-09
 Identities = 24/47 (51%), Positives = 31/47 (65%), Gaps = 2/47 (4%)

Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT--PPEGSWSCQLC 98
          C+VCG  D+D +LL CD CDR +H+ CL PP++    PEG W C  C
Sbjct: 2  CAVCGKVDDDGELLLCDGCDRWFHLACLGPPLEPEEIPEGEWYCPEC 48

PHD folds into an interleaved type of Zn-finger chelating 2 Zn ions in a similar manner to that of the RING and FYVE domains. Several PHD fingers have been identified as binding modules of methylated histone H3. Length = 51

>gnl|CDD|214584 smart00249, PHD, PHD zinc finger

 Score = 47.6 bits (113), Expect = 4e-08
 Identities = 24/46 (52%), Positives = 28/46 (60%), Gaps = 1/46 (2%)

Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
          CSVCG  D+  +LL CD CDR YH  CL PP+    P+G W C  C
Sbjct: 2  CSVCGKPDDGGELLQCDGCDRWYHQTCLGPPLLEEEPDGKWYCPKC 47

The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the RING finger and the FYVE finger. It is not yet known if PHD fingers have a common molecular function. Several reports suggest that it can function as a protein-protein interacton domain and it was recently demonstrated that the PHD finger of p300 can cooperate with the adjacent BROMO domain in nucleosome binding in vitro. Other reports suggesting that the PHD finger is a ubiquitin ligase have been refuted as these domains were RING fingers misidentified as PHD fingers. Length = 47

>gnl|CDD|153280 cd07596, BAR_SNX, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins

 Score = 44.3 bits (105), Expect = 7e-06
 Identities = 15/63 (23%), Positives = 28/63 (44%)

Query: 121 AETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERA 180
            +  E+L  +    A  E +KL + L+ Y+R   A K  L  R   L   ++  ++L   
Sbjct: 70  GKAAEELSSLSEAQANQELVKLLEPLKEYLRYCQAVKETLDDRADALLTLQSLKKDLASK 129

Query: 181 RTK 183
           + +
Sbjct: 130 KAQ 132

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. Length = 218

>gnl|CDD|240069 cd04718, BAH_plant_2, BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function

 Score = 41.4 bits (97), Expect = 4e-05
 Identities = 13/27 (48%), Positives = 17/27 (62%)

Query: 75  GYHMYCLVPPIQTPPEGSWSCQLCLKE 101
           G+H+ CL PP++  PEG W C  C  E
Sbjct: 1   GFHLCCLRPPLKEVPEGDWICPFCEVE 27

BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions. Length = 148

>gnl|CDD|227470 COG5141, COG5141, PHD zinc finger-containing protein [General function prediction only]

 Score = 40.7 bits (95), Expect = 2e-04
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 4/61 (6%)

Query: 41  VKQYRWQCIECKCCSVCGTSDNDDQ--LLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
           V+           C+ C ++ N++   ++FCD C+   H  C    IQ  PEG W C+ C
Sbjct: 183 VEPIEPSDEFDDICTKCTSTHNENSNAIVFCDGCEICVHQSCY--GIQFLPEGFWLCRKC 240

Query: 99  L 99
           +
Sbjct: 241 I 241

Length = 669

>gnl|CDD|220180 pfam09325, Vps5, Vps5 C terminal like

 Score = 39.2 bits (92), Expect = 5e-04
 Identities = 16/63 (25%), Positives = 36/63 (57%)

Query: 121 AETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERA 180
           AE  E+++++  R A  + L L +T+  Y+R   + K +  +R++    ++NA ++L + 
Sbjct: 88  AEVEERIKELLERQALQDVLTLGETIDEYLRLIGSVKAVFNQRVKAWQQWQNAEQDLSKK 147

Query: 181 RTK 183
           R +
Sbjct: 148 RAQ 150

Vps5 is a sorting nexin that functions in membrane trafficking. This is the C terminal dimerisation domain. Length = 236

>gnl|CDD|201356 pfam00628, PHD, PHD-finger

 Score = 34.4 bits (79), Expect = 0.002
 Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 1/46 (2%)

Query: 9  KSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCC 54
          K     +L+ C  C R  H  CL      +  + +  W C ECK  
Sbjct: 7  KVDDDGELLLCDGCDRWFHLACLGPPLEPEE-IPEGEWYCPECKPK 51

PHD folds into an interleaved type of Zn-finger chelating 2 Zn ions in a similar manner to that of the RING and FYVE domains. Several PHD fingers have been identified as binding modules of methylated histone H3. Length = 51

>gnl|CDD|153314 cd07630, BAR_SNX_like, The Bin/Amphiphysin/Rvs (BAR) domain of uncharacterized Sorting Nexins

 Score = 36.7 bits (85), Expect = 0.003
 Identities = 19/54 (35%), Positives = 34/54 (62%)

Query: 134 IACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTKNKDV 187
           +A + +  L  TL  Y R S++ K +L+RR   L ++ENA++ LE+A+ + K+ 
Sbjct: 83  VAGNNENTLGLTLDLYSRYSESEKDMLFRRTCKLIEFENASKALEKAKPQKKEQ 136

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of uncharacterized proteins with similarity to sorting nexins (SNXs), which are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. Length = 198

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	190
KOG1244|consensus	336		99.93
KOG1512|consensus	381		99.79
KOG1660|consensus	399		99.77
cd07662	218	BAR_SNX6 The Bin/Amphiphysin/Rvs (BAR) domain of S	99.5
cd07621	219	BAR_SNX5_6 The Bin/Amphiphysin/Rvs (BAR) domain of	99.44
cd07663	218	BAR_SNX5 The Bin/Amphiphysin/Rvs (BAR) domain of S	99.41
KOG4443|consensus	694		99.4
KOG4299|consensus	613		99.24
PF00628	51	PHD: PHD-finger; InterPro: IPR019787 Zinc finger (	99.09
KOG4299|consensus	613		99.01
cd07630	198	BAR_SNX_like The Bin/Amphiphysin/Rvs (BAR) domain	98.92
smart00249	47	PHD PHD zinc finger. The plant homeodomain (PHD) f	98.86
KOG0825|consensus	1134		98.85
KOG0383|consensus	696		98.8
PF00628	51	PHD: PHD-finger; InterPro: IPR019787 Zinc finger (	98.73
smart00249	47	PHD PHD zinc finger. The plant homeodomain (PHD) f	98.53
cd04718	148	BAH_plant_2 BAH, or Bromo Adjacent Homology domain	98.47
KOG1973|consensus	274		98.29
KOG4323|consensus	464		98.25
KOG0383|consensus	696		98.11
PF15446	175	zf-PHD-like: PHD/FYVE-zinc-finger like domain	98.06
KOG0957|consensus	707		98.03
KOG0955|consensus	1051		97.9
KOG1473|consensus	1414		97.9
KOG0956|consensus	900		97.88
COG5034	271	TNG2 Chromatin remodeling protein, contains PhD zi	97.86
COG5141	669	PHD zinc finger-containing protein [General functi	97.84
KOG1245|consensus	1404		97.73
KOG0955|consensus	1051		97.62
KOG0954|consensus	893		97.57
KOG4443|consensus	694		97.54
KOG0825|consensus	1134		97.46
cd04718	148	BAH_plant_2 BAH, or Bromo Adjacent Homology domain	97.4
KOG0954|consensus	893		97.33
cd07627	216	BAR_Vps5p The Bin/Amphiphysin/Rvs (BAR) domain of	97.33
COG5141	669	PHD zinc finger-containing protein [General functi	97.24
PF13831	36	PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.	97.13
cd07623	224	BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of	97.04
KOG1512|consensus	381		96.93
KOG0957|consensus	707		96.86
cd07664	234	BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of S	96.75
KOG0956|consensus	900		96.65
PF13831	36	PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.	96.62
KOG4323|consensus	464		96.15
KOG1245|consensus	1404		95.83
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	94.67
PF15446	175	zf-PHD-like: PHD/FYVE-zinc-finger like domain	94.65
KOG1473|consensus	1414		94.64
PF09325	236	Vps5: Vps5 C terminal like; InterPro: IPR015404 Vp	94.23
KOG1246|consensus	904		94.17
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	93.67
PF13832	110	zf-HC5HC2H_2: PHD-zinc-finger like domain	91.99
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	90.41
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	88.2
PF10497	105	zf-4CXXC_R1: Zinc-finger domain of monoamine-oxida	88.14
PF07649	30	C1_3: C1-like domain; InterPro: IPR011424 This sho	88.11
cd07596	218	BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of So	84.82
PF00641	30	zf-RanBP: Zn-finger in Ran binding protein and oth	84.7
KOG1952|consensus	950		81.22
PF07227	446	DUF1423: Protein of unknown function (DUF1423); In	80.57

>KOG1244|consensus

Probab=99.93  E-value=2.2e-27  Score=190.87  Aligned_cols=98  Identities=77%  Similarity=1.583  Sum_probs=94.2

Q ss_pred             CccCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCC
Q psy11251          5 TQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPP   84 (190)
Q Consensus         5 ~~~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~   84 (190)
                      ++|+++|-+++|+.|..||++.|++||++.++|+..|+.+.|+|.+|+.|.+||.++++++||+||.||++||++||.||
T Consensus       235 r~nkkt~~peelvscsdcgrsghpsclqft~nm~~avk~yrwqcieck~csicgtsenddqllfcddcdrgyhmyclspp  314 (336)
T KOG1244|consen  235 RENKKTGMPEELVSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCIECKYCSICGTSENDDQLLFCDDCDRGYHMYCLSPP  314 (336)
T ss_pred             ccccccCCchhhcchhhcCCCCCcchhhhhHHHHHHHHhheeeeeecceeccccCcCCCceeEeecccCCceeeEecCCC
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCCccCccccccc
Q psy11251         85 IQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        85 l~~~p~~~W~C~~C~~~~  102 (190)
                      +.+.|+|.|.|..|....
T Consensus       315 m~eppegswsc~KOG~~~  332 (336)
T KOG1244|consen  315 MVEPPEGSWSCHLCLEEL  332 (336)
T ss_pred             cCCCCCCchhHHHHHHHH
Confidence            999999999999998654

>KOG1512|consensus

Probab=99.79  E-value=2.6e-20  Score=151.14  Aligned_cols=94  Identities=30%  Similarity=0.781  Sum_probs=88.6

Q ss_pred             CccCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCC
Q psy11251          5 TQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPP   84 (190)
Q Consensus         5 ~~~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~   84 (190)
                      +++...|..+.||+|..|..++|++|++++++++..++.+.|.|.+|+.|.+|+++...+++++||.||++||.+|++  
T Consensus       268 ~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC~~P~~E~E~~FCD~CDRG~HT~CVG--  345 (381)
T KOG1512|consen  268 QTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCELCRICLGPVIESEHLFCDVCDRGPHTLCVG--  345 (381)
T ss_pred             hhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccHhhhccCCcccchheeccccccCCCCccccc--
Confidence            467778889999999999999999999999999999999999999999999999999999999999999999999999  


Q ss_pred             CCCCCCCCccCc-cccc
Q psy11251         85 IQTPPEGSWSCQ-LCLK  100 (190)
Q Consensus        85 l~~~p~~~W~C~-~C~~  100 (190)
                      |..+|.|.|+|. .|..
T Consensus       346 L~~lP~G~WICD~~C~~  362 (381)
T KOG1512|consen  346 LQDLPRGEWICDMRCRE  362 (381)
T ss_pred             cccccCccchhhhHHHH
Confidence            999999999998 5654

>KOG1660|consensus

Probab=99.77  E-value=7.8e-20  Score=151.87  Aligned_cols=73  Identities=70%  Similarity=0.967  Sum_probs=69.3

Q ss_pred             cccchHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcCCCCcCC
Q psy11251        117 GFLPAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTKNKDVHA  189 (190)
Q Consensus       117 ~~~~se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~~~~~~~  189 (190)
                      ....++.+++.++++.|+++|+|++|.++++||+++++|+++|||||+|||++|||+||+|||||+|||||++
T Consensus       261 ~l~~~e~f~~~~k~e~Rvs~dedlkL~d~l~yy~r~~~aakdllyRr~Rcl~~ye~ank~l~kar~knkdv~~  333 (399)
T KOG1660|consen  261 QLKEAEYFEEESKVERRVSSDEDLKLGDTLRYYDRDSCAAKDLLYRRERCLADYEAANKNLEKARAKNKDVHA  333 (399)
T ss_pred             eecchhHHHHHHhHhhhhchHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHhhhHHHHHhccccchh
Confidence            3456778899999999999999999999999999999999999999999999999999999999999999986

>cd07662 BAR_SNX6 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 6

Probab=99.50  E-value=6.6e-15  Score=117.05  Aligned_cols=69  Identities=64%  Similarity=0.971  Sum_probs=66.9

Q ss_pred             chHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcCCCCcC
Q psy11251        120 PAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTKNKDVH  188 (190)
Q Consensus       120 ~se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~~~~~~  188 (190)
                      .++.++++++++++++.+++++|+++++||+++.+|+++++|||++++++|+|||++|+|||++||||+
T Consensus        85 laev~eki~~l~~~~A~~e~l~L~e~L~~Y~r~~~A~Kdll~rR~r~l~~~enA~k~L~KaR~~~kev~  153 (218)
T cd07662          85 VSELFDKTRKIEARVAADEDLKLSDLLKYYLRESQAAKDLLYRRSRSLVDYENANKALDKARAKNKDVL  153 (218)
T ss_pred             HHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHH
Confidence            577889999999999999999999999999999999999999999999999999999999999999986

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX6 forms a stable complex with SNX1 and may be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. It interacts with the receptor serine/threonine kinases from the transforming growth factor-beta family. It also plays

>cd07621 BAR_SNX5_6 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 5 and 6

Probab=99.44  E-value=1.8e-14  Score=115.43  Aligned_cols=70  Identities=83%  Similarity=1.227  Sum_probs=67.3

Q ss_pred             chHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcCCCCcCC
Q psy11251        120 PAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTKNKDVHA  189 (190)
Q Consensus       120 ~se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~~~~~~~  189 (190)
                      .++.++++++++++++.+++++|+++++||+++.+|+++++|||++++++|+|+|++|+|||+||+||++
T Consensus        86 lae~~ek~~~l~~r~A~~d~l~L~e~L~~Y~r~~~A~K~~l~rR~ral~~~q~A~k~L~KaR~k~~~v~~  155 (219)
T cd07621          86 VAETFEKLRKLEGRVASDEDLKLSDTLRYYMRDTQAAKDLLYRRLRCLANYENANKNLEKARAKNKDVHA  155 (219)
T ss_pred             HHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhchhhHHH
Confidence            5678899999999999999999999999999999999999999999999999999999999999999974

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Members of this subfamily include SNX5, SNX6, the mammalian SNX32, and similar proteins. SNX5 and SNX6 may be components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. The function of SNX32 is still unknown. BAR domain

>cd07663 BAR_SNX5 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 5

Probab=99.41  E-value=4.7e-14  Score=112.73  Aligned_cols=70  Identities=63%  Similarity=0.938  Sum_probs=67.2

Q ss_pred             chHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcCCCCcCC
Q psy11251        120 PAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTKNKDVHA  189 (190)
Q Consensus       120 ~se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~~~~~~~  189 (190)
                      .++.++++++++++++.+++++|+++++||.++.+|+++++|||+|++++|+|+|++|+|||+++|||++
T Consensus        85 lae~~Ek~~~l~~r~A~~d~~~L~e~L~~Y~r~~~A~K~ll~rR~ral~~~e~A~~~L~KaR~k~kev~~  154 (218)
T cd07663          85 VAELFEKLRKVEDRVASDQDLKLTELLRYYMLNIEAAKDLLYRRARALADYENSNKALDKARLKSKDVKQ  154 (218)
T ss_pred             HHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            5678899999999999999999999999999999999999999999999999999999999999999873

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX5, abundantly expressed in macrophages, regulates macropinocytosis, a process that enables cells to internalize large amounts of external solutes. It may also be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. It

>KOG4443|consensus

Probab=99.40  E-value=1.1e-13  Score=123.40  Aligned_cols=93  Identities=35%  Similarity=0.924  Sum_probs=80.3

Q ss_pred             CCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCC
Q psy11251         10 SGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPP   89 (190)
Q Consensus        10 ~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p   89 (190)
                      .+-.|.|+.|..|+..||+.|+.....  ..+-.+.|.|+.|++|..|+..+++..+++|+.||-.||.+|..|++..++
T Consensus        29 ~~~ag~m~ac~~c~~~yH~~cvt~~~~--~~~l~~gWrC~~crvCe~c~~~gD~~kf~~Ck~cDvsyh~yc~~P~~~~v~  106 (694)
T KOG4443|consen   29 KGRAGRLLACSDCGQKYHPYCVTSWAQ--HAVLSGGWRCPSCRVCEACGTTGDPKKFLLCKRCDVSYHCYCQKPPNDKVP  106 (694)
T ss_pred             ccccCcchhhhhhcccCCcchhhHHHh--HHHhcCCcccCCceeeeeccccCCcccccccccccccccccccCCcccccc
Confidence            344688999999999999999975432  233356699999999999999989999999999999999999999999999


Q ss_pred             CCCccCcccccccch
Q psy11251         90 EGSWSCQLCLKEFHR  104 (190)
Q Consensus        90 ~~~W~C~~C~~~~~~  104 (190)
                      .|.|+|+.|......
T Consensus       107 sg~~~ckk~~~c~qc  121 (694)
T KOG4443|consen  107 SGPWLCKKCTRCRQC  121 (694)
T ss_pred             CcccccHHHHhhhhc
Confidence            999999988765543

>KOG4299|consensus

Probab=99.24  E-value=3.9e-12  Score=113.19  Aligned_cols=49  Identities=39%  Similarity=0.968  Sum_probs=43.8

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCC--CCCCCCCccCcccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPI--QTPPEGSWSCQLCLKE  101 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l--~~~p~~~W~C~~C~~~  101 (190)
                      +|..|++.+.-..+++||+|+++||++||.||+  ..+|.|.|+|+.|...
T Consensus       255 fCsaCn~~~~F~~~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k  305 (613)
T KOG4299|consen  255 FCSACNGSGLFNDIICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECKIK  305 (613)
T ss_pred             HHHHhCCccccccceeecCCchHHHHhhcCCCCCcccCCCCccccCCCeee
Confidence            899999876667779999999999999999994  6699999999999765

>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

Probab=99.09  E-value=2.2e-11  Score=75.97  Aligned_cols=48  Identities=44%  Similarity=1.092  Sum_probs=41.5

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCC--CCCCCCccCccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQ--TPPEGSWSCQLCLK  100 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~--~~p~~~W~C~~C~~  100 (190)
                      +|.+|++..+++.+|.|+.|+++||..|++|++.  .++.+.|+|+.|..
T Consensus         1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~   50 (51)
T PF00628_consen    1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP   50 (51)
T ss_dssp             EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred             eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence            4788998888899999999999999999999876  44456999999974

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 the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....

>KOG4299|consensus

Probab=99.01  E-value=1.4e-10  Score=103.44  Aligned_cols=89  Identities=28%  Similarity=0.569  Sum_probs=68.5

Q ss_pred             CCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC------------------------------------
Q psy11251          9 KSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK------------------------------------   52 (190)
Q Consensus         9 ~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~------------------------------------   52 (190)
                      ++|.--++|+||+|+++||++||+||.+. +.+|.+.|+|++|+                                    
T Consensus       261 ~~~~F~~~i~CD~Cp~sFH~~CLePPl~~-eniP~g~W~C~ec~~k~~in~~~~t~~~~~~~~~i~t~~~~~IDs~np~q  339 (613)
T KOG4299|consen  261 GSGLFNDIICCDGCPRSFHQTCLEPPLEP-ENIPPGSWFCPECKIKSVINPKMETLSNRGTVVDIFTQFVSKIDSHNPIQ  339 (613)
T ss_pred             CccccccceeecCCchHHHHhhcCCCCCc-ccCCCCccccCCCeeeeecccchhhhhhccchHHHHHHHHHhhhccchhh
Confidence            33344677999999999999999987543 57889999999998                                    


Q ss_pred             ------------------------------------------------------CCCcCCCCCCCC-CccccCccCCccc
Q psy11251         53 ------------------------------------------------------CCSVCGTSDNDD-QLLFCDDCDRGYH   77 (190)
Q Consensus        53 ------------------------------------------------------~C~~C~~~~~~~-~ll~C~~C~~~~H   77 (190)
                                                                            +|.-|.....+. .++-|+.|...+|
T Consensus       340 ~~lPe~i~~~~~~v~~g~~~~~sd~~~~~pl~~~~~~~d~e~~e~g~~ssg~~~~~~~c~~~~~~s~~vl~c~ye~s~~h  419 (613)
T KOG4299|consen  340 KILPENISESFGGVSRGDDGQYSDTQDEKPLDPPALILDGENDENGIDSSGTELLCGRCSKTQTESVVVLDCQYEQSPEH  419 (613)
T ss_pred             hhCCHHHHhhccccccCCCCccccccCCcCCChhhhcccccCCccCCCccCcchhhcccCcchhhhhhhhccccccCCCC
Confidence                                                                  677777543333 3477999999999


Q ss_pred             CCCCCCCCCCCCCC--CccCcccc
Q psy11251         78 MYCLVPPIQTPPEG--SWSCQLCL   99 (190)
Q Consensus        78 ~~Cl~p~l~~~p~~--~W~C~~C~   99 (190)
                      ..|. ++....|..  .|.||.=.
T Consensus       420 ~dc~-~~~~~~ps~ss~~k~p~~s  442 (613)
T KOG4299|consen  420 PDCK-DDSKALPSLSSKWKCPRVS  442 (613)
T ss_pred             cccc-chhhhCCCCcccccCCCCC
Confidence            9999 555666664  67998643

>cd07630 BAR_SNX_like The Bin/Amphiphysin/Rvs (BAR) domain of uncharacterized Sorting Nexins

Probab=98.92  E-value=2.7e-10  Score=90.45  Aligned_cols=68  Identities=32%  Similarity=0.483  Sum_probs=64.6

Q ss_pred             chHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcCCCCc
Q psy11251        120 PAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTKNKDV  187 (190)
Q Consensus       120 ~se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~~~~~  187 (190)
                      .++.+++++++..+++.+++++|.+++++|.+..+|.++++++|++++..|+|++++|+||+++++|+
T Consensus        69 lse~~e~i~~~~~~~a~~d~~~Lg~~L~~Y~r~i~a~K~~l~~R~~~~~~~~~a~k~l~Kar~~k~~~  136 (198)
T cd07630          69 LSEALEEAKENIEVVAGNNENTLGLTLDLYSRYSESEKDMLFRRTCKLIEFENASKALEKAKPQKKEQ  136 (198)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhHHH
Confidence            56778899999999999999999999999999999999999999999999999999999999998764

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of uncharacterized proteins with similarity to sorting nexins (SNXs), which are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.

>smart00249 PHD PHD zinc finger

Probab=98.86  E-value=2.3e-09  Score=64.72  Aligned_cols=46  Identities=52%  Similarity=1.241  Sum_probs=39.9

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCC-CCCCCCccCccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQ-TPPEGSWSCQLC   98 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~-~~p~~~W~C~~C   98 (190)
                      +|.+|++..+++.+|.|+.|+++||..|++++.. ..+...|+|+.|
T Consensus         1 ~C~~C~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~~C~~C   47 (47)
T smart00249        1 YCSVCGKPDDGGELLQCDGCDRWYHQTCLGPPLLEEEPDGKWYCPKC   47 (47)
T ss_pred             CcccCCCcCCCCCEEECCCCCchhhhhhCCCcccCCCCCCCEECcCC
Confidence            4778888777889999999999999999998766 566679999987

The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the

>KOG0825|consensus

Probab=98.85  E-value=6e-10  Score=101.36  Aligned_cols=49  Identities=39%  Similarity=1.017  Sum_probs=46.1

Q ss_pred             CCCcCCCCCCCCCccccCccCCc-ccCCCCCCCCCCCCCCCccCcccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRG-YHMYCLVPPIQTPPEGSWSCQLCLKE  101 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~-~H~~Cl~p~l~~~p~~~W~C~~C~~~  101 (190)
                      .|.+|...+..+.||+||.|+.+ ||++||+|++.++|.+.|||++|.-.
T Consensus       217 ~C~IC~~~DpEdVLLLCDsCN~~~YH~YCLDPdl~eiP~~eWYC~NC~dL  266 (1134)
T KOG0825|consen  217 KCDICTVHDPEDVLLLCDSCNKVYYHVYCLDPDLSESPVNEWYCTNCSLL  266 (1134)
T ss_pred             cceeeccCChHHhheeecccccceeeccccCcccccccccceecCcchhh
Confidence            79999999888999999999999 99999999999999999999999753

>KOG0383|consensus

Probab=98.80  E-value=2.2e-09  Score=98.30  Aligned_cols=76  Identities=32%  Similarity=0.839  Sum_probs=65.3

Q ss_pred             CCCCCCCCCCCCCCcccccccCCCCcccCCCC-------------------CCCcCCCCCCCCCccccCccCCcccCCCC
Q psy11251         21 DCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK-------------------CCSVCGTSDNDDQLLFCDDCDRGYHMYCL   81 (190)
Q Consensus        21 ~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~-------------------~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl   81 (190)
                      .|++.||..|+++  .+.. .++++|.|+.|.                   .|.+|+   +++.+|+|+.|+.+||.+|+
T Consensus         1 ~~~r~~~~~~~~p--~~~~-~~~~~~k~~~~e~~~~~~~~~~~~~~~~~~e~c~ic~---~~g~~l~c~tC~~s~h~~cl   74 (696)
T KOG0383|consen    1 TCPRAYHRVCLDP--KLKE-EPEMDPKCPGCESSSAQVEAKDDDWDDAEQEACRICA---DGGELLWCDTCPASFHASCL   74 (696)
T ss_pred             CCCcccCcCCCCc--cccc-CCcCCccCcchhhcccccccccCCcchhhhhhhhhhc---CCCcEEEeccccHHHHHHcc
Confidence            4899999999964  4433 338999999886                   799999   58899999999999999999


Q ss_pred             CCCCCCCCCCCccCccccccc
Q psy11251         82 VPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        82 ~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      +||+...|.+.|.|+.|....
T Consensus        75 ~~pl~~~p~~~~~c~Rc~~p~   95 (696)
T KOG0383|consen   75 GPPLTPQPNGEFICPRCFCPK   95 (696)
T ss_pred             CCCCCcCCccceeeeeeccCC
Confidence            999999999889999995443

>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

Probab=98.73  E-value=1.7e-09  Score=67.30  Aligned_cols=48  Identities=25%  Similarity=0.713  Sum_probs=37.1

Q ss_pred             CCCccCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          3 CPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         3 C~~~~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      |..... .++.++||.|+.|+++||..|++++..... ++...|+|+.|.
T Consensus         2 C~vC~~-~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~-~~~~~w~C~~C~   49 (51)
T PF00628_consen    2 CPVCGQ-SDDDGDMIQCDSCNRWYHQECVGPPEKAEE-IPSGDWYCPNCR   49 (51)
T ss_dssp             BTTTTS-SCTTSSEEEBSTTSCEEETTTSTSSHSHHS-HHSSSBSSHHHH
T ss_pred             CcCCCC-cCCCCCeEEcCCCChhhCcccCCCChhhcc-CCCCcEECcCCc
Confidence            333444 778999999999999999999998765433 334599999885

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 the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....

>smart00249 PHD PHD zinc finger

Probab=98.53  E-value=1e-07  Score=57.39  Aligned_cols=38  Identities=29%  Similarity=0.622  Sum_probs=32.2

Q ss_pred             CCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCC
Q psy11251         12 QPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIEC   51 (190)
Q Consensus        12 ~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C   51 (190)
                      +++.||.|+.|+++||..|++++..  ...+...|+|+.|
T Consensus        10 ~~~~~i~C~~C~~~~H~~C~~~~~~--~~~~~~~~~C~~C   47 (47)
T smart00249       10 DGGELLQCDGCDRWYHQTCLGPPLL--EEEPDGKWYCPKC   47 (47)
T ss_pred             CCCCEEECCCCCchhhhhhCCCccc--CCCCCCCEECcCC
Confidence            7899999999999999999987653  2456779999887

The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the

>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function

Probab=98.47  E-value=9.8e-08  Score=71.83  Aligned_cols=31  Identities=42%  Similarity=1.103  Sum_probs=27.6

Q ss_pred             cccCCCCCCCCCCCCCCCccCcccccccchh
Q psy11251         75 GYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK  105 (190)
Q Consensus        75 ~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~~~  105 (190)
                      +||++||.|||..+|+|+|+||.|.......
T Consensus         1 g~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~   31 (148)
T cd04718           1 GFHLCCLRPPLKEVPEGDWICPFCEVEKSGQ   31 (148)
T ss_pred             CcccccCCCCCCCCCCCCcCCCCCcCCCCCC
Confidence            6999999999999999999999999765443

BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.

>KOG1973|consensus

Probab=98.29  E-value=2.6e-07  Score=76.95  Aligned_cols=39  Identities=31%  Similarity=0.847  Sum_probs=35.6

Q ss_pred             CCCCccccCc--cC-CcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         62 NDDQLLFCDD--CD-RGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        62 ~~~~ll~C~~--C~-~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      ..+.|+-||.  |+ .|||+.|++  |...|.|.|||+.|....
T Consensus       228 syg~Mi~CDn~~C~~eWFH~~CVG--L~~~PkgkWyC~~C~~~~  269 (274)
T KOG1973|consen  228 SYGKMIGCDNPGCPIEWFHFTCVG--LKTKPKGKWYCPRCKAEN  269 (274)
T ss_pred             ccccccccCCCCCCcceEEEeccc--cccCCCCcccchhhhhhh
Confidence            5789999997  99 999999999  999999999999998653

>KOG4323|consensus

Probab=98.25  E-value=3.5e-07  Score=80.15  Aligned_cols=85  Identities=28%  Similarity=0.560  Sum_probs=63.3

Q ss_pred             CCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC--------------------------------------CC
Q psy11251         13 PEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK--------------------------------------CC   54 (190)
Q Consensus        13 ~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~--------------------------------------~C   54 (190)
                      +.++..|+.|+.+||..|--+..     ...+.|.+.+|.                                      .|
T Consensus        97 ~~e~~~~~r~~~~~~q~~~i~~~-----~~~~~~~~~~c~~~~~~~~g~a~K~g~~a~~~l~y~~~~l~wD~~~~~n~qc  171 (464)
T KOG4323|consen   97 ENEKVICGRCKSGYHQGCNIPRF-----PSLDIGESTECVFPIFSQEGGALKKGRLARPSLPYPEASLDWDSGHKVNLQC  171 (464)
T ss_pred             chhhhhhhhhccCcccccCccCc-----CcCCccccccccccccccccccccccccccccccCcccccccCcccccccee
Confidence            55788899999999999975321     113344444454                                      56


Q ss_pred             CcCC--CCCCCCCccccCccCCcccCCCCCCCCCC----CCCCCccCccccccc
Q psy11251         55 SVCG--TSDNDDQLLFCDDCDRGYHMYCLVPPIQT----PPEGSWSCQLCLKEF  102 (190)
Q Consensus        55 ~~C~--~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~----~p~~~W~C~~C~~~~  102 (190)
                      .+|.  .......||+|+.|..+||..|+.|++..    .+...|+|..|....
T Consensus       172 ~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~  225 (464)
T KOG4323|consen  172 SVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGP  225 (464)
T ss_pred             eeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccch
Confidence            6664  55566799999999999999999997754    355699999998754

>KOG0383|consensus

Probab=98.11  E-value=8.5e-07  Score=81.57  Aligned_cols=89  Identities=16%  Similarity=0.202  Sum_probs=73.2

Q ss_pred             CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC-----------------------------------
Q psy11251          8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK-----------------------------------   52 (190)
Q Consensus         8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~-----------------------------------   52 (190)
                      .-.+++|++|+|++|+.+||.+|++++.   ...+.++|.|++|.                                   
T Consensus        51 ~ic~~~g~~l~c~tC~~s~h~~cl~~pl---~~~p~~~~~c~Rc~~p~~~~k~~~il~~~~~~~~~~~~~~~~~~~~~~~  127 (696)
T KOG0383|consen   51 RICADGGELLWCDTCPASFHASCLGPPL---TPQPNGEFICPRCFCPKNAGKIEKILGWRWKPTPKPREGNQGVISPRRS  127 (696)
T ss_pred             hhhcCCCcEEEeccccHHHHHHccCCCC---CcCCccceeeeeeccCCCcccccccceeEecCCCCccccCcCccCCccc
Confidence            3458899999999999999999998765   34455669999997                                   


Q ss_pred             ---------------------------------------------------CCCcCCCCCCCCCccccCccCCcccCCCC
Q psy11251         53 ---------------------------------------------------CCSVCGTSDNDDQLLFCDDCDRGYHMYCL   81 (190)
Q Consensus        53 ---------------------------------------------------~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl   81 (190)
                                                                         .+.+|.   +.+.++.++.|++.||.+++
T Consensus       128 ~~~~~re~~vk~qg~s~~~c~~~~e~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~k~~~~a~~~~r~~~~~i  204 (696)
T KOG0383|consen  128 NGIVEREFFVKWQGLSYWHCSWKSELLLQNPLNTLPVELQRKHDTDQKPEAEIGVTR---DKGKLVPYADLEERFLLYGI  204 (696)
T ss_pred             ccchhhhcccccccCCccchhHHHHHHhhhhcccchHhhhhhhhcccCccccccccc---cCccccccccchhhhhheec
Confidence                                                               233333   46778889999999999999


Q ss_pred             CCCCCCCCCCCccCccccccc
Q psy11251         82 VPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        82 ~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      .|+...++..-|.+..+....
T Consensus       205 Kpe~~~i~rii~~~~s~~~~~  225 (696)
T KOG0383|consen  205 KPEWMPIARIINRRSSQKGAT  225 (696)
T ss_pred             cccccccchhhhhhcccccce
Confidence            999999999999999997653

>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain

Probab=98.06  E-value=4.8e-06  Score=63.64  Aligned_cols=82  Identities=30%  Similarity=0.640  Sum_probs=59.2

Q ss_pred             CCCcc--CCCCCCCCceecCCCCCCCCCCCCCCCc---ccccccCCC--CcccCCCC--------------CCCcCCCCC
Q psy11251          3 CPTQA--EKSGQPEDLVSCSDCGRSGHPTCLQFTN---NMKVSVKQY--RWQCIECK--------------CCSVCGTSD   61 (190)
Q Consensus         3 C~~~~--~~~g~~~~ll~C~~C~~~~H~~Cl~~~~---~~~~~~~~~--~W~C~~C~--------------~C~~C~~~~   61 (190)
                      |..+.  +...+.|.||.|-+|..+||..||++-.   .++..|-..  -.+|..|.              .|..|++.+
T Consensus         2 C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig~~~kKD~~aP~~~~C~~C~~~G   81 (175)
T PF15446_consen    2 CDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIGIAHKKDPRAPHHGMCQQCKKPG   81 (175)
T ss_pred             cccccCCCCCccCCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhcChhhcccCCCCCCCcccccCCCC
Confidence            44443  4555679999999999999999999643   233334333  46788886              899998653


Q ss_pred             C--------------------------------------CCCccccCccCCcccCCCCCCC
Q psy11251         62 N--------------------------------------DDQLLFCDDCDRGYHMYCLVPP   84 (190)
Q Consensus        62 ~--------------------------------------~~~ll~C~~C~~~~H~~Cl~p~   84 (190)
                      .                                      +..|..|..|.++||+.-|.|+
T Consensus        82 ~~c~pfr~r~T~kQEe~~ReeNgG~DPit~Vd~~lvnN~~nVLFRC~~C~RawH~~HLP~~  142 (175)
T PF15446_consen   82 PSCKPFRPRKTPKQEEKLREENGGVDPITPVDPELVNNPDNVLFRCTSCHRAWHFEHLPPP  142 (175)
T ss_pred             CCCcccCCCCCcHHHHHHHHHcCCCCCCccCCHHHccChhheEEecCCccceeehhhCCCC
Confidence            1                                      1235679999999999988775

>KOG0957|consensus

Probab=98.03  E-value=1.4e-06  Score=76.58  Aligned_cols=48  Identities=38%  Similarity=0.964  Sum_probs=43.9

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCC----CccCccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEG----SWSCQLCLK  100 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~----~W~C~~C~~  100 (190)
                      .|.+|+++.+...++.||.|...||+.||.|||+.+|..    .|.|..|..
T Consensus       546 sCgiCkks~dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsECdk  597 (707)
T KOG0957|consen  546 SCGICKKSTDQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSECDK  597 (707)
T ss_pred             eeeeeccchhhHHHhhcchhhceeeccccCCccccCcccccCcceeeccccc
Confidence            899999988888899999999999999999999999974    799999943

>KOG0955|consensus

Probab=97.90  E-value=4.9e-06  Score=79.52  Aligned_cols=51  Identities=33%  Similarity=0.866  Sum_probs=44.1

Q ss_pred             CCCcCCCCCCC--CCccccCccCCcccCCCCCCCCCCCCCCCccCcccccccchh
Q psy11251         53 CCSVCGTSDND--DQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK  105 (190)
Q Consensus        53 ~C~~C~~~~~~--~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~~~  105 (190)
                      +|.+|..+.-.  ..+|+||.|+.++|++|++  +..+|+|.|.|..|.....+.
T Consensus       221 ~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cyg--i~~ipeg~WlCr~Cl~s~~~~  273 (1051)
T KOG0955|consen  221 VCCICLDGECQNSNVIVFCDGCNLAVHQECYG--IPFIPEGQWLCRRCLQSPQRP  273 (1051)
T ss_pred             cceeecccccCCCceEEEcCCCcchhhhhccC--CCCCCCCcEeehhhccCcCcc
Confidence            88999877644  7899999999999999999  778999999999998765444

>KOG1473|consensus

Probab=97.90  E-value=1.1e-06  Score=83.07  Aligned_cols=92  Identities=24%  Similarity=0.448  Sum_probs=72.5

Q ss_pred             CCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC------------------------------------
Q psy11251          9 KSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK------------------------------------   52 (190)
Q Consensus         9 ~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~------------------------------------   52 (190)
                      -.-+.+.+++|.+||+.||..|+.++.   ..+++..|.|.-|.                                    
T Consensus       349 f~~d~~~~lc~Et~prvvhlEcv~hP~---~~~~s~~~e~evc~~hkvngvvd~vl~~~K~~~~iR~~~iG~dr~gr~yw  425 (1414)
T KOG1473|consen  349 FCHDLGDLLCCETCPRVVHLECVFHPR---FAVPSAFWECEVCNIHKVNGVVDCVLPPSKNVDSIRHTPIGRDRYGRKYW  425 (1414)
T ss_pred             ccCcccceeecccCCceEEeeecCCcc---ccCCCccchhhhhhhhccCcccccccChhhcccceeccCCCcCccccchh
Confidence            345789999999999999999997654   46778899999997                                    


Q ss_pred             ----CCCcCCCCCCCCCccccCc-cCCcccC-CCCCCC--CCCCCCCCccCcccccccchhc
Q psy11251         53 ----CCSVCGTSDNDDQLLFCDD-CDRGYHM-YCLVPP--IQTPPEGSWSCQLCLKEFHRKI  106 (190)
Q Consensus        53 ----~C~~C~~~~~~~~ll~C~~-C~~~~H~-~Cl~p~--l~~~p~~~W~C~~C~~~~~~~~  106 (190)
                          .|.+|+   .++.+++|+. |+.+||+ .|++-.  -..++++.|+|+.|........
T Consensus       426 fi~rrl~Ie~---~det~l~yysT~pqly~ll~cLd~~~~e~~L~d~i~~~~ee~~rqM~lT  484 (1414)
T KOG1473|consen  426 FISRRLRIEG---MDETLLWYYSTCPQLYHLLRCLDRTYVEMYLCDGIWERREEIIRQMGLT  484 (1414)
T ss_pred             ceeeeeEEec---CCCcEEEEecCcHHHHHHHHHhchHHHHHhhccchhhhHHHHHHhccch
Confidence                344444   2567888886 9999999 999943  2457889999999987665443

>KOG0956|consensus

Probab=97.88  E-value=5.9e-06  Score=74.97  Aligned_cols=88  Identities=23%  Similarity=0.658  Sum_probs=65.9

Q ss_pred             CCCceecC--CCCCCCCCCCCCCCcccccccCCCCcccCCCC--------------------------------------
Q psy11251         13 PEDLVSCS--DCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK--------------------------------------   52 (190)
Q Consensus        13 ~~~ll~C~--~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~--------------------------------------   52 (190)
                      ...|+.||  +|..+.|..|.++     ..||.+.|||..|.                                      
T Consensus        19 eNPLVYCDG~nCsVAVHQaCYGI-----vqVPtGpWfCrKCesqeraarvrCeLCP~kdGALKkTDn~GWAHVVCALYIP   93 (900)
T KOG0956|consen   19 ENPLVYCDGHNCSVAVHQACYGI-----VQVPTGPWFCRKCESQERAARVRCELCPHKDGALKKTDNGGWAHVVCALYIP   93 (900)
T ss_pred             cCceeeecCCCceeeeehhccee-----EecCCCchhhhhhhhhhhhccceeecccCcccceecccCCCceEEEEEeecc
Confidence            35799999  5999999999987     68999999999997                                      


Q ss_pred             -------------------------CCCcCCCCCCCC-----CccccC--ccCCcccCCCCCCC-CCC-----CCCCCcc
Q psy11251         53 -------------------------CCSVCGTSDNDD-----QLLFCD--DCDRGYHMYCLVPP-IQT-----PPEGSWS   94 (190)
Q Consensus        53 -------------------------~C~~C~~~~~~~-----~ll~C~--~C~~~~H~~Cl~p~-l~~-----~p~~~W~   94 (190)
                                               .|++|.+.+.+.     --+.|.  .|.++||..|..-. |--     +-+.--|
T Consensus        94 EVrFgNV~TMEPIiLq~VP~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKY  173 (900)
T KOG0956|consen   94 EVRFGNVHTMEPIILQDVPHDRFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKY  173 (900)
T ss_pred             ceeecccccccceeeccCchhhhcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceecccccccccee
Confidence                                     899998765443     346674  78999999997631 111     1122468


Q ss_pred             Ccccccccchh
Q psy11251         95 CQLCLKEFHRK  105 (190)
Q Consensus        95 C~~C~~~~~~~  105 (190)
                      |-.|..-+...
T Consensus       174 CGYCk~HfsKl  184 (900)
T KOG0956|consen  174 CGYCKYHFSKL  184 (900)
T ss_pred             chhHHHHHHHh
Confidence            99998655443

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

Probab=97.86  E-value=6.9e-06  Score=66.56  Aligned_cols=42  Identities=33%  Similarity=0.963  Sum_probs=35.4

Q ss_pred             cCCCCCCCCCccccC--ccC-CcccCCCCCCCCCCCCCCCccCccccc
Q psy11251         56 VCGTSDNDDQLLFCD--DCD-RGYHMYCLVPPIQTPPEGSWSCQLCLK  100 (190)
Q Consensus        56 ~C~~~~~~~~ll~C~--~C~-~~~H~~Cl~p~l~~~p~~~W~C~~C~~  100 (190)
                      .|++. .-|+||-||  .|. .|||+.|++  |.+.|+|.|||+.|..
T Consensus       225 fCqqv-SyGqMVaCDn~nCkrEWFH~~CVG--Lk~pPKG~WYC~eCk~  269 (271)
T COG5034         225 FCQQV-SYGQMVACDNANCKREWFHLECVG--LKEPPKGKWYCPECKK  269 (271)
T ss_pred             Eeccc-ccccceecCCCCCchhheeccccc--cCCCCCCcEeCHHhHh
Confidence            45543 368999999  576 599999999  9999999999999975

>COG5141 PHD zinc finger-containing protein [General function prediction only]

Probab=97.84  E-value=4.3e-06  Score=73.31  Aligned_cols=74  Identities=23%  Similarity=0.648  Sum_probs=60.4

Q ss_pred             CCCccCC-CCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC-----------------------------
Q psy11251          3 CPTQAEK-SGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK-----------------------------   52 (190)
Q Consensus         3 C~~~~~~-~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~-----------------------------   52 (190)
                      |.++++. ..+..-++.||+|.-+.|.+|-++     .-+|+|.|+|..|.                             
T Consensus       196 C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI-----~f~peG~WlCrkCi~~~~~i~~C~fCps~dGaFkqT~dgrW~H  270 (669)
T COG5141         196 CTKCTSTHNENSNAIVFCDGCEICVHQSCYGI-----QFLPEGFWLCRKCIYGEYQIRCCSFCPSSDGAFKQTSDGRWGH  270 (669)
T ss_pred             hHhccccccCCcceEEEecCcchhhhhhcccc-----eecCcchhhhhhhcccccceeEEEeccCCCCceeeccCCchHh
Confidence            4444433 334578999999999999999987     46889999999997                             


Q ss_pred             ----------------------------------CCCcCCCCCCCCCccccC--ccCCcccCCCCCC
Q psy11251         53 ----------------------------------CCSVCGTSDNDDQLLFCD--DCDRGYHMYCLVP   83 (190)
Q Consensus        53 ----------------------------------~C~~C~~~~~~~~ll~C~--~C~~~~H~~Cl~p   83 (190)
                                                        .|.+|+..  +|.-+.|.  .|-++||..|...
T Consensus       271 ~iCA~~~pelsF~~l~~~dpI~~i~sVs~srwkl~C~iCk~~--~GtcIqCs~~nC~~aYHVtCArr  335 (669)
T COG5141         271 VICAMFNPELSFGHLLSKDPIDNIASVSSSRWKLGCLICKEF--GGTCIQCSYFNCTRAYHVTCARR  335 (669)
T ss_pred             HhHHHhcchhccccccccchhhhhcccchhhHhheeeEEccc--Ccceeeecccchhhhhhhhhhhh
Confidence                                              78888874  77888896  6999999999764

>KOG1245|consensus

Probab=97.73  E-value=5.5e-06  Score=81.75  Aligned_cols=51  Identities=39%  Similarity=1.120  Sum_probs=47.5

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFH  103 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~  103 (190)
                      .|.+|....+...|+.|+.|..+||++|+.|.+..+|.++|+|+.|+....
T Consensus      1110 ~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~~ 1160 (1404)
T KOG1245|consen 1110 LCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEHR 1160 (1404)
T ss_pred             hhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhhh
Confidence            789999888888999999999999999999999999999999999997663

>KOG0955|consensus

Probab=97.62  E-value=2.6e-05  Score=74.66  Aligned_cols=65  Identities=22%  Similarity=0.655  Sum_probs=55.7

Q ss_pred             CCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC---------------------------------------
Q psy11251         12 QPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK---------------------------------------   52 (190)
Q Consensus        12 ~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~---------------------------------------   52 (190)
                      +...++.||+|+.++|.+|.+.     .-+|++.|.|..|.                                       
T Consensus       232 n~n~ivfCD~Cnl~VHq~Cygi-----~~ipeg~WlCr~Cl~s~~~~v~c~~cp~~~gAFkqt~dgrw~Hv~caiwipev  306 (1051)
T KOG0955|consen  232 NSNVIVFCDGCNLAVHQECYGI-----PFIPEGQWLCRRCLQSPQRPVRCLLCPSKGGAFKQTDDGRWAHVVCAIWIPEV  306 (1051)
T ss_pred             CCceEEEcCCCcchhhhhccCC-----CCCCCCcEeehhhccCcCcccceEeccCCCCcceeccCCceeeeehhhccccc
Confidence            3578999999999999999985     35889999999997                                       


Q ss_pred             ------------------------CCCcCCCCCCCCCccccC--ccCCcccCCCCC
Q psy11251         53 ------------------------CCSVCGTSDNDDQLLFCD--DCDRGYHMYCLV   82 (190)
Q Consensus        53 ------------------------~C~~C~~~~~~~~ll~C~--~C~~~~H~~Cl~   82 (190)
                                              +|.+|+..+ .|.-+.|.  .|..+||.+|-.
T Consensus       307 ~F~nt~~~E~I~~i~~i~~aRwkL~cy~cK~~~-~gaciqcs~~~c~~a~hvtca~  361 (1051)
T KOG0955|consen  307 SFANTVFLEPIDSIENIPPARWKLTCYICKQKG-LGACIQCSKANCYTAFHVTCAR  361 (1051)
T ss_pred             ccccchhhccccchhcCcHhhhhceeeeeccCC-CCcceecchhhhhhhhhhhhHh
Confidence                                    899999764 47778886  799999999965

>KOG0954|consensus

Probab=97.57  E-value=1.8e-05  Score=72.45  Aligned_cols=75  Identities=23%  Similarity=0.711  Sum_probs=60.6

Q ss_pred             CCCCcc-CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC----------------------------
Q psy11251          2 LCPTQA-EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK----------------------------   52 (190)
Q Consensus         2 ~C~~~~-~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~----------------------------   52 (190)
                      +|..+. +.+.++.+|++||.|....|..|.++     ..+|++.|.|..|.                            
T Consensus       273 iCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGI-----le~p~gpWlCr~Calg~~ppCvLCPkkGGamK~~~sgT~wAH  347 (893)
T KOG0954|consen  273 ICDVCRSPDSEEANEMVFCDKCNICVHQACYGI-----LEVPEGPWLCRTCALGIEPPCVLCPKKGGAMKPTKSGTKWAH  347 (893)
T ss_pred             eeceecCCCccccceeEEeccchhHHHHhhhce-----eecCCCCeeehhccccCCCCeeeccccCCcccccCCCCeeeE
Confidence            455555 34566899999999999999999987     57889999999997                            


Q ss_pred             ----------------------------------CCCcCCCCCCCCCccccC--ccCCcccCCCCCC
Q psy11251         53 ----------------------------------CCSVCGTSDNDDQLLFCD--DCDRGYHMYCLVP   83 (190)
Q Consensus        53 ----------------------------------~C~~C~~~~~~~~ll~C~--~C~~~~H~~Cl~p   83 (190)
                                                        +|.+|...  .|.-|.|.  .|-.+||..|...
T Consensus       348 vsCALwIPEVsie~~ekmePItkfs~IpesRwslvC~LCk~k--~GACIqCs~k~C~t~fHv~CA~~  412 (893)
T KOG0954|consen  348 VSCALWIPEVSIECPEKMEPITKFSHIPESRWSLVCNLCKVK--SGACIQCSNKTCRTAFHVTCAFE  412 (893)
T ss_pred             eeeeeccceeeccCHhhcCcccccCCCcHHHHHHHHHHhccc--CcceEEecccchhhhccchhhhh
Confidence                                              78888764  45556664  8999999999764

>KOG4443|consensus

Probab=97.54  E-value=3.1e-05  Score=70.11  Aligned_cols=89  Identities=25%  Similarity=0.536  Sum_probs=67.3

Q ss_pred             CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcCCCCCC-------------------------
Q psy11251          8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDN-------------------------   62 (190)
Q Consensus         8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~~~~~-------------------------   62 (190)
                      +..||...++.|+.|..+||-+|..|+.   ..++.+.|.|+.|..|..|+..-.                         
T Consensus        75 ~~~gD~~kf~~Ck~cDvsyh~yc~~P~~---~~v~sg~~~ckk~~~c~qc~~~lpg~s~~~~~~~~~~~~c~s~~~cPvc  151 (694)
T KOG4443|consen   75 GTTGDPKKFLLCKRCDVSYHCYCQKPPN---DKVPSGPWLCKKCTRCRQCDSTLPGLSLDLQEGYLQCAPCASLSYCPVC  151 (694)
T ss_pred             cccCCcccccccccccccccccccCCcc---ccccCcccccHHHHhhhhccccccccchhhhccCcccccccccccCchH
Confidence            4789999999999999999999998754   578899999999985555543211                         


Q ss_pred             ------CC--CccccCccCCcccCCCCCCCCCCCCC------CCccCcccccc
Q psy11251         63 ------DD--QLLFCDDCDRGYHMYCLVPPIQTPPE------GSWSCQLCLKE  101 (190)
Q Consensus        63 ------~~--~ll~C~~C~~~~H~~Cl~p~l~~~p~------~~W~C~~C~~~  101 (190)
                            .+  .++.|+.|.+|-|..|-+-  .....      -.+.|..|+..
T Consensus       152 ~~~Y~~~e~~~~~~c~~c~rwsh~~c~~~--sdd~~~q~~vD~~~~CS~CR~e  202 (694)
T KOG4443|consen  152 LIVYQDSESLPMVCCSICQRWSHGGCDGI--SDDKYMQAQVDLQYKCSTCRGE  202 (694)
T ss_pred             HHhhhhccchhhHHHHHhcccccCCCCcc--chHHHHHHhhhhhcccceeehh
Confidence                  12  3488999999999999873  22211      26889999843

>KOG0825|consensus

Probab=97.46  E-value=5.1e-05  Score=70.03  Aligned_cols=40  Identities=23%  Similarity=0.565  Sum_probs=33.3

Q ss_pred             CCCCCCceecCCCCCC-CCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         10 SGQPEDLVSCSDCGRS-GHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        10 ~g~~~~ll~C~~C~~~-~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      ..-.+-||.||.|... ||.+||+++.   ..+|-+.|||++|.
T Consensus       224 ~DpEdVLLLCDsCN~~~YH~YCLDPdl---~eiP~~eWYC~NC~  264 (1134)
T KOG0825|consen  224 HDPEDVLLLCDSCNKVYYHVYCLDPDL---SESPVNEWYCTNCS  264 (1134)
T ss_pred             CChHHhheeecccccceeeccccCccc---ccccccceecCcch
Confidence            3345679999999999 9999999865   45788999999995

>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function

Probab=97.40  E-value=9.1e-05  Score=55.90  Aligned_cols=25  Identities=28%  Similarity=0.499  Sum_probs=21.7

Q ss_pred             CCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         25 SGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        25 ~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .||+.||+||.   ..+|+++|+||.|.
T Consensus         1 g~H~~CL~Ppl---~~~P~g~W~Cp~C~   25 (148)
T cd04718           1 GFHLCCLRPPL---KEVPEGDWICPFCE   25 (148)
T ss_pred             CcccccCCCCC---CCCCCCCcCCCCCc
Confidence            49999999876   57899999999994

BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.

>KOG0954|consensus

Probab=97.33  E-value=5.8e-05  Score=69.17  Aligned_cols=47  Identities=36%  Similarity=0.945  Sum_probs=41.6

Q ss_pred             CCCcCCCCC--CCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccc
Q psy11251         53 CCSVCGTSD--NDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE  101 (190)
Q Consensus        53 ~C~~C~~~~--~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~  101 (190)
                      .|.||..++  ...+||+||.|....|+.|.+  +.++|+|.|.|..|.-.
T Consensus       273 iCDvCrspD~e~~neMVfCd~Cn~cVHqaCyG--Ile~p~gpWlCr~Calg  321 (893)
T KOG0954|consen  273 ICDVCRSPDSEEANEMVFCDKCNICVHQACYG--ILEVPEGPWLCRTCALG  321 (893)
T ss_pred             eeceecCCCccccceeEEeccchhHHHHhhhc--eeecCCCCeeehhcccc
Confidence            788888764  457999999999999999999  89999999999999754

>cd07627 BAR_Vps5p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps5p

Probab=97.33  E-value=6.2e-05  Score=60.57  Aligned_cols=63  Identities=21%  Similarity=0.318  Sum_probs=57.9

Q ss_pred             chHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhc
Q psy11251        120 PAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERART  182 (190)
Q Consensus       120 ~se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~  182 (190)
                      .++..++...+..+.+..+.++|.+++.+|.+...|.+.++++|.+++.+|+++++.|++++.
T Consensus        67 ~a~~~~~~~~~~~~~a~~e~~~l~~~L~ey~r~~~Svk~~~~~R~~~~~~~~~~~~~L~k~~~  129 (216)
T cd07627          67 LAEVQKRIKESLERQALQDVLTLGVTLDEYIRSIGSVRAAFAQRQKLWQYWQSAESELSKKKA  129 (216)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345667888888999999999999999999999999999999999999999999999999983

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Vsp5p is the yeast counterpart of human SNX1 and is part of the retromer complex, which functions in the endosome-to-Golgi retrieval of vacuolar protein sorting receptor Vps10p, the Golgi-resident membrane protein A-ALP, and endopeptidase Kex2. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in

>COG5141 PHD zinc finger-containing protein [General function prediction only]

Probab=97.24  E-value=8.8e-05  Score=65.31  Aligned_cols=49  Identities=35%  Similarity=0.864  Sum_probs=40.2

Q ss_pred             CCCCCcCCCCC--CCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccc
Q psy11251         51 CKCCSVCGTSD--NDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE  101 (190)
Q Consensus        51 C~~C~~C~~~~--~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~  101 (190)
                      |..|.+|..+.  +.+.+++||+|+-+.|..|.+  +..+|+|.|+|..|.-.
T Consensus       193 d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYG--I~f~peG~WlCrkCi~~  243 (669)
T COG5141         193 DDICTKCTSTHNENSNAIVFCDGCEICVHQSCYG--IQFLPEGFWLCRKCIYG  243 (669)
T ss_pred             hhhhHhccccccCCcceEEEecCcchhhhhhccc--ceecCcchhhhhhhccc
Confidence            44566776654  346789999999999999999  78999999999999643

>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A

Probab=97.13  E-value=3.3e-05  Score=44.55  Aligned_cols=34  Identities=38%  Similarity=1.054  Sum_probs=19.9

Q ss_pred             CCccccCccCCcccCCCCCCCCCCCCCC-CccCcccc
Q psy11251         64 DQLLFCDDCDRGYHMYCLVPPIQTPPEG-SWSCQLCL   99 (190)
Q Consensus        64 ~~ll~C~~C~~~~H~~Cl~p~l~~~p~~-~W~C~~C~   99 (190)
                      +.||.|+.|.-..|..|.+  +..+|.+ +|+|..|.
T Consensus         2 n~ll~C~~C~v~VH~~CYG--v~~~~~~~~W~C~~C~   36 (36)
T PF13831_consen    2 NPLLFCDNCNVAVHQSCYG--VSEVPDGDDWLCDRCE   36 (36)
T ss_dssp             CEEEE-SSS--EEEHHHHT---SS--SS-----HHH-
T ss_pred             CceEEeCCCCCcCChhhCC--cccCCCCCcEECCcCC
Confidence            5689999999999999999  6666666 89998773

>cd07623 BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 1 and 2

Probab=97.04  E-value=0.0002  Score=57.94  Aligned_cols=64  Identities=25%  Similarity=0.372  Sum_probs=59.0

Q ss_pred             chHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcC
Q psy11251        120 PAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTK  183 (190)
Q Consensus       120 ~se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~  183 (190)
                      .++..++++.+..+.+..+.+++.+++.+|.+..+|.++.+++|.+++..|.+++++|.+.|.+
T Consensus        75 la~~~~ki~~~~~~qa~~d~~~l~e~L~eY~r~i~svk~~f~~R~~a~~~~q~a~~~l~kkr~~  138 (224)
T cd07623          75 LAEVEEKIEQLHGEQADTDFYILAELLKDYIGLIGAIKDVFHERVKVWQNWQNAQQTLTKKREA  138 (224)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456678888899999999999999999999999999999999999999999999999999885

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX1, SNX2, and similar proteins. SNX1 and SNX2 are components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), wh

>KOG1512|consensus

Probab=96.93  E-value=0.00048  Score=56.99  Aligned_cols=37  Identities=19%  Similarity=0.471  Sum_probs=31.1

Q ss_pred             CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccC
Q psy11251          8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCI   49 (190)
Q Consensus         8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~   49 (190)
                      ++.--.+++++||.|.+.||..|++.     ..+|.|.|.|.
T Consensus       321 ~~P~~E~E~~FCD~CDRG~HT~CVGL-----~~lP~G~WICD  357 (381)
T KOG1512|consen  321 LGPVIESEHLFCDVCDRGPHTLCVGL-----QDLPRGEWICD  357 (381)
T ss_pred             CCcccchheeccccccCCCCcccccc-----ccccCccchhh
Confidence            33445689999999999999999987     57889999875

>KOG0957|consensus

Probab=96.86  E-value=0.00038  Score=61.55  Aligned_cols=45  Identities=31%  Similarity=0.617  Sum_probs=34.7

Q ss_pred             CCCCCCCCceecCCCCCCCCCCCCCCCcc-cccccCCCCcccCCCC
Q psy11251          8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNN-MKVSVKQYRWQCIECK   52 (190)
Q Consensus         8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~-~~~~~~~~~W~C~~C~   52 (190)
                      .++.|.--|+.||+|...||+-||+||.. +....+.+.|+|.+|+
T Consensus       551 kks~dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsECd  596 (707)
T KOG0957|consen  551 KKSTDQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSECD  596 (707)
T ss_pred             ccchhhHHHhhcchhhceeeccccCCccccCcccccCcceeecccc
Confidence            34457888999999999999999997752 2334446689999984

>cd07664 BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 2

Probab=96.75  E-value=0.00065  Score=55.37  Aligned_cols=64  Identities=25%  Similarity=0.382  Sum_probs=58.8

Q ss_pred             chHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcC
Q psy11251        120 PAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTK  183 (190)
Q Consensus       120 ~se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~  183 (190)
                      .++..++++.+..+.+..+.+++..++.+|.+..+|.+..+++|++++..|.++++.|.+.+.+
T Consensus        85 laev~~ki~~~~~~qa~~d~~~l~e~L~eYiR~i~svK~~f~~R~k~~~~~~~a~~~L~kkr~~  148 (234)
T cd07664          85 LAEVEEKIDQLHQDQAFADFYLFSELLGDYIRLIAAVKGVFDQRMKCWQKWQDAQVTLQKKREA  148 (234)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3556678888889999999999999999999999999999999999999999999999998865

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX2 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization

>KOG0956|consensus

Probab=96.65  E-value=0.00062  Score=62.24  Aligned_cols=45  Identities=33%  Similarity=0.942  Sum_probs=36.8

Q ss_pred             CCcCCCCC--CCCCccccC--ccCCcccCCCCCCCCCCCCCCCccCccccc
Q psy11251         54 CSVCGTSD--NDDQLLFCD--DCDRGYHMYCLVPPIQTPPEGSWSCQLCLK  100 (190)
Q Consensus        54 C~~C~~~~--~~~~ll~C~--~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~  100 (190)
                      |-||-.-.  .+..||.||  .|..+.|+.|++  +..+|.|+|||..|..
T Consensus         8 CCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYG--IvqVPtGpWfCrKCes   56 (900)
T KOG0956|consen    8 CCVCSDERGWAENPLVYCDGHNCSVAVHQACYG--IVQVPTGPWFCRKCES   56 (900)
T ss_pred             eeeecCcCCCccCceeeecCCCceeeeehhcce--eEecCCCchhhhhhhh
Confidence            45664221  356899998  699999999999  8999999999999964

>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A

Probab=96.62  E-value=9.4e-05  Score=42.64  Aligned_cols=33  Identities=27%  Similarity=0.778  Sum_probs=18.3

Q ss_pred             CCceecCCCCCCCCCCCCCCCcccccccCCC-CcccCCC
Q psy11251         14 EDLVSCSDCGRSGHPTCLQFTNNMKVSVKQY-RWQCIEC   51 (190)
Q Consensus        14 ~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~-~W~C~~C   51 (190)
                      ..||.|++|....|..|-+...     ++.+ .|+|..|
T Consensus         2 n~ll~C~~C~v~VH~~CYGv~~-----~~~~~~W~C~~C   35 (36)
T PF13831_consen    2 NPLLFCDNCNVAVHQSCYGVSE-----VPDGDDWLCDRC   35 (36)
T ss_dssp             CEEEE-SSS--EEEHHHHT-SS-------SS-----HHH
T ss_pred             CceEEeCCCCCcCChhhCCccc-----CCCCCcEECCcC
Confidence            4799999999999999998743     3333 6998776

>KOG4323|consensus

Probab=96.15  E-value=0.0016  Score=57.57  Aligned_cols=45  Identities=22%  Similarity=0.488  Sum_probs=34.1

Q ss_pred             CCCCCCCCceecCCCCCCCCCCCCCCCcc-cccccCCCCcccCCCC
Q psy11251          8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNN-MKVSVKQYRWQCIECK   52 (190)
Q Consensus         8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~-~~~~~~~~~W~C~~C~   52 (190)
                      +..|.+..||.|+.|..+||..|..+... +...-+.+.|+|..|.
T Consensus       177 g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~  222 (464)
T KOG4323|consen  177 GGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCN  222 (464)
T ss_pred             CCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhc
Confidence            56677779999999999999999986532 2233468899776663

>KOG1245|consensus

Probab=95.83  E-value=0.0017  Score=64.64  Aligned_cols=47  Identities=32%  Similarity=0.634  Sum_probs=37.7

Q ss_pred             CCCCccCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          2 LCPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         2 ~C~~~~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      +|..+..+. +.+.|+.|+.|...||..|+.+..   ..++.++|+|+.|+
T Consensus      1110 ~c~~cr~k~-~~~~m~lc~~c~~~~h~~C~rp~~---~~~~~~dW~C~~c~ 1156 (1404)
T KOG1245|consen 1110 LCKVCRRKK-QDEKMLLCDECLSGFHLFCLRPAL---SSVPPGDWMCPSCR 1156 (1404)
T ss_pred             hhhhhhhcc-cchhhhhhHhhhhhHHHHhhhhhh---ccCCcCCccCCccc
Confidence            355544444 558999999999999999997644   56789999999997

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=94.67  E-value=0.02  Score=35.88  Aligned_cols=31  Identities=32%  Similarity=0.791  Sum_probs=27.6

Q ss_pred             CCCCccCCCCCCCCceecCCCCCCCCCCCCC
Q psy11251          2 LCPTQAEKSGQPEDLVSCSDCGRSGHPTCLQ   32 (190)
Q Consensus         2 ~C~~~~~~~g~~~~ll~C~~C~~~~H~~Cl~   32 (190)
                      .|..+.....++++++.|..|+..||..|-.
T Consensus         7 ~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~   37 (54)
T PF14446_consen    7 KCPVCGKKFKDGDDIVVCPECGAPYHRDCWE   37 (54)
T ss_pred             cChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence            4777788888899999999999999999974

>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain

Probab=94.65  E-value=0.016  Score=44.60  Aligned_cols=50  Identities=28%  Similarity=0.769  Sum_probs=34.0

Q ss_pred             CCCcC---CCCCCCCCccccCccCCcccCCCCCCCC------CCCCCCC--ccCccccccc
Q psy11251         53 CCSVC---GTSDNDDQLLFCDDCDRGYHMYCLVPPI------QTPPEGS--WSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C---~~~~~~~~ll~C~~C~~~~H~~Cl~p~l------~~~p~~~--W~C~~C~~~~  102 (190)
                      +|.+|   +...+-|.||.|.+|..+||..||++-.      +.+-.+.  -.|..|....
T Consensus         1 ~C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig~~   61 (175)
T PF15446_consen    1 TCDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIGIA   61 (175)
T ss_pred             CcccccCCCCCccCCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhcChh
Confidence            35666   4444568999999999999999999843      2233332  3577776543

>KOG1473|consensus

Probab=94.64  E-value=0.018  Score=55.68  Aligned_cols=45  Identities=31%  Similarity=0.837  Sum_probs=41.3

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLK  100 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~  100 (190)
                      .|.+|.   +.+.+++|..|++.||+.|+.||+.+.|+..|.|--|..
T Consensus       346 hcrf~~---d~~~~lc~Et~prvvhlEcv~hP~~~~~s~~~e~evc~~  390 (1414)
T KOG1473|consen  346 HCRFCH---DLGDLLCCETCPRVVHLECVFHPRFAVPSAFWECEVCNI  390 (1414)
T ss_pred             cccccC---cccceeecccCCceEEeeecCCccccCCCccchhhhhhh
Confidence            677888   588999999999999999999999999999999999874

>PF09325 Vps5: Vps5 C terminal like; InterPro: IPR015404 Vps5 is a sorting nexin that functions in membrane trafficking

Probab=94.23  E-value=0.021  Score=45.89  Aligned_cols=63  Identities=32%  Similarity=0.519  Sum_probs=54.9

Q ss_pred             hHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcC
Q psy11251        121 AETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTK  183 (190)
Q Consensus       121 se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~  183 (190)
                      ++.+++...+....+..+..++.+.+.+|.+..+|.+..|.+|.+.+..|+++++.|++.+..
T Consensus        88 ~~~~~~~~~~~~~~a~~~~~~l~~~L~ey~~~~~svk~~l~~R~~~~~~~~~a~~~l~kkk~~  150 (236)
T PF09325_consen   88 AEAFEKISELLEEQANQEEETLGEPLREYLRYIESVKEALNRRDKKLIEYQNAEKELQKKKAQ  150 (236)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344556666777778888899999999999999999999999999999999999999998764

This is the C-terminal dimerisation domain [].

>KOG1246|consensus

Probab=94.17  E-value=0.15  Score=49.29  Aligned_cols=49  Identities=41%  Similarity=1.168  Sum_probs=42.1

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      .|..|.+.... .++.|+.|...||.+|..|+++.++++.|.|+.|....
T Consensus       157 ~~~~~~k~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (904)
T KOG1246|consen  157 QCNTCSKGKEE-KLLLCDSCDDSYHTYCLRPPLTRVPDGDWRCPKCIPTP  205 (904)
T ss_pred             hhhccccCCCc-cceecccccCcccccccCCCCCcCCcCcccCCcccccc
Confidence            67778776555 44499999999999999999999999999999998763

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=93.67  E-value=0.027  Score=35.28  Aligned_cols=31  Identities=32%  Similarity=0.838  Sum_probs=26.7

Q ss_pred             CCCcCCCCCC-CCCccccCccCCcccCCCCCC
Q psy11251         53 CCSVCGTSDN-DDQLLFCDDCDRGYHMYCLVP   83 (190)
Q Consensus        53 ~C~~C~~~~~-~~~ll~C~~C~~~~H~~Cl~p   83 (190)
                      .|.+|++.-. ++++|.|..|...||-.|+..
T Consensus         7 ~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    7 KCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             cChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            5888987763 789999999999999999864

>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain

Probab=91.99  E-value=0.099  Score=37.21  Aligned_cols=62  Identities=23%  Similarity=0.504  Sum_probs=41.4

Q ss_pred             CCceecCCCCCCCCCCCCCCCcccc------------cccCCCCcccCCCCCCCcCCCCCCCCCccccCc--cCCcccCC
Q psy11251         14 EDLVSCSDCGRSGHPTCLQFTNNMK------------VSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDD--CDRGYHMY   79 (190)
Q Consensus        14 ~~ll~C~~C~~~~H~~Cl~~~~~~~------------~~~~~~~W~C~~C~~C~~C~~~~~~~~ll~C~~--C~~~~H~~   79 (190)
                      |-|. -..-+.+.|..|.-..+++.            ..++...|.    ..|.+|++.  .|..+.|..  |...||..
T Consensus        11 Galk-~t~~~~WvHv~Cal~~~~~~~~~~~~~~~v~~~~i~~~~~~----~~C~iC~~~--~G~~i~C~~~~C~~~fH~~   83 (110)
T PF13832_consen   11 GALK-RTSDGQWVHVLCALWIPEVIFNNGESMEPVDISNIPPSRFK----LKCSICGKS--GGACIKCSHPGCSTAFHPT   83 (110)
T ss_pred             Cccc-CccCCcEEEeEccceeCccEEeechhcCcccceeecchhcC----CcCcCCCCC--CceeEEcCCCCCCcCCCHH
Confidence            3344 34458999999986443321            122222222    378888875  678999987  99999999


Q ss_pred             CCC
Q psy11251         80 CLV   82 (190)
Q Consensus        80 Cl~   82 (190)
                      |..
T Consensus        84 CA~   86 (110)
T PF13832_consen   84 CAR   86 (110)
T ss_pred             HHH
Confidence            975

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=90.41  E-value=0.15  Score=40.57  Aligned_cols=47  Identities=28%  Similarity=0.763  Sum_probs=35.4

Q ss_pred             ccCCCC----CCCcCCCCC-----CCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         47 QCIECK----CCSVCGTSD-----NDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        47 ~C~~C~----~C~~C~~~~-----~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      .|+-|.    +|++|+..+     +.+....|..|...||..|...         =.||.|....
T Consensus       144 ~C~lC~~kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~---------~~CpkC~R~~  199 (202)
T PF13901_consen  144 SCELCQQKGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK---------KSCPKCARRQ  199 (202)
T ss_pred             HhHHHHhCCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC---------CCCCCcHhHh
Confidence            466665    899998653     2346789999999999999982         1399997653

>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A

Probab=88.20  E-value=0.13  Score=33.93  Aligned_cols=38  Identities=24%  Similarity=0.295  Sum_probs=14.8

Q ss_pred             CceecC--CCCCCCCCCCCCCCccccccc----CCCCcccCCCC
Q psy11251         15 DLVSCS--DCGRSGHPTCLQFTNNMKVSV----KQYRWQCIECK   52 (190)
Q Consensus        15 ~ll~C~--~C~~~~H~~Cl~~~~~~~~~~----~~~~W~C~~C~   52 (190)
                      ..+.|+  .|+..||..||.-+.......    -.-.+.||.|+
T Consensus        19 p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~   62 (70)
T PF11793_consen   19 PDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCS   62 (70)
T ss_dssp             --B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-
T ss_pred             CceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCC
Confidence            458898  899999999997443221111    12245687774

>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression

Probab=88.14  E-value=0.29  Score=34.92  Aligned_cols=57  Identities=25%  Similarity=0.578  Sum_probs=36.1

Q ss_pred             CCCCccCCCCCCCCceec------CCC---CCCCCCCCCCCC--cccccccCCCCcccCCCC---CCCcCCCC
Q psy11251          2 LCPTQAEKSGQPEDLVSC------SDC---GRSGHPTCLQFT--NNMKVSVKQYRWQCIECK---CCSVCGTS   60 (190)
Q Consensus         2 ~C~~~~~~~g~~~~ll~C------~~C---~~~~H~~Cl~~~--~~~~~~~~~~~W~C~~C~---~C~~C~~~   60 (190)
                      +||-+..++-  +..+.|      ..|   ...|=..||...  .++.+......|.||.|+   .|..|.+.
T Consensus         9 ~CHqCrqKt~--~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiCnCs~Crrk   79 (105)
T PF10497_consen    9 TCHQCRQKTL--DFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGICNCSFCRRK   79 (105)
T ss_pred             CchhhcCCCC--CCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCeeCCHhhhcc
Confidence            4555555552  344556      566   888888887632  223344457799999998   67777654

This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].

>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines

Probab=88.11  E-value=0.11  Score=28.37  Aligned_cols=28  Identities=29%  Similarity=0.759  Sum_probs=11.9

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCC
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYC   80 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~C   80 (190)
                      .|.+|++...++..-.|..|+-..|..|
T Consensus         2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~C   29 (30)
T PF07649_consen    2 RCDACGKPIDGGWFYRCSECDFDLHEEC   29 (30)
T ss_dssp             --TTTS----S--EEE-TTT-----HHH
T ss_pred             cCCcCCCcCCCCceEECccCCCccChhc
Confidence            5788998766667888999999999876

The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.

>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins

Probab=84.82  E-value=0.38  Score=37.73  Aligned_cols=60  Identities=25%  Similarity=0.341  Sum_probs=49.8

Q ss_pred             HHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhc
Q psy11251        123 TLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERART  182 (190)
Q Consensus       123 ~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~  182 (190)
                      .+.....+....+..++.++.+.+.+|.+...+.+.++.+|.+.+.+|+++.+.|.+.+.
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~e~L~~y~~~~~s~k~~l~~R~~~~~~~~~~~~~l~~k~~  131 (218)
T cd07596          72 AAEELSSLSEAQANQELVKLLEPLKEYLRYCQAVKETLDDRADALLTLQSLKKDLASKKA  131 (218)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445555566666778899999999999999999999999999999999999988764

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.

>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=84.70  E-value=0.53  Score=25.49  Aligned_cols=17  Identities=35%  Similarity=1.181  Sum_probs=10.9

Q ss_pred             CCCcccCCCC--------CCCcCCC
Q psy11251         43 QYRWQCIECK--------CCSVCGT   59 (190)
Q Consensus        43 ~~~W~C~~C~--------~C~~C~~   59 (190)
                      .+.|.|+.|.        .|..|+.
T Consensus         2 ~g~W~C~~C~~~N~~~~~~C~~C~~   26 (30)
T PF00641_consen    2 EGDWKCPSCTFMNPASRSKCVACGA   26 (30)
T ss_dssp             SSSEEETTTTEEEESSSSB-TTT--
T ss_pred             CcCccCCCCcCCchHHhhhhhCcCC
Confidence            5789998886        5666653

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 the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....

>KOG1952|consensus

Probab=81.22  E-value=0.57  Score=44.50  Aligned_cols=40  Identities=23%  Similarity=0.503  Sum_probs=32.1

Q ss_pred             CCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         13 PEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        13 ~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      ...+-.|.+|-..||+.|+.-+....+......|.||.|.
T Consensus       204 t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cq  243 (950)
T KOG1952|consen  204 TAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQ  243 (950)
T ss_pred             cCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCccc
Confidence            3567789999999999999877655454445789999997

>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []

Probab=80.57  E-value=1.2  Score=39.47  Aligned_cols=56  Identities=23%  Similarity=0.612  Sum_probs=40.3

Q ss_pred             CcccCCCCCCCcCCCCCCC---CCccccCccCCcccCCCCCCC--------CCC---CCCCCccCcccccc
Q psy11251         45 RWQCIECKCCSVCGTSDND---DQLLFCDDCDRGYHMYCLVPP--------IQT---PPEGSWSCQLCLKE  101 (190)
Q Consensus        45 ~W~C~~C~~C~~C~~~~~~---~~ll~C~~C~~~~H~~Cl~p~--------l~~---~p~~~W~C~~C~~~  101 (190)
                      +=||..| .|.+|.+.+..   -.-|.||.|+-+-|+.|-.-.        ...   ..++.++|..|-..
T Consensus       123 ~gFC~~C-~C~iC~kfD~~~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~  192 (446)
T PF07227_consen  123 PGFCRRC-MCCICSKFDDNKNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKT  192 (446)
T ss_pred             CCccccC-CccccCCcccCCCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCCh
Confidence            4589999 89999987532   344889999999999996431        111   12358999999754

Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	190
2kwj_A	114	Solution Structures Of The Double Phd Fingers Of Hu		1e-40
3v43_A	112	Crystal Structure Of Moz Length = 112		1e-25
2ln0_A	110	Structure Of Moz Length = 110		1e-25
2ysm_A	111	Solution Structure Of The First And Second Phd Doma		4e-12
2e6r_A	92	Solution Structure Of The Phd Domain In Smcy Protei		6e-10
1f62_A	51	Wstf-Phd Length = 51		4e-07
2puy_A	60	Crystal Structure Of The Bhc80 Phd Finger Length =		1e-06
3ask_A	226	Structure Of Uhrf1 In Complex With Histone Tail Len		2e-06
4gy5_A	241	Crystal Structure Of The Tandem Tudor Domain And Pl		3e-06
1xwh_A	66	Nmr Structure Of The First Phd Finger Of Autoimmune		5e-06
2l5u_A	61	Structure Of The First Phd Finger (Phd1) From Chd4		8e-06
2yql_A	56	Solution Structure Of The Phd Domain In Phd Finger		9e-06
2kft_A	56	Nmr Solution Structure Of The First Phd Finger Doma		1e-05
3zvy_A	72	Phd Finger Of Human Uhrf1 In Complex With Unmodifie		2e-05
3zvz_B	57	Phd Finger Of Human Uhrf1 Length = 57		2e-05
3sou_A	70	Structure Of Uhrf1 Phd Finger In Complex With Histo		2e-05
3t6r_A	72	Structure Of Uhrf1 In Complex With Unmodified H3 N-		2e-05
2lgg_A	69	Structure Of Phd Domain Of Uhrf1 In Complex With H3		2e-05
3shb_A	77	Crystal Structure Of Phd Domain Of Uhrf1 Length = 7		2e-05
2e6s_A	77	Solution Structure Of The Phd Domain In Ring Finger		1e-04
2l43_A	88	Structural Basis For Histone Code Recognition By Br		4e-04
2ku3_A	71	Solution Structure Of Brd1 Phd1 Finger Length = 71		8e-04

>pdb|2KWJ|A Chain A, Solution Structures Of The Double Phd Fingers Of Human Transcriptional Protein Dpf3 Bound To A Histone Peptide Containing Acetylation At Lysine 14 Length = 114

Iteration: 1
 Score =  162 bits (410), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 73/98 (74%), Positives = 83/98 (84%)
Query: 8   EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
           +KSG+PE+LVSC+DCGRSGHPTCLQFT NM  +VK Y+WQCIECK C +CGTS+NDDQLL
Sbjct: 15  KKSGRPEELVSCADCGRSGHPTCLQFTLNMTEAVKTYKWQCIECKSCILCGTSENDDQLL 74
Query: 68  FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
           FCDDCDRGYHMYCL PP+  PPEGSWSC LC +    K
Sbjct: 75  FCDDCDRGYHMYCLNPPVAEPPEGSWSCHLCWELLKEK 112

>pdb|3V43|A Chain A, Crystal Structure Of Moz Length = 112

Iteration: 1
 Score =  112 bits (280), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 50/94 (53%), Positives = 65/94 (69%), Gaps = 1/94 (1%)
Query: 6   QAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVC-GTSDNDD 64
           +  +  +PE+L+SC+DCG SGHP+CL+F+  + V VK  RWQCIECK CS C     N D
Sbjct: 16  EQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIECKTCSSCRDQGKNAD 75
Query: 65  QLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
            +LFCD CDRG+HM C  PP+   P+G W CQ+C
Sbjct: 76  NMLFCDSCDRGFHMECCDPPLTRMPKGMWICQIC 109

>pdb|2LN0|A Chain A, Structure Of Moz Length = 110

Iteration: 1
 Score =  112 bits (280), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 50/94 (53%), Positives = 65/94 (69%), Gaps = 1/94 (1%)
Query: 6   QAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVC-GTSDNDD 64
           +  +  +PE+L+SC+DCG SGHP+CL+F+  + V VK  RWQCIECK CS C     N D
Sbjct: 14  EQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIECKTCSSCRDQGKNAD 73
Query: 65  QLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
            +LFCD CDRG+HM C  PP+   P+G W CQ+C
Sbjct: 74  NMLFCDSCDRGFHMECCDPPLTRMPKGMWICQIC 107

>pdb|2YSM|A Chain A, Solution Structure Of The First And Second Phd Domain From MyeloidLYMPHOID OR MIXED-Lineage Leukemia Protein 3 Homolog Length = 111

Iteration: 1
 Score = 67.4 bits (163), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 35/89 (39%), Positives = 48/89 (53%), Gaps = 6/89 (6%)
Query: 13  PEDLVS---CSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFC 69
           P DL+    C+ CG+  H  CL         +K+  WQC ECK C  C  S  D ++L C
Sbjct: 16  PGDLLDQFFCTTCGQHYHGMCLDIA---VTPLKRAGWQCPECKVCQNCKQSGEDSKMLVC 72
Query: 70  DDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
           D CD+GYH +CL P +++ P   W C+ C
Sbjct: 73  DTCDKGYHTFCLQPVMKSVPTNGWKCKNC 101

>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein Length = 92

Iteration: 1
 Score = 60.5 bits (145), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 26/53 (49%), Positives = 33/53 (62%)
Query: 47 QCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCL 99
          Q I+   C VC   D DD+LLFCD CD  YH++CL+PP+   P G W C  C+
Sbjct: 12 QFIDSYICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCI 64

>pdb|1F62|A Chain A, Wstf-Phd Length = 51

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 28/45 (62%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
          C VC     DD+L+ CD+C++ +H++CL P +   P+G W C  C
Sbjct: 3  CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPAC 47

>pdb|2PUY|A Chain A, Crystal Structure Of The Bhc80 Phd Finger Length = 60

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 26/54 (48%), Positives = 32/54 (59%), Gaps = 3/54 (5%)
Query: 54  CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRKIE 107
           CSVC  S    QLL CD C R YH+ CL PP++T P+G W C  C  +  +K E
Sbjct: 8   CSVCRKSG---QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQMLKKEE 58

>pdb|3ASK|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail Length = 226

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 54  CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
           C +CG   + D+ L CD+CD  +H+YCL PP+ + P E  W C  C
Sbjct: 177 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 222

>pdb|4GY5|A Chain A, Crystal Structure Of The Tandem Tudor Domain And Plant Homeodomain Of Uhrf1 With Histone H3k9me3 Length = 241

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 54  CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
           C +CG   + D+ L CD+CD  +H+YCL PP+ + P E  W C  C
Sbjct: 193 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 238

>pdb|1XWH|A Chain A, Nmr Structure Of The First Phd Finger Of Autoimmune Regulator Protein (Aire1): Insights Into Apeced Length = 66

Iteration: 1
 Score = 47.4 bits (111), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 17/51 (33%), Positives = 30/51 (58%)
Query: 57  CGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRKIE 107
           C    +  +L+ CD C R +H+ CL PP++  P G+W C  CL+   ++++
Sbjct: 11  CAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQATVQEVQ 61

>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b) Length = 61

Iteration: 1
 Score = 46.6 bits (109), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 22/48 (45%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 54  CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE 101
           C VC       +++ CD C R YHM CL P ++  PEG WSC  C KE
Sbjct: 14  CEVC---QQGGEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE 58

>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein 21a Length = 56

Iteration: 1
 Score = 46.6 bits (109), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 24/45 (53%), Positives = 28/45 (62%), Gaps = 3/45 (6%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
          CSVC  S    QLL CD C R YH+ CL PP++T P+G W C  C
Sbjct: 12 CSVCRKSG---QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 53

>pdb|2KFT|A Chain A, Nmr Solution Structure Of The First Phd Finger Domain Of Human Autoimmune Regulator (Aire) In Complex With Histone H3(1-20cys) Peptide Length = 56

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 17/44 (38%), Positives = 26/44 (59%)
Query: 57  CGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLK 100
           C    +  +L+ CD C R +H+ CL PP++  P G+W C  CL+
Sbjct: 8   CAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQ 51

>pdb|3ZVY|A Chain A, Phd Finger Of Human Uhrf1 In Complex With Unmodified Histone H3 N-Terminal Tail Length = 72

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
          C +CG   + D+ L CD+CD  +H+YCL PP+ + P E  W C  C
Sbjct: 23 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 68

>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1 Length = 57

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
          C +CG   + D+ L CD+CD  +H+YCL PP+ + P E  W C  C
Sbjct: 8  CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 53

>pdb|3SOU|A Chain A, Structure Of Uhrf1 Phd Finger In Complex With Histone H3 1-9 Peptide Length = 70

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
          C +CG   + D+ L CD+CD  +H+YCL PP+ + P E  W C  C
Sbjct: 21 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66

>pdb|3T6R|A Chain A, Structure Of Uhrf1 In Complex With Unmodified H3 N-Terminal Tail Length = 72

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
          C +CG   + D+ L CD+CD  +H+YCL PP+ + P E  W C  C
Sbjct: 26 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 71

>pdb|2LGG|A Chain A, Structure Of Phd Domain Of Uhrf1 In Complex With H3 Peptide Length = 69

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
          C +CG   + D+ L CD+CD  +H+YCL PP+ + P E  W C  C
Sbjct: 21 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66

>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1 Length = 77

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
          C +CG   + D+ L CD+CD  +H+YCL PP+ + P E  W C  C
Sbjct: 29 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 74

>pdb|2E6S|A Chain A, Solution Structure Of The Phd Domain In Ring Finger Protein 107 Length = 77

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPI-QTPPEGSWSCQLC 98
          C VCG     +  L CD+C+  YH+YCL PP+ + P E  W C  C
Sbjct: 29 CRVCGGKHEPNMQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSC 74

>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By Brpf2-Phd1 Finger Length = 88

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 24/54 (44%), Positives = 30/54 (55%), Gaps = 6/54 (11%)
Query: 54  CSVC--GTSDNDDQLLFCDDCDRGYHMYCL-VPPIQTPPEGSWSCQLCLKEFHR 104
           CS+C  G S N + +LFCD C+   H  C  VP I   PEG W C+ CL+   R
Sbjct: 28  CSICMDGESQNSNVILFCDMCNLAVHQECYGVPYI---PEGQWLCRHCLQSRAR 78

>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger Length = 71

Iteration: 1
 Score = 40.0 bits (92), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 24/54 (44%), Positives = 30/54 (55%), Gaps = 6/54 (11%)
Query: 54  CSVC--GTSDNDDQLLFCDDCDRGYHMYCL-VPPIQTPPEGSWSCQLCLKEFHR 104
           CS+C  G S N + +LFCD C+   H  C  VP I   PEG W C+ CL+   R
Sbjct: 19  CSICMDGESQNSNVILFCDMCNLAVHQECYGVPYI---PEGQWLCRHCLQSRAR 69

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	190
2kwj_A	114	Zinc finger protein DPF3; acetyl-lysine, transcrip	3e-34
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	4e-30
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	7e-06
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	1e-27
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	1e-11
3ask_A	226	E3 ubiquitin-protein ligase UHRF1; histone reader	3e-25
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	8e-23
3shb_A	77	E3 ubiquitin-protein ligase UHRF1; unmodified hist	1e-21
3asl_A	70	E3 ubiquitin-protein ligase UHRF1; histone reader	3e-18
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	3e-18
2e6s_A	77	E3 ubiquitin-protein ligase UHRF2; PHD domain, str	9e-18
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	6e-17
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	8e-15
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	2e-14
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	2e-14
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	9e-14
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	2e-13
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	2e-13
2yt5_A	66	Metal-response element-binding transcription facto	1e-12
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	2e-12
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	1e-11
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	1e-10
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	1e-10
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	5e-07
4akv_A	386	Sorting nexin-33; transport protein, organelle bio	6e-07
3dyt_A	366	Sorting nexin-9; 3-helix bundle, BAR domain, PX do	1e-06
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	1e-06
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	3e-05
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	4e-05
3pur_A	528	Lysine-specific demethylase 7 homolog; oxidoreduct	2e-04
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	4e-04

>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

 Score =  116 bits (291), Expect = 3e-34
 Identities = 73/103 (70%), Positives = 83/103 (80%)

Query: 3   CPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDN 62
                +KSG+PE+LVSC+DCGRSGHPTCLQFT NM  +VK Y+WQCIECK C +CGTS+N
Sbjct: 10  GSNMNKKSGRPEELVSCADCGRSGHPTCLQFTLNMTEAVKTYKWQCIECKSCILCGTSEN 69

Query: 63  DDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
           DDQLLFCDDCDRGYHMYCL PP+  PPEGSWSC LC +    K
Sbjct: 70  DDQLLFCDDCDRGYHMYCLNPPVAEPPEGSWSCHLCWELLKEK 112

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

 Score =  105 bits (264), Expect = 4e-30
 Identities = 51/98 (52%), Positives = 66/98 (67%), Gaps = 1/98 (1%)

Query: 2   LCPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCG-TS 60
           L   +  +  +PE+L+SC+DCG SGHP+CL+F+  + V VK  RWQCIECK CS C    
Sbjct: 12  LGTKEQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIECKTCSSCRDQG 71

Query: 61  DNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
            N D +LFCD CDRG+HM C  PP+   P+G W CQ+C
Sbjct: 72  KNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQIC 109

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

 Score = 42.4 bits (99), Expect = 7e-06
 Identities = 12/54 (22%), Positives = 16/54 (29%), Gaps = 3/54 (5%)

Query: 48 CIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQ---TPPEGSWSCQLC 98
          C  C            ++L+ C DC    H  CL    +         W C  C
Sbjct: 8  CSFCLGTKEQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIEC 61

>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

 Score = 99.3 bits (247), Expect = 1e-27
 Identities = 34/93 (36%), Positives = 47/93 (50%), Gaps = 3/93 (3%)

Query: 8   EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
           +  G   D   C+ CG+  H  CL         +K+  WQC ECK C  C  S  D ++L
Sbjct: 14  DSPGDLLDQFFCTTCGQHYHGMCLDIAVTP---LKRAGWQCPECKVCQNCKQSGEDSKML 70

Query: 68  FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLK 100
            CD CD+GYH +CL P +++ P   W C+ C  
Sbjct: 71  VCDTCDKGYHTFCLQPVMKSVPTNGWKCKNCRI 103

>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

 Score = 57.7 bits (139), Expect = 1e-11
 Identities = 12/50 (24%), Positives = 17/50 (34%)

Query: 46 WQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSC 95
                  C+VC +  +     FC  C + YH  CL   +       W C
Sbjct: 2  SSGSSGANCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVTPLKRAGWQC 51

>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} Length = 226

 Score = 96.7 bits (240), Expect = 3e-25
 Identities = 28/95 (29%), Positives = 43/95 (45%), Gaps = 10/95 (10%)

Query: 8   EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
           E+ G+   +V      R   P+C    ++           C  C C  +CG   + D+ L
Sbjct: 140 ERPGEGSPMVDNPMR-RKSGPSCKHCKDD-------VNRLCRVCACH-LCGGRQDPDKQL 190

Query: 68  FCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLCLKE 101
            CD+CD  +H+YCL PP+ + P E  W C  C  +
Sbjct: 191 MCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRND 225

>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 92

 Score = 86.5 bits (214), Expect = 8e-23
 Identities = 27/60 (45%), Positives = 34/60 (56%)

Query: 40 SVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCL 99
          S      Q I+   C VC   D DD+LLFCD CD  YH++CL+PP+   P G W C  C+
Sbjct: 5  SSGHSSAQFIDSYICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCI 64

>3shb_A E3 ubiquitin-protein ligase UHRF1; unmodified histone, methylation, UHRF1, PHD, ligase-NUCL protein complex; 1.80A {Homo sapiens} Length = 77

 Score = 83.0 bits (205), Expect = 1e-21
 Identities = 24/84 (28%), Positives = 36/84 (42%), Gaps = 9/84 (10%)

Query: 19  CSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHM 78
                    P+C    ++           C  C C  +CG   + D+ L CD+CD  +H+
Sbjct: 2   PLGSPEFSGPSCKHCKDD-------VNRLCRVCACH-LCGGRQDPDKQLMCDECDMAFHI 53

Query: 79  YCLVPPIQT-PPEGSWSCQLCLKE 101
           YCL PP+ + P E  W C  C  +
Sbjct: 54  YCLDPPLSSVPSEDEWYCPECRND 77

>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 Length = 70

 Score = 74.1 bits (182), Expect = 3e-18
 Identities = 24/76 (31%), Positives = 36/76 (47%), Gaps = 9/76 (11%)

Query: 27  HPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQ 86
            P+C    ++           C  C C  +CG   + D+ L CD+CD  +H+YCL PP+ 
Sbjct: 2   GPSCKHCKDD-------VNRLCRVCACH-LCGGRQDPDKQLMCDECDMAFHIYCLDPPLS 53

Query: 87  T-PPEGSWSCQLCLKE 101
           + P E  W C  C  +
Sbjct: 54  SVPSEDEWYCPECRND 69

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2 Length = 51

 Score = 73.5 bits (181), Expect = 3e-18
 Identities = 18/46 (39%), Positives = 28/46 (60%)

Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCL 99
          C VC     DD+L+ CD+C++ +H++CL P +   P+G W C  C 
Sbjct: 3  CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQ 48

>2e6s_A E3 ubiquitin-protein ligase UHRF2; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 77

 Score = 72.9 bits (179), Expect = 9e-18
 Identities = 22/58 (37%), Positives = 29/58 (50%), Gaps = 2/58 (3%)

Query: 45  RWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGS-WSCQLCLKE 101
             +C  C C  VCG     +  L CD+C+  YH+YCL PP+   PE   W C  C  +
Sbjct: 21  EKKCHSCSC-RVCGGKHEPNMQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSCKTD 77

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens} Length = 60

 Score = 70.5 bits (173), Expect = 6e-17
 Identities = 26/61 (42%), Positives = 32/61 (52%), Gaps = 3/61 (4%)

Query: 47  QCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRKI 106
             I    CSVC       QLL CD C R YH+ CL PP++T P+G W C  C  +  +K 
Sbjct: 1   HMIHEDFCSVCR---KSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQMLKKE 57

Query: 107 E 107
           E
Sbjct: 58  E 58

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens} Length = 61

 Score = 64.7 bits (158), Expect = 8e-15
 Identities = 22/57 (38%), Positives = 29/57 (50%), Gaps = 3/57 (5%)

Query: 45  RWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE 101
            ++      C VC       +++ CD C R YHM CL P ++  PEG WSC  C KE
Sbjct: 5   SYETDHQDYCEVCQ---QGGEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE 58

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 56

 Score = 63.9 bits (156), Expect = 2e-14
 Identities = 23/48 (47%), Positives = 28/48 (58%), Gaps = 3/48 (6%)

Query: 54  CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE 101
           CSVC       QLL CD C R YH+ CL PP++T P+G W C  C  +
Sbjct: 12  CSVCR---KSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQ 56

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2 Length = 88

 Score = 64.6 bits (157), Expect = 2e-14
 Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 3/59 (5%)

Query: 40 SVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
           + ++         C VC        L+ C+ C+  +H+ C +P +Q  P   WSC LC
Sbjct: 14 IIDEFGTLDDSATICRVCQ---KPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 69

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A Length = 66

 Score = 62.1 bits (151), Expect = 9e-14
 Identities = 19/54 (35%), Positives = 33/54 (61%), Gaps = 3/54 (5%)

Query: 54  CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRKIE 107
           C+VC    +  +L+ CD C R +H+ CL PP++  P G+W C  CL+   ++++
Sbjct: 11  CAVCR---DGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQATVQEVQ 61

>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 Length = 61

 Score = 61.2 bits (149), Expect = 2e-13
 Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 3/48 (6%)

Query: 51 CKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
           + C VC    +  +LL CD C   YH++CL PP+   P G W C  C
Sbjct: 9  MEFCRVCK---DGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRC 53

>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 Length = 88

 Score = 62.0 bits (150), Expect = 2e-13
 Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 6/70 (8%)

Query: 54  CSVC--GTSDNDDQLLFCDDCDRGYHMYCLVPPIQTP----PEGSWSCQLCLKEFHRKIE 107
           C VC   T  + +QL+ C +C   YH  C  P +       P   W C  C ++  R  +
Sbjct: 19  CVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMKRMAQ 78

Query: 108 QGRTVLKIGG 117
           + +      G
Sbjct: 79  KNQKSGPSSG 88

>2yt5_A Metal-response element-binding transcription factor 2; zinc-regulated factor 1, ZIRF1, metal-response element DNA-binding protein M96; NMR {Mus musculus} Length = 66

 Score = 59.5 bits (144), Expect = 1e-12
 Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 5/57 (8%)

Query: 54  CSVC--GTSDNDDQLLFCDDCDRGYHMYCLVPPIQT---PPEGSWSCQLCLKEFHRK 105
           C++C    S+  ++++ CD C +GYH  C  P I +     +  W C+ C+     K
Sbjct: 9   CTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFATTTK 65

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens} Length = 71

 Score = 59.1 bits (143), Expect = 2e-12
 Identities = 23/57 (40%), Positives = 29/57 (50%), Gaps = 4/57 (7%)

Query: 50  ECKCCSVC--GTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHR 104
           E   CS+C  G S N + +LFCD C+   H  C   P    PEG W C+ CL+   R
Sbjct: 15  EDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVP--YIPEGQWLCRHCLQSRAR 69

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens} Length = 189

 Score = 59.9 bits (144), Expect = 1e-11
 Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 3/54 (5%)

Query: 51  CKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHR 104
              C VC        L+ C+ C+  +H+ C +P +Q  P   WSC LC      
Sbjct: 2   ATICRVCQ---KPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPDL 52

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens} Length = 88

 Score = 55.0 bits (132), Expect = 1e-10
 Identities = 23/58 (39%), Positives = 29/58 (50%), Gaps = 4/58 (6%)

Query: 50  ECKCCSVC--GTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
           E   CS+C  G S N + +LFCD C+   H  C   P    PEG W C+ CL+   R 
Sbjct: 24  EDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVP--YIPEGQWLCRHCLQSRARP 79

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A* Length = 75

 Score = 54.5 bits (131), Expect = 1e-10
 Identities = 16/56 (28%), Positives = 23/56 (41%)

Query: 53  CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRKIEQ 108
            C  C   D+   ++ CDDCD  YH  C+      P E  W C  C  +  +  + 
Sbjct: 20  ICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIKKDKKH 75

>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 Length = 184

 Score = 46.9 bits (111), Expect = 5e-07
 Identities = 17/52 (32%), Positives = 24/52 (46%), Gaps = 3/52 (5%)

Query: 52  KCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFH 103
             C+VC    N  +LL C+ C + +H+ C VP +   P G W C  C     
Sbjct: 5   DWCAVCQ---NGGELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLSK 53

>4akv_A Sorting nexin-33; transport protein, organelle biogenesis; 2.65A {Homo sapiens} Length = 386

 Score = 47.5 bits (112), Expect = 6e-07
 Identities = 9/70 (12%), Positives = 25/70 (35%)

Query: 121 AETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERA 180
             T E + ++      ++  ++ DTL  Y         +++ +    A  + + R  +  
Sbjct: 259 GRTYEAIGEMFAEQPKNDLFQMLDTLSLYQGLLSNFPDIIHLQKGAFAKVKESQRMSDEG 318

Query: 181 RTKNKDVHAL 190
           R    +   +
Sbjct: 319 RMVQDEADGI 328

>3dyt_A Sorting nexin-9; 3-helix bundle, BAR domain, PX domain, phosphoprotein, protein transport, SH3 domain, transport, transport protein; 2.08A {Homo sapiens} PDB: 3dyu_A 2raj_A 2rai_A 2rak_A* Length = 366

 Score = 46.7 bits (110), Expect = 1e-06
 Identities = 5/70 (7%), Positives = 23/70 (32%)

Query: 121 AETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERA 180
            +T E++  +       +   L +    Y         ++      +   + +++ +  +
Sbjct: 239 GKTYEEIASLVAEQPKKDLHFLMECNHEYKGFLGCFPDIIGTHKGAIEKVKESDKLVATS 298

Query: 181 RTKNKDVHAL 190
           +   +D   +
Sbjct: 299 KITLQDKQNM 308

>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* Length = 174

 Score = 45.6 bits (108), Expect = 1e-06
 Identities = 11/63 (17%), Positives = 16/63 (25%), Gaps = 1/63 (1%)

Query: 53  CCSVCGTSDNDDQLLFCDDCDRGYHMYCL-VPPIQTPPEGSWSCQLCLKEFHRKIEQGRT 111
            C      D     + CD C   YH  C+ +   +      + C  C             
Sbjct: 10  YCICKTPEDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQSTEDAMTVLTPL 69

Query: 112 VLK 114
             K
Sbjct: 70  TEK 72

>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* Length = 207

 Score = 42.2 bits (98), Expect = 3e-05
 Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 3/45 (6%)

Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
          C+VC    N   LL C+ C + +H+ C VP + + P G W C  C
Sbjct: 10 CAVCQ---NGGDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFC 51

>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 Length = 129

 Score = 40.9 bits (95), Expect = 4e-05
 Identities = 16/105 (15%), Positives = 26/105 (24%), Gaps = 18/105 (17%)

Query: 15  DLVSCSDCGRSGHPTCLQ-----------FTNNMKVSVKQYRWQCIECKCCSVCGTSDND 63
            +VSC+ CG+  +                   N                    C      
Sbjct: 7   GIVSCTACGQQVNHFQKDSIYRHPSLQVLICKNCFKYYMSDDISRDSDGMDEQCRWCAEG 66

Query: 64  DQLLFCDDCDRGYHMYCLVPPIQTP-------PEGSWSCQLCLKE 101
             L+ CD C   +   C++  +              W C +C  E
Sbjct: 67  GNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHPE 111

>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* Length = 528

 Score = 40.5 bits (93), Expect = 2e-04
 Identities = 17/94 (18%), Positives = 27/94 (28%), Gaps = 5/94 (5%)

Query: 12  QPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDD 71
            P++   C  CG+  H              K+   +              ND Q + CD 
Sbjct: 8   TPKESDRCGGCGKFTHED----DLIALEEEKKKEKEKPLMSKKKSHHHKKNDFQWIGCDS 63

Query: 72  CDRGYHMYCL-VPPIQTPPEGSWSCQLCLKEFHR 104
           C   YH  C  +   +      + C  C+     
Sbjct: 64  CQTWYHFLCSGLEQFEYYLYEKFFCPKCVPHTGH 97

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A Length = 142

 Score = 38.3 bits (88), Expect = 4e-04
 Identities = 17/109 (15%), Positives = 30/109 (27%), Gaps = 30/109 (27%)

Query: 14  EDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKC-----------------CSV 56
             +VSC+ CG+  +       +++          C  C                   C  
Sbjct: 12  HGIVSCTACGQQVNHFQK---DSIYRHPSLQVLICKNCFKYYMSDDISRDSDGMDEQCRW 68

Query: 57  CGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTP-------PEGSWSCQLC 98
           C        L+ CD C   +   C++  +              W C +C
Sbjct: 69  CA---EGGNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYIC 114

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	190
2kwj_A	114	Zinc finger protein DPF3; acetyl-lysine, transcrip	99.96
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	99.95
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	99.93
3asl_A	70	E3 ubiquitin-protein ligase UHRF1; histone reader	99.73
2e6s_A	77	E3 ubiquitin-protein ligase UHRF2; PHD domain, str	99.72
3shb_A	77	E3 ubiquitin-protein ligase UHRF1; unmodified hist	99.71
4gne_A	107	Histone-lysine N-methyltransferase NSD3; zinc fing	99.65
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	99.6
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	99.56
3ask_A	226	E3 ubiquitin-protein ligase UHRF1; histone reader	99.55
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	99.54
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	99.51
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	99.46
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	99.46
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	99.46
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	99.45
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	99.45
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	99.45
2yt5_A	66	Metal-response element-binding transcription facto	99.38
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	99.33
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	99.33
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	99.32
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	99.3
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	99.23
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	99.22
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	99.1
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	99.1
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	99.1
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	99.1
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	99.05
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	99.0
1wen_A	71	Inhibitor of growth family, member 4; ING1-like pr	98.99
2e6s_A	77	E3 ubiquitin-protein ligase UHRF2; PHD domain, str	98.98
4gne_A	107	Histone-lysine N-methyltransferase NSD3; zinc fing	98.97
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	98.97
3asl_A	70	E3 ubiquitin-protein ligase UHRF1; histone reader	98.97
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	98.97
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	98.97
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	98.96
1weu_A	91	Inhibitor of growth family, member 4; structural g	98.91
2vnf_A	60	ING 4, P29ING4, inhibitor of growth protein 4; ace	98.9
2jmi_A	90	Protein YNG1, ING1 homolog 1; PHD, histone, recogn	98.9
3c6w_A	59	P28ING5, inhibitor of growth protein 5; chromatin,	98.89
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	98.88
3shb_A	77	E3 ubiquitin-protein ligase UHRF1; unmodified hist	98.86
2yt5_A	66	Metal-response element-binding transcription facto	98.84
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	98.82
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	98.82
2g6q_A	62	Inhibitor of growth protein 2; protein-peptide com	98.81
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	98.81
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	98.81
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	98.79
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	98.78
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	98.77
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	98.72
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	98.68
2kwj_A	114	Zinc finger protein DPF3; acetyl-lysine, transcrip	98.67
3o70_A	68	PHD finger protein 13; PHF13, structural genomics	98.67
1x4i_A	70	Inhibitor of growth protein 3; structural genomics	98.65
1wen_A	71	Inhibitor of growth family, member 4; ING1-like pr	98.59
1we9_A	64	PHD finger family protein; structural genomics, PH	98.58
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	98.56
1weu_A	91	Inhibitor of growth family, member 4; structural g	98.56
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	98.51
1wee_A	72	PHD finger family protein; structural genomics, PH	98.49
3c6w_A	59	P28ING5, inhibitor of growth protein 5; chromatin,	98.47
2xb1_A	105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	98.46
3o7a_A	52	PHD finger protein 13 variant; PHF13, zinc finger,	98.45
2vnf_A	60	ING 4, P29ING4, inhibitor of growth protein 4; ace	98.44
2g6q_A	62	Inhibitor of growth protein 2; protein-peptide com	98.43
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	98.41
2jmi_A	90	Protein YNG1, ING1 homolog 1; PHD, histone, recogn	98.37
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	98.37
2rsd_A	68	E3 SUMO-protein ligase SIZ1; E3 SUMO ligase, plant	98.36
1wew_A	78	DNA-binding family protein; structural genomics, P	98.36
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	98.33
2xb1_A	105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	98.31
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	98.3
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	98.3
1wem_A	76	Death associated transcription factor 1; structura	98.29
1we9_A	64	PHD finger family protein; structural genomics, PH	98.29
4bbq_A	117	Lysine-specific demethylase 2A; oxidoreductase, ub	98.27
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	98.26
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	98.18
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	98.14
3o7a_A	52	PHD finger protein 13 variant; PHF13, zinc finger,	98.12
1x4i_A	70	Inhibitor of growth protein 3; structural genomics	98.12
3o70_A	68	PHD finger protein 13; PHF13, structural genomics	98.07
1wee_A	72	PHD finger family protein; structural genomics, PH	98.05
3kqi_A	75	GRC5, PHD finger protein 2; metal-binding, zinc-fi	98.02
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	97.97
1wem_A	76	Death associated transcription factor 1; structura	97.95
2rsd_A	68	E3 SUMO-protein ligase SIZ1; E3 SUMO ligase, plant	97.94
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	97.8
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	97.74
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	97.69
1wew_A	78	DNA-binding family protein; structural genomics, P	97.65
3kqi_A	75	GRC5, PHD finger protein 2; metal-binding, zinc-fi	97.64
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	97.47
3pur_A	528	Lysine-specific demethylase 7 homolog; oxidoreduct	97.32
3kv5_D	488	JMJC domain-containing histone demethylation prote	97.22
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	96.87
4bbq_A	117	Lysine-specific demethylase 2A; oxidoreductase, ub	96.82
3pur_A	528	Lysine-specific demethylase 7 homolog; oxidoreduct	96.56
3kv4_A	447	PHD finger protein 8; epigenetics, histone CODE, c	96.46
3kv5_D	488	JMJC domain-containing histone demethylation prote	96.44
3kv4_A	447	PHD finger protein 8; epigenetics, histone CODE, c	96.41
4akv_A	386	Sorting nexin-33; transport protein, organelle bio	96.41
3dyt_A	366	Sorting nexin-9; 3-helix bundle, BAR domain, PX do	96.19
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	96.05
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	95.24
3rsn_A	177	SET1/ASH2 histone methyltransferase complex subun;	93.12
3a1b_A	159	DNA (cytosine-5)-methyltransferase 3A, histone H3;	90.8
3rsn_A	177	SET1/ASH2 histone methyltransferase complex subun;	89.92
2lq6_A	87	Bromodomain-containing protein 1; PHD finger, meta	88.52
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	87.79
3a1b_A	159	DNA (cytosine-5)-methyltransferase 3A, histone H3;	85.84
2lk0_A	32	RNA-binding protein 5; zinc finger; NMR {Homo sapi	85.58
2k1p_A	33	Zinc finger RAN-binding domain-containing protein	84.3
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	83.65
2pv0_B	386	DNA (cytosine-5)-methyltransferase 3-like; DNMT3L,	83.16
1n0z_A	45	ZNF265; zinc finger, RNA splicing, transcription;	82.0
2pv0_B	386	DNA (cytosine-5)-methyltransferase 3-like; DNMT3L,	80.99

>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*

Probab=99.96  E-value=1.9e-30  Score=188.03  Aligned_cols=97  Identities=74%  Similarity=1.540  Sum_probs=89.7

Q ss_pred             cCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCCCC
Q psy11251          7 AEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQ   86 (190)
Q Consensus         7 ~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~   86 (190)
                      |++.|++|+||.|++|+++||++|+++++.+...++.+.|+|++|++|.+|+...+++.||.||.|+++||++|+.||+.
T Consensus        14 n~k~g~~~~Li~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~~~~~~~~ll~Cd~C~~~yH~~Cl~ppl~   93 (114)
T 2kwj_A           14 NKKSGRPEELVSCADCGRSGHPTCLQFTLNMTEAVKTYKWQCIECKSCILCGTSENDDQLLFCDDCDRGYHMYCLNPPVA   93 (114)
T ss_dssp             CTTTCCCCCCEECSSSCCEECTTTTTCCHHHHHHHHHTTCCCGGGCCCTTTTCCTTTTTEEECSSSCCEEETTTSSSCCS
T ss_pred             cccCCCCCCCeEeCCCCCccchhhCCChhhhhhccCCCccCccccCccCcccccCCCCceEEcCCCCccccccccCCCcc
Confidence            46789999999999999999999999887776677889999999999999999888899999999999999999999999


Q ss_pred             CCCCCCccCcccccccc
Q psy11251         87 TPPEGSWSCQLCLKEFH  103 (190)
Q Consensus        87 ~~p~~~W~C~~C~~~~~  103 (190)
                      .+|+|+|+|+.|.....
T Consensus        94 ~~P~g~W~C~~C~~~~~  110 (114)
T 2kwj_A           94 EPPEGSWSCHLCWELLK  110 (114)
T ss_dssp             SCCSSCCCCHHHHHHHH
T ss_pred             CCCCCCeECccccchhh
Confidence            99999999999986543

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

Probab=99.95  E-value=7.8e-29  Score=179.05  Aligned_cols=99  Identities=52%  Similarity=1.236  Sum_probs=87.8

Q ss_pred             CCCCcc--CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcCCCC-CCCCCccccCccCCcccC
Q psy11251          2 LCPTQA--EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTS-DNDDQLLFCDDCDRGYHM   78 (190)
Q Consensus         2 ~C~~~~--~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~~~-~~~~~ll~C~~C~~~~H~   78 (190)
                      +|...+  ++.|++|+||.|++|+++||++|+++.+++...++++.|+|++|++|.+|+.. .+++.||+||.|+++||+
T Consensus        10 ~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~vC~~~~~~~~~ll~Cd~C~~~yH~   89 (112)
T 3v43_A           10 FCLGTKEQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIECKTCSSCRDQGKNADNMLFCDSCDRGFHM   89 (112)
T ss_dssp             TTCCCTTCCTTSCCCCCEECTTTCCEECHHHHTCCHHHHHHHHTSCCCCTTTCCBTTTCCCCCTTCCCEECTTTCCEECG
T ss_pred             ccCCchhhCcCCCchhceEhhhcCCCCCCchhcCCHHHHHHhhccccccccCCccccccCcCCCccceEEcCCCCCeeec
Confidence            455543  45688999999999999999999998777777788999999999999999975 355789999999999999


Q ss_pred             CCCCCCCCCCCCCCccCccccc
Q psy11251         79 YCLVPPIQTPPEGSWSCQLCLK  100 (190)
Q Consensus        79 ~Cl~p~l~~~p~~~W~C~~C~~  100 (190)
                      +|+.|++..+|+++|+|+.|..
T Consensus        90 ~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           90 ECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             GGCSSCCSSCCSSCCCCTTTSC
T ss_pred             ccCCCCCCCCCCCCeECCCCCC
Confidence            9999999999999999999975

>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}

Probab=99.93  E-value=1.9e-26  Score=166.19  Aligned_cols=92  Identities=37%  Similarity=0.930  Sum_probs=81.4

Q ss_pred             CCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCC
Q psy11251          9 KSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTP   88 (190)
Q Consensus         9 ~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~   88 (190)
                      ..|+.++||.|++|+++||++|++++.   ..++.+.|+|++|++|.+|++.+++..||.||.|+++||++|+.||+..+
T Consensus        15 ~~g~~~~ll~C~~C~~~~H~~Cl~~~~---~~~~~~~W~C~~C~~C~~C~~~~~~~~ll~Cd~C~~~yH~~Cl~ppl~~~   91 (111)
T 2ysm_A           15 SPGDLLDQFFCTTCGQHYHGMCLDIAV---TPLKRAGWQCPECKVCQNCKQSGEDSKMLVCDTCDKGYHTFCLQPVMKSV   91 (111)
T ss_dssp             CCCCTTTSEECSSSCCEECTTTTTCCC---CTTTSTTCCCTTTCCCTTTCCCSCCTTEEECSSSCCEEEGGGSSSCCSSC
T ss_pred             CCCCCcCCeECCCCCCCcChHHhCCcc---ccccccCccCCcCCcccccCccCCCCCeeECCCCCcHHhHHhcCCccccC
Confidence            345667779999999999999998764   23567899999999999999988888899999999999999999999999


Q ss_pred             CCCCccCcccccccc
Q psy11251         89 PEGSWSCQLCLKEFH  103 (190)
Q Consensus        89 p~~~W~C~~C~~~~~  103 (190)
                      |+++|+|+.|.....
T Consensus        92 P~g~W~C~~C~~c~~  106 (111)
T 2ysm_A           92 PTNGWKCKNCRICIS  106 (111)
T ss_dssp             CSSCCCCHHHHCCSC
T ss_pred             CCCCcCCcCCcCcCC
Confidence            999999999987543

>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

Probab=99.73  E-value=1.6e-18  Score=114.53  Aligned_cols=58  Identities=36%  Similarity=1.063  Sum_probs=54.6

Q ss_pred             CCCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCC-CccCcccccc
Q psy11251         43 QYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEG-SWSCQLCLKE  101 (190)
Q Consensus        43 ~~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~-~W~C~~C~~~  101 (190)
                      .+.|+|++| .|.+|++.++++.||.||.|+++||++|++|||..+|+| +|+|+.|...
T Consensus        11 ~~~w~C~~C-~C~~C~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~P~g~~W~C~~C~~~   69 (70)
T 3asl_A           11 DVNRLCRVC-ACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRND   69 (70)
T ss_dssp             CTTSCCTTT-SBTTTCCCSCGGGEEECTTTCCEEEGGGSSSCCSSCCSSSCCCCTTTSCC
T ss_pred             CCCeECCCC-CCcCCCCcCCCCCEEEcCCCCCceecccCCCCcCCCCCCCCcCCcCccCc
Confidence            468999999 999999988899999999999999999999999999999 9999999853

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

Probab=99.72  E-value=6.4e-18  Score=113.56  Aligned_cols=56  Identities=39%  Similarity=1.068  Sum_probs=53.3

Q ss_pred             CCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCC-CccCccccc
Q psy11251         44 YRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEG-SWSCQLCLK  100 (190)
Q Consensus        44 ~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~-~W~C~~C~~  100 (190)
                      +.|+|++| .|.+|++..+++.||+||.|+++||++|++|||..+|+| +|+|+.|..
T Consensus        20 ~~w~C~~c-~C~vC~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~P~g~~W~C~~C~~   76 (77)
T 2e6s_A           20 PEKKCHSC-SCRVCGGKHEPNMQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSCKT   76 (77)
T ss_dssp             SSSCCSSS-SCSSSCCCCCSTTEEECSSSCCEEETTSSSSCCSSCCCSSCCCCTTTCC
T ss_pred             CCeECCCC-CCcCcCCcCCCCCEEEcCCCCccccccccCCCccCCCCCCCcCCcCccC
Confidence            57999999 999999988899999999999999999999999999999 999999974

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

Probab=99.71  E-value=5.8e-18  Score=113.69  Aligned_cols=57  Identities=37%  Similarity=1.068  Sum_probs=53.5

Q ss_pred             CCCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCC-ccCccccc
Q psy11251         43 QYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGS-WSCQLCLK  100 (190)
Q Consensus        43 ~~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~-W~C~~C~~  100 (190)
                      ...|+|+.| .|.+|++..+++.||+||.|+++||++|+.|||..+|+++ |+|+.|+.
T Consensus        19 ~~~W~C~~C-~C~vC~~~~d~~~ll~CD~C~~~yH~~Cl~PpL~~~P~g~~W~C~~C~~   76 (77)
T 3shb_A           19 DVNRLCRVC-ACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN   76 (77)
T ss_dssp             CTTSCCTTT-SBTTTCCCSCGGGEEECTTTCCEEETTTSSSCCSSCCSSSCCCCTTTC-
T ss_pred             CCCCCCCCC-cCCccCCCCCCcceeEeCCCCCccCcccCCCcccCCCCCCceECcCccc
Confidence            468999999 9999999988899999999999999999999999999998 99999975

>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*

Probab=99.65  E-value=7.3e-17  Score=114.72  Aligned_cols=76  Identities=22%  Similarity=0.545  Sum_probs=67.6

Q ss_pred             CCCCCCceecC--CCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCCCCC
Q psy11251         10 SGQPEDLVSCS--DCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT   87 (190)
Q Consensus        10 ~g~~~~ll~C~--~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~   87 (190)
                      .+++|+||.||  +|+++||+.|+++     ..+|.+.|+|+.| .|.+|++..    .+.|..|+++||..|+.+.|..
T Consensus        21 C~~~G~ll~CD~~~Cp~~fH~~Cl~L-----~~~P~g~W~Cp~c-~C~~C~k~~----~~~C~~Cp~sfC~~c~~g~l~~   90 (107)
T 4gne_A           21 CGDGGELVMCDKKDCPKAYHLLCLNL-----TQPPYGKWECPWH-QCDECSSAA----VSFCEFCPHSFCKDHEKGALVP   90 (107)
T ss_dssp             TCCCSEEEECCSTTCCCEECTGGGTC-----SSCCSSCCCCGGG-BCTTTCSBC----CEECSSSSCEECTTTCTTSCEE
T ss_pred             CCCCCcEeEECCCCCCcccccccCcC-----CcCCCCCEECCCC-CCCcCCCCC----CcCcCCCCcchhhhccCCccee
Confidence            45789999999  8999999999974     4678999999999 699999643    3889999999999999999998


Q ss_pred             CCCCCccC
Q psy11251         88 PPEGSWSC   95 (190)
Q Consensus        88 ~p~~~W~C   95 (190)
                      .+.+.|+|
T Consensus        91 ~~~~~~~c   98 (107)
T 4gne_A           91 SALEGRLC   98 (107)
T ss_dssp             CTTTTCEE
T ss_pred             cCCCCcee
Confidence            88999987

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

Probab=99.60  E-value=2.9e-16  Score=109.08  Aligned_cols=59  Identities=44%  Similarity=1.096  Sum_probs=54.9

Q ss_pred             CCCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccc
Q psy11251         43 QYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE  101 (190)
Q Consensus        43 ~~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~  101 (190)
                      ...|.|.++.+|.+|+..++.+.||+||.|+++||++|+.||+..+|.++|+|+.|...
T Consensus         8 ~s~~~~~~~~~C~vC~~~~~~~~ll~CD~C~~~~H~~Cl~Ppl~~~P~g~W~C~~C~~~   66 (92)
T 2e6r_A            8 HSSAQFIDSYICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCILA   66 (92)
T ss_dssp             CCCCCCCCCCCCSSSCCSGGGGGCEECTTTCCEECSSSSSSCCSSCCSSCCCCHHHHHH
T ss_pred             CchhhccCCCCCccCCCcCCCCCEEEcCCCCchhccccCCCCcccCCCCCcCCccCcCc
Confidence            56899999999999998777778999999999999999999999999999999999864

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

Probab=99.56  E-value=7.3e-16  Score=95.63  Aligned_cols=48  Identities=38%  Similarity=1.182  Sum_probs=44.9

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLK  100 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~  100 (190)
                      .|.+|++.++++.||.||.|+++||++|+.|++..+|+++|+|+.|..
T Consensus         2 ~C~vC~~~~~~~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCCCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            588999887888999999999999999999999999999999999975

>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}

Probab=99.55  E-value=2.6e-15  Score=119.39  Aligned_cols=57  Identities=37%  Similarity=1.066  Sum_probs=49.5

Q ss_pred             CCCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCC-CccCccccc
Q psy11251         43 QYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEG-SWSCQLCLK  100 (190)
Q Consensus        43 ~~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~-~W~C~~C~~  100 (190)
                      ...|+|..| .|.+|+...+++.||+||.|+++||++|+.||+..+|+| +|+|+.|..
T Consensus       167 ~~~w~C~~c-~C~vC~~~~~~~~lL~CD~C~~~yH~~CL~PPL~~vP~G~~W~Cp~C~~  224 (226)
T 3ask_A          167 DVNRLCRVC-ACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN  224 (226)
T ss_dssp             CTTSCCTTT-SCSSSCCCCC--CCEECSSSCCEECSCC--CCCCSCCSSSCCCCGGGC-
T ss_pred             CcCEecCCC-CCcCCCCCCCCCCeEEcCCCCcceeCccCCCCcccCCCCCCCCCcCCcC
Confidence            558999999 999999988899999999999999999999999999999 999999975

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

Probab=99.54  E-value=8.4e-15  Score=100.25  Aligned_cols=57  Identities=28%  Similarity=0.723  Sum_probs=51.0

Q ss_pred             CCCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         43 QYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        43 ~~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      ...|.-.+-.+|.+|+.   ++.||+||.|+++||++|+.||+..+|+|+|+|+.|....
T Consensus        17 ~~~~~d~n~~~C~vC~~---~g~LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~~   73 (88)
T 1fp0_A           17 EFGTLDDSATICRVCQK---PGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   73 (88)
T ss_dssp             CCCSSSSSSSCCSSSCS---SSCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             cccccCCCCCcCcCcCC---CCCEEECCCCCCceecccCCCCCCCCcCCCcCCccccCCC
Confidence            56777777789999995   5789999999999999999999999999999999998653

>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

Probab=99.51  E-value=1.5e-14  Score=92.97  Aligned_cols=47  Identities=40%  Similarity=1.022  Sum_probs=42.4

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      +|.+|+.   ++.||.||.|+++||++|+.|++..+|.++|+|+.|....
T Consensus        11 ~C~vC~~---~g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A           11 FCRVCKD---GGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SCTTTCC---CSSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             cCCCCCC---CCCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            5777874   6789999999999999999999999999999999998654

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

Probab=99.46  E-value=2.2e-14  Score=93.65  Aligned_cols=47  Identities=40%  Similarity=1.140  Sum_probs=41.8

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      +|.+|+.   ++.||.||.|+++||+.|+.||+..+|.++|+|+.|....
T Consensus        10 ~C~vC~~---~g~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~~   56 (66)
T 1xwh_A           10 ECAVCRD---GGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQAT   56 (66)
T ss_dssp             SBSSSSC---CSSCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHHTC
T ss_pred             CCccCCC---CCCEEEcCCCChhhcccccCCCcCcCCCCCeECccccCcc
Confidence            5677774   5789999999999999999999999999999999998643

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

Probab=99.46  E-value=2.9e-14  Score=90.06  Aligned_cols=45  Identities=51%  Similarity=1.192  Sum_probs=40.7

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLK  100 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~  100 (190)
                      +|.+|+.   ++.||.||.|+++||+.|+.||+..+|.+.|+|+.|..
T Consensus        11 ~C~vC~~---~g~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A           11 FCSVCRK---SGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             SCSSSCC---SSCCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCccCCC---CCeEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            5777774   57899999999999999999999999999999999964

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

Probab=99.46  E-value=1.6e-14  Score=92.48  Aligned_cols=47  Identities=49%  Similarity=1.165  Sum_probs=42.5

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      +|.+|+.   ++.||.||.|+++||+.|+.||+..+|.+.|+|+.|....
T Consensus         7 ~C~vC~~---~g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   53 (60)
T 2puy_A            7 FCSVCRK---SGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQM   53 (60)
T ss_dssp             SCTTTCC---CSSCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHH
T ss_pred             CCcCCCC---CCcEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccChh
Confidence            6788885   5789999999999999999999999999999999998654

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

Probab=99.45  E-value=1.6e-14  Score=94.10  Aligned_cols=46  Identities=28%  Similarity=0.790  Sum_probs=41.5

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE  101 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~  101 (190)
                      .|.+|+   +++.||+||.|+++||++|+.|++..+|+++|+|+.|...
T Consensus        14 ~C~vC~---~~~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           14 RCGVCG---DGTDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             CCTTTS---CCTTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CcCCCC---CCCeEEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            467777   4678999999999999999999999999999999999754

>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

Probab=99.45  E-value=2.3e-14  Score=98.68  Aligned_cols=51  Identities=29%  Similarity=0.782  Sum_probs=44.3

Q ss_pred             CCCcCCCCCC--CCCccccCccCCcccCCCCCCCCCC----CCCCCccCcccccccc
Q psy11251         53 CCSVCGTSDN--DDQLLFCDDCDRGYHMYCLVPPIQT----PPEGSWSCQLCLKEFH  103 (190)
Q Consensus        53 ~C~~C~~~~~--~~~ll~C~~C~~~~H~~Cl~p~l~~----~p~~~W~C~~C~~~~~  103 (190)
                      +|.+|+....  ++.||+||.|+++||++|+.||+..    +|++.|+|+.|.....
T Consensus        18 ~C~vC~~~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~~~~~p~g~W~C~~C~~~~~   74 (88)
T 1wev_A           18 ACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMK   74 (88)
T ss_dssp             SCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHC
T ss_pred             cCCCCCCCCCCCCCceEECCCCCCeEcCccCCCcccccccCCCCCCeeCccccchhh
Confidence            7889987643  4789999999999999999999985    8999999999987543

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

Probab=99.45  E-value=3.2e-14  Score=91.36  Aligned_cols=47  Identities=47%  Similarity=1.187  Sum_probs=42.3

Q ss_pred             CCCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccc
Q psy11251         52 KCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE  101 (190)
Q Consensus        52 ~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~  101 (190)
                      .+|.+|+.   ++.||.||.|+++||++|+.|++..+|+++|+|+.|...
T Consensus        12 ~~C~vC~~---~g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A           12 DYCEVCQQ---GGEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             SSCTTTSC---CSSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCccCCC---CCcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            36778885   579999999999999999999999999999999999864

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

Probab=99.38  E-value=6.7e-14  Score=91.24  Aligned_cols=50  Identities=28%  Similarity=0.937  Sum_probs=42.8

Q ss_pred             CCCcCCCC--CCCCCccccCccCCcccCCCCCCCCCC--C-CCCCccCccccccc
Q psy11251         53 CCSVCGTS--DNDDQLLFCDDCDRGYHMYCLVPPIQT--P-PEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~--~~~~~ll~C~~C~~~~H~~Cl~p~l~~--~-p~~~W~C~~C~~~~  102 (190)
                      +|.+|+..  .+++.||+||.|+++||++|+.|++..  + |++.|+|+.|....
T Consensus         8 ~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~~~   62 (66)
T 2yt5_A            8 VCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFAT   62 (66)
T ss_dssp             CBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHHTT
T ss_pred             CCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcCcc
Confidence            68888865  345899999999999999999999877  4 88999999998653

>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

Probab=99.33  E-value=9e-13  Score=102.38  Aligned_cols=47  Identities=36%  Similarity=0.993  Sum_probs=42.8

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      +|.+|+   +++.+|+||.|+++||+.|+.|++..+|.|.|+|+.|....
T Consensus         6 ~C~~C~---~~g~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   52 (184)
T 3o36_A            6 WCAVCQ---NGGELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLS   52 (184)
T ss_dssp             SCTTTC---CCSSCEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             ccccCC---CCCeeeecCCCCcccCccccCCCCCCCCCCCEECccccCcc
Confidence            678888   46789999999999999999999999999999999998754

>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*

Probab=99.33  E-value=1.2e-12  Score=103.55  Aligned_cols=48  Identities=33%  Similarity=0.931  Sum_probs=43.2

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFH  103 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~  103 (190)
                      +|.+|+.   ++.+|+||.|+++||+.|+.|++..+|.|.|+|+.|.....
T Consensus         9 ~C~~C~~---~g~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~   56 (207)
T 3u5n_A            9 WCAVCQN---GGDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIGK   56 (207)
T ss_dssp             SBTTTCC---CEEEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSSS
T ss_pred             CCCCCCC---CCceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCccc
Confidence            5778884   67899999999999999999999999999999999997654

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

Probab=99.32  E-value=1.6e-13  Score=90.57  Aligned_cols=48  Identities=40%  Similarity=0.956  Sum_probs=41.6

Q ss_pred             CCCcCCCCC--CCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         53 CCSVCGTSD--NDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~--~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      .|.+|+..+  +++.||+||.|+++||++|++|+  .+|+|+|+|+.|....
T Consensus        18 ~C~vC~~~~s~~~~~ll~CD~C~~~~H~~Cl~~~--~vP~g~W~C~~C~~~~   67 (71)
T 2ku3_A           18 VCSICMDGESQNSNVILFCDMCNLAVHQECYGVP--YIPEGQWLCRHCLQSR   67 (71)
T ss_dssp             SCSSSCCCCCCSSSCEEECSSSCCEEEHHHHTCS--SCCSSCCCCHHHHHHH
T ss_pred             CCCCCCCCCCCCCCCEEECCCCCCccccccCCCC--cCCCCCcCCccCcCcC
Confidence            678888664  66799999999999999999987  4899999999998643

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

Probab=99.30  E-value=3.5e-12  Score=99.55  Aligned_cols=48  Identities=33%  Similarity=0.899  Sum_probs=43.5

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFH  103 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~  103 (190)
                      .|.+|+.   ++.+|.||+|+++||+.|+.|++..+|.|+|+|+.|.....
T Consensus         4 ~C~~C~~---~g~ll~Cd~C~~~~H~~Cl~p~l~~~p~g~W~C~~C~~~~~   51 (189)
T 2ro1_A            4 ICRVCQK---PGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   51 (189)
T ss_dssp             CBTTTCC---CSSCCCCTTTCCBCCSTTSTTCCSSCCCTTCCTTTTSCSCC
T ss_pred             cCccCCC---CCceeECCCCCchhccccCCCCcccCCCCCCCCcCccCCCC
Confidence            6889984   67899999999999999999999999999999999987643

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

Probab=99.23  E-value=1.4e-12  Score=87.09  Aligned_cols=50  Identities=32%  Similarity=0.770  Sum_probs=43.8

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      +|.+|++..+++.||.||.|+.+||+.|+++++...|.+.|+|+.|....
T Consensus        20 ~C~~C~~~~~~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~   69 (75)
T 2k16_A           20 ICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKI   69 (75)
T ss_dssp             CBTTTTBCCSSCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHH
T ss_pred             CCCCCCCCCCCCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCch
Confidence            56778887777789999999999999999998888888999999998653

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

Probab=99.22  E-value=7.1e-13  Score=91.12  Aligned_cols=48  Identities=40%  Similarity=0.964  Sum_probs=41.1

Q ss_pred             CCCcCCCCC--CCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         53 CCSVCGTSD--NDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~--~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      .|.+|+..+  +++.||+||.|+.+||++|++|++  +|+|+|+|+.|....
T Consensus        27 ~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~--vP~g~W~C~~C~~~~   76 (88)
T 2l43_A           27 VCSICMDGESQNSNVILFCDMCNLAVHQECYGVPY--IPEGQWLCRHCLQSR   76 (88)
T ss_dssp             CCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSS--CCSSCCCCHHHHHHT
T ss_pred             cCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCc--cCCCceECccccCcc
Confidence            678888654  556999999999999999999874  899999999998653

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

Probab=99.10  E-value=7.4e-11  Score=80.61  Aligned_cols=48  Identities=25%  Similarity=0.441  Sum_probs=39.4

Q ss_pred             CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcCC
Q psy11251          8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCG   58 (190)
Q Consensus         8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~   58 (190)
                      ...+++|+||+||+|+++||+.|+.|+.   ..+|++.|+|+.|......+
T Consensus        29 ~vC~~~g~LL~CD~C~~~fH~~Cl~PpL---~~~P~g~W~C~~C~~~~~~k   76 (88)
T 1fp0_A           29 RVCQKPGDLVMCNQCEFCFHLDCHLPAL---QDVPGEEWSCSLCHVLPDLK   76 (88)
T ss_dssp             SSSCSSSCCEECTTSSCEECTTSSSTTC---CCCCSSSCCCCSCCCCCSSC
T ss_pred             cCcCCCCCEEECCCCCCceecccCCCCC---CCCcCCCcCCccccCCCccc
Confidence            4455678999999999999999998765   46789999999997665544

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

Probab=99.10  E-value=1.8e-11  Score=75.53  Aligned_cols=40  Identities=30%  Similarity=0.762  Sum_probs=34.3

Q ss_pred             CCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         10 SGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        10 ~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .+++++||.||+|+++||+.|++++.   ..+|.+.|+|+.|.
T Consensus         9 ~~~~~~ll~Cd~C~~~~H~~Cl~p~l---~~~P~g~W~C~~C~   48 (51)
T 1f62_A            9 KGEDDKLILCDECNKAFHLFCLRPAL---YEVPDGEWQCPACQ   48 (51)
T ss_dssp             SSCCSCCEECTTTCCEECHHHHCTTC---CSCCSSCCSCTTTS
T ss_pred             CCCCCCEEECCCCChhhCcccCCCCc---CCCCCCcEECcCcc
Confidence            45678999999999999999998754   45788999999995

>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

Probab=99.10  E-value=7.1e-11  Score=75.61  Aligned_cols=40  Identities=25%  Similarity=0.585  Sum_probs=34.3

Q ss_pred             CCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         10 SGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        10 ~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .+++|+||.||+|+++||+.|++++.   ..+|.+.|+|+.|.
T Consensus        15 C~~~g~ll~Cd~C~~~fH~~Cl~ppl---~~~p~g~W~C~~C~   54 (61)
T 1mm2_A           15 CKDGGELLCCDTCPSSYHIHCLNPPL---PEIPNGEWLCPRCT   54 (61)
T ss_dssp             TCCCSSCBCCSSSCCCBCSSSSSSCC---SSCCSSCCCCTTTT
T ss_pred             CCCCCCEEEcCCCCHHHcccccCCCc---CcCCCCccCChhhc
Confidence            45678999999999999999998754   45788999999994

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

Probab=99.10  E-value=2.5e-11  Score=78.92  Aligned_cols=42  Identities=21%  Similarity=0.434  Sum_probs=35.6

Q ss_pred             CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      ...+++++||.||+|+++||++|++++.   ..+|.+.|+|+.|.
T Consensus        16 ~vC~~~~~ll~Cd~C~~~~H~~Cl~P~l---~~~P~g~W~C~~C~   57 (66)
T 2lri_C           16 GVCGDGTDVLRCTHCAAAFHWRCHFPAG---TSRPGTGLRCRSCS   57 (66)
T ss_dssp             TTTSCCTTCEECSSSCCEECHHHHCTTT---CCCCSSSCCCTTTT
T ss_pred             CCCCCCCeEEECCCCCCceecccCCCcc---CcCCCCCEECcccc
Confidence            3446788999999999999999998764   46789999999984

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

Probab=99.05  E-value=1e-10  Score=81.93  Aligned_cols=45  Identities=27%  Similarity=0.721  Sum_probs=38.9

Q ss_pred             cCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccc
Q psy11251         56 VCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE  101 (190)
Q Consensus        56 ~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~  101 (190)
                      +|+...+++.||.||.|+++||+.|++|++..+|+ .|+|+.|...
T Consensus        32 iC~~~~~~~~mi~Cd~C~~w~H~~C~~~~~~~~p~-~w~C~~C~~~   76 (98)
T 2lv9_A           32 ICGFTHDDGYMICCDKCSVWQHIDCMGIDRQHIPD-TYLCERCQPR   76 (98)
T ss_dssp             TTSCCSCSSCEEEBTTTCBEEETTTTTCCTTSCCS-SBCCTTTSSS
T ss_pred             ECCCccCCCcEEEcCCCCCcCcCcCCCCCccCCCC-CEECCCCcCC
Confidence            56666678899999999999999999999888875 8999999754

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

Probab=99.00  E-value=9e-11  Score=76.32  Aligned_cols=41  Identities=24%  Similarity=0.597  Sum_probs=34.3

Q ss_pred             CCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          9 KSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         9 ~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      ..+++|+||.||+|+++||+.|++++.   ..+|.+.|+|+.|.
T Consensus        13 vC~~~g~ll~CD~C~~~fH~~Cl~ppl---~~~P~g~W~C~~C~   53 (66)
T 1xwh_A           13 VCRDGGELICCDGCPRAFHLACLSPPL---REIPSGTWRCSSCL   53 (66)
T ss_dssp             SSSCCSSCEECSSCCCEECTTTSSSCC---SSCCSSCCCCHHHH
T ss_pred             cCCCCCCEEEcCCCChhhcccccCCCc---CcCCCCCeECcccc
Confidence            344678999999999999999998754   45778999999884

>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

Probab=98.99  E-value=3.3e-10  Score=74.60  Aligned_cols=46  Identities=30%  Similarity=0.874  Sum_probs=38.5

Q ss_pred             CCCcCCCCCCCCCccccCc--cC-CcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDD--CD-RGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~--C~-~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      +| +|++.. .+.||.||.  |+ .+||+.|++  |..+|.+.|+|+.|....
T Consensus        18 ~C-~C~~~~-~g~MI~CD~~~C~~~wfH~~Cvg--l~~~p~g~w~Cp~C~~~~   66 (71)
T 1wen_A           18 YC-LCHQVS-YGEMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQES   66 (71)
T ss_dssp             CS-TTCCCS-CSSEECCSCSSCSCCCEETTTTT--CSSCCSSCCCCTTTSSCS
T ss_pred             EE-ECCCCC-CCCEeEeeCCCCCCccEecccCC--cCcCCCCCEECCCCCccc
Confidence            56 677764 368999999  77 699999999  788899999999998643

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

Probab=98.98  E-value=2.8e-10  Score=76.10  Aligned_cols=42  Identities=26%  Similarity=0.543  Sum_probs=35.5

Q ss_pred             CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCC-CcccCCCC
Q psy11251          8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQY-RWQCIECK   52 (190)
Q Consensus         8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~-~W~C~~C~   52 (190)
                      +..+++++||.||+|+++||+.|++|+.   ..+|.+ .|+|+.|.
T Consensus        33 ~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl---~~~P~g~~W~C~~C~   75 (77)
T 2e6s_A           33 GGKHEPNMQLLCDECNVAYHIYCLNPPL---DKVPEEEYWYCPSCK   75 (77)
T ss_dssp             CCCCCSTTEEECSSSCCEEETTSSSSCC---SSCCCSSCCCCTTTC
T ss_pred             CCcCCCCCEEEcCCCCccccccccCCCc---cCCCCCCCcCCcCcc
Confidence            3445789999999999999999998765   457788 99999994

>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*

Probab=98.97  E-value=1.9e-10  Score=81.52  Aligned_cols=44  Identities=39%  Similarity=1.098  Sum_probs=38.9

Q ss_pred             CCCcCCCCCCCCCccccC--ccCCcccCCCCCCCCCCCCCCCccCcccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCD--DCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE  101 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~--~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~  101 (190)
                      +|.+|+   ++++||.||  .|+++||+.|++  |..+|+|.|+||.|...
T Consensus        17 ~C~~C~---~~G~ll~CD~~~Cp~~fH~~Cl~--L~~~P~g~W~Cp~c~C~   62 (107)
T 4gne_A           17 YCFQCG---DGGELVMCDKKDCPKAYHLLCLN--LTQPPYGKWECPWHQCD   62 (107)
T ss_dssp             SCTTTC---CCSEEEECCSTTCCCEECTGGGT--CSSCCSSCCCCGGGBCT
T ss_pred             CCCcCC---CCCcEeEECCCCCCcccccccCc--CCcCCCCCEECCCCCCC
Confidence            577777   478999999  899999999999  89999999999988643

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

Probab=98.97  E-value=3.3e-11  Score=89.45  Aligned_cols=83  Identities=23%  Similarity=0.579  Sum_probs=61.4

Q ss_pred             CCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC-----------------CCCcCCCCCCCCCccccCccCCcc
Q psy11251         14 EDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK-----------------CCSVCGTSDNDDQLLFCDDCDRGY   76 (190)
Q Consensus        14 ~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~-----------------~C~~C~~~~~~~~ll~C~~C~~~~   76 (190)
                      -+-+.|..|+.....+  +.. .+..-.--..|.|..|+                 +|.+|+   +++.|+.||.|+++|
T Consensus        12 ~~~i~Ct~Cg~~~~~~--q~~-~~~~HPll~v~~C~~C~~~y~~~~~~~d~Dg~~d~C~vC~---~GG~LlcCD~Cpr~F   85 (142)
T 2lbm_A           12 HGIVSCTACGQQVNHF--QKD-SIYRHPSLQVLICKNCFKYYMSDDISRDSDGMDEQCRWCA---EGGNLICCDFCHNAF   85 (142)
T ss_dssp             CCCCBCTTTCSBSTTT--CSS-SEEEETTTTEEEEHHHHHHHHHSCCCBCTTSCBCSCSSSC---CCSSEEECSSSCCEE
T ss_pred             cCCCEecCCCCccccc--ccc-chhcCCCccccccHHHHHHHhcCCceecCCCCCCeecccC---CCCcEEeCCCCCCee
Confidence            4678999999876421  100 01111113467788886                 899999   588999999999999


Q ss_pred             cCCCCCCCCCC-------CCCCCccCccccccc
Q psy11251         77 HMYCLVPPIQT-------PPEGSWSCQLCLKEF  102 (190)
Q Consensus        77 H~~Cl~p~l~~-------~p~~~W~C~~C~~~~  102 (190)
                      |..|+.|++..       .|.++|.|+.|....
T Consensus        86 h~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~~p  118 (142)
T 2lbm_A           86 CKKCILRNLGRKELSTIMDENNQWYCYICHPEP  118 (142)
T ss_dssp             EHHHHHHHTCHHHHHHHHTSTTCCCCTTTCCCT
T ss_pred             eHhhcCCCCChhhhhhcccCCCCCEeecccCcc
Confidence            99999998862       488999999998643

>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

Probab=98.97  E-value=1.8e-10  Score=75.78  Aligned_cols=42  Identities=29%  Similarity=0.637  Sum_probs=35.6

Q ss_pred             CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCC-CcccCCCC
Q psy11251          8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQY-RWQCIECK   52 (190)
Q Consensus         8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~-~W~C~~C~   52 (190)
                      ++.+++++||.||+|+++||++|++|+.   ..+|++ .|+|+.|.
T Consensus        25 ~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl---~~~P~g~~W~C~~C~   67 (70)
T 3asl_A           25 GGRQDPDKQLMCDECDMAFHIYCLDPPL---SSVPSEDEWYCPECR   67 (70)
T ss_dssp             CCCSCGGGEEECTTTCCEEEGGGSSSCC---SSCCSSSCCCCTTTS
T ss_pred             CCcCCCCCEEEcCCCCCceecccCCCCc---CCCCCCCCcCCcCcc
Confidence            4445789999999999999999998765   457788 99999995

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

Probab=98.97  E-value=1.2e-10  Score=74.25  Aligned_cols=41  Identities=24%  Similarity=0.598  Sum_probs=34.1

Q ss_pred             CCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          9 KSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         9 ~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      ..+++|+||.||+|+++||+.|++++.   ..+|.+.|+|+.|.
T Consensus        10 vC~~~g~ll~Cd~C~~~fH~~Cl~ppl---~~~p~g~W~C~~C~   50 (60)
T 2puy_A           10 VCRKSGQLLMCDTCSRVYHLDCLDPPL---KTIPKGMWICPRCQ   50 (60)
T ss_dssp             TTCCCSSCEECSSSSCEECGGGSSSCC---SSCCCSCCCCHHHH
T ss_pred             CCCCCCcEEEcCCCCcCEECCcCCCCc---CCCCCCceEChhcc
Confidence            344568999999999999999998754   45778999999883

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

Probab=98.97  E-value=1.5e-10  Score=72.81  Aligned_cols=40  Identities=25%  Similarity=0.627  Sum_probs=33.4

Q ss_pred             CCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         10 SGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        10 ~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .+++++||.||+|+++||+.|++++.   ..+|.+.|+|+.|.
T Consensus        15 C~~~g~ll~Cd~C~~~~H~~Cl~ppl---~~~p~g~W~C~~C~   54 (56)
T 2yql_A           15 CRKSGQLLMCDTCSRVYHLDCLDPPL---KTIPKGMWICPRCQ   54 (56)
T ss_dssp             SCCSSCCEECSSSSCEECSSSSSSCC---CSCCCSSCCCHHHH
T ss_pred             CCCCCeEEEcCCCCcceECccCCCCc---CCCCCCceEChhhh
Confidence            34467999999999999999998754   45778999999883

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

Probab=98.96  E-value=9.9e-11  Score=74.94  Aligned_cols=40  Identities=25%  Similarity=0.651  Sum_probs=34.0

Q ss_pred             CCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         10 SGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        10 ~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .+++++||.||+|+++||+.|++++.   ..+|.+.|+|+.|.
T Consensus        17 C~~~g~ll~CD~C~~~fH~~Cl~p~l---~~~p~g~W~C~~C~   56 (61)
T 2l5u_A           17 CQQGGEIILCDTCPRAYHMVCLDPDM---EKAPEGKWSCPHCE   56 (61)
T ss_dssp             TSCCSSEEECSSSSCEEEHHHHCTTC---CSCCCSSCCCTTGG
T ss_pred             CCCCCcEEECCCCChhhhhhccCCCC---CCCCCCceECcccc
Confidence            34578999999999999999998764   35778999999985

>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

Probab=98.91  E-value=1.1e-09  Score=75.43  Aligned_cols=46  Identities=30%  Similarity=0.874  Sum_probs=38.3

Q ss_pred             CCCcCCCCCCCCCccccCc--cC-CcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDD--CD-RGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~--C~-~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      +| +|++.. .+.||.||.  |+ .|||+.|++  |...|.+.|+|+.|....
T Consensus        38 yC-iC~~~~-~g~MI~CD~~dC~~~WfH~~CVg--l~~~p~g~W~Cp~C~~~~   86 (91)
T 1weu_A           38 YC-LCHQVS-YGEMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQES   86 (91)
T ss_dssp             CS-TTCCBC-CSCCCCCSCSSCSCCCCCSTTTT--CSSCCCSSCCCTTTCCCC
T ss_pred             EE-ECCCCC-CCCEeEecCCCCCCCCEecccCC--cCcCCCCCEECcCccCcC
Confidence            56 777654 468999999  76 799999999  788889999999998643

>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*

Probab=98.90  E-value=2.1e-10  Score=73.17  Aligned_cols=44  Identities=30%  Similarity=0.908  Sum_probs=37.1

Q ss_pred             CCCcCCCCCCCCCccccCc--cC-CcccCCCCCCCCCCCCCCCccCccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDD--CD-RGYHMYCLVPPIQTPPEGSWSCQLCLK  100 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~--C~-~~~H~~Cl~p~l~~~p~~~W~C~~C~~  100 (190)
                      +| +|++.. .+.||.||.  |+ .+||+.|++  |..+|.+.|+|+.|..
T Consensus        12 ~C-~C~~~~-~g~mi~CD~cdC~~~wfH~~Cvg--l~~~p~g~w~C~~C~~   58 (60)
T 2vnf_A           12 YC-LCHQVS-YGEMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQ   58 (60)
T ss_dssp             ET-TTTEEC-CSEEEECSCTTCSSCEEETGGGT--CSSCCSSCCCCHHHHC
T ss_pred             EE-ECCCcC-CCCEEEeCCCCCCCceEehhcCC--CCcCCCCCEECcCccC
Confidence            45 677664 478999999  55 899999999  8888999999999975

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

Probab=98.90  E-value=5.6e-10  Score=76.67  Aligned_cols=44  Identities=25%  Similarity=0.782  Sum_probs=36.7

Q ss_pred             CCCcCCCCCCCCCccccCccC---CcccCCCCCCCCCCCCCCCccCcc-ccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCD---RGYHMYCLVPPIQTPPEGSWSCQL-CLK  100 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~---~~~H~~Cl~p~l~~~p~~~W~C~~-C~~  100 (190)
                      +| +|++... +.||.||.|+   .|||+.|++  |...|.+.|+|+. |..
T Consensus        28 yC-iC~~~~~-g~MI~CD~c~C~~eWfH~~CVg--l~~~p~~~W~Cp~cC~~   75 (90)
T 2jmi_A           28 YC-FCRNVSY-GPMVACDNPACPFEWFHYGCVG--LKQAPKGKWYCSKDCKE   75 (90)
T ss_dssp             CS-TTTCCCS-SSEECCCSSSCSCSCEETTTSS--CSSCTTSCCCSSHHHHH
T ss_pred             EE-EeCCCCC-CCEEEecCCCCccccCcCccCC--CCcCCCCCccCChhhcc
Confidence            45 6776544 5799999977   899999999  7888899999999 974

>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*

Probab=98.89  E-value=2.6e-10  Score=72.50  Aligned_cols=44  Identities=30%  Similarity=0.937  Sum_probs=37.2

Q ss_pred             CCCcCCCCCCCCCccccCc--cC-CcccCCCCCCCCCCCCCCCccCccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDD--CD-RGYHMYCLVPPIQTPPEGSWSCQLCLK  100 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~--C~-~~~H~~Cl~p~l~~~p~~~W~C~~C~~  100 (190)
                      +| +|++.. .+.||.||.  |+ .+||+.|++  +...|.+.|+|+.|..
T Consensus        11 yC-~C~~~~-~g~mi~CD~~~C~~~wfH~~Cvg--l~~~p~~~w~Cp~C~~   57 (59)
T 3c6w_A           11 YC-LCHQVS-YGEMIGCDNPDCPIEWFHFACVD--LTTKPKGKWFCPRCVQ   57 (59)
T ss_dssp             ET-TTTEEC-CSEEEECSCTTCSSCEEETGGGT--CSSCCSSCCCCHHHHC
T ss_pred             EE-ECCCCC-CCCeeEeeCCCCCCCCEecccCC--cccCCCCCEECcCccC
Confidence            45 677654 468999999  77 699999999  8888999999999975

>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}

Probab=98.88  E-value=1.4e-09  Score=77.57  Aligned_cols=49  Identities=27%  Similarity=0.701  Sum_probs=42.9

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE  101 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~  101 (190)
                      +|.+|+..++.+.||.|+.|+++||+.|+.+++..++.+.|+|+.|...
T Consensus         9 ~C~~C~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~W~C~~C~~C   57 (111)
T 2ysm_A            9 NCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPECKVC   57 (111)
T ss_dssp             CBTTTCCCCCTTTSEECSSSCCEECTTTTTCCCCTTTSTTCCCTTTCCC
T ss_pred             CCcCCCCCCCCcCCeECCCCCCCcChHHhCCccccccccCccCCcCCcc
Confidence            6889998766667899999999999999999888788899999998643

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

Probab=98.86  E-value=8.9e-10  Score=73.62  Aligned_cols=42  Identities=29%  Similarity=0.631  Sum_probs=35.4

Q ss_pred             CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCC-cccCCCC
Q psy11251          8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYR-WQCIECK   52 (190)
Q Consensus         8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~-W~C~~C~   52 (190)
                      ++.++.+.||.||.|+++||++|++++.   ..+|.+. |+|+.|+
T Consensus        33 ~~~~d~~~ll~CD~C~~~yH~~Cl~PpL---~~~P~g~~W~C~~C~   75 (77)
T 3shb_A           33 GGRQDPDKQLMCDECDMAFHIYCLDPPL---SSVPSEDEWYCPECR   75 (77)
T ss_dssp             CCCSCGGGEEECTTTCCEEETTTSSSCC---SSCCSSSCCCCTTTC
T ss_pred             CCCCCCcceeEeCCCCCccCcccCCCcc---cCCCCCCceECcCcc
Confidence            4455778999999999999999998765   4577888 9999995

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

Probab=98.84  E-value=4.8e-10  Score=72.72  Aligned_cols=51  Identities=27%  Similarity=0.662  Sum_probs=37.0

Q ss_pred             CCCCccCC-CCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          2 LCPTQAEK-SGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         2 ~C~~~~~~-~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      +|..+... ..+.+.||.||+|+++||+.|++++.......|++.|+|+.|.
T Consensus         8 ~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~   59 (66)
T 2yt5_A            8 VCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCV   59 (66)
T ss_dssp             CBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHH
T ss_pred             CCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCc
Confidence            34444432 3456999999999999999999875432111278999999884

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

Probab=98.82  E-value=4.6e-10  Score=77.64  Aligned_cols=39  Identities=23%  Similarity=0.575  Sum_probs=33.5

Q ss_pred             CCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         11 GQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        11 g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      ++.+.||.||+|+++||+.|++|+.   ..+|.+.|+|+.|.
T Consensus        26 ~~~~~ll~CD~C~~~~H~~Cl~Ppl---~~~P~g~W~C~~C~   64 (92)
T 2e6r_A           26 DEDDKLLFCDGCDDNYHIFCLLPPL---PEIPRGIWRCPKCI   64 (92)
T ss_dssp             GGGGGCEECTTTCCEECSSSSSSCC---SSCCSSCCCCHHHH
T ss_pred             CCCCCEEEcCCCCchhccccCCCCc---ccCCCCCcCCccCc
Confidence            3567899999999999999998765   46789999999994

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

Probab=98.82  E-value=2.3e-09  Score=76.73  Aligned_cols=47  Identities=19%  Similarity=0.591  Sum_probs=37.0

Q ss_pred             CCCccCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          3 CPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         3 C~~~~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      |........+.++||.||.|+++||++|++++.   ..+|++.|+|+.|+
T Consensus        64 C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l---~~~P~~~W~C~~C~  110 (112)
T 3v43_A           64 CSSCRDQGKNADNMLFCDSCDRGFHMECCDPPL---TRMPKGMWICQICR  110 (112)
T ss_dssp             BTTTCCCCCTTCCCEECTTTCCEECGGGCSSCC---SSCCSSCCCCTTTS
T ss_pred             cccccCcCCCccceEEcCCCCCeeecccCCCCC---CCCCCCCeECCCCC
Confidence            444443334567999999999999999998754   46789999999995

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

Probab=98.81  E-value=6.2e-10  Score=71.38  Aligned_cols=45  Identities=27%  Similarity=0.892  Sum_probs=36.9

Q ss_pred             CCCcCCCCCCCCCccccCc--cC-CcccCCCCCCCCCCCCCCCccCcccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDD--CD-RGYHMYCLVPPIQTPPEGSWSCQLCLKE  101 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~--C~-~~~H~~Cl~p~l~~~p~~~W~C~~C~~~  101 (190)
                      +| +|++.. .+.||.||.  |+ .+||+.|++  |...|.+.|+|+.|...
T Consensus        13 yC-~C~~~~-~g~MI~CD~c~C~~~WfH~~Cvg--l~~~p~~~w~Cp~C~~~   60 (62)
T 2g6q_A           13 YC-LCNQVS-YGEMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRGD   60 (62)
T ss_dssp             ET-TTTEEC-CSEEEECSCTTCSSCEEETGGGT--CSSCCSSCCCCHHHHTC
T ss_pred             EE-ECCCCC-CCCeeeeeCCCCCcccEecccCC--cCcCCCCCEECcCcccC
Confidence            45 677654 468999999  55 999999999  77788999999999753

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

Probab=98.81  E-value=4.3e-10  Score=74.05  Aligned_cols=46  Identities=20%  Similarity=0.565  Sum_probs=36.2

Q ss_pred             CCCCccCC-CCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          2 LCPTQAEK-SGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         2 ~C~~~~~~-~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      +|..+... +.+.++||.||+|+++||..|++++     .+|+++|+|+.|.
T Consensus        18 ~C~vC~~~~s~~~~~ll~CD~C~~~~H~~Cl~~~-----~vP~g~W~C~~C~   64 (71)
T 2ku3_A           18 VCSICMDGESQNSNVILFCDMCNLAVHQECYGVP-----YIPEGQWLCRHCL   64 (71)
T ss_dssp             SCSSSCCCCCCSSSCEEECSSSCCEEEHHHHTCS-----SCCSSCCCCHHHH
T ss_pred             CCCCCCCCCCCCCCCEEECCCCCCccccccCCCC-----cCCCCCcCCccCc
Confidence            34444432 3477899999999999999999874     3788999999883

>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

Probab=98.81  E-value=2.2e-09  Score=83.12  Aligned_cols=42  Identities=21%  Similarity=0.496  Sum_probs=35.5

Q ss_pred             CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      ...+++|+||+||+|+++||..|+.++.   ..+|.+.|+|+.|.
T Consensus         8 ~~C~~~g~ll~Cd~C~~~~H~~C~~p~l---~~~p~~~W~C~~C~   49 (184)
T 3o36_A            8 AVCQNGGELLCCEKCPKVFHLSCHVPTL---TNFPSGEWICTFCR   49 (184)
T ss_dssp             TTTCCCSSCEECSSSSCEECTTTSSSCC---SSCCSSCCCCTTTS
T ss_pred             ccCCCCCeeeecCCCCcccCccccCCCC---CCCCCCCEECcccc
Confidence            3456788999999999999999998765   46788999999885

>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

Probab=98.79  E-value=1.4e-09  Score=74.65  Aligned_cols=51  Identities=24%  Similarity=0.509  Sum_probs=38.2

Q ss_pred             CCCCccCCCC-CCCCceecCCCCCCCCCCCCCCCcccc-cccCCCCcccCCCC
Q psy11251          2 LCPTQAEKSG-QPEDLVSCSDCGRSGHPTCLQFTNNMK-VSVKQYRWQCIECK   52 (190)
Q Consensus         2 ~C~~~~~~~g-~~~~ll~C~~C~~~~H~~Cl~~~~~~~-~~~~~~~W~C~~C~   52 (190)
                      +|..+..... ..+.||.||.|+++||+.|++|+.... ..+|.+.|+|+.|.
T Consensus        18 ~C~vC~~~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~~~~~p~g~W~C~~C~   70 (88)
T 1wev_A           18 ACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCT   70 (88)
T ss_dssp             SCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHH
T ss_pred             cCCCCCCCCCCCCCceEECCCCCCeEcCccCCCcccccccCCCCCCeeCcccc
Confidence            4555554432 358999999999999999998765321 14789999999985

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

Probab=98.78  E-value=3.8e-09  Score=82.22  Aligned_cols=43  Identities=28%  Similarity=0.546  Sum_probs=36.2

Q ss_pred             cCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          7 AEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         7 ~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      +...+++|+||+||+|+++||..|+.++.   ..+|.+.|+|+.|.
T Consensus         5 C~~C~~~g~ll~Cd~C~~~~H~~Cl~p~l---~~~p~g~W~C~~C~   47 (189)
T 2ro1_A            5 CRVCQKPGDLVMCNQCEFCFHLDCHLPAL---QDVPGEEWSCSLCH   47 (189)
T ss_dssp             BTTTCCCSSCCCCTTTCCBCCSTTSTTCC---SSCCCTTCCTTTTS
T ss_pred             CccCCCCCceeECCCCCchhccccCCCCc---ccCCCCCCCCcCcc
Confidence            34556788999999999999999998755   46789999999995

>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*

Probab=98.77  E-value=2.4e-09  Score=84.46  Aligned_cols=42  Identities=29%  Similarity=0.539  Sum_probs=35.8

Q ss_pred             CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      ...+++|+||+||+|+++||..|+.|+.   ..+|.+.|+|+.|.
T Consensus        11 ~~C~~~g~ll~Cd~C~~~~H~~Cl~p~l---~~~p~~~W~C~~C~   52 (207)
T 3u5n_A           11 AVCQNGGDLLCCEKCPKVFHLTCHVPTL---LSFPSGDWICTFCR   52 (207)
T ss_dssp             TTTCCCEEEEECSSSSCEECTTTSSSCC---SSCCSSCCCCTTTS
T ss_pred             CCCCCCCceEEcCCCCCccCCccCCCCC---CCCCCCCEEeCcee
Confidence            4456788999999999999999998755   45789999999996

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

Probab=98.72  E-value=1.4e-09  Score=74.57  Aligned_cols=37  Identities=19%  Similarity=0.578  Sum_probs=31.9

Q ss_pred             CCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         11 GQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        11 g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .+.++||.||+|+++||+.|++++     .+|++.|+|+.|.
T Consensus        37 ~~~~~ll~CD~C~~~fH~~Cl~p~-----~vP~g~W~C~~C~   73 (88)
T 2l43_A           37 QNSNVILFCDMCNLAVHQECYGVP-----YIPEGQWLCRHCL   73 (88)
T ss_dssp             CSEEEEEECSSSCCCCCHHHHTCS-----SCCSSCCCCHHHH
T ss_pred             CCCCCEEECCCCCchhhcccCCCC-----ccCCCceECcccc
Confidence            356699999999999999999874     3788999999883

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

Probab=98.68  E-value=4.1e-09  Score=70.03  Aligned_cols=39  Identities=21%  Similarity=0.639  Sum_probs=32.1

Q ss_pred             CCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         11 GQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        11 g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .+++.||.||.|.++||..|++++..   .++.+.|+|+.|.
T Consensus        28 ~~~~~mi~CD~C~~wfH~~Cv~~~~~---~~~~~~w~C~~C~   66 (75)
T 2k16_A           28 DDGSPMIGCDDCDDWYHWPCVGIMAA---PPEEMQWFCPKCA   66 (75)
T ss_dssp             CSSCCEEECSSSSSEEEHHHHTCSSC---CCSSSCCCCTTTH
T ss_pred             CCCCCEEEcCCCCcccccccCCCCcc---CCCCCCEEChhcc
Confidence            46778999999999999999998652   3446899999984

>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*

Probab=98.67  E-value=4.2e-09  Score=75.58  Aligned_cols=42  Identities=29%  Similarity=0.580  Sum_probs=35.2

Q ss_pred             CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      +..+++++||.||+|+++||+.|++++.   ..+|.+.|+|+.|.
T Consensus        65 ~~~~~~~~ll~Cd~C~~~yH~~Cl~ppl---~~~P~g~W~C~~C~  106 (114)
T 2kwj_A           65 GTSENDDQLLFCDDCDRGYHMYCLNPPV---AEPPEGSWSCHLCW  106 (114)
T ss_dssp             TCCTTTTTEEECSSSCCEEETTTSSSCC---SSCCSSCCCCHHHH
T ss_pred             cccCCCCceEEcCCCCccccccccCCCc---cCCCCCCeECcccc
Confidence            3445689999999999999999998754   46789999999873

>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}

Probab=98.67  E-value=1.1e-08  Score=66.65  Aligned_cols=46  Identities=22%  Similarity=0.570  Sum_probs=38.1

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLK  100 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~  100 (190)
                      +| +|++..+++.||.||.|..|||..|++.....+| +.|+|+.|..
T Consensus        21 ~C-iC~~~~~~~~MIqCd~C~~WfH~~Cvgi~~~~~~-~~~~C~~C~~   66 (68)
T 3o70_A           21 TC-FCMKPFAGRPMIECNECHTWIHLSCAKIRKSNVP-EVFVCQKCRD   66 (68)
T ss_dssp             CS-TTCCCCTTCCEEECTTTCCEEETTTTTCCTTSCC-SSCCCHHHHT
T ss_pred             Ee-ECCCcCCCCCEEECCCCCccccccccCcCcccCC-CcEECCCCCC
Confidence            55 7888777778999999999999999997644444 6999999974

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

Probab=98.65  E-value=3.5e-09  Score=69.48  Aligned_cols=43  Identities=26%  Similarity=0.742  Sum_probs=35.6

Q ss_pred             CCCCCCCCCccccCccC---CcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         57 CGTSDNDDQLLFCDDCD---RGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        57 C~~~~~~~~ll~C~~C~---~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      |++.. .+.||.||.|+   .+||+.|++  |...|.+.|+|+.|....
T Consensus        11 C~~~~-~g~MI~CD~cdC~~~WfH~~Cvg--l~~~p~~~w~Cp~C~~~~   56 (70)
T 1x4i_A           11 CNQVS-YGEMVGCDNQDCPIEWFHYGCVG--LTEAPKGKWYCPQCTAAM   56 (70)
T ss_dssp             TSCCC-CSSEECCSCTTCSCCCEEHHHHT--CSSCCSSCCCCHHHHHHH
T ss_pred             cCCCC-CCCEeEeCCCCCCccCCcccccc--cCcCCCCCEECCCCCccc
Confidence            56553 45899999986   899999999  677788999999998654

>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

Probab=98.59  E-value=2.8e-08  Score=65.33  Aligned_cols=35  Identities=20%  Similarity=0.687  Sum_probs=29.4

Q ss_pred             CCCceecCC--CC-CCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         13 PEDLVSCSD--CG-RSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        13 ~~~ll~C~~--C~-~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .|+||.||+  |+ .+||+.|+++     ..+|.+.|+|+.|.
T Consensus        26 ~g~MI~CD~~~C~~~wfH~~Cvgl-----~~~p~g~w~Cp~C~   63 (71)
T 1wen_A           26 YGEMIGCDNPDCSIEWFHFACVGL-----TTKPRGKWFCPRCS   63 (71)
T ss_dssp             CSSEECCSCSSCSCCCEETTTTTC-----SSCCSSCCCCTTTS
T ss_pred             CCCEeEeeCCCCCCccEecccCCc-----CcCCCCCEECCCCC
Confidence            368999999  88 7999999986     34567899999984

>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

Probab=98.58  E-value=1.8e-08  Score=64.77  Aligned_cols=50  Identities=24%  Similarity=0.556  Sum_probs=37.9

Q ss_pred             CCCcCCCCCC-CCCccccCccCCcccCCCCCCCCCCCC-CCCccCccccccc
Q psy11251         53 CCSVCGTSDN-DDQLLFCDDCDRGYHMYCLVPPIQTPP-EGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~-~~~ll~C~~C~~~~H~~Cl~p~l~~~p-~~~W~C~~C~~~~  102 (190)
                      +|.+|++..+ ++.||.||.|+.+||..|++....... ...|+|+.|..+.
T Consensus         8 ~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k~   59 (64)
T 1we9_A            8 QCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKS   59 (64)
T ss_dssp             CCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTT
T ss_pred             CCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCcC
Confidence            4557777653 578999999999999999995433322 2689999998754

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

Probab=98.56  E-value=2.8e-08  Score=69.36  Aligned_cols=42  Identities=14%  Similarity=0.459  Sum_probs=33.5

Q ss_pred             cCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          7 AEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         7 ~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      ++...+++.||.|+.|.++||..|++++.   ..+| ..|+|+.|+
T Consensus        33 C~~~~~~~~mi~Cd~C~~w~H~~C~~~~~---~~~p-~~w~C~~C~   74 (98)
T 2lv9_A           33 CGFTHDDGYMICCDKCSVWQHIDCMGIDR---QHIP-DTYLCERCQ   74 (98)
T ss_dssp             TSCCSCSSCEEEBTTTCBEEETTTTTCCT---TSCC-SSBCCTTTS
T ss_pred             CCCccCCCcEEEcCCCCCcCcCcCCCCCc---cCCC-CCEECCCCc
Confidence            34556788999999999999999998764   3344 479999884

>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

Probab=98.56  E-value=6.1e-08  Score=66.61  Aligned_cols=35  Identities=23%  Similarity=0.710  Sum_probs=29.3

Q ss_pred             CCCceecCC--CC-CCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         13 PEDLVSCSD--CG-RSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        13 ~~~ll~C~~--C~-~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .|+||.||.  |+ .+||+.|+++.     .+|.+.|+|+.|.
T Consensus        46 ~g~MI~CD~~dC~~~WfH~~CVgl~-----~~p~g~W~Cp~C~   83 (91)
T 1weu_A           46 YGEMIGCDNPDCSIEWFHFACVGLT-----TKPRGKWFCPRCS   83 (91)
T ss_dssp             CSCCCCCSCSSCSCCCCCSTTTTCS-----SCCCSSCCCTTTC
T ss_pred             CCCEeEecCCCCCCCCEecccCCcC-----cCCCCCEECcCcc
Confidence            368999999  87 79999999863     4567899999984

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

Probab=98.51  E-value=8.5e-09  Score=76.45  Aligned_cols=46  Identities=15%  Similarity=0.397  Sum_probs=36.2

Q ss_pred             cCCCCCCCCceecCCCCCCCCCCCCCCCccc--ccc--cCCCCcccCCCC
Q psy11251          7 AEKSGQPEDLVSCSDCGRSGHPTCLQFTNNM--KVS--VKQYRWQCIECK   52 (190)
Q Consensus         7 ~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~--~~~--~~~~~W~C~~C~   52 (190)
                      +...++||+||+||+|+++||..|+.++...  ...  .+.+.|+|+.|.
T Consensus        66 C~vC~~GG~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~  115 (142)
T 2lbm_A           66 CRWCAEGGNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICH  115 (142)
T ss_dssp             CSSSCCCSSEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTC
T ss_pred             ecccCCCCcEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeeccc
Confidence            3556899999999999999999999765431  122  478999999884

>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

Probab=98.49  E-value=5e-08  Score=64.23  Aligned_cols=48  Identities=29%  Similarity=0.655  Sum_probs=36.9

Q ss_pred             CCCcCCCCCCC-CCccccCccCCcccCCCCCCCCCCCCCCCccCcccccc
Q psy11251         53 CCSVCGTSDND-DQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE  101 (190)
Q Consensus        53 ~C~~C~~~~~~-~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~  101 (190)
                      +| +|++..+. ..||.||.|..|||..|++..........|+|+.|...
T Consensus        18 ~C-~C~~~~~~g~~mI~Cd~C~~W~H~~Cvg~~~~~~~~~~~~C~~C~~~   66 (72)
T 1wee_A           18 DC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIEL   66 (72)
T ss_dssp             CC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHH
T ss_pred             Ee-eCCCccCCCCcEEECCCCCCccCCeeeccCccccCCCcEECCCccCC
Confidence            45 57877544 47999999999999999996533333479999999864

>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*

Probab=98.47  E-value=1.6e-08  Score=64.17  Aligned_cols=35  Identities=23%  Similarity=0.692  Sum_probs=29.2

Q ss_pred             CCCceecCC--CC-CCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         13 PEDLVSCSD--CG-RSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        13 ~~~ll~C~~--C~-~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      +|+||.||+  |+ .+||+.|+++.     .+|.+.|+|+.|.
T Consensus        19 ~g~mi~CD~~~C~~~wfH~~Cvgl~-----~~p~~~w~Cp~C~   56 (59)
T 3c6w_A           19 YGEMIGCDNPDCPIEWFHFACVDLT-----TKPKGKWFCPRCV   56 (59)
T ss_dssp             CSEEEECSCTTCSSCEEETGGGTCS-----SCCSSCCCCHHHH
T ss_pred             CCCeeEeeCCCCCCCCEecccCCcc-----cCCCCCEECcCcc
Confidence            468999999  88 69999999863     4567899999883

>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}

Probab=98.46  E-value=5e-08  Score=68.91  Aligned_cols=48  Identities=27%  Similarity=0.825  Sum_probs=38.0

Q ss_pred             CCCcCCCCC-CCCCccccC-ccCCcccCCCCCCCCCC--------CCCCCccCccccccc
Q psy11251         53 CCSVCGTSD-NDDQLLFCD-DCDRGYHMYCLVPPIQT--------PPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~-~~~~ll~C~-~C~~~~H~~Cl~p~l~~--------~p~~~W~C~~C~~~~  102 (190)
                      .|.+|++.. +.+.++.|| .|+.|||..|++  |+.        .|.+.|+|+.|....
T Consensus         5 ~C~iC~~p~~~~~~mi~Cdd~C~~WfH~~CVg--lt~~~~~~i~~~~~~~~~Cp~C~~~~   62 (105)
T 2xb1_A            5 PCGACRSEVNDDQDAILCEASCQKWFHRECTG--MTESAYGLLTTEASAVWACDLCLKTK   62 (105)
T ss_dssp             BCTTTCSBCCTTSCEEECTTTTCCEEEGGGTT--CCHHHHHHHHHCTTEEECCHHHHHTT
T ss_pred             CCCCCCCccCCCCCEEEecCCcccccccccCC--cCHHHHHhhccCCCCCEECccccCcC
Confidence            567788763 456799998 999999999999  443        466899999998754

>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}

Probab=98.45  E-value=5.1e-08  Score=60.14  Aligned_cols=44  Identities=20%  Similarity=0.513  Sum_probs=36.2

Q ss_pred             cCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccc
Q psy11251         56 VCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLK  100 (190)
Q Consensus        56 ~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~  100 (190)
                      +|++..+++.||.||.|..+||..|++.....+| +.|+|+.|..
T Consensus         8 ~C~~~~~~~~MI~Cd~C~~W~H~~Cvgi~~~~~~-~~~~C~~C~~   51 (52)
T 3o7a_A            8 FCMKPFAGRPMIECNECHTWIHLSCAKIRKSNVP-EVFVCQKCRD   51 (52)
T ss_dssp             TTCCBCTTCCEEECTTTCCEEETTTTTCCGGGCC-SSCCCHHHHT
T ss_pred             EeCCcCCCCCEEEcCCCCccccccccCCCcccCC-CcEECcCCCC
Confidence            6788777779999999999999999996543333 6999999963

>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*

Probab=98.44  E-value=2.2e-08  Score=63.70  Aligned_cols=35  Identities=20%  Similarity=0.687  Sum_probs=29.2

Q ss_pred             CCCceecCC--CC-CCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         13 PEDLVSCSD--CG-RSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        13 ~~~ll~C~~--C~-~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .|+||.||+  |+ .+||+.|+++     ..+|.+.|+|+.|.
T Consensus        20 ~g~mi~CD~cdC~~~wfH~~Cvgl-----~~~p~g~w~C~~C~   57 (60)
T 2vnf_A           20 YGEMIGCDNPDCSIEWFHFACVGL-----TTKPRGKWFCPRCS   57 (60)
T ss_dssp             CSEEEECSCTTCSSCEEETGGGTC-----SSCCSSCCCCHHHH
T ss_pred             CCCEEEeCCCCCCCceEehhcCCC-----CcCCCCCEECcCcc
Confidence            478999999  77 8999999986     34667899999884

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

Probab=98.43  E-value=2.3e-08  Score=63.96  Aligned_cols=35  Identities=23%  Similarity=0.720  Sum_probs=29.1

Q ss_pred             CCCceecCC--CC-CCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         13 PEDLVSCSD--CG-RSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        13 ~~~ll~C~~--C~-~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .|+||.||+  |+ ++||+.|+++.     .+|.+.|+|+.|.
T Consensus        21 ~g~MI~CD~c~C~~~WfH~~Cvgl~-----~~p~~~w~Cp~C~   58 (62)
T 2g6q_A           21 YGEMIGCDNEQCPIEWFHFSCVSLT-----YKPKGKWYCPKCR   58 (62)
T ss_dssp             CSEEEECSCTTCSSCEEETGGGTCS-----SCCSSCCCCHHHH
T ss_pred             CCCeeeeeCCCCCcccEecccCCcC-----cCCCCCEECcCcc
Confidence            468999999  66 99999999874     3467899999884

>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

Probab=98.41  E-value=7.3e-09  Score=75.60  Aligned_cols=47  Identities=26%  Similarity=0.720  Sum_probs=40.5

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCC-----CC--CCCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQ-----TP--PEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~-----~~--p~~~W~C~~C~~~~  102 (190)
                      +|.+|+   ++++++.||.|+++||..|+.|++.     ++  |.++|+|..|....
T Consensus        59 ~C~vC~---dGG~LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~~~p  112 (129)
T 3ql9_A           59 QCRWCA---EGGNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHPEP  112 (129)
T ss_dssp             SCTTTC---CCSEEEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTCCGG
T ss_pred             cCeecC---CCCeeEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcCCHH
Confidence            788998   5899999999999999999998743     33  78999999997654

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

Probab=98.37  E-value=9.8e-08  Score=65.42  Aligned_cols=35  Identities=23%  Similarity=0.576  Sum_probs=28.6

Q ss_pred             CCCceecCCCC---CCCCCCCCCCCcccccccCCCCcccCC-CC
Q psy11251         13 PEDLVSCSDCG---RSGHPTCLQFTNNMKVSVKQYRWQCIE-CK   52 (190)
Q Consensus        13 ~~~ll~C~~C~---~~~H~~Cl~~~~~~~~~~~~~~W~C~~-C~   52 (190)
                      .|+||.||+|.   .+||+.|+++.     .+|.+.|+|+. |.
T Consensus        36 ~g~MI~CD~c~C~~eWfH~~CVgl~-----~~p~~~W~Cp~cC~   74 (90)
T 2jmi_A           36 YGPMVACDNPACPFEWFHYGCVGLK-----QAPKGKWYCSKDCK   74 (90)
T ss_dssp             SSSEECCCSSSCSCSCEETTTSSCS-----SCTTSCCCSSHHHH
T ss_pred             CCCEEEecCCCCccccCcCccCCCC-----cCCCCCccCChhhc
Confidence            35799999965   89999999873     35678999998 74

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

Probab=98.37  E-value=1.8e-07  Score=57.62  Aligned_cols=47  Identities=21%  Similarity=0.481  Sum_probs=35.3

Q ss_pred             CCCccCCCCCCCCceecC-CCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          3 CPTQAEKSGQPEDLVSCS-DCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         3 C~~~~~~~g~~~~ll~C~-~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      |.......++++.||.|| .|..+||..|+++......   ...|+|+.|+
T Consensus         5 cc~C~~p~~~~~~mI~Cd~~C~~WfH~~Cvgl~~~~~~---~~~~~C~~C~   52 (52)
T 2kgg_A            5 AQNCQRPCKDKVDWVQCDGGCDEWFHQVCVGVSPEMAE---NEDYICINCA   52 (52)
T ss_dssp             CTTCCCCCCTTCCEEECTTTTCCEEETTTTTCCHHHHH---HSCCCCSCC-
T ss_pred             CCCCcCccCCCCcEEEeCCCCCccCcccccCCCccccC---CCCEECCCCC
Confidence            344445556788999999 8999999999998654322   3689999984

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

Probab=98.36  E-value=1.6e-07  Score=61.16  Aligned_cols=46  Identities=22%  Similarity=0.628  Sum_probs=34.4

Q ss_pred             cCCCCCCCCCccccC--ccCCcccCCCCCCCCCCC----CCCCccCcccccc
Q psy11251         56 VCGTSDNDDQLLFCD--DCDRGYHMYCLVPPIQTP----PEGSWSCQLCLKE  101 (190)
Q Consensus        56 ~C~~~~~~~~ll~C~--~C~~~~H~~Cl~p~l~~~----p~~~W~C~~C~~~  101 (190)
                      +|+...+.+.||.||  .|..|||..|++-.....    ....|+|+.|+..
T Consensus        14 ~C~~~~~~g~mI~CD~~~C~~W~H~~Cvgi~~~~~~~~~~p~~~~C~~Cr~~   65 (68)
T 2rsd_A           14 ICSSTMVNDSMIQCEDQRCQVWQHLNCVLIPDKPGESAEVPPVFYCELCRLS   65 (68)
T ss_dssp             TTCCCSCCSCEEECSCTTTCEEEETTTSCCCSSTTSCCCCCSSCCCHHHHHH
T ss_pred             ECCCCcCCCCEEEECCCCCCCeEchhhCCCCcccccccCCCCcEECcCccCc
Confidence            678777788999999  499999999998321111    1147999999753

>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

Probab=98.36  E-value=6.4e-08  Score=64.72  Aligned_cols=47  Identities=30%  Similarity=0.736  Sum_probs=37.8

Q ss_pred             CCCcCCCCCCCCCccccC--ccCCcccCCCCCCCCCCCC-------CCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCD--DCDRGYHMYCLVPPIQTPP-------EGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~--~C~~~~H~~Cl~p~l~~~p-------~~~W~C~~C~~~~  102 (190)
                      +| +|++..+.+.||.||  .|..|||..|++-  ...+       ...|+|+.|....
T Consensus        18 ~C-iC~~~~~~g~MI~CD~~~C~~W~H~~CVgi--~~~~~~~~~~~~~~~~C~~C~~~~   73 (78)
T 1wew_A           18 RC-VCGNSLETDSMIQCEDPRCHVWQHVGCVIL--PDKPMDGNPPLPESFYCEICRLTS   73 (78)
T ss_dssp             CC-SSCCCCCCSCEEECSSTTTCCEEEHHHHSC--CCTTTCSCSCSCSSCCCHHHHHCC
T ss_pred             Ee-ECCCcCCCCCEEEECCccCCccccCEEEcc--ccccccccccCCCCEECCCCCccc
Confidence            55 688876778999999  9999999999994  3333       2589999998643

>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*

Probab=98.33  E-value=2.5e-08  Score=64.43  Aligned_cols=51  Identities=20%  Similarity=0.430  Sum_probs=40.7

Q ss_pred             CCCCccCCCCCCCCceecC-CCCCCCCCCCCCCCcccccc---cCCCCcccCCCC
Q psy11251          2 LCPTQAEKSGQPEDLVSCS-DCGRSGHPTCLQFTNNMKVS---VKQYRWQCIECK   52 (190)
Q Consensus         2 ~C~~~~~~~g~~~~ll~C~-~C~~~~H~~Cl~~~~~~~~~---~~~~~W~C~~C~   52 (190)
                      +|..+....++...+|.|| .|.++||..|+++.......   .+...|+|+.|.
T Consensus        10 ~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cvglt~~~~~~l~~e~~~~w~C~~C~   64 (65)
T 2vpb_A           10 PCGICTNEVNDDQDAILCEASCQKWFHRICTGMTETAYGLLTAEASAVWGCDTCM   64 (65)
T ss_dssp             BCTTTCSBCCTTSCEEEBTTTTCCEEEHHHHTCCHHHHHHHHHCTTEEECCHHHH
T ss_pred             cCccCCCccCCCCCeEecccCccccCchhccCCCHHHHHHhhccCCCcEECcCcc
Confidence            4777777777888999999 99999999999987754332   256799999873

>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}

Probab=98.31  E-value=6.7e-08  Score=68.26  Aligned_cols=51  Identities=20%  Similarity=0.414  Sum_probs=40.1

Q ss_pred             CCCCccCCCCCCCCceecC-CCCCCCCCCCCCCCcccccc---cCCCCcccCCCC
Q psy11251          2 LCPTQAEKSGQPEDLVSCS-DCGRSGHPTCLQFTNNMKVS---VKQYRWQCIECK   52 (190)
Q Consensus         2 ~C~~~~~~~g~~~~ll~C~-~C~~~~H~~Cl~~~~~~~~~---~~~~~W~C~~C~   52 (190)
                      .|..+....++.++||.|+ .|..+||..|++++......   .+...|+|+.|.
T Consensus         5 ~C~iC~~p~~~~~~mi~Cdd~C~~WfH~~CVglt~~~~~~i~~~~~~~~~Cp~C~   59 (105)
T 2xb1_A            5 PCGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCL   59 (105)
T ss_dssp             BCTTTCSBCCTTSCEEECTTTTCCEEEGGGTTCCHHHHHHHHHCTTEEECCHHHH
T ss_pred             CCCCCCCccCCCCCEEEecCCcccccccccCCcCHHHHHhhccCCCCCEECcccc
Confidence            4777777766778899998 99999999999987654333   256799998884

>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*

Probab=98.30  E-value=4.1e-08  Score=63.39  Aligned_cols=47  Identities=21%  Similarity=0.772  Sum_probs=36.3

Q ss_pred             CCCcCCCCC-CCCCccccC-ccCCcccCCCCCCCCC------CCCCCCccCcccc
Q psy11251         53 CCSVCGTSD-NDDQLLFCD-DCDRGYHMYCLVPPIQ------TPPEGSWSCQLCL   99 (190)
Q Consensus        53 ~C~~C~~~~-~~~~ll~C~-~C~~~~H~~Cl~p~l~------~~p~~~W~C~~C~   99 (190)
                      .|.+|++.. ++..+|.|| .|.++||..|++-...      ..|.+.|+|+.|.
T Consensus        10 ~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cvglt~~~~~~l~~e~~~~w~C~~C~   64 (65)
T 2vpb_A           10 PCGICTNEVNDDQDAILCEASCQKWFHRICTGMTETAYGLLTAEASAVWGCDTCM   64 (65)
T ss_dssp             BCTTTCSBCCTTSCEEEBTTTTCCEEEHHHHTCCHHHHHHHHHCTTEEECCHHHH
T ss_pred             cCccCCCccCCCCCeEecccCccccCchhccCCCHHHHHHhhccCCCcEECcCcc
Confidence            567788764 456889999 9999999999994321      1366799999996

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

Probab=98.30  E-value=8e-08  Score=59.26  Aligned_cols=47  Identities=19%  Similarity=0.489  Sum_probs=34.7

Q ss_pred             CCCcCCCCCC-CCCccccC-ccCCcccCCCCCCCCCCCCCCCccCcccc
Q psy11251         53 CCSVCGTSDN-DDQLLFCD-DCDRGYHMYCLVPPIQTPPEGSWSCQLCL   99 (190)
Q Consensus        53 ~C~~C~~~~~-~~~ll~C~-~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~   99 (190)
                      .|.+|++..+ ++.+|.|| .|+.+||..|++-.........|+|+.|.
T Consensus         4 ~cc~C~~p~~~~~~mI~Cd~~C~~WfH~~Cvgl~~~~~~~~~~~C~~C~   52 (52)
T 2kgg_A            4 AAQNCQRPCKDKVDWVQCDGGCDEWFHQVCVGVSPEMAENEDYICINCA   52 (52)
T ss_dssp             SCTTCCCCCCTTCCEEECTTTTCCEEETTTTTCCHHHHHHSCCCCSCC-
T ss_pred             cCCCCcCccCCCCcEEEeCCCCCccCcccccCCCccccCCCCEECCCCC
Confidence            4568888764 56799999 89999999999943221123789999984

>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

Probab=98.29  E-value=3.6e-08  Score=65.56  Aligned_cols=49  Identities=20%  Similarity=0.537  Sum_probs=37.7

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCC-----CCCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTP-----PEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~-----p~~~W~C~~C~~~~  102 (190)
                      +| +|++..+++.||.||.|..|||..|++......     +...|+|+.|....
T Consensus        18 ~C-~C~~~~~~~~MI~Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~~   71 (76)
T 1wem_A           18 YC-ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILS   71 (76)
T ss_dssp             CS-TTCCCCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHS
T ss_pred             EE-ECCCccCCCCEEEeCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCcCcc
Confidence            45 688877777999999999999999998432110     24689999998643

>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

Probab=98.29  E-value=2.7e-07  Score=59.21  Aligned_cols=49  Identities=20%  Similarity=0.407  Sum_probs=36.5

Q ss_pred             CCCCccCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          2 LCPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         2 ~C~~~~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      +|..+.....+++.||.|+.|..+||..|+++.......  ...|+|+.|.
T Consensus         8 ~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~--~~~~~C~~C~   56 (64)
T 1we9_A            8 QCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEH--IKQYKCPSCS   56 (64)
T ss_dssp             CCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGG--CSSCCCHHHH
T ss_pred             CCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcC--CCcEECCCCc
Confidence            455555555567899999999999999999986543221  3589988884

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

Probab=98.27  E-value=7.8e-08  Score=68.98  Aligned_cols=83  Identities=20%  Similarity=0.339  Sum_probs=50.0

Q ss_pred             cCCCCCCCCCCCCCCCccccc---ccCCCC------cccCCCCCCCcCCCC-CCCCCccccCccCCcccCCCCCCCCCCC
Q psy11251         19 CSDCGRSGHPTCLQFTNNMKV---SVKQYR------WQCIECKCCSVCGTS-DNDDQLLFCDDCDRGYHMYCLVPPIQTP   88 (190)
Q Consensus        19 C~~C~~~~H~~Cl~~~~~~~~---~~~~~~------W~C~~C~~C~~C~~~-~~~~~ll~C~~C~~~~H~~Cl~p~l~~~   88 (190)
                      |+.|...||..|++.+..+-.   .-.-..      +.|..|..|..|... +.+..|+.|+.|+.+||..|++++...+
T Consensus        18 C~~C~~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~c~~c~~c~~c~~~~~~~~~m~~C~~C~~~~H~~C~~~~~~~~   97 (117)
T 4bbq_A           18 CGVCHYCRDMKKFGGPGRMKQSCVLRQCLAPRLPHSVTCSLCGEVDQNEETQDFEKKLMECCICNEIVHPGCLQMDGEGL   97 (117)
T ss_dssp             CSCSHHHHHSGGGTSCCCSCCCCGGGCCSSCBCCTTCBCTTTCCBCCHHHHCCGGGSCEEETTTCCEECGGGCCSCCCCE
T ss_pred             CCCCCCCcCCcccCCCCccccchhheeeccccccccccccccCcccccccccccCcceEEeeecCCeEECCCCCCCcccc
Confidence            899999999999875432210   000111      222222233333221 2234688999999999999999875543


Q ss_pred             CC----CCccCcccccc
Q psy11251         89 PE----GSWSCQLCLKE  101 (190)
Q Consensus        89 p~----~~W~C~~C~~~  101 (190)
                      +.    ..|.|+.|...
T Consensus        98 ~~~~~~~~~~C~~C~~~  114 (117)
T 4bbq_A           98 LNEELPNCWECPKCYQE  114 (117)
T ss_dssp             ECSSSSSEEECTTTC--
T ss_pred             ccccCCCCeECCCCcCC
Confidence            33    35999999864

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

Probab=98.26  E-value=8.5e-08  Score=64.25  Aligned_cols=49  Identities=20%  Similarity=0.504  Sum_probs=37.1

Q ss_pred             CCCcCCCCCC-CCCccccCccCCcccCCCCCCCCCCC-CCCCccCccccccc
Q psy11251         53 CCSVCGTSDN-DDQLLFCDDCDRGYHMYCLVPPIQTP-PEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~-~~~ll~C~~C~~~~H~~Cl~p~l~~~-p~~~W~C~~C~~~~  102 (190)
                      +| +|++..+ ++.||.||.|..|||..|++-..... ....|+|+.|....
T Consensus        14 ~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~   64 (79)
T 1wep_A           14 YC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             EE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCccccc
Confidence            45 7887654 67899999999999999998432221 13689999998754

>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*

Probab=98.18  E-value=1e-07  Score=72.88  Aligned_cols=49  Identities=22%  Similarity=0.525  Sum_probs=36.8

Q ss_pred             CCCcCCCCC-CCCCccccCccCCcccCCCCCCCCCC-CCCCCccCccccccc
Q psy11251         53 CCSVCGTSD-NDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~-~~~~ll~C~~C~~~~H~~Cl~p~l~~-~p~~~W~C~~C~~~~  102 (190)
                      +| +|++.. +++.+|.||.|++|||..|++..... ...+.|+|+.|....
T Consensus        10 ~C-~C~~~~~~~~~mi~Cd~C~~WfH~~Cv~~~~~~~~~~~~~~C~~C~~~~   60 (174)
T 2ri7_A           10 YC-ICKTPEDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQSTE   60 (174)
T ss_dssp             ET-TTTEECCTTSCEEECTTTCCEEEHHHHTCCHHHHTTCSSCCCHHHHHHH
T ss_pred             Ee-eCCCCCCCCCCEeECCCCCchhChhhcCCchhhccCccCeecCCCcchh
Confidence            45 667654 36789999999999999999853222 235799999998653

>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

Probab=98.14  E-value=1.3e-07  Score=68.91  Aligned_cols=46  Identities=15%  Similarity=0.438  Sum_probs=35.2

Q ss_pred             cCCCCCCCCceecCCCCCCCCCCCCCCCcc--ccccc--CCCCcccCCCC
Q psy11251          7 AEKSGQPEDLVSCSDCGRSGHPTCLQFTNN--MKVSV--KQYRWQCIECK   52 (190)
Q Consensus         7 ~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~--~~~~~--~~~~W~C~~C~   52 (190)
                      +.-.++||+|++||.|+++||..|+.++..  ....+  +.+.|+|..|.
T Consensus        60 C~vC~dGG~LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~  109 (129)
T 3ql9_A           60 CRWCAEGGNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICH  109 (129)
T ss_dssp             CTTTCCCSEEEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTC
T ss_pred             CeecCCCCeeEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcC
Confidence            356789999999999999999999975321  12233  68999988883

>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}

Probab=98.12  E-value=6.4e-07  Score=55.13  Aligned_cols=38  Identities=18%  Similarity=0.544  Sum_probs=30.9

Q ss_pred             CCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         11 GQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        11 g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .+++.||.|+.|..+||..|+++...   .+ ...|+|+.|.
T Consensus        13 ~~~~~MI~Cd~C~~W~H~~Cvgi~~~---~~-~~~~~C~~C~   50 (52)
T 3o7a_A           13 FAGRPMIECNECHTWIHLSCAKIRKS---NV-PEVFVCQKCR   50 (52)
T ss_dssp             CTTCCEEECTTTCCEEETTTTTCCGG---GC-CSSCCCHHHH
T ss_pred             CCCCCEEEcCCCCccccccccCCCcc---cC-CCcEECcCCC
Confidence            35789999999999999999998653   23 3689998873

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

Probab=98.12  E-value=2.7e-07  Score=60.35  Aligned_cols=35  Identities=23%  Similarity=0.595  Sum_probs=28.8

Q ss_pred             CCCceecCCCC---CCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         13 PEDLVSCSDCG---RSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        13 ~~~ll~C~~C~---~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .|.||.||.|.   .+||+.|+++.     .++.+.|+|+.|.
T Consensus        16 ~g~MI~CD~cdC~~~WfH~~Cvgl~-----~~p~~~w~Cp~C~   53 (70)
T 1x4i_A           16 YGEMVGCDNQDCPIEWFHYGCVGLT-----EAPKGKWYCPQCT   53 (70)
T ss_dssp             CSSEECCSCTTCSCCCEEHHHHTCS-----SCCSSCCCCHHHH
T ss_pred             CCCEeEeCCCCCCccCCcccccccC-----cCCCCCEECCCCC
Confidence            45999999974   89999999874     3467899999884

>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}

Probab=98.07  E-value=1.1e-06  Score=57.05  Aligned_cols=39  Identities=18%  Similarity=0.534  Sum_probs=31.0

Q ss_pred             CCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         10 SGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        10 ~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      ..+++.||.|+.|..+||..|+++...   .+ ...|+|+.|.
T Consensus        27 ~~~~~~MIqCd~C~~WfH~~Cvgi~~~---~~-~~~~~C~~C~   65 (68)
T 3o70_A           27 PFAGRPMIECNECHTWIHLSCAKIRKS---NV-PEVFVCQKCR   65 (68)
T ss_dssp             CCTTCCEEECTTTCCEEETTTTTCCTT---SC-CSSCCCHHHH
T ss_pred             cCCCCCEEECCCCCccccccccCcCcc---cC-CCcEECCCCC
Confidence            345778999999999999999998653   23 3689998873

>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

Probab=98.05  E-value=8.7e-07  Score=58.20  Aligned_cols=39  Identities=23%  Similarity=0.659  Sum_probs=30.5

Q ss_pred             CCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         11 GQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        11 g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .+++.||.|+.|..+||..|+++...  .. ....|+|+.|.
T Consensus        26 ~~g~~mI~Cd~C~~W~H~~Cvg~~~~--~~-~~~~~~C~~C~   64 (72)
T 1wee_A           26 DDGERMLACDGCGVWHHTRCIGINNA--DA-LPSKFLCFRCI   64 (72)
T ss_dssp             CCSSCEEECSSSCEEEETTTTTCCTT--SC-CCSCCCCHHHH
T ss_pred             CCCCcEEECCCCCCccCCeeeccCcc--cc-CCCcEECCCcc
Confidence            45668999999999999999998642  12 24789998884

>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

Probab=98.02  E-value=4.1e-07  Score=60.26  Aligned_cols=47  Identities=23%  Similarity=0.567  Sum_probs=36.0

Q ss_pred             cCCCCCC-CCCccccCccCCcccCCCCCCCCCCCCC-CCccCccccccc
Q psy11251         56 VCGTSDN-DDQLLFCDDCDRGYHMYCLVPPIQTPPE-GSWSCQLCLKEF  102 (190)
Q Consensus        56 ~C~~~~~-~~~ll~C~~C~~~~H~~Cl~p~l~~~p~-~~W~C~~C~~~~  102 (190)
                      +|++..+ ++.||.||.|..+||..|++......+. ..|+|+.|....
T Consensus        14 iC~~~~~~~~~MI~Cd~C~~WfH~~Cvg~~~~~~~~~~~~~C~~C~~~~   62 (75)
T 3kqi_A           14 VCRLPYDVTRFMIECDACKDWFHGSCVGVEEEEAPDIDIYHCPNCEKTH   62 (75)
T ss_dssp             TTTEECCTTSCEEECTTTCCEEEHHHHTCCTTTGGGBSSCCCHHHHHHH
T ss_pred             ECCCcCCCCCCEEEcCCCCCCEecccccccccccCCCCEEECCCCcccC
Confidence            6777644 5789999999999999999954333332 589999998653

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

Probab=97.97  E-value=1.9e-06  Score=57.58  Aligned_cols=41  Identities=17%  Similarity=0.427  Sum_probs=31.7

Q ss_pred             CCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         10 SGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        10 ~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      ..+++.||.|+.|..+||..|+++.....  .....|+|+.|.
T Consensus        21 ~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~--~~~~~~~C~~C~   61 (79)
T 1wep_A           21 YNVNHFMIECGLCQDWFHGSCVGIEEENA--VDIDIYHCPDCE   61 (79)
T ss_dssp             CCSSSCEEEBTTTCCEEEHHHHTCCHHHH--TTCSBBCCTTTT
T ss_pred             cCCCCceEEcCCCCCcEEeeecCcccccc--cCCCeEECCCcc
Confidence            34578999999999999999999865322  124689888884

>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

Probab=97.95  E-value=5.1e-07  Score=59.92  Aligned_cols=43  Identities=14%  Similarity=0.389  Sum_probs=32.1

Q ss_pred             CCCCCCceecCCCCCCCCCCCCCCCccccccc--CCCCcccCCCC
Q psy11251         10 SGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSV--KQYRWQCIECK   52 (190)
Q Consensus        10 ~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~--~~~~W~C~~C~   52 (190)
                      ..+++.||.|+.|..+||..|+++.......+  ....|+|+.|.
T Consensus        24 ~~~~~~MI~Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~   68 (76)
T 1wem_A           24 PHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCT   68 (76)
T ss_dssp             CCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHH
T ss_pred             ccCCCCEEEeCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCc
Confidence            33567999999999999999999865432211  25689998874

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

Probab=97.94  E-value=1.5e-06  Score=56.41  Aligned_cols=45  Identities=18%  Similarity=0.414  Sum_probs=32.2

Q ss_pred             CCCCCCCCceecCC--CCCCCCCCCCCCCcccccc-cCCCCcccCCCC
Q psy11251          8 EKSGQPEDLVSCSD--CGRSGHPTCLQFTNNMKVS-VKQYRWQCIECK   52 (190)
Q Consensus         8 ~~~g~~~~ll~C~~--C~~~~H~~Cl~~~~~~~~~-~~~~~W~C~~C~   52 (190)
                      +...+.|.||.|++  |..+||..|+++....... .....|+|+.|+
T Consensus        16 ~~~~~~g~mI~CD~~~C~~W~H~~Cvgi~~~~~~~~~~p~~~~C~~Cr   63 (68)
T 2rsd_A           16 SSTMVNDSMIQCEDQRCQVWQHLNCVLIPDKPGESAEVPPVFYCELCR   63 (68)
T ss_dssp             CCCSCCSCEEECSCTTTCEEEETTTSCCCSSTTSCCCCCSSCCCHHHH
T ss_pred             CCCcCCCCEEEECCCCCCCeEchhhCCCCcccccccCCCCcEECcCcc
Confidence            34456789999995  9999999999975432221 123579998884

>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*

Probab=97.80  E-value=1.4e-06  Score=66.55  Aligned_cols=46  Identities=13%  Similarity=0.353  Sum_probs=34.0

Q ss_pred             CccCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          5 TQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         5 ~~~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .+....++++.||.||.|.++||..|+++....  ....+.|+|+.|.
T Consensus        12 ~C~~~~~~~~~mi~Cd~C~~WfH~~Cv~~~~~~--~~~~~~~~C~~C~   57 (174)
T 2ri7_A           12 ICKTPEDESKFYIGCDRCQNWYHGRCVGILQSE--AELIDEYVCPQCQ   57 (174)
T ss_dssp             TTTEECCTTSCEEECTTTCCEEEHHHHTCCHHH--HTTCSSCCCHHHH
T ss_pred             eCCCCCCCCCCEeECCCCCchhChhhcCCchhh--ccCccCeecCCCc
Confidence            333334457899999999999999999875432  1235789998885

>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

Probab=97.74  E-value=4.8e-06  Score=55.60  Aligned_cols=49  Identities=31%  Similarity=0.630  Sum_probs=39.0

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCC------------CCCCCCCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPP------------IQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~------------l~~~p~~~W~C~~C~~~~  102 (190)
                      .|.||..+. .+.++.|..|.+.||..||.++            +...+...|.|+.|.+..
T Consensus        17 ~C~VC~~~t-~~~l~pCRvC~RvfH~~CL~r~gy~~~~~a~e~~l~A~T~~GWSC~~CenL~   77 (89)
T 1wil_A           17 MCDVCEVWT-AESLFPCRVCTRVFHDGCLRRMGYIQGDSAAEVTEMAHTETGWSCHYCDNIN   77 (89)
T ss_dssp             CCTTTCCCC-SSCCSSCSSSSSCCCHHHHHHHTSCCCCCCCSCSCCCSSSSSCCCTTTCCCC
T ss_pred             ccCcccccc-ccceeccccccccccHhhcccccccccHHHHHHHHccCCCCCccccccchhh
Confidence            677787663 6788999999999999999873            344566799999997654

>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

Probab=97.69  E-value=4.8e-06  Score=64.25  Aligned_cols=51  Identities=27%  Similarity=0.662  Sum_probs=36.6

Q ss_pred             CCCcCCCCCCCC----CccccCccCCcccCCCCCCCCC------CCCC-CCccCcccccccc
Q psy11251         53 CCSVCGTSDNDD----QLLFCDDCDRGYHMYCLVPPIQ------TPPE-GSWSCQLCLKEFH  103 (190)
Q Consensus        53 ~C~~C~~~~~~~----~ll~C~~C~~~~H~~Cl~p~l~------~~p~-~~W~C~~C~~~~~  103 (190)
                      +|.+|++..+++    .||.||.|+.|||..|++....      ..|+ ..|+|+.|.....
T Consensus         4 ~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~~~   65 (183)
T 3lqh_A            4 FCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERHP   65 (183)
T ss_dssp             BCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCSSS
T ss_pred             cCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCCCC
Confidence            467777654444    4999999999999999984311      1232 3899999987643

>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

Probab=97.65  E-value=6.6e-06  Score=54.79  Aligned_cols=42  Identities=14%  Similarity=0.401  Sum_probs=31.3

Q ss_pred             CCCCCceecC--CCCCCCCCCCCCCCccccc--ccCCCCcccCCCC
Q psy11251         11 GQPEDLVSCS--DCGRSGHPTCLQFTNNMKV--SVKQYRWQCIECK   52 (190)
Q Consensus        11 g~~~~ll~C~--~C~~~~H~~Cl~~~~~~~~--~~~~~~W~C~~C~   52 (190)
                      .+.|.||.|+  .|..+||..|++++.....  ......|+|+.|.
T Consensus        25 ~~~g~MI~CD~~~C~~W~H~~CVgi~~~~~~~~~~~~~~~~C~~C~   70 (78)
T 1wew_A           25 LETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICR   70 (78)
T ss_dssp             CCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHH
T ss_pred             CCCCCEEEECCccCCccccCEEEccccccccccccCCCCEECCCCC
Confidence            4678999999  9999999999998653211  0124689998884

>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

Probab=97.64  E-value=3.8e-06  Score=55.51  Aligned_cols=40  Identities=15%  Similarity=0.426  Sum_probs=30.6

Q ss_pred             CCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         11 GQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        11 g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      ++++.||.|+.|..+||..|+++.......  ...|+|+.|.
T Consensus        20 ~~~~~MI~Cd~C~~WfH~~Cvg~~~~~~~~--~~~~~C~~C~   59 (75)
T 3kqi_A           20 DVTRFMIECDACKDWFHGSCVGVEEEEAPD--IDIYHCPNCE   59 (75)
T ss_dssp             CTTSCEEECTTTCCEEEHHHHTCCTTTGGG--BSSCCCHHHH
T ss_pred             CCCCCEEEcCCCCCCEecccccccccccCC--CCEEECCCCc
Confidence            457899999999999999999986532221  2579888874

>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

Probab=97.47  E-value=2.7e-05  Score=60.08  Aligned_cols=51  Identities=20%  Similarity=0.610  Sum_probs=35.1

Q ss_pred             CCCCccCCCCCC---CCceecCCCCCCCCCCCCCCCccccccc---C-CCCcccCCCC
Q psy11251          2 LCPTQAEKSGQP---EDLVSCSDCGRSGHPTCLQFTNNMKVSV---K-QYRWQCIECK   52 (190)
Q Consensus         2 ~C~~~~~~~g~~---~~ll~C~~C~~~~H~~Cl~~~~~~~~~~---~-~~~W~C~~C~   52 (190)
                      +|..+.....++   +.||.||.|.++||..|+++..+..+.+   | ...|+|+.|.
T Consensus         4 ~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~   61 (183)
T 3lqh_A            4 FCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCT   61 (183)
T ss_dssp             BCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTC
T ss_pred             cCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCC
Confidence            355555544443   4699999999999999999876432222   2 2379888884

>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*

Probab=97.32  E-value=7.9e-05  Score=65.70  Aligned_cols=50  Identities=14%  Similarity=0.230  Sum_probs=37.4

Q ss_pred             CCCCCccCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          1 MLCPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         1 ~~C~~~~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      |.+.++--..+.+..||.||.|..+||..|+++......  ....|+||.|.
T Consensus        43 ~s~kk~~~~~n~~~~mI~CD~C~~WfH~~CVgi~~~~a~--~~~~y~Cp~C~   92 (528)
T 3pur_A           43 MSKKKSHHHKKNDFQWIGCDSCQTWYHFLCSGLEQFEYY--LYEKFFCPKCV   92 (528)
T ss_dssp             CSCCCTTTTTTSTTSEEECTTTCCEEEGGGTTCCGGGTT--TEEECCCTTTH
T ss_pred             ccccccccCCCcCCCEEECCCCCcCCCCcCCCCChhHhc--CCCeEECcCCc
Confidence            344444455567789999999999999999998764322  23689999995

>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*

Probab=97.22  E-value=1.6e-05  Score=70.06  Aligned_cols=45  Identities=20%  Similarity=0.511  Sum_probs=35.7

Q ss_pred             cCCCCCC-CCCccccCccCCcccCCCCCCCCCCCCC---CCccCccccccc
Q psy11251         56 VCGTSDN-DDQLLFCDDCDRGYHMYCLVPPIQTPPE---GSWSCQLCLKEF  102 (190)
Q Consensus        56 ~C~~~~~-~~~ll~C~~C~~~~H~~Cl~p~l~~~p~---~~W~C~~C~~~~  102 (190)
                      +|++..+ ++.||.||.|+.+||..|++  +...+.   +.|+|+.|....
T Consensus        41 ~C~~~~d~~~~MIqCd~C~~WfH~~Cvg--l~~~~~~~~~~~~C~~C~~~~   89 (488)
T 3kv5_D           41 VCRQPYDVNRFMIECDICKDWFHGSCVG--VEEHHAVDIDLYHCPNCAVLH   89 (488)
T ss_dssp             TTTEECCTTSCEEEBTTTCCEEEHHHHT--CCGGGGGGEEEBCCHHHHHHH
T ss_pred             eCCCcCCCCCCeEEccCCCCceeeeecC--cCcccccCCCEEECCCCcCCc
Confidence            7887643 78899999999999999998  444332   589999998643

>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

Probab=96.87  E-value=0.00029  Score=47.00  Aligned_cols=41  Identities=27%  Similarity=0.647  Sum_probs=30.5

Q ss_pred             CCCCceecCCCCCCCCCCCCCCC--------ccc-ccccCCCCcccCCCC
Q psy11251         12 QPEDLVSCSDCGRSGHPTCLQFT--------NNM-KVSVKQYRWQCIECK   52 (190)
Q Consensus        12 ~~~~ll~C~~C~~~~H~~Cl~~~--------~~~-~~~~~~~~W~C~~C~   52 (190)
                      ..++|+-|..|++.||..||...        .++ .....+..|.|+.|.
T Consensus        25 t~~~l~pCRvC~RvfH~~CL~r~gy~~~~~a~e~~l~A~T~~GWSC~~Ce   74 (89)
T 1wil_A           25 TAESLFPCRVCTRVFHDGCLRRMGYIQGDSAAEVTEMAHTETGWSCHYCD   74 (89)
T ss_dssp             CSSCCSSCSSSSSCCCHHHHHHHTSCCCCCCCSCSCCCSSSSSCCCTTTC
T ss_pred             cccceeccccccccccHhhcccccccccHHHHHHHHccCCCCCccccccc
Confidence            37899999999999999998742        111 123356789999884

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

Probab=96.82  E-value=0.00022  Score=50.68  Aligned_cols=43  Identities=26%  Similarity=0.569  Sum_probs=31.1

Q ss_pred             CCCCCCceecCCCCCCCCCCCCCCCccc-ccccCCCCcccCCCC
Q psy11251         10 SGQPEDLVSCSDCGRSGHPTCLQFTNNM-KVSVKQYRWQCIECK   52 (190)
Q Consensus        10 ~g~~~~ll~C~~C~~~~H~~Cl~~~~~~-~~~~~~~~W~C~~C~   52 (190)
                      ......||.|+.|..+||..|+++..+. +.......|.|+.|.
T Consensus        69 ~~~~~~m~~C~~C~~~~H~~C~~~~~~~~~~~~~~~~~~C~~C~  112 (117)
T 4bbq_A           69 QDFEKKLMECCICNEIVHPGCLQMDGEGLLNEELPNCWECPKCY  112 (117)
T ss_dssp             CCGGGSCEEETTTCCEECGGGCCSCCCCEECSSSSSEEECTTTC
T ss_pred             cccCcceEEeeecCCeEECCCCCCCccccccccCCCCeECCCCc
Confidence            3345669999999999999999876532 222234569999884

>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*

Probab=96.56  E-value=0.00051  Score=60.59  Aligned_cols=83  Identities=22%  Similarity=0.319  Sum_probs=44.3

Q ss_pred             CCCceecCCCCCCCCCCCCCCCcccccccCC-CCcccCCCCCCCcCCC-CCCCCCccccCccCCcccCCCCCCCCCCCC-
Q psy11251         13 PEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQ-YRWQCIECKCCSVCGT-SDNDDQLLFCDDCDRGYHMYCLVPPIQTPP-   89 (190)
Q Consensus        13 ~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~-~~W~C~~C~~C~~C~~-~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p-   89 (190)
                      +.+-..|.+||..-|-.=+.. .+... -++ ..-.+    .+.-... .+.+..+|.||.|+.+||..|++-...... 
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~~-~~~~~-~~~~~~~~~----s~kk~~~~~n~~~~mI~CD~C~~WfH~~CVgi~~~~a~~   82 (528)
T 3pur_A            9 PKESDRCGGCGKFTHEDDLIA-LEEEK-KKEKEKPLM----SKKKSHHHKKNDFQWIGCDSCQTWYHFLCSGLEQFEYYL   82 (528)
T ss_dssp             CCCSCCCTTTCCCC---------------------CC----SCCCTTTTTTSTTSEEECTTTCCEEEGGGTTCCGGGTTT
T ss_pred             CCccchhhcccCCCchhhHHH-HHHHh-hhhhhhccc----cccccccCCCcCCCEEECCCCCcCCCCcCCCCChhHhcC
Confidence            455678999999988542211 00000 000 00000    1112221 234568899999999999999994322222 


Q ss_pred             CCCccCcccccc
Q psy11251         90 EGSWSCQLCLKE  101 (190)
Q Consensus        90 ~~~W~C~~C~~~  101 (190)
                      .+.|+||.|...
T Consensus        83 ~~~y~Cp~C~~~   94 (528)
T 3pur_A           83 YEKFFCPKCVPH   94 (528)
T ss_dssp             EEECCCTTTHHH
T ss_pred             CCeEECcCCcCC
Confidence            268999999864

>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}

Probab=96.46  E-value=0.0001  Score=64.15  Aligned_cols=46  Identities=17%  Similarity=0.444  Sum_probs=35.1

Q ss_pred             cCCCCCC-CCCccccCccCCcccCCCCCCCCCCCCC-CCccCcccccc
Q psy11251         56 VCGTSDN-DDQLLFCDDCDRGYHMYCLVPPIQTPPE-GSWSCQLCLKE  101 (190)
Q Consensus        56 ~C~~~~~-~~~ll~C~~C~~~~H~~Cl~p~l~~~p~-~~W~C~~C~~~  101 (190)
                      +|++..+ ++.||.||.|+.+||..|++-.....+. +.|+|+.|...
T Consensus         9 iC~~~~d~~~~MIqCD~C~~WfH~~CVgi~~~~~~~~~~y~C~~C~~~   56 (447)
T 3kv4_A            9 LCRLPYDVTRFMIECDMCQDWFHGSCVGVEEEKAADIDLYHCPNCEVL   56 (447)
T ss_dssp             TTTEECCTTSCEEECTTTCCEEEHHHHTCCHHHHTTEEECCCHHHHHH
T ss_pred             eCCCcCCCCCCeEEcCCCCcccccccCCcCcccccCCCEEECCCCccc
Confidence            7777643 6899999999999999999833222222 68999999764

>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*

Probab=96.44  E-value=0.00025  Score=62.43  Aligned_cols=40  Identities=18%  Similarity=0.428  Sum_probs=31.4

Q ss_pred             CCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         11 GQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        11 g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      +.++.||.||.|..+||..|+++.......  ...|+|+.|.
T Consensus        47 d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~--~~~~~C~~C~   86 (488)
T 3kv5_D           47 DVNRFMIECDICKDWFHGSCVGVEEHHAVD--IDLYHCPNCA   86 (488)
T ss_dssp             CTTSCEEEBTTTCCEEEHHHHTCCGGGGGG--EEEBCCHHHH
T ss_pred             CCCCCeEEccCCCCceeeeecCcCcccccC--CCEEECCCCc
Confidence            447899999999999999999986533221  2579999885

>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}

Probab=96.41  E-value=0.00021  Score=62.19  Aligned_cols=41  Identities=15%  Similarity=0.401  Sum_probs=31.9

Q ss_pred             CCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         10 SGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        10 ~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      ..+++.||.||.|..+||..|++++.....  ....|+|+.|.
T Consensus        14 ~d~~~~MIqCD~C~~WfH~~CVgi~~~~~~--~~~~y~C~~C~   54 (447)
T 3kv4_A           14 YDVTRFMIECDMCQDWFHGSCVGVEEEKAA--DIDLYHCPNCE   54 (447)
T ss_dssp             CCTTSCEEECTTTCCEEEHHHHTCCHHHHT--TEEECCCHHHH
T ss_pred             CCCCCCeEEcCCCCcccccccCCcCccccc--CCCEEECCCCc
Confidence            345799999999999999999998653221  13589999885

>4akv_A Sorting nexin-33; transport protein, organelle biogenesis; 2.65A {Homo sapiens}

Probab=96.41  E-value=0.00084  Score=57.35  Aligned_cols=62  Identities=15%  Similarity=0.177  Sum_probs=54.5

Q ss_pred             hHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhc
Q psy11251        121 AETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERART  182 (190)
Q Consensus       121 se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~  182 (190)
                      ++.++++..+....+.+++..+.+.|.+|.+...+.++++++|.++|++|++++|.++++++
T Consensus       259 ~~~~e~i~~l~~~Qa~~d~~~L~E~L~~Y~~ll~s~Kdll~~R~~aL~k~~ea~kl~~~~K~  320 (386)
T 4akv_A          259 GRTYEAIGEMFAEQPKNDLFQMLDTLSLYQGLLSNFPDIIHLQKGAFAKVKESQRMSDEGRM  320 (386)
T ss_dssp             HHHHHHHHHHHHHGGGTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCc
Confidence            45567778888888999999999999999999999999999999999999999987766443

>3dyt_A Sorting nexin-9; 3-helix bundle, BAR domain, PX domain, phosphoprotein, protein transport, SH3 domain, transport, transport protein; 2.08A {Homo sapiens} PDB: 3dyu_A 2raj_A 2rai_A 2rak_A*

Probab=96.19  E-value=0.00049  Score=58.34  Aligned_cols=65  Identities=6%  Similarity=0.042  Sum_probs=56.0

Q ss_pred             hHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcCCC
Q psy11251        121 AETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTKNK  185 (190)
Q Consensus       121 se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~~~  185 (190)
                      ++.++++..+....+.+++..+.+.|.+|.+...+.++++++|.++|++|.+++|.+..+++.+.
T Consensus       239 ~~~~~~i~~l~~~qa~~d~~~l~E~L~~Y~~~l~avKd~l~~r~~aL~k~~e~~kl~~~~K~~~~  303 (366)
T 3dyt_A          239 GKTYEEIASLVAEQPKKDLHFLMECNHEYKGFLGCFPDIIGTHKGAIEKVKESDKLVATSKITLQ  303 (366)
T ss_dssp             HHHHHHHHHHHHHSGGGTHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHTHHHHHHTTSSCHH
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcchh
Confidence            34556777788888888889999999999999999999999999999999999988877765543

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

Probab=96.05  E-value=0.00069  Score=48.69  Aligned_cols=37  Identities=22%  Similarity=0.744  Sum_probs=27.8

Q ss_pred             CceecCCCCCCCCCCCCCCCcccc---cccC-CCCcccCCC
Q psy11251         15 DLVSCSDCGRSGHPTCLQFTNNMK---VSVK-QYRWQCIEC   51 (190)
Q Consensus        15 ~ll~C~~C~~~~H~~Cl~~~~~~~---~~~~-~~~W~C~~C   51 (190)
                      .||.||.|..|||..|++++.++.   ...| ...|.|+.|
T Consensus         1 ~mi~c~~c~~w~H~~c~~~~~~~~~~l~~lp~~~~~~c~~C   41 (140)
T 2ku7_A            1 SMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNC   41 (140)
T ss_dssp             CCCCCSCCSSCHHHHHCCCCHHHHHHHHSSCTTTTCCSSCC
T ss_pred             CccccccCCCccCCcccccCHHHHHHHhhccccceeeCccc
Confidence            489999999999999999875422   2223 346888888

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

Probab=95.24  E-value=0.0036  Score=44.82  Aligned_cols=38  Identities=26%  Similarity=0.580  Sum_probs=28.9

Q ss_pred             CccccCccCCcccCCCCCCCC------CCCCC-CCccCccccccc
Q psy11251         65 QLLFCDDCDRGYHMYCLVPPI------QTPPE-GSWSCQLCLKEF  102 (190)
Q Consensus        65 ~ll~C~~C~~~~H~~Cl~p~l------~~~p~-~~W~C~~C~~~~  102 (190)
                      .||.||.|+.|||..|..-.-      ...|+ ..|.|+.|....
T Consensus         1 ~mi~c~~c~~w~H~~c~~~~~~~~~~l~~lp~~~~~~c~~C~~~~   45 (140)
T 2ku7_A            1 SMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERH   45 (140)
T ss_dssp             CCCCCSCCSSCHHHHHCCCCHHHHHHHHSSCTTTTCCSSCCTTTS
T ss_pred             CccccccCCCccCCcccccCHHHHHHHhhccccceeeCccccccc
Confidence            378999999999999988321      23353 489999998643

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

Probab=93.12  E-value=0.049  Score=41.41  Aligned_cols=47  Identities=15%  Similarity=0.229  Sum_probs=31.4

Q ss_pred             cCCCCCC-CCCccccCccCCcccCCCCCCCCCC-CCC---CCccCccccccc
Q psy11251         56 VCGTSDN-DDQLLFCDDCDRGYHMYCLVPPIQT-PPE---GSWSCQLCLKEF  102 (190)
Q Consensus        56 ~C~~~~~-~~~ll~C~~C~~~~H~~Cl~p~l~~-~p~---~~W~C~~C~~~~  102 (190)
                      -||..++ ...+|.|+.|.++||..|+..+... +|.   ..+.|..|....
T Consensus         9 YCG~~~~~~~~mLqC~~C~qWFH~~Cl~~~~~~~lp~~~fY~F~C~~C~~~g   60 (177)
T 3rsn_A            9 DEENGRQLGEVELQCGICTKWFTADTFGIDTSSCLPFMTNYSFHCNVCHHSG   60 (177)
T ss_dssp             --CTTCCTTSCEEECTTTCCEEEGGGGTCCCTTCCTTCCSEEEECTTTSTTS
T ss_pred             EcCCCCCCCceeEeeccccceecHHHhcccccCccccceeEEEEccccCCCC
Confidence            4665443 3467999999999999999854322 332   266799997643

>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*

Probab=90.80  E-value=0.031  Score=41.73  Aligned_cols=44  Identities=18%  Similarity=0.560  Sum_probs=31.6

Q ss_pred             CCCCCCCCceecC--CCCCCCCCCCCCCC--c-ccccccCCCCcccCCC
Q psy11251          8 EKSGQPEDLVSCS--DCGRSGHPTCLQFT--N-NMKVSVKQYRWQCIEC   51 (190)
Q Consensus         8 ~~~g~~~~ll~C~--~C~~~~H~~Cl~~~--~-~~~~~~~~~~W~C~~C   51 (190)
                      .-.++||+|+.|+  .|++.|-..|++..  + .+........|.|--|
T Consensus        83 ~wC~~Gg~l~~Cdn~~C~r~FC~~CI~~nvG~~~~~~i~~~d~W~Cy~C  131 (159)
T 3a1b_A           83 TICCGGREVLMCGNNNCCRCFCVECVDLLVGPGAAQAAIKEDPWNCYMC  131 (159)
T ss_dssp             TTTSCCSEEEECSSTTTCCEEEHHHHHHHTCTTHHHHHHTSSSCCCTTT
T ss_pred             eEecCCCeEEeeCCCCCCCchhHHHHHHhcCHhHHHHHhccCCCEEEec
Confidence            3457899999999  79999999998632  1 2223355789966555

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

Probab=89.92  E-value=0.13  Score=39.12  Aligned_cols=23  Identities=13%  Similarity=0.160  Sum_probs=19.7

Q ss_pred             CCCCceecCCCCCCCCCCCCCCC
Q psy11251         12 QPEDLVSCSDCGRSGHPTCLQFT   34 (190)
Q Consensus        12 ~~~~ll~C~~C~~~~H~~Cl~~~   34 (190)
                      -+-.++.|..|.++||..|+...
T Consensus        16 ~~~~mLqC~~C~qWFH~~Cl~~~   38 (177)
T 3rsn_A           16 LGEVELQCGICTKWFTADTFGID   38 (177)
T ss_dssp             TTSCEEECTTTCCEEEGGGGTCC
T ss_pred             CCceeEeeccccceecHHHhccc
Confidence            35679999999999999999853

>2lq6_A Bromodomain-containing protein 1; PHD finger, metal binding protein; NMR {Homo sapiens}

Probab=88.52  E-value=0.15  Score=34.16  Aligned_cols=38  Identities=21%  Similarity=0.677  Sum_probs=28.4

Q ss_pred             ccCCCCcccCCCCCCCcCCCCCCCCCccccCc--cCCcccCCCCC
Q psy11251         40 SVKQYRWQCIECKCCSVCGTSDNDDQLLFCDD--CDRGYHMYCLV   82 (190)
Q Consensus        40 ~~~~~~W~C~~C~~C~~C~~~~~~~~ll~C~~--C~~~~H~~Cl~   82 (190)
                      .||...|.    ..|.+|++. ..|--|.|..  |.++||..|-.
T Consensus        10 NIp~~R~~----l~C~iC~~~-~~GAciqC~~~~C~~~fHv~CA~   49 (87)
T 2lq6_A           10 NIPPARWK----LTCYLCKQK-GVGASIQCHKANCYTAFHVTCAQ   49 (87)
T ss_dssp             CCCCCCCC----CCBTTTTBC-CSSCEEECSCTTTCCEEEHHHHH
T ss_pred             CCChHHhc----CCCcCCCCC-CCcEeEecCCCCCCCcCcHHHHH
Confidence            56777885    467888753 1367788975  99999999954

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=87.79  E-value=0.0056  Score=43.45  Aligned_cols=79  Identities=20%  Similarity=0.585  Sum_probs=49.1

Q ss_pred             CCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC------------------CCCcCCCCCC----CCCccccCc
Q psy11251         14 EDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK------------------CCSVCGTSDN----DDQLLFCDD   71 (190)
Q Consensus        14 ~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~------------------~C~~C~~~~~----~~~ll~C~~   71 (190)
                      +..+.-..|+..||..|+..+.       ...-.||.|+                  .|.+|...-.    .+..+....
T Consensus        24 ~~~~~~~~CgH~fc~~Ci~~~~-------~~~~~CP~Cr~~~~~~~l~~l~i~~~~~~C~iC~~~~~~~~~~~~~~~~~~   96 (133)
T 4ap4_A           24 GRLIVSTECGHVFCSQCLRDSL-------KNANTCPTCRKKINHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTE   96 (133)
T ss_dssp             TCCEEEETTCCEEEHHHHHHHH-------TTCSBCTTTCCBCTTTCEEECBCSSSSCBCTTTCCBHHHHHHTTCCEEEET
T ss_pred             ccCeEecCCCChhhHHHHHHHH-------HhCCCCCCCCCcCccccccccccCCCCCCCCCCCCccccccccCcceEeCC
Confidence            3444556799999999985322       1123788887                  6777764311    122334557


Q ss_pred             cCCcccCCCCCCCCCCCCCCCccCcccccccc
Q psy11251         72 CDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFH  103 (190)
Q Consensus        72 C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~  103 (190)
                      |+-.||..|+.+-+..    ...||.|+....
T Consensus        97 CgH~fc~~Ci~~~~~~----~~~CP~Cr~~~~  124 (133)
T 4ap4_A           97 CGHVFCSQCLRDSLKN----ANTCPTCRKKIN  124 (133)
T ss_dssp             TSBEEEHHHHHHHHHH----CSBCTTTCCBCC
T ss_pred             CCChhhHHHHHHHHHc----CCCCCCCCCcCC
Confidence            8888898888754322    248999987543

>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*

Probab=85.84  E-value=0.08  Score=39.51  Aligned_cols=47  Identities=23%  Similarity=0.725  Sum_probs=37.0

Q ss_pred             CCCcCCCCCCCCCccccC--ccCCcccCCCCCCCCCC------CCCCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCD--DCDRGYHMYCLVPPIQT------PPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~--~C~~~~H~~Cl~p~l~~------~p~~~W~C~~C~~~~  102 (190)
                      +|.+|+   +++.++.|+  .|.+.|=..|+.--+..      .....|.|--|....
T Consensus        81 yC~wC~---~Gg~l~~Cdn~~C~r~FC~~CI~~nvG~~~~~~i~~~d~W~Cy~C~P~~  135 (159)
T 3a1b_A           81 YCTICC---GGREVLMCGNNNCCRCFCVECVDLLVGPGAAQAAIKEDPWNCYMCGHKG  135 (159)
T ss_dssp             SCTTTS---CCSEEEECSSTTTCCEEEHHHHHHHTCTTHHHHHHTSSSCCCTTTCSSC
T ss_pred             eeeEec---CCCeEEeeCCCCCCCchhHHHHHHhcCHhHHHHHhccCCCEEEecCCcc
Confidence            888998   478999999  89999999997532211      345799999998754

>2lk0_A RNA-binding protein 5; zinc finger; NMR {Homo sapiens} PDB: 2lk1_A*

Probab=85.58  E-value=0.42  Score=25.71  Aligned_cols=18  Identities=39%  Similarity=0.951  Sum_probs=13.0

Q ss_pred             CCCCcccCCCC--------CCCcCCC
Q psy11251         42 KQYRWQCIECK--------CCSVCGT   59 (190)
Q Consensus        42 ~~~~W~C~~C~--------~C~~C~~   59 (190)
                      +.++|.|+.|.        .|..|+.
T Consensus         2 k~gDW~C~~C~~~Nfa~r~~C~~C~~   27 (32)
T 2lk0_A            2 KFEDWLCNKCCLNNFRKRLKCFRCGA   27 (32)
T ss_dssp             CCSEEECTTTCCEEETTCCBCTTTCC
T ss_pred             CCCCCCcCcCcCCcChhcceecCCCC
Confidence            36899999885        5666654

>2k1p_A Zinc finger RAN-binding domain-containing protein 2; ZNF265, RNA binding, ranbp2, RBZ, ZIS, alternative splicing, metal-binding, mRNA processing; NMR {Homo sapiens} PDB: 3g9y_A

Probab=84.30  E-value=0.74  Score=24.88  Aligned_cols=11  Identities=36%  Similarity=1.090  Sum_probs=8.9

Q ss_pred             CCCCcccCCCC
Q psy11251         42 KQYRWQCIECK   52 (190)
Q Consensus        42 ~~~~W~C~~C~   52 (190)
                      ..++|.|+.|.
T Consensus         3 ~~gDW~C~~C~   13 (33)
T 2k1p_A            3 SANDWQCKTCS   13 (33)
T ss_dssp             SSSSCBCSSSC
T ss_pred             CCCCcccCCCC
Confidence            46899999885

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=83.65  E-value=0.86  Score=26.69  Aligned_cols=27  Identities=19%  Similarity=0.386  Sum_probs=18.4

Q ss_pred             cCCCCCCCCceecCCCCCCCCCCCCCC
Q psy11251          7 AEKSGQPEDLVSCSDCGRSGHPTCLQF   33 (190)
Q Consensus         7 ~~~~g~~~~ll~C~~C~~~~H~~Cl~~   33 (190)
                      -....+++....-..|+..||..|+..
T Consensus        12 ~~~~~~~~~~~~~~~C~H~f~~~Ci~~   38 (55)
T 1iym_A           12 LAELEDGEEARFLPRCGHGFHAECVDM   38 (55)
T ss_dssp             CCCCCTTSCCEECSSSCCEECTTHHHH
T ss_pred             CccccCCCceEECCCCCCcccHHHHHH
Confidence            334444555565567999999999853

>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*

Probab=83.16  E-value=0.23  Score=42.23  Aligned_cols=46  Identities=22%  Similarity=0.390  Sum_probs=32.1

Q ss_pred             cCCCCCCCCceecC--CCCCCCCCCCCCCCc--c-cccccCCCCcccCCCC
Q psy11251          7 AEKSGQPEDLVSCS--DCGRSGHPTCLQFTN--N-MKVSVKQYRWQCIECK   52 (190)
Q Consensus         7 ~~~~g~~~~ll~C~--~C~~~~H~~Cl~~~~--~-~~~~~~~~~W~C~~C~   52 (190)
                      +.-.++||+|+.|+  .|++.|-..|++...  . +........|.|--|.
T Consensus        96 Cr~C~~Gg~l~~Cdn~~C~r~FC~~Ci~~n~g~~~~~~i~~~d~W~Cf~C~  146 (386)
T 2pv0_B           96 CSICCSGETLLICGNPDCTRCYCFECVDSLVGPGTSGKVHAMSNWVCYLCL  146 (386)
T ss_dssp             CTTTCCCSSCEECCSTTCCCEECHHHHHHHTCTTHHHHHHHCSSCCCTTTS
T ss_pred             ceEcCCCCeEEEeCCCCCCcchHHHHHHHhcChhHHHHhhccCCceEEEcC
Confidence            34567899999999  999999999986321  1 1122235789776664

>1n0z_A ZNF265; zinc finger, RNA splicing, transcription; NMR {Homo sapiens} SCOP: g.41.11.1

Probab=82.00  E-value=1.2  Score=25.91  Aligned_cols=21  Identities=33%  Similarity=0.966  Sum_probs=14.2

Q ss_pred             ccCCCCcccC--CCC--------CCCcCCCC
Q psy11251         40 SVKQYRWQCI--ECK--------CCSVCGTS   60 (190)
Q Consensus        40 ~~~~~~W~C~--~C~--------~C~~C~~~   60 (190)
                      ....++|.|+  .|.        .|..|+..
T Consensus         9 ~~~~GDW~C~~~~C~~~Nfa~R~~C~~C~~p   39 (45)
T 1n0z_A            9 RVSDGDWICPDKKCGNVNFARRTSCDRCGRE   39 (45)
T ss_dssp             SSCSSSCBCSSTTTCCBCCSSCSBCSSSCCB
T ss_pred             CCCCCCcCCCCCCCCCEEccccccccccCCc
Confidence            3457899999  675        55556543

>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*

Probab=80.99  E-value=0.053  Score=46.10  Aligned_cols=47  Identities=34%  Similarity=0.871  Sum_probs=36.4

Q ss_pred             CCCcCCCCCCCCCccccC--ccCCcccCCCCCCCCC-----C-CCCCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCD--DCDRGYHMYCLVPPIQ-----T-PPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~--~C~~~~H~~Cl~p~l~-----~-~p~~~W~C~~C~~~~  102 (190)
                      +|..|+   +++.++.||  .|.+.|=..|+.--+.     . .....|.|--|....
T Consensus        95 yCr~C~---~Gg~l~~Cdn~~C~r~FC~~Ci~~n~g~~~~~~i~~~d~W~Cf~C~p~p  149 (386)
T 2pv0_B           95 YCSICC---SGETLLICGNPDCTRCYCFECVDSLVGPGTSGKVHAMSNWVCYLCLPSS  149 (386)
T ss_dssp             SCTTTC---CCSSCEECCSTTCCCEECHHHHHHHTCTTHHHHHHHCSSCCCTTTSSCC
T ss_pred             cceEcC---CCCeEEEeCCCCCCcchHHHHHHHhcChhHHHHhhccCCceEEEcCCcc
Confidence            888898   478999999  9999999999764221     1 234689999998654

---

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	190
d1f62a_	51	g.50.1.2 (A:) Williams-Beuren syndrome transcripti	9e-13
d1fp0a1	70	g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-	6e-11
d1weva_	88	g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus mu	6e-10
d1weea_	72	g.50.1.2 (A:) PHD finger protein At1g33420 {Thale	2e-09
d1mm2a_	61	g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens	6e-09
d1we9a_	64	g.50.1.2 (A:) PHD finger protein At5g26210 {Thale	8e-08
d1wema_	76	g.50.1.2 (A:) Death associated transcription facto	2e-07
d1wepa_	79	g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus mus	2e-04
d2pnxa1	51	g.50.1.2 (A:195-245) Inhibitor of growth protein 4	0.003

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]} Length = 51

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.1 bits (140), Expect = 9e-13
 Identities = 18/45 (40%), Positives = 28/45 (62%)

Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
          C VC     DD+L+ CD+C++ +H++CL P +   P+G W C  C
Sbjct: 3  CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPAC 47

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]} Length = 70

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.9 bits (129), Expect = 6e-11
 Identities = 14/48 (29%), Positives = 23/48 (47%)

Query: 54  CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE 101
            ++C        L+ C+ C+  +H+ C +P +Q  P   WSC LC   
Sbjct: 7   ATICRVCQKPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL 54

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]} Length = 88

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 51.8 bits (123), Expect = 6e-10
 Identities = 16/64 (25%), Positives = 26/64 (40%), Gaps = 6/64 (9%)

Query: 54  CSVCG--TSDNDDQLLFCDDCDRGYHMYCLVPPIQTPP----EGSWSCQLCLKEFHRKIE 107
           C VC   T  + +QL+ C +C   YH  C  P +           W C  C ++  R  +
Sbjct: 19  CVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMKRMAQ 78

Query: 108 QGRT 111
           + + 
Sbjct: 79  KNQK 82

>d1weea_ g.50.1.2 (A:) PHD finger protein At1g33420 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 72

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At1g33420
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 50.0 bits (119), Expect = 2e-09
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 3/53 (5%)

Query: 48  CIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLK 100
            ++CKC +     D+ +++L CD C   +H  C+           + C  C++
Sbjct: 16  KVDCKCGTK---DDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIE 65

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]} Length = 61

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]

 Score = 48.0 bits (114), Expect = 6e-09
 Identities = 17/45 (37%), Positives = 22/45 (48%)

Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
             C    +  +LL CD C   YH++CL PP+   P G W C  C
Sbjct: 9  MEFCRVCKDGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRC 53

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 64

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 45.4 bits (107), Expect = 8e-08
 Identities = 13/51 (25%), Positives = 21/51 (41%), Gaps = 2/51 (3%)

Query: 54  CSVCGTSDNDD-QLLFCDDCDRGYHMYCL-VPPIQTPPEGSWSCQLCLKEF 102
           C  CG S   D   + CD C+  +H  C+ + P +      + C  C  + 
Sbjct: 9   CGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKS 59

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]} Length = 76

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.7 bits (105), Expect = 2e-07
 Identities = 10/54 (18%), Positives = 19/54 (35%), Gaps = 6/54 (11%)

Query: 50 ECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCL-----VPPIQTPPEGSWSCQLC 98
              C +C    N+  ++ CD C+  +H  C+        +       + C  C
Sbjct: 15 NALYC-ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNC 67

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]} Length = 79

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.6 bits (84), Expect = 2e-04
 Identities = 10/59 (16%), Positives = 19/59 (32%), Gaps = 2/59 (3%)

Query: 54  CSVCGTSDNDD-QLLFCDDCDRGYHMYCL-VPPIQTPPEGSWSCQLCLKEFHRKIEQGR 110
             +C    N +  ++ C  C   +H  C+ +          + C  C   F   I +  
Sbjct: 14  YCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFGPSIMKNW 72

>d2pnxa1 g.50.1.2 (A:195-245) Inhibitor of growth protein 4, Ing4 {Homo sapiens [TaxId: 9606]} Length = 51

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Inhibitor of growth protein 4, Ing4
species: Homo sapiens [TaxId: 9606]

 Score = 32.6 bits (74), Expect = 0.003
 Identities = 11/48 (22%), Positives = 18/48 (37%), Gaps = 4/48 (8%)

Query: 56  VCGTSDNDDQLL--FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE 101
           +C      + +     D     +H  C+   + T P G W C  C +E
Sbjct: 6   LCHQVSYGEMIGCDNPDCSIEWFHFACV--GLTTKPRGKWFCPRCSQE 51

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	190
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	99.46
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	99.45
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	99.33
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	99.13
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	99.1
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	99.03
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	98.94
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	98.82
d2pnxa1	51	Inhibitor of growth protein 4, Ing4 {Homo sapiens	98.8
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	98.75
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	98.74
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	98.59
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	98.49
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	98.43
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	98.38
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	98.31
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	98.19
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	98.18
d2pnxa1	51	Inhibitor of growth protein 4, Ing4 {Homo sapiens	98.13
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	98.13
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	98.06
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	97.28
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	93.22
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	93.05
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	87.94
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	87.49
d1n0za_	45	Znf265, first zinc-finger domain {Human (Homo sapi	86.12
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	80.36

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

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=2.7e-14  Score=92.63  Aligned_cols=51  Identities=31%  Similarity=0.852  Sum_probs=44.6

Q ss_pred             CCCCCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccccc
Q psy11251         50 ECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFH  103 (190)
Q Consensus        50 ~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~  103 (190)
                      .|.+|.+|+.   ++.||.||.|+++||+.|+.|++..+|.++|+|+.|.....
T Consensus         6 ~c~~C~~C~~---~~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   56 (70)
T d1fp0a1           6 SATICRVCQK---PGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   56 (70)
T ss_dssp             SSSCCSSSCS---SSCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCCCCCCC---cCEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCc
Confidence            4667888884   67899999999999999999999999999999999976543

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

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=9.4e-15  Score=89.07  Aligned_cols=48  Identities=38%  Similarity=1.182  Sum_probs=44.1

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLK  100 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~  100 (190)
                      .|.+|++.++++.||.||.|+.+||+.|++|++..+|.++|+|+.|..
T Consensus         2 ~C~vC~~~~~~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            467888888889999999999999999999999999999999999974

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

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=99.33  E-value=8.6e-13  Score=83.10  Aligned_cols=47  Identities=40%  Similarity=1.037  Sum_probs=41.7

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      +|.+|+   +++.||.||.|+++||+.|+.+++..+|++.|+|+.|+...
T Consensus        11 ~C~~C~---~~g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_          11 FCRVCK---DGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SCTTTC---CCSSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCcCCC---CCCeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            567777   46789999999999999999999999999999999998654

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.13  E-value=8.2e-12  Score=84.11  Aligned_cols=51  Identities=29%  Similarity=0.805  Sum_probs=40.7

Q ss_pred             CCCcCCCCC--CCCCccccCccCCcccCCCCCCCCC----CCCCCCccCcccccccc
Q psy11251         53 CCSVCGTSD--NDDQLLFCDDCDRGYHMYCLVPPIQ----TPPEGSWSCQLCLKEFH  103 (190)
Q Consensus        53 ~C~~C~~~~--~~~~ll~C~~C~~~~H~~Cl~p~l~----~~p~~~W~C~~C~~~~~  103 (190)
                      +|.+|++..  +.+.||.|+.|.++||+.|+.|++.    .+|.+.|+|+.|.....
T Consensus        18 ~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~~   74 (88)
T d1weva_          18 ACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMK   74 (88)
T ss_dssp             SCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHC
T ss_pred             CccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchHh
Confidence            567777543  3457999999999999999999876    36778999999986543

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

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.10  E-value=1.2e-11  Score=74.95  Aligned_cols=44  Identities=30%  Similarity=0.700  Sum_probs=36.9

Q ss_pred             CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCC
Q psy11251          8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCC   54 (190)
Q Consensus         8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C   54 (190)
                      +..++++.||.|++|+++||.+|++++.   ..+|.+.|+|+.|+.+
T Consensus         7 ~~~~~~~~~i~Cd~C~~~~H~~C~~p~~---~~~p~~~W~C~~C~~~   50 (51)
T d1f62a_           7 RKKGEDDKLILCDECNKAFHLFCLRPAL---YEVPDGEWQCPACQPA   50 (51)
T ss_dssp             CCSSCCSCCEECTTTCCEECHHHHCTTC---CSCCSSCCSCTTTSCC
T ss_pred             CCCCCCCCEEEcCCCCCCCCCCCCCCCC---CcCCCCCEECcCCcCc
Confidence            3456788999999999999999998764   3567889999999754

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

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.03  E-value=1.4e-10  Score=74.65  Aligned_cols=47  Identities=26%  Similarity=0.447  Sum_probs=38.3

Q ss_pred             CCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcCC
Q psy11251          9 KSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCG   58 (190)
Q Consensus         9 ~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~   58 (190)
                      ..+++|+||.|++|.++||+.|++++.   ..+|.+.|+|+.|..+....
T Consensus        12 ~C~~~~~ll~Cd~C~~~~H~~C~~p~l---~~~p~~~W~C~~C~~~~~~~   58 (70)
T d1fp0a1          12 VCQKPGDLVMCNQCEFCFHLDCHLPAL---QDVPGEEWSCSLCHVLPDLK   58 (70)
T ss_dssp             SSCSSSCCEECTTSSCEECTTSSSTTC---CCCCSSSCCCCSCCCCCSSC
T ss_pred             CCCCcCEEEECCCCChhhccccCCCCc---CcCCCCCEECcCCcCcCccC
Confidence            345678899999999999999998754   45678899999997666554

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

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=98.94  E-value=3.7e-10  Score=70.68  Aligned_cols=40  Identities=25%  Similarity=0.585  Sum_probs=33.4

Q ss_pred             CCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         10 SGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        10 ~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .+++++||.|++|+++||..|++++.   ..++.+.|+|+.|+
T Consensus        15 C~~~g~lv~Cd~C~~~~H~~C~~~~~---~~~~~~~W~C~~C~   54 (61)
T d1mm2a_          15 CKDGGELLCCDTCPSSYHIHCLNPPL---PEIPNGEWLCPRCT   54 (61)
T ss_dssp             TCCCSSCBCCSSSCCCBCSSSSSSCC---SSCCSSCCCCTTTT
T ss_pred             CCCCCeEEEeCCCCccCchhhcCCCc---CcCCCCcEECCCCc
Confidence            35678999999999999999998654   34567899999994

>d1weea_ g.50.1.2 (A:) PHD finger protein At1g33420 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At1g33420
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.82  E-value=6.9e-10  Score=71.66  Aligned_cols=54  Identities=26%  Similarity=0.674  Sum_probs=41.7

Q ss_pred             CCcccCCCCCCCcCCCCC-CCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         44 YRWQCIECKCCSVCGTSD-NDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        44 ~~W~C~~C~~C~~C~~~~-~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      .+|. ..|    +|+... ++..||.|+.|+++||+.|++++....+.+.|+|+.|....
T Consensus        13 ~~~~-~~C----~C~~~~~~~~~mv~Cd~C~~w~H~~C~g~~~~~~~~~~~~C~~C~~~~   67 (72)
T d1weea_          13 DNWK-VDC----KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIELS   67 (72)
T ss_dssp             CSSE-ECC----TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHHC
T ss_pred             CCCe-EEe----eCCCCcCCCCeEEEeCCCCCcCchhhcCCccccCCCCcEECcCCcCcC
Confidence            3674 244    455543 34568999999999999999988777888999999998653

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

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Inhibitor of growth protein 4, Ing4
species: Homo sapiens [TaxId: 9606]

Probab=98.80  E-value=3.1e-10  Score=68.51  Aligned_cols=44  Identities=27%  Similarity=0.789  Sum_probs=35.8

Q ss_pred             CCCcCCCCCCCCCccccCc---cCCcccCCCCCCCCCCCCCCCccCccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDD---CDRGYHMYCLVPPIQTPPEGSWSCQLCLK  100 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~---C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~  100 (190)
                      +| +|++.. .+.||.|+.   |..+||+.|++  +..+|.++|+|+.|..
T Consensus         4 yC-~C~~~~-~~~mi~Cd~~~C~~~WfH~~Cvg--l~~~p~~~w~C~~C~~   50 (51)
T d2pnxa1           4 YC-LCHQVS-YGEMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQ   50 (51)
T ss_dssp             ET-TTTEEC-CSEEEECSCTTCSSCEEEGGGGT--CSSCCSSCCCCHHHHC
T ss_pred             EE-EcCCCC-CCCEEEEecCCCCCCCEeCCccC--CCcCCCCcEECcCCCC
Confidence            46 677664 455999986   56899999998  7888999999999975

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

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD Inhibitor of growth protein 2, Ing2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.75  E-value=3e-09  Score=68.42  Aligned_cols=45  Identities=24%  Similarity=0.878  Sum_probs=33.7

Q ss_pred             CCCcCCCCCCCCCcccc--CccC-CcccCCCCCCCCCCCCCCCccCcccccc
Q psy11251         53 CCSVCGTSDNDDQLLFC--DDCD-RGYHMYCLVPPIQTPPEGSWSCQLCLKE  101 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C--~~C~-~~~H~~Cl~p~l~~~p~~~W~C~~C~~~  101 (190)
                      +| +|++..+ +.+|.|  +.|. .+||+.|++  |..+|.++|+|+.|+..
T Consensus        18 ~C-iC~~~~~-~~~i~c~~~~C~~~wfH~~Cvg--l~~~p~~~w~C~~C~~~   65 (71)
T d1wesa_          18 YC-LCNQVSY-GEMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRGD   65 (71)
T ss_dssp             CS-TTCCCCC-SSEECCSCTTCSCCCEETTTTT--CSSCCSSCCCCTTTSSC
T ss_pred             EE-EeCCCCC-CCEEEEECCCCCCcCccCccCC--CCcCCCCcEECcCCccc
Confidence            35 6666543 445444  5776 689999996  88999999999999754

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.74  E-value=1.5e-09  Score=68.40  Aligned_cols=49  Identities=24%  Similarity=0.587  Sum_probs=39.2

Q ss_pred             CCCcCCCCCCCC-CccccCccCCcccCCCCCCCCCCCCC-CCccCcccccc
Q psy11251         53 CCSVCGTSDNDD-QLLFCDDCDRGYHMYCLVPPIQTPPE-GSWSCQLCLKE  101 (190)
Q Consensus        53 ~C~~C~~~~~~~-~ll~C~~C~~~~H~~Cl~p~l~~~p~-~~W~C~~C~~~  101 (190)
                      .|.+|++..+.+ .+|.|+.|..+||..|++++...++. ..|+|+.|...
T Consensus         8 ~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           8 QCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             CCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             cCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            567777765554 57899999999999999987666544 69999999864

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.59  E-value=6.1e-09  Score=69.60  Aligned_cols=51  Identities=22%  Similarity=0.505  Sum_probs=37.3

Q ss_pred             CCCCccCC-CCCCCCceecCCCCCCCCCCCCCCCccc-ccccCCCCcccCCCC
Q psy11251          2 LCPTQAEK-SGQPEDLVSCSDCGRSGHPTCLQFTNNM-KVSVKQYRWQCIECK   52 (190)
Q Consensus         2 ~C~~~~~~-~g~~~~ll~C~~C~~~~H~~Cl~~~~~~-~~~~~~~~W~C~~C~   52 (190)
                      .|..+... ..+.+.||.|+.|.++||..|++++... ...++.+.|+|+.|.
T Consensus        18 ~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~   70 (88)
T d1weva_          18 ACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCT   70 (88)
T ss_dssp             SCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHH
T ss_pred             CccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccC
Confidence            35555432 3456789999999999999999876432 234667899999984

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.49  E-value=5.5e-09  Score=68.53  Aligned_cols=49  Identities=20%  Similarity=0.533  Sum_probs=37.2

Q ss_pred             CCCcCCCCCC-CCCccccCccCCcccCCCCCCCCCCCCC-CCccCccccccc
Q psy11251         53 CCSVCGTSDN-DDQLLFCDDCDRGYHMYCLVPPIQTPPE-GSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~-~~~ll~C~~C~~~~H~~Cl~p~l~~~p~-~~W~C~~C~~~~  102 (190)
                      +| +|++..+ ++.||.||.|+.+||..|++......+. +.|+|+.|....
T Consensus        14 ~C-iC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~   64 (79)
T d1wepa_          14 YC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             Ee-ECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCc
Confidence            45 7887644 4568999999999999999965444333 579999998643

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

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.43  E-value=2e-09  Score=70.00  Aligned_cols=54  Identities=19%  Similarity=0.450  Sum_probs=40.4

Q ss_pred             ccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCCC-----CCCCCCCccCcccccc
Q psy11251         47 QCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPI-----QTPPEGSWSCQLCLKE  101 (190)
Q Consensus        47 ~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l-----~~~p~~~W~C~~C~~~  101 (190)
                      .=++..+| +|++..+++.||.|+.|+.+||..|++.+.     ...+...|+|+.|...
T Consensus        12 ~d~~~~~C-iC~~~~~~~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~   70 (76)
T d1wema_          12 YDPNALYC-ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTIL   70 (76)
T ss_dssp             CCTTCCCS-TTCCCCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHH
T ss_pred             cCCCcCEE-ECCCccCCCeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCc
Confidence            34445567 788877788899999999999999997432     1233467999999754

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.38  E-value=5.6e-08  Score=60.92  Aligned_cols=48  Identities=21%  Similarity=0.432  Sum_probs=35.6

Q ss_pred             CCCccCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          3 CPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         3 C~~~~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      |..+.....+++.||.|+.|+.+||..|++++.....  ....|+|+.|.
T Consensus         9 C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~--~~~~w~C~~C~   56 (64)
T d1we9a_           9 CGACGESYAADEFWICCDLCEMWFHGKCVKITPARAE--HIKQYKCPSCS   56 (64)
T ss_dssp             CSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGG--GCSSCCCHHHH
T ss_pred             CcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCC--CCCeEECcCCc
Confidence            5555555556677899999999999999987654332  23589999885

>d1weea_ g.50.1.2 (A:) PHD finger protein At1g33420 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At1g33420
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.31  E-value=6e-08  Score=62.20  Aligned_cols=41  Identities=24%  Similarity=0.677  Sum_probs=32.2

Q ss_pred             CCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          9 KSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         9 ~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      ...+++.||.|+.|.++||..|++++..   .++.+.|+|+.|.
T Consensus        24 ~~~~~~~mv~Cd~C~~w~H~~C~g~~~~---~~~~~~~~C~~C~   64 (72)
T d1weea_          24 KDDDGERMLACDGCGVWHHTRCIGINNA---DALPSKFLCFRCI   64 (72)
T ss_dssp             CSCCSSCEEECSSSCEEEETTTTTCCTT---SCCCSCCCCHHHH
T ss_pred             CcCCCCeEEEeCCCCCcCchhhcCCccc---cCCCCcEECcCCc
Confidence            3445667999999999999999987642   3456789988874

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.19  E-value=1.8e-07  Score=61.04  Aligned_cols=46  Identities=15%  Similarity=0.358  Sum_probs=33.3

Q ss_pred             CccCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251          5 TQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus         5 ~~~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .+....++.+.||.|+.|..+||..|+++.....  .....|+|+.|+
T Consensus        16 iC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~--~~~~~~~C~~C~   61 (79)
T d1wepa_          16 LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENA--VDIDIYHCPDCE   61 (79)
T ss_dssp             TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHH--TTCSBBCCTTTT
T ss_pred             ECCCccCCCCcEEECCCCCCcEeccccCcchhcC--CCCCEEECccCc
Confidence            3444444566799999999999999999865322  223579998884

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

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.18  E-value=1.4e-07  Score=61.47  Aligned_cols=49  Identities=31%  Similarity=0.730  Sum_probs=35.1

Q ss_pred             CCCcCCCCCCCCCccccC--ccCCcccCCCCCCCC---CCCC--CCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCD--DCDRGYHMYCLVPPI---QTPP--EGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~--~C~~~~H~~Cl~p~l---~~~p--~~~W~C~~C~~~~  102 (190)
                      +| +|+...+.+.++.|+  .|..|||..|++-.-   ...+  ...|+|+.|....
T Consensus        18 ~C-~C~~~~~~~~~i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~~   73 (78)
T d1wewa_          18 RC-VCGNSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTS   73 (78)
T ss_dssp             CC-SSCCCCCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCC
T ss_pred             Ee-ECCCccCCCcEEEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCcC
Confidence            56 788776777888887  899999999987321   1111  1369999998643

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

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Inhibitor of growth protein 4, Ing4
species: Homo sapiens [TaxId: 9606]

Probab=98.13  E-value=8.8e-08  Score=57.35  Aligned_cols=35  Identities=20%  Similarity=0.556  Sum_probs=27.8

Q ss_pred             CCCceecCC---CCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         13 PEDLVSCSD---CGRSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        13 ~~~ll~C~~---C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .++||.|+.   |..+||+.|++++     .+|.+.|+|+.|+
T Consensus        12 ~~~mi~Cd~~~C~~~WfH~~Cvgl~-----~~p~~~w~C~~C~   49 (51)
T d2pnxa1          12 YGEMIGCDNPDCSIEWFHFACVGLT-----TKPRGKWFCPRCS   49 (51)
T ss_dssp             CSEEEECSCTTCSSCEEEGGGGTCS-----SCCSSCCCCHHHH
T ss_pred             CCCEEEEecCCCCCCCEeCCccCCC-----cCCCCcEECcCCC
Confidence            456999986   5678999999863     4567899999874

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

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD Inhibitor of growth protein 2, Ing2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.13  E-value=7.9e-07  Score=56.72  Aligned_cols=35  Identities=20%  Similarity=0.681  Sum_probs=26.3

Q ss_pred             CCCceec--CCCC-CCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251         13 PEDLVSC--SDCG-RSGHPTCLQFTNNMKVSVKQYRWQCIECK   52 (190)
Q Consensus        13 ~~~ll~C--~~C~-~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   52 (190)
                      .+++|.|  +.|. .+||+.|+++     ..+|.+.|+|+.|+
T Consensus        26 ~~~~i~c~~~~C~~~wfH~~Cvgl-----~~~p~~~w~C~~C~   63 (71)
T d1wesa_          26 YGEMIGCDNEQCPIEWFHFSCVSL-----TYKPKGKWYCPKCR   63 (71)
T ss_dssp             CSSEECCSCTTCSCCCEETTTTTC-----SSCCSSCCCCTTTS
T ss_pred             CCCEEEEECCCCCCcCccCccCCC-----CcCCCCcEECcCCc
Confidence            4556655  4675 6899999975     35678899999994

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

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.06  E-value=1.1e-07  Score=61.41  Aligned_cols=46  Identities=13%  Similarity=0.371  Sum_probs=34.1

Q ss_pred             cCCCCCCCCceecCCCCCCCCCCCCCCCccccc--ccCCCCcccCCCC
Q psy11251          7 AEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKV--SVKQYRWQCIECK   52 (190)
Q Consensus         7 ~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~--~~~~~~W~C~~C~   52 (190)
                      +++..+++.||.|+.|..+||..|++++.....  ..+...|+|+.|+
T Consensus        21 C~~~~~~~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~   68 (76)
T d1wema_          21 CRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCT   68 (76)
T ss_dssp             TCCCCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHH
T ss_pred             CCCccCCCeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCc
Confidence            344557788999999999999999987653321  2335679998884

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

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.28  E-value=1.4e-05  Score=51.48  Aligned_cols=44  Identities=16%  Similarity=0.406  Sum_probs=30.2

Q ss_pred             CCCCCCCceecC--CCCCCCCCCCCCCCcccccc--cCCCCcccCCCC
Q psy11251          9 KSGQPEDLVSCS--DCGRSGHPTCLQFTNNMKVS--VKQYRWQCIECK   52 (190)
Q Consensus         9 ~~g~~~~ll~C~--~C~~~~H~~Cl~~~~~~~~~--~~~~~W~C~~C~   52 (190)
                      ...+.+.+|.|+  .|..+||..|++++......  .....|+|+.|.
T Consensus        23 ~~~~~~~~i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~   70 (78)
T d1wewa_          23 NSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICR   70 (78)
T ss_dssp             CCCCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHH
T ss_pred             CccCCCcEEEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCc
Confidence            344567888887  79999999999875432211  123469888873

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.22  E-value=0.021  Score=36.23  Aligned_cols=41  Identities=27%  Similarity=0.611  Sum_probs=28.3

Q ss_pred             CCCCceecCCCCCCCCCCCCCCC--------cccccccC-CCCcccCCCC
Q psy11251         12 QPEDLVSCSDCGRSGHPTCLQFT--------NNMKVSVK-QYRWQCIECK   52 (190)
Q Consensus        12 ~~~~ll~C~~C~~~~H~~Cl~~~--------~~~~~~~~-~~~W~C~~C~   52 (190)
                      .++.++-|..|++.||..|+.--        .++.+... +..|.|..|.
T Consensus        25 t~~~l~pCRvCtRv~H~~CL~r~gyl~~e~a~e~~e~A~T~~GWSC~~C~   74 (89)
T d1wila_          25 TAESLFPCRVCTRVFHDGCLRRMGYIQGDSAAEVTEMAHTETGWSCHYCD   74 (89)
T ss_dssp             CSSCCSSCSSSSSCCCHHHHHHHTSCCCCCCCSCSCCCSSSSSCCCTTTC
T ss_pred             cccceecceeecchhhHHHHHHhcccccHHHHHHHHhhcCCCCcchhhhc
Confidence            46788999999999999998521        12222222 4589888884

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.05  E-value=0.014  Score=37.12  Aligned_cols=50  Identities=30%  Similarity=0.639  Sum_probs=34.7

Q ss_pred             CCCcCCCCCCCCCccccCccCCcccCCCCCCC--------CC----CCCCCCccCcccccccc
Q psy11251         53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPP--------IQ----TPPEGSWSCQLCLKEFH  103 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~--------l~----~~p~~~W~C~~C~~~~~  103 (190)
                      .|.+|..+ ..+.++-|-.|.+.||..|+..-        +.    .-.+.-|.|..|.+...
T Consensus        17 mC~vC~v~-t~~~l~pCRvCtRv~H~~CL~r~gyl~~e~a~e~~e~A~T~~GWSC~~C~nl~~   78 (89)
T d1wila_          17 MCDVCEVW-TAESLFPCRVCTRVFHDGCLRRMGYIQGDSAAEVTEMAHTETGWSCHYCDNINL   78 (89)
T ss_dssp             CCTTTCCC-CSSCCSSCSSSSSCCCHHHHHHHTSCCCCCCCSCSCCCSSSSSCCCTTTCCCCS
T ss_pred             cccccCcc-cccceecceeecchhhHHHHHHhcccccHHHHHHHHhhcCCCCcchhhhcchhh
Confidence            56677655 36678899999999999997531        11    11123899999987543

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=87.94  E-value=0.082  Score=30.68  Aligned_cols=28  Identities=18%  Similarity=0.310  Sum_probs=21.4

Q ss_pred             CCCCCCCCceecCCCCCCCCCCCCCCCc
Q psy11251          8 EKSGQPEDLVSCSDCGRSGHPTCLQFTN   35 (190)
Q Consensus         8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~   35 (190)
                      ....+++..+....|+..||..|+..+.
T Consensus        13 ~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl   40 (55)
T d1iyma_          13 AELEDGEEARFLPRCGHGFHAECVDMWL   40 (55)
T ss_dssp             CCCCTTSCCEECSSSCCEECTTHHHHTT
T ss_pred             ccccCCCEEEEeCCCCCcccHHHHHHHH
Confidence            4445567777888899999999996543

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

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=87.49  E-value=0.0077  Score=35.87  Aligned_cols=48  Identities=19%  Similarity=0.421  Sum_probs=31.4

Q ss_pred             CCCcCCCCCCCCCcc--ccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251         53 CCSVCGTSDNDDQLL--FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF  102 (190)
Q Consensus        53 ~C~~C~~~~~~~~ll--~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~  102 (190)
                      +|.+|....++..+.  .|.+|...||..|+..=+.  ..+.+.||.|...+
T Consensus         8 ~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~--~~~~~~CP~Cr~~~   57 (60)
T d1vyxa_           8 VCWICNEELGNERFRACGCTGELENVHRSCLSTWLT--ISRNTACQICGVVY   57 (60)
T ss_dssp             EETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHH--HHTCSBCTTTCCBC
T ss_pred             CCccCCccCCCceeEecccCCCCCEEcHHHHHHHHh--hCCCCCCcccCCee
Confidence            567776544333333  4667889999999874221  12457899998765

>d1n0za_ g.41.11.1 (A:) Znf265, first zinc-finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Ran binding protein zinc finger-like
family: Ran binding protein zinc finger-like
domain: Znf265, first zinc-finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.12  E-value=0.3  Score=27.17  Aligned_cols=24  Identities=29%  Similarity=0.880  Sum_probs=15.9

Q ss_pred             ccCCCCcccCC--CC--------CCCcCCCCCCC
Q psy11251         40 SVKQYRWQCIE--CK--------CCSVCGTSDND   63 (190)
Q Consensus        40 ~~~~~~W~C~~--C~--------~C~~C~~~~~~   63 (190)
                      ....++|.|++  |.        .|..|+....+
T Consensus         9 ~~~~GDW~C~~~~C~~~NFa~R~~C~rC~~~r~~   42 (45)
T d1n0za_           9 RVSDGDWICPDKKCGNVNFARRTSCDRCGREKTT   42 (45)
T ss_dssp             SSCSSSCBCSSTTTCCBCCSSCSBCSSSCCBCCC
T ss_pred             CCCCCCccCCCCCCCCeeccccCcccCCCCcCCC
Confidence            34579999984  75        67777654433

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=80.36  E-value=0.38  Score=27.62  Aligned_cols=45  Identities=24%  Similarity=0.561  Sum_probs=30.8

Q ss_pred             CCCcCCCCCC-CCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccc
Q psy11251         53 CCSVCGTSDN-DDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE  101 (190)
Q Consensus        53 ~C~~C~~~~~-~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~  101 (190)
                      .|.+|...-. ++.++....|.-.||..|+..=+...    -.||.|+..
T Consensus         7 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~----~~CP~CR~~   52 (55)
T d1iyma_           7 ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH----STCPLCRLT   52 (55)
T ss_dssp             CCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTC----CSCSSSCCC
T ss_pred             CCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhC----CcCCCCCCE
Confidence            4677765443 34555667799999999998655432    269999864