Citrus Sinensis ID: 033083

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------13
Protein Sequence
MAPKAEKKPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKEAASGDKKKKRAKKSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPASS
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHcccccc
Secondary Structure Prediction (SSPRO)
ccccHccccccccccHcccHHHccccccccccHHHccccccccccccccccccccccccHHHHHHHHHHHccccEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEcHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
mapkaekkpaekkpaeekktsvaekapaekkpkagkklpkeaasgdkkkKRAKKSIETYKIYIFKVLKQvhpdigissKAMGIMNSFINDIFEKLAQEASRLARynkkptitsREIQTAVRLVLPASS
Flexible Loop (DISEMBL)
mapkaekkpaekkpaeekktsvaekapaekkpkagkklpkeaasgdkkkkrakkSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLArynkkptitsreiqtavrlvlpass
Low Complexity Region (SEG)
MapkaekkpaekkpaeekkTSVaekapaekkpkagkklpkeaaSGDkkkkrakkSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPASS
Disordered region (IsUnstruct)
*******************************************************IETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYN*********I*TAVR*******
Disordered Region (DISOPRED)
************************************************************IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPAS*
Disordered Region (DISEMBL)
*****************************************************KSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPASS
Disordered Region (DISPRO)
********************************************************ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPA**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAPKAEKKPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKEAASGDKKKKRAKKSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPASS
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	128	2.2.26 [Sep-21-2011]
Q1S9I9	148	Probable histone H2B.1 OS	N/A	no	0.984	0.851	0.906	1e-55
Q1SWQ1	148	Probable histone H2B.2 OS	N/A	no	0.984	0.851	0.898	4e-55
P93354	146	Histone H2B OS=Nicotiana	N/A	no	0.976	0.856	0.834	9e-54
O65819	137	Histone H2B.3 (Fragment)	N/A	no	0.914	0.854	0.924	3e-52
O23629	150	Histone H2B.6 OS=Arabidop	yes	no	0.984	0.84	0.869	4e-52
Q9SI96	151	Histone H2B.3 OS=Arabidop	no	no	0.984	0.834	0.862	4e-51
O49118	145	Histone H2B OS=Capsicum a	N/A	no	0.960	0.848	0.875	3e-50
O65821	142	Histone H2B.1 OS=Solanum	N/A	no	0.953	0.859	0.857	3e-49
Q9LQQ4	148	Histone H2B.1 OS=Arabidop	no	no	0.976	0.844	0.837	4e-49
P40283	150	Histone H2B.11 OS=Arabido	yes	no	0.875	0.746	0.904	8e-48

>sp|Q1S9I9|H2B1_MEDTR Probable histone H2B.1 OS=Medicago truncatula PE=3 SV=3

 Score =  214 bits (544), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 116/128 (90%), Positives = 122/128 (95%), Gaps = 2/128 (1%)

Query: 1   MAPKAEKKPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKEAAS--GDKKKKRAKKSIET 58
           MAPK EKKPAEKKPAEEKK++VAEKAPAEKKPKAGKKLPKE  S  G+KKKKR+KKS+ET
Sbjct: 1   MAPKGEKKPAEKKPAEEKKSTVAEKAPAEKKPKAGKKLPKEGGSAAGEKKKKRSKKSVET 60

Query: 59  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQT 118
           YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQE+SRLARYNKKPTITSREIQT
Sbjct: 61  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQESSRLARYNKKPTITSREIQT 120

Query: 119 AVRLVLPA 126
           AVRLVLP 
Sbjct: 121 AVRLVLPG 128

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.
Medicago truncatula (taxid: 3880)

>sp|Q1SWQ1|H2B2_MEDTR Probable histone H2B.2 OS=Medicago truncatula PE=3 SV=3

 Score =  212 bits (540), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 115/128 (89%), Positives = 121/128 (94%), Gaps = 2/128 (1%)

Query: 1   MAPKAEKKPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKEAAS--GDKKKKRAKKSIET 58
           MAPK EKKPAEKKPAEEKK++VAEKAPAEKKPKAGKKLPKE  S  G+KKKKR+KKS+ET
Sbjct: 1   MAPKGEKKPAEKKPAEEKKSTVAEKAPAEKKPKAGKKLPKEGGSAAGEKKKKRSKKSVET 60

Query: 59  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQT 118
           YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKL QE+SRLARYNKKPTITSREIQT
Sbjct: 61  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLTQESSRLARYNKKPTITSREIQT 120

Query: 119 AVRLVLPA 126
           AVRLVLP 
Sbjct: 121 AVRLVLPG 128

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.

Medicago truncatula (taxid: 3880)

>sp|P93354|H2B_TOBAC Histone H2B OS=Nicotiana tabacum GN=HIS2B PE=2 SV=3

 Score =  208 bits (529), Expect = 9e-54,   Method: Compositional matrix adjust.
 Identities = 106/127 (83%), Positives = 118/127 (92%), Gaps = 2/127 (1%)

Query: 1   MAPKAEKKPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKEA-ASGDKKKKRAKKSIETY 59
           MAP+A+KKPAEKKP  EK T VAEKAPAEKKP+AGKKLP++A A+GDKKKKRA+ S+ETY
Sbjct: 1   MAPRADKKPAEKKPGAEK-TPVAEKAPAEKKPRAGKKLPRDAGAAGDKKKKRAEMSVETY 59

Query: 60  KIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTA 119
           KIYIF+VLK VHPDIGISSKAMGIMNSFINDIFEKLA+E+SRLA YNKKPTI+SREIQTA
Sbjct: 60  KIYIFRVLKHVHPDIGISSKAMGIMNSFINDIFEKLARESSRLAGYNKKPTISSREIQTA 119

Query: 120 VRLVLPA 126
           VRLVLP 
Sbjct: 120 VRLVLPG 126

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.

Nicotiana tabacum (taxid: 4097)

>sp|O65819|H2B3_SOLLC Histone H2B.3 (Fragment) OS=Solanum lycopersicum GN=H2B-3 PE=2 SV=1

 Score =  203 bits (516), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 110/119 (92%), Positives = 115/119 (96%), Gaps = 2/119 (1%)

Query: 8   KPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKEAASGDKKKKRAKKSIETYKIYIFKVL 67
           KPAEKKPAE  KT VAEKAPAEKKPKAGKKLPK+AA+GDKKKKR+KK++ETYKIYIFKVL
Sbjct: 1   KPAEKKPAE--KTPVAEKAPAEKKPKAGKKLPKDAAAGDKKKKRSKKAVETYKIYIFKVL 58

Query: 68  KQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPA 126
           KQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLP 
Sbjct: 59  KQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPG 117

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.

Solanum lycopersicum (taxid: 4081)

>sp|O23629|H2B6_ARATH Histone H2B.6 OS=Arabidopsis thaliana GN=H2B PE=1 SV=3

 Score =  202 bits (514), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 113/130 (86%), Positives = 118/130 (90%), Gaps = 4/130 (3%)

Query: 1   MAPKAEKKPAEKKPAEEK---KTSVAEKAPAEKKPKAGKKLPKEA-ASGDKKKKRAKKSI 56
           MAP+AEKKPAEKKPA EK   + S AEKAPAEKKPKAGKKLPKEA A GDKKKK  KKS+
Sbjct: 1   MAPRAEKKPAEKKPAAEKPVEEKSKAEKAPAEKKPKAGKKLPKEAGAGGDKKKKMKKKSV 60

Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLA E+S+LARYNKKPTITSREI
Sbjct: 61  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLASESSKLARYNKKPTITSREI 120

Query: 117 QTAVRLVLPA 126
           QTAVRLVLP 
Sbjct: 121 QTAVRLVLPG 130

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SI96|H2B3_ARATH Histone H2B.3 OS=Arabidopsis thaliana GN=At2g28720 PE=1 SV=3

 Score =  199 bits (507), Expect = 4e-51,   Method: Compositional matrix adjust.
 Identities = 113/131 (86%), Positives = 119/131 (90%), Gaps = 5/131 (3%)

Query: 1   MAPKAEKKPAEKKPAEE---KKTSVAEKAPAEKKPKAGKKLPKEAASG--DKKKKRAKKS 55
           MAPKA KKPAEKKPAE+   ++  VAEKAPAEKKPKAGKKLPKEA +G  +KKKKR KKS
Sbjct: 1   MAPKAGKKPAEKKPAEKAPAEEEKVAEKAPAEKKPKAGKKLPKEAVTGGVEKKKKRVKKS 60

Query: 56  IETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSRE 115
            ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEAS+LARYNKKPTITSRE
Sbjct: 61  TETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASKLARYNKKPTITSRE 120

Query: 116 IQTAVRLVLPA 126
           IQTAVRLVLP 
Sbjct: 121 IQTAVRLVLPG 131

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.

Arabidopsis thaliana (taxid: 3702)

>sp|O49118|H2B_CAPAN Histone H2B OS=Capsicum annuum GN=HIS2B PE=2 SV=3

 Score =  196 bits (499), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 112/128 (87%), Positives = 116/128 (90%), Gaps = 5/128 (3%)

Query: 1   MAPKAE--KKPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKEAASGDKKKKRAKKSIET 58
           MAPKA   KKPAEKKP EEKK   AE+ PAEKKPKAGKKLPK+A   DKKKKRAKKSIET
Sbjct: 1   MAPKAAAGKKPAEKKPVEEKK---AEEVPAEKKPKAGKKLPKDAGRPDKKKKRAKKSIET 57

Query: 59  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQT 118
           YKIYIFKVLKQVHPDIGISSK+MGIMNSFINDIFEKLAQE+SRLARYNKKPTITSREIQT
Sbjct: 58  YKIYIFKVLKQVHPDIGISSKSMGIMNSFINDIFEKLAQESSRLARYNKKPTITSREIQT 117

Query: 119 AVRLVLPA 126
           AVRLVLP 
Sbjct: 118 AVRLVLPG 125

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.

Capsicum annuum (taxid: 4072)

>sp|O65821|H2B1_SOLLC Histone H2B.1 OS=Solanum lycopersicum GN=H2B-1 PE=2 SV=4

 Score =  193 bits (490), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 108/126 (85%), Positives = 116/126 (92%), Gaps = 4/126 (3%)

Query: 1   MAPKAEKKPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKEAASGDKKKKRAKKSIETYK 60
           MAPKA KKPAEKKP EEKK   AE+ PAEKKPKAGKKLPK+A + DKKKK++KKS+ETYK
Sbjct: 1   MAPKAGKKPAEKKPVEEKK---AEEVPAEKKPKAGKKLPKDAGA-DKKKKKSKKSVETYK 56

Query: 61  IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAV 120
           IYIFKVLKQVHPDIGISSK+MGIMNSFINDIFEKLAQE+SRLAR NKKPTITSREIQTAV
Sbjct: 57  IYIFKVLKQVHPDIGISSKSMGIMNSFINDIFEKLAQESSRLARINKKPTITSREIQTAV 116

Query: 121 RLVLPA 126
           RLVLP 
Sbjct: 117 RLVLPG 122

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.

Solanum lycopersicum (taxid: 4081)

>sp|Q9LQQ4|H2B1_ARATH Histone H2B.1 OS=Arabidopsis thaliana GN=At1g07790 PE=1 SV=3

 Score =  192 bits (489), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 108/129 (83%), Positives = 117/129 (90%), Gaps = 4/129 (3%)

Query: 1   MAPKAEKKPAEKKPAEEK---KTSVAEKAPAEKKPKAGKKLPKEAASGDKKKKRAKKSIE 57
           MAP+AEKKPAEKK A E+   +   AEKAPAEKKPKAGKKLP + A GDKKKKR+KK++E
Sbjct: 1   MAPRAEKKPAEKKTAAERPVEENKAAEKAPAEKKPKAGKKLPPKEA-GDKKKKRSKKNVE 59

Query: 58  TYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQ 117
           TYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQE+S+LARYNKKPTITSREIQ
Sbjct: 60  TYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQESSKLARYNKKPTITSREIQ 119

Query: 118 TAVRLVLPA 126
           TAVRLVLP 
Sbjct: 120 TAVRLVLPG 128

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.

Arabidopsis thaliana (taxid: 3702)

>sp|P40283|H2B11_ARATH Histone H2B.11 OS=Arabidopsis thaliana GN=At5g59910 PE=1 SV=5

 Score =  188 bits (478), Expect = 8e-48,   Method: Compositional matrix adjust.
 Identities = 104/115 (90%), Positives = 106/115 (92%), Gaps = 3/115 (2%)

Query: 13  KPAEEKKTSVAEKAPAEKKPKAGKKLPKEA-ASGDKKKKRAKKSIETYKIYIFKVLKQVH 71
           KP EEK  S AEKAPAEKKPKAGKKLPKEA A GDKKKK  KKS+ETYKIYIFKVLKQVH
Sbjct: 18  KPVEEK--SKAEKAPAEKKPKAGKKLPKEAGAGGDKKKKMKKKSVETYKIYIFKVLKQVH 75

Query: 72  PDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPA 126
           PDIGISSKAMGIMNSFINDIFEKLAQEAS+LARYNKKPTITSREIQTAVRLVLP 
Sbjct: 76  PDIGISSKAMGIMNSFINDIFEKLAQEASKLARYNKKPTITSREIQTAVRLVLPG 130

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.

Arabidopsis thaliana (taxid: 3702)

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	128
357472693	147	Histone H2B [Medicago truncatula] gi|355	0.976	0.850	0.898	1e-56
357472685	148	Histone H2B [Medicago truncatula] gi|357	0.984	0.851	0.906	2e-54
217071596	148	unknown [Medicago truncatula] gi|3885169	0.984	0.851	0.898	8e-54
357473451	148	Histone H2B [Medicago truncatula] gi|108	0.984	0.851	0.906	1e-53
357473279	290	Histone H2B [Medicago truncatula] gi|355	0.984	0.434	0.906	1e-53
108860773	148	RecName: Full=Probable histone H2B.2	0.984	0.851	0.898	3e-53
224065198	148	histone 2 [Populus trichocarpa] gi|11848	0.976	0.844	0.914	4e-53
7387729	146	RecName: Full=Histone H2B gi|1848210|emb	0.976	0.856	0.834	6e-52
449450686	152	PREDICTED: probable histone H2B.1-like [	0.984	0.828	0.878	9e-52
255584776	146	histone h2b, putative [Ricinus communis]	0.976	0.856	0.868	1e-50

>gi|357472693|ref|XP_003606631.1| Histone H2B [Medicago truncatula] gi|355507686|gb|AES88828.1| Histone H2B [Medicago truncatula]

 Score =  224 bits (570), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 115/128 (89%), Positives = 121/128 (94%), Gaps = 3/128 (2%)

Query: 1   MAPKAEKKPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKEAAS--GDKKKKRAKKSIET 58
           MAPK EKKPAEKKPAEEKK++VAEKAPAEKKPKAGKKLPKE  S  GDKKK R+KK++ET
Sbjct: 1   MAPKGEKKPAEKKPAEEKKSTVAEKAPAEKKPKAGKKLPKEGGSAAGDKKK-RSKKNVET 59

Query: 59  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQT 118
           YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQE+SRLARYNKKPTITSREIQT
Sbjct: 60  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQESSRLARYNKKPTITSREIQT 119

Query: 119 AVRLVLPA 126
           AVRLVLP 
Sbjct: 120 AVRLVLPG 127

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357472685|ref|XP_003606627.1| Histone H2B [Medicago truncatula] gi|357472689|ref|XP_003606629.1| Histone H2B [Medicago truncatula] gi|355507682|gb|AES88824.1| Histone H2B [Medicago truncatula] gi|355507684|gb|AES88826.1| Histone H2B [Medicago truncatula] gi|388495180|gb|AFK35656.1| unknown [Medicago truncatula]

 Score =  216 bits (551), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 116/128 (90%), Positives = 122/128 (95%), Gaps = 2/128 (1%)

Query: 1   MAPKAEKKPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKEAAS--GDKKKKRAKKSIET 58
           MAPK EKKPAEKKPAEEKK++VAEKAPAEKKPKAGKKLPKE  S  GDKKKKR+KK++ET
Sbjct: 1   MAPKGEKKPAEKKPAEEKKSTVAEKAPAEKKPKAGKKLPKEGGSAAGDKKKKRSKKNVET 60

Query: 59  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQT 118
           YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQE+SRLARYNKKPTITSREIQT
Sbjct: 61  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQESSRLARYNKKPTITSREIQT 120

Query: 119 AVRLVLPA 126
           AVRLVLP 
Sbjct: 121 AVRLVLPG 128

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217071596|gb|ACJ84158.1| unknown [Medicago truncatula] gi|388516999|gb|AFK46561.1| unknown [Medicago truncatula]

 Score =  214 bits (546), Expect = 8e-54,   Method: Compositional matrix adjust.
 Identities = 115/128 (89%), Positives = 122/128 (95%), Gaps = 2/128 (1%)

Query: 1   MAPKAEKKPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKEAAS--GDKKKKRAKKSIET 58
           MAPK EKKPAEKKPAEEKK++VAEKAPAEKKPKAGKKLPKE  S  G+KKKKR+KK++ET
Sbjct: 1   MAPKGEKKPAEKKPAEEKKSTVAEKAPAEKKPKAGKKLPKEGGSAAGEKKKKRSKKNVET 60

Query: 59  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQT 118
           YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQE+SRLARYNKKPTITSREIQT
Sbjct: 61  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQESSRLARYNKKPTITSREIQT 120

Query: 119 AVRLVLPA 126
           AVRLVLP 
Sbjct: 121 AVRLVLPG 128

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357473451|ref|XP_003607010.1| Histone H2B [Medicago truncatula] gi|108860772|sp|Q1S9I9.3|H2B1_MEDTR RecName: Full=Probable histone H2B.1 gi|355508065|gb|AES89207.1| Histone H2B [Medicago truncatula] gi|388510538|gb|AFK43335.1| unknown [Medicago truncatula]

 Score =  214 bits (544), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 116/128 (90%), Positives = 122/128 (95%), Gaps = 2/128 (1%)

Query: 1   MAPKAEKKPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKEAAS--GDKKKKRAKKSIET 58
           MAPK EKKPAEKKPAEEKK++VAEKAPAEKKPKAGKKLPKE  S  G+KKKKR+KKS+ET
Sbjct: 1   MAPKGEKKPAEKKPAEEKKSTVAEKAPAEKKPKAGKKLPKEGGSAAGEKKKKRSKKSVET 60

Query: 59  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQT 118
           YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQE+SRLARYNKKPTITSREIQT
Sbjct: 61  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQESSRLARYNKKPTITSREIQT 120

Query: 119 AVRLVLPA 126
           AVRLVLP 
Sbjct: 121 AVRLVLPG 128

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357473279|ref|XP_003606924.1| Histone H2B [Medicago truncatula] gi|355507979|gb|AES89121.1| Histone H2B [Medicago truncatula]

 Score =  214 bits (544), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 116/128 (90%), Positives = 122/128 (95%), Gaps = 2/128 (1%)

Query: 1   MAPKAEKKPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKEAAS--GDKKKKRAKKSIET 58
           MAPK EKKPAEKKPAEEKK++VAEKAPAEKKPKAGKKLPKE  S  G+KKKKR+KKS+ET
Sbjct: 1   MAPKGEKKPAEKKPAEEKKSTVAEKAPAEKKPKAGKKLPKEGGSAAGEKKKKRSKKSVET 60

Query: 59  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQT 118
           YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQE+SRLARYNKKPTITSREIQT
Sbjct: 61  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQESSRLARYNKKPTITSREIQT 120

Query: 119 AVRLVLPA 126
           AVRLVLP 
Sbjct: 121 AVRLVLPG 128

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|108860773|sp|Q1SWQ1.3|H2B2_MEDTR RecName: Full=Probable histone H2B.2

 Score =  212 bits (540), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 115/128 (89%), Positives = 121/128 (94%), Gaps = 2/128 (1%)

Query: 1   MAPKAEKKPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKEAAS--GDKKKKRAKKSIET 58
           MAPK EKKPAEKKPAEEKK++VAEKAPAEKKPKAGKKLPKE  S  G+KKKKR+KKS+ET
Sbjct: 1   MAPKGEKKPAEKKPAEEKKSTVAEKAPAEKKPKAGKKLPKEGGSAAGEKKKKRSKKSVET 60

Query: 59  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQT 118
           YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKL QE+SRLARYNKKPTITSREIQT
Sbjct: 61  YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLTQESSRLARYNKKPTITSREIQT 120

Query: 119 AVRLVLPA 126
           AVRLVLP 
Sbjct: 121 AVRLVLPG 128

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224065198|ref|XP_002301712.1| histone 2 [Populus trichocarpa] gi|118489629|gb|ABK96616.1| unknown [Populus trichocarpa x Populus deltoides] gi|222843438|gb|EEE80985.1| histone 2 [Populus trichocarpa]

 Score =  212 bits (540), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 118/129 (91%), Positives = 121/129 (93%), Gaps = 4/129 (3%)

Query: 1   MAPKAEKKPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKE---AASGDKKKKRAKKSIE 57
           MAP+AEKKPAEKKPAEEKKT VAEKAPAEKKPKAGKKLPKE   A +GDKKKKR KKS E
Sbjct: 1   MAPRAEKKPAEKKPAEEKKT-VAEKAPAEKKPKAGKKLPKEGGAAVAGDKKKKRVKKSTE 59

Query: 58  TYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQ 117
           TYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQE+SRLARYNKKPTITSREIQ
Sbjct: 60  TYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQESSRLARYNKKPTITSREIQ 119

Query: 118 TAVRLVLPA 126
           TAVRLVLP 
Sbjct: 120 TAVRLVLPG 128

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|7387729|sp|P93354.3|H2B_TOBAC RecName: Full=Histone H2B gi|1848210|emb|CAA72091.1| histone H2B1 [Nicotiana tabacum]

 Score =  208 bits (529), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 106/127 (83%), Positives = 118/127 (92%), Gaps = 2/127 (1%)

Query: 1   MAPKAEKKPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKEA-ASGDKKKKRAKKSIETY 59
           MAP+A+KKPAEKKP  EK T VAEKAPAEKKP+AGKKLP++A A+GDKKKKRA+ S+ETY
Sbjct: 1   MAPRADKKPAEKKPGAEK-TPVAEKAPAEKKPRAGKKLPRDAGAAGDKKKKRAEMSVETY 59

Query: 60  KIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTA 119
           KIYIF+VLK VHPDIGISSKAMGIMNSFINDIFEKLA+E+SRLA YNKKPTI+SREIQTA
Sbjct: 60  KIYIFRVLKHVHPDIGISSKAMGIMNSFINDIFEKLARESSRLAGYNKKPTISSREIQTA 119

Query: 120 VRLVLPA 126
           VRLVLP 
Sbjct: 120 VRLVLPG 126

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449450686|ref|XP_004143093.1| PREDICTED: probable histone H2B.1-like [Cucumis sativus] gi|449508145|ref|XP_004163232.1| PREDICTED: probable histone H2B.1-like [Cucumis sativus]

 Score =  207 bits (528), Expect = 9e-52,   Method: Compositional matrix adjust.
 Identities = 116/132 (87%), Positives = 122/132 (92%), Gaps = 6/132 (4%)

Query: 1   MAPKAEKKPAEKKPAEEK----KTSVAEKAPAEKKPKAGKKLPKE--AASGDKKKKRAKK 54
           MAPKA+KKPAEKKPA EK    K +VAEKAPAEKKPKAGKKLPKE  AA+GDKKKKR KK
Sbjct: 1   MAPKADKKPAEKKPASEKPAEEKKTVAEKAPAEKKPKAGKKLPKEGGAAAGDKKKKRTKK 60

Query: 55  SIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSR 114
           S+ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQE+S+LARYNKKPTITSR
Sbjct: 61  SVETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQESSKLARYNKKPTITSR 120

Query: 115 EIQTAVRLVLPA 126
           EIQTAVRLVLP 
Sbjct: 121 EIQTAVRLVLPG 132

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255584776|ref|XP_002533106.1| histone h2b, putative [Ricinus communis] gi|223527097|gb|EEF29278.1| histone h2b, putative [Ricinus communis]

 Score =  204 bits (519), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 112/129 (86%), Positives = 115/129 (89%), Gaps = 4/129 (3%)

Query: 1   MAPKAEKKPAEKKPAEEKKTSVAEKAPAEKKPKAGKKLPKEAASGDKKKKRAKK---SIE 57
           MAPK EKKPAEKKPAEEKKT VAEKAPAEKKPKAGKKLPKE  +     K+ K+   SIE
Sbjct: 1   MAPKTEKKPAEKKPAEEKKT-VAEKAPAEKKPKAGKKLPKEGGAAAAGDKKKKRTKKSIE 59

Query: 58  TYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQ 117
           TYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQ
Sbjct: 60  TYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQ 119

Query: 118 TAVRLVLPA 126
           TAVRLVLP 
Sbjct: 120 TAVRLVLPG 128

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	128
TAIR|locus:2168093	150	HTB4 [Arabidopsis thaliana (ta	0.632	0.54	0.876	6e-32
TAIR|locus:2026494	148	HTB1 [Arabidopsis thaliana (ta	0.640	0.554	0.841	1.6e-31
TAIR|locus:2054553	151	AT2G28720 [Arabidopsis thalian	0.554	0.470	0.971	4.2e-31
TAIR|locus:2077182	150	HTB9 [Arabidopsis thaliana (ta	0.632	0.54	0.851	4.2e-31
TAIR|locus:2077152	145	HTB11 [Arabidopsis thaliana (t	0.632	0.558	0.851	4.2e-31
TAIR|locus:2084096	138	AT3G53650 [Arabidopsis thalian	0.554	0.514	0.957	6.9e-31
TAIR|locus:2172691	145	HTB2 "histone B2" [Arabidopsis	0.640	0.565	0.829	8.8e-31
TAIR|locus:2049857	138	AT2G37470 [Arabidopsis thalian	0.554	0.514	0.929	1.1e-30
TAIR|locus:2181823	132	AT5G02570 [Arabidopsis thalian	0.554	0.537	0.957	1.1e-30
TAIR|locus:2074959	126	AT3G09480 [Arabidopsis thalian	0.554	0.563	0.901	5.6e-29

TAIR|locus:2168093 HTB4 [Arabidopsis thaliana (taxid:3702)]

 Score = 350 (128.3 bits), Expect = 6.0e-32, P = 6.0e-32
 Identities = 71/81 (87%), Positives = 73/81 (90%)

Query:    45 GDXXXXXXXXSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLAR 104
             GD        S+ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEAS+LAR
Sbjct:    49 GDKKKKMKKKSVETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASKLAR 108

Query:   105 YNKKPTITSREIQTAVRLVLP 125
             YNKKPTITSREIQTAVRLVLP
Sbjct:   109 YNKKPTITSREIQTAVRLVLP 129

GO:0000786 "nucleosome" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0005730 "nucleolus" evidence=IDA

GO:0009534 "chloroplast thylakoid" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0009062 "fatty acid catabolic process" evidence=RCA

TAIR|locus:2026494 HTB1 [Arabidopsis thaliana (taxid:3702)]

 Score = 346 (126.9 bits), Expect = 1.6e-31, P = 1.6e-31
 Identities = 69/82 (84%), Positives = 74/82 (90%)

Query:    44 SGDXXXXXXXXSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLA 103
             +GD        ++ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQE+S+LA
Sbjct:    46 AGDKKKKRSKKNVETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQESSKLA 105

Query:   104 RYNKKPTITSREIQTAVRLVLP 125
             RYNKKPTITSREIQTAVRLVLP
Sbjct:   106 RYNKKPTITSREIQTAVRLVLP 127

GO:0000786 "nucleosome" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0009507 "chloroplast" evidence=IDA

TAIR|locus:2054553 AT2G28720 [Arabidopsis thaliana (taxid:3702)]

 Score = 342 (125.4 bits), Expect = 4.2e-31, P = 4.2e-31
 Identities = 69/71 (97%), Positives = 70/71 (98%)

Query:    55 SIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSR 114
             S ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEAS+LARYNKKPTITSR
Sbjct:    60 STETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASKLARYNKKPTITSR 119

Query:   115 EIQTAVRLVLP 125
             EIQTAVRLVLP
Sbjct:   120 EIQTAVRLVLP 130

GO:0000786 "nucleosome" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006334 "nucleosome assembly" evidence=IEA

TAIR|locus:2077182 HTB9 [Arabidopsis thaliana (taxid:3702)]

 Score = 342 (125.4 bits), Expect = 4.2e-31, P = 4.2e-31
 Identities = 69/81 (85%), Positives = 72/81 (88%)

Query:    45 GDXXXXXXXXSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLAR 104
             GD        S+ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLA E+S+LAR
Sbjct:    49 GDKKKKMKKKSVETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLASESSKLAR 108

Query:   105 YNKKPTITSREIQTAVRLVLP 125
             YNKKPTITSREIQTAVRLVLP
Sbjct:   109 YNKKPTITSREIQTAVRLVLP 129

GO:0000786 "nucleosome" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0005730 "nucleolus" evidence=IDA

GO:0009534 "chloroplast thylakoid" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0007020 "microtubule nucleation" evidence=RCA

TAIR|locus:2077152 HTB11 [Arabidopsis thaliana (taxid:3702)]

 Score = 342 (125.4 bits), Expect = 4.2e-31, P = 4.2e-31
 Identities = 69/81 (85%), Positives = 72/81 (88%)

Query:    45 GDXXXXXXXXSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLAR 104
             GD        S+ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLA E+S+LAR
Sbjct:    44 GDKKKKMKKKSVETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLASESSKLAR 103

Query:   105 YNKKPTITSREIQTAVRLVLP 125
             YNKKPTITSREIQTAVRLVLP
Sbjct:   104 YNKKPTITSREIQTAVRLVLP 124

GO:0000786 "nucleosome" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2084096 AT3G53650 [Arabidopsis thaliana (taxid:3702)]

 Score = 340 (124.7 bits), Expect = 6.9e-31, P = 6.9e-31
 Identities = 68/71 (95%), Positives = 70/71 (98%)

Query:    55 SIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSR 114
             +IETYKIYIFKVLKQVHPDIGIS KAMGIMNSFINDIFEKLAQE+SRLARYNKKPTITSR
Sbjct:    47 NIETYKIYIFKVLKQVHPDIGISGKAMGIMNSFINDIFEKLAQESSRLARYNKKPTITSR 106

Query:   115 EIQTAVRLVLP 125
             EIQTAVRLVLP
Sbjct:   107 EIQTAVRLVLP 117

GO:0000786 "nucleosome" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006334 "nucleosome assembly" evidence=IEA

TAIR|locus:2172691 HTB2 "histone B2" [Arabidopsis thaliana (taxid:3702)]

 Score = 339 (124.4 bits), Expect = 8.8e-31, P = 8.8e-31
 Identities = 68/82 (82%), Positives = 73/82 (89%)

Query:    44 SGDXXXXXXXXSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLA 103
             +GD        ++ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLA E+S+LA
Sbjct:    43 AGDKKKKRSKKNVETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAGESSKLA 102

Query:   104 RYNKKPTITSREIQTAVRLVLP 125
             RYNKKPTITSREIQTAVRLVLP
Sbjct:   103 RYNKKPTITSREIQTAVRLVLP 124

GO:0000786 "nucleosome" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA;IDA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0005730 "nucleolus" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008283 "cell proliferation" evidence=RCA

TAIR|locus:2049857 AT2G37470 [Arabidopsis thaliana (taxid:3702)]

 Score = 338 (124.0 bits), Expect = 1.1e-30, P = 1.1e-30
 Identities = 66/71 (92%), Positives = 70/71 (98%)

Query:    55 SIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSR 114
             S+ETYKIYIFKVLKQVHPD+GIS KAMGIMNSFINDIFEKLAQE+S+LARYNKKPTITSR
Sbjct:    48 SVETYKIYIFKVLKQVHPDVGISGKAMGIMNSFINDIFEKLAQESSKLARYNKKPTITSR 107

Query:   115 EIQTAVRLVLP 125
             EIQTAVRLVLP
Sbjct:   108 EIQTAVRLVLP 118

GO:0000786 "nucleosome" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006334 "nucleosome assembly" evidence=IEA

TAIR|locus:2181823 AT5G02570 [Arabidopsis thaliana (taxid:3702)]

 Score = 338 (124.0 bits), Expect = 1.1e-30, P = 1.1e-30
 Identities = 68/71 (95%), Positives = 69/71 (97%)

Query:    55 SIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSR 114
             S ETYKIYIFKVLKQVHPDIGIS KAMGIMNSFINDIFEKLAQE+SRLARYNKKPTITSR
Sbjct:    41 STETYKIYIFKVLKQVHPDIGISGKAMGIMNSFINDIFEKLAQESSRLARYNKKPTITSR 100

Query:   115 EIQTAVRLVLP 125
             EIQTAVRLVLP
Sbjct:   101 EIQTAVRLVLP 111

GO:0000786 "nucleosome" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0005730 "nucleolus" evidence=IDA

GO:0048610 "cellular process involved in reproduction" evidence=RCA

GO:0048868 "pollen tube development" evidence=RCA

TAIR|locus:2074959 AT3G09480 [Arabidopsis thaliana (taxid:3702)]

 Score = 322 (118.4 bits), Expect = 5.6e-29, P = 5.6e-29
 Identities = 64/71 (90%), Positives = 67/71 (94%)

Query:    55 SIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSR 114
             S ETYKIY+FKVLKQVHPDIGIS KAMGIMNSFIND FEK+A E+SRLARYNKKPTITSR
Sbjct:    35 STETYKIYLFKVLKQVHPDIGISGKAMGIMNSFINDTFEKIALESSRLARYNKKPTITSR 94

Query:   115 EIQTAVRLVLP 125
             EIQTAVRLVLP
Sbjct:    95 EIQTAVRLVLP 105

GO:0000786 "nucleosome" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006334 "nucleosome assembly" 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)
Q59VP1	H2B2_CANAL	No assigned EC number	0.6269	0.8437	0.8307	N/A	no
P40283	H2B11_ARATH	No assigned EC number	0.9043	0.875	0.7466	yes	no
Q9FFC0	H2B10_ARATH	No assigned EC number	0.8387	0.9531	0.8413	no	no
P93354	H2B_TOBAC	No assigned EC number	0.8346	0.9765	0.8561	N/A	no
O49118	H2B_CAPAN	No assigned EC number	0.875	0.9609	0.8482	N/A	no
P30755	H2B1_MAIZE	No assigned EC number	0.7962	0.8125	0.6887	N/A	no
Q2U5A9	H2B_ASPOR	No assigned EC number	0.6587	0.9296	0.8439	yes	no
Q43261	H2B3_MAIZE	No assigned EC number	0.7818	0.8125	0.6797	N/A	no
O65819	H2B3_SOLLC	No assigned EC number	0.9243	0.9140	0.8540	N/A	no
O65818	H2B2_SOLLC	No assigned EC number	0.8865	0.7421	0.6785	N/A	no
Q9LQQ4	H2B1_ARATH	No assigned EC number	0.8372	0.9765	0.8445	no	no
P27807	H2B1_WHEAT	No assigned EC number	0.7809	0.7812	0.6578	N/A	no
Q9LZ45	H2B9_ARATH	No assigned EC number	0.7421	0.8593	0.8333	no	no
Q9SI96	H2B3_ARATH	No assigned EC number	0.8625	0.9843	0.8344	no	no
O23629	H2B6_ARATH	No assigned EC number	0.8692	0.9843	0.84	yes	no
P48989	H2B1_CANAL	No assigned EC number	0.6269	0.8437	0.8307	N/A	no
Q9LFF6	H2B8_ARATH	No assigned EC number	0.8110	0.9140	0.8478	no	no
A2QY49	H2B_ASPNC	No assigned EC number	0.6507	0.9296	0.8439	yes	no
A5DBG5	H2B2_PICGU	No assigned EC number	0.632	0.8281	0.8217	N/A	no
A2WWU2	H2B11_ORYSI	No assigned EC number	0.9305	0.5625	0.5179	N/A	no
A2WKP3	H2B3_ORYSI	No assigned EC number	0.7572	0.7578	0.6339	N/A	no
A2WKP5	H2B4_ORYSI	No assigned EC number	0.7669	0.7578	0.6339	N/A	no
Q9ZUS0	H2B4_ARATH	No assigned EC number	0.7874	0.9218	0.8550	no	no
A3AGM4	H2B1_ORYSJ	No assigned EC number	0.7927	0.8125	0.6842	yes	no
A2YWI3	H2B2_ORYSI	No assigned EC number	0.7387	0.8125	0.6933	N/A	no
O22582	H2B_GOSHI	No assigned EC number	0.9439	0.8203	0.7142	N/A	no
Q9LZT0	H2B7_ARATH	No assigned EC number	0.9142	0.8125	0.7172	yes	no
Q1SWQ1	H2B2_MEDTR	No assigned EC number	0.8984	0.9843	0.8513	N/A	no
A5DWF0	H2B_LODEL	No assigned EC number	0.6190	0.8515	0.8320	N/A	no
A1CJ09	H2B_ASPCL	No assigned EC number	0.6587	0.9218	0.8428	N/A	no
Q1E5N0	H2B_COCIM	No assigned EC number	0.6507	0.9140	0.8417	N/A	no
O65821	H2B1_SOLLC	No assigned EC number	0.8571	0.9531	0.8591	N/A	no
Q43215	H2B4_WHEAT	No assigned EC number	0.7086	0.8906	0.8444	N/A	no
A2WKS5	H2B8_ORYSI	No assigned EC number	0.7475	0.7578	0.6339	N/A	no
Q43216	H2B5_WHEAT	No assigned EC number	0.7559	0.8984	0.8455	N/A	no
A2WKS3	H2B10_ORYSI	No assigned EC number	0.7669	0.7578	0.6339	N/A	no
Q1SU99	H2B3_MEDTR	No assigned EC number	0.9166	0.6562	0.6086	N/A	no
P05621	H2B2_WHEAT	No assigned EC number	0.7109	0.9062	0.7733	N/A	no
Q1S9I9	H2B1_MEDTR	No assigned EC number	0.9062	0.9843	0.8513	N/A	no
Q6BKW7	H2B2_DEBHA	No assigned EC number	0.6190	0.8359	0.8294	yes	no
Q5BJA5	H2B1_DANRE	No assigned EC number	0.6862	0.7656	0.7903	yes	no
A2XF66	H2B1_ORYSI	No assigned EC number	0.7927	0.8125	0.6842	N/A	no
Q6BRG2	H2B1_DEBHA	No assigned EC number	0.6190	0.8437	0.8307	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	HTB903	histone 2; Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling (By similarity) (148 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	gw1.III.2578.1	hypothetical protein (82 aa)							•		0.502
	HTR913	RecName- Full=Histone H3; (136 aa)							•		0.502
	HTR908	RecName- Full=Histone H3; (137 aa)							•		0.502
	grail3.0011011101	RecName- Full=Histone H3; (137 aa)							•		0.502
	HTR904	histone H3 (129 aa)							•		0.502
	fgenesh4_pg.C_LG_II000927	hypothetical protein (309 aa)							•		0.502
	HTR905	histone H4 (70 aa)							•		0.502
	HTR901	RecName- Full=Histone H3; (137 aa)							•		0.502
	gw1.13136.3.1	hypothetical protein (60 aa)							•		0.502
	grail3.2024000101	hypothetical protein (140 aa)							•		0.502

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	128
smart00427	97	smart00427, H2B, Histone H2B	2e-37
PLN00158	116	PLN00158, PLN00158, histone H2B; Provisional	2e-30
PTZ00463	117	PTZ00463, PTZ00463, histone H2B; Provisional	4e-24
pfam00125	75	pfam00125, Histone, Core histone H2A/H2B/H3/H4	5e-23

>gnl|CDD|197718 smart00427, H2B, Histone H2B

 Score =  122 bits (307), Expect = 2e-37
 Identities = 60/78 (76%), Positives = 69/78 (88%)

Query: 49  KKRAKKSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKK 108
           KKR KK  ETY IYI+KVLKQVHPD GISS+AM IMNSF+NDIFE++A EAS+LARYNKK
Sbjct: 1   KKRVKKRKETYAIYIYKVLKQVHPDTGISSRAMSIMNSFVNDIFERIAAEASKLARYNKK 60

Query: 109 PTITSREIQTAVRLVLPA 126
            T++SREIQTAVRL+LP 
Sbjct: 61  STLSSREIQTAVRLILPG 78

Length = 97

>gnl|CDD|215081 PLN00158, PLN00158, histone H2B; Provisional

 Score =  105 bits (262), Expect = 2e-30
 Identities = 70/90 (77%), Positives = 77/90 (85%), Gaps = 1/90 (1%)

Query: 36  KKLPKEAASGDKKKKRAKKSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKL 95
           KK  K+AA G KKK    K+ ETYKIYI+KVLKQVHPD GISSKAM IMNSFINDIFEK+
Sbjct: 7   KKPAKKAAKGAKKKGSKSKT-ETYKIYIYKVLKQVHPDTGISSKAMSIMNSFINDIFEKI 65

Query: 96  AQEASRLARYNKKPTITSREIQTAVRLVLP 125
           A EA +LARYNKKPT+TSREIQTAVRL+LP
Sbjct: 66  ATEAGKLARYNKKPTVTSREIQTAVRLILP 95

Length = 116

>gnl|CDD|185642 PTZ00463, PTZ00463, histone H2B; Provisional

 Score = 89.1 bits (220), Expect = 4e-24
 Identities = 57/94 (60%), Positives = 69/94 (73%)

Query: 33  KAGKKLPKEAASGDKKKKRAKKSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIF 92
           K   K  K A   D KKKR K   ++Y +YIFKVLKQVHPD GIS K+M IMNSF+ D F
Sbjct: 4   KKPAKAKKAATGPDGKKKRKKSRYDSYGLYIFKVLKQVHPDTGISRKSMNIMNSFLVDTF 63

Query: 93  EKLAQEASRLARYNKKPTITSREIQTAVRLVLPA 126
           EK+A EASRL +Y ++ T++SREIQTA+RLVLP 
Sbjct: 64  EKIATEASRLCKYTRRDTLSSREIQTAIRLVLPG 97

Length = 117

>gnl|CDD|201020 pfam00125, Histone, Core histone H2A/H2B/H3/H4

 Score = 84.9 bits (211), Expect = 5e-23
 Identities = 24/75 (32%), Positives = 42/75 (56%), Gaps = 4/75 (5%)

Query: 53  KKSIETYKIYIFKVLKQVHPD----IGISSKAMGIMNSFINDIFEKLAQEASRLARYNKK 108
              +   K+   +V++++       + ISSKA   +   + D+ E++ ++A  LAR+ K+
Sbjct: 1   SSRLLILKLPFSRVVRELKEGFYAELRISSKAPVALQEALEDLLEEILEDAGLLARHAKR 60

Query: 109 PTITSREIQTAVRLV 123
            TIT R+IQ AVRL 
Sbjct: 61  KTITPRDIQLAVRLD 75

Length = 75

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	128
PTZ00463	117	histone H2B; Provisional	100.0
PLN00158	116	histone H2B; Provisional	100.0
smart00427	89	H2B Histone H2B.	100.0
KOG1744	127	consensus Histone H2B [Chromatin structure and dyn	100.0
PF00125	75	Histone: Core histone H2A/H2B/H3/H4 histone h2a si	99.64
cd07981	72	TAF12 TATA Binding Protein (TBP) Associated Factor	98.35
PF00808	65	CBFD_NFYB_HMF: Histone-like transcription factor (	98.33
COG2036	91	HHT1 Histones H3 and H4 [Chromatin structure and d	98.05
PF03847	68	TFIID_20kDa: Transcription initiation factor TFIID	97.66
smart00803	65	TAF TATA box binding protein associated factor. TA	97.53
cd00074	115	H2A Histone 2A; H2A is a subunit of the nucleosome	97.52
PLN00035	103	histone H4; Provisional	97.43
cd00076	85	H4 Histone H4, one of the four histones, along wit	97.37
PTZ00015	102	histone H4; Provisional	97.27
smart00428	105	H3 Histone H3.	97.17
cd07979	117	TAF9 TATA Binding Protein (TBP) Associated Factor	97.04
KOG0869	168	consensus CCAAT-binding factor, subunit A (HAP3) [	96.72
smart00417	74	H4 Histone H4.	96.64
KOG0871	156	consensus Class 2 transcription repressor NC2, bet	96.23
KOG1142	258	consensus Transcription initiation factor TFIID, s	96.23
smart00414	106	H2A Histone 2A.	95.8
PLN00157	132	histone H2A; Provisional	95.8
PTZ00017	134	histone H2A; Provisional	95.67
PLN00156	139	histone H2AX; Provisional	95.6
smart00576	77	BTP Bromodomain transcription factors and PHD doma	95.55
PF02969	66	TAF: TATA box binding protein associated factor (T	95.54
cd08050	343	TAF6 TATA Binding Protein (TBP) Associated Factor	95.52
PLN00153	129	histone H2A; Provisional	95.48
PF15510	102	CENP-W: Centromere kinetochore component W	94.64
PTZ00252	134	histone H2A; Provisional	94.37
KOG0870	172	consensus DNA polymerase epsilon, subunit D [Trans	94.07
PLN00154	136	histone H2A; Provisional	94.02
COG5262	132	HTA1 Histone H2A [Chromatin structure and dynamics	93.68
PLN00121	136	histone H3; Provisional	93.67
PTZ00018	136	histone H3; Provisional	93.13
PF15630	76	CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C	92.55
PF07524	77	Bromo_TP: Bromodomain associated; InterPro: IPR006	91.88
KOG1756	131	consensus Histone 2A [Chromatin structure and dyna	91.29
PLN00161	135	histone H3; Provisional	89.83
PF15511	414	CENP-T: Centromere kinetochore component CENP-T; P	88.59
PLN00160	97	histone H3; Provisional	87.15
PF02291	129	TFIID-31kDa: Transcription initiation factor IID,	86.88
KOG2549	576	consensus Transcription initiation factor TFIID, s	85.82
PF02269	93	TFIID-18kDa: Transcription initiation factor IID,	84.84
cd08048	85	TAF11 TATA Binding Protein (TBP) Associated Factor	84.69
cd07978	92	TAF13 The TATA Binding Protein (TBP) Associated Fa	80.74

>PTZ00463 histone H2B; Provisional

Probab=100.00  E-value=2.9e-46  Score=277.49  Aligned_cols=80  Identities=65%  Similarity=1.009  Sum_probs=76.8

Q ss_pred             ccccccccchhhHHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcCCC
Q 033083           48 KKKRAKKSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPAS  127 (128)
Q Consensus        48 ~kk~~kkr~esys~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLPGE  127 (128)
                      +++++++|.|+|++||||||||||||+|||++||+||||||||||||||.||++|++||+++|||+||||||||||||||
T Consensus        19 ~kk~~~kr~esy~~YI~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvrLlLpGE   98 (117)
T PTZ00463         19 KKKRKKSRYDSYGLYIFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIRLVLPGE   98 (117)
T ss_pred             cccccccccchHHHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHhhcccHH
Confidence            35567778999999999999999999999999999999999999999999999999999999999999999999999998

>PLN00158 histone H2B; Provisional

Probab=100.00  E-value=6.8e-46  Score=275.23  Aligned_cols=79  Identities=80%  Similarity=1.140  Sum_probs=76.1

Q ss_pred             cccccccchhhHHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcCCC
Q 033083           49 KKRAKKSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPAS  127 (128)
Q Consensus        49 kk~~kkr~esys~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLPGE  127 (128)
                      ++++++|.|+|++||||||||||||+|||++||+||||||||||||||.||++|++||+++|||+||||||||||||||
T Consensus        19 kk~~~kr~esy~~YI~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvrLvLpgE   97 (116)
T PLN00158         19 KKGSKSKTETYKIYIYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVRLILPGE   97 (116)
T ss_pred             ccccccccccHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHhccHH
Confidence            4566678899999999999999999999999999999999999999999999999999999999999999999999997

>smart00427 H2B Histone H2B

Probab=100.00  E-value=1.9e-43  Score=252.05  Aligned_cols=71  Identities=79%  Similarity=1.169  Sum_probs=70.3

Q ss_pred             hhhHHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcCCC
Q 033083           57 ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPAS  127 (128)
Q Consensus        57 esys~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLPGE  127 (128)
                      |+|++||||||||||||+|||++||+||||||||||||||.||++|++||+|+|||+||||||||||||||
T Consensus         1 esy~~Yi~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl~Lpge   71 (89)
T smart00427        1 ETYAIYIYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVRLILPGE   71 (89)
T ss_pred             CcHHHHHHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHHccHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999997

>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]

Probab=100.00  E-value=1.2e-38  Score=239.67  Aligned_cols=79  Identities=70%  Similarity=1.090  Sum_probs=76.6

Q ss_pred             cccccccchhhHHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcCCC
Q 033083           49 KKRAKKSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPAS  127 (128)
Q Consensus        49 kk~~kkr~esys~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLPGE  127 (128)
                      +++..++.|+|+.||||||||||||+|||+++|+||||||||||||||+||++|++||+++|||||||||||||+||||
T Consensus        29 k~~~~~~~e~~s~yv~kvlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~rLllPge  107 (127)
T KOG1744|consen   29 KKRSTRRKESYSEYVYKVLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVRLLLPGE  107 (127)
T ss_pred             ccCcccccCceeeehhhhhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHHHhCchH
Confidence            5566888999999999999999999999999999999999999999999999999999999999999999999999997

>PF00125 Histone: Core histone H2A/H2B/H3/H4 histone h2a signature histone h2b signature histone h3 signature histone h4 signature; InterPro: IPR007125 The core histones together with some other DNA binding proteins appear to form a superfamily defined by a common fold and distant sequence similarities [, ]

Probab=99.64  E-value=1.8e-16  Score=105.31  Aligned_cols=69  Identities=32%  Similarity=0.418  Sum_probs=65.8

Q ss_pred             ccchhhHHHHHHHhhhccCC----CCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           54 KSIETYKIYIFKVLKQVHPD----IGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        54 kr~esys~YIyKVLKQVhPd----~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      ++...+..||+||+++++++    ..||+.||.+|+++++|+|.+|.++|..++.+++|.||+++|||.|+|+
T Consensus         2 ~~~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~   74 (75)
T PF00125_consen    2 TRRLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRI   74 (75)
T ss_dssp             HSHSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHH
T ss_pred             cccccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhc
Confidence            34678999999999999999    8999999999999999999999999999999999999999999999986

Some proteins contain local homology domains related to the histone fold [].; GO: 0003677 DNA binding; PDB: 2YFW_D 2YFV_B 1U35_H 2F8N_D 2PYO_D 2NQB_D 3AN2_C 3AZJ_C 3AV1_G 3AZM_G ....

>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

Probab=98.35  E-value=2.9e-06  Score=57.49  Aligned_cols=60  Identities=18%  Similarity=0.398  Sum_probs=57.1

Q ss_pred             HHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           63 IFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        63 IyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      +...++++.|...++..+...|-.+.+|+.+.|+..|..||.+.++.||..+|||-+++-
T Consensus         7 l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r   66 (72)
T cd07981           7 LQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLER   66 (72)
T ss_pred             HHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            567899999999999999999999999999999999999999999999999999998864

The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind

>PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin

Probab=98.33  E-value=2.1e-06  Score=56.10  Aligned_cols=58  Identities=28%  Similarity=0.469  Sum_probs=52.4

Q ss_pred             HHHHHhhhccCCC-CcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHH
Q 033083           62 YIFKVLKQVHPDI-GISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAV  120 (128)
Q Consensus        62 YIyKVLKQVhPd~-gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAV  120 (128)
                      =|.|++|+. ||. .||..|...|+.....+.+.|+.+|...+..++|+||+.+||..||
T Consensus         7 ~vkri~k~~-~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av   65 (65)
T PF00808_consen    7 RVKRIMKSD-PDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV   65 (65)
T ss_dssp             HHHHHHHHT-STTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred             HHHHHhccC-CCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence            378999998 775 5999999999999999999999999999999999999999999986

The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding [, ]. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The A subunit can be split into 3 domains on the basis of sequence similarity, a non-conserved N-terminal 'A domain'; a highly-conserved central 'B domain' involved in DNA-binding; and a C-terminal 'C domain', which contains a number of glutamine and acidic residues involved in protein-protein interactions []. The A subunit shows striking similarity to the HAP3 subunit of the yeast CCAAT-binding heterotrimeric transcription factor [, ]. The Kluyveromyces lactis HAP3 protein has been predicted to contain a 4-cysteine zinc finger, which is thought to be present in similar HAP3 and CBF subunit A proteins, in which the third cysteine is replaced by a serine []. This domain is found in the CCAAT transcription factor and archaeal histones.; GO: 0043565 sequence-specific DNA binding, 0005622 intracellular; PDB: 1F1E_A 2BYM_D 2BYK_D 1HTA_A 1B67_A 1JFI_B 1KU5_B 1N1J_A 1BFM_A 1B6W_A ....

>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]

Probab=98.05  E-value=1.3e-05  Score=57.68  Aligned_cols=62  Identities=21%  Similarity=0.398  Sum_probs=58.6

Q ss_pred             HHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcC
Q 033083           63 IFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLP  125 (128)
Q Consensus        63 IyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLP  125 (128)
                      |-|++|++.++ .||..|...|+..+..+++-|+.+|..+|.+-+|.||+..||+-|++.+..
T Consensus        25 v~Ri~r~~~~~-Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~~~   86 (91)
T COG2036          25 VRRILRKAGAE-RVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLGR   86 (91)
T ss_pred             HHHHHHHHhHH-HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHhcc
Confidence            77888998888 999999999999999999999999999999999999999999999998754

>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription []

Probab=97.66  E-value=0.00017  Score=49.03  Aligned_cols=59  Identities=19%  Similarity=0.391  Sum_probs=48.6

Q ss_pred             HHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           63 IFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        63 IyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      +-..++||-|+..|...+..+|-.+.+|+.+.+.+-|++||++.+..||..+|||....
T Consensus         5 l~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Le   63 (68)
T PF03847_consen    5 LQELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLE   63 (68)
T ss_dssp             HHHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHH
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHH
Confidence            56789999999999999999999999999999999999999999999999999997654

; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.

>smart00803 TAF TATA box binding protein associated factor

Probab=97.53  E-value=0.00039  Score=46.67  Aligned_cols=59  Identities=24%  Similarity=0.350  Sum_probs=51.5

Q ss_pred             HHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           62 YIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        62 YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      .|.+++++..=+ .||..+..-|-..+.+..+.|+.+|..++++.+|.|||..||--|++
T Consensus         7 ~i~ria~~~Gi~-ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk   65 (65)
T smart00803        7 TIKDVAESLGIG-NLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR   65 (65)
T ss_pred             HHHHHHHHCCCc-cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence            477788876422 58999999999999999999999999999999999999999988864

TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.

>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome

Probab=97.52  E-value=0.00032  Score=52.16  Aligned_cols=61  Identities=28%  Similarity=0.252  Sum_probs=55.2

Q ss_pred             HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           61 IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        61 ~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      .=|+|.|++-.--..||..|.--|-..+..+...|.+.|.+.++.+++.+||.|+|+.|++
T Consensus        24 ~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~   84 (115)
T cd00074          24 GRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVR   84 (115)
T ss_pred             HHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHh
Confidence            3489999985555789999999999999999999999999999999999999999999997

The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding of specific chromatin-associated proteins.

>PLN00035 histone H4; Provisional

Probab=97.43  E-value=0.00074  Score=49.68  Aligned_cols=60  Identities=13%  Similarity=0.153  Sum_probs=54.1

Q ss_pred             HHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           62 YIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        62 YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      -|.|+++.-- --.||..+..-+...+.++++.|+.+|..++.+.+|.||+..||--|++.
T Consensus        34 ~IrRLARr~G-vkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr   93 (103)
T PLN00035         34 AIRRLARRGG-VKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKR   93 (103)
T ss_pred             HHHHHHHHcC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence            3788888764 45699999999999999999999999999999999999999999999874

>cd00076 H4 Histone H4, one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core; along with H3, it plays a central role in nucleosome formation; histones bind to DNA and wrap the genetic material into "beads on a string" in which DNA (the string) is wrapped around small blobs of histones (the beads) at regular intervals; play a role in the inheritance of specialized chromosome structures and the control of gene activity; defects in the establishment of proper chromosome structure by histones may activate or silence genes aberrantly and thus lead to disease; the sequence of histone H4 has remained almost invariant in more than 2 billion years of evolution

Probab=97.37  E-value=0.001  Score=47.23  Aligned_cols=60  Identities=15%  Similarity=0.199  Sum_probs=52.8

Q ss_pred             HHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           62 YIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        62 YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      -|.|+++.-- -..||..+..-+...+..+|+.|+.+|..++.+.+|.|||..||--|++.
T Consensus        18 ~I~RLarr~G-vkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr   77 (85)
T cd00076          18 AIRRLARRGG-VKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKR   77 (85)
T ss_pred             HHHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence            4777777653 45699999999999999999999999999999999999999999998873

>PTZ00015 histone H4; Provisional

Probab=97.27  E-value=0.00087  Score=49.18  Aligned_cols=62  Identities=15%  Similarity=0.248  Sum_probs=54.0

Q ss_pred             HHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           60 KIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        60 s~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      ..-|.|+++.-- --.||..+..-+..+++++++.|+.+|..++.+.+|.|+|..||--|++.
T Consensus        33 k~~IrRLarr~G-vkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr   94 (102)
T PTZ00015         33 KGAIRRLARRGG-VKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKR   94 (102)
T ss_pred             HHHHHHHHHHcC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHh
Confidence            345888888642 34599999999999999999999999999999999999999999988864

>smart00428 H3 Histone H3

Probab=97.17  E-value=0.0026  Score=46.81  Aligned_cols=69  Identities=19%  Similarity=0.253  Sum_probs=62.9

Q ss_pred             cchhhHHHHHHHhhhccC--CCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           55 SIETYKIYIFKVLKQVHP--DIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        55 r~esys~YIyKVLKQVhP--d~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      ++-.|+..+..+..+..+  |.-+++.|+..|.....+..-.+..+|..++.+.+|.||..+|||-|.||-
T Consensus        31 ~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~rir  101 (105)
T smart00428       31 RKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARRIR  101 (105)
T ss_pred             ccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHHHh
Confidence            356788888888888888  889999999999999999999999999999999999999999999999863

>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

Probab=97.04  E-value=0.0051  Score=45.38  Aligned_cols=65  Identities=12%  Similarity=0.156  Sum_probs=56.9

Q ss_pred             HHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcC
Q 033083           60 KIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLP  125 (128)
Q Consensus        60 s~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLP  125 (128)
                      ...|.++|+.-+ ....+..+..-|.-|+....+.|+.+|..++.+.+|.||+..||.-|+...+.
T Consensus         4 ~~~v~~iLk~~G-v~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~   68 (117)
T cd07979           4 ARVIAAILKSMG-ITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVD   68 (117)
T ss_pred             HHHHHHHHHHCC-CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc
Confidence            356888888752 34688999999999999999999999999999999999999999999987664

The TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Human TAF9 has a paralogue gene (TAF9L) whi

>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]

Probab=96.72  E-value=0.0057  Score=48.50  Aligned_cols=59  Identities=20%  Similarity=0.318  Sum_probs=55.1

Q ss_pred             HHHHhhhccCCCC-cchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           63 IFKVLKQVHPDIG-ISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        63 IyKVLKQVhPd~g-ISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      |-|+.|+.-|..+ ||..|-.+|.-.|..+.-=|+.||+..|+.-+|+||+-.||-.|+-
T Consensus        38 V~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~   97 (168)
T KOG0869|consen   38 VSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMS   97 (168)
T ss_pred             HHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHH
Confidence            7789999988755 9999999999999999999999999999999999999999999875

>smart00417 H4 Histone H4

Probab=96.64  E-value=0.0045  Score=43.04  Aligned_cols=55  Identities=13%  Similarity=0.189  Sum_probs=47.2

Q ss_pred             HHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHH
Q 033083           62 YIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQ  117 (128)
Q Consensus        62 YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQ  117 (128)
                      -|.|+++.-- --.||..+..-+..++.++++.|+.+|..++.+.++.|+++.||-
T Consensus        18 ~IrRLaRr~G-vkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~   72 (74)
T smart00417       18 AIRRLARRGG-VKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVV   72 (74)
T ss_pred             HHHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhe
Confidence            3777777641 234899999999999999999999999999999999999999984

>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]

Probab=96.23  E-value=0.019  Score=45.14  Aligned_cols=62  Identities=18%  Similarity=0.334  Sum_probs=57.5

Q ss_pred             HHHHHhhhccC-CCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           62 YIFKVLKQVHP-DIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        62 YIyKVLKQVhP-d~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      -|.+++|.+-| |..+...|-++++..--.+...|+.||..+|.-..++||....|+.|+.-|
T Consensus        17 tv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~L   79 (156)
T KOG0871|consen   17 TVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALENL   79 (156)
T ss_pred             HHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHHc
Confidence            38899999999 999999999999998889999999999999999999999999999998643

>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]

Probab=96.23  E-value=0.0093  Score=50.08  Aligned_cols=66  Identities=15%  Similarity=0.322  Sum_probs=59.0

Q ss_pred             HHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH----hhcCCC
Q 033083           62 YIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR----LVLPAS  127 (128)
Q Consensus        62 YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR----LlLPGE  127 (128)
                      -|...|+||.+++.|....-++|--+..|+.+.|..-+++||.+.+..||-.||||-.+.    +-|||.
T Consensus       159 kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~Nm~iPgf  228 (258)
T KOG1142|consen  159 KLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNFNMEIPGF  228 (258)
T ss_pred             chhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeeccccccCCCc
Confidence            378889999999999999999999999999999999999999999999999999997653    345554

>smart00414 H2A Histone 2A

Probab=95.80  E-value=0.028  Score=41.24  Aligned_cols=61  Identities=25%  Similarity=0.260  Sum_probs=46.8

Q ss_pred             HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           61 IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        61 ~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      ..|+|.|+.-+--..|++-|.--|-..+..+...|-+-|..-++.+++..||+|+||.|++
T Consensus        13 gRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~   73 (106)
T smart00414       13 GRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIR   73 (106)
T ss_pred             HHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhcc
Confidence            4689999887655678887776666666555555555666777889999999999999986

>PLN00157 histone H2A; Provisional

Probab=95.80  E-value=0.02  Score=43.89  Aligned_cols=65  Identities=26%  Similarity=0.234  Sum_probs=53.3

Q ss_pred             hhhH-HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           57 ETYK-IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        57 esys-~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      -.|. .=|+|.|++-+--..|++.|.--|-..+..+...|-+-|.+-++.+++.-||.|.||.||+
T Consensus        25 L~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~   90 (132)
T PLN00157         25 LQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVR   90 (132)
T ss_pred             cccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhccc
Confidence            3443 3499999997766789988888777777777777777788888999999999999999997

>PTZ00017 histone H2A; Provisional

Probab=95.67  E-value=0.026  Score=43.35  Aligned_cols=61  Identities=25%  Similarity=0.244  Sum_probs=48.8

Q ss_pred             HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           61 IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        61 ~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      .=|+|.|+.-+--..|++-|.--|-..+..++..|-+-|.+-++.|++.-||.|+||.|++
T Consensus        31 gRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~   91 (134)
T PTZ00017         31 GRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIR   91 (134)
T ss_pred             HHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhcc
Confidence            3488999887656678888777666666666666666777788999999999999999997

>PLN00156 histone H2AX; Provisional

Probab=95.60  E-value=0.033  Score=43.10  Aligned_cols=64  Identities=27%  Similarity=0.247  Sum_probs=53.8

Q ss_pred             hhH-HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           58 TYK-IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        58 sys-~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      .|. .=|+|.|+.-+--..|++-|.--|-..+..+...|-+-|.+-++.|++.-|++|.||.|||
T Consensus        29 ~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIr   93 (139)
T PLN00156         29 QFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR   93 (139)
T ss_pred             ccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhcc
Confidence            454 3489999987666789998888888888888888888888888999999999999999997

>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins

Probab=95.55  E-value=0.096  Score=35.51  Aligned_cols=47  Identities=11%  Similarity=0.205  Sum_probs=41.8

Q ss_pred             cchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           76 ISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        76 ISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      ++..|++.|-.++.+.+..|+.++.+++...+|.+.+..||.-|+.-
T Consensus        24 ~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~   70 (77)
T smart00576       24 FQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN   70 (77)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            66678888888888889999999999999999999999999988754

subdomain of archael histone-like transcription factors

>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex

Probab=95.54  E-value=0.055  Score=36.78  Aligned_cols=46  Identities=24%  Similarity=0.389  Sum_probs=35.8

Q ss_pred             cchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           76 ISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        76 ISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      ++..+-..|-.=|..-+..|..+|.+++++.+|.+||..||..|.|
T Consensus        21 l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr   66 (66)
T PF02969_consen   21 LSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR   66 (66)
T ss_dssp             B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence            4556666666667777888999999999999999999999999976

TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.

>cd08050 TAF6 TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

Probab=95.52  E-value=0.042  Score=46.56  Aligned_cols=49  Identities=20%  Similarity=0.388  Sum_probs=45.6

Q ss_pred             CcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           75 GISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        75 gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      .+|..|...+..-+.+....|+.||.++++..+|.||+..||.-|++..
T Consensus        16 ~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~   64 (343)
T cd08050          16 SLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLR   64 (343)
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHh
Confidence            5788899999999999999999999999999999999999999999863

The TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as

>PLN00153 histone H2A; Provisional

Probab=95.48  E-value=0.036  Score=42.37  Aligned_cols=65  Identities=26%  Similarity=0.229  Sum_probs=53.0

Q ss_pred             hhhH-HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           57 ETYK-IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        57 esys-~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      -.|. .=|+|.|++-+.-..|++-|.--|-..+..+...|-+-|.+-++.|++.-||+|.||.||+
T Consensus        23 L~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~   88 (129)
T PLN00153         23 LQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIR   88 (129)
T ss_pred             cccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhcc
Confidence            3443 3489999987666788888888777777777777777778888999999999999999997

>PF15510 CENP-W: Centromere kinetochore component W

Probab=94.64  E-value=0.069  Score=39.34  Aligned_cols=64  Identities=23%  Similarity=0.393  Sum_probs=51.9

Q ss_pred             HHHHHHHhhhccCCCCcch--hhH--------------HHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           60 KIYIFKVLKQVHPDIGISS--KAM--------------GIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        60 s~YIyKVLKQVhPd~gISs--kAM--------------~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      ..++.||+|+--|.+.+-.  ..|              -=+|.++  +..|+|+|+--=+.-|+..||-...|+.|...+
T Consensus        19 rgfLkrv~Kr~KphlRl~~~~Dllv~~~~f~~~~~~~~vhLncLL--FvhrLAEEaRtnA~EnK~~~Ik~~Hv~AaaKvi   96 (102)
T PF15510_consen   19 RGFLKRVFKRQKPHLRLETSGDLLVRFCPFSGWQWGGEVHLNCLL--FVHRLAEEARTNACENKCGTIKKEHVLAAAKVI   96 (102)
T ss_pred             hHHHHHHHHhcCCceeecccccHHHhhcccccccccceeehhHHH--HHHHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            4678999998888876643  333              3356665  678999999999999999999999999999988


Q ss_pred             cC
Q 033083          124 LP  125 (128)
Q Consensus       124 LP  125 (128)
                      |-
T Consensus        97 LK   98 (102)
T PF15510_consen   97 LK   98 (102)
T ss_pred             HH
Confidence            74

>PTZ00252 histone H2A; Provisional

Probab=94.37  E-value=0.13  Score=39.63  Aligned_cols=66  Identities=17%  Similarity=0.137  Sum_probs=47.1

Q ss_pred             chhhH-HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHh--hCCCCCCChhHHHHHHH
Q 033083           56 IETYK-IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLAR--YNKKPTITSREIQTAVR  121 (128)
Q Consensus        56 ~esys-~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~--~nkk~TltsREIQtAVR  121 (128)
                      .-.|. .-|+|.|++-+-.-.|++-|.--|-..+..++..|-+-|.+-++  .|++.-|+.|.||-|||
T Consensus        23 GL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIr   91 (134)
T PTZ00252         23 GLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVR   91 (134)
T ss_pred             CccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhcc
Confidence            34454 35889999887777888888775555555555555555555553  47889999999999997

>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]

Probab=94.07  E-value=0.27  Score=39.33  Aligned_cols=63  Identities=21%  Similarity=0.293  Sum_probs=48.0

Q ss_pred             HHHHHHhhhccCC--CCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           61 IYIFKVLKQVHPD--IGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        61 ~YIyKVLKQVhPd--~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      .-|-|+.|.|-|+  ..||..|...|-.--.=+..-+..-+..+|+-++|+||+..||-.|++-+
T Consensus        14 AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Ei   78 (172)
T KOG0870|consen   14 AIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEI   78 (172)
T ss_pred             HHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHh
Confidence            4577888888777  47999888777654333334466667789999999999999999998754

>PLN00154 histone H2A; Provisional

Probab=94.02  E-value=0.15  Score=39.32  Aligned_cols=61  Identities=21%  Similarity=0.181  Sum_probs=42.6

Q ss_pred             HHHHHHhhhcc-CCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           61 IYIFKVLKQVH-PDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        61 ~YIyKVLKQVh-Pd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      .-|.|.||+.. -...|++.|.--|-..+..+--.|-+-|.+-++.+++.-||.|.||.|||
T Consensus        42 gRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIr  103 (136)
T PLN00154         42 GRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR  103 (136)
T ss_pred             HHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhcc
Confidence            45889999874 34567777766444444444444444455567889999999999999997

>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]

Probab=93.68  E-value=0.17  Score=38.78  Aligned_cols=60  Identities=25%  Similarity=0.298  Sum_probs=51.1

Q ss_pred             HHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           62 YIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        62 YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      -|.|+||.-.-.+.|+++|.--+...+..+.-.|-+-|.+.++-|++.-|+.|.||-|+|
T Consensus        31 rvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIr   90 (132)
T COG5262          31 RVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIR   90 (132)
T ss_pred             HHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhc
Confidence            488999966667889999988777777777777777788888999999999999999987

>PLN00121 histone H3; Provisional

Probab=93.67  E-value=0.31  Score=37.47  Aligned_cols=66  Identities=18%  Similarity=0.237  Sum_probs=53.5

Q ss_pred             hhhHHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           57 ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        57 esys~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      -.|...+..+.....+++-+.+.|+.-|.--..+.+-.+-+++...+.+.+|-||..+|||-+.||
T Consensus        66 ~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ri  131 (136)
T PLN00121         66 LPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRI  131 (136)
T ss_pred             ccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHHHh
Confidence            456777777777777888899999988876666666666667888999999999999999999875

>PTZ00018 histone H3; Provisional

Probab=93.13  E-value=0.43  Score=36.76  Aligned_cols=66  Identities=18%  Similarity=0.237  Sum_probs=53.0

Q ss_pred             hhhHHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           57 ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        57 esys~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      -.|...+..|..+..+++-+.+.|+..|.--..+.+-.+-+++...+.+.+|-||..+|||-+.||
T Consensus        66 ~pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ri  131 (136)
T PTZ00018         66 LPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRI  131 (136)
T ss_pred             ccHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHHHh
Confidence            456666777776767888999999988876666666666667888899999999999999999875

>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C

Probab=92.55  E-value=0.38  Score=33.42  Aligned_cols=58  Identities=14%  Similarity=0.314  Sum_probs=46.5

Q ss_pred             HHHHhhhc--cCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHH
Q 033083           63 IFKVLKQV--HPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAV  120 (128)
Q Consensus        63 IyKVLKQV--hPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAV  120 (128)
                      +-++..++  ..+..+|.+.++.|--++.+..+.++.+---+|++-+|+||+..|+.=.+
T Consensus        11 v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~   70 (76)
T PF15630_consen   11 VGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLA   70 (76)
T ss_dssp             HHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHT
T ss_pred             HHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHh
Confidence            44555665  45677999999999999999999999999999999999999999976443

>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO)

Probab=91.88  E-value=1.4  Score=29.43  Aligned_cols=63  Identities=13%  Similarity=0.252  Sum_probs=49.3

Q ss_pred             HHHHHHHhhhccCCC---CcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           60 KIYIFKVLKQVHPDI---GISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        60 s~YIyKVLKQVhPd~---gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      ...+.++.-|+.-..   +++..|++++..++.+.+..|+..+...+...+|...+..||..|..-
T Consensus         5 ~~~l~~~va~il~~~GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~   70 (77)
T PF07524_consen    5 RSLLRRSVAQILKHAGFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALEE   70 (77)
T ss_pred             HHHHHHHHHHHHHHcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            333344444443333   477889999999999999999999999999999999999999988753

The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].

>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]

Probab=91.29  E-value=0.67  Score=35.70  Aligned_cols=60  Identities=25%  Similarity=0.306  Sum_probs=43.2

Q ss_pred             HHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           62 YIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        62 YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      -|.|.||.-+--..||+-|--.|--.+..+--.|-+-|..-++-|++.-|++|.||-|++
T Consensus        32 ri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~   91 (131)
T KOG1756|consen   32 RIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIR   91 (131)
T ss_pred             HHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHh
Confidence            588999997667788888766544433333333333445556889999999999999997

>PLN00161 histone H3; Provisional

Probab=89.83  E-value=2  Score=33.19  Aligned_cols=66  Identities=15%  Similarity=0.210  Sum_probs=49.7

Q ss_pred             hhhHHHHHHHhhhccC-CCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           57 ETYKIYIFKVLKQVHP-DIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        57 esys~YIyKVLKQVhP-d~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      -.|+..+..|..+..+ |+-+.+.|+.-|..-..+.+-.+-+++.-.+.+-+|-||..+|||-|.||
T Consensus        59 lPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~ri  125 (135)
T PLN00161         59 LPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARRI  125 (135)
T ss_pred             ccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHHh
Confidence            4566666666655544 57889999888876655555555567778889999999999999999885

>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T

Probab=88.59  E-value=1.1  Score=39.20  Aligned_cols=55  Identities=18%  Similarity=0.252  Sum_probs=41.1

Q ss_pred             HHHHHHhhhc-----cCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhH
Q 033083           61 IYIFKVLKQV-----HPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSRE  115 (128)
Q Consensus        61 ~YIyKVLKQV-----hPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsRE  115 (128)
                      .+|.+++...     +-.+.||..||..+....+.+||.|+..-.-.|.+-+|+||...|
T Consensus       355 ~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD  414 (414)
T PF15511_consen  355 GVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD  414 (414)
T ss_dssp             HHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred             cHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence            3455555544     345789999999999999999999999999999999999998654

>PLN00160 histone H3; Provisional

Probab=87.15  E-value=3.9  Score=29.85  Aligned_cols=66  Identities=14%  Similarity=0.142  Sum_probs=47.5

Q ss_pred             hhhHHHHHHHhhhccC-CCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           57 ETYKIYIFKVLKQVHP-DIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        57 esys~YIyKVLKQVhP-d~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      -.|...+..+...... +.-+.+.|+.-|.--..+.+-.+=+.+.-.+.+.+|-||..+|||-+.||
T Consensus        25 ~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~ri   91 (97)
T PLN00160         25 LPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARRI   91 (97)
T ss_pred             ccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHHh
Confidence            4455555555544433 37788888888776555555555557777889999999999999999874

>PF02291 TFIID-31kDa: Transcription initiation factor IID, 31kD subunit; InterPro: IPR003162 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription []

Probab=86.88  E-value=1.8  Score=32.72  Aligned_cols=60  Identities=18%  Similarity=0.309  Sum_probs=41.1

Q ss_pred             HHHHHHhhhccCCCCcch---hhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhc
Q 033083           61 IYIFKVLKQVHPDIGISS---KAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVL  124 (128)
Q Consensus        61 ~YIyKVLKQVhPd~gISs---kAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlL  124 (128)
                      ..|.-+|+.    +||+.   +....|-.|+.-..-.|-.+|..++.+.++.+|+..||+-|+...+
T Consensus        16 ~~i~~iL~~----~Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r~   78 (129)
T PF02291_consen   16 RVIHLILKS----MGVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSRL   78 (129)
T ss_dssp             HHHHHHHHH----TT---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT-
T ss_pred             HHHHHHHHH----cCCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHH
Confidence            345555554    56654   5666666676666677778899999999999999999999998543

TAFII-31 protein is a transcriptional coactivator of the p53 protein [].; GO: 0006352 transcription initiation, DNA-dependent; PDB: 1TAF_A.

>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]

Probab=85.82  E-value=2.1  Score=39.76  Aligned_cols=48  Identities=15%  Similarity=0.293  Sum_probs=43.3

Q ss_pred             cchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           76 ISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        76 ISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      |+.++-.+|---|..=.+.|+.+|+++.+..+|.+||.+||.-|.|.+
T Consensus        29 l~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~   76 (576)
T KOG2549|consen   29 LNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSL   76 (576)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhc
Confidence            667888888888888889999999999999999999999999999864

>PF02269 TFIID-18kDa: Transcription initiation factor IID, 18kD subunit; InterPro: IPR003195 This family includes the Spt3 yeast transcription factors and the 18 kDa subunit from human transcription initiation factor IID (TFIID-18)

Probab=84.84  E-value=1.2  Score=31.45  Aligned_cols=46  Identities=15%  Similarity=0.265  Sum_probs=23.0

Q ss_pred             cchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           76 ISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        76 ISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      -+.++..+|..+|.+-.-.+..+|..+|...++..|+..||-.++|
T Consensus        20 P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR   65 (93)
T PF02269_consen   20 PLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLR   65 (93)
T ss_dssp             --HHHHHHHHHHHHHHHHHHHHHHHC--------------------
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHh
Confidence            5668999999999999999999999999999999999999988877

Determination of the crystal structure reveals an atypical histone fold [].; GO: 0006366 transcription from RNA polymerase II promoter; PDB: 1BH9_A 1BH8_A.

>cd08048 TAF11 TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

Probab=84.69  E-value=7.5  Score=27.38  Aligned_cols=60  Identities=13%  Similarity=0.203  Sum_probs=46.8

Q ss_pred             HHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCC---CCCChhHHHHHHHhh
Q 033083           63 IFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKK---PTITSREIQTAVRLV  123 (128)
Q Consensus        63 IyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk---~TltsREIQtAVRLl  123 (128)
                      |.|++.++-. ..++.....+|..+-.-+.-.|.++|..+..-...   ..|.++.|+.|+|.+
T Consensus        22 iKr~~~~~~~-~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~rrl   84 (85)
T cd08048          22 IKRLIQSVTG-QSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYRRL   84 (85)
T ss_pred             HHHHHHHHcC-CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHHHh
Confidence            6667777654 67777777777777666777888899988776554   899999999999976

The TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAF orthologs and paralogs. Several hypothes

>cd07978 TAF13 The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

Probab=80.74  E-value=7.1  Score=27.79  Aligned_cols=45  Identities=9%  Similarity=0.295  Sum_probs=39.3

Q ss_pred             cchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           76 ISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        76 ISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      -..++..+|..+|.+..-.|..+|..+|. .++.-++..||-.++|
T Consensus        21 P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR   65 (92)
T cd07978          21 PLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLR   65 (92)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHh
Confidence            45689999999999999999999999998 5555669999998887

The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Several hy

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	128
3a6n_D	129	The Nucleosome Containing A Testis-Specific Histone		7e-30
2hio_B	125	Histone Octamer (Chicken), Chromosomal Protein Leng		8e-30
1eqz_B	126	X-Ray Structure Of The Nucleosome Core Particle At		8e-30
1u35_D	126	Crystal Structure Of The Nucleosome Core Particle C		9e-30
2cv5_D	126	Crystal Structure Of Human Nucleosome Core Particle		1e-29
2xql_B	90	Fitting Of The H2a-H2b Histones In The Electron Mic		3e-29
2pyo_D	122	Drosophila Nucleosome Core Length = 122		5e-29
1s32_D	122	Molecular Recognition Of The Nucleosomal 'supergroo		6e-29
3c9k_B	125	Model Of Histone Octamer Tubular Crystals Length =		6e-29
2f8n_H	123	2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a Nuc		6e-29
1aoi_D	99	Complex Between Nucleosome Core Particle (H3,H4,H2a		7e-29
1zla_D	125	X-Ray Structure Of A Kaposi's Sarcoma Herpesvirus L		7e-29
3c1b_D	125	The Effect Of H3 K79 Dimethylation And H4 K20 Trime		7e-29
3kwq_D	93	Structural Characterization Of H3k56q Nucleosomes A		7e-29
1p34_D	125	Crystallographic Studies Of Nucleosome Core Particl		8e-29
1kx3_D	125	X-Ray Structure Of The Nucleosome Core Particle, Nc		9e-29
1f66_D	126	2.6 A Crystal Structure Of A Nucleosome Core Partic		1e-28
2nqb_D	123	Drosophila Nucleosome Structure Length = 123		2e-28
3an2_D	129	The Structure Of The Centromeric Nucleosome Contain		2e-28
1hio_B	90	Histone Octamer (Chicken), Chromosomal Protein, Alp		1e-27
1id3_D	130	Crystal Structure Of The Yeast Nucleosome Core Part		1e-26
2jss_A	192	Nmr Structure Of Chaperone Chz1 Complexed With Hist		7e-26

>pdb|3A6N|D Chain D, The Nucleosome Containing A Testis-Specific Histone Variant, Human H3t Length = 129

Iteration: 1
 Score =  125 bits (314), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 56/70 (80%), Positives = 64/70 (91%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IY++KVLKQVHPD GISSKAMGIMNSF+NDIFE++A EASRLA YNK+ TITSREI
Sbjct: 39  ESYSIYVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREI 98
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 99  QTAVRLLLPG 108

>pdb|2HIO|B Chain B, Histone Octamer (Chicken), Chromosomal Protein Length = 125

Iteration: 1
 Score =  125 bits (313), Expect = 8e-30,   Method: Compositional matrix adjust.
 Identities = 56/70 (80%), Positives = 64/70 (91%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IY++KVLKQVHPD GISSKAMGIMNSF+NDIFE++A EASRLA YNK+ TITSREI
Sbjct: 35  ESYSIYVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREI 94
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 95  QTAVRLLLPG 104

>pdb|1EQZ|B Chain B, X-Ray Structure Of The Nucleosome Core Particle At 2.5 A Resolution Length = 126

Iteration: 1
 Score =  125 bits (313), Expect = 8e-30,   Method: Compositional matrix adjust.
 Identities = 56/70 (80%), Positives = 64/70 (91%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IY++KVLKQVHPD GISSKAMGIMNSF+NDIFE++A EASRLA YNK+ TITSREI
Sbjct: 36  ESYSIYVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREI 95
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 96  QTAVRLLLPG 105

>pdb|1U35|D Chain D, Crystal Structure Of The Nucleosome Core Particle Containing The Histone Domain Of Macroh2a Length = 126

Iteration: 1
 Score =  125 bits (313), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 55/70 (78%), Positives = 64/70 (91%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IY++KVLKQVHPD GISSKAMGIMNSF+NDIFE++A EASRLA YNK+ TITSRE+
Sbjct: 36  ESYSIYVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIASEASRLAHYNKRSTITSREV 95
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 96  QTAVRLLLPG 105

>pdb|2CV5|D Chain D, Crystal Structure Of Human Nucleosome Core Particle Length = 126

Iteration: 1
 Score =  124 bits (312), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 55/70 (78%), Positives = 64/70 (91%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y +Y++KVLKQVHPD GISSKAMGIMNSF+NDIFE++A EASRLA YNK+ TITSREI
Sbjct: 36  ESYSVYVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREI 95
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 96  QTAVRLLLPG 105

>pdb|2XQL|B Chain B, Fitting Of The H2a-H2b Histones In The Electron Microscopy Map Of The Complex Nucleoplasmin:h2a-H2b Histones (1:5). Length = 90

Iteration: 1
 Score =  123 bits (308), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 55/69 (79%), Positives = 63/69 (91%)
Query: 58  TYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQ 117
           +Y IY++KVLKQVHPD GISSKAMGIMNSF+NDIFE++A EASRLA YNK+ TITSREIQ
Sbjct: 1   SYSIYVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQ 60
Query: 118 TAVRLVLPA 126
           TAVRL+LP 
Sbjct: 61  TAVRLLLPG 69

>pdb|2PYO|D Chain D, Drosophila Nucleosome Core Length = 122

Iteration: 1
 Score =  122 bits (307), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 56/70 (80%), Positives = 63/70 (90%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IYI+KVLKQVHPD GISSKAM IMNSF+NDIFE++A EASRLA YNK+ TITSREI
Sbjct: 32  ESYAIYIYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASRLAHYNKRSTITSREI 91
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 92  QTAVRLLLPG 101

>pdb|1S32|D Chain D, Molecular Recognition Of The Nucleosomal 'supergroove' Length = 122

Iteration: 1
 Score =  122 bits (306), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 54/70 (77%), Positives = 63/70 (90%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IY++KVLKQVHPD GISSKAM IMNSF+ND+FE++A EASRLA YNK+ TITSREI
Sbjct: 32  ESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREI 91
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 92  QTAVRLLLPG 101

>pdb|3C9K|B Chain B, Model Of Histone Octamer Tubular Crystals Length = 125

Iteration: 1
 Score =  122 bits (306), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 55/70 (78%), Positives = 63/70 (90%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IY++KVLKQVHPD GISSKAM IMNSF+NDIFE++A EASRLA YNK+ TITSREI
Sbjct: 35  ESYSIYVYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAGEASRLAHYNKRSTITSREI 94
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 95  QTAVRLLLPG 104

>pdb|2F8N|H Chain H, 2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a Nucleosomes Length = 123

Iteration: 1
 Score =  122 bits (306), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 54/70 (77%), Positives = 63/70 (90%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IY++KVLKQVHPD GISSKAM IMNSF+ND+FE++A EASRLA YNK+ TITSREI
Sbjct: 33  ESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREI 92
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 93  QTAVRLLLPG 102

>pdb|1AOI|D Chain D, Complex Between Nucleosome Core Particle (H3,H4,H2a,H2b) And 146 Bp Long Dna Fragment Length = 99

Iteration: 1
 Score =  122 bits (305), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 54/70 (77%), Positives = 63/70 (90%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IY++KVLKQVHPD GISSKAM IMNSF+ND+FE++A EASRLA YNK+ TITSREI
Sbjct: 9   ESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREI 68
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 69  QTAVRLLLPG 78

>pdb|1ZLA|D Chain D, X-Ray Structure Of A Kaposi's Sarcoma Herpesvirus Lana Peptide Bound To The Nucleosomal Core Length = 125

Iteration: 1
 Score =  122 bits (305), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 54/70 (77%), Positives = 63/70 (90%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IY++KVLKQVHPD GISSKAM IMNSF+ND+FE++A EASRLA YNK+ TITSREI
Sbjct: 35  ESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREI 94
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 95  QTAVRLLLPG 104

>pdb|3C1B|D Chain D, The Effect Of H3 K79 Dimethylation And H4 K20 Trimethylation On Nucleosome And Chromatin Structure Length = 125

Iteration: 1
 Score =  122 bits (305), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 54/70 (77%), Positives = 63/70 (90%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IY++KVLKQVHPD GISSKAM IMNSF+ND+FE++A EASRLA YNK+ TITSREI
Sbjct: 35  ESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREI 94
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 95  QTAVRLLLPG 104

>pdb|3KWQ|D Chain D, Structural Characterization Of H3k56q Nucleosomes And Nucleo Arrays Length = 93

Iteration: 1
 Score =  122 bits (305), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 54/70 (77%), Positives = 63/70 (90%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IY++KVLKQVHPD GISSKAM IMNSF+ND+FE++A EASRLA YNK+ TITSREI
Sbjct: 3   ESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREI 62
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 63  QTAVRLLLPG 72

>pdb|1P34|D Chain D, Crystallographic Studies Of Nucleosome Core Particles Containing Histone 'sin' Mutants Length = 125

Iteration: 1
 Score =  121 bits (304), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 54/70 (77%), Positives = 63/70 (90%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IY++KVLKQVHPD GISSKAM IMNSF+ND+FE++A EASRLA YNK+ TITSREI
Sbjct: 35  ESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREI 94
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 95  QTAVRLLLPG 104

>pdb|1KX3|D Chain D, X-Ray Structure Of The Nucleosome Core Particle, Ncp146, At 2.0 A Resolution Length = 125

Iteration: 1
 Score =  121 bits (304), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 54/70 (77%), Positives = 63/70 (90%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IY++KVLKQVHPD GISSKAM IMNSF+ND+FE++A EASRLA YNK+ TITSREI
Sbjct: 35  ESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREI 94
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 95  QTAVRLLLPG 104

>pdb|1F66|D Chain D, 2.6 A Crystal Structure Of A Nucleosome Core Particle Containing The Variant Histone H2a.Z Length = 126

Iteration: 1
 Score =  121 bits (304), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 54/70 (77%), Positives = 63/70 (90%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IY++KVLKQVHPD GISSKAM IMNSF+ND+FE++A EASRLA YNK+ TITSREI
Sbjct: 36  ESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREI 95
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 96  QTAVRLLLPG 105

>pdb|2NQB|D Chain D, Drosophila Nucleosome Structure Length = 123

Iteration: 1
 Score =  120 bits (301), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 55/70 (78%), Positives = 62/70 (88%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IYI+ VLKQVHPD GISSKAM IMNSF+NDIFE++A EASRLA YNK+ TITSREI
Sbjct: 33  ESYAIYIYTVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASRLAHYNKRSTITSREI 92
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 93  QTAVRLLLPG 102

>pdb|3AN2|D Chain D, The Structure Of The Centromeric Nucleosome Containing Cenp-A Length = 129

Iteration: 1
 Score =  120 bits (300), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 54/70 (77%), Positives = 62/70 (88%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IY++KVLKQVHPD GISSKA GI NSF+NDIFE++A EASRLA YNK+ TITSREI
Sbjct: 39  ESYSIYVYKVLKQVHPDTGISSKAXGIXNSFVNDIFERIAGEASRLAHYNKRSTITSREI 98
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 99  QTAVRLLLPG 108

>pdb|1HIO|B Chain B, Histone Octamer (Chicken), Chromosomal Protein, Alpha Carbons Only Length = 90

Iteration: 1
 Score =  117 bits (294), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 53/69 (76%), Positives = 61/69 (88%)
Query: 58  TYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQ 117
           +Y IY++KVLKQVHPD GISSKAMG MNSF+NDIFE++A  ASRLA YNK+ TITSREIQ
Sbjct: 1   SYSIYVYKVLKQVHPDTGISSKAMGSMNSFVNDIFERIAGLASRLAHYNKRSTITSREIQ 60
Query: 118 TAVRLVLPA 126
           TAVRL+LP 
Sbjct: 61  TAVRLLLPG 69

>pdb|1ID3|D Chain D, Crystal Structure Of The Yeast Nucleosome Core Particle Reveals Fundamental Differences In Inter-Nucleosome Interactions Length = 130

Iteration: 1
 Score =  114 bits (285), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 50/69 (72%), Positives = 60/69 (86%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           ETY  YI+KVLKQ HPD GIS K+M I+NSF+NDIFE++A EAS+LA YNKK TI++REI
Sbjct: 38  ETYSSYIYKVLKQTHPDTGISQKSMSILNSFVNDIFERIATEASKLAAYNKKSTISAREI 97
Query: 117 QTAVRLVLP 125
           QTAVRL+LP
Sbjct: 98  QTAVRLILP 106

>pdb|2JSS|A Chain A, Nmr Structure Of Chaperone Chz1 Complexed With Histone H2a.Z-H2b Length = 192

Iteration: 1
 Score =  112 bits (279), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 50/70 (71%), Positives = 60/70 (85%)
Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           ETY  YI+KVLKQ HPD GIS K+M I+NSF+NDIFE++A EAS+LA YNKK TI++REI
Sbjct: 3   ETYSSYIYKVLKQTHPDTGISQKSMSILNSFVNDIFERIATEASKLAAYNKKSTISAREI 62
Query: 117 QTAVRLVLPA 126
           QTAVRL+LP 
Sbjct: 63  QTAVRLILPG 72

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	128
2jss_A	192	Chimera of histone H2B.1 and histone H2A.Z; histon	2e-25
2nqb_D	123	Histone H2B; nucleosome, NCP, chromatin, structura	7e-23
1tzy_B	126	Histone H2B; histone-fold, tetramer-dimer-dimer, D	7e-22
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-04

>2jss_A Chimera of histone H2B.1 and histone H2A.Z; histone/chaperone complex, intrinsically unfolded protein, chaperone/structural protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.22.1.1 a.22.1.1 Length = 192

 Score = 94.1 bits (232), Expect = 2e-25
 Identities = 47/65 (72%), Positives = 56/65 (86%)

Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           ETY  YI+KVLKQ HPD GIS K+M I+NSF+NDIFE++A EAS+LA YNKK TI++REI
Sbjct: 3   ETYSSYIYKVLKQTHPDTGISQKSMSILNSFVNDIFERIATEASKLAAYNKKSTISAREI 62

Query: 117 QTAVR 121
           QTAVR
Sbjct: 63  QTAVR 67

>2nqb_D Histone H2B; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_D* Length = 123

 Score = 85.5 bits (211), Expect = 7e-23
 Identities = 61/100 (61%), Positives = 71/100 (71%)

Query: 26  APAEKKPKAGKKLPKEAASGDKKKKRAKKSIETYKIYIFKVLKQVHPDIGISSKAMGIMN 85
            P      A K    +       KK+ +K  E+Y IYI+ VLKQVHPD GISSKAM IMN
Sbjct: 2   PPKTSGKAAKKAGKAQKNITKTDKKKKRKRKESYAIYIYTVLKQVHPDTGISSKAMSIMN 61

Query: 86  SFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLP 125
           SF+NDIFE++A EASRLA YNK+ TITSREIQTAVRL+LP
Sbjct: 62  SFVNDIFERIAAEASRLAHYNKRSTITSREIQTAVRLLLP 101

>1tzy_B Histone H2B; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1eqz_B 1hq3_B 2aro_B 2hio_B 3c9k_B 3azg_D 3a6n_D 3an2_D 3av1_D 3av2_D 3ayw_D 3aze_D 3azf_D 3afa_D 3azh_D 3azi_D 3azj_D 3azk_D 3azl_D 3azm_D ... Length = 126

 Score = 83.3 bits (205), Expect = 7e-22
 Identities = 66/103 (64%), Positives = 75/103 (72%)

Query: 23  AEKAPAEKKPKAGKKLPKEAASGDKKKKRAKKSIETYKIYIFKVLKQVHPDIGISSKAMG 82
            E A +   PK G K           KKR K   E+Y IY++KVLKQVHPD GISSKAMG
Sbjct: 2   PEPAKSAPAPKKGSKKAVTKTQKKGDKKRKKSRKESYSIYVYKVLKQVHPDTGISSKAMG 61

Query: 83  IMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLP 125
           IMNSF+NDIFE++A EASRLA YNK+ TITSREIQTAVRL+LP
Sbjct: 62  IMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLLLP 104

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

 Score = 37.5 bits (86), Expect = 5e-04
 Identities = 18/119 (15%), Positives = 37/119 (31%), Gaps = 49/119 (41%)

Query: 36  KKLPKEAASG---------------------------DKKKKRAKKSI------ETYKIY 62
           + LP+E  +                            DK     + S+      E  K++
Sbjct: 316 QDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMF 375

Query: 63  ----IFKVLKQVHPDIGISSKAMGIM-----NSFINDIFEKLAQEASRLARYNKKPTIT 112
               +F       P   I +  + ++      S +  +  KL +  S + +  K+ TI+
Sbjct: 376 DRLSVFP------PSAHIPTILLSLIWFDVIKSDVMVVVNKLHK-YSLVEKQPKESTIS 427

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	128
1tzy_B	126	Histone H2B; histone-fold, tetramer-dimer-dimer, D	100.0
2nqb_D	123	Histone H2B; nucleosome, NCP, chromatin, structura	100.0
2jss_A	192	Chimera of histone H2B.1 and histone H2A.Z; histon	99.98
3b0c_W	76	CENP-W, centromere protein W; histone fold, DNA bi	99.71
1b67_A	68	Protein (histone HMFA); DNA binding protein; 1.48A	99.09
1f1e_A	154	Histone fold protein; archaeal histone protein, DN	98.64
2yfw_B	103	Histone H4, H4; cell cycle, kinetochore, centromer	98.28
1tzy_D	103	Histone H4-VI; histone-fold, tetramer-dimer-dimer,	98.26
1ku5_A	70	HPHA, archaeal histon; histone fold, DNA binding p	98.14
1n1j_A	93	NF-YB; histone-like PAIR, DNA binding protein; 1.6	98.11
1id3_B	102	Histone H4; nucleosome core particle, chromatin, p	97.99
1jfi_B	179	DR1 protein, transcription regulator NC2 beta chai	97.89
2byk_B	128	Chrac-14; nucleosome sliding, histone fold, DNA-bi	97.88
2hue_C	84	Histone H4; mini beta sheet, elongated beta sandwh	97.86
3b0c_T	111	CENP-T, centromere protein T; histone fold, DNA bi	97.81
2nqb_C	123	Histone H2A; nucleosome, NCP, chromatin, structura	97.69
2f8n_G	120	Core histone macro-H2A.1; nucleosome, NCP, macroh2	97.67
1id3_C	131	Histone H2A.1; nucleosome core particle, chromatin	97.65
1tzy_A	129	Histone H2A-IV; histone-fold, tetramer-dimer-dimer	97.64
1n1j_B	97	NF-YC; histone-like PAIR, DNA binding protein; 1.6	97.61
1f1e_A	154	Histone fold protein; archaeal histone protein, DN	97.58
2f8n_K	149	Histone H2A type 1; nucleosome, NCP, macroh2A, his	97.56
4g92_C	119	HAPE; transcription factor, nucleosome, minor groo	97.55
1taf_B	70	TFIID TBP associated factor 62; transcription init	97.5
1h3o_B	76	Transcription initiation factor TFIID 20/15 kDa su	97.47
1f66_C	128	Histone H2A.Z; nucleosome, chromatin, histone vari	97.45
1jfi_A	98	Transcription regulator NC2 alpha chain; histone,	97.34
2jss_A	192	Chimera of histone H2B.1 and histone H2A.Z; histon	97.19
1taf_A	68	TFIID TBP associated factor 42; transcription init	97.13
4dra_A	113	Centromere protein S; DNA binding complex, DNA dam	97.08
2byk_A	140	Chrac-16; nucleosome sliding, histone fold, DNA-bi	97.07
2hue_B	77	Histone H3; mini beta sheet, elongated beta sandwh	97.07
3v9r_A	90	MHF1, uncharacterized protein YOL086W-A; histone f	96.99
3b0b_B	107	CENP-S, centromere protein S; histone fold, DNA bi	96.9
1tzy_C	136	Histone H3; histone-fold, tetramer-dimer-dimer, DN	96.7
3vh5_A	140	CENP-S; histone fold, chromosome segregation, DNA	96.69
3nqj_A	82	Histone H3-like centromeric protein A; alpha helix	96.68
2yfv_A	100	Histone H3-like centromeric protein CSE4; cell cyc	96.59
2ly8_A	121	Budding yeast chaperone SCM3; centromere protein,	96.47
3nqu_A	140	Histone H3-like centromeric protein A; alpha helix	96.04
3r45_A	156	Histone H3-like centromeric protein A; histone fol	95.93
2l5a_A	235	Histone H3-like centromeric protein CSE4, protein	95.51
3ksy_A	1049	SOS-1, SON of sevenless homolog 1; RAS, RAS activa	94.05
1bh9_B	89	TAFII28; histone fold, tata binding protein, trans	90.07
2l5a_A	235	Histone H3-like centromeric protein CSE4, protein	83.4
2krk_A	86	26S protease regulatory subunit 8; structural geno	81.46
3aji_B	83	S6C, proteasome (prosome, macropain) 26S subunit,	80.71
3ksy_A	1049	SOS-1, SON of sevenless homolog 1; RAS, RAS activa	80.2

>1tzy_B Histone H2B; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1eqz_B 1hq3_B 2aro_B 2hio_B 3c9k_B 3azg_D 3a6n_D 3an2_D 3av1_D 3av2_D 3ayw_D 3aze_D 3azf_D 3afa_D 3azh_D 3azi_D 3azj_D 3azk_D 3azl_D 3azm_D ...

Probab=100.00  E-value=9.2e-46  Score=276.68  Aligned_cols=79  Identities=76%  Similarity=1.110  Sum_probs=72.5

Q ss_pred             cccccccchhhHHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcCCC
Q 033083           49 KKRAKKSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPAS  127 (128)
Q Consensus        49 kk~~kkr~esys~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLPGE  127 (128)
                      ++++++|.|+|++||||||||||||+|||++||+||||||||||||||.||++|++||+|+|||+||||||||||||||
T Consensus        28 ~k~~~~~~esy~~YIyKVLKQVhpd~gISskAm~ImnSfvnDiferIA~EAs~La~~nkr~TitsreIqtAvrLlLpGE  106 (126)
T 1tzy_B           28 KKRKKSRKESYSIYVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGE  106 (126)
T ss_dssp             ------CCCCCHHHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHSCHH
T ss_pred             CCccccccccHHHHHHHHHHHhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCcHH
Confidence            4556788999999999999999999999999999999999999999999999999999999999999999999999997

>2nqb_D Histone H2B; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_D*

Probab=100.00  E-value=1.8e-45  Score=274.19  Aligned_cols=79  Identities=73%  Similarity=1.078  Sum_probs=74.0

Q ss_pred             cccccccchhhHHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcCCC
Q 033083           49 KKRAKKSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPAS  127 (128)
Q Consensus        49 kk~~kkr~esys~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLPGE  127 (128)
                      ++++++|.|+|++||||||||||||+|||++||+||||||||||||||.||++|++||+|+|||+||||+|||||||||
T Consensus        25 ~k~~~~~~esy~~YIyKVLKQVhpd~gISskAm~ImnSfvnDiferIA~EAs~La~~nkr~TitsreIqtAvrLlLpGE  103 (123)
T 2nqb_D           25 KKKKRKRKESYAIYIYTVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASRLAHYNKRSTITSREIQTAVRLLLPGE  103 (123)
T ss_dssp             ----CCCCCCSHHHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHHHHSCHH
T ss_pred             CCCCccccchHHHHHHHHHHHhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHHHhCcHH
Confidence            4556778999999999999999999999999999999999999999999999999999999999999999999999997

>2jss_A Chimera of histone H2B.1 and histone H2A.Z; histone/chaperone complex, intrinsically unfolded protein, chaperone/structural protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.22.1.1 a.22.1.1

Probab=99.98  E-value=3.7e-33  Score=217.50  Aligned_cols=73  Identities=68%  Similarity=1.042  Sum_probs=71.6

Q ss_pred             cchhhHHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcCCC
Q 033083           55 SIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPAS  127 (128)
Q Consensus        55 r~esys~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLPGE  127 (128)
                      |+|+|++||||||||||||++||++||++|||||+|||+||+.||++|++||+++|||+||||+||||+||||
T Consensus         1 ~~~~~~~yi~kvLkqv~p~~~iS~~Am~~m~s~v~di~~rIa~eA~~L~~~~~r~Tit~~eIq~Avrl~lpge   73 (192)
T 2jss_A            1 RKETYSSYIYKVLKQTHPDTGISQKSMSILNSFVNDIFERIATEASKLAAYNKKSTISAREIQTAVRLILPGE   73 (192)
T ss_dssp             CCSTTHHHHHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCSCCHHHHHHHHHHHSCSH
T ss_pred             CcchHHHHHHHHHcccCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhcCHH
Confidence            4699999999999999999999999999999999999999999999999999999999999999999999996

>3b0c_W CENP-W, centromere protein W; histone fold, DNA binding, DNA binding protein; HET: CIT; 2.20A {Gallus gallus} PDB: 3b0d_W* 3vh5_W 3vh6_W

Probab=99.71  E-value=1.5e-17  Score=112.60  Aligned_cols=65  Identities=20%  Similarity=0.250  Sum_probs=63.1

Q ss_pred             HHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhc
Q 033083           60 KIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVL  124 (128)
Q Consensus        60 s~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlL  124 (128)
                      ..+|+|++||+|||.+||.+|+.+|+.+++++|++|+.||+.+|++++|.||+.+||++|++.+|
T Consensus         7 ~A~V~rI~K~~~p~~~is~~A~~~i~~~~~~Fi~~la~eA~~~a~~~~rKTI~~~dI~~A~~~ll   71 (76)
T 3b0c_W            7 RGTLRKIIKKHKPHLRLAANTDLLVHLSFLLFLHRLAEEARTNAFENKSKIIKPEHTIAAAKVIL   71 (76)
T ss_dssp             HHHHHHHHHHHCTTCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHhCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence            46799999999999999999999999999999999999999999999999999999999999987

>1b67_A Protein (histone HMFA); DNA binding protein; 1.48A {Methanothermus fervidus} SCOP: a.22.1.2 PDB: 1hta_A 1a7w_A 1b6w_A 1bfm_A

Probab=99.09  E-value=1.7e-10  Score=75.59  Aligned_cols=60  Identities=23%  Similarity=0.338  Sum_probs=57.8

Q ss_pred             HHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           63 IFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        63 IyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      |.|++|++ ++..||+.|+..|..++.++++.|+.+|..++.+++|.||+.+|||.|++.|
T Consensus         8 v~Ri~k~~-~~~ris~~A~~~l~~a~e~fi~~l~~~A~~~a~~~kRkTI~~~Di~~A~~~l   67 (68)
T 1b67_A            8 IGRIIKNA-GAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARKMF   67 (68)
T ss_dssp             HHHHHHHT-TCSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHGGGG
T ss_pred             HHHHHhcC-CcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHhc
Confidence            78999999 8899999999999999999999999999999999999999999999999875

>1f1e_A Histone fold protein; archaeal histone protein, DNA binding protein; HET: MSE; 1.37A {Methanopyrus kandleri} SCOP: a.22.1.2

Probab=98.64  E-value=5.5e-08  Score=74.18  Aligned_cols=63  Identities=22%  Similarity=0.361  Sum_probs=60.6

Q ss_pred             HHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcCC
Q 033083           63 IFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPA  126 (128)
Q Consensus        63 IyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLPG  126 (128)
                      |.|++|+. ....||+.|...|..++.++.+.|+.+|..++++.+|+||+.+||+.|++..||.
T Consensus        88 V~Ri~k~~-g~~RVS~~A~~~l~~~le~f~~~I~~~A~~~a~ha~RKTIt~eDV~~Al~~~~~~  150 (154)
T 1f1e_A           88 VRRILKRA-GIERASSDAVDLYNKLICRATEELGEKAAEYADEDGRKTVQGEDVEKAITYSMPK  150 (154)
T ss_dssp             HHHHHHHT-TCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHSGG
T ss_pred             HHHHHHHc-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHhcCCc
Confidence            89999998 6778999999999999999999999999999999999999999999999999983

>2yfw_B Histone H4, H4; cell cycle, kinetochore, centromere, histone chaperone, BUDD; 2.60A {Kluyveromyces lactis nrrl y-1140}

Probab=98.28  E-value=1.7e-06  Score=61.28  Aligned_cols=63  Identities=17%  Similarity=0.183  Sum_probs=58.4

Q ss_pred             HHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           60 KIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        60 s~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      ...|.|+++..-. ..||..+..-|..++.++++.|+.+|..++++++|.|||.+||+.|++-+
T Consensus        32 ~~~I~Rlar~~G~-~rIs~~a~~~l~~vle~~~~~V~~dA~~~a~hakRktvt~~DV~~Alr~~   94 (103)
T 2yfw_B           32 KPAIRRLARRGGV-KRISGLIYEEVRNVLKTFLESVIRDAVTYTEHAKRKTVTSLDVVYALKRQ   94 (103)
T ss_dssp             HHHHHHHHHHTTC-CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCc-cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHc
Confidence            3568999999876 58999999999999999999999999999999999999999999999865

>1tzy_D Histone H4-VI; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1f66_B 1eqz_D 1hq3_D 1u35_B 2aro_D 2cv5_B* 2f8n_B 3nqu_B 3r45_B 3azg_B 3a6n_B 3an2_B 3av1_B 3av2_B 3ayw_B 3aze_B 3azf_B 3afa_B 3azh_B 3azk_B ...

Probab=98.26  E-value=2e-06  Score=60.83  Aligned_cols=63  Identities=16%  Similarity=0.154  Sum_probs=58.5

Q ss_pred             HHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           60 KIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        60 s~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      ...|.|+++..-. ..||..+..-|..++.++++.|+.+|..++++++|.|||.+||+.|++-+
T Consensus        32 ~~~I~Rlar~~G~-~rIs~~a~~~l~~vle~~~~~V~~dA~~~a~hakRktIt~~DV~~Alr~~   94 (103)
T 1tzy_D           32 KPAIRRLARRGGV-KRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQ   94 (103)
T ss_dssp             HHHHHHHHHHTTC-CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCc-cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHHc
Confidence            4569999999876 58999999999999999999999999999999999999999999999965

>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A {Pyrococcus horikoshii} SCOP: a.22.1.2

Probab=98.14  E-value=4.6e-06  Score=54.80  Aligned_cols=59  Identities=15%  Similarity=0.337  Sum_probs=54.9

Q ss_pred             HHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           62 YIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        62 YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      -|.|++|.. ....||+.+..-+..++.++++.|+.+|..++++.+|.||+.+||+.|++
T Consensus        11 ~v~Rl~r~~-g~~ris~~a~~~l~e~~~~~~~~v~~dA~~~a~hakRkTI~~~DV~lA~~   69 (70)
T 1ku5_A           11 PVDRLIRKA-GAERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIK   69 (70)
T ss_dssp             HHHHHHHHT-TCSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHT
T ss_pred             HHHHHHHHc-CcceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence            478999986 46789999999999999999999999999999999999999999999985

>1n1j_A NF-YB; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens} SCOP: a.22.1.3

Probab=98.11  E-value=1.1e-05  Score=55.49  Aligned_cols=61  Identities=20%  Similarity=0.294  Sum_probs=56.9

Q ss_pred             HHHHHhhhccCC-CCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           62 YIFKVLKQVHPD-IGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        62 YIyKVLKQVhPd-~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      =|.|+.|.+-|| ..||+.|...|......+...|+.+|..++...+|.||+..||+.|++-
T Consensus        13 ~i~ri~K~~~~~~~~is~dA~~~l~~a~e~Fi~~l~~~A~~~a~~~kRkTI~~~Dv~~Al~~   74 (93)
T 1n1j_A           13 NVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMST   74 (93)
T ss_dssp             HHHHHHHHTSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             HHHHHHHHhCCccceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHH
Confidence            488999999776 6799999999999999999999999999999999999999999999973

>1id3_B Histone H4; nucleosome core particle, chromatin, protein/DNA interaction, nucleoprotein, supercoiled DNA; 3.10A {Saccharomyces cerevisiae} SCOP: a.22.1.1

Probab=97.99  E-value=1.4e-05  Score=56.72  Aligned_cols=63  Identities=16%  Similarity=0.180  Sum_probs=57.6

Q ss_pred             HHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           60 KIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        60 s~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      .-.|.|+++..-. ..||..+...|..++.++++.|+.||..++++.+|.|||..||-.|++.+
T Consensus        31 ~~~I~Rlar~~Gv-~rIS~da~~~l~~~le~fi~~I~~dA~~~a~HakRKTVt~~DV~~ALkr~   93 (102)
T 1id3_B           31 KPAIRRLARRGGV-KRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALKRQ   93 (102)
T ss_dssp             HHHHHHHHHHTTC-CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCc-hhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHc
Confidence            4568999998743 66999999999999999999999999999999999999999999999865

>1jfi_B DR1 protein, transcription regulator NC2 beta chain; histone, H2A/H2B, tata-DNA, transcription initiation, NC2, negative cofactor, structural genomics, PSI; 2.62A {Homo sapiens} SCOP: a.22.1.3

Probab=97.89  E-value=4.1e-05  Score=59.64  Aligned_cols=62  Identities=18%  Similarity=0.330  Sum_probs=58.6

Q ss_pred             HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           61 IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        61 ~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      .=|.|++|.+-|+..||..|...|...+..+..-|+.||..+|...+|+||+..||-.|+.-
T Consensus        19 A~V~RImK~alp~~rISkDA~~al~ec~~eFI~~LtseA~e~a~~~~RKTI~~eDVl~Al~~   80 (179)
T 1jfi_B           19 AAINKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALES   80 (179)
T ss_dssp             HHHHHHHHHHSTTCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHh
Confidence            44899999999988999999999999999999999999999999999999999999999874

>2byk_B Chrac-14; nucleosome sliding, histone fold, DNA-binding protein; 2.4A {Drosophila melanogaster} SCOP: a.22.1.3 PDB: 2bym_B

Probab=97.88  E-value=4.8e-05  Score=55.90  Aligned_cols=61  Identities=18%  Similarity=0.253  Sum_probs=56.7

Q ss_pred             HHHHhhhccCC-CCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           63 IFKVLKQVHPD-IGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        63 IyKVLKQVhPd-~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      |.|++|++-|| ..||..|...|.-...-+...|+.+|..++...+|+||+..||..||.-+
T Consensus        15 I~rImK~~~pd~~~iS~dA~~~l~ka~e~FI~~lt~~A~~~a~~~kRKTI~~~Dv~~Al~~l   76 (128)
T 2byk_B           15 IGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLTEL   76 (128)
T ss_dssp             HHHHHHHHSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHT
T ss_pred             HHHHHHHhCcccceECHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHHc
Confidence            88999998886 56999999999999999999999999999999999999999999999753

>2hue_C Histone H4; mini beta sheet, elongated beta sandwhich, DNA binding prote; 1.70A {Xenopus laevis} SCOP: a.22.1.1 PDB: 3nqj_B 1aoi_B 3kwq_B* 1hio_D 2yfv_B

Probab=97.86  E-value=2.1e-05  Score=53.67  Aligned_cols=62  Identities=15%  Similarity=0.139  Sum_probs=56.3

Q ss_pred             HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           61 IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        61 ~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      -.|.|+++..-. ..||..+..-+..++...++.|+.+|..++++.+|+|||..||-.|++-+
T Consensus        14 ~~I~Riar~~Gv-~rIs~da~~~l~~~l~~~~~~I~~dA~~~a~ha~RKTvt~~DV~~Alk~~   75 (84)
T 2hue_C           14 PAIRRLARRGGV-KRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQ   75 (84)
T ss_dssp             HHHHHHHHHTTC-CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTT
T ss_pred             HHHHHHHHHcCc-hhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHc
Confidence            458899998754 66999999999999999999999999999999999999999999998754

>3b0c_T CENP-T, centromere protein T; histone fold, DNA binding, DNA binding protein; HET: CIT; 2.20A {Gallus gallus} PDB: 3b0d_T* 3vh5_T 3vh6_T

Probab=97.81  E-value=4.2e-05  Score=55.00  Aligned_cols=61  Identities=10%  Similarity=0.224  Sum_probs=56.4

Q ss_pred             HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           61 IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        61 ~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      ..|.|+.+.. ....||..+...|..++.++++.|+.+|..++++.+|+||+..||..|++-
T Consensus        11 a~I~Ri~r~~-g~~rIS~~a~~~l~e~l~~f~~~v~~da~~~A~HA~RKTV~~eDV~lalrr   71 (111)
T 3b0c_T           11 SLIKQIFSHY-VKTPVTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADVELLMRR   71 (111)
T ss_dssp             HHHHHHHHHH-HCSCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             HHHHHHHHHC-CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHH
Confidence            4688888876 678899999999999999999999999999999999999999999999874

>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C*

Probab=97.69  E-value=9.2e-05  Score=54.27  Aligned_cols=62  Identities=23%  Similarity=0.238  Sum_probs=56.6

Q ss_pred             HHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           60 KIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        60 s~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      -..|+|+|++..---.||+.|.-.|-..+..+...|.+.|...++.+++.+|++|+||-||+
T Consensus        26 V~ri~R~Lk~~~~a~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp~hi~lAI~   87 (123)
T 2nqb_C           26 VGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   87 (123)
T ss_dssp             HHHHHHHHHHTTSCSEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             HHHHHHHHHccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHHHHHh
Confidence            35799999997444589999999999999999999999999999999999999999999998

>2f8n_G Core histone macro-H2A.1; nucleosome, NCP, macroh2A, histone variant, chromatin, X- RAY structure, crystallography, structural protein/DNA complex; 2.90A {Homo sapiens} SCOP: a.22.1.1 PDB: 1u35_C

Probab=97.67  E-value=9.9e-05  Score=53.90  Aligned_cols=61  Identities=28%  Similarity=0.295  Sum_probs=56.3

Q ss_pred             HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           61 IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        61 ~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      ..|+|+|+...---.||..|--.|-..+..+...|.+.|.+.++.+++.+|++|+||-||+
T Consensus        26 ~ri~R~Lk~~~~a~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~~rItp~hi~lAI~   86 (120)
T 2f8n_G           26 GRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELAVNAARDNKKGRVTPRHILLAVA   86 (120)
T ss_dssp             HHHHHHHHHHSSSCEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             HHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHhhcCCceEcHHHHHHHHh
Confidence            5799999998655679999999999999999999999999999999999999999999998

>1id3_C Histone H2A.1; nucleosome core particle, chromatin, protein/DNA interaction, nucleoprotein, supercoiled DNA; 3.10A {Saccharomyces cerevisiae} SCOP: a.22.1.1

Probab=97.65  E-value=0.0001  Score=54.66  Aligned_cols=62  Identities=24%  Similarity=0.260  Sum_probs=56.4

Q ss_pred             HHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           60 KIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        60 s~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      -..|+|+|+...---.||..|.-.|-..+..+...|...|...++.+++.+|++|+||-||+
T Consensus        28 V~rI~R~Lk~~~~a~RVs~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp~hI~lAI~   89 (131)
T 1id3_C           28 VGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYLAAEILELAGNAARDNKKTRIIPRHLQLAIR   89 (131)
T ss_dssp             HHHHHHHHHTTCSCSEECSSHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             HHHHHHHHHccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceEcHHHHHHHHh
Confidence            35799999996444489999999999999999999999999999999999999999999998

>1tzy_A Histone H2A-IV; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1eqz_A 1hq3_A 2aro_A 2hio_A 3c9k_A 3azg_C 3a6n_C 3an2_C 3av1_C 3av2_C 3ayw_C 3aze_C 3azf_C 3afa_C 3azh_C 3azi_C 3azj_C 3azk_C 3azl_C 3azm_C ...

Probab=97.64  E-value=0.00012  Score=54.17  Aligned_cols=61  Identities=21%  Similarity=0.254  Sum_probs=56.1

Q ss_pred             HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           61 IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        61 ~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      ..|+|+|++..---.||+.|--.|-..+..+...|.+.|.+.++.+++.+|++|+||-||+
T Consensus        29 ~rI~R~Lk~~~~a~RVs~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp~hi~lAI~   89 (129)
T 1tzy_A           29 GRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIR   89 (129)
T ss_dssp             HHHHHHHHHTTSSSEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             HHHHHHHHccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEcHHHHHHHHh
Confidence            5799999997444589999999999999999999999999999999999999999999998

>1n1j_B NF-YC; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens} SCOP: a.22.1.3

Probab=97.61  E-value=0.00015  Score=50.51  Aligned_cols=59  Identities=24%  Similarity=0.220  Sum_probs=53.7

Q ss_pred             HHHHHhhhccCCC-CcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           62 YIFKVLKQVHPDI-GISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        62 YIyKVLKQVhPd~-gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      =|.|++|.- ||. .||..|--.|.-..-.+...|+.+|...++.++|.||+.+||+.||+
T Consensus        24 rIkrImK~~-~~~~~is~eA~~~laka~E~Fi~~l~~~A~~~a~~~krktI~~~di~~Av~   83 (97)
T 1n1j_B           24 RIKKIMKLD-EDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAIT   83 (97)
T ss_dssp             HHHHHHTTS-TTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHT
T ss_pred             HHHHHHccC-ccccccChHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCHHHHHHHHh
Confidence            388999986 775 49999999999888889999999999999999999999999999986

>1f1e_A Histone fold protein; archaeal histone protein, DNA binding protein; HET: MSE; 1.37A {Methanopyrus kandleri} SCOP: a.22.1.2

Probab=97.58  E-value=0.00015  Score=55.10  Aligned_cols=60  Identities=17%  Similarity=0.240  Sum_probs=57.0

Q ss_pred             HHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           63 IFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        63 IyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      |-|++|+.-|+..||..|-.-+...+..+.+-|+.+|..++.+.+|+||+..||..|+.-
T Consensus        10 V~Riik~~lg~~rVS~dA~~~l~~~l~~f~~~i~~~A~~~a~ha~RKTv~a~DV~~a~~~   69 (154)
T 1f1e_A           10 IERIFRQGIGERRLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHLKALADV   69 (154)
T ss_dssp             HHHHHHTTSTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHHH
T ss_pred             HHHHHHhcCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHh
Confidence            789999988999999999999999999999999999999999999999999999999853

>2f8n_K Histone H2A type 1; nucleosome, NCP, macroh2A, histone variant, chromatin, X- RAY structure, crystallography, structural protein/DNA complex; 2.90A {Mus musculus} SCOP: a.22.1.1

Probab=97.56  E-value=0.00017  Score=54.80  Aligned_cols=61  Identities=21%  Similarity=0.258  Sum_probs=56.1

Q ss_pred             HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           61 IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        61 ~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      ..|+|+||...---.||..|.-.|-..+..+...|.+.|...++.+++.+|++|+||-||+
T Consensus        48 grI~R~LK~~~~a~RVs~~A~VyLAAVLEYL~aEILelAgn~A~~~krkrItprhI~lAI~  108 (149)
T 2f8n_K           48 GRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIR  108 (149)
T ss_dssp             HHHHHHHHHTTSCSEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             HHHHHHHHccccccccCcCcHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHh
Confidence            5799999997545589999999999999999999999999999999999999999999998

>4g92_C HAPE; transcription factor, nucleosome, minor groove binding, CCAA complex, histone fold motif, specific binding to the ccaat- nucleus; HET: DNA; 1.80A {Aspergillus nidulans} PDB: 4g91_C*

Probab=97.55  E-value=0.00015  Score=52.52  Aligned_cols=59  Identities=27%  Similarity=0.263  Sum_probs=52.7

Q ss_pred             HHHHHhhhccCCC-CcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           62 YIFKVLKQVHPDI-GISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        62 YIyKVLKQVhPd~-gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      =|.|++|.. ||. .||..|.-+|.-.+--+...|+.+|...|+.++|+||+.+||+.||+
T Consensus        46 RIkrImK~d-~~~~~is~eA~v~la~a~E~Fi~~L~~~A~~~a~~~krktI~~~di~~Av~  105 (119)
T 4g92_C           46 RIKKVMKAD-PEVKMISAEAPILFAKGCDVFITELTMRAWIHAEDNKRRTLQRSDIAAALS  105 (119)
T ss_dssp             HHHHHHHTS-TTCCEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHT
T ss_pred             HHHHHHhhC-CccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccCHHHHHHHHh
Confidence            389999976 665 58999988888888888899999999999999999999999999996

>1taf_B TFIID TBP associated factor 62; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3

Probab=97.50  E-value=0.00039  Score=46.76  Aligned_cols=60  Identities=12%  Similarity=0.238  Sum_probs=52.4

Q ss_pred             HHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           62 YIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        62 YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      .|.++.+++.= ..+|..+-..|-.-|......|+.||.+++++.+|.|||..||..|+++
T Consensus        11 ~v~~iaes~Gi-~~lsddaa~~LA~dvEyr~~eI~qeA~kfmrHakRk~Lt~~DI~~Alk~   70 (70)
T 1taf_B           11 SMKVIAESIGV-GSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLKV   70 (70)
T ss_dssp             HHHHHHHHTTC-CCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC-
T ss_pred             HHHHHHHHCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHcC
Confidence            46777777742 3689999999999999999999999999999999999999999999874

>1h3o_B Transcription initiation factor TFIID 20/15 kDa subunits; transcription/TBP-associated factors, TBP-associated factors; 2.3A {Homo sapiens} SCOP: a.22.1.3

Probab=97.47  E-value=0.00042  Score=47.39  Aligned_cols=59  Identities=19%  Similarity=0.394  Sum_probs=55.3

Q ss_pred             HHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           63 IFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        63 IyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      +...++||-|...|...+..+|-.+.+|+.+.+..-|.+||.+.+-.||..+|||-...
T Consensus        11 L~~Lv~~idp~~~ld~~vee~ll~lADdFV~~V~~~ac~lAKhR~s~~le~kDvql~Le   69 (76)
T 1h3o_B           11 LQDLVREVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQLHLE   69 (76)
T ss_dssp             HHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHHHH
Confidence            66789999999999999999999999999999999999999999999999999997654

>1f66_C Histone H2A.Z; nucleosome, chromatin, histone variant, protein DNA interaction, nucleoprotein, supercoiled DNA, complex (nucleosome core/DNA); 2.60A {Homo sapiens} SCOP: a.22.1.1

Probab=97.45  E-value=0.00028  Score=52.06  Aligned_cols=61  Identities=20%  Similarity=0.168  Sum_probs=55.2

Q ss_pred             HHHHHHhhhccC-CCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           61 IYIFKVLKQVHP-DIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        61 ~YIyKVLKQVhP-d~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      ..|+|+|+...- ...||+.|.-.|-..+..+...|.+.|...++.+++.+|++|+||-||+
T Consensus        31 ~ri~R~Lk~~~~a~~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItprhi~lAI~   92 (128)
T 1f66_C           31 GRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR   92 (128)
T ss_dssp             HHHHHHHHHTSCSSCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHH
T ss_pred             HHHHHHHHHcccchhhccccHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEcHHHHHHHHh
Confidence            479999998763 3479999999999999999999999999999999999999999999998

>1jfi_A Transcription regulator NC2 alpha chain; histone, H2A/H2B, tata-DNA, transcription initiation, NC2, negative cofactor, structural genomics, PSI; 2.62A {Homo sapiens} SCOP: a.22.1.3

Probab=97.34  E-value=0.00024  Score=49.76  Aligned_cols=60  Identities=13%  Similarity=0.254  Sum_probs=50.2

Q ss_pred             HHHHHHhhhccCC-CCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           61 IYIFKVLKQVHPD-IGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        61 ~YIyKVLKQVhPd-~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      .=|.|++|. .|| ..||..|--.|.-..-.+.+.|+.+|...++.+++.||+.+||+.||+
T Consensus        15 aRIkrimK~-~~~~~~vs~~A~v~la~a~E~Fi~el~~~A~~~a~~~krktI~~~di~~av~   75 (98)
T 1jfi_A           15 ARIKKIMQT-DEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQCIE   75 (98)
T ss_dssp             HHHHHHHTT-STTCCCBCTTHHHHHHHHHHHHHHHHHHHHHHHHHTC---CBCHHHHHTTCC
T ss_pred             HHHHHHHHc-CccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHh
Confidence            348899997 566 559999999988888888899999999999999999999999999986

>2jss_A Chimera of histone H2B.1 and histone H2A.Z; histone/chaperone complex, intrinsically unfolded protein, chaperone/structural protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.22.1.1 a.22.1.1

Probab=97.19  E-value=0.001  Score=51.42  Aligned_cols=61  Identities=25%  Similarity=0.223  Sum_probs=55.2

Q ss_pred             HHHHHHhhhccC-CCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           61 IYIFKVLKQVHP-DIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        61 ~YIyKVLKQVhP-d~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      ..|+|.||...- ...||..|.--|-..+..+...|.+.|...++.+++.+|++|+||-||+
T Consensus       109 ~ri~R~lk~~~~a~~Rv~~~A~vyLaavLEyl~~eIlelA~n~a~~~~~~~I~p~~i~lAi~  170 (192)
T 2jss_A          109 GRIKRYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNAAKDLKVKRITPRHLQLAIR  170 (192)
T ss_dssp             HHHHHHHHHTTCSSCCCCTTTHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHHHH
T ss_pred             HHHHHHHHhcCccccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHh
Confidence            579999999743 3579999999999999999999999999999999999999999999998

>1taf_A TFIID TBP associated factor 42; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3

Probab=97.13  E-value=0.0028  Score=42.27  Aligned_cols=63  Identities=17%  Similarity=0.257  Sum_probs=55.0

Q ss_pred             HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhc
Q 033083           61 IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVL  124 (128)
Q Consensus        61 ~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlL  124 (128)
                      ..|.++||.-.= ...|..+..-|--|+...-..|+.+|..++.+.+|.||+..||+-|++..+
T Consensus         5 ~~i~~iLk~~G~-~~~~~~v~~~L~e~~~ry~~~il~dA~~~a~HAgrktv~~eDVkLAi~~~~   67 (68)
T 1taf_A            5 QVIMSILKELNV-QEYEPRVVNQLLEFTFRYVTSILDDAKVYANHARKKTIDLDDVRLATEVTL   67 (68)
T ss_dssp             HHHHHHHHHTTC-CCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHTC
T ss_pred             HHHHHHHHHCCC-cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHhcc
Confidence            457888887532 367899999999999999999999999999999999999999999998653

>4dra_A Centromere protein S; DNA binding complex, DNA damage repair, histone-fold, DNA BI protein; 2.41A {Homo sapiens} PDB: 4drb_A

Probab=97.08  E-value=0.00068  Score=49.56  Aligned_cols=60  Identities=17%  Similarity=0.273  Sum_probs=53.8

Q ss_pred             HHHHHhhhccC--CCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           62 YIFKVLKQVHP--DIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        62 YIyKVLKQVhP--d~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      .|.|+++++-.  ++.+|..++..|.-|+.+.++.|+.++..+|+..+|+||+..||.-++|
T Consensus        32 ~V~rIvke~gaer~~~vS~~ai~aL~El~~~~~~~ia~Dl~~fAkHAgRkTI~~eDV~La~R   93 (113)
T 4dra_A           32 TVGCLCEEVALDKEMQFSKQTIAAISELTFRQCENFAKDLEMFARHAKRTTINTEDVKLLAR   93 (113)
T ss_dssp             HHHHHHHHHHHHHTCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTT
T ss_pred             HHHHHHHHHHHHcCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHH
Confidence            36777777743  5679999999999999999999999999999999999999999998876

>2byk_A Chrac-16; nucleosome sliding, histone fold, DNA-binding protein; 2.4A {Drosophila melanogaster} SCOP: a.22.1.3 PDB: 2bym_A

Probab=97.07  E-value=0.00089  Score=49.96  Aligned_cols=59  Identities=15%  Similarity=0.188  Sum_probs=48.1

Q ss_pred             HHHHHhhhccCCCC-cchhhHHHHHhHHHHHHHHHHHHHhhHH-hhCCCCCCChhHHHHHHH
Q 033083           62 YIFKVLKQVHPDIG-ISSKAMGIMNSFINDIFEKLAQEASRLA-RYNKKPTITSREIQTAVR  121 (128)
Q Consensus        62 YIyKVLKQVhPd~g-ISskAM~IMnSfVnDiFErIA~EAs~La-~~nkk~TltsREIQtAVR  121 (128)
                      =|.|++|.- |+.+ ||..|.-+|.-.+--+...|+.+|...+ +.++|.||+.++|..||+
T Consensus        24 RIKrIMK~d-pdv~~Is~eA~vliakA~ElFI~~Lt~~A~~~a~~~~kRKtI~~~Dl~~AV~   84 (140)
T 2byk_A           24 RVRTIMKSS-MDTGLITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPGEALKYEHLSQVVN   84 (140)
T ss_dssp             -----CCSS-SSCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCEECHHHHHHHHH
T ss_pred             HHHHHHhcC-cccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccCHHHHHHHHh
Confidence            388888885 8855 8888888888877777888999999999 999999999999999997

>2hue_B Histone H3; mini beta sheet, elongated beta sandwhich, DNA binding prote; 1.70A {Xenopus laevis}

Probab=97.07  E-value=0.0023  Score=43.73  Aligned_cols=66  Identities=18%  Similarity=0.240  Sum_probs=56.5

Q ss_pred             hhhHHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           57 ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        57 esys~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      -.|...+..+..+...|..+++.|+..|.-...+....|..++..++.+.+|.||..+|||-|.|+
T Consensus         7 ~PF~RLVRei~~~~~~~~R~q~~Al~aLQea~Eaylv~lfeda~l~A~HAkRvTi~~kDiqLa~ri   72 (77)
T 2hue_B            7 LPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKRVTIMPKDIQLARRI   72 (77)
T ss_dssp             HHHHHHHHHHHHTTCSSCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHcCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcHhhHHHHHHH
Confidence            345566666666666789999999999998888888888899999999999999999999999985

>3v9r_A MHF1, uncharacterized protein YOL086W-A; histone fold, fanconi anemia, DNA repair, DNA BI protein; 2.40A {Saccharomyces cerevisiae}

Probab=96.99  E-value=0.0016  Score=45.58  Aligned_cols=59  Identities=14%  Similarity=0.213  Sum_probs=51.6

Q ss_pred             HHHHhhhccC--CCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           63 IFKVLKQVHP--DIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        63 IyKVLKQVhP--d~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      +-++..++-+  +..+|..++.-|--|+.+.++.|+.++..+|++.+|+||+..||.-++|
T Consensus        18 V~ki~~e~~~~~g~~vs~~~i~aL~e~~~~~~~~ia~Dl~~fA~HAgRkTI~~eDV~L~~R   78 (90)
T 3v9r_A           18 VEERLQQVLSSEDIKYTPRFINSLLELAYLQLGEMGSDLQAFARHAGRGVVNKSDLMLYLR   78 (90)
T ss_dssp             HHHHHHHHSCSSCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHH
Confidence            4555566644  3569999999999999999999999999999999999999999998876

>3b0b_B CENP-S, centromere protein S; histone fold, DNA binding, DNA, nucleus, DNA binding protein; 2.15A {Gallus gallus}

Probab=96.90  E-value=0.00096  Score=48.10  Aligned_cols=62  Identities=19%  Similarity=0.213  Sum_probs=54.2

Q ss_pred             HHHHHHhhhccC--CCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           61 IYIFKVLKQVHP--DIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        61 ~YIyKVLKQVhP--d~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      ..|-|+++.+--  +..+|..++..|.-|+.+.++.|+.++..++++.+|+||+..||--|+|-
T Consensus        23 ~~V~rI~~~~g~~~~~~vs~~~i~aL~E~~~~~~~~ia~Da~~fA~HAgRkTI~~eDV~La~Rr   86 (107)
T 3b0b_B           23 YTTGCLCQDVAEDKGVLFSKQTVAAISEITFRQCENFARDLEMFARHAKRSTITSEDVKLLARR   86 (107)
T ss_dssp             HHHHHHHHHHHHHHTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTT
T ss_pred             HHHHHHHHHHhhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcCcCCHHHHHHHHHh
Confidence            346677777643  46799999999999999999999999999999999999999999988763

>1tzy_C Histone H3; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1eqz_C 1hq3_C 2aro_C 2f8n_A 2hio_C 3av1_A 3lel_A 3afa_A 3azi_A 3azj_A 3azk_A 3azl_A 3azm_A 3azn_A 2cv5_A* 1u35_A* 2nqb_A 2io5_B 2pyo_A* 3c9k_C ...

Probab=96.70  E-value=0.0054  Score=45.90  Aligned_cols=65  Identities=18%  Similarity=0.254  Sum_probs=55.0

Q ss_pred             hhHHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           58 TYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        58 sys~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      -|...|..+..+...|..+++.|+..|.-...+.+..|..++..++.+.+|.||..+|||-|.|+
T Consensus        67 PF~RLVREI~~~~~~~~R~q~~Al~aLQeaaEayLv~Lfeda~l~A~HAkRvTi~~kDiqLa~ri  131 (136)
T 1tzy_C           67 PFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRI  131 (136)
T ss_dssp             HHHHHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhhhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcHHhHHHHHHH
Confidence            34444555555556789999999999998888888888899999999999999999999999986

>3vh5_A CENP-S; histone fold, chromosome segregation, DNA binding, nucleus, binding protein; 2.40A {Gallus gallus} PDB: 3vh6_A

Probab=96.69  E-value=0.002  Score=48.65  Aligned_cols=59  Identities=20%  Similarity=0.256  Sum_probs=51.9

Q ss_pred             HHHHhhhcc--CCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           63 IFKVLKQVH--PDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        63 IyKVLKQVh--Pd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      |-++.+++-  .++.+|..++..|--|+.+.|+.|+.++..++++-+|.||+..||.-++|
T Consensus        25 VgkIvee~~~~~~~~vS~~ai~aL~El~~~~~e~ia~DLe~FAkHAGRKTI~~eDVkLa~R   85 (140)
T 3vh5_A           25 TGALAQDVAEDKGVLFSKQTVAAISEITFRQAENFARDLEMFARHAKRSTITSEDVKLLAR   85 (140)
T ss_dssp             HHHHHHHHHHHHTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHH
Confidence            445555552  35779999999999999999999999999999999999999999999887

>3nqj_A Histone H3-like centromeric protein A; alpha helix, histone fold, centromere, DNA binding protein; 2.10A {Homo sapiens}

Probab=96.68  E-value=0.0085  Score=41.37  Aligned_cols=67  Identities=13%  Similarity=0.152  Sum_probs=54.9

Q ss_pred             hhhHHHHHHHhhhcc--CCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           57 ETYKIYIFKVLKQVH--PDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        57 esys~YIyKVLKQVh--Pd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      -.|...+..+..+..  -|..+++.|+..|---..+..-.+.+++..++.+.+|.||..+|||-|.|+-
T Consensus         7 lPF~RLVREI~~~~~~~~~~R~q~~Al~aLQea~E~ylv~Lfeda~lcAiHAkRvTi~~kDiqLa~rir   75 (82)
T 3nqj_A            7 LPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARRIR   75 (82)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHhccCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcHHHHHHHHHHc
Confidence            345555555555544  3678999999999988888888888899999999999999999999999973

>2yfv_A Histone H3-like centromeric protein CSE4; cell cycle, kinetochore, centromere, histone chaperone, BUDD; 2.32A {Kluyveromyces lactis nrrl y-1140} PDB: 2yfw_A

Probab=96.59  E-value=0.0064  Score=43.29  Aligned_cols=67  Identities=19%  Similarity=0.179  Sum_probs=55.0

Q ss_pred             chhhHHHHHHHhhhccC---CCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           56 IETYKIYIFKVLKQVHP---DIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        56 ~esys~YIyKVLKQVhP---d~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      +-.|...+..+..+..+   |..+++.|+..|.-...+..-.+..++..++.+.+|.||..+|||-|.|+
T Consensus        30 k~PF~RLVREI~~~~~~~~~~~R~q~~Al~ALQeaaEayLv~Lfeda~l~A~HAkRvTi~~kDiqLa~ri   99 (100)
T 2yfv_A           30 RMPFARLVKEVTDQFTTESEPLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKRITIMRKDMQLARRI   99 (100)
T ss_dssp             HHHHHHHHHHHHHTTC-----CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHC
T ss_pred             cccHHHHHHHHHHHhccccchhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCHHHHHHHHHh
Confidence            44566666666666555   78899999999988888888888889999999999999999999999885

>2ly8_A Budding yeast chaperone SCM3; centromere protein, CENH3 variants, partially unfolded; NMR {Saccharomyces cerevisiae}

Probab=96.47  E-value=0.006  Score=44.86  Aligned_cols=47  Identities=17%  Similarity=0.271  Sum_probs=45.1

Q ss_pred             cchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           76 ISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        76 ISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      ||..+..-+...+.++++.|+.+|..++.+.+|+|+|..||--|++.
T Consensus        65 IS~~iy~e~r~vl~~~l~~i~rdav~yaehA~RKTVta~DV~~Alkr  111 (121)
T 2ly8_A           65 ISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALKR  111 (121)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCBCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999874

>3nqu_A Histone H3-like centromeric protein A; alpha helix, histone fold, centromere, DNA binding protein; 2.50A {Homo sapiens} PDB: 3an2_A

Probab=96.04  E-value=0.02  Score=43.10  Aligned_cols=52  Identities=17%  Similarity=0.204  Sum_probs=46.2

Q ss_pred             CCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           72 PDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        72 Pd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      -|..+++.|+..|--...+.+-.|.+++..++.+.++.||..+|||-|.||-
T Consensus        82 ~~~Rfq~~Al~ALQEAaEayLv~LFEdanlcAiHAkRVTIm~kDiqLArrir  133 (140)
T 3nqu_A           82 VDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARRIR  133 (140)
T ss_dssp             CCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHH
T ss_pred             ccceecHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccccHHHHHHHHHhc
Confidence            3678999999999888888888888899999999999999999999999873

>3r45_A Histone H3-like centromeric protein A; histone fold, centromere, CENP-A, histone chaperone, hjurp; 2.60A {Homo sapiens}

Probab=95.93  E-value=0.02  Score=43.92  Aligned_cols=50  Identities=18%  Similarity=0.238  Sum_probs=45.0

Q ss_pred             CCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           73 DIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        73 d~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      |..+++.|+..|--...+++-.|.++|..++.+.+|.||..+|||-|.||
T Consensus        99 ~lRfqs~Al~ALQEAaEayLV~LFEdanLcAiHAkRVTIm~kDIqLArrI  148 (156)
T 3r45_A           99 DFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARRI  148 (156)
T ss_dssp             CCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSEECHHHHHHHHHH
T ss_pred             cceecHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccccHHHHHHHHHH
Confidence            56799999999888888888888889999999999999999999999987

>2l5a_A Histone H3-like centromeric protein CSE4, protein histone H4; A single chain of CSE4+SCM3+H4, fusion protein; NMR {Saccharomyces cerevisiae}

Probab=95.51  E-value=0.032  Score=45.16  Aligned_cols=48  Identities=17%  Similarity=0.259  Sum_probs=45.8

Q ss_pred             CcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           75 GISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        75 gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      .||..+..-+...+.++++.|+.+|..++.+.+|+|+|+.||--|++.
T Consensus       178 RIS~~iyeelr~vLe~fle~IirdAv~yaeHA~RKTVta~DV~~ALKr  225 (235)
T 2l5a_A          178 RISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALKR  225 (235)
T ss_dssp             TTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHh
Confidence            399999999999999999999999999999999999999999999874

>3ksy_A SOS-1, SON of sevenless homolog 1; RAS, RAS activator, disease mutation, guanine-nucleotide releasing factor, signaling protein; 3.18A {Homo sapiens} PDB: 1xd4_A 1xdv_A 1q9c_A

Probab=94.05  E-value=0.13  Score=47.85  Aligned_cols=62  Identities=19%  Similarity=0.287  Sum_probs=52.4

Q ss_pred             chhhHHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcCCC
Q 033083           56 IETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPAS  127 (128)
Q Consensus        56 ~esys~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLPGE  127 (128)
                      ..-|-.-|+|||.||||++.|.-.|..-+++++--++-.|+.          ....|..|+...|.-.+|+.
T Consensus        20 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~   81 (1049)
T 3ksy_A           20 RGLLVPALKKVQGQVHPTLESNDDALQYVEELILQLLNMLCQ----------AQPRSASDVEERVQKSFPHP   81 (1049)
T ss_dssp             SSSSHHHHHHHHHHHCTTSBCCHHHHHHHHHHHHHHHHHHHH----------TCCCSHHHHHHHHHHHSCTT
T ss_pred             HHHHHHHHHHHHHHhCCCCCccHhHHHHHHHHHHHHHHHHhc----------CCCccHHHHHHHHHHhCCCc
Confidence            456788899999999999999999999999998776665553          56788999999999998874

>1bh9_B TAFII28; histone fold, tata binding protein, transcription regulation complex; HET: PMB; 2.60A {Homo sapiens} SCOP: a.22.1.3 PDB: 1bh8_B*

Probab=90.07  E-value=2.3  Score=29.21  Aligned_cols=61  Identities=15%  Similarity=0.270  Sum_probs=48.1

Q ss_pred             HHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhC-CCCCCChhHHHHHHHhhc
Q 033083           63 IFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYN-KKPTITSREIQTAVRLVL  124 (128)
Q Consensus        63 IyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~n-kk~TltsREIQtAVRLlL  124 (128)
                      |.|+..++. +..+|.....+|..+-.-+.-.|.++|..+..-. ....|.++.|+.|+|.+.
T Consensus        22 vKrl~~~~~-~~~v~~~v~i~v~glaKvfVgelVE~A~~V~~~~~~~~Pl~P~HireA~rrl~   83 (89)
T 1bh9_B           22 IKRLIQSIT-GTSVSQNVVIAMSGISKVFVGEVVEEALDVCEKWGEMPPLQPKHMREAVRRLK   83 (89)
T ss_dssp             HHHHHHHHH-SSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHc-CCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHHHHH
Confidence            667777775 7788888888887777777778888888877654 456999999999999764

>2l5a_A Histone H3-like centromeric protein CSE4, protein histone H4; A single chain of CSE4+SCM3+H4, fusion protein; NMR {Saccharomyces cerevisiae}

Probab=83.40  E-value=3  Score=33.66  Aligned_cols=68  Identities=21%  Similarity=0.209  Sum_probs=49.8

Q ss_pred             cchhhHHHHHHHhhhccC---CCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           55 SIETYKIYIFKVLKQVHP---DIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        55 r~esys~YIyKVLKQVhP---d~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      ++-.|...+..+.....+   |+.+.+.|+.-|.--.-+.+-.+=+.+.-.+.+.+|-||..+|||-|-||
T Consensus        13 ~KlPFqRLVREIaq~~~~~~~~lRfqs~Al~ALQEAaEayLV~LFEd~nLcaiHAkRVTim~kDiqLarri   83 (235)
T 2l5a_A           13 SKIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKRITIMKKDMQLARRI   83 (235)
T ss_dssp             SCCHHHHHHHHHHHTSCGGGTTCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHSTTTSGGGTTHHHHHHTS
T ss_pred             cCccHHHHHHHHHHHhccCCccceecHHHHHHHHHHHHHHHHHHHhhhHHHHhcccccccchhhHHHHHHH
Confidence            466788888888777665   78899999877754333333333334556778899999999999999885

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens}

Probab=81.46  E-value=1.8  Score=28.58  Aligned_cols=43  Identities=19%  Similarity=0.203  Sum_probs=35.1

Q ss_pred             hHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcCCCC
Q 033083           86 SFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPASS  128 (128)
Q Consensus        86 SfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLPGE~  128 (128)
                      -|..-=++.|+.||+-.+-......||..|+..|+.-+.|+.+
T Consensus        44 G~SGADL~~l~~eAa~~alr~~~~~I~~~df~~Al~~v~p~~~   86 (86)
T 2krk_A           44 GASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVMQKDS   86 (86)
T ss_dssp             SCCHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHHCCCC
T ss_pred             CCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHccCCC
Confidence            4444445668899998888887899999999999999999863

>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B* 2dvw_B*

Probab=80.71  E-value=2.8  Score=26.73  Aligned_cols=42  Identities=14%  Similarity=0.238  Sum_probs=33.8

Q ss_pred             hHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcCCC
Q 033083           86 SFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPAS  127 (128)
Q Consensus        86 SfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLPGE  127 (128)
                      -|..-=++.|+.||+..+-......||..|+..|++-+.|+-
T Consensus        34 G~SGADi~~l~~eA~~~a~~~~~~~i~~~df~~Al~~~~ps~   75 (83)
T 3aji_B           34 KISGADINSICQESGMLAVRENRYIVLAKDFEKAYKTVIKKD   75 (83)
T ss_dssp             CCCHHHHHHHHHHHHHGGGTSCCSSBCHHHHHHHHHHHCC--
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccCCcCHHHHHHHHHHHccCc
Confidence            344445567899999999888889999999999999998863

>3ksy_A SOS-1, SON of sevenless homolog 1; RAS, RAS activator, disease mutation, guanine-nucleotide releasing factor, signaling protein; 3.18A {Homo sapiens} PDB: 1xd4_A 1xdv_A 1q9c_A

Probab=80.20  E-value=4.2  Score=37.77  Aligned_cols=60  Identities=18%  Similarity=0.179  Sum_probs=40.5

Q ss_pred             HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           61 IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        61 ~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      .-|+|.||.++- -.|++.|.--|-..+-.+--.|-.-|++-++.+++..||.|+||-|++
T Consensus       108 ~~~~~~l~~~~~-~r~~~~~~~y~~avleyl~~~~l~la~~~~~~~~~~~i~p~~~~~ai~  167 (1049)
T 3ksy_A          108 EKIHPLLKEVLG-YKIDHQVSVYIVAVLEYISADILKLVGNYVRNIRHYEITKQDIKVAMC  167 (1049)
T ss_dssp             HHHHHHHHHHHC-SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCBCCHHHHHHHHH
T ss_pred             HHHHHHhhcccc-cccCCCCcchhHHHHHHHHHHHHHHHHHHHHHcCCceecCcccccccc
Confidence            358888866553 377777766444444444444444455556779999999999999986

---

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	128
d1tzyb_	92	a.22.1.1 (B:) Histone H2B {Chicken (Gallus gallus)	1e-35
d1f1ea_	151	a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy	4e-15
d1f1ea_	151	a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy	0.003
d1q9ca_	172	a.22.1.3 (A:) Histone domain of Son of sevenless p	2e-14

>d1tzyb_ a.22.1.1 (B:) Histone H2B {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]} Length = 92

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H2B
species: Chicken (Gallus gallus), erythrocytes [TaxId: 9031]

 Score =  115 bits (290), Expect = 1e-35
 Identities = 56/69 (81%), Positives = 64/69 (92%)

Query: 57  ETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREI 116
           E+Y IY++KVLKQVHPD GISSKAMGIMNSF+NDIFE++A EASRLA YNK+ TITSREI
Sbjct: 3   ESYSIYVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREI 62

Query: 117 QTAVRLVLP 125
           QTAVRL+LP
Sbjct: 63  QTAVRLLLP 71

>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} Length = 151

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon Methanopyrus kandleri [TaxId: 2320]

 Score = 65.2 bits (159), Expect = 4e-15
 Identities = 10/63 (15%), Positives = 27/63 (42%)

Query: 63  IFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL 122
           I ++ +Q   +  +S  A   +  F+  + E +A  A  +   + K T+    ++    +
Sbjct: 7   IERIFRQGIGERRLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHLKALADV 66

Query: 123 VLP 125
           ++ 
Sbjct: 67  LMV 69

>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} Length = 151

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon Methanopyrus kandleri [TaxId: 2320]

 Score = 33.2 bits (76), Expect = 0.003
 Identities = 12/50 (24%), Positives = 26/50 (52%)

Query: 76  ISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLP 125
            SS A+ + N  I    E+L ++A+  A  + + T+   +++ A+   +P
Sbjct: 97  ASSDAVDLYNKLICRATEELGEKAAEYADEDGRKTVQGEDVEKAITYSMP 146

>d1q9ca_ a.22.1.3 (A:) Histone domain of Son of sevenless protein {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Histone domain of Son of sevenless protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 64.0 bits (156), Expect = 2e-14
 Identities = 13/79 (16%), Positives = 28/79 (35%), Gaps = 10/79 (12%)

Query: 48  KKKRAKKSIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNK 107
            ++ A K        + KV  QVHP +  +  A+  +   I  +   L           +
Sbjct: 7   SEENAPKWRGLLVPALKKVQGQVHPTLESNDDALQYVEELILQLLNMLC----------Q 56

Query: 108 KPTITSREIQTAVRLVLPA 126
               ++ +++  V+   P 
Sbjct: 57  AQPRSASDVEERVQKSFPH 75

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	128
d1tzyb_	92	Histone H2B {Chicken (Gallus gallus), erythrocytes	100.0
d1f1ea_	151	Archaeal histone {Archaeon Methanopyrus kandleri [	99.74
d1q9ca_	172	Histone domain of Son of sevenless protein {Human	99.62
d1f1ea_	151	Archaeal histone {Archaeon Methanopyrus kandleri [	98.78
d1htaa_	68	Archaeal histone {Archaeon Methanothermus fervidus	98.45
d1ku5a_	66	Archaeal histone {Archaeon (Pyrococcus horikoshii)	98.2
d1n1ja_	87	Nuclear transcription factor Y subunit beta (Nf-Yb	98.0
d1jfib_	135	Negative cofactor 2, NC2, beta chain {Human (Homo	97.83
d2bykb1	89	Chrac-14 {Fruit fly (Drosophila melanogaster) [Tax	97.83
d1jfia_	66	Negative cofactor 2, NC2, alpha chain {Human (Homo	97.78
d2huec1	82	Histone H4 {African clawed frog (Xenopus laevis) [	97.6
d1n1jb_	78	Nuclear transcription factor Y subunit gamma (Nf-Y	97.49
d1h3ob_	74	TAF(II)-20, (TAF(II)-15, hTAF12), histone fold dom	97.3
d1q9ca_	172	Histone domain of Son of sevenless protein {Human	97.09
d1tzyc_	95	Histone H3 {Chicken (Gallus gallus), erythrocytes	96.96
d1u35c1	106	macro-H2A.1, histone domain {Human (Homo sapiens)	96.34
d1tzya_	106	Histone H2A {Chicken (Gallus gallus), erythrocytes	96.18
d1f66c_	103	Histone H2A {Human (Homo sapiens), variant H2A.Z [	95.68
d2byka1	72	Chrac-16 {Fruit fly (Drosophila melanogaster) [Tax	95.25
d1tafb_	70	TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta	95.07
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	93.22
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	84.12
d1tafa_	68	TAF(II)42 {Fruit fly (Drosophila melanogaster) [Ta	80.97

>d1tzyb_ a.22.1.1 (B:) Histone H2B {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H2B
species: Chicken (Gallus gallus), erythrocytes [TaxId: 9031]

Probab=100.00  E-value=1.2e-44  Score=256.42  Aligned_cols=73  Identities=77%  Similarity=1.137  Sum_probs=71.9

Q ss_pred             cchhhHHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcCCC
Q 033083           55 SIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPAS  127 (128)
Q Consensus        55 r~esys~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLPGE  127 (128)
                      |+|+|++||||||||||||+|||++||+||||||||||||||.||++|++||+++|||+||||+||||+||||
T Consensus         1 R~esy~~Yi~kVLKqVhp~~giS~kam~imnsfvndiferIa~EA~~La~~~kr~TitsreIqtAvrL~LPge   73 (92)
T d1tzyb_           1 RKESYSIYVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGE   73 (92)
T ss_dssp             CCCCCHHHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHSCHH
T ss_pred             CCchHHHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHHCcHH
Confidence            5799999999999999999999999999999999999999999999999999999999999999999999997

>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon Methanopyrus kandleri [TaxId: 2320]

Probab=99.74  E-value=1.5e-18  Score=128.61  Aligned_cols=67  Identities=15%  Similarity=0.215  Sum_probs=65.1

Q ss_pred             HHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcCCCC
Q 033083           62 YIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPASS  128 (128)
Q Consensus        62 YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLPGE~  128 (128)
                      =|+|||||+||+.+||.+||.+||+|++|+|++|+.||..|+.+++|+||+.+|||.||+++++|++
T Consensus         6 ~I~rilk~~~~~~ris~da~~~l~~~~~~~~~~Ia~eA~~l~~~~~rKTi~~edi~~a~~~~~~~~~   72 (151)
T d1f1ea_           6 AIERIFRQGIGERRLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHLKALADVLMVEGV   72 (151)
T ss_dssp             HHHHHHHTTSTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHHHHTCTTS
T ss_pred             HHHHHHHHhCCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHhcccccc
Confidence            3899999999999999999999999999999999999999999999999999999999999999874

>d1q9ca_ a.22.1.3 (A:) Histone domain of Son of sevenless protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Histone domain of Son of sevenless protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.62  E-value=2.9e-16  Score=120.12  Aligned_cols=62  Identities=18%  Similarity=0.281  Sum_probs=58.3

Q ss_pred             chhhHHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcCCC
Q 033083           56 IETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLPAS  127 (128)
Q Consensus        56 ~esys~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLPGE  127 (128)
                      +..|-.||+|||+||||++||+..|+.+||+|++|||++|+          ..++.|.+|||.+|+++|||+
T Consensus        15 ~g~f~~~i~KVl~qvhP~l~i~~~Al~~i~~~i~~ll~~L~----------~~~p~sv~dVe~~v~~~fp~~   76 (172)
T d1q9ca_          15 RGLLVPALKKVQGQVHPTLESNDDALQYVEELILQLLNMLC----------QAQPRSASDVEERVQKSFPHP   76 (172)
T ss_dssp             TTSSHHHHHHHHHHHCSSSBCCHHHHHHHHHHHHHHHHHHH----------TTCCCSTTHHHHHHHHSSCTT
T ss_pred             HHHHHHHHHHHHHHhCCCCCcCHHHHHHHHHHHHHHHHHHH----------ccCCccHHHHHHHHHHhCCch
Confidence            46999999999999999999999999999999999999995          367899999999999999996

>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon Methanopyrus kandleri [TaxId: 2320]

Probab=98.78  E-value=5.2e-09  Score=76.57  Aligned_cols=68  Identities=21%  Similarity=0.322  Sum_probs=63.0

Q ss_pred             hHHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcC--CC
Q 033083           59 YKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLP--AS  127 (128)
Q Consensus        59 ys~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLP--GE  127 (128)
                      ...+|.|++|... ...||+.|...|+..+.+++..|+.+|...+.+++|.||+.+||+.||+..+|  ||
T Consensus        81 p~a~IkRi~k~~g-~~ris~dA~~~l~~~~E~fi~~l~~~A~~~a~~~kRkTI~~~DI~~Av~~~~~~~~~  150 (151)
T d1f1ea_          81 GRATVRRILKRAG-IERASSDAVDLYNKLICRATEELGEKAAEYADEDGRKTVQGEDVEKAITYSMPKGGE  150 (151)
T ss_dssp             CHHHHHHHHHHTT-CCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHSGGGGC
T ss_pred             CHHHHHHHHHcCC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHcCCCcCC
Confidence            4569999999643 45699999999999999999999999999999999999999999999999999  87

>d1htaa_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanothermus fervidus, histone A [TaxId: 2180]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon Methanothermus fervidus, histone A [TaxId: 2180]

Probab=98.45  E-value=4e-07  Score=57.87  Aligned_cols=62  Identities=23%  Similarity=0.311  Sum_probs=56.8

Q ss_pred             HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           61 IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        61 ~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      ..|.|+.|...+ ..||..+...|...+..++..|+.+|...+.+.+|+||+.+||..|++.+
T Consensus         7 a~I~ri~k~~~~-~ris~ea~~~l~~~~e~fi~~l~~~a~~~a~~~kRkTi~~~DV~~Alk~~   68 (68)
T d1htaa_           7 APIGRIIKNAGA-ERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARKMF   68 (68)
T ss_dssp             HHHHHHHHHTTC-SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHTC
T ss_pred             HHHHHHHHHCCc-chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHhC
Confidence            458899999855 57999999999999999999999999999999999999999999999853

>d1ku5a_ a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococcus horikoshii) [TaxId: 53953]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon (Pyrococcus horikoshii) [TaxId: 53953]

Probab=98.20  E-value=1.4e-06  Score=55.19  Aligned_cols=60  Identities=15%  Similarity=0.331  Sum_probs=55.6

Q ss_pred             HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           61 IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        61 ~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      ..|.|+.|...+ ..||..|...|......+++.|+.+|..++.+.+|+||+..||..|++
T Consensus         6 a~I~rI~k~~~~-~ris~ea~~~l~~a~e~Fi~~l~~~a~~~a~~~~RKTI~~~Dv~~Al~   65 (66)
T d1ku5a_           6 APVDRLIRKAGA-ERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIK   65 (66)
T ss_dssp             HHHHHHHHHTTC-SEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHT
T ss_pred             HHHHHHHHhCcc-cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHh
Confidence            458899998755 589999999999999999999999999999999999999999999985

>d1n1ja_ a.22.1.3 (A:) Nuclear transcription factor Y subunit beta (Nf-Yb3) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Nuclear transcription factor Y subunit beta (Nf-Yb3)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.00  E-value=1.3e-05  Score=53.02  Aligned_cols=61  Identities=20%  Similarity=0.312  Sum_probs=56.3

Q ss_pred             HHHHhhhccCC-CCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           63 IFKVLKQVHPD-IGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        63 IyKVLKQVhPd-~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      |.|+.|+.-|+ ..||++|...|......+...|+.+|...+..++|+||+..||..|+.-+
T Consensus         8 v~ri~K~~~p~~~~is~ea~~~i~~a~e~Fi~~lt~~A~~~a~~~~rKTI~~~dv~~Al~~~   69 (87)
T d1n1ja_           8 VARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMSTL   69 (87)
T ss_dssp             HHHHHHHTSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHT
T ss_pred             HHHHHHHhCCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHc
Confidence            78999998776 56999999999999999999999999999999999999999999999753

>d1jfib_ a.22.1.3 (B:) Negative cofactor 2, NC2, beta chain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Negative cofactor 2, NC2, beta chain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.83  E-value=3.3e-05  Score=55.06  Aligned_cols=62  Identities=18%  Similarity=0.344  Sum_probs=58.0

Q ss_pred             HHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           62 YIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        62 YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      =|.|+.|..-|+..||..|..+|.....-+...|+.+|...+...+|+||+..||..|+.-+
T Consensus         9 ~I~kI~K~~~~~~~is~dA~~~i~~a~~~Fi~~lt~~A~~~a~~~~RkTi~~~Dv~~Al~~~   70 (135)
T d1jfib_           9 AINKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALESL   70 (135)
T ss_dssp             HHHHHHHHHSTTCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHH
T ss_pred             HHHHHHhhCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHc
Confidence            37899999999999999999999999999999999999999999999999999999999753

>d2bykb1 a.22.1.3 (B:11-99) Chrac-14 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Chrac-14
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=97.83  E-value=3.9e-05  Score=50.96  Aligned_cols=61  Identities=18%  Similarity=0.253  Sum_probs=55.6

Q ss_pred             HHHHhhhccCC-CCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           63 IFKVLKQVHPD-IGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        63 IyKVLKQVhPd-~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      |.|+.|+.-|+ ..||+.|..+|.....-+...|+.+|...+..++|+||+..||..|+.-+
T Consensus         5 i~ri~K~~~p~~~~iskeA~~~i~~aae~FI~~lt~~A~~~a~~~~rKtI~~~dv~~Al~~~   66 (89)
T d2bykb1           5 IGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLTEL   66 (89)
T ss_dssp             HHHHHHHHSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHT
T ss_pred             HHHHHHHhCcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHHC
Confidence            77899988766 66999999999999999999999999999999999999999999999753

>d1jfia_ a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Negative cofactor 2, NC2, alpha chain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.78  E-value=1.8e-05  Score=49.97  Aligned_cols=57  Identities=14%  Similarity=0.261  Sum_probs=49.1

Q ss_pred             HHHHhhhccCC-CCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHH
Q 033083           63 IFKVLKQVHPD-IGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAV  120 (128)
Q Consensus        63 IyKVLKQVhPd-~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAV  120 (128)
                      |.|++|.. || ..||+.|...|......+...|+.+|...++.++|.||+.+||..||
T Consensus         8 Vkkimk~~-~~~~~is~~A~~~~~~a~E~Fi~~l~~~A~~~a~~~krktI~~~dl~~ai   65 (66)
T d1jfia_           8 IKKIMQTD-EEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQCI   65 (66)
T ss_dssp             HHHHHTTS-TTCCCBCTTHHHHHHHHHHHHHHHHHHHHHHHHHTC---CBCHHHHHTTC
T ss_pred             HHHHHhcC-CccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHh
Confidence            78899986 55 56999999999999999999999999999999999999999998875

>d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H4
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

Probab=97.60  E-value=2.8e-05  Score=51.60  Aligned_cols=60  Identities=15%  Similarity=0.160  Sum_probs=52.0

Q ss_pred             HHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           62 YIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        62 YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      -|.|+.+..- -..||..+...+...+.+.|+.|+.+|..++.+.+|.|||..||..|++-
T Consensus        14 ~i~Riar~~G-v~ris~d~~~~l~~~l~~~l~~i~~~a~~~~~hakRKTvt~~DV~~Alkr   73 (82)
T d2huec1          14 AIRRLARRGG-VKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKR   73 (82)
T ss_dssp             HHHHHHHHTT-CCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTT
T ss_pred             HHHHHHHHcC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHh
Confidence            4666666642 23599999999999999999999999999999999999999999999873

>d1n1jb_ a.22.1.3 (B:) Nuclear transcription factor Y subunit gamma (Nf-Yc2) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Nuclear transcription factor Y subunit gamma (Nf-Yc2)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.49  E-value=0.00014  Score=46.70  Aligned_cols=59  Identities=24%  Similarity=0.207  Sum_probs=52.8

Q ss_pred             HHHHhhhccCC-CCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           63 IFKVLKQVHPD-IGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        63 IyKVLKQVhPd-~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      |.|++|. .|| ..||+.|..+|.--..-+.+.|+.+|...++.++|+||+.+||..||+-
T Consensus         6 VkrImK~-~~~~~~is~ea~~~i~~a~E~Fi~~l~~~A~~~a~~~~rkti~~~dl~~av~~   65 (78)
T d1n1jb_           6 IKKIMKL-DEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAITK   65 (78)
T ss_dssp             HHHHHTT-STTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTT
T ss_pred             HHHHHhc-CCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHhc
Confidence            6788886 577 5589999999999999999999999999999999999999999999864

>d1h3ob_ a.22.1.3 (B:) TAF(II)-20, (TAF(II)-15, hTAF12), histone fold domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)-20, (TAF(II)-15, hTAF12), histone fold domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.30  E-value=0.0003  Score=46.41  Aligned_cols=59  Identities=19%  Similarity=0.394  Sum_probs=54.2

Q ss_pred             HHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           63 IFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        63 IyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      +...++||-|+..|...+-.++-.+..|+.+.+..-|.+||.+.+-.||..+|||--..
T Consensus         9 L~eLv~~idp~~~ld~~vee~ll~iADdFV~~V~~~ac~lAKhR~s~~le~kDvql~Le   67 (74)
T d1h3ob_           9 LQDLVREVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQLHLE   67 (74)
T ss_dssp             HHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcHHHHHHHHH
Confidence            56779999999999999999999999999999999999999999999999999997543

>d1q9ca_ a.22.1.3 (A:) Histone domain of Son of sevenless protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Histone domain of Son of sevenless protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.09  E-value=0.00053  Score=51.18  Aligned_cols=60  Identities=20%  Similarity=0.201  Sum_probs=54.3

Q ss_pred             HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           61 IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        61 ~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      .-|.|+||+.+ ...||+.|.--|-..+-.+-..|...|...++.+++.+||.+||+-|++
T Consensus       103 ~rv~rlLk~~~-a~RVs~~A~vyLaavLEyl~aeILelAgn~a~~~krkrItp~dI~lAi~  162 (172)
T d1q9ca_         103 EKIHPLLKEVL-GYKIDHQVSVYIVAVLEYISADILKLAGNYVRNIRHYEITKQDIKVAMC  162 (172)
T ss_dssp             HHHHHHHHHHH-SSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSBCCHHHHHHHHH
T ss_pred             HHHHHHHHhcc-ccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCceecHHHHHHHHh
Confidence            45889999986 5579999999999999999999999999999999999999999999997

>d1tzyc_ a.22.1.1 (C:) Histone H3 {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H3
species: Chicken (Gallus gallus), erythrocytes [TaxId: 9031]

Probab=96.96  E-value=0.0014  Score=44.69  Aligned_cols=69  Identities=17%  Similarity=0.205  Sum_probs=62.2

Q ss_pred             cchhhHHHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhh
Q 033083           55 SIETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLV  123 (128)
Q Consensus        55 r~esys~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLl  123 (128)
                      ++-.|...|..|+....+|+.+++.|+..|-..+.+.+-.+=..|..++.+.+|-||+.+|||-|.||-
T Consensus        23 pk~pF~RLVRei~~~~~~~~r~~~~Al~aLQea~E~yLv~lfeda~~~a~HakRvTl~~kD~~Larrir   91 (95)
T d1tzyc_          23 RKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIR   91 (95)
T ss_dssp             CHHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHhcCCCCEeeHHHHHHHHHHHHHHHHHHHHHhHHHHHhcCCCcCCHHHHHHHHHHh
Confidence            356799999999999999999999999999988888888888899999999999999999999999864

>d1u35c1 a.22.1.1 (C:814-919) macro-H2A.1, histone domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: macro-H2A.1, histone domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.34  E-value=0.0044  Score=42.92  Aligned_cols=60  Identities=28%  Similarity=0.325  Sum_probs=50.2

Q ss_pred             HHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           62 YIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        62 YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      =|.|.|++-+-...|++.|---|-..+..+...|-+-|.+.++.+++.-||.|+||-|||
T Consensus        16 ri~r~Lk~~~~~~rv~~~apVylaAVLEYL~aEILELAgn~a~~~k~~rItprhi~lair   75 (106)
T d1u35c1          16 RMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELAVNAARDNKKGRVTPRHILLAVA   75 (106)
T ss_dssp             HHHHHHHHHSTTSEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             HHHHHHhCCCCccccCCCCchhHHHHHHHHHHHHHHHHHHHHHHcCCCeeecchhhhccc
Confidence            388899987667788988887777777777777777778888999999999999999996

>d1tzya_ a.22.1.1 (A:) Histone H2A {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H2A
species: Chicken (Gallus gallus), erythrocytes [TaxId: 9031]

Probab=96.18  E-value=0.0064  Score=42.08  Aligned_cols=61  Identities=21%  Similarity=0.254  Sum_probs=43.7

Q ss_pred             HHHHHHhhhccCCCCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           61 IYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        61 ~YIyKVLKQVhPd~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      ..|+|.|++-+-...|++.|---|-..+..+-..|-+-|.+-++-|++.-||.|+||-|||
T Consensus        16 ~rv~r~Lk~~~~~~rv~~~apVylaAVLEYLtaEiLELAgn~a~~~k~~rItPrhi~lAir   76 (106)
T d1tzya_          16 GRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIR   76 (106)
T ss_dssp             HHHHHHHHHTTSSSEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             HHHHHHHHcCccccccCCCchHHHHHHHHHHHHHHHHHhhHHHHhcCCceecchhhhhccc
Confidence            4589999996655678887765444444444444444455566889999999999999996

>d1f66c_ a.22.1.1 (C:) Histone H2A {Human (Homo sapiens), variant H2A.Z [TaxId: 9606]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H2A
species: Human (Homo sapiens), variant H2A.Z [TaxId: 9606]

Probab=95.68  E-value=0.017  Score=39.50  Aligned_cols=59  Identities=20%  Similarity=0.210  Sum_probs=46.7

Q ss_pred             HHHHhhhccCC-CCcchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           63 IFKVLKQVHPD-IGISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        63 IyKVLKQVhPd-~gISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      |+|.|+..+-- .-|++-|---|...+..+...|-+-|.+-++-+++..||.|+||-||+
T Consensus        17 v~r~L~~~~~~~~rv~~~A~VyLaAvLEYL~aEILelagn~a~~~~~~rItpr~l~lai~   76 (103)
T d1f66c_          17 IHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR   76 (103)
T ss_dssp             HHHHHHHTSCSSCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHH
T ss_pred             HHHHHhccCccceecCCCceeeHHHHHHHHHHHHHHHhhhhhccCCCCeeechhhhcccc
Confidence            77888876544 348888877777777777777766777778899999999999999997

>d2byka1 a.22.1.3 (A:29-100) Chrac-16 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Chrac-16
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=95.25  E-value=0.024  Score=35.88  Aligned_cols=53  Identities=15%  Similarity=0.147  Sum_probs=40.7

Q ss_pred             ccCCCC-cchhhHHHHHhHHHHHHHHHHHHHhhHH-hhCCCCCCChhHHHHHHHh
Q 033083           70 VHPDIG-ISSKAMGIMNSFINDIFEKLAQEASRLA-RYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        70 VhPd~g-ISskAM~IMnSfVnDiFErIA~EAs~La-~~nkk~TltsREIQtAVRL  122 (128)
                      -.||.| ||+.|.-++.--.--+.+.++.+|...+ ..+++.||+..||-.||..
T Consensus         3 ~d~dv~~is~ea~~lvskAtElFi~~L~~~a~~~a~~~~~~ktl~~~dl~~aV~~   57 (72)
T d2byka1           3 SSMDTGLITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPGEALKYEHLSQVVNK   57 (72)
T ss_dssp             SSSSCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCEECHHHHHHHHHT
T ss_pred             CCHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCccccHHHHHHHHcc
Confidence            357877 7777777666666666678899998777 4667789999999999963

>d1tafb_ a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)62
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=95.07  E-value=0.04  Score=35.64  Aligned_cols=47  Identities=15%  Similarity=0.341  Sum_probs=35.4

Q ss_pred             cchhhHHHHHhHHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHh
Q 033083           76 ISSKAMGIMNSFINDIFEKLAQEASRLARYNKKPTITSREIQTAVRL  122 (128)
Q Consensus        76 ISskAM~IMnSfVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRL  122 (128)
                      ++-.+-..+-.=|..=...|..||.++.++.+|.+||..||..|.||
T Consensus        24 l~de~a~~LA~DveYRl~eiiQeA~KFMrhskR~~Ltt~Did~ALkv   70 (70)
T d1tafb_          24 LSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLKV   70 (70)
T ss_dssp             BCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC-
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcCcHHHHHHHHcC
Confidence            34444444444444456678899999999999999999999999875

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=93.22  E-value=0.38  Score=32.91  Aligned_cols=69  Identities=10%  Similarity=0.102  Sum_probs=49.4

Q ss_pred             hhHHHHHHHhhhccCCCCcchhhHHHHHhHH----------H--HHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhcC
Q 033083           58 TYKIYIFKVLKQVHPDIGISSKAMGIMNSFI----------N--DIFEKLAQEASRLARYNKKPTITSREIQTAVRLVLP  125 (128)
Q Consensus        58 sys~YIyKVLKQVhPd~gISskAM~IMnSfV----------n--DiFErIA~EAs~La~~nkk~TltsREIQtAVRLlLP  125 (128)
                      ....++.+.+++.+.+..++..++..+....          .  .....+..+|..+|..+.+.+|+..||+.|..-||=
T Consensus       196 e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~~~~~~~~~~~G~~R~a~~ll~~a~~~A~~~~~~~I~~edv~~A~~~~~~  275 (276)
T d1fnna2         196 QIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSKEVLF  275 (276)
T ss_dssp             HHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHhcccccccHHHHHHHHHHhhhhhhhhhcCCCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHhC
Confidence            3455666777887878788888776554332          0  012234567888999999999999999999998875


Q ss_pred             C
Q 033083          126 A  126 (128)
Q Consensus       126 G  126 (128)
                      |
T Consensus       276 g  276 (276)
T d1fnna2         276 G  276 (276)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=84.12  E-value=2.9  Score=28.31  Aligned_cols=59  Identities=8%  Similarity=0.078  Sum_probs=42.1

Q ss_pred             HHHHHhhhccCCCCcchhhHHHHHhHH----------HHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHH
Q 033083           62 YIFKVLKQVHPDIGISSKAMGIMNSFI----------NDIFEKLAQEASRLARYNKKPTITSREIQTAVR  121 (128)
Q Consensus        62 YIyKVLKQVhPd~gISskAM~IMnSfV----------nDiFErIA~EAs~La~~nkk~TltsREIQtAVR  121 (128)
                      ++...+++.+.+..++..+...+-..+          .+++ .+..+|..+|...++.+||..+|+.|+.
T Consensus       217 Il~~r~~~~~~~~~~~~~al~~ia~~~~~~~~~~gd~R~ai-~~l~~a~~~A~~~~~~~It~~~V~~A~~  285 (287)
T d1w5sa2         217 ILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGSARRAI-VALKMACEMAEAMGRDSLSEDLVRKAVS  285 (287)
T ss_dssp             HHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGTSCCCHHHHH-HHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             HHhhhHHHhhccCCCCHHHHHHHHHHHhccccCCCCHHHHH-HHHHHHHHHHHHcCCCCCCHHHHHHHHh
Confidence            344445566677788888777654432          2222 3567788899999999999999999985

>d1tafa_ a.22.1.3 (A:) TAF(II)42 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)42
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=80.97  E-value=2.1  Score=26.87  Aligned_cols=52  Identities=17%  Similarity=0.289  Sum_probs=34.0

Q ss_pred             CCCcchhhHHHHHh---HHHHHHHHHHHHHhhHHhhCCCCCCChhHHHHHHHhhc
Q 033083           73 DIGISSKAMGIMNS---FINDIFEKLAQEASRLARYNKKPTITSREIQTAVRLVL  124 (128)
Q Consensus        73 d~gISskAM~IMnS---fVnDiFErIA~EAs~La~~nkk~TltsREIQtAVRLlL  124 (128)
                      +.||+.=-=.|.|.   |..----.|-.+|.-.+.+.++.+|+..||+-|+..-|
T Consensus        13 ~~GV~~yeprV~~qlLef~yRYtt~VL~DA~vys~HA~k~~id~dDVkLAi~~r~   67 (68)
T d1tafa_          13 ELNVQEYEPRVVNQLLEFTFRYVTSILDDAKVYANHARKKTIDLDDVRLATEVTL   67 (68)
T ss_dssp             HTTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHTC
T ss_pred             HcCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhcc
Confidence            45666532223333   33222334556788899999999999999999987543