Psyllid ID: psy17762

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120----
Protein Sequence
MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccHHHHHHHHcccEEcccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccHHHHHcccccHHHHHHHHHHcccccEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEcHHHHHHHHHHcHHHHHHcccEEEccccccccccHHHccccccccc
Coil and Loop (DISEMBL)
msgrgkggkakaksktrssraglqfpvgrIHRLLRkgnyaervgagAPVYLAAVMEYLAAEVLELAGnaardnkktriiPRHLQLAIRNDEELNKLLSgvtiaqggvlpniqavllpkktekka
Flexible Loop (DISEMBL)
msgrgkggkakaksktrssraglqfpvgrihrllrkgnyaerVGAGAPVYLAAVMEYLAAEVLELAGnaardnkktriiPRHLQLAIRNDEELNKLLSGvtiaqggvlpniqavllpkktekka
Low Complexity Region (SEG)
MsgrgkggkakaksktrssragLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA
Disordered region (IsUnstruct)
**********************LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLL********
Disordered Region (DISOPRED)
************************FPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA***********
Disordered Region (DISEMBL)
*********************GLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA
Disordered Region (DISPRO)
*********************GLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPK******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA
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	124	2.2.26 [Sep-21-2011]
P19178	124	Histone H2A OS=Platynerei	N/A	N/A	0.983	0.983	0.983	8e-63
P02269	125	Histone H2A OS=Asterias r	N/A	N/A	1.0	0.992	0.927	7e-61
P02264	128	Histone H2A OS=Oncorhynch	N/A	N/A	0.983	0.953	0.926	7e-60
Q96QV6	131	Histone H2A type 1-A OS=H	yes	N/A	0.975	0.923	0.926	2e-59
P06897	130	Histone H2A type 1 OS=Xen	N/A	N/A	0.975	0.930	0.909	6e-59
P16886	126	Late histone H2A.L3 OS=St	yes	N/A	0.983	0.968	0.902	6e-59
Q8IUE6	130	Histone H2A type 2-B OS=H	yes	N/A	0.975	0.930	0.918	8e-59
P35061	125	Histone H2A OS=Acropora f	N/A	N/A	0.991	0.984	0.894	1e-58
Q99878	128	Histone H2A type 1-J OS=H	yes	N/A	0.975	0.945	0.926	1e-58
Q96KK5	128	Histone H2A type 1-H OS=H	yes	N/A	0.975	0.945	0.926	1e-58

>sp|P19178|H2A_PLADU Histone H2A OS=Platynereis dumerilii PE=3 SV=2

 Score =  238 bits (607), Expect = 8e-63,   Method: Compositional matrix adjust.
 Identities = 120/122 (98%), Positives = 120/122 (98%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
           MSGRGKGGKAK KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA
Sbjct: 1   MSGRGKGGKAKGKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT
Sbjct: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120

Query: 121 EK 122
            K
Sbjct: 121 TK 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.
Platynereis dumerilii (taxid: 6359)

>sp|P02269|H2A_ASTRU Histone H2A OS=Asterias rubens PE=1 SV=2

 Score =  231 bits (590), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 115/124 (92%), Positives = 120/124 (96%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
           MSGRGKGGKA+AK+K+RSSRAGLQFPVGR+HR LRKGNYAERVGAGAPVYLAAVMEYLAA
Sbjct: 1   MSGRGKGGKARAKAKSRSSRAGLQFPVGRVHRFLRKGNYAERVGAGAPVYLAAVMEYLAA 60

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           E+LELAGNAARDNKKTRI PRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT
Sbjct: 61  EILELAGNAARDNKKTRINPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120

Query: 121 EKKA 124
            K A
Sbjct: 121 AKAA 124

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.

Asterias rubens (taxid: 7604)

>sp|P02264|H2A_ONCMY Histone H2A OS=Oncorhynchus mykiss PE=1 SV=2

 Score =  228 bits (582), Expect = 7e-60,   Method: Compositional matrix adjust.
 Identities = 114/123 (92%), Positives = 120/123 (97%), Gaps = 1/123 (0%)

Query: 1   MSGRGK-GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 59
           MSGRGK GGKA+AK+KTRSSRAGLQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL 
Sbjct: 1   MSGRGKTGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLT 60

Query: 60  AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
           AE+LELAGNAARDNKKTRIIPRHLQLA+RNDEELNKLL GVTIAQGGVLPNIQAVLLPKK
Sbjct: 61  AEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGGVTIAQGGVLPNIQAVLLPKK 120

Query: 120 TEK 122
           TEK
Sbjct: 121 TEK 123

The secreted form has antibacterial activity against Gram-positive bacteria and antifungal activity against S.cerevisiae.

Oncorhynchus mykiss (taxid: 8022)

>sp|Q96QV6|H2A1A_HUMAN Histone H2A type 1-A OS=Homo sapiens GN=HIST1H2AA PE=1 SV=3

 Score =  227 bits (578), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 113/122 (92%), Positives = 119/122 (97%), Gaps = 1/122 (0%)

Query: 1   MSGRGK-GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 59
           MSGRGK GGKA+AKSK+RSSRAGLQFPVGRIHRLLRKGNYAER+GAGAPVYLAAV+EYL 
Sbjct: 1   MSGRGKQGGKARAKSKSRSSRAGLQFPVGRIHRLLRKGNYAERIGAGAPVYLAAVLEYLT 60

Query: 60  AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
           AE+LELAGNA+RDNKKTRIIPRHLQLAIRNDEELNKLL GVTIAQGGVLPNIQAVLLPKK
Sbjct: 61  AEILELAGNASRDNKKTRIIPRHLQLAIRNDEELNKLLGGVTIAQGGVLPNIQAVLLPKK 120

Query: 120 TE 121
           TE
Sbjct: 121 TE 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.

Homo sapiens (taxid: 9606)

>sp|P06897|H2A1_XENLA Histone H2A type 1 OS=Xenopus laevis PE=1 SV=2

 Score =  225 bits (574), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 111/122 (90%), Positives = 118/122 (96%), Gaps = 1/122 (0%)

Query: 1   MSGRGK-GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 59
           MSGRGK GGK +AK+KTRSSRAGLQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL 
Sbjct: 1   MSGRGKQGGKTRAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLT 60

Query: 60  AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
           AE+LELAGNAARDNKKTRIIPRHLQLA+RNDEELNKLL GVTIAQGGVLPNIQ+VLLPKK
Sbjct: 61  AEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGGVTIAQGGVLPNIQSVLLPKK 120

Query: 120 TE 121
           TE
Sbjct: 121 TE 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.

Xenopus laevis (taxid: 8355)

>sp|P16886|H2AL_STRPU Late histone H2A.L3 OS=Strongylocentrotus purpuratus PE=1 SV=2

 Score =  225 bits (574), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 111/123 (90%), Positives = 120/123 (97%), Gaps = 1/123 (0%)

Query: 1   MSGRGKG-GKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 59
           MSGRGKG GKA+AK+K+RS+RAGLQFPVGR+HR LRKGNYA+RVGAGAPVYLAAV+EYLA
Sbjct: 1   MSGRGKGAGKARAKAKSRSARAGLQFPVGRVHRFLRKGNYAQRVGAGAPVYLAAVLEYLA 60

Query: 60  AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
           AE+LELAGNAARDNKKTRIIPRHLQLA+RNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK
Sbjct: 61  AEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 120

Query: 120 TEK 122
           T K
Sbjct: 121 TSK 123

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.

Strongylocentrotus purpuratus (taxid: 7668)

>sp|Q8IUE6|H2A2B_HUMAN Histone H2A type 2-B OS=Homo sapiens GN=HIST2H2AB PE=1 SV=3

 Score =  224 bits (572), Expect = 8e-59,   Method: Compositional matrix adjust.
 Identities = 112/122 (91%), Positives = 119/122 (97%), Gaps = 1/122 (0%)

Query: 1   MSGRGK-GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 59
           MSGRGK GGKA+AK+K+RSSRAGLQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL 
Sbjct: 1   MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLT 60

Query: 60  AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
           AE+LELAGNAARDNKKTRIIPRHLQLA+RNDEELNKLL GVTIAQGGVLPNIQAVLLPKK
Sbjct: 61  AEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGGVTIAQGGVLPNIQAVLLPKK 120

Query: 120 TE 121
           TE
Sbjct: 121 TE 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.

Homo sapiens (taxid: 9606)

>sp|P35061|H2A_ACRFO Histone H2A OS=Acropora formosa PE=3 SV=2

 Score =  224 bits (572), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 110/123 (89%), Positives = 118/123 (95%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
           MSGRGKG     KSK+RSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVY+AAV+EYL+A
Sbjct: 1   MSGRGKGKAQGTKSKSRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYMAAVLEYLSA 60

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           E+LELAGNAARDNKK+RIIPRHLQLA+RNDEELNKLL+GVTIAQGGVLPNIQAVLLPKKT
Sbjct: 61  EILELAGNAARDNKKSRIIPRHLQLAVRNDEELNKLLAGVTIAQGGVLPNIQAVLLPKKT 120

Query: 121 EKK 123
           EKK
Sbjct: 121 EKK 123

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.

Acropora formosa (taxid: 126732)

>sp|Q99878|H2A1J_HUMAN Histone H2A type 1-J OS=Homo sapiens GN=HIST1H2AJ PE=1 SV=3

 Score =  224 bits (572), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 113/122 (92%), Positives = 118/122 (96%), Gaps = 1/122 (0%)

Query: 1   MSGRGK-GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 59
           MSGRGK GGKA+AK+KTRSSRAGLQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL 
Sbjct: 1   MSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLT 60

Query: 60  AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
           AE+LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL  VTIAQGGVLPNIQAVLLPKK
Sbjct: 61  AEILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPKK 120

Query: 120 TE 121
           TE
Sbjct: 121 TE 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.

Homo sapiens (taxid: 9606)

>sp|Q96KK5|H2A1H_HUMAN Histone H2A type 1-H OS=Homo sapiens GN=HIST1H2AH PE=1 SV=3

 Score =  224 bits (572), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 113/122 (92%), Positives = 118/122 (96%), Gaps = 1/122 (0%)

Query: 1   MSGRGK-GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 59
           MSGRGK GGKA+AK+KTRSSRAGLQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL 
Sbjct: 1   MSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLT 60

Query: 60  AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
           AE+LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL  VTIAQGGVLPNIQAVLLPKK
Sbjct: 61  AEILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPKK 120

Query: 120 TE 121
           TE
Sbjct: 121 TE 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.

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	124
346470069	124	hypothetical protein [Amblyomma maculatu	1.0	1.0	0.983	3e-62
156544915	136	PREDICTED: histone H2A type 1 [Nasonia v	0.975	0.889	0.991	4e-62
157137737	124	histone h2a [Aedes aegypti] gi|108880814	1.0	1.0	0.967	2e-61
122008	124	RecName: Full=Histone H2A gi|9820|emb|CA	0.983	0.983	0.983	4e-61
162319741	123	histone H2A [Penaeus monodon]	0.991	1.0	0.967	7e-61
340712625	135	PREDICTED: histone H2A-like [Bombus terr	0.967	0.888	0.983	2e-60
66506394	135	PREDICTED: histone H2A-like isoform 6 [A	0.967	0.888	0.983	2e-60
195371155	124	GM13182 [Drosophila sechellia] gi|194122	1.0	1.0	0.951	2e-60
195562366	124	GD12842 [Drosophila simulans] gi|1942026	1.0	1.0	0.951	3e-60
405975240	133	Histone H2A [Crassostrea gigas]	0.967	0.902	0.958	2e-59

>gi|346470069|gb|AEO34879.1| hypothetical protein [Amblyomma maculatum]

 Score =  241 bits (616), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 122/124 (98%), Positives = 123/124 (99%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
           MSGRGKGGKAK KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAV+EYLAA
Sbjct: 1   MSGRGKGGKAKGKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLAA 60

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT
Sbjct: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120

Query: 121 EKKA 124
           EKKA
Sbjct: 121 EKKA 124

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156544915|ref|XP_001600014.1| PREDICTED: histone H2A type 1 [Nasonia vitripennis]

 Score =  241 bits (615), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 120/121 (99%), Positives = 121/121 (100%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
           MSGRGKGGKAKAKSKTRS+RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA
Sbjct: 1   MSGRGKGGKAKAKSKTRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT
Sbjct: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120

Query: 121 E 121
           E
Sbjct: 121 E 121

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157137737|ref|XP_001657157.1| histone h2a [Aedes aegypti] gi|108880814|gb|EAT45039.1| AAEL003669-PA [Aedes aegypti]

 Score =  239 bits (610), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 120/124 (96%), Positives = 122/124 (98%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
           MSGRGKGGK +AK+KTRSSRAGLQFPVGR HRLLRKGNYAERVGAGAPVYLAAVMEYLAA
Sbjct: 1   MSGRGKGGKVRAKAKTRSSRAGLQFPVGRTHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT
Sbjct: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120

Query: 121 EKKA 124
           EKKA
Sbjct: 121 EKKA 124

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|122008|sp|P19178.2|H2A_PLADU RecName: Full=Histone H2A gi|9820|emb|CAA37416.1| unnamed protein product [Platynereis dumerilii]

 Score =  238 bits (607), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 120/122 (98%), Positives = 120/122 (98%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
           MSGRGKGGKAK KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA
Sbjct: 1   MSGRGKGGKAKGKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT
Sbjct: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120

Query: 121 EK 122
            K
Sbjct: 121 TK 122

Source: Platynereis dumerilii

Species: Platynereis dumerilii

Genus: Platynereis

Family: Nereididae

Order: Phyllodocida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|162319741|gb|ABX84387.1| histone H2A [Penaeus monodon]

 Score =  237 bits (604), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 119/123 (96%), Positives = 120/123 (97%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
           MSGRG GGK K KSK+RSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA
Sbjct: 1   MSGRGNGGKVKGKSKSRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT
Sbjct: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120

Query: 121 EKK 123
           EKK
Sbjct: 121 EKK 123

Source: Penaeus monodon

Species: Penaeus monodon

Genus: Penaeus

Family: Penaeidae

Order: Decapoda

Class: Malacostraca

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340712625|ref|XP_003394856.1| PREDICTED: histone H2A-like [Bombus terrestris] gi|350399678|ref|XP_003485606.1| PREDICTED: histone H2A-like [Bombus impatiens]

 Score =  235 bits (600), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 118/120 (98%), Positives = 119/120 (99%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
           MSGRGKGGKAK K+KTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA
Sbjct: 1   MSGRGKGGKAKGKAKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT
Sbjct: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|66506394|ref|XP_624700.1| PREDICTED: histone H2A-like isoform 6 [Apis mellifera] gi|328790010|ref|XP_003251357.1| PREDICTED: histone H2A-like isoform 1 [Apis mellifera] gi|328790012|ref|XP_003251358.1| PREDICTED: histone H2A-like isoform 2 [Apis mellifera] gi|328790014|ref|XP_003251359.1| PREDICTED: histone H2A-like isoform 3 [Apis mellifera] gi|328790016|ref|XP_003251360.1| PREDICTED: histone H2A-like isoform 4 [Apis mellifera] gi|328790018|ref|XP_003251361.1| PREDICTED: histone H2A-like isoform 5 [Apis mellifera] gi|380011741|ref|XP_003689955.1| PREDICTED: histone H2A-like [Apis florea]

 Score =  235 bits (600), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 118/120 (98%), Positives = 119/120 (99%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
           MSGRGKGGKAK K+KTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA
Sbjct: 1   MSGRGKGGKAKGKAKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT
Sbjct: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195371155|ref|XP_002045914.1| GM13182 [Drosophila sechellia] gi|194122083|gb|EDW44126.1| GM13182 [Drosophila sechellia]

 Score =  235 bits (600), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 118/124 (95%), Positives = 121/124 (97%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
           MSGRGK GK K K+K+RS+RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA
Sbjct: 1   MSGRGKSGKVKGKAKSRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT
Sbjct: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120

Query: 121 EKKA 124
           EKKA
Sbjct: 121 EKKA 124

Source: Drosophila sechellia

Species: Drosophila sechellia

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195562366|ref|XP_002077504.1| GD12842 [Drosophila simulans] gi|194202619|gb|EDX16195.1| GD12842 [Drosophila simulans]

 Score =  235 bits (599), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 118/124 (95%), Positives = 121/124 (97%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
           MSGRGK GK K K+K+RS+RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA
Sbjct: 1   MSGRGKDGKVKGKAKSRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT
Sbjct: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120

Query: 121 EKKA 124
           EKKA
Sbjct: 121 EKKA 124

Source: Drosophila simulans

Species: Drosophila simulans

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|405975240|gb|EKC39821.1| Histone H2A [Crassostrea gigas]

 Score =  233 bits (593), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 115/120 (95%), Positives = 119/120 (99%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
           MSGRGKGGK K+K+K+RSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAV+EYLAA
Sbjct: 1   MSGRGKGGKTKSKAKSRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVLEYLAA 60

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT
Sbjct: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120

Source: Crassostrea gigas

Species: Crassostrea gigas

Genus: Crassostrea

Family: Ostreidae

Order: Ostreoida

Class: Bivalvia

Phylum: Mollusca

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	124
FB|FBgn0051618	124	His2A:CG31618 "His2A:CG31618"	0.822	0.822	1.0	2.3e-48
FB|FBgn0053808	124	His2A:CG33808 "His2A:CG33808"	0.822	0.822	1.0	2.3e-48
FB|FBgn0053814	124	His2A:CG33814 "His2A:CG33814"	0.822	0.822	1.0	2.3e-48
FB|FBgn0053817	124	His2A:CG33817 "His2A:CG33817"	0.822	0.822	1.0	2.3e-48
FB|FBgn0053820	124	His2A:CG33820 "His2A:CG33820"	0.822	0.822	1.0	2.3e-48
FB|FBgn0053823	124	His2A:CG33823 "His2A:CG33823"	0.822	0.822	1.0	2.3e-48
FB|FBgn0053826	124	His2A:CG33826 "His2A:CG33826"	0.822	0.822	1.0	2.3e-48
FB|FBgn0053829	124	His2A:CG33829 "His2A:CG33829"	0.822	0.822	1.0	2.3e-48
FB|FBgn0053832	124	His2A:CG33832 "His2A:CG33832"	0.822	0.822	1.0	2.3e-48
FB|FBgn0053835	124	His2A:CG33835 "His2A:CG33835"	0.822	0.822	1.0	2.3e-48

FB|FBgn0051618 His2A:CG31618 "His2A:CG31618" [Drosophila melanogaster (taxid:7227)]

 Score = 505 (182.8 bits), Expect = 2.3e-48, P = 2.3e-48
 Identities = 102/102 (100%), Positives = 102/102 (100%)

Query:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
             LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH
Sbjct:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82

Query:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124
             LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA
Sbjct:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124

GO:0000786 "nucleosome" evidence=ISS

GO:0006334 "nucleosome assembly" evidence=ISS

GO:0003677 "DNA binding" evidence=ISS

GO:0006333 "chromatin assembly or disassembly" evidence=ISS

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005811 "lipid particle" evidence=IDA

GO:0051298 "centrosome duplication" evidence=IMP

FB|FBgn0053808 His2A:CG33808 "His2A:CG33808" [Drosophila melanogaster (taxid:7227)]

 Score = 505 (182.8 bits), Expect = 2.3e-48, P = 2.3e-48
 Identities = 102/102 (100%), Positives = 102/102 (100%)

Query:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
             LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH
Sbjct:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82

Query:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124
             LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA
Sbjct:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006333 "chromatin assembly or disassembly" evidence=ISS

GO:0003677 "DNA binding" evidence=ISS

GO:0000786 "nucleosome" evidence=ISS

FB|FBgn0053814 His2A:CG33814 "His2A:CG33814" [Drosophila melanogaster (taxid:7227)]

 Score = 505 (182.8 bits), Expect = 2.3e-48, P = 2.3e-48
 Identities = 102/102 (100%), Positives = 102/102 (100%)

Query:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
             LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH
Sbjct:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82

Query:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124
             LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA
Sbjct:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0003677 "DNA binding" evidence=ISS

GO:0000786 "nucleosome" evidence=ISS

GO:0006333 "chromatin assembly or disassembly" evidence=ISS

FB|FBgn0053817 His2A:CG33817 "His2A:CG33817" [Drosophila melanogaster (taxid:7227)]

 Score = 505 (182.8 bits), Expect = 2.3e-48, P = 2.3e-48
 Identities = 102/102 (100%), Positives = 102/102 (100%)

Query:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
             LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH
Sbjct:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82

Query:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124
             LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA
Sbjct:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000786 "nucleosome" evidence=ISS

GO:0003677 "DNA binding" evidence=ISS

GO:0006333 "chromatin assembly or disassembly" evidence=ISS

FB|FBgn0053820 His2A:CG33820 "His2A:CG33820" [Drosophila melanogaster (taxid:7227)]

 Score = 505 (182.8 bits), Expect = 2.3e-48, P = 2.3e-48
 Identities = 102/102 (100%), Positives = 102/102 (100%)

Query:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
             LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH
Sbjct:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82

Query:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124
             LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA
Sbjct:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003677 "DNA binding" evidence=ISS

GO:0006333 "chromatin assembly or disassembly" evidence=ISS

GO:0000786 "nucleosome" evidence=ISS

FB|FBgn0053823 His2A:CG33823 "His2A:CG33823" [Drosophila melanogaster (taxid:7227)]

 Score = 505 (182.8 bits), Expect = 2.3e-48, P = 2.3e-48
 Identities = 102/102 (100%), Positives = 102/102 (100%)

Query:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
             LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH
Sbjct:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82

Query:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124
             LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA
Sbjct:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006333 "chromatin assembly or disassembly" evidence=ISS

GO:0003677 "DNA binding" evidence=ISS

GO:0000786 "nucleosome" evidence=ISS

FB|FBgn0053826 His2A:CG33826 "His2A:CG33826" [Drosophila melanogaster (taxid:7227)]

 Score = 505 (182.8 bits), Expect = 2.3e-48, P = 2.3e-48
 Identities = 102/102 (100%), Positives = 102/102 (100%)

Query:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
             LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH
Sbjct:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82

Query:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124
             LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA
Sbjct:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003677 "DNA binding" evidence=ISS

GO:0000786 "nucleosome" evidence=ISS

GO:0006333 "chromatin assembly or disassembly" evidence=ISS

FB|FBgn0053829 His2A:CG33829 "His2A:CG33829" [Drosophila melanogaster (taxid:7227)]

 Score = 505 (182.8 bits), Expect = 2.3e-48, P = 2.3e-48
 Identities = 102/102 (100%), Positives = 102/102 (100%)

Query:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
             LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH
Sbjct:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82

Query:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124
             LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA
Sbjct:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003677 "DNA binding" evidence=ISS

GO:0000786 "nucleosome" evidence=ISS

GO:0006333 "chromatin assembly or disassembly" evidence=ISS

FB|FBgn0053832 His2A:CG33832 "His2A:CG33832" [Drosophila melanogaster (taxid:7227)]

 Score = 505 (182.8 bits), Expect = 2.3e-48, P = 2.3e-48
 Identities = 102/102 (100%), Positives = 102/102 (100%)

Query:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
             LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH
Sbjct:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82

Query:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124
             LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA
Sbjct:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124

GO:0005634 "nucleus" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0000786 "nucleosome" evidence=ISS

GO:0003677 "DNA binding" evidence=ISS

GO:0006333 "chromatin assembly or disassembly" evidence=ISS

FB|FBgn0053835 His2A:CG33835 "His2A:CG33835" [Drosophila melanogaster (taxid:7227)]

 Score = 505 (182.8 bits), Expect = 2.3e-48, P = 2.3e-48
 Identities = 102/102 (100%), Positives = 102/102 (100%)

Query:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
             LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH
Sbjct:    23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82

Query:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124
             LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA
Sbjct:    83 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124

GO:0005634 "nucleus" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0000786 "nucleosome" evidence=ISS

GO:0006333 "chromatin assembly or disassembly" evidence=ISS

GO:0003677 "DNA binding" evidence=ISS

---

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)
Q8R1M2	H2AJ_MOUSE	No assigned EC number	0.8951	0.9919	0.9534	yes	N/A
Q96KK5	H2A1H_HUMAN	No assigned EC number	0.9262	0.9758	0.9453	yes	N/A
Q93077	H2A1C_HUMAN	No assigned EC number	0.9180	0.9758	0.9307	no	N/A
Q3ZBX9	H2AJ_BOVIN	No assigned EC number	0.8951	0.9919	0.9534	yes	N/A
Q00728	H2A4_RAT	No assigned EC number	0.8770	0.9758	0.9307	no	N/A
Q4R3X5	H2AJ_MACFA	No assigned EC number	0.8951	0.9919	0.9534	N/A	N/A
Q64522	H2A2B_MOUSE	No assigned EC number	0.9098	0.9758	0.9307	yes	N/A
Q64523	H2A2C_MOUSE	No assigned EC number	0.9098	0.9758	0.9379	yes	N/A
P69142	H2AE_PSAMI	No assigned EC number	0.8548	1.0	1.0	N/A	N/A
P20671	H2A1D_HUMAN	No assigned EC number	0.9180	0.9758	0.9307	no	N/A
P16886	H2AL_STRPU	No assigned EC number	0.9024	0.9838	0.9682	yes	N/A
P35061	H2A_ACRFO	No assigned EC number	0.8943	0.9919	0.984	N/A	N/A
P35062	H2A3_CHICK	No assigned EC number	0.9016	0.9758	0.9379	yes	N/A
P70082	H2AJ_CHICK	No assigned EC number	0.9016	0.9758	0.9379	yes	N/A
P22752	H2A1_MOUSE	No assigned EC number	0.9180	0.9758	0.9307	no	N/A
P0C169	H2A1C_RAT	No assigned EC number	0.9180	0.9758	0.9307	no	N/A
Q8CGP7	H2A1K_MOUSE	No assigned EC number	0.9180	0.9758	0.9307	no	N/A
Q8CGP6	H2A1H_MOUSE	No assigned EC number	0.9180	0.9758	0.9453	no	N/A
Q8CGP5	H2A1F_MOUSE	No assigned EC number	0.9180	0.9758	0.9307	no	N/A
Q4FZT6	H2A3_RAT	No assigned EC number	0.9098	0.9758	0.9307	no	N/A
A1A4R1	H2A2C_BOVIN	No assigned EC number	0.9098	0.9758	0.9379	yes	N/A
P0CC09	H2A2A_RAT	No assigned EC number	0.9098	0.9758	0.9307	no	N/A
Q8IUE6	H2A2B_HUMAN	No assigned EC number	0.9180	0.9758	0.9307	yes	N/A
Q96QV6	H2A1A_HUMAN	No assigned EC number	0.9262	0.9758	0.9236	yes	N/A
Q8BFU2	H2A3_MOUSE	No assigned EC number	0.9098	0.9758	0.9307	no	N/A
P13630	H2A_PARLI	No assigned EC number	0.8467	1.0	1.0	N/A	N/A
P19178	H2A_PLADU	No assigned EC number	0.9836	0.9838	0.9838	N/A	N/A
Q64598	H2A1F_RAT	No assigned EC number	0.9098	0.9758	0.9307	no	N/A
Q16777	H2A2C_HUMAN	No assigned EC number	0.9098	0.9758	0.9379	no	N/A
Q7L7L0	H2A3_HUMAN	No assigned EC number	0.9098	0.9758	0.9307	no	N/A
Q99878	H2A1J_HUMAN	No assigned EC number	0.9262	0.9758	0.9453	yes	N/A
Q9BTM1	H2AJ_HUMAN	No assigned EC number	0.8951	0.9919	0.9534	no	N/A
P06897	H2A1_XENLA	No assigned EC number	0.9098	0.9758	0.9307	N/A	N/A
P0C0S8	H2A1_HUMAN	No assigned EC number	0.9262	0.9758	0.9307	no	N/A
P0C0S9	H2A1_BOVIN	No assigned EC number	0.9262	0.9758	0.9307	no	N/A
A9UMV8	H2AJ_RAT	No assigned EC number	0.8951	0.9919	0.9534	no	N/A
P69141	H2A_STRPU	No assigned EC number	0.8548	1.0	1.0	no	N/A
P16104	H2AX_HUMAN	No assigned EC number	0.9098	0.9758	0.8461	no	N/A
Q6FI13	H2A2A_HUMAN	No assigned EC number	0.9098	0.9758	0.9307	no	N/A
Q7ZUY3	H2AX_DANRE	No assigned EC number	0.9256	0.9677	0.8450	no	N/A
P04908	H2A1B_HUMAN	No assigned EC number	0.9180	0.9758	0.9307	no	N/A
Q6GM86	H2AX_XENLA	No assigned EC number	0.8688	0.9758	0.8705	N/A	N/A
Q6GSS7	H2A2A_MOUSE	No assigned EC number	0.9098	0.9758	0.9307	yes	N/A
P27661	H2AX_MOUSE	No assigned EC number	0.9016	0.9758	0.8461	no	N/A
P0C170	H2A1E_RAT	No assigned EC number	0.9262	0.9758	0.9307	no	N/A
P02269	H2A_ASTRU	No assigned EC number	0.9274	1.0	0.992	N/A	N/A
P02262	H2A1_RAT	No assigned EC number	0.9180	0.9758	0.9307	no	N/A
P02263	H2A4_CHICK	No assigned EC number	0.9098	0.9758	0.9379	yes	N/A
P02264	H2A_ONCMY	No assigned EC number	0.9268	0.9838	0.9531	N/A	N/A
P13912	H2A_CAIMO	No assigned EC number	0.9098	0.9758	0.9379	N/A	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	124
PTZ00017	134	PTZ00017, PTZ00017, histone H2A; Provisional	5e-68
cd00074	115	cd00074, H2A, Histone 2A; H2A is a subunit of the	2e-65
PLN00157	132	PLN00157, PLN00157, histone H2A; Provisional	2e-65
smart00414	106	smart00414, H2A, Histone 2A	2e-64
PLN00156	139	PLN00156, PLN00156, histone H2AX; Provisional	4e-57
COG5262	132	COG5262, HTA1, Histone H2A [Chromatin structure an	1e-53
PLN00153	129	PLN00153, PLN00153, histone H2A; Provisional	4e-52
PLN00154	136	PLN00154, PLN00154, histone H2A; Provisional	3e-39
PTZ00252	134	PTZ00252, PTZ00252, histone H2A; Provisional	3e-28
pfam00125	75	pfam00125, Histone, Core histone H2A/H2B/H3/H4	3e-24
PLN00155	58	PLN00155, PLN00155, histone H2A; Provisional	5e-18
COG5247	113	COG5247, BUR6, Class 2 transcription repressor NC2	1e-05
pfam00808	65	pfam00808, CBFD_NFYB_HMF, Histone-like transcripti	0.003

>gnl|CDD|185399 PTZ00017, PTZ00017, histone H2A; Provisional

 Score =  200 bits (511), Expect = 5e-68
 Identities = 94/127 (74%), Positives = 107/127 (84%), Gaps = 3/127 (2%)

Query: 1   MSGRGKGGKAKAKSK---TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEY 57
             G+GK G  KA  K   +RS++AGLQFPVGR+HR L+KG YA+RVGAGAPVYLAAV+EY
Sbjct: 1   KGGKGKTGGGKAGKKKPVSRSAKAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEY 60

Query: 58  LAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLP 117
           L AEVLELAGNAA+DNKK RI PRH+QLAIRNDEELNKLL+GVTIA GGVLPNI  VLLP
Sbjct: 61  LTAEVLELAGNAAKDNKKKRITPRHIQLAIRNDEELNKLLAGVTIASGGVLPNIHKVLLP 120

Query: 118 KKTEKKA 124
           KK++ K 
Sbjct: 121 KKSKPKQ 127

Length = 134

>gnl|CDD|238029 cd00074, H2A, Histone 2A; H2A is a subunit of the nucleosome

 Score =  193 bits (492), Expect = 2e-65
 Identities = 95/113 (84%), Positives = 102/113 (90%)

Query: 7   GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELA 66
           GGK K+K ++RS+RAGLQFPVGRIHR L+KG YAERVGAGAPVYLAAV+EYL AEVLELA
Sbjct: 3   GGKKKSKKRSRSARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELA 62

Query: 67  GNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
           GNAARDNKK RI PRHLQLA+RNDEELNKLL GVTIA GGVLPNI  VLLPKK
Sbjct: 63  GNAARDNKKKRITPRHLQLAVRNDEELNKLLKGVTIASGGVLPNIHKVLLPKK 115

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. Length = 115

>gnl|CDD|177758 PLN00157, PLN00157, histone H2A; Provisional

 Score =  193 bits (493), Expect = 2e-65
 Identities = 95/126 (75%), Positives = 108/126 (85%), Gaps = 2/126 (1%)

Query: 1   MSGRGK--GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYL 58
           MSGRGK  GG    K+ +RS++AGLQFPVGRI R L+ G YA RVGAGAPVYLAAV+EYL
Sbjct: 1   MSGRGKRKGGGGGKKATSRSAKAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYL 60

Query: 59  AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPK 118
           AAEVLELAGNAARDNKK+RI+PRH+QLA+RNDEEL+KLL GVTIA GGVLPNI +VLLPK
Sbjct: 61  AAEVLELAGNAARDNKKSRIVPRHIQLAVRNDEELSKLLGGVTIAAGGVLPNIHSVLLPK 120

Query: 119 KTEKKA 124
           K+ K  
Sbjct: 121 KSGKSK 126

Length = 132

>gnl|CDD|197711 smart00414, H2A, Histone 2A

 Score =  190 bits (485), Expect = 2e-64
 Identities = 94/106 (88%), Positives = 98/106 (92%)

Query: 16  TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK 75
           +RS+RAGLQFPVGRIHRLLRKG YA+RVGAGAPVYLAAV+EYL AEVLELAGNAARDNKK
Sbjct: 1   SRSARAGLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKK 60

Query: 76  TRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 121
            RI PRHLQLAIRNDEELNKLL GVTIAQGGVLPNI  VLLPKKT 
Sbjct: 61  RRITPRHLQLAIRNDEELNKLLKGVTIAQGGVLPNIHKVLLPKKTG 106

Length = 106

>gnl|CDD|215080 PLN00156, PLN00156, histone H2AX; Provisional

 Score =  173 bits (439), Expect = 4e-57
 Identities = 92/123 (74%), Positives = 103/123 (83%), Gaps = 1/123 (0%)

Query: 1   MSGRGKGGKAKA-KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 59
            + +G  GK KA KS +RSS+AGLQFPVGRI R L+ G YAERVGAGAPVYL+AV+EYLA
Sbjct: 5   GTTKGGRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLA 64

Query: 60  AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
           AEVLELAGNAARDNKK RI+PRH+QLA+RNDEEL+KLL  VTIA GGVLPNI   LLPKK
Sbjct: 65  AEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLGSVTIAAGGVLPNIHQTLLPKK 124

Query: 120 TEK 122
             K
Sbjct: 125 VGK 127

Length = 139

>gnl|CDD|227587 COG5262, HTA1, Histone H2A [Chromatin structure and dynamics]

 Score =  164 bits (416), Expect = 1e-53
 Identities = 93/124 (75%), Positives = 105/124 (84%), Gaps = 2/124 (1%)

Query: 3   GRGKGGKAKA--KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
             GKGGKA     S++RS++AGL FPVGR+ RLL+KGNY  R+GAGAPVYLAAV+EYLAA
Sbjct: 3   SGGKGGKAADARVSQSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAA 62

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           E+LELAGNAARDNKK RIIPRHLQLAIRNDEELNKLL  VTIAQGGVLPNI   LLPK +
Sbjct: 63  EILELAGNAARDNKKKRIIPRHLQLAIRNDEELNKLLGDVTIAQGGVLPNINPGLLPKSS 122

Query: 121 EKKA 124
           +K +
Sbjct: 123 KKGS 126

Length = 132

>gnl|CDD|165721 PLN00153, PLN00153, histone H2A; Provisional

 Score =  160 bits (405), Expect = 4e-52
 Identities = 94/121 (77%), Positives = 106/121 (87%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
           M+GRGKG  +  K+ +RS++AGLQFPVGRI R L+KG YAER+GAGAPVYLAAV+EYL A
Sbjct: 1   MAGRGKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTA 60

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           EVLELAGNAARDNKK RI+PRH+QLAIRNDEEL KLL  VTIA GGVLPNI AVLLPKKT
Sbjct: 61  EVLELAGNAARDNKKNRIVPRHIQLAIRNDEELGKLLGEVTIASGGVLPNIHAVLLPKKT 120

Query: 121 E 121
           +
Sbjct: 121 K 121

Length = 129

>gnl|CDD|177756 PLN00154, PLN00154, histone H2A; Provisional

 Score =  127 bits (321), Expect = 3e-39
 Identities = 75/123 (60%), Positives = 89/123 (72%), Gaps = 2/123 (1%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVMEYLA 59
            +   K  K K K  +RSSRAGLQFPVGRIHR L++   A  RVGA A VY AA++EYL 
Sbjct: 15  TAAAAKKDKDKKKPTSRSSRAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLT 74

Query: 60  AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
           AEVLELAGNA++D K  RI PRHLQLAIR DEEL+ L+ G TIA GGV+P+I   L+ K 
Sbjct: 75  AEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKG-TIAGGGVIPHIHKSLINKS 133

Query: 120 TEK 122
           T+K
Sbjct: 134 TKK 136

Length = 136

>gnl|CDD|240330 PTZ00252, PTZ00252, histone H2A; Provisional

 Score =  100 bits (249), Expect = 3e-28
 Identities = 59/119 (49%), Positives = 81/119 (68%), Gaps = 3/119 (2%)

Query: 9   KAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGN 68
           KA      RS++AGL FPVGR+  LLR+G YA R+GA   VY+AAV+EYL AE+LEL+  
Sbjct: 10  KASKSGSGRSAKAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVK 69

Query: 69  AARDN--KKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPK-KTEKKA 124
           AA     K  R+ PR + LA+R+D++L  LL  VT+++GGV+P++   L  K K+ KKA
Sbjct: 70  AAAQQAKKPKRLTPRTVTLAVRHDDDLGSLLKNVTLSRGGVMPSLNKALAKKHKSGKKA 128

Length = 134

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

 Score = 87.6 bits (218), Expect = 3e-24
 Identities = 33/75 (44%), Positives = 44/75 (58%), Gaps = 1/75 (1%)

Query: 17 RSSRAGLQFPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK 75
           S    L+ P  R+ R L++G YAE R+ + APV L   +E L  E+LE AG  AR  K+
Sbjct: 1  SSRLLILKLPFSRVVRELKEGFYAELRISSKAPVALQEALEDLLEEILEDAGLLARHAKR 60

Query: 76 TRIIPRHLQLAIRND 90
            I PR +QLA+R D
Sbjct: 61 KTITPRDIQLAVRLD 75

Length = 75

>gnl|CDD|165723 PLN00155, PLN00155, histone H2A; Provisional

 Score = 71.7 bits (175), Expect = 5e-18
 Identities = 41/58 (70%), Positives = 50/58 (86%)

Query: 1  MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYL 58
          M+GRGKG  +  K+ +RS++AGLQFPVGRI R L+KG YAER+GAGAPVYLAAV+EYL
Sbjct: 1  MAGRGKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYL 58

Length = 58

>gnl|CDD|227572 COG5247, BUR6, Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]

 Score = 41.1 bits (96), Expect = 1e-05
 Identities = 18/82 (21%), Positives = 37/82 (45%)

Query: 24  QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHL 83
           +FP+ R+ ++++      +VG   PV  +  +E    E++ L+   AR     R+    L
Sbjct: 23  RFPIARLKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFL 82

Query: 84  QLAIRNDEELNKLLSGVTIAQG 105
           + A  +DE+ + L +       
Sbjct: 83  KRATESDEKFDFLKNMEQFKNR 104

Length = 113

>gnl|CDD|201453 pfam00808, CBFD_NFYB_HMF, Histone-like transcription factor (CBF/NF-Y) and archaeal histone

 Score = 33.7 bits (78), Expect = 0.003
 Identities = 14/63 (22%), Positives = 28/63 (44%)

Query: 25 FPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQ 84
           P+ R+ R+++    A R+   A   +A  +E     +   A    +  K+  I   H++
Sbjct: 3  LPIARVKRIMKSDPDAGRISQDAKELIAECVEEFIEFIASEAAEICKKEKRKTINAEHIK 62

Query: 85 LAI 87
          LA+
Sbjct: 63 LAV 65

This family includes archaebacterial histones and histone like transcription factors from eukaryotes. Length = 65

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	124
PLN00153	129	histone H2A; Provisional	100.0
PLN00157	132	histone H2A; Provisional	100.0
PTZ00017	134	histone H2A; Provisional	100.0
PLN00156	139	histone H2AX; Provisional	100.0
PTZ00252	134	histone H2A; Provisional	100.0
PLN00154	136	histone H2A; Provisional	100.0
cd00074	115	H2A Histone 2A; H2A is a subunit of the nucleosome	100.0
KOG1756|consensus	131		100.0
smart00414	106	H2A Histone 2A.	100.0
COG5262	132	HTA1 Histone H2A [Chromatin structure and dynamics	100.0
KOG1757|consensus	131		100.0
PLN00155	58	histone H2A; Provisional	99.89
PF00125	75	Histone: Core histone H2A/H2B/H3/H4 histone h2a si	99.59
PLN00035	103	histone H4; Provisional	99.59
COG5247	113	BUR6 Class 2 transcription repressor NC2, alpha su	99.54
PTZ00015	102	histone H4; Provisional	99.47
KOG1659|consensus	224		99.32
PF00808	65	CBFD_NFYB_HMF: Histone-like transcription factor (	99.27
cd00076	85	H4 Histone H4, one of the four histones, along wit	99.24
smart00417	74	H4 Histone H4.	99.21
COG2036	91	HHT1 Histones H3 and H4 [Chromatin structure and d	99.21
smart00803	65	TAF TATA box binding protein associated factor. TA	99.18
COG5208	286	HAP5 CCAAT-binding factor, subunit C [Transcriptio	98.79
KOG3467|consensus	103		98.76
KOG1657|consensus	236		98.63
cd07979	117	TAF9 TATA Binding Protein (TBP) Associated Factor	98.37
cd07981	72	TAF12 TATA Binding Protein (TBP) Associated Factor	98.36
smart00576	77	BTP Bromodomain transcription factors and PHD doma	98.08
PF02969	66	TAF: TATA box binding protein associated factor (T	97.85
cd08050	343	TAF6 TATA Binding Protein (TBP) Associated Factor	97.78
smart00428	105	H3 Histone H3.	97.75
cd08048	85	TAF11 TATA Binding Protein (TBP) Associated Factor	97.41
KOG0869|consensus	168		97.35
smart00427	89	H2B Histone H2B.	97.25
PF15511	414	CENP-T: Centromere kinetochore component CENP-T; P	97.23
PLN00158	116	histone H2B; Provisional	97.16
PTZ00463	117	histone H2B; Provisional	97.02
KOG3219|consensus	195		96.83
PF15630	76	CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C	96.81
KOG0871|consensus	156		96.78
PF04719	90	TAFII28: hTAFII28-like protein conserved region; I	96.74
PLN00163	59	histone H4; Provisional	96.68
PF07524	77	Bromo_TP: Bromodomain associated; InterPro: IPR006	96.57
PF02291	129	TFIID-31kDa: Transcription initiation factor IID,	96.49
PF03847	68	TFIID_20kDa: Transcription initiation factor TFIID	96.4
PLN00161	135	histone H3; Provisional	96.3
PLN00160	97	histone H3; Provisional	96.21
KOG1658|consensus	162		96.13
PTZ00018	136	histone H3; Provisional	96.08
PF09415	72	CENP-X: CENP-S associating Centromere protein X; I	96.03
PLN00121	136	histone H3; Provisional	95.87
KOG1744|consensus	127		95.31
KOG0870|consensus	172		95.17
KOG1745|consensus	137		93.95
PF02269	93	TFIID-18kDa: Transcription initiation factor IID,	93.94
KOG1142|consensus	258		93.86
cd07978	92	TAF13 The TATA Binding Protein (TBP) Associated Fa	93.7
KOG3334|consensus	148		92.84
COG5094	145	TAF9 Transcription initiation factor TFIID, subuni	87.89
PF15510	102	CENP-W: Centromere kinetochore component W	86.3
COG5150	148	Class 2 transcription repressor NC2, beta subunit	85.29

>PLN00153 histone H2A; Provisional

Probab=100.00  E-value=2e-51  Score=292.22  Aligned_cols=123  Identities=76%  Similarity=1.151  Sum_probs=118.0

Q ss_pred             CCCCCCCCCCCCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceech
Q psy17762          1 MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIP   80 (124)
Q Consensus         1 m~~~gk~~~~~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p   80 (124)
                      |+|+||+++.+++..|+|+||||+|||+||+|+|+++.|+.||+++|+|||+||||||++||||+|+|.|.++++++|+|
T Consensus         1 m~g~~~~~~~~~k~~srS~ragL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItP   80 (129)
T PLN00153          1 MAGRGKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVP   80 (129)
T ss_pred             CCCCCCCCccccCccCcccccCcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCh
Confidence            99999876666788999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHhhhCchHHhhhhcCceeccCccCCCccccccCcccccC
Q psy17762         81 RHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKK  123 (124)
Q Consensus        81 ~~i~~AI~~d~eL~~L~~~~~i~~gg~~p~~~~~~~~~k~~~~  123 (124)
                      +||++||+||+||+.||+++||++|||+|+||++|++||++++
T Consensus        81 rHi~lAI~nDeEL~~Ll~~vTIa~GGV~P~i~~~l~~kk~~~~  123 (129)
T PLN00153         81 RHIQLAIRNDEELGKLLGEVTIASGGVLPNIHAVLLPKKTKGG  123 (129)
T ss_pred             HHHHhhccCcHHHHHHHCCCccCCCccCCCcchhhcCcccCCC
Confidence            9999999999999999999999999999999999999987654

>PLN00157 histone H2A; Provisional

Probab=100.00  E-value=9.7e-51  Score=289.68  Aligned_cols=123  Identities=77%  Similarity=1.185  Sum_probs=117.6

Q ss_pred             CCCCCC--CCCCCCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCcee
Q psy17762          1 MSGRGK--GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRI   78 (124)
Q Consensus         1 m~~~gk--~~~~~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I   78 (124)
                      |+|+|+  +++.+++..|+|+||||+|||+||+|+|+++.|+.||+++|+|||+||||||++||||+|+|.|.++++++|
T Consensus         1 ms~~g~~~~~~~~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RI   80 (132)
T PLN00157          1 MSGRGKRKGGGGGKKATSRSAKAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRI   80 (132)
T ss_pred             CCCCCCCCCCccCcCCcCcccccCcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccc
Confidence            899988  556677889999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhhHHHhhhCchHHhhhhcCceeccCccCCCccccccCcccccC
Q psy17762         79 IPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKK  123 (124)
Q Consensus        79 ~p~~i~~AI~~d~eL~~L~~~~~i~~gg~~p~~~~~~~~~k~~~~  123 (124)
                      +|+||++||+||+||+.||+++||++|||+|+||++|++||..++
T Consensus        81 tPrHi~lAI~nDeEL~~Ll~~vtIa~GGV~P~i~~~ll~kk~~~~  125 (132)
T PLN00157         81 VPRHIQLAVRNDEELSKLLGGVTIAAGGVLPNIHSVLLPKKSGKS  125 (132)
T ss_pred             cHHHHhhcccCcHHHHHHHcCceecCCccCCCcchhhcCCCCCCC
Confidence            999999999999999999999999999999999999999998654

>PTZ00017 histone H2A; Provisional

Probab=100.00  E-value=3.5e-49  Score=282.46  Aligned_cols=123  Identities=76%  Similarity=1.157  Sum_probs=114.8

Q ss_pred             CCCCCCCC-CC--CCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCce
Q psy17762          1 MSGRGKGG-KA--KAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTR   77 (124)
Q Consensus         1 m~~~gk~~-~~--~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~   77 (124)
                      |+|+|+.+ +.  +++..|+|+||||+|||+||+|||+++.|+.||+++|+|||+||||||++||||+|+|.|+++++++
T Consensus         1 ~~~~~~~~~~~~~~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~R   80 (134)
T PTZ00017          1 KGGKGKTGGGKAGKKKPVSRSAKAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKR   80 (134)
T ss_pred             CCCCCcCCCCcccCcCcccccccCCcccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCe
Confidence            57776632 22  5667999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             echhhHHHhhhCchHHhhhhcCceeccCccCCCccccccCcccccC
Q psy17762         78 IIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKK  123 (124)
Q Consensus        78 I~p~~i~~AI~~d~eL~~L~~~~~i~~gg~~p~~~~~~~~~k~~~~  123 (124)
                      |+|+||++||+||+||+.||+++||++|||+|+||++|+++|.++|
T Consensus        81 ItPrHi~lAI~nDeEL~~Ll~~vtIa~GGV~P~i~~~l~~k~~~~~  126 (134)
T PTZ00017         81 ITPRHIQLAIRNDEELNKLLAGVTIASGGVLPNIHKVLLPKKSKPK  126 (134)
T ss_pred             ecHHHHHhhccCcHHHHHHHcCCcccCCccCCCccHhhccCCCCcc
Confidence            9999999999999999999999999999999999999999988765

>PLN00156 histone H2AX; Provisional

Probab=100.00  E-value=5.9e-49  Score=282.19  Aligned_cols=118  Identities=75%  Similarity=1.141  Sum_probs=112.8

Q ss_pred             CCCCCCCCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHH
Q psy17762          5 GKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQ   84 (124)
Q Consensus         5 gk~~~~~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~   84 (124)
                      |++++.+++..|+|+||||+|||+||+|+|++++|+.||+++|||||+||||||++||||+|+|.|.++++++|+|+||+
T Consensus        10 ~~g~~~~~k~~srS~rAgL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~   89 (139)
T PLN00156         10 GRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQ   89 (139)
T ss_pred             CCCcccccCCcCcccccCcccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHH
Confidence            44556677899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhCchHHhhhhcCceeccCccCCCccccccCccccc
Q psy17762         85 LAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEK  122 (124)
Q Consensus        85 ~AI~~d~eL~~L~~~~~i~~gg~~p~~~~~~~~~k~~~  122 (124)
                      +||+||+||+.||+++||++|||+|+||++|++||+++
T Consensus        90 lAIrnDeEL~~Ll~~vTIa~GGV~P~i~~~l~~kk~~~  127 (139)
T PLN00156         90 LAVRNDEELSKLLGSVTIAAGGVLPNIHQTLLPKKVGK  127 (139)
T ss_pred             hhccCcHHHHHHHCCCccCCCccCCCccHhhccccccc
Confidence            99999999999999999999999999999999998854

>PTZ00252 histone H2A; Provisional

Probab=100.00  E-value=1.3e-47  Score=273.30  Aligned_cols=111  Identities=51%  Similarity=0.878  Sum_probs=103.6

Q ss_pred             CccCC-CCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHh--CCCceechhhHHHhhh
Q psy17762         12 AKSKT-RSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARD--NKKTRIIPRHLQLAIR   88 (124)
Q Consensus        12 ~~~~s-~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~--~~~k~I~p~~i~~AI~   88 (124)
                      ++..+ +|+||||+|||+||+|+|++++|+.||+++|+|||+||||||++||||+|+|.|.+  +++++|+|+||++||+
T Consensus        12 ~~~~~~rS~rAGL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIr   91 (134)
T PTZ00252         12 SKSGSGRSAKAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVR   91 (134)
T ss_pred             cccccccccccCccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhcc
Confidence            34454 99999999999999999999999999999999999999999999999999999965  6778999999999999


Q ss_pred             CchHHhhhhcCceeccCccCCCccccccCc-cccc
Q psy17762         89 NDEELNKLLSGVTIAQGGVLPNIQAVLLPK-KTEK  122 (124)
Q Consensus        89 ~d~eL~~L~~~~~i~~gg~~p~~~~~~~~~-k~~~  122 (124)
                      ||+|||.||+++||++|||+|+||++|++| ++.+
T Consensus        92 NDeEL~~Ll~~vTIa~GGVlP~i~~~l~~k~~~~~  126 (134)
T PTZ00252         92 HDDDLGSLLKNVTLSRGGVMPSLNKALAKKHKSGK  126 (134)
T ss_pred             ChHHHHHHHcCCccCCCccCCCccHhhccccccCC
Confidence            999999999999999999999999999999 4443

>PLN00154 histone H2A; Provisional

Probab=100.00  E-value=1.6e-46  Score=268.60  Aligned_cols=111  Identities=64%  Similarity=0.919  Sum_probs=106.3

Q ss_pred             CCccCCCCcccccccchhhhhHHHhcCC-cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhC
Q psy17762         11 KAKSKTRSSRAGLQFPVGRIHRLLRKGN-YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   89 (124)
Q Consensus        11 ~~~~~s~s~ragl~fPv~ri~R~lk~~~-~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~   89 (124)
                      +++..|+|+||||+|||+||+|+|+++. +.+||+.+|+|||+||||||++||||+|+|+|+++++++|+|+||++||+|
T Consensus        25 ~~k~~srS~rAgL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrn  104 (136)
T PLN00154         25 KKKPTSRSSRAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG  104 (136)
T ss_pred             CcCCcCcccccCccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccC
Confidence            5678999999999999999999999987 578999999999999999999999999999999999999999999999999


Q ss_pred             chHHhhhhcCceeccCccCCCccccccCccccc
Q psy17762         90 DEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEK  122 (124)
Q Consensus        90 d~eL~~L~~~~~i~~gg~~p~~~~~~~~~k~~~  122 (124)
                      |+||++||+ +||++|||+|+||++|++||++|
T Consensus       105 DeEL~~Ll~-~TIa~GGVlP~i~~~l~~k~~~~  136 (136)
T PLN00154        105 DEELDTLIK-GTIAGGGVIPHIHKSLINKSTKK  136 (136)
T ss_pred             cHHHHHHhc-CCccCCccCCCcchhhcccccCC
Confidence            999999997 69999999999999999998765

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

Probab=100.00  E-value=2.5e-46  Score=262.75  Aligned_cols=112  Identities=84%  Similarity=1.254  Sum_probs=108.2

Q ss_pred             CCCCCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhh
Q psy17762          8 GKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAI   87 (124)
Q Consensus         8 ~~~~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI   87 (124)
                      ||.+++..|+|+|+||+|||+||+|||+++.+++|||++|+|||+|+||||++||+|+|+|.|+++++++|+|+||++||
T Consensus         4 ~k~~~~~~s~s~ragL~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi   83 (115)
T cd00074           4 GKKKSKKRSRSARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAV   83 (115)
T ss_pred             CccCcCccccccccCccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHH
Confidence            36677889999999999999999999999889999999999999999999999999999999999999999999999999


Q ss_pred             hCchHHhhhhcCceeccCccCCCccccccCcc
Q psy17762         88 RNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK  119 (124)
Q Consensus        88 ~~d~eL~~L~~~~~i~~gg~~p~~~~~~~~~k  119 (124)
                      +||+|||+||+++||++|||+|+||++|+++|
T Consensus        84 ~nD~EL~~L~~~vtI~~ggv~p~i~~~l~~~~  115 (115)
T cd00074          84 RNDEELNKLLKGVTIASGGVLPNIHKVLLPKK  115 (115)
T ss_pred             hccHHHHHHHcCCcccCCccCCCcchhhcCCC
Confidence            99999999999999999999999999999875

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.

>KOG1756|consensus

Probab=100.00  E-value=1.9e-46  Score=264.39  Aligned_cols=122  Identities=87%  Similarity=1.254  Sum_probs=115.7

Q ss_pred             CCCCCCCCCC---CCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCce
Q psy17762          1 MSGRGKGGKA---KAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTR   77 (124)
Q Consensus         1 m~~~gk~~~~---~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~   77 (124)
                      |+++||+|++   ++++.|+|.++||+|||++|+|+|++++|++||+.+|||||+||||||++||+|+|+|+|+++++.+
T Consensus         1 ~s~~~k~gk~~~~~~~~~srs~~agl~fPvgri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~r   80 (131)
T KOG1756|consen    1 MSGRGKGGKAKPRAKAKSSRSSRAGLQFPVGRIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTR   80 (131)
T ss_pred             CCccCCCCcccchhhhhcchhhhcccccCHHHHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccc
Confidence            7888886665   3457888999999999999999999999999999999999999999999999999999999999999


Q ss_pred             echhhHHHhhhCchHHhhhhcCceeccCccCCCccccccCccccc
Q psy17762         78 IIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEK  122 (124)
Q Consensus        78 I~p~~i~~AI~~d~eL~~L~~~~~i~~gg~~p~~~~~~~~~k~~~  122 (124)
                      |+|+||++||+||+||.+|+++|+|++|||+|+||+.|++||+.+
T Consensus        81 i~PrH~~lAI~NDeEL~~lL~~vtIa~GGvlPnI~~~lLpKk~~~  125 (131)
T KOG1756|consen   81 ITPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAILLPKKTGK  125 (131)
T ss_pred             cChHHHHHHHhCcHHHHHHhccceeccCCcccccchhhccccccc
Confidence            999999999999999999999999999999999999999999876

>smart00414 H2A Histone 2A

Probab=100.00  E-value=5e-46  Score=258.02  Aligned_cols=105  Identities=90%  Similarity=1.304  Sum_probs=103.1

Q ss_pred             CCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhh
Q psy17762         16 TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNK   95 (124)
Q Consensus        16 s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~   95 (124)
                      |+|+|+||+|||+||+|||++++|+.||+++|+|||+||||||++||||+|+++|.++++++|+|+||++||+||+|||+
T Consensus         1 srS~ragL~fPVgRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~nD~EL~~   80 (106)
T smart00414        1 SRSARAGLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRNDEELNK   80 (106)
T ss_pred             CccccCCccCchHHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccCCHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCceeccCccCCCccccccCccc
Q psy17762         96 LLSGVTIAQGGVLPNIQAVLLPKKT  120 (124)
Q Consensus        96 L~~~~~i~~gg~~p~~~~~~~~~k~  120 (124)
                      ||+++||++|||+|+||++|++||+
T Consensus        81 L~~~vti~~ggv~p~i~~~l~~~~~  105 (106)
T smart00414       81 LLKGVTIAQGGVLPNIHKVLLPKKT  105 (106)
T ss_pred             HHcCcccCCCccCCCcchhhcccCC
Confidence            9999999999999999999999986

>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]

Probab=100.00  E-value=1.5e-44  Score=251.94  Aligned_cols=120  Identities=78%  Similarity=1.178  Sum_probs=112.3

Q ss_pred             CCCCCCC-CCCc-cCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceech
Q psy17762          3 GRGKGGK-AKAK-SKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIP   80 (124)
Q Consensus         3 ~~gk~~~-~~~~-~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p   80 (124)
                      ++||+|| ...+ ..|+|.++||+|||+||+|+|+.+++..||++.|+||++||||||++||+|+|+|.|+++++++|+|
T Consensus         3 ~~GKGgK~a~~r~~~s~sa~agl~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~P   82 (132)
T COG5262           3 SGGKGGKAADARVSQSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIP   82 (132)
T ss_pred             cCCcCcccccchhccchhhhcCccccHHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceech
Confidence            4688888 3333 4678999999999999999999989999999999999999999999999999999999999999999


Q ss_pred             hhHHHhhhCchHHhhhhcCceeccCccCCCccccccCccccc
Q psy17762         81 RHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEK  122 (124)
Q Consensus        81 ~~i~~AI~~d~eL~~L~~~~~i~~gg~~p~~~~~~~~~k~~~  122 (124)
                      +||++||+||+||++|+++|+|++|||+||||+.|+++.++|
T Consensus        83 rHlqlAIrnD~EL~~l~~~~tIa~GGvlp~I~~~ll~k~skK  124 (132)
T COG5262          83 RHLQLAIRNDEELNKLLGDVTIAQGGVLPNINPGLLPKSSKK  124 (132)
T ss_pred             HHHHHHhcCcHHHHHHhhhheeecCCcccccChhhhhhhhcc
Confidence            999999999999999999999999999999999999887766

>KOG1757|consensus

Probab=100.00  E-value=8.4e-40  Score=226.69  Aligned_cols=111  Identities=64%  Similarity=0.931  Sum_probs=104.8

Q ss_pred             CccCCCCcccccccchhhhhHHHhcCC-cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCc
Q psy17762         12 AKSKTRSSRAGLQFPVGRIHRLLRKGN-YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND   90 (124)
Q Consensus        12 ~~~~s~s~ragl~fPv~ri~R~lk~~~-~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d   90 (124)
                      .+.+|+|.|+||||||+||+|.|+... -..||+.++.||.+++||||++|+||+|+|.+++.+.++|||+|+++||+.|
T Consensus        18 ~k~vs~s~raGlqFpVgRihr~LK~r~t~h~rVGataavy~aaileYLTaEVLeLAgNasKdLKvKRitprHlqLAiRGD   97 (131)
T KOG1757|consen   18 AKAVSRSARAGLQFPVGRIHRHLKTRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGD   97 (131)
T ss_pred             hhhhhHHHhcccccchHHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHcccccccceeeeccchhheeeecCc
Confidence            567999999999999999999999865 3599999999999999999999999999999999999999999999999999


Q ss_pred             hHHhhhhcCceeccCccCCCccccccCcccccC
Q psy17762         91 EELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKK  123 (124)
Q Consensus        91 ~eL~~L~~~~~i~~gg~~p~~~~~~~~~k~~~~  123 (124)
                      +|||.|++ .||+.|||+||||++|+.|+++++
T Consensus        98 eELDtLIk-~TiagGgViPhihk~l~~k~~~~~  129 (131)
T KOG1757|consen   98 EELDTLIK-ATIAGGGVIPHIHKSLINKKGKKK  129 (131)
T ss_pred             HHHHHHHH-HhhccCccccchHHHHhccccccC
Confidence            99999995 589999999999999999988764

>PLN00155 histone H2A; Provisional

Probab=99.89  E-value=7.4e-24  Score=131.69  Aligned_cols=58  Identities=71%  Similarity=1.180  Sum_probs=54.3

Q ss_pred             CCCCCCCCCCCCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHH
Q psy17762          1 MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYL   58 (124)
Q Consensus         1 m~~~gk~~~~~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl   58 (124)
                      |+|+||+++..++..|+|++|||||||+||+|+|+++.|+.||+.+|||||+||||||
T Consensus         1 msg~g~g~~~~~k~~srS~rAgL~FPVgri~r~Lr~g~~a~Rvga~apVYlAAVLEYL   58 (58)
T PLN00155          1 MAGRGKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYL   58 (58)
T ss_pred             CCCCCCCCccccCccCcccccccccchHHHHHHHhcCChhhcccCCcHHHHHHHHHhC
Confidence            8998886666667899999999999999999999999999999999999999999996

>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=99.59  E-value=1.4e-15  Score=98.33  Aligned_cols=73  Identities=41%  Similarity=0.589  Sum_probs=67.5

Q ss_pred             CcccccccchhhhhHHHhcCCcc-cccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCc
Q psy17762         18 SSRAGLQFPVGRIHRLLRKGNYA-ERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND   90 (124)
Q Consensus        18 s~ragl~fPv~ri~R~lk~~~~~-~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d   90 (124)
                      +....+.||+.++.+-+..+.+. .||+.+|.++|.+++||++.+|++.|++.|.++++++|+|+||+.|++.|
T Consensus         2 ~~~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~~   75 (75)
T PF00125_consen    2 TRRLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRID   75 (75)
T ss_dssp             HSHSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHHT
T ss_pred             cccccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhcC
Confidence            45678899999999999997666 59999999999999999999999999999999999999999999999875

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 ....

>PLN00035 histone H4; Provisional

Probab=99.59  E-value=1.6e-15  Score=104.67  Aligned_cols=86  Identities=24%  Similarity=0.391  Sum_probs=75.7

Q ss_pred             CCCCCCCCCC-------CCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhC
Q psy17762          1 MSGRGKGGKA-------KAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDN   73 (124)
Q Consensus         1 m~~~gk~~~~-------~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~   73 (124)
                      |+++||+|+.       +++++.+.+-++  +|.+.|.|+++.++ +.|||.++...|..+||.++.+|+..|..+|+|.
T Consensus         1 m~~~~k~~~g~g~~g~kr~~k~~~d~i~~--ipk~~IrRLARr~G-vkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA   77 (103)
T PLN00035          1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQG--ITKPAIRRLARRGG-VKRISGLIYEETRGVLKIFLENVIRDAVTYTEHA   77 (103)
T ss_pred             CCCCCCCCCCCCCCcchHHHHHHHhhhcc--CCHHHHHHHHHHcC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            8888886553       444555666667  77778999999998 9999999999999999999999999999999999


Q ss_pred             CCceechhhHHHhhhC
Q psy17762         74 KKTRIIPRHLQLAIRN   89 (124)
Q Consensus        74 ~~k~I~p~~i~~AI~~   89 (124)
                      ++++|+++||.+|++.
T Consensus        78 ~RKTV~~~DV~~Alkr   93 (103)
T PLN00035         78 RRKTVTAMDVVYALKR   93 (103)
T ss_pred             CCCcCcHHHHHHHHHH
Confidence            9999999999999864

>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]

Probab=99.54  E-value=1.2e-14  Score=99.60  Aligned_cols=86  Identities=21%  Similarity=0.386  Sum_probs=78.9

Q ss_pred             cccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhhhcCc
Q psy17762         21 AGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGV  100 (124)
Q Consensus        21 agl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L~~~~  100 (124)
                      -.-.||++|++++|+.+.+..+|+..+||..+..||+|+.+|+.++++.|+..+.+|+|.++|..|+.+|+.|++|-...
T Consensus        20 ~ktrFP~ar~KkIMQ~deDiGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdFL~~~~   99 (113)
T COG5247          20 KKTRFPIARLKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFLKNME   99 (113)
T ss_pred             hhhcCCHHHHHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHHHHHHH
Confidence            35679999999999999999999999999999999999999999999999999999999999999999999999998655


Q ss_pred             eeccCc
Q psy17762        101 TIAQGG  106 (124)
Q Consensus       101 ~i~~gg  106 (124)
                      .+..+-
T Consensus       100 ~~~~~~  105 (113)
T COG5247         100 QFKNRE  105 (113)
T ss_pred             HhcCCC
Confidence            554443

>PTZ00015 histone H4; Provisional

Probab=99.47  E-value=9.9e-14  Score=95.64  Aligned_cols=85  Identities=24%  Similarity=0.379  Sum_probs=71.7

Q ss_pred             CCCCCCCCC--------CCCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy17762          1 MSGRGKGGK--------AKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARD   72 (124)
Q Consensus         1 m~~~gk~~~--------~~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~   72 (124)
                      |+++||+++        .++++..+++-.+++.  +.|.|+++.++ +.|||.++...+..+||.++.+|+..|..+|+|
T Consensus         1 ~~~~~k~~~~~~~~g~~kr~rk~~r~~i~gI~k--~~IrRLarr~G-vkRIS~d~y~e~r~vle~~l~~I~rdav~~aeH   77 (102)
T PTZ00015          1 MSGMGKGKKSLGAKGGQKRQKKVLRDNIRGITK--GAIRRLARRGG-VKRISGDIYEEVRGVLKAFLENVVRDSTAYTEY   77 (102)
T ss_pred             CCCcccCCCccccccchhhHHHHHhhcccCCCH--HHHHHHHHHcC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            676666433        2444555666666555  56999999998 999999999999999999999999999999999


Q ss_pred             CCCceechhhHHHhhh
Q psy17762         73 NKKTRIIPRHLQLAIR   88 (124)
Q Consensus        73 ~~~k~I~p~~i~~AI~   88 (124)
                      +++++|+++||.+|++
T Consensus        78 A~RKTVt~~DV~~AlK   93 (102)
T PTZ00015         78 ARRKTVTAMDVVYALK   93 (102)
T ss_pred             cCCCcccHHHHHHHHH
Confidence            9999999999999986

>KOG1659|consensus

Probab=99.32  E-value=2.9e-12  Score=97.87  Aligned_cols=77  Identities=19%  Similarity=0.387  Sum_probs=74.1

Q ss_pred             ccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhhhc
Q psy17762         22 GLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLS   98 (124)
Q Consensus        22 gl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L~~   98 (124)
                      .-.||++||+++|+.+.+..+|...+||.+...||.|+.+|+..++..++..+.++++++||..||.+|+.|+||-.
T Consensus        11 ~trfp~aRiKKIMQ~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFLk~   87 (224)
T KOG1659|consen   11 KTRFPPARIKKIMQSDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFLKE   87 (224)
T ss_pred             hccCCHHHHHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHHHH
Confidence            45799999999999999999999999999999999999999999999999999999999999999999999999974

>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=99.27  E-value=1.4e-11  Score=77.90  Aligned_cols=64  Identities=20%  Similarity=0.288  Sum_probs=58.3

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhh
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAI   87 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI   87 (124)
                      .||+++|+|+||......+||.+|...++.+.|.|+.+|...|...|.+.++++|+++||..|+
T Consensus         2 ~lP~a~vkri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av   65 (65)
T PF00808_consen    2 SLPLARVKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV   65 (65)
T ss_dssp             SS-HHHHHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred             CCChHHHHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence            5999999999999866889999999999999999999999999999999999999999999885

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 ....

>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=99.24  E-value=1e-11  Score=83.18  Aligned_cols=76  Identities=18%  Similarity=0.300  Sum_probs=67.5

Q ss_pred             CCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhC
Q psy17762         11 KAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   89 (124)
Q Consensus        11 ~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~   89 (124)
                      +++++-+++-+|  +|.+.|.|+++.++ +.|||.++...+..+||.++.+|+..|..+|+|+++++|+++||.+|++.
T Consensus         2 r~r~~~~~~~~g--i~k~~I~RLarr~G-vkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr   77 (85)
T cd00076           2 RHRKVLRDNIKG--ITKPAIRRLARRGG-VKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKR   77 (85)
T ss_pred             chhHHHHHhhcc--CCHHHHHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence            344555666777  55566999999998 99999999999999999999999999999999999999999999999874

>smart00417 H4 Histone H4

Probab=99.21  E-value=1.3e-11  Score=80.70  Aligned_cols=73  Identities=18%  Similarity=0.223  Sum_probs=64.3

Q ss_pred             CCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHh
Q psy17762         11 KAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLA   86 (124)
Q Consensus        11 ~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~A   86 (124)
                      +++++-+.+-.|++  .+.|.|+++.++ +.|||.++...+..+||.++.+|+..|..+|+|.++++|+.+||..|
T Consensus         2 r~~~~~~d~i~gI~--k~~IrRLaRr~G-vkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~a   74 (74)
T smart00417        2 RHKKVLRDNIQGIT--KPAIRRLARRGG-VKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVYA   74 (74)
T ss_pred             chhHHHHhhhcCCC--HHHHHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHheeC
Confidence            34456666777755  456999999998 99999999999999999999999999999999999999999999764

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

Probab=99.21  E-value=2.3e-11  Score=82.37  Aligned_cols=67  Identities=30%  Similarity=0.415  Sum_probs=63.1

Q ss_pred             cccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         21 AGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        21 agl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      ..+.||+..|.|+|++.+ ..|||.+|...|..++|-++.+|.+.|...|.|.+|+||+++||++|+.
T Consensus        16 ~~~~Lp~apv~Ri~r~~~-~~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~   82 (91)
T COG2036          16 TDLLLPKAPVRRILRKAG-AERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALK   82 (91)
T ss_pred             hhhhcCchHHHHHHHHHh-HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHH
Confidence            356789999999999987 7799999999999999999999999999999999999999999999985

>smart00803 TAF TATA box binding protein associated factor

Probab=99.18  E-value=7.4e-11  Score=75.28  Aligned_cols=64  Identities=22%  Similarity=0.267  Sum_probs=61.1

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      .+|.+.|.|+.+..| ..|||.++...|+..+||.+.+|+..|.++++|.+|++++++||+.|++
T Consensus         2 ~~p~~~i~ria~~~G-i~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk   65 (65)
T smart00803        2 WLPKETIKDVAESLG-IGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR   65 (65)
T ss_pred             CCCHHHHHHHHHHCC-CccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence            479999999999998 8899999999999999999999999999999999999999999999874

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.

>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]

Probab=98.79  E-value=1e-08  Score=79.25  Aligned_cols=75  Identities=23%  Similarity=0.391  Sum_probs=72.6

Q ss_pred             cccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhhh
Q psy17762         23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL   97 (124)
Q Consensus        23 l~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L~   97 (124)
                      +.+|++||+++||.+....-|++.||+.++.+.|-|++|+.-.|+-.|+.++|.++.-.||..|+...+-|++|+
T Consensus       108 h~LPlARIkkvMKtdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFLi  182 (286)
T COG5208         108 HNLPLARIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFLI  182 (286)
T ss_pred             ccCcHHHHHHHHhcccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHHh
Confidence            459999999999999989999999999999999999999999999999999999999999999999999999999

>KOG3467|consensus

Probab=98.76  E-value=1.8e-08  Score=67.64  Aligned_cols=86  Identities=27%  Similarity=0.430  Sum_probs=76.7

Q ss_pred             CCCCCCCCCC-------CCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhC
Q psy17762          1 MSGRGKGGKA-------KAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDN   73 (124)
Q Consensus         1 m~~~gk~~~~-------~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~   73 (124)
                      |+++|+++|+       +++++-+++-+|++-|.  |.|+.+.++ ..||+...-.....++.-++++++-.|..++.|.
T Consensus         1 Ms~r~~g~KG~~KG~AKrHRK~LsDnIqgitKpa--IRRlARr~G-VkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HA   77 (103)
T KOG3467|consen    1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPA--IRRLARRGG-VKRISGLIYEETRGVLKVFLENVIRDAVTYTEHA   77 (103)
T ss_pred             CCCcCccccccccchHHHHHHHHHhhccccchHH--HHHHHHhcC-cchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            7888775554       55667778889999998  999999988 8999999999999999999999999999999999


Q ss_pred             CCceechhhHHHhhhC
Q psy17762         74 KKTRIIPRHLQLAIRN   89 (124)
Q Consensus        74 ~~k~I~p~~i~~AI~~   89 (124)
                      ++++||..|+-.+++.
T Consensus        78 KRKTvT~~dvv~~LKR   93 (103)
T KOG3467|consen   78 KRKTVTAMDVVYALKR   93 (103)
T ss_pred             hhceeeHHHHHHHHHH
Confidence            9999999999988763

>KOG1657|consensus

Probab=98.63  E-value=3.5e-08  Score=77.12  Aligned_cols=85  Identities=19%  Similarity=0.263  Sum_probs=77.6

Q ss_pred             CCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhh
Q psy17762         16 TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNK   95 (124)
Q Consensus        16 s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~   95 (124)
                      ....-....||++||+++||.+.....|+.+|||.++.++|+|+.|+...++..+..++++++.-.||..++.++.-|++
T Consensus        66 ~~~d~~~~~lPlaRiKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdF  145 (236)
T KOG1657|consen   66 GQLDFKNHILPLARIKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDF  145 (236)
T ss_pred             cccchhhccCcHhhccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCccc
Confidence            33344467899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCc
Q psy17762         96 LLSGV  100 (124)
Q Consensus        96 L~~~~  100 (124)
                      |...+
T Consensus       146 L~Div  150 (236)
T KOG1657|consen  146 LRDIV  150 (236)
T ss_pred             eeccc
Confidence            99643

>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=98.37  E-value=1.1e-06  Score=61.92  Aligned_cols=60  Identities=18%  Similarity=0.133  Sum_probs=57.1

Q ss_pred             hhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhC
Q psy17762         29 RIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   89 (124)
Q Consensus        29 ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~   89 (124)
                      -|+++|++.+ +.+++..++..|.-.++-++.+|+..|..+|+|+++++|+.+||++||..
T Consensus         6 ~v~~iLk~~G-v~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~   65 (117)
T cd07979           6 VIAAILKSMG-ITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQS   65 (117)
T ss_pred             HHHHHHHHCC-CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            4899999987 88999999999999999999999999999999999999999999999974

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

>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=98.36  E-value=1.5e-06  Score=56.21  Aligned_cols=65  Identities=17%  Similarity=0.274  Sum_probs=57.9

Q ss_pred             chhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCc
Q psy17762         26 PVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND   90 (124)
Q Consensus        26 Pv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d   90 (124)
                      +-..+..++++-.-..|++.+|...|..++|-|+.+|++.|...|+|.++++|.++||+++++.+
T Consensus         3 ~k~~l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~   67 (72)
T cd07981           3 TKRKLQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERN   67 (72)
T ss_pred             cHHHHHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence            34456777777554689999999999999999999999999999999999999999999999865

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

>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins

Probab=98.08  E-value=1.2e-05  Score=52.40  Aligned_cols=59  Identities=17%  Similarity=0.144  Sum_probs=55.3

Q ss_pred             hhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhC
Q psy17762         30 IHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   89 (124)
Q Consensus        30 i~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~   89 (124)
                      |.++++..| +.+++.+|...|+.++|-++.+|...+.++|++.+|+..++.||..|+.+
T Consensus        12 Vaqil~~~G-f~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~   70 (77)
T smart00576       12 VAQILESAG-FDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN   70 (77)
T ss_pred             HHHHHHHcC-ccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            567888988 89999999999999999999999999999999999999999999999854

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=97.85  E-value=6.3e-05  Score=48.15  Aligned_cols=64  Identities=20%  Similarity=0.272  Sum_probs=50.7

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      .||..-|+-+...-| ...++.++.-.|+.=+||-+.||+..|.+..+|.+|++++++||+.|++
T Consensus         3 ~~~~esvk~iAes~G-i~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr   66 (66)
T PF02969_consen    3 VFSQESVKDIAESLG-ISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR   66 (66)
T ss_dssp             ---HHHHHHHHHHTT----B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred             cCCHHHHHHHHHHcC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence            477778888887777 5679999999999999999999999999999999999999999999974

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=97.78  E-value=5.8e-05  Score=61.68  Aligned_cols=60  Identities=18%  Similarity=0.280  Sum_probs=54.9

Q ss_pred             hhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         28 GRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        28 ~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      .-|+-+++..+ ..+++.+|...|+..+||.+.+|++.|.+.++|.+|++++++||+.|++
T Consensus         3 ~~i~~ia~~~G-i~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~   62 (343)
T cd08050           3 ESIKLIAESLG-IDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALR   62 (343)
T ss_pred             hHHHHHHHHcC-CCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHH
Confidence            34566677766 7899999999999999999999999999999999999999999999987

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

>smart00428 H3 Histone H3

Probab=97.75  E-value=7.3e-05  Score=51.91  Aligned_cols=67  Identities=25%  Similarity=0.305  Sum_probs=57.9

Q ss_pred             ccccchhhhhHHHhcCC--c----ccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         22 GLQFPVGRIHRLLRKGN--Y----AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        22 gl~fPv~ri~R~lk~~~--~----~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      +|-+|-.++.|+.++-.  +    ..|++++|...|..+.|.++.++++.|...|.|.++.+|+|+|+++|.+
T Consensus        27 ~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~r   99 (105)
T smart00428       27 DLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARR   99 (105)
T ss_pred             ccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHH
Confidence            56777777777776521  1    4599999999999999999999999999999999999999999999854

>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=97.41  E-value=0.00077  Score=45.06  Aligned_cols=63  Identities=25%  Similarity=0.419  Sum_probs=55.2

Q ss_pred             cchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCC---ceechhhHHHhhh
Q psy17762         25 FPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK---TRIIPRHLQLAIR   88 (124)
Q Consensus        25 fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~---k~I~p~~i~~AI~   88 (124)
                      ||-..++|++..- ....++.+..+.++++...|+.||+|.|.......+.   ..|.|.||..|.+
T Consensus        17 f~k~~iKr~~~~~-~~~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~r   82 (85)
T cd08048          17 FPKAAIKRLIQSV-TGQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYR   82 (85)
T ss_pred             ccHHHHHHHHHHH-cCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHH
Confidence            7777799999985 4699999999999999999999999999987766544   6899999999875

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

>KOG0869|consensus

Probab=97.35  E-value=0.00062  Score=50.32  Aligned_cols=66  Identities=15%  Similarity=0.214  Sum_probs=60.5

Q ss_pred             cccchhhhhHHHhcCC-cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         23 LQFPVGRIHRLLRKGN-YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        23 l~fPv~ri~R~lk~~~-~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      --+|++-|-||||..- -..+|+.+|..-+--+.--|++-|.-.|...|...+||+|+.+||-+|+.
T Consensus        31 r~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~   97 (168)
T KOG0869|consen   31 RFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMS   97 (168)
T ss_pred             hhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHH
Confidence            4599999999999964 35899999999999999999999999999999999999999999999986

>smart00427 H2B Histone H2B

Probab=97.25  E-value=0.0011  Score=44.80  Aligned_cols=61  Identities=21%  Similarity=0.252  Sum_probs=54.8

Q ss_pred             hhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         28 GRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        28 ~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      ..|+|.|++-.-..-||+.|.-.+...+..+.+.|...|.+.++.+++.+|++++|+.|++
T Consensus         5 ~Yi~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvr   65 (89)
T smart00427        5 IYIYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVR   65 (89)
T ss_pred             HHHHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH
Confidence            3588999987656788899999999999999999999999999999999999999999986

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

Probab=97.23  E-value=0.00048  Score=57.75  Aligned_cols=72  Identities=13%  Similarity=0.114  Sum_probs=46.3

Q ss_pred             CCccCCCCcccccccchhhhhHHHhcC----Cc-ccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhh
Q psy17762         11 KAKSKTRSSRAGLQFPVGRIHRLLRKG----NY-AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH   82 (124)
Q Consensus        11 ~~~~~s~s~ragl~fPv~ri~R~lk~~----~~-~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~   82 (124)
                      +.+++|+-......+|.+.|++++..-    .+ ..+|+.+|.-.|..++|||...+-+--..||.|+|||+|.+.|
T Consensus       338 k~~k~Skhgi~~P~lP~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD  414 (414)
T PF15511_consen  338 KQKKVSKHGIPYPSLPPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD  414 (414)
T ss_dssp             --------------S-HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred             cccCCCCCCCCCCCCCccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence            556777777778889999999988663    22 3899999999999999999999999888999999999999876

>PLN00158 histone H2B; Provisional

Probab=97.16  E-value=0.0014  Score=46.14  Aligned_cols=61  Identities=23%  Similarity=0.295  Sum_probs=55.3

Q ss_pred             hhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         28 GRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        28 ~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      ..|+|.|++-.-..-||..|.-.+...+..+.+.|...|...++.+++.+|++++|+.|++
T Consensus        31 ~YI~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvr   91 (116)
T PLN00158         31 IYIYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVR   91 (116)
T ss_pred             HHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH
Confidence            4699999996656778888999999999999999999999999999999999999999987

>PTZ00463 histone H2B; Provisional

Probab=97.02  E-value=0.0023  Score=45.18  Aligned_cols=61  Identities=13%  Similarity=0.164  Sum_probs=54.6

Q ss_pred             hhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         28 GRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        28 ~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      ..|++.|++-.-..-||..|.-.+...+.-+.+.|...|...|+.+++.+|++++|+.|++
T Consensus        32 ~YI~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvr   92 (117)
T PTZ00463         32 LYIFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIR   92 (117)
T ss_pred             HHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHh
Confidence            3699999996656778888998899999999999999999999999999999999999997

>KOG3219|consensus

Probab=96.83  E-value=0.0014  Score=49.95  Aligned_cols=66  Identities=21%  Similarity=0.365  Sum_probs=56.3

Q ss_pred             cccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCC-CceechhhHHHhhhC
Q psy17762         23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNK-KTRIIPRHLQLAIRN   89 (124)
Q Consensus        23 l~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~-~k~I~p~~i~~AI~~   89 (124)
                      .-||-+.|+++|..-. ..-|+..+.++++++-.-|+-||+|.|.......+ ...+.|.||..|.+.
T Consensus       111 s~f~Ka~iKkL~~~it-g~~v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~rr  177 (195)
T KOG3219|consen  111 SAFPKAQIKKLMSSIT-GQSVSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYRR  177 (195)
T ss_pred             hcCCHHHHHHHHHHHh-CCccCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHHH
Confidence            4599999999999853 55599999999999999999999999998776554 446999999999863

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

Probab=96.81  E-value=0.0064  Score=39.85  Aligned_cols=48  Identities=23%  Similarity=0.335  Sum_probs=37.6

Q ss_pred             ChHHHHHHHHHHHHHHHHHHHH---HHHHhCCCceechhhHHHhhhCchHH
Q psy17762         46 GAPVYLAAVMEYLAAEVLELAG---NAARDNKKTRIIPRHLQLAIRNDEEL   93 (124)
Q Consensus        46 ~A~v~LaavLEyl~~eIlelA~---~~a~~~~~k~I~p~~i~~AI~~d~eL   93 (124)
                      -++.|++++.|..-..+-.++.   ..|+|.||++|+++|+.+..+.++.|
T Consensus        26 ~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~Rrn~~L   76 (76)
T PF15630_consen   26 VSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLARRNPSL   76 (76)
T ss_dssp             E-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTTT-HHH
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhhcCCCC
Confidence            4688889988888888777765   47899999999999999999999876

>KOG0871|consensus

Probab=96.78  E-value=0.0046  Score=45.32  Aligned_cols=71  Identities=17%  Similarity=0.226  Sum_probs=63.7

Q ss_pred             cccccccchhhhhHHHhcCCc-ccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhC
Q psy17762         19 SRAGLQFPVGRIHRLLRKGNY-AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   89 (124)
Q Consensus        19 ~ragl~fPv~ri~R~lk~~~~-~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~   89 (124)
                      +.-.+.+|-+-|..++++.-. .-||..+|-..|-.+.=+|+.-|.-.|...|+...+++|.|+|+..|+.+
T Consensus         7 ~dde~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~   78 (156)
T KOG0871|consen    7 EDDELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALEN   78 (156)
T ss_pred             ccccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHH
Confidence            344789999999999999764 58999999999999999999999999999999999999999999999864

>PF04719 TAFII28: hTAFII28-like protein conserved region; InterPro: IPR006809 The general transcription factor, TFIID, consists of the TATA-binding protein (TBP) associated with a series of TBP-associated factors (TAFs) that together participate in the assembly of the transcription preinitiation complex

Probab=96.74  E-value=0.0033  Score=42.53  Aligned_cols=64  Identities=20%  Similarity=0.338  Sum_probs=47.5

Q ss_pred             ccchhhhhHHHhcCCcc-cccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCC-CceechhhHHHhhh
Q psy17762         24 QFPVGRIHRLLRKGNYA-ERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNK-KTRIIPRHLQLAIR   88 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~-~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~-~k~I~p~~i~~AI~   88 (124)
                      .||-+.|++++..- .. .-|+....+.++++--.|+.||+|.|.......+ ...|+|.||..|.+
T Consensus        23 ~~~k~~ikkli~~~-~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~r   88 (90)
T PF04719_consen   23 SFNKAAIKKLINQV-LGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYR   88 (90)
T ss_dssp             ---HHHHHHHHHHH-HS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHH
T ss_pred             cCCHHHHHHHHHHH-cCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence            37778899999984 35 8999999999999999999999999998775544 45799999998864

The conserved region is found at the C terminus of most member proteins. The crystal structure of hTAFII28 with hTAFII18 shows that this region is involved in the binding of these two subunits. The conserved region contains four alpha helices and three loops arranged as in histone H3 [, ].; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005634 nucleus; PDB: 1BH9_B 1BH8_B.

>PLN00163 histone H4; Provisional

Probab=96.68  E-value=0.00049  Score=42.91  Aligned_cols=45  Identities=40%  Similarity=0.673  Sum_probs=35.4

Q ss_pred             CCCCCCCCC-------CCCccCCCCcccccccchhhhhHHHhcCCcccccCCChH
Q psy17762          1 MSGRGKGGK-------AKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAP   48 (124)
Q Consensus         1 m~~~gk~~~-------~~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~   48 (124)
                      |+++||+++       .+++++.+.+-.+++-|.  |.|+.+.++ ..|||...-
T Consensus         1 m~g~gkggkglGkggaKRhrk~lrd~i~gItKpa--IrRLARRgG-VKRIs~~iY   52 (59)
T PLN00163          1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPA--IRRLARRGG-VKRISGLIY   52 (59)
T ss_pred             CCCCCCCCCccCCccchhHHHHHHHhhcccchHH--HHHHHHhcC-ceeecchhh
Confidence            888877544       355566777788999998  999999988 899998643

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

Probab=96.57  E-value=0.0091  Score=38.51  Aligned_cols=58  Identities=14%  Similarity=0.168  Sum_probs=52.7

Q ss_pred             hhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         30 IHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        30 i~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      |.++++..+ +..++.+|...|+.+++.++.+|...+-.+|++.+|...++.|+..|+.
T Consensus        12 va~il~~~G-F~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~   69 (77)
T PF07524_consen   12 VAQILKHAG-FDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALE   69 (77)
T ss_pred             HHHHHHHcC-ccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            456777777 7899999999999999999999999999999999999999999998874

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 [, ].

>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=96.49  E-value=0.011  Score=42.35  Aligned_cols=61  Identities=21%  Similarity=0.163  Sum_probs=42.1

Q ss_pred             hhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         27 VGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        27 v~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      +--|+-+|++.+. ......++.-|.-..--++.+||+.|..+|.|.++..|+..||++||.
T Consensus        15 a~~i~~iL~~~Gv-~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~   75 (129)
T PF02291_consen   15 ARVIHLILKSMGV-TEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQ   75 (129)
T ss_dssp             HHHHHHHHHHTT----B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHH
T ss_pred             HHHHHHHHHHcCC-cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHH
Confidence            3457889999872 223333333343444446888999999999999999999999999998

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

>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=96.40  E-value=0.012  Score=37.70  Aligned_cols=62  Identities=15%  Similarity=0.314  Sum_probs=48.9

Q ss_pred             hhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCc
Q psy17762         29 RIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND   90 (124)
Q Consensus        29 ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d   90 (124)
                      ++..++++-.-...+..++...|..+.+-|+..++..|+..|+|.+..++.+.||++.++.+
T Consensus         4 ~l~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler~   65 (68)
T PF03847_consen    4 KLQELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLERN   65 (68)
T ss_dssp             HHHHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHhh
Confidence            45667777656789999999999999999999999999999999999999999999988654

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

>PLN00161 histone H3; Provisional

Probab=96.30  E-value=0.0092  Score=43.15  Aligned_cols=67  Identities=27%  Similarity=0.241  Sum_probs=57.2

Q ss_pred             ccccchhhhhHHHhcCC-----cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         22 GLQFPVGRIHRLLRKGN-----YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        22 gl~fPv~ri~R~lk~~~-----~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      +|-+|-..+.|+.++--     ...|+..+|...|--+-|.++-.++|.|.-.|.|.++-+|.|.|++++.+
T Consensus        53 ~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~r  124 (135)
T PLN00161         53 ELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARR  124 (135)
T ss_pred             ccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHH
Confidence            56677777777776531     23789999999999999999999999999999999999999999999865

>PLN00160 histone H3; Provisional

Probab=96.21  E-value=0.01  Score=40.71  Aligned_cols=67  Identities=27%  Similarity=0.237  Sum_probs=57.1

Q ss_pred             ccccchhhhhHHHhcC-----CcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         22 GLQFPVGRIHRLLRKG-----NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        22 gl~fPv~ri~R~lk~~-----~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      +|-+|-.++.|+.++-     ....|+..+|...|--+-|.++-.++|.+...|.|.++-+|.|.|++++.+
T Consensus        19 ~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~r   90 (97)
T PLN00160         19 DLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARR   90 (97)
T ss_pred             hhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHH
Confidence            5667777777777653     123799999999999999999999999999999999999999999999854

>KOG1658|consensus

Probab=96.13  E-value=0.0045  Score=45.67  Aligned_cols=76  Identities=20%  Similarity=0.229  Sum_probs=68.9

Q ss_pred             cccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhhhc
Q psy17762         23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLS   98 (124)
Q Consensus        23 l~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L~~   98 (124)
                      .++|++||+.+++-.....-....+...++...|-++.++-..++..+....++++.-+++..||..-+|+.+|..
T Consensus        58 ~rLpL~rik~vvkl~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~de~~fle~  133 (162)
T KOG1658|consen   58 SRLPLARIKQVVKLDPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAVDEFAFLEG  133 (162)
T ss_pred             hhccHHHHHhhccCCcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccchHHHHHHhh
Confidence            6899999999999987667777778888889999999999999999999999999999999999999999988874

>PTZ00018 histone H3; Provisional

Probab=96.08  E-value=0.012  Score=42.66  Aligned_cols=67  Identities=25%  Similarity=0.260  Sum_probs=57.5

Q ss_pred             ccccchhhhhHHHhcC----CcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         22 GLQFPVGRIHRLLRKG----NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        22 gl~fPv~ri~R~lk~~----~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      +|-+|-..|.|+.++-    ....|+..+|...|--+-|.++-.++|.+...|.|.++-+|.+.|++++.+
T Consensus        60 ~lLI~k~pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~r  130 (136)
T PTZ00018         60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR  130 (136)
T ss_pred             hhccccccHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHHH
Confidence            5567777788877763    124799999999999999999999999999999999999999999999853

>PF09415 CENP-X: CENP-S associating Centromere protein X; InterPro: IPR018552 Centromere protein X (CENP-X) is a component of the CENP-S complex

Probab=96.03  E-value=0.042  Score=35.59  Aligned_cols=61  Identities=20%  Similarity=0.229  Sum_probs=47.9

Q ss_pred             chhhhhHHHhcC--CcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCce-echhhHHHh
Q psy17762         26 PVGRIHRLLRKG--NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTR-IIPRHLQLA   86 (124)
Q Consensus        26 Pv~ri~R~lk~~--~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~-I~p~~i~~A   86 (124)
                      |..-|.|+|+..  ...-||+.+|-..++..|+-|+.|-+-.|...+...+... |..+||+..
T Consensus         1 p~~li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEki   64 (72)
T PF09415_consen    1 PPELIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEKI   64 (72)
T ss_dssp             -CHHHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHHH
T ss_pred             ChHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            445577888752  2468999999999999999999999999999999988888 999999874

The CENP-S complex is composed of at least of CENP-S and CENP-X and is essential for the stable assembly of the outer kinetchore []. CENP-X is also a DNA-binding component of the Fanconi anemia (FA) core complex involved in DNA damage repair and genome maintenance. The FA complex is composed of CENPS, FANCA, FANCB, FANCC, FANCE, FANCF, FANCG, FANCL/PHF9, FANCM, FAAP24 and CENPX. Interacts with CENPS, FANCM and FAAP24 [, ].; PDB: 4DRB_L 4DRA_H 3V9R_D.

>PLN00121 histone H3; Provisional

Probab=95.87  E-value=0.012  Score=42.66  Aligned_cols=67  Identities=25%  Similarity=0.254  Sum_probs=57.5

Q ss_pred             ccccchhhhhHHHhcCC----cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         22 GLQFPVGRIHRLLRKGN----YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        22 gl~fPv~ri~R~lk~~~----~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      +|-+|-..+.|+.++-.    ...|+..+|...|--+-|.++-.++|.+.-.|.|.++-+|.+.|++++.+
T Consensus        60 ~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~r  130 (136)
T PLN00121         60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR  130 (136)
T ss_pred             ccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHHH
Confidence            56677777777776621    24799999999999999999999999999999999999999999999853

>KOG1744|consensus

Probab=95.31  E-value=0.099  Score=37.45  Aligned_cols=67  Identities=19%  Similarity=0.216  Sum_probs=52.8

Q ss_pred             cccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         19 SRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        19 ~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      ..-...++|-+   .|++---.--|+..|.-.+.+.+-.+.+.|+..|+..|+.+++.+|+.++|+.|++
T Consensus        35 ~~e~~s~yv~k---vlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~r  101 (127)
T KOG1744|consen   35 RKESYSEYVYK---VLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVR  101 (127)
T ss_pred             ccCceeeehhh---hhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHH
Confidence            33345666544   66664322348888998899988888999999999999999999999999999885

>KOG0870|consensus

Probab=95.17  E-value=0.068  Score=39.92  Aligned_cols=67  Identities=18%  Similarity=0.265  Sum_probs=58.1

Q ss_pred             cccccchhhhhHHHhcCCcc---cccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         21 AGLQFPVGRIHRLLRKGNYA---ERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        21 agl~fPv~ri~R~lk~~~~~---~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      .-|-||.+=|.|+.++- +-   --|+.+|...|+-.---|+..+.-.|...|..+++++|++.|+-.|+.
T Consensus         7 ~dl~lP~AiI~rlvke~-l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~   76 (172)
T KOG0870|consen    7 EDLNLPNAIITRLVKEV-LPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALD   76 (172)
T ss_pred             HHhhccHHHHHHHHHHh-CccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHH
Confidence            35789999999988884 33   447888999998888889999999999999999999999999999985

>KOG1745|consensus

Probab=93.95  E-value=0.054  Score=39.26  Aligned_cols=64  Identities=25%  Similarity=0.243  Sum_probs=52.3

Q ss_pred             cchhhhhHHHh----cCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         25 FPVGRIHRLLR----KGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        25 fPv~ri~R~lk----~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      ++-.++.|+.+    +..-.-|+.++|...|--..|.++-.++|.+.-.|.|.++-+|.|.||++|.+
T Consensus        64 I~K~PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArr  131 (137)
T KOG1745|consen   64 IRKLPFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR  131 (137)
T ss_pred             hhcCcHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhh
Confidence            33344455544    33345899999999999999999999999999999999999999999999865

>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=93.94  E-value=0.059  Score=36.34  Aligned_cols=63  Identities=13%  Similarity=0.092  Sum_probs=18.1

Q ss_pred             hHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHH
Q psy17762         31 HRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEEL   93 (124)
Q Consensus        31 ~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL   93 (124)
                      ..+|---|+...-..++...+-.++--.+.+++..|...|...|+++|+.+|+..++++|+.-
T Consensus         8 ~~mMy~fGD~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D~~K   70 (93)
T PF02269_consen    8 RQMMYGFGDVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKDPKK   70 (93)
T ss_dssp             HHHHHCTTS-SS--HHHHHHHHHHHHHHHHHHHHHHHC-------------------------
T ss_pred             HHHHHHcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcCHHH
Confidence            344444444444444455555544444455556666677777788899999999999999753

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

>KOG1142|consensus

Probab=93.86  E-value=0.081  Score=42.02  Aligned_cols=68  Identities=10%  Similarity=0.207  Sum_probs=59.7

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCch
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE   91 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~   91 (124)
                      .+-.-.++-++++-.-...+..++-.+|.-+.+-|++.|+..|+..|+|.+..+|..+||++.++++.
T Consensus       154 il~k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~  221 (258)
T KOG1142|consen  154 ILSKRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNF  221 (258)
T ss_pred             cccccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeeccc
Confidence            34455677888875546889999999999999999999999999999999999999999999998874

>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=93.70  E-value=0.39  Score=32.41  Aligned_cols=62  Identities=13%  Similarity=0.156  Sum_probs=36.5

Q ss_pred             hhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchH
Q psy17762         30 IHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE   92 (124)
Q Consensus        30 i~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~e   92 (124)
                      |..+|---|+...-...+...+-.++--++.+++-.|...|. .++.+++++|+..++++|+.
T Consensus         8 i~~mmy~~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D~~   69 (92)
T cd07978           8 IRQMMYGFGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKDPK   69 (92)
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcCHH
Confidence            445555444444433344444443333334444445555555 46667899999999999975

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

>KOG3334|consensus

Probab=92.84  E-value=0.47  Score=34.74  Aligned_cols=56  Identities=23%  Similarity=0.317  Sum_probs=46.3

Q ss_pred             hhHHHhcCCcccccCCChHHHHHHHHHH---HHHHHHHHHHHHHHhCCCceechhhHHHhhhC
Q psy17762         30 IHRLLRKGNYAERVGAGAPVYLAAVMEY---LAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   89 (124)
Q Consensus        30 i~R~lk~~~~~~rvs~~A~v~LaavLEy---l~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~   89 (124)
                      |.-+|++-+    |.+.-+-.+.-.||+   .+..||+.|.=+++|.++.+|..+|+++|+..
T Consensus        19 i~~iL~s~G----I~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~   77 (148)
T KOG3334|consen   19 IASILKSLG----IQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQM   77 (148)
T ss_pred             HHHHHHHcC----ccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHH
Confidence            777888866    556666667777776   56779999999999999999999999999964

>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]

Probab=87.89  E-value=2.6  Score=30.33  Aligned_cols=61  Identities=25%  Similarity=0.275  Sum_probs=48.5

Q ss_pred             hhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceech---hhHHHhhhCc
Q psy17762         29 RIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIP---RHLQLAIRND   90 (124)
Q Consensus        29 ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p---~~i~~AI~~d   90 (124)
                      -|+-+|+.-+ ..-.+...+.-|-..---.+..+++-|.-+|++.|+..|++   +|+++|+..-
T Consensus        19 lihliL~Slg-i~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at~   82 (145)
T COG5094          19 LIHLILRSLG-IEEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALATK   82 (145)
T ss_pred             HHHHHHHhcC-chhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHHH
Confidence            3777777755 45556667777777777788999999999999999988887   9999999753

>PF15510 CENP-W: Centromere kinetochore component W

Probab=86.30  E-value=2.3  Score=28.99  Aligned_cols=65  Identities=18%  Similarity=0.219  Sum_probs=46.2

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHH--------------HHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVY--------------LAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~--------------LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      .-|-+.++|++++..-.-|+..++-..              +.--.=.|+..+.|.|-..|..++-..|.++|+..|-+
T Consensus        16 kaPrgfLkrv~Kr~KphlRl~~~~Dllv~~~~f~~~~~~~~vhLncLLFvhrLAEEaRtnA~EnK~~~Ik~~Hv~AaaK   94 (102)
T PF15510_consen   16 KAPRGFLKRVFKRQKPHLRLETSGDLLVRFCPFSGWQWGGEVHLNCLLFVHRLAEEARTNACENKCGTIKKEHVLAAAK   94 (102)
T ss_pred             hCchHHHHHHHHhcCCceeecccccHHHhhcccccccccceeehhHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHHH
Confidence            468899999999766677777655433              11111235667888888777777888999999987753

>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]

Probab=85.29  E-value=3.4  Score=29.79  Aligned_cols=67  Identities=16%  Similarity=0.245  Sum_probs=43.4

Q ss_pred             ccccchhhhhHHHhcCCc-ccccCCCh-HHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhC
Q psy17762         22 GLQFPVGRIHRLLRKGNY-AERVGAGA-PVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   89 (124)
Q Consensus        22 gl~fPv~ri~R~lk~~~~-~~rvs~~A-~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~   89 (124)
                      ++.+|-+-|....-+.-. .--+..+| -+++.+++||+- -+.-.|...|.+..+++|.++||-.|+.|
T Consensus         9 e~sLPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~-~lsseAne~ce~EaKKTIa~EHviKALen   77 (148)
T COG5150           9 ENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFIN-MLSSEANEACEEEAKKTIAYEHVIKALEN   77 (148)
T ss_pred             cccCcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhccccHHHHHHHHHh
Confidence            567777777766554321 12334444 456666666553 34445667778888899999999999865

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	124
2nqb_C	123	Drosophila Nucleosome Structure Length = 123		2e-53
2pyo_C	120	Drosophila Nucleosome Core Length = 120		7e-52
3c1b_C	129	The Effect Of H3 K79 Dimethylation And H4 K20 Trime		3e-49
1zbb_C	129	Structure Of The 4_601_167 Tetranucleosome Length =		3e-49
2hio_A	128	Histone Octamer (Chicken), Chromosomal Protein Leng		3e-49
1eqz_A	129	X-Ray Structure Of The Nucleosome Core Particle At		3e-49
3a6n_C	133	The Nucleosome Containing A Testis-Specific Histone		4e-49
1m18_C	129	Ligand Binding Alters The Structure And Dynamics Of		4e-49
2cv5_C	130	Crystal Structure Of Human Nucleosome Core Particle		4e-49
2f8n_K	149	2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a Nuc		5e-49
1zla_C	129	X-Ray Structure Of A Kaposi's Sarcoma Herpesvirus L		4e-48
3kwq_C	107	Structural Characterization Of H3k56q Nucleosomes A		6e-48
1s32_C	119	Molecular Recognition Of The Nucleosomal 'supergroo		2e-47
1aoi_C	116	Complex Between Nucleosome Core Particle (H3,H4,H2a		2e-47
1kx3_C	128	X-Ray Structure Of The Nucleosome Core Particle, Nc		2e-46
1id3_C	131	Crystal Structure Of The Yeast Nucleosome Core Part		9e-45
1hio_A	95	Histone Octamer (Chicken), Chromosomal Protein, Alp		3e-42
2xql_A	91	Fitting Of The H2a-H2b Histones In The Electron Mic		8e-40
1u35_C	120	Crystal Structure Of The Nucleosome Core Particle C		3e-32
1f66_C	128	2.6 A Crystal Structure Of A Nucleosome Core Partic		4e-28
2jss_A	192	Nmr Structure Of Chaperone Chz1 Complexed With Hist		2e-25
1q9c_A	191	Crystal Structure Of The Histone Domain Of Son Of S		2e-05
3ksy_A	1049	Crystal Structure Of The Histone Domain, Dh-Ph Unit		3e-05

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

Iteration: 1
 Score =  203 bits (517), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 102/102 (100%), Positives = 102/102 (100%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH
Sbjct: 22  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 81
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 124
           LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA
Sbjct: 82  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 123

>pdb|2PYO|C Chain C, Drosophila Nucleosome Core Length = 120

Iteration: 1
 Score =  198 bits (503), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 99/99 (100%), Positives = 99/99 (100%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH
Sbjct: 22  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 81
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 121
           LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE
Sbjct: 82  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 120

>pdb|3C1B|C Chain C, The Effect Of H3 K79 Dimethylation And H4 K20 Trimethylation On Nucleosome And Chromatin Structure Length = 129

Iteration: 1
 Score =  189 bits (481), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 91/99 (91%), Positives = 96/99 (96%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL AE+LELAGNAARDNKKTRIIPRH
Sbjct: 23  LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 82
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 121
           LQLA+RNDEELNKLL  VTIAQGGVLPNIQ+VLLPKKTE
Sbjct: 83  LQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTE 121

>pdb|1ZBB|C Chain C, Structure Of The 4_601_167 Tetranucleosome Length = 129

Iteration: 1
 Score =  189 bits (480), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 91/99 (91%), Positives = 96/99 (96%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL AE+LELAGNAARDNKKTRIIPRH
Sbjct: 23  LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 82
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 121
           LQLA+RNDEELNKLL  VTIAQGGVLPNIQ+VLLPKKTE
Sbjct: 83  LQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTE 121

>pdb|2HIO|A Chain A, Histone Octamer (Chicken), Chromosomal Protein Length = 128

Iteration: 1
 Score =  189 bits (480), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 92/99 (92%), Positives = 96/99 (96%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL AE+LELAGNAARDNKKTRIIPRH
Sbjct: 23  LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 82
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 121
           LQLAIRNDEELNKLL  VTIAQGGVLPNIQAVLLPKKT+
Sbjct: 83  LQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPKKTD 121

>pdb|1EQZ|A Chain A, X-Ray Structure Of The Nucleosome Core Particle At 2.5 A Resolution Length = 129

Iteration: 1
 Score =  189 bits (480), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 92/99 (92%), Positives = 96/99 (96%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL AE+LELAGNAARDNKKTRIIPRH
Sbjct: 24  LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 83
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 121
           LQLAIRNDEELNKLL  VTIAQGGVLPNIQAVLLPKKT+
Sbjct: 84  LQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPKKTD 122

>pdb|3A6N|C Chain C, The Nucleosome Containing A Testis-Specific Histone Variant, Human H3t Length = 133

Iteration: 1
 Score =  189 bits (480), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 92/99 (92%), Positives = 96/99 (96%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGR+HRLLRKGNY+ERVGAGAPVYLAAV+EYL AE+LELAGNAARDNKKTRIIPRH
Sbjct: 27  LQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 86
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 121
           LQLAIRNDEELNKLL  VTIAQGGVLPNIQAVLLPKKTE
Sbjct: 87  LQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTE 125

>pdb|1M18|C Chain C, Ligand Binding Alters The Structure And Dynamics Of Nucleosomal Dna Length = 129

Iteration: 1
 Score =  189 bits (480), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 91/99 (91%), Positives = 96/99 (96%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL AE+LELAGNAARDNKKTRIIPRH
Sbjct: 23  LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 82
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 121
           LQLA+RNDEELNKLL  VTIAQGGVLPNIQ+VLLPKKTE
Sbjct: 83  LQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTE 121

>pdb|2CV5|C Chain C, Crystal Structure Of Human Nucleosome Core Particle Length = 130

Iteration: 1
 Score =  189 bits (479), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 92/99 (92%), Positives = 96/99 (96%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGR+HRLLRKGNY+ERVGAGAPVYLAAV+EYL AE+LELAGNAARDNKKTRIIPRH
Sbjct: 24  LQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 83
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 121
           LQLAIRNDEELNKLL  VTIAQGGVLPNIQAVLLPKKTE
Sbjct: 84  LQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTE 122

>pdb|2F8N|K Chain K, 2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a Nucleosomes Length = 149

Iteration: 1
 Score =  189 bits (479), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 92/99 (92%), Positives = 96/99 (96%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGR+HRLLRKGNY+ERVGAGAPVYLAAV+EYL AE+LELAGNAARDNKKTRIIPRH
Sbjct: 43  LQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 102
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 121
           LQLAIRNDEELNKLL  VTIAQGGVLPNIQAVLLPKKTE
Sbjct: 103 LQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTE 141

>pdb|1ZLA|C Chain C, X-Ray Structure Of A Kaposi's Sarcoma Herpesvirus Lana Peptide Bound To The Nucleosomal Core Length = 129

Iteration: 1
 Score =  186 bits (471), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 89/99 (89%), Positives = 94/99 (94%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL AE+LELAGN  RDNKKTRIIPRH
Sbjct: 23  LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNWERDNKKTRIIPRH 82
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 121
           LQLA+RNDEELNKLL  VTIAQGGVLPNIQ+VLLPKKTE
Sbjct: 83  LQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTE 121

>pdb|3KWQ|C Chain C, Structural Characterization Of H3k56q Nucleosomes And Nucleo Arrays Length = 107

Iteration: 1
 Score =  185 bits (469), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 90/98 (91%), Positives = 95/98 (96%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL AE+LELAGNAARDNKKTRIIPRH
Sbjct: 10  LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 69
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           LQLA+RNDEELNKLL  VTIAQGGVLPNIQ+VLLPKKT
Sbjct: 70  LQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKT 107

>pdb|1S32|C Chain C, Molecular Recognition Of The Nucleosomal 'supergroove' Length = 119

Iteration: 1
 Score =  183 bits (465), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 89/97 (91%), Positives = 94/97 (96%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL AE+LELAGNAARDNKKTRIIPRH
Sbjct: 23  LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 82
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
           LQLA+RNDEELNKLL  VTIAQGGVLPNIQ+VLLPKK
Sbjct: 83  LQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKK 119

>pdb|1AOI|C Chain C, Complex Between Nucleosome Core Particle (H3,H4,H2a,H2b) And 146 Bp Long Dna Fragment Length = 116

Iteration: 1
 Score =  183 bits (465), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 89/97 (91%), Positives = 94/97 (96%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL AE+LELAGNAARDNKKTRIIPRH
Sbjct: 20  LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 79
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
           LQLA+RNDEELNKLL  VTIAQGGVLPNIQ+VLLPKK
Sbjct: 80  LQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKK 116

>pdb|1KX3|C Chain C, X-Ray Structure Of The Nucleosome Core Particle, Ncp146, At 2.0 A Resolution Length = 128

Iteration: 1
 Score =  180 bits (456), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 87/95 (91%), Positives = 92/95 (96%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL AE+LELAGNAARDNKKTRIIPRH
Sbjct: 23  LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 82
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLP 117
           LQLA+RNDEELNKLL  VTIAQGGVLPNIQ+VLLP
Sbjct: 83  LQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLP 117

>pdb|1ID3|C Chain C, Crystal Structure Of The Yeast Nucleosome Core Particle Reveals Fundamental Differences In Inter-Nucleosome Interactions Length = 131

Iteration: 1
 Score =  174 bits (442), Expect = 9e-45,   Method: Compositional matrix adjust.
 Identities = 83/100 (83%), Positives = 92/100 (92%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           L FPVGR+HRLLR+GNYA+R+G+GAPVYL AV+EYLAAE+LELAGNAARDNKKTRIIPRH
Sbjct: 24  LTFPVGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYLAAEILELAGNAARDNKKTRIIPRH 83
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEK 122
           LQLAIRND+ELNKLL  VTIAQGGVLPNI   LLPKK+ K
Sbjct: 84  LQLAIRNDDELNKLLGNVTIAQGGVLPNIHQNLLPKKSAK 123

>pdb|1HIO|A Chain A, Histone Octamer (Chicken), Chromosomal Protein, Alpha Carbons Only Length = 95

Iteration: 1
 Score =  166 bits (420), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 81/87 (93%), Positives = 84/87 (96%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL AE+LELAGNAARDNKKTRIIPRH
Sbjct: 9   LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 68
Query: 83  LQLAIRNDEELNKLLSGVTIAQGGVLP 109
           LQLAIRNDEELNKLL  VTIAQGGVLP
Sbjct: 69  LQLAIRNDEELNKLLGKVTIAQGGVLP 95

>pdb|2XQL|A Chain A, Fitting Of The H2a-H2b Histones In The Electron Microscopy Map Of The Complex Nucleoplasmin:h2a-H2b Histones (1:5). Length = 91

Iteration: 1
 Score =  158 bits (399), Expect = 8e-40,   Method: Compositional matrix adjust.
 Identities = 77/83 (92%), Positives = 80/83 (96%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           LQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL AE+LELAGNAARDNKKTRIIPRH
Sbjct: 9   LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 68
Query: 83  LQLAIRNDEELNKLLSGVTIAQG 105
           LQLAIRNDEELNKLL  VTIAQG
Sbjct: 69  LQLAIRNDEELNKLLGKVTIAQG 91

>pdb|1U35|C Chain C, Crystal Structure Of The Nucleosome Core Particle Containing The Histone Domain Of Macroh2a Length = 120

Iteration: 1
 Score =  133 bits (334), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 65/95 (68%), Positives = 77/95 (81%)
Query: 25  FPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQ 84
           FPVGR+ R ++KG+   R+G GAPVY+AAV+EYL AE+LELA NAARDNKK R+ PRH+ 
Sbjct: 23  FPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELAVNAARDNKKGRVTPRHIL 82
Query: 85  LAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
           LA+ NDEELN+LL GVTIA GGVLPNI   LL KK
Sbjct: 83  LAVANDEELNQLLKGVTIASGGVLPNIHPELLAKK 117

>pdb|1F66|C Chain C, 2.6 A Crystal Structure Of A Nucleosome Core Particle Containing The Variant Histone H2a.Z Length = 128

Iteration: 1
 Score =  119 bits (298), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 63/102 (61%), Positives = 76/102 (74%), Gaps = 2/102 (1%)
Query: 23  LQFPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPR 81
           LQFPVGRIHR L+    +  RVGA A VY AA++EYL AEVLELAGNA++D K  RI PR
Sbjct: 26  LQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPR 85
Query: 82  HLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKK 123
           HLQLAIR DEEL+ L+   TIA GGV+P+I   L+ KK ++K
Sbjct: 86  HLQLAIRGDEELDSLIK-ATIAGGGVIPHIHKSLIGKKGQQK 126

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

Iteration: 1
 Score =  110 bits (275), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 59/90 (65%), Positives = 67/90 (74%), Gaps = 2/90 (2%)
Query: 23  LQFPVGRIHRLL-RKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPR 81
           LQFPVGRI R L R      RVG+ A +YL AV+EYL AEVLELAGNAA+D K  RI PR
Sbjct: 104 LQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNAAKDLKVKRITPR 163
Query: 82  HLQLAIRNDEELNKLLSGVTIAQGGVLPNI 111
           HLQLAIR D+EL+ L+   TIA GGVLP+I
Sbjct: 164 HLQLAIRGDDELDSLIRA-TIASGGVLPHI 192

>pdb|1Q9C|A Chain A, Crystal Structure Of The Histone Domain Of Son Of Sevenless Length = 191

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 43/71 (60%), Gaps = 1/71 (1%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           L  PV +IH LL++     ++     VY+ AV+EY++A++L+LAGN  R+ +   I  + 
Sbjct: 103 LSLPVEKIHPLLKEV-LGYKIDHQVSVYIVAVLEYISADILKLAGNYVRNIRHYEITKQD 161
Query: 83  LQLAIRNDEEL 93
           +++A   D+ L
Sbjct: 162 IKVAXCADKVL 172

>pdb|3KSY|A Chain A, Crystal Structure Of The Histone Domain, Dh-Ph Unit, And Catalytic Unit Of The Ras Activator Son Of Sevenless (Sos) Length = 1049

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/71 (32%), Positives = 43/71 (60%), Gaps = 1/71 (1%)
Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82
           L  PV +IH LL++     ++     VY+ AV+EY++A++L+L GN  R+ +   I  + 
Sbjct: 103 LSLPVEKIHPLLKE-VLGYKIDHQVSVYIVAVLEYISADILKLVGNYVRNIRHYEITKQD 161
Query: 83  LQLAIRNDEEL 93
           +++A+  D+ L
Sbjct: 162 IKVAMCADKVL 172

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	124
2nqb_C	123	Histone H2A; nucleosome, NCP, chromatin, structura	5e-54
2f8n_K	149	Histone H2A type 1; nucleosome, NCP, macroh2A, his	1e-53
1tzy_A	129	Histone H2A-IV; histone-fold, tetramer-dimer-dimer	1e-53
2f8n_G	120	Core histone macro-H2A.1; nucleosome, NCP, macroh2	5e-51
1id3_C	131	Histone H2A.1; nucleosome core particle, chromatin	2e-47
1f66_C	128	Histone H2A.Z; nucleosome, chromatin, histone vari	5e-44
2jss_A	192	Chimera of histone H2B.1 and histone H2A.Z; histon	2e-29
1jfi_A	98	Transcription regulator NC2 alpha chain; histone,	3e-22
1n1j_B	97	NF-YC; histone-like PAIR, DNA binding protein; 1.6	3e-10
3ksy_A	1049	SOS-1, SON of sevenless homolog 1; RAS, RAS activa	3e-10
2byk_A	140	Chrac-16; nucleosome sliding, histone fold, DNA-bi	2e-05

>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C* Length = 123

 Score =  164 bits (415), Expect = 5e-54
 Identities = 118/123 (95%), Positives = 121/123 (98%)

Query: 2   SGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE 61
           SGRGKGGK K K+K+RS+RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE
Sbjct: 1   SGRGKGGKVKGKAKSRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE 60

Query: 62  VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 121
           VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE
Sbjct: 61  VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 120

Query: 122 KKA 124
           KKA
Sbjct: 121 KKA 123

>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 Length = 149

 Score =  164 bits (416), Expect = 1e-53
 Identities = 112/125 (89%), Positives = 118/125 (94%), Gaps = 1/125 (0%)

Query: 1   MSGRGK-GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 59
           MSGRGK GGKA+AK+KTRSSRAGLQFPVGR+HRLLRKGNY+ERVGAGAPVYLAAV+EYL 
Sbjct: 20  MSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLT 79

Query: 60  AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
           AE+LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL  VTIAQGGVLPNIQAVLLPKK
Sbjct: 80  AEILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKK 139

Query: 120 TEKKA 124
           TE   
Sbjct: 140 TESHH 144

>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 ... Length = 129

 Score =  163 bits (413), Expect = 1e-53
 Identities = 111/125 (88%), Positives = 118/125 (94%), Gaps = 1/125 (0%)

Query: 1   MSGRGK-GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 59
           MSGRGK GGKA+AK+K+RSSRAGLQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL 
Sbjct: 1   MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLT 60

Query: 60  AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
           AE+LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL  VTIAQGGVLPNIQAVLLPKK
Sbjct: 61  AEILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPKK 120

Query: 120 TEKKA 124
           T+   
Sbjct: 121 TDSHK 125

>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 Length = 120

 Score =  156 bits (396), Expect = 5e-51
 Identities = 76/121 (62%), Positives = 93/121 (76%), Gaps = 2/121 (1%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
           MS RG  GK K+   +RS++AG+ FPVGR+ R ++KG+   R+G GAPVY+AAV+EYL A
Sbjct: 1   MSSRG--GKKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTA 58

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           E+LELA NAARDNKK R+ PRH+ LA+ NDEELN+LL GVTIA GGVLPNI   LL KK 
Sbjct: 59  EILELAVNAARDNKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPELLAKKR 118

Query: 121 E 121
            
Sbjct: 119 G 119

>1id3_C Histone H2A.1; nucleosome core particle, chromatin, protein/DNA interaction, nucleoprotein, supercoiled DNA; 3.10A {Saccharomyces cerevisiae} SCOP: a.22.1.1 Length = 131

 Score =  148 bits (373), Expect = 2e-47
 Identities = 93/124 (75%), Positives = 107/124 (86%), Gaps = 1/124 (0%)

Query: 2   SGRG-KGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
            G+G K G A   S++RS++AGL FPVGR+HRLLR+GNYA+R+G+GAPVYL AV+EYLAA
Sbjct: 2   GGKGGKAGSAAKASQSRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYLAA 61

Query: 61  EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 120
           E+LELAGNAARDNKKTRIIPRHLQLAIRND+ELNKLL  VTIAQGGVLPNI   LLPKK+
Sbjct: 62  EILELAGNAARDNKKTRIIPRHLQLAIRNDDELNKLLGNVTIAQGGVLPNIHQNLLPKKS 121

Query: 121 EKKA 124
            K  
Sbjct: 122 AKAT 125

>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 Length = 128

 Score =  139 bits (350), Expect = 5e-44
 Identities = 75/128 (58%), Positives = 91/128 (71%), Gaps = 5/128 (3%)

Query: 1   MSGRGKG---GKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAER-VGAGAPVYLAAVME 56
           M+G   G   GKAK K+ +RS RAGLQFPVGRIHR L+    +   VGA A VY AA++E
Sbjct: 1   MAGGKAGKDSGKAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILE 60

Query: 57  YLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLL 116
           YL AEVLELAGNA++D K  RI PRHLQLAIR DEEL+ L+   TIA GGV+P+I   L+
Sbjct: 61  YLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI-KATIAGGGVIPHIHKSLI 119

Query: 117 PKKTEKKA 124
            KK ++K 
Sbjct: 120 GKKGQQKT 127

>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 =  104 bits (258), Expect = 2e-29
 Identities = 61/100 (61%), Positives = 76/100 (76%), Gaps = 2/100 (2%)

Query: 13  KSKTRSSRAGLQFPVGRIHRLLRKGNYAER-VGAGAPVYLAAVMEYLAAEVLELAGNAAR 71
           ++++ S+RAGLQFPVGRI R L++       VG+ A +YL AV+EYL AEVLELAGNAA+
Sbjct: 94  QAQSSSARAGLQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNAAK 153

Query: 72  DNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNI 111
           D K  RI PRHLQLAIR D+EL+ L+   TIA GGVLP+I
Sbjct: 154 DLKVKRITPRHLQLAIRGDDELDSLI-RATIASGGVLPHI 192

>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 Length = 98

 Score = 83.0 bits (205), Expect = 3e-22
 Identities = 14/77 (18%), Positives = 33/77 (42%)

Query: 16 TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK 75
          ++  +   +FP  RI ++++      +V A  PV ++  +E     +L+ A    +    
Sbjct: 3  SKKKKYNARFPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNA 62

Query: 76 TRIIPRHLQLAIRNDEE 92
            +   HL+  I  + +
Sbjct: 63 KTMTTSHLKQCIELEGD 79

>1n1j_B NF-YC; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens} SCOP: a.22.1.3 Length = 97

 Score = 52.3 bits (125), Expect = 3e-10
 Identities = 15/70 (21%), Positives = 31/70 (44%)

Query: 24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHL 83
          + P+ RI ++++     + + A APV  A   +    E+   A     DNK+  +    +
Sbjct: 19 ELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDI 78

Query: 84 QLAIRNDEEL 93
           +AI   ++ 
Sbjct: 79 AMAITKFDQF 88

>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 Length = 1049

 Score = 55.2 bits (132), Expect = 3e-10
 Identities = 26/84 (30%), Positives = 49/84 (58%), Gaps = 1/84 (1%)

Query: 10  AKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNA 69
           A++  + R  R  L  PV +IH LL++     ++     VY+ AV+EY++A++L+L GN 
Sbjct: 90  AQSAIEKRKRRNPLSLPVEKIHPLLKEVL-GYKIDHQVSVYIVAVLEYISADILKLVGNY 148

Query: 70  ARDNKKTRIIPRHLQLAIRNDEEL 93
            R+ +   I  + +++A+  D+ L
Sbjct: 149 VRNIRHYEITKQDIKVAMCADKVL 172

>2byk_A Chrac-16; nucleosome sliding, histone fold, DNA-binding protein; 2.4A {Drosophila melanogaster} SCOP: a.22.1.3 PDB: 2bym_A Length = 140

 Score = 40.1 bits (93), Expect = 2e-05
 Identities = 10/88 (11%), Positives = 23/88 (26%), Gaps = 1/88 (1%)

Query: 7  GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELA 66
          G         R   A    P+ R+  +++       +       +    E     +   A
Sbjct: 2  GEPRSQPPVERPPTAETFLPLSRVRTIMKSSMDTGLITNEVLFLMTKCTELFVRHLAGAA 61

Query: 67 GNAARDNKKTRII-PRHLQLAIRNDEEL 93
                 +    +   HL   +  ++ L
Sbjct: 62 YTEEFGQRPGEALKYEHLSQVVNKNKNL 89

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	124
2nqb_C	123	Histone H2A; nucleosome, NCP, chromatin, structura	100.0
1tzy_A	129	Histone H2A-IV; histone-fold, tetramer-dimer-dimer	100.0
2f8n_G	120	Core histone macro-H2A.1; nucleosome, NCP, macroh2	100.0
2f8n_K	149	Histone H2A type 1; nucleosome, NCP, macroh2A, his	100.0
1id3_C	131	Histone H2A.1; nucleosome core particle, chromatin	100.0
1f66_C	128	Histone H2A.Z; nucleosome, chromatin, histone vari	100.0
2jss_A	192	Chimera of histone H2B.1 and histone H2A.Z; histon	100.0
1jfi_A	98	Transcription regulator NC2 alpha chain; histone,	99.91
3ksy_A	1049	SOS-1, SON of sevenless homolog 1; RAS, RAS activa	99.91
1n1j_B	97	NF-YC; histone-like PAIR, DNA binding protein; 1.6	99.83
1tzy_D	103	Histone H4-VI; histone-fold, tetramer-dimer-dimer,	99.83
2yfw_B	103	Histone H4, H4; cell cycle, kinetochore, centromer	99.83
4g92_C	119	HAPE; transcription factor, nucleosome, minor groo	99.81
2byk_A	140	Chrac-16; nucleosome sliding, histone fold, DNA-bi	99.76
1f1e_A	154	Histone fold protein; archaeal histone protein, DN	99.57
1id3_B	102	Histone H4; nucleosome core particle, chromatin, p	99.51
1ku5_A	70	HPHA, archaeal histon; histone fold, DNA binding p	99.44
1b67_A	68	Protein (histone HMFA); DNA binding protein; 1.48A	99.4
2hue_C	84	Histone H4; mini beta sheet, elongated beta sandwh	99.27
1n1j_A	93	NF-YB; histone-like PAIR, DNA binding protein; 1.6	99.21
3b0c_W	76	CENP-W, centromere protein W; histone fold, DNA bi	99.07
1f1e_A	154	Histone fold protein; archaeal histone protein, DN	99.06
2byk_B	128	Chrac-14; nucleosome sliding, histone fold, DNA-bi	99.05
1taf_B	70	TFIID TBP associated factor 62; transcription init	99.03
3b0c_T	111	CENP-T, centromere protein T; histone fold, DNA bi	98.94
1taf_A	68	TFIID TBP associated factor 42; transcription init	98.84
1jfi_B	179	DR1 protein, transcription regulator NC2 beta chai	98.72
2hue_B	77	Histone H3; mini beta sheet, elongated beta sandwh	98.52
3v9r_A	90	MHF1, uncharacterized protein YOL086W-A; histone f	98.48
4dra_A	113	Centromere protein S; DNA binding complex, DNA dam	98.47
2l5a_A	235	Histone H3-like centromeric protein CSE4, protein	98.45
2ly8_A	121	Budding yeast chaperone SCM3; centromere protein,	98.39
3nqj_A	82	Histone H3-like centromeric protein A; alpha helix	98.39
3b0b_B	107	CENP-S, centromere protein S; histone fold, DNA bi	98.35
3nqu_A	140	Histone H3-like centromeric protein A; alpha helix	98.22
2yfv_A	100	Histone H3-like centromeric protein CSE4; cell cyc	98.21
1tzy_C	136	Histone H3; histone-fold, tetramer-dimer-dimer, DN	98.2
3r45_A	156	Histone H3-like centromeric protein A; histone fol	98.19
3vh5_A	140	CENP-S; histone fold, chromosome segregation, DNA	98.15
2nqb_D	123	Histone H2B; nucleosome, NCP, chromatin, structura	98.09
1tzy_B	126	Histone H2B; histone-fold, tetramer-dimer-dimer, D	98.03
2jss_A	192	Chimera of histone H2B.1 and histone H2A.Z; histon	97.57
1bh9_B	89	TAFII28; histone fold, tata binding protein, trans	96.88
3b0b_C	81	CENP-X, centromere protein X; histone fold, DNA bi	96.66
4dra_E	84	Centromere protein X; DNA binding complex, DNA dam	96.61
1h3o_B	76	Transcription initiation factor TFIID 20/15 kDa su	95.85
2l5a_A	235	Histone H3-like centromeric protein CSE4, protein	94.32
1wwi_A	148	Hypothetical protein TTHA1479; structural genomics	90.58
1k6k_A	143	ATP-dependent CLP protease ATP-binding subunit CLP	87.43
1khy_A	148	CLPB protein; alpha helix, chaperone; 1.95A {Esche	83.24
1r4v_A	171	Hypothetical protein AQ_328; structural genomics,	82.92
3fes_A	145	ATP-dependent CLP endopeptidase; alpha-helical bun	82.43
2y1q_A	150	CLPC N-domain, negative regulator of genetic compe	80.94
3fh2_A	146	Probable ATP-dependent protease (heat shock prote;	80.19

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

Probab=100.00  E-value=3.1e-50  Score=284.64  Aligned_cols=123  Identities=96%  Similarity=1.346  Sum_probs=105.3

Q ss_pred             CCCCCCCCCCCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechh
Q psy17762          2 SGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPR   81 (124)
Q Consensus         2 ~~~gk~~~~~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~   81 (124)
                      ||+||+|+.+++.+|+|+|+||+|||+||+|||+++++++||+++|+|||+|+||||++||+|+|+++|.++++++|+|+
T Consensus         1 ~~~~~~~~~~~~~~s~s~ragL~fPV~ri~R~Lk~~~~a~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp~   80 (123)
T 2nqb_C            1 SGRGKGGKVKGKAKSRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPR   80 (123)
T ss_dssp             ------------CCCHHHHHTCSSCHHHHHHHHHHTTSCSEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHH
T ss_pred             CCCCCCCCCCCCCCCccccCCeeccHHHHHHHHHccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccHH
Confidence            47788888888999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHhhhCchHHhhhhcCceeccCccCCCccccccCcccccCC
Q psy17762         82 HLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA  124 (124)
Q Consensus        82 ~i~~AI~~d~eL~~L~~~~~i~~gg~~p~~~~~~~~~k~~~~~  124 (124)
                      ||++||+||+|||+||+++||++|||+|+||++|++||+++|+
T Consensus        81 hi~lAI~nDeEL~~Ll~~vtia~ggvlp~i~~~l~~k~~~~~~  123 (123)
T 2nqb_C           81 HLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA  123 (123)
T ss_dssp             HHHHHHHTSHHHHHHTTTEEETTCCCCCCCCGGGSSCC-----
T ss_pred             HHHHHHhccHHHHHHhcCceeCCCCcCCCccHHHcCcccccCC
Confidence            9999999999999999999999999999999999999998875

>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=100.00  E-value=7.1e-50  Score=284.78  Aligned_cols=123  Identities=90%  Similarity=1.309  Sum_probs=105.0

Q ss_pred             CCCCCC-CCCCCCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceec
Q psy17762          1 MSGRGK-GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRII   79 (124)
Q Consensus         1 m~~~gk-~~~~~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~   79 (124)
                      |||+|| +++.+++.+|+|+|+||+|||+||+|||+++.+++||+++|+|||+|+||||++||+|+|+++|.++++++|+
T Consensus         1 m~~~~~~~~~~~~~~~srS~ragLqfPV~rI~R~Lk~~~~a~RVs~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krIt   80 (129)
T 1tzy_A            1 MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRII   80 (129)
T ss_dssp             -------------CCCCHHHHHTCSSCHHHHHHHHHHTTSSSEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEEC
T ss_pred             CCCCCCCCCCCCCCCCCccccCceeccHHHHHHHHHccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEc
Confidence            899888 7777888999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHhhhCchHHhhhhcCceeccCccCCCccccccCcccccC
Q psy17762         80 PRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKK  123 (124)
Q Consensus        80 p~~i~~AI~~d~eL~~L~~~~~i~~gg~~p~~~~~~~~~k~~~~  123 (124)
                      |+||++||+||+|||+||+++||++|||+|+||++|++||+++|
T Consensus        81 p~hi~lAI~nDeEL~~L~~~vtIa~ggvlP~i~~~l~~k~~~~~  124 (129)
T 1tzy_A           81 PRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPKKTDSH  124 (129)
T ss_dssp             HHHHHHHHHTSHHHHHHTTTEEETTCCCCCCCCGGGSCC-----
T ss_pred             HHHHHHHHhccHHHHHHhCCCeecCCCcCCCCCHHHcCcccccc
Confidence            99999999999999999999999999999999999999998764

>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=100.00  E-value=2.6e-49  Score=278.85  Aligned_cols=119  Identities=64%  Similarity=0.992  Sum_probs=106.7

Q ss_pred             CCCCCCCCCCCCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceech
Q psy17762          1 MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIP   80 (124)
Q Consensus         1 m~~~gk~~~~~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p   80 (124)
                      |||+|  |+.+++.+|+|+|+||+|||+||+|||++++|++||+++|+|||+|+||||++||+|+|+++|+++++++|+|
T Consensus         1 m~~~~--~~~~~~~~srs~ragLqfPV~ri~R~Lk~~~~a~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~~rItp   78 (120)
T 2f8n_G            1 MSSRG--GKKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELAVNAARDNKKGRVTP   78 (120)
T ss_dssp             -----------CCCCCHHHHHTCSSCHHHHHHHHHHHSSSCEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECH
T ss_pred             CCCCC--CCCCcCCcCcccccCccCChHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHhhcCCceEcH
Confidence            88765  6777788999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHhhhCchHHhhhhcCceeccCccCCCccccccCcccc
Q psy17762         81 RHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE  121 (124)
Q Consensus        81 ~~i~~AI~~d~eL~~L~~~~~i~~gg~~p~~~~~~~~~k~~  121 (124)
                      +||++||+||+|||+||+++||++|||+|+||++|++||++
T Consensus        79 ~hi~lAI~nDeEL~~Ll~~vtia~ggv~p~i~~~l~~k~~~  119 (120)
T 2f8n_G           79 RHILLAVANDEELNQLLKGVTIASGGVLPNIHPELLAKKRG  119 (120)
T ss_dssp             HHHHHHHHTSHHHHHHTTTEEETTCCCCCCCCGGGSCCC--
T ss_pred             HHHHHHHhcCHHHHHHhCCceECCCCcCCCcCHHHcCCccC
Confidence            99999999999999999999999999999999999999875

>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=100.00  E-value=7e-49  Score=285.09  Aligned_cols=123  Identities=90%  Similarity=1.290  Sum_probs=104.2

Q ss_pred             CCCCCCC-CCCCCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceec
Q psy17762          1 MSGRGKG-GKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRII   79 (124)
Q Consensus         1 m~~~gk~-~~~~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~   79 (124)
                      |+|+||+ |+.+++.+|+|+|+||+|||+||+|||+++++++||+++|+|||+||||||++||+|+|+++|.++++++|+
T Consensus        20 ~~~~~~~~~~~~~k~~srS~ragLqFPVgrI~R~LK~~~~a~RVs~~A~VyLAAVLEYL~aEILelAgn~A~~~krkrIt   99 (149)
T 2f8n_K           20 MSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRII   99 (149)
T ss_dssp             --------------CCCHHHHHTCSSCHHHHHHHHHHTTSCSEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEEC
T ss_pred             cccCCCCCCCCCCCCCCccccCCeeccHHHHHHHHHccccccccCcCcHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCc
Confidence            8888885 777888999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHhhhCchHHhhhhcCceeccCccCCCccccccCcccccC
Q psy17762         80 PRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKK  123 (124)
Q Consensus        80 p~~i~~AI~~d~eL~~L~~~~~i~~gg~~p~~~~~~~~~k~~~~  123 (124)
                      |+||++||+||+|||+||+++||++|||+|+||++|++||++++
T Consensus       100 prhI~lAI~nDeEL~~Ll~~vtIa~gGVlP~i~~~l~~k~~~~~  143 (149)
T 2f8n_K          100 PRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTESH  143 (149)
T ss_dssp             HHHHHHHHHHSHHHHHHTTTEEETTCCCCCCCCGGGSCC-----
T ss_pred             HHHHHHHHhccHHHHHHhcCceEcCCCCCCCccHHHcCcccccc
Confidence            99999999999999999999999999999999999999998764

>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=100.00  E-value=7.3e-48  Score=275.03  Aligned_cols=119  Identities=77%  Similarity=1.192  Sum_probs=107.2

Q ss_pred             CCCCCCCCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHH
Q psy17762          5 GKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQ   84 (124)
Q Consensus         5 gk~~~~~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~   84 (124)
                      ||+++.+++.+|+|+|+||+|||+||+|||+++.+++||+++|+|||+|+||||++||+|+|+++|.++++++|+|+||+
T Consensus         6 ~~~~~~~~~~~srS~ragLqfPV~rI~R~Lk~~~~a~RVs~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp~hI~   85 (131)
T 1id3_C            6 GKAGSAAKASQSRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYLAAEILELAGNAARDNKKTRIIPRHLQ   85 (131)
T ss_dssp             ----------CCTTGGGTCSSCHHHHHHHHHTTCSCSEECSSHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHH
T ss_pred             CCCCCCCCCCCCccccCCeecCHHHHHHHHHccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceEcHHHHH
Confidence            44566677889999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhCchHHhhhhcCceeccCccCCCccccccCcccccC
Q psy17762         85 LAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKK  123 (124)
Q Consensus        85 ~AI~~d~eL~~L~~~~~i~~gg~~p~~~~~~~~~k~~~~  123 (124)
                      +||+||+|||+||+++||++|||+|+||++|++||++++
T Consensus        86 lAI~nDeEL~~Ll~~vtIa~ggvlP~i~~~l~~k~~~~~  124 (131)
T 1id3_C           86 LAIRNDDELNKLLGNVTIAQGGVLPNIHQNLLPKKSAKA  124 (131)
T ss_dssp             HHHHTCHHHHHHTTTEEETTCCCCCCCCGGGSCCSCCSC
T ss_pred             HHHhccHHHHHHhcCceecCCccCCCccHHHcCcccccc
Confidence            999999999999999999999999999999999998865

>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=100.00  E-value=2.2e-47  Score=271.59  Aligned_cols=122  Identities=63%  Similarity=0.939  Sum_probs=99.5

Q ss_pred             CCCC--CC-CCCCCCccCCCCcccccccchhhhhHHHhcCCcc-cccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCc
Q psy17762          1 MSGR--GK-GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYA-ERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKT   76 (124)
Q Consensus         1 m~~~--gk-~~~~~~~~~s~s~ragl~fPv~ri~R~lk~~~~~-~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k   76 (124)
                      |||.  |+ +++.+++.+|+|+|+||+|||+||+|||++++|+ +||+++|+|||+||||||++||+|+|+++|++++++
T Consensus         1 m~~~~~~~~~~~~~~~~~srS~ragLqfPV~ri~R~Lk~~~~a~~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~k   80 (128)
T 1f66_C            1 MAGGKAGKDSGKAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVK   80 (128)
T ss_dssp             ----------------CCCHHHHHTCSSCHHHHHHHHHHTSCSSCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCS
T ss_pred             CCCCCCCCCCCCcCCCCcCccccCCccCChHHHHHHHHHcccchhhccccHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            6742  22 4455667899999999999999999999999977 599999999999999999999999999999999999


Q ss_pred             eechhhHHHhhhCchHHhhhhcCceeccCccCCCccccccCcccccC
Q psy17762         77 RIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKK  123 (124)
Q Consensus        77 ~I~p~~i~~AI~~d~eL~~L~~~~~i~~gg~~p~~~~~~~~~k~~~~  123 (124)
                      +|+|+||++||+||+|||+||+ .||++|||+|+||++|++||+++|
T Consensus        81 rItprhi~lAI~nDeEL~~Ll~-~tia~ggv~P~i~~~l~~k~~~~~  126 (128)
T 1f66_C           81 RITPRHLQLAIRGDEELDSLIK-ATIAGGGVIPHIHKSLIGKKGQQK  126 (128)
T ss_dssp             EECHHHHHHHHHHSHHHHHHCC-SEETTCCCCCCCCGGGC-------
T ss_pred             eEcHHHHHHHHhccHHHhhhhc-ceecCCccCCCCCHHhcCcccccC
Confidence            9999999999999999999996 599999999999999999998775

>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=100.00  E-value=1.3e-36  Score=228.83  Aligned_cols=98  Identities=63%  Similarity=0.989  Sum_probs=94.0

Q ss_pred             ccCCCCcccccccchhhhhHHHhcCCcc-cccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCch
Q psy17762         13 KSKTRSSRAGLQFPVGRIHRLLRKGNYA-ERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE   91 (124)
Q Consensus        13 ~~~s~s~ragl~fPv~ri~R~lk~~~~~-~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~   91 (124)
                      +..|+|+|+||+|||+||+|||++++++ .||+++|+|||+|+||||++||+|+|+++|+++++++|+|+||++||+||+
T Consensus        94 ~~~s~s~ragl~fPv~ri~R~lk~~~~a~~Rv~~~A~vyLaavLEyl~~eIlelA~n~a~~~~~~~I~p~~i~lAi~nD~  173 (192)
T 2jss_A           94 QAQSSSARAGLQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNAAKDLKVKRITPRHLQLAIRGDD  173 (192)
T ss_dssp             SSSCHHHHSSCCSCHHHHHHHHHHTTCSSCCCCTTTHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHHHHTSH
T ss_pred             ccccccccCCCcCCHHHHHHHHHhcCccccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHhccH
Confidence            5679999999999999999999998776 799999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhhcCceeccCccCCCc
Q psy17762         92 ELNKLLSGVTIAQGGVLPNI  111 (124)
Q Consensus        92 eL~~L~~~~~i~~gg~~p~~  111 (124)
                      |||+||+ .+|++|||+|||
T Consensus       174 eL~~L~~-~ti~~ggv~p~i  192 (192)
T 2jss_A          174 ELDSLIR-ATIASGGVLPHI  192 (192)
T ss_dssp             HHHHHHC-SCCTTTCCSSCC
T ss_pred             HHHHHHh-hhhcCCCcCCCC
Confidence            9999996 699999999997

>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=99.91  E-value=1.1e-24  Score=148.18  Aligned_cols=81  Identities=17%  Similarity=0.345  Sum_probs=62.5

Q ss_pred             CCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhh
Q psy17762         17 RSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKL   96 (124)
Q Consensus        17 ~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L   96 (124)
                      ++.+++++||++||+|+||.+.+..|||.+|++|+++++|||+.||+++|++.|.++++++|+|+||..||++|++|++|
T Consensus         4 ~~kk~~~~fPvaRIkrimK~~~~~~~vs~~A~v~la~a~E~Fi~el~~~A~~~a~~~krktI~~~di~~av~~~e~l~FL   83 (98)
T 1jfi_A            4 KKKKYNARFPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQCIELEGDPAAN   83 (98)
T ss_dssp             ------CCCCHHHHHHHHTTSTTCCCBCTTHHHHHHHHHHHHHHHHHHHHHHHHHTC---CBCHHHHHTTCC--------
T ss_pred             cccccCCCCChHHHHHHHHcCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHhcCchhhHH
Confidence            46788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             h
Q psy17762         97 L   97 (124)
Q Consensus        97 ~   97 (124)
                      +
T Consensus        84 ~   84 (98)
T 1jfi_A           84 K   84 (98)
T ss_dssp             -
T ss_pred             H
Confidence            9

>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=99.91  E-value=3.9e-25  Score=198.10  Aligned_cols=102  Identities=26%  Similarity=0.438  Sum_probs=82.1

Q ss_pred             ccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchH
Q psy17762         13 KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE   92 (124)
Q Consensus        13 ~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~e   92 (124)
                      .-.|+|+||||+|||+||+|+| ++.|++||+.+|||||+||||||++||||+|+|+|++.++.+|+|+||++|+++|+|
T Consensus        93 ~~~~~~~~~~l~~pv~~~~~~l-~~~~~~r~~~~~~~y~~avleyl~~~~l~la~~~~~~~~~~~i~p~~~~~ai~~d~e  171 (1049)
T 3ksy_A           93 AIEKRKRRNPLSLPVEKIHPLL-KEVLGYKIDHQVSVYIVAVLEYISADILKLVGNYVRNIRHYEITKQDIKVAMCADKV  171 (1049)
T ss_dssp             HHTTCCCSSSCSSCHHHHHHHH-HHHHCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCBCCHHHHHHHHHHCSS
T ss_pred             hhhcccccCCccccHHHHHHHh-hcccccccCCCCcchhHHHHHHHHHHHHHHHHHHHHHcCCceecCccccccccCCHH
Confidence            3478999999999999999999 778999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhhcCceeccCccCCCcccccc
Q psy17762         93 LNKLLSGVTIAQGGVLPNIQAVLL  116 (124)
Q Consensus        93 L~~L~~~~~i~~gg~~p~~~~~~~  116 (124)
                      |..||++. ...+|++|+......
T Consensus       172 L~~l~~~d-ee~~~~lp~~~~~~~  194 (1049)
T 3ksy_A          172 LMDMFHQD-VEDINILSLTDEEPS  194 (1049)
T ss_dssp             HHHHCC------------------
T ss_pred             HHHHHhhc-cccccCCCCccccCc
Confidence            99999764 456788887665433

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

Probab=99.83  E-value=9.2e-21  Score=128.48  Aligned_cols=80  Identities=20%  Similarity=0.317  Sum_probs=72.0

Q ss_pred             CcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhhh
Q psy17762         18 SSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL   97 (124)
Q Consensus        18 s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L~   97 (124)
                      ..-.+++||++||+|+||.+.+..+||.+|++|+++++|||+.++++.|++.|.++++++|+++||..||.+|++|++|.
T Consensus        13 ~~~~~~~lP~arIkrImK~~~~~~~is~eA~~~laka~E~Fi~~l~~~A~~~a~~~krktI~~~di~~Av~~~e~~~FL~   92 (97)
T 1n1j_B           13 KDFRVQELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAITKFDQFDFLI   92 (97)
T ss_dssp             -------CCHHHHHHHHTTSTTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTCGGGGGGT
T ss_pred             CCcCCCcCCHHHHHHHHccCccccccChHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCHHHHHHHHhcCcHHHHHH
Confidence            34457899999999999999988999999999999999999999999999999999999999999999999999999998

>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=99.83  E-value=8.9e-21  Score=129.87  Aligned_cols=88  Identities=25%  Similarity=0.378  Sum_probs=71.1

Q ss_pred             CCCCCCCCCC-------CCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhC
Q psy17762          1 MSGRGKGGKA-------KAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDN   73 (124)
Q Consensus         1 m~~~gk~~~~-------~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~   73 (124)
                      |||+||+||.       +++++++++.++  ||++.|+|+++..++ .|||.+|.++|+.+|||++.+|++.|.++|+|+
T Consensus         1 m~g~gk~~kg~~~~~~kr~~k~~r~~~~g--ip~~~I~Rlar~~G~-~rIs~~a~~~l~~vle~~~~~V~~dA~~~a~ha   77 (103)
T 1tzy_D            1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQG--ITKPAIRRLARRGGV-KRISGLIYEETRGVLKVFLENVIRDAVTYTEHA   77 (103)
T ss_dssp             --------------------CCCCCGGGG--SCHHHHHHHHHHTTC-CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCCCCCCCCCCCCCCccccccchhhhccc--CCHHHHHHHHHHcCc-cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            8887775553       566779999998  899999999999984 899999999999999999999999999999999


Q ss_pred             CCceechhhHHHhhhCch
Q psy17762         74 KKTRIIPRHLQLAIRNDE   91 (124)
Q Consensus        74 ~~k~I~p~~i~~AI~~d~   91 (124)
                      ++++|+++||.+|+++..
T Consensus        78 kRktIt~~DV~~Alr~~g   95 (103)
T 1tzy_D           78 KRKTVTAMDVVYALKRQG   95 (103)
T ss_dssp             TCSEECHHHHHHHHHHTT
T ss_pred             CCCcCCHHHHHHHHHHcC
Confidence            999999999999998653

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

Probab=99.83  E-value=7.8e-21  Score=130.19  Aligned_cols=88  Identities=25%  Similarity=0.378  Sum_probs=63.2

Q ss_pred             CCCCCCCCCC-------CCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhC
Q psy17762          1 MSGRGKGGKA-------KAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDN   73 (124)
Q Consensus         1 m~~~gk~~~~-------~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~   73 (124)
                      |||+||+||.       +++++++++.++  ||++.|+|+++..++ .|||.+|.++|+.+|||++.+|++.|.++|+|+
T Consensus         1 m~~~gk~gkg~~~~~~kr~~~~~r~~~~g--ip~~~I~Rlar~~G~-~rIs~~a~~~l~~vle~~~~~V~~dA~~~a~ha   77 (103)
T 2yfw_B            1 MSGRGKGGKGLGKGGAKRHRKILRDNIQG--ITKPAIRRLARRGGV-KRISGLIYEEVRNVLKTFLESVIRDAVTYTEHA   77 (103)
T ss_dssp             -------------------------------CCHHHHHHHHHHTTC-CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCCCCCCCCCCCCCCccchhhhhhhhhcc--CCHHHHHHHHHHcCc-cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            8888776663       566777999998  999999999999985 899999999999999999999999999999999


Q ss_pred             CCceechhhHHHhhhCch
Q psy17762         74 KKTRIIPRHLQLAIRNDE   91 (124)
Q Consensus        74 ~~k~I~p~~i~~AI~~d~   91 (124)
                      ++++|+++||.+|+++..
T Consensus        78 kRktvt~~DV~~Alr~~g   95 (103)
T 2yfw_B           78 KRKTVTSLDVVYALKRQG   95 (103)
T ss_dssp             TCSEECHHHHHHHHHHHC
T ss_pred             CCCcCcHHHHHHHHHHcC
Confidence            999999999999998654

>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=99.81  E-value=6.1e-20  Score=128.68  Aligned_cols=76  Identities=21%  Similarity=0.319  Sum_probs=73.4

Q ss_pred             ccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhhh
Q psy17762         22 GLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL   97 (124)
Q Consensus        22 gl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L~   97 (124)
                      ..+||++||+|+||.+.+..+||.+|++|+++++|||+.+|++.|++.|..+++++|+|+||..||.+|++|++|.
T Consensus        39 ~~~lPvaRIkrImK~d~~~~~is~eA~v~la~a~E~Fi~~L~~~A~~~a~~~krktI~~~di~~Av~~~e~~dFL~  114 (119)
T 4g92_C           39 IHQLPLARIKKVMKADPEVKMISAEAPILFAKGCDVFITELTMRAWIHAEDNKRRTLQRSDIAAALSKSDMFDFLI  114 (119)
T ss_dssp             CCSSCHHHHHHHHHTSTTCCEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTCGGGGGGT
T ss_pred             cCCCCHHHHHHHHhhCCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccCHHHHHHHHhcCchhhHHH
Confidence            4579999999999999899999999999999999999999999999999999999999999999999999999887

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

Probab=99.76  E-value=5.7e-19  Score=126.89  Aligned_cols=85  Identities=13%  Similarity=0.195  Sum_probs=62.8

Q ss_pred             ccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHH-HhCCCceechhhHHHhhhCch
Q psy17762         13 KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAA-RDNKKTRIIPRHLQLAIRNDE   91 (124)
Q Consensus        13 ~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a-~~~~~k~I~p~~i~~AI~~d~   91 (124)
                      +..+++.+..++||++||+|+||.+....+|+..|+++++.++|||+.+|++.|++.| ...++++|++.||..||.+++
T Consensus         8 k~~s~~~~~~~~LPlaRIKrIMK~dpdv~~Is~eA~vliakA~ElFI~~Lt~~A~~~a~~~~kRKtI~~~Dl~~AV~~~e   87 (140)
T 2byk_A            8 PPVERPPTAETFLPLSRVRTIMKSSMDTGLITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPGEALKYEHLSQVVNKNK   87 (140)
T ss_dssp             ---------------------CCSSSSCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCEECHHHHHHHHHTCS
T ss_pred             CCCCCCcccCCCCCHHHHHHHHhcCcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccCHHHHHHHHhcCc
Confidence            4577888899999999999999999999999999999999999999999999999999 999999999999999999999


Q ss_pred             HHhhhh
Q psy17762         92 ELNKLL   97 (124)
Q Consensus        92 eL~~L~   97 (124)
                      +|+||.
T Consensus        88 ~~dFL~   93 (140)
T 2byk_A           88 NLEFLL   93 (140)
T ss_dssp             TTGGGT
T ss_pred             hhhhHh
Confidence            999998

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

Probab=99.57  E-value=2.7e-15  Score=109.25  Aligned_cols=71  Identities=18%  Similarity=0.239  Sum_probs=67.9

Q ss_pred             cccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCc
Q psy17762         19 SRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND   90 (124)
Q Consensus        19 ~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d   90 (124)
                      .+.++.||++.|.|+||+++ +.|||++|.++|+.+||+|+.+|+..|.++|+|++|+||+++||.+|++++
T Consensus        77 d~~~l~lP~a~V~Ri~k~~g-~~RVS~~A~~~l~~~le~f~~~I~~~A~~~a~ha~RKTIt~eDV~~Al~~~  147 (154)
T 1f1e_A           77 DYDGELFGRATVRRILKRAG-IERASSDAVDLYNKLICRATEELGEKAAEYADEDGRKTVQGEDVEKAITYS  147 (154)
T ss_dssp             TCCSCCCCHHHHHHHHHHTT-CCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHH
T ss_pred             ccccccCCccHHHHHHHHcC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHhc
Confidence            47889999999999999984 899999999999999999999999999999999999999999999999875

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

Probab=99.51  E-value=5.2e-14  Score=96.10  Aligned_cols=81  Identities=19%  Similarity=0.293  Sum_probs=65.8

Q ss_pred             CCCCCCccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHh
Q psy17762          7 GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLA   86 (124)
Q Consensus         7 ~~~~~~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~A   86 (124)
                      +|.++++++.+.+..+  +|.+.|.|+++..+ ..|||.++...|+.+|||++.+|+..|..+|+|+++++|+++||.+|
T Consensus        13 ~g~kr~~k~~r~~i~~--ip~~~I~Rlar~~G-v~rIS~da~~~l~~~le~fi~~I~~dA~~~a~HakRKTVt~~DV~~A   89 (102)
T 1id3_B           13 GGAKRHRKILRDNIQG--ITKPAIRRLARRGG-VKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYA   89 (102)
T ss_dssp             -----------CCGGG--SCHHHHHHHHHHTT-CCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHH
T ss_pred             CccchHHHHHHhccCC--CCHHHHHHHHHHcC-chhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHH
Confidence            3445777888888777  67888999999987 79999999999999999999999999999999999999999999999


Q ss_pred             hhCc
Q psy17762         87 IRND   90 (124)
Q Consensus        87 I~~d   90 (124)
                      ++..
T Consensus        90 Lkr~   93 (102)
T 1id3_B           90 LKRQ   93 (102)
T ss_dssp             HHHT
T ss_pred             HHHc
Confidence            9854

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

Probab=99.44  E-value=2.5e-13  Score=86.51  Aligned_cols=66  Identities=32%  Similarity=0.439  Sum_probs=63.0

Q ss_pred             cccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhC
Q psy17762         23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   89 (124)
Q Consensus        23 l~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~   89 (124)
                      ..||.+.|.|++++.+ ..|+|.++...|..++|+++.+|++.|..+|.|.+|++|+++||.+|+++
T Consensus         5 ~~lp~a~v~Rl~r~~g-~~ris~~a~~~l~e~~~~~~~~v~~dA~~~a~hakRkTI~~~DV~lA~~~   70 (70)
T 1ku5_A            5 GELPIAPVDRLIRKAG-AERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIKS   70 (70)
T ss_dssp             CCSCHHHHHHHHHHTT-CSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHTC
T ss_pred             ccCChHHHHHHHHHcC-cceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHC
Confidence            3689999999999986 89999999999999999999999999999999999999999999999874

>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=99.40  E-value=6.7e-13  Score=83.88  Aligned_cols=64  Identities=28%  Similarity=0.431  Sum_probs=61.5

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      .||.++|.|+||+. ...||+++|...|..++|+|+.+|.+.|...|.+++|++|+|+||..|++
T Consensus         2 ~lP~a~v~Ri~k~~-~~~ris~~A~~~l~~a~e~fi~~l~~~A~~~a~~~kRkTI~~~Di~~A~~   65 (68)
T 1b67_A            2 ELPIAPIGRIIKNA-GAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARK   65 (68)
T ss_dssp             CSCHHHHHHHHHHT-TCSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHGG
T ss_pred             CCCccHHHHHHhcC-CcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHH
Confidence            58999999999998 58999999999999999999999999999999999999999999999985

>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=99.27  E-value=2.1e-11  Score=80.31  Aligned_cols=73  Identities=18%  Similarity=0.241  Sum_probs=66.2

Q ss_pred             CCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCc
Q psy17762         15 KTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND   90 (124)
Q Consensus        15 ~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d   90 (124)
                      +-+.+..+  +|.+.|.|+++..+ ..|||.++...|+.++||++.+|+..|..+|+|.+|++|+++||.+|++..
T Consensus         3 ~~r~~~~~--ip~~~I~Riar~~G-v~rIs~da~~~l~~~l~~~~~~I~~dA~~~a~ha~RKTvt~~DV~~Alk~~   75 (84)
T 2hue_C            3 VLRDNIQG--ITKPAIRRLARRGG-VKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQ   75 (84)
T ss_dssp             CGGGGCCS--SCHHHHHHHHHHTT-CCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTT
T ss_pred             cccccCCC--CCHHHHHHHHHHcC-chhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHc
Confidence            34555666  67788999999988 799999999999999999999999999999999999999999999999865

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

Probab=99.21  E-value=3e-11  Score=80.70  Aligned_cols=68  Identities=10%  Similarity=0.248  Sum_probs=63.2

Q ss_pred             cccccchhhhhHHHhcCC-cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         21 AGLQFPVGRIHRLLRKGN-YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        21 agl~fPv~ri~R~lk~~~-~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      ..+.||.++|.|+||+.. ...|||.+|...|+.++|.|+.+|...|...|.+.+|++|+++||..|++
T Consensus         5 ~d~~LP~a~i~ri~K~~~~~~~~is~dA~~~l~~a~e~Fi~~l~~~A~~~a~~~kRkTI~~~Dv~~Al~   73 (93)
T 1n1j_A            5 QDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMS   73 (93)
T ss_dssp             --CCCCHHHHHHHHHHTSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             ccccCChhHHHHHHHHhCCccceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHH
Confidence            367899999999999984 46899999999999999999999999999999999999999999999997

>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=99.07  E-value=3.5e-10  Score=73.03  Aligned_cols=66  Identities=21%  Similarity=0.280  Sum_probs=60.9

Q ss_pred             cccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        23 l~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      ..||.+.|.|+|++.--..+||.+|...+..++|.|+.+|...|...|.++++++|+++||..|++
T Consensus         3 ~~LP~A~V~rI~K~~~p~~~is~~A~~~i~~~~~~Fi~~la~eA~~~a~~~~rKTI~~~dI~~A~~   68 (76)
T 3b0c_W            3 RTVPRGTLRKIIKKHKPHLRLAANTDLLVHLSFLLFLHRLAEEARTNAFENKSKIIKPEHTIAAAK   68 (76)
T ss_dssp             -CCCHHHHHHHHHHHCTTCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHH
T ss_pred             CcccccHHHHHHHHhCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            369999999999975336899999999999999999999999999999999999999999999985

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

Probab=99.06  E-value=3e-10  Score=82.55  Aligned_cols=63  Identities=21%  Similarity=0.328  Sum_probs=61.0

Q ss_pred             ccchhhhhHHHhcC-CcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhh
Q psy17762         24 QFPVGRIHRLLRKG-NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAI   87 (124)
Q Consensus        24 ~fPv~ri~R~lk~~-~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI   87 (124)
                      .||.+.|.|+||+. + ..|||.+|...|+.++|.|+.+|...|.++|.|.+||+|+++||..|+
T Consensus         4 ~LP~a~V~Riik~~lg-~~rVS~dA~~~l~~~l~~f~~~i~~~A~~~a~ha~RKTv~a~DV~~a~   67 (154)
T 1f1e_A            4 ELPKAAIERIFRQGIG-ERRLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHLKALA   67 (154)
T ss_dssp             CCCHHHHHHHHHTTST-TCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHH
T ss_pred             cCCccHHHHHHHhcCC-ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHH
Confidence            58999999999998 6 599999999999999999999999999999999999999999999999

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

Probab=99.05  E-value=2.1e-10  Score=81.01  Aligned_cols=75  Identities=16%  Similarity=0.146  Sum_probs=64.3

Q ss_pred             ccccchhhhhHHHhc-CCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhh
Q psy17762         22 GLQFPVGRIHRLLRK-GNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKL   96 (124)
Q Consensus        22 gl~fPv~ri~R~lk~-~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L   96 (124)
                      .+.||+++|.|+|++ .....+||.+|...|+.++|.|+.+|...|...|.+.+|++|+++||..|+....-+++|
T Consensus         7 d~~LP~A~I~rImK~~~pd~~~iS~dA~~~l~ka~e~FI~~lt~~A~~~a~~~kRKTI~~~Dv~~Al~~l~f~~fl   82 (128)
T 2byk_B            7 DLNLPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLTELDFESFV   82 (128)
T ss_dssp             ----CCSHHHHHHHHHSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHTTCTTTH
T ss_pred             cccCCHHHHHHHHHHhCcccceECHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHHcCcHHHH
Confidence            578999999999996 345799999999999999999999999999999999999999999999999876544443

>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=99.03  E-value=5.9e-10  Score=71.23  Aligned_cols=65  Identities=9%  Similarity=0.146  Sum_probs=62.5

Q ss_pred             cccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        23 l~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      -.||+..|+++.+..| ..+||++|...|+.-+||-+.||++.|.+.++|.+|++++.+||+.|++
T Consensus         5 s~lp~~~v~~iaes~G-i~~lsddaa~~LA~dvEyr~~eI~qeA~kfmrHakRk~Lt~~DI~~Alk   69 (70)
T 1taf_B            5 SSISAESMKVIAESIG-VGSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLK   69 (70)
T ss_dssp             CCCCHHHHHHHHHHTT-CCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred             ccCCHHHHHHHHHHCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHc
Confidence            4799999999999998 7999999999999999999999999999999999999999999999975

>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=98.94  E-value=6.1e-10  Score=76.87  Aligned_cols=71  Identities=8%  Similarity=0.039  Sum_probs=62.2

Q ss_pred             ccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHH
Q psy17762         22 GLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEEL   93 (124)
Q Consensus        22 gl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL   93 (124)
                      .+.+|.+-|.|++++.+ ..|||.++...|..+++.++.+|...|..+|+|.+|++|+++||.+|++.+..+
T Consensus         5 d~~lP~a~I~Ri~r~~g-~~rIS~~a~~~l~e~l~~f~~~v~~da~~~A~HA~RKTV~~eDV~lalrr~g~~   75 (111)
T 3b0c_T            5 EPEIASSLIKQIFSHYV-KTPVTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADVELLMRRQGLV   75 (111)
T ss_dssp             -----CHHHHHHHHHHH-CSCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHTTSS
T ss_pred             CCCCCHHHHHHHHHHCC-CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHHCCCc
Confidence            46789999999999985 899999999999999999999999999999999999999999999999965544

>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=98.84  E-value=9.8e-09  Score=65.19  Aligned_cols=60  Identities=18%  Similarity=0.106  Sum_probs=57.5

Q ss_pred             hhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhC
Q psy17762         29 RIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   89 (124)
Q Consensus        29 ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~   89 (124)
                      .|+|+|++.+ +.+++..++..|.-.+|-++.+|++.|..+|.|.|+++|+.+||++||+.
T Consensus         6 ~i~~iLk~~G-~~~~~~~v~~~L~e~~~ry~~~il~dA~~~a~HAgrktv~~eDVkLAi~~   65 (68)
T 1taf_A            6 VIMSILKELN-VQEYEPRVVNQLLEFTFRYVTSILDDAKVYANHARKKTIDLDDVRLATEV   65 (68)
T ss_dssp             HHHHHHHHTT-CCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             HHHHHHHHCC-CcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHh
Confidence            5899999998 89999999999999999999999999999999999999999999999974

>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=98.72  E-value=2.3e-08  Score=74.18  Aligned_cols=79  Identities=15%  Similarity=0.225  Sum_probs=68.4

Q ss_pred             CcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhhh
Q psy17762         18 SSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL   97 (124)
Q Consensus        18 s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L~   97 (124)
                      .....+.||++.|.|+||+..-..+|+.+|...|..+++-|+..|...|...|.+.+|++|+++||..|+. +-+|..+.
T Consensus         9 ~~~eD~~LP~A~V~RImK~alp~~rISkDA~~al~ec~~eFI~~LtseA~e~a~~~~RKTI~~eDVl~Al~-~LgF~~fv   87 (179)
T 1jfi_B            9 GNDDDLTIPRAAINKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALE-SLGFGSYI   87 (179)
T ss_dssp             ---CCCCCCHHHHHHHHHHHSTTCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH-HHTTGGGH
T ss_pred             CchhhhhcCHHHHHHHHHHhCCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH-hcChHHHH
Confidence            34456889999999999997436899999999999999999999999999999999999999999999997 55555544

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

Probab=98.52  E-value=2.3e-07  Score=60.18  Aligned_cols=65  Identities=25%  Similarity=0.253  Sum_probs=59.6

Q ss_pred             cccchhhhhHHHhcC-----CcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         23 LQFPVGRIHRLLRKG-----NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        23 l~fPv~ri~R~lk~~-----~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      |-+|..++.|++++-     + ..|++++|...|.-+.|.++-+++|.+...|.|.++.+|+|+||++|.+
T Consensus         2 lli~k~PF~RLVRei~~~~~~-~~R~q~~Al~aLQea~Eaylv~lfeda~l~A~HAkRvTi~~kDiqLa~r   71 (77)
T 2hue_B            2 ALIRKLPFQRLVREIAQDFKT-DLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKRVTIMPKDIQLARR   71 (77)
T ss_dssp             CCSCHHHHHHHHHHHHHTTCS-SCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             CccccchHHHHHHHHHHHcCc-cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcHhhHHHHHH
Confidence            567888888988875     3 5899999999999999999999999999999999999999999999975

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

Probab=98.48  E-value=3.1e-07  Score=61.16  Aligned_cols=77  Identities=14%  Similarity=0.041  Sum_probs=63.8

Q ss_pred             cccccchhhhhHHH-hcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhhhcC
Q psy17762         21 AGLQFPVGRIHRLL-RKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSG   99 (124)
Q Consensus        21 agl~fPv~ri~R~l-k~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L~~~   99 (124)
                      +.|.+-|++|-.-. +..  ...||..+...|+..++..+.+|.+-+...|+|+||++|+++||.++++.++.|..++.+
T Consensus        12 aal~~~V~ki~~e~~~~~--g~~vs~~~i~aL~e~~~~~~~~ia~Dl~~fA~HAgRkTI~~eDV~L~~Rrn~~L~~~l~~   89 (90)
T 3v9r_A           12 ARLWIRVEERLQQVLSSE--DIKYTPRFINSLLELAYLQLGEMGSDLQAFARHAGRGVVNKSDLMLYLRKQPDLQERVTQ   89 (90)
T ss_dssp             HHHHHHHHHHHHHHSCSS--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTCHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHHHHhc--CceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHhChHHHHHhhc
Confidence            34566666665333 222  356999999999999999999999999999999999999999999999999999988754

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

Probab=98.47  E-value=1.9e-07  Score=64.57  Aligned_cols=74  Identities=18%  Similarity=0.206  Sum_probs=62.5

Q ss_pred             cccccchhhhhHHHhcCCcccc---cCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhhh
Q psy17762         21 AGLQFPVGRIHRLLRKGNYAER---VGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL   97 (124)
Q Consensus        21 agl~fPv~ri~R~lk~~~~~~r---vs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L~   97 (124)
                      +.|.+.|++   ++++.+ ..|   ||..+...|+.+++.++.+|.+.+...|+|.||++|+++||.++++.++.|..++
T Consensus        27 aal~y~V~r---Ivke~g-aer~~~vS~~ai~aL~El~~~~~~~ia~Dl~~fAkHAgRkTI~~eDV~La~Rr~~~L~~~l  102 (113)
T 4dra_A           27 AAVHYTVGC---LCEEVA-LDKEMQFSKQTIAAISELTFRQCENFAKDLEMFARHAKRTTINTEDVKLLARRSNSLLKYI  102 (113)
T ss_dssp             HHHHHHHHH---HHHHHH-HHHTCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHH---HHHHHH-HHcCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHHhCHHHHHHH
Confidence            345566544   455543 344   9999999999999999999999999999999999999999999999999998876


Q ss_pred             c
Q psy17762         98 S   98 (124)
Q Consensus        98 ~   98 (124)
                      +
T Consensus       103 ~  103 (113)
T 4dra_A          103 T  103 (113)
T ss_dssp             H
T ss_pred             H
Confidence            5

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

Probab=98.45  E-value=1.8e-07  Score=71.82  Aligned_cols=59  Identities=14%  Similarity=0.120  Sum_probs=56.4

Q ss_pred             hhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhC
Q psy17762         30 IHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   89 (124)
Q Consensus        30 i~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~   89 (124)
                      +.|+++.++ +.|||.++...+..+||.++.+|+..|..+|+|+++++|+++||.+|++.
T Consensus       167 ~~RlaRrgG-VkRIS~~iyeelr~vLe~fle~IirdAv~yaeHA~RKTVta~DV~~ALKr  225 (235)
T 2l5a_A          167 DEEDGDKGG-VKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALKR  225 (235)
T ss_dssp             CCTTSCCTT-CCTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHH
T ss_pred             HHHHhhcCC-chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHh
Confidence            569999998 89999999999999999999999999999999999999999999999974

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

Probab=98.39  E-value=7.8e-07  Score=62.16  Aligned_cols=54  Identities=11%  Similarity=0.127  Sum_probs=50.2

Q ss_pred             hcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhC
Q psy17762         35 RKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   89 (124)
Q Consensus        35 k~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~   89 (124)
                      +.++ +.|||.++...+..+||.++.+|+..|..+++|.+||+|+++||.+|++.
T Consensus        58 ~~gG-vkRIS~~iy~e~r~vl~~~l~~i~rdav~yaehA~RKTVta~DV~~Alkr  111 (121)
T 2ly8_A           58 VPRG-SKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALKR  111 (121)
T ss_dssp             CCCC-SSCCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCBCHHHHHHHHHH
T ss_pred             CccC-ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHh
Confidence            3445 79999999999999999999999999999999999999999999999873

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

Probab=98.39  E-value=5.2e-07  Score=59.11  Aligned_cols=66  Identities=23%  Similarity=0.138  Sum_probs=59.1

Q ss_pred             cccchhhhhHHHhcCC------cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         23 LQFPVGRIHRLLRKGN------YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        23 l~fPv~ri~R~lk~~~------~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      |-+|..++.|+.++-.      ...|++++|...|.-+.|.++-+++|.+...|.|.++.+|.|+||++|.+
T Consensus         2 lLI~klPF~RLVREI~~~~~~~~~~R~q~~Al~aLQea~E~ylv~Lfeda~lcAiHAkRvTi~~kDiqLa~r   73 (82)
T 3nqj_A            2 LLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARR   73 (82)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHSSCCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             CCcccccHHHHHHHHHHHhccCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcHHHHHHHHH
Confidence            4467888888888754      35799999999999999999999999999999999999999999999975

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

Probab=98.35  E-value=6.8e-07  Score=61.24  Aligned_cols=74  Identities=12%  Similarity=0.144  Sum_probs=61.5

Q ss_pred             ccccchhhhhHHHhcCC--cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhhhc
Q psy17762         22 GLQFPVGRIHRLLRKGN--YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLS   98 (124)
Q Consensus        22 gl~fPv~ri~R~lk~~~--~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L~~   98 (124)
                      .|.+-|++|   .++.+  ...+++..+...|+-+++.++.+|..-+..+|+|.||++|+++||.++++.++.|...+.
T Consensus        20 al~~~V~rI---~~~~g~~~~~~vs~~~i~aL~E~~~~~~~~ia~Da~~fA~HAgRkTI~~eDV~La~Rrn~~l~~~l~   95 (107)
T 3b0b_B           20 AVHYTTGCL---CQDVAEDKGVLFSKQTVAAISEITFRQCENFARDLEMFARHAKRSTITSEDVKLLARRSNSLLKYIT   95 (107)
T ss_dssp             HHHHHHHHH---HHHHHHHHTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHH---HHHHhhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcCcCCHHHHHHHHHhCHHHHHHHH
Confidence            345555444   44432  237999999999999999999999999999999999999999999999999998876654

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

Probab=98.22  E-value=2e-06  Score=61.38  Aligned_cols=69  Identities=22%  Similarity=0.115  Sum_probs=62.1

Q ss_pred             cccccchhhhhHHHhcCC------cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhC
Q psy17762         21 AGLQFPVGRIHRLLRKGN------YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   89 (124)
Q Consensus        21 agl~fPv~ri~R~lk~~~------~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~   89 (124)
                      .+|-+|...|.|++++-.      ...|++++|...|.-+.|.++-+++|.+...|.|.++.+|+|+||++|.+-
T Consensus        58 t~LLIpKlPF~RLVREI~~~~~~~~~~Rfq~~Al~ALQEAaEayLv~LFEdanlcAiHAkRVTIm~kDiqLArri  132 (140)
T 3nqu_A           58 THLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARRI  132 (140)
T ss_dssp             -CCCSCTTHHHHHHHHHHHHHHTTCCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             cccccccccHHHHHHHHHHHhcccccceecHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccccHHHHHHHHHh
Confidence            468899999999998854      357999999999999999999999999999999999999999999999763

>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=98.21  E-value=1.8e-06  Score=58.51  Aligned_cols=68  Identities=24%  Similarity=0.184  Sum_probs=58.3

Q ss_pred             cccccchhhhhHHHhcCC-------cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         21 AGLQFPVGRIHRLLRKGN-------YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        21 agl~fPv~ri~R~lk~~~-------~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      .+|-+|..+|.|+.++-.       ...|++++|...|.-+.|.++-+++|.+...|.|.++.+|.|.||++|.+
T Consensus        24 t~llIpk~PF~RLVREI~~~~~~~~~~~R~q~~Al~ALQeaaEayLv~Lfeda~l~A~HAkRvTi~~kDiqLa~r   98 (100)
T 2yfv_A           24 TDLLISRMPFARLVKEVTDQFTTESEPLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKRITIMRKDMQLARR   98 (100)
T ss_dssp             ----CCHHHHHHHHHHHHHTTC-----CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             chhhhccccHHHHHHHHHHHhccccchhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCHHHHHHHHH
Confidence            478899999999998854       15799999999999999999999999999999999999999999999964

>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=98.20  E-value=3e-06  Score=60.25  Aligned_cols=66  Identities=26%  Similarity=0.267  Sum_probs=61.2

Q ss_pred             ccccchhhhhHHHhcC-----CcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         22 GLQFPVGRIHRLLRKG-----NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        22 gl~fPv~ri~R~lk~~-----~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      +|-+|...|.|+.++-     + ..|++++|...|.-+.|.++-+++|.+...|.|.++.+|.|.||++|.+
T Consensus        60 ~lLIpk~PF~RLVREI~~~~~~-~~R~q~~Al~aLQeaaEayLv~Lfeda~l~A~HAkRvTi~~kDiqLa~r  130 (136)
T 1tzy_C           60 ELLIRKLPFQRLVREIAQDFKT-DLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR  130 (136)
T ss_dssp             SCCSCHHHHHHHHHHHHHHHCT-TCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             hhhhccchHHHHHHHHHHHhhh-hhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcHHhHHHHHH
Confidence            5778999999999885     3 5899999999999999999999999999999999999999999999975

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

Probab=98.19  E-value=1.7e-06  Score=62.65  Aligned_cols=70  Identities=21%  Similarity=0.112  Sum_probs=62.6

Q ss_pred             cccccchhhhhHHHhcCC------cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCc
Q psy17762         21 AGLQFPVGRIHRLLRKGN------YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND   90 (124)
Q Consensus        21 agl~fPv~ri~R~lk~~~------~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d   90 (124)
                      .+|-+|...|.|++++-.      ...|++++|...|.-+.|.++-+++|.|...|.|.++.+|+|+||++|.+--
T Consensus        74 teLLIpKlPF~RLVREIa~~~~~~~~lRfqs~Al~ALQEAaEayLV~LFEdanLcAiHAkRVTIm~kDIqLArrIr  149 (156)
T 3r45_A           74 THLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARRIR  149 (156)
T ss_dssp             -CCCSCHHHHHHHHHHHHHTTTTTCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSEECHHHHHHHHHHH
T ss_pred             cccccccccHHHHHHHHHHHhccCccceecHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccccHHHHHHHHHHc
Confidence            468899999999998853      2579999999999999999999999999999999999999999999998643

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

Probab=98.15  E-value=2e-06  Score=61.41  Aligned_cols=78  Identities=14%  Similarity=0.168  Sum_probs=64.1

Q ss_pred             cccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhhhcC
Q psy17762         21 AGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSG   99 (124)
Q Consensus        21 agl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L~~~   99 (124)
                      +.|.+-|++|-.-.-.. ....||..+...|+.+++.++.+|..-+..+|+|.||++|+++||.++++.++.|..++.+
T Consensus        19 aAl~y~VgkIvee~~~~-~~~~vS~~ai~aL~El~~~~~e~ia~DLe~FAkHAGRKTI~~eDVkLa~Rrn~~L~~~L~~   96 (140)
T 3vh5_A           19 AAVHYTTGALAQDVAED-KGVLFSKQTVAAISEITFRQAENFARDLEMFARHAKRSTITSEDVKLLARRSNSLLKYITQ   96 (140)
T ss_dssp             HHHHHHHHHHHHHHHHH-HTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHh-cCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHhCHHHHHHHHH
Confidence            34566666655422111 2367999999999999999999999999999999999999999999999999999888763

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

Probab=98.09  E-value=6e-06  Score=57.69  Aligned_cols=64  Identities=19%  Similarity=0.241  Sum_probs=58.0

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      .|. ..|+|+|++-.-...||+.|...|...++.+.+.|...|.+.+..+++++|++++|+.|++
T Consensus        34 sy~-~YIyKVLKQVhpd~gISskAm~ImnSfvnDiferIA~EAs~La~~nkr~TitsreIqtAvr   97 (123)
T 2nqb_D           34 SYA-IYIYTVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASRLAHYNKRSTITSREIQTAVR   97 (123)
T ss_dssp             CSH-HHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHH
T ss_pred             hHH-HHHHHHHHHhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHH
Confidence            344 5789999996655689999999999999999999999999999999999999999999996

>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=98.03  E-value=8.8e-06  Score=57.07  Aligned_cols=65  Identities=17%  Similarity=0.257  Sum_probs=59.0

Q ss_pred             cccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        23 l~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      -.|.+ .|+|+|++-.-...||+.|...|...++.+.+.|...|...+..+++++|++++|+.|++
T Consensus        36 esy~~-YIyKVLKQVhpd~gISskAm~ImnSfvnDiferIA~EAs~La~~nkr~TitsreIqtAvr  100 (126)
T 1tzy_B           36 ESYSI-YVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVR  100 (126)
T ss_dssp             CCCHH-HHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             ccHHH-HHHHHHHHhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            45555 799999996545689999999999999999999999999999999999999999999996

>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=97.57  E-value=0.00011  Score=54.62  Aligned_cols=61  Identities=21%  Similarity=0.260  Sum_probs=56.5

Q ss_pred             hhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         28 GRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        28 ~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      ..|+|.|++-.-...||..|..+|...++.++..|...|.+.+..+++++|+++||+.|++
T Consensus         7 ~yi~kvLkqv~p~~~iS~~Am~~m~s~v~di~~rIa~eA~~L~~~~~r~Tit~~eIq~Avr   67 (192)
T 2jss_A            7 SYIYKVLKQTHPDTGISQKSMSILNSFVNDIFERIATEASKLAAYNKKSTISAREIQTAVR   67 (192)
T ss_dssp             HHHHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCSCCHHHHHHHHH
T ss_pred             HHHHHHHcccCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHH
Confidence            3689999997656789999999999999999999999999999999999999999999997

>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=96.88  E-value=0.0021  Score=42.39  Aligned_cols=64  Identities=22%  Similarity=0.363  Sum_probs=54.7

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCC-CceechhhHHHhhh
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNK-KTRIIPRHLQLAIR   88 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~-~k~I~p~~i~~AI~   88 (124)
                      .||-..|+|++..- ....|+.+..+.++++--.|+.||+|.|.......+ ...|.|.||..|.+
T Consensus        16 ~f~k~~vKrl~~~~-~~~~v~~~v~i~v~glaKvfVgelVE~A~~V~~~~~~~~Pl~P~HireA~r   80 (89)
T 1bh9_B           16 AFPKAAIKRLIQSI-TGTSVSQNVVIAMSGISKVFVGEVVEEALDVCEKWGEMPPLQPKHMREAVR   80 (89)
T ss_dssp             CCCHHHHHHHHHHH-HSSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSSCCHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHH-cCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence            46667799999774 478999999999999999999999999998776654 55799999999975

>3b0b_C CENP-X, centromere protein X; histone fold, DNA binding, DNA, nucleus, DNA binding protein; 2.15A {Gallus gallus} PDB: 3vh5_D 3vh6_D

Probab=96.66  E-value=0.0067  Score=39.28  Aligned_cols=65  Identities=20%  Similarity=0.220  Sum_probs=57.2

Q ss_pred             ccccchhhhhHHHhcCC--cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHh
Q psy17762         22 GLQFPVGRIHRLLRKGN--YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLA   86 (124)
Q Consensus        22 gl~fPv~ri~R~lk~~~--~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~A   86 (124)
                      +..||..-|.|+|+..-  ..-||+.+|...++..|+-|+.|-+.+|...|...+...|..+||+..
T Consensus         6 ~~~~~~~lI~ril~~~f~~~ktrI~~dAl~l~aeyl~iFV~EAv~RA~~~a~~e~~~~le~~~LEki   72 (81)
T 3b0b_C            6 EGGFRKETVERLLRLHFRDGRTRVNGDALLLMAELLKVFVREAAARAARQAQAEDLEKVDIEHVEKV   72 (81)
T ss_dssp             -CCCCHHHHHHHHHHHCCSTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHhccCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCeecHHHHHHH
Confidence            56899999999998832  358999999999999999999999999999998888889999999873

>4dra_E Centromere protein X; DNA binding complex, DNA damage repair, histone-fold, DNA BI protein; 2.41A {Homo sapiens} PDB: 4drb_J

Probab=96.61  E-value=0.0078  Score=39.28  Aligned_cols=67  Identities=18%  Similarity=0.171  Sum_probs=57.1

Q ss_pred             ccccccchhhhhHHHhcCC--cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHh
Q psy17762         20 RAGLQFPVGRIHRLLRKGN--YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLA   86 (124)
Q Consensus        20 ragl~fPv~ri~R~lk~~~--~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~A   86 (124)
                      .++..||..-|.|+|+..-  ..-||+.+|...++..|+-|+.|-+-.|...|...+...|..+||+..
T Consensus         8 ~~~~~i~~~li~ril~~~F~~~kTkIs~dAl~l~aeyl~iFV~EAv~RA~~~a~~e~~~~le~e~LEki   76 (84)
T 4dra_E            8 GAGSGFRKELVSRLLHLHFKDDKTKVSGDALQLMVELLKVFVVEAAVRGVRQAQAEDALRVDVDQLEKV   76 (84)
T ss_dssp             ---CCCCHHHHHHHHHTTCSSTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHhcCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHH
Confidence            3567899999999999642  358999999999999999999999999999888888888999999874

>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=95.85  E-value=0.022  Score=36.45  Aligned_cols=67  Identities=16%  Similarity=0.260  Sum_probs=58.8

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCc
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND   90 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d   90 (124)
                      .++-.++..++++-.-...+..++-..|..+.+-|+..++..|+..|+|.+..++.+.||++.++.+
T Consensus         5 vl~k~~L~~Lv~~idp~~~ld~~vee~ll~lADdFV~~V~~~ac~lAKhR~s~~le~kDvql~Ler~   71 (76)
T 1h3o_B            5 VLTKKKLQDLVREVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQLHLERQ   71 (76)
T ss_dssp             SSCHHHHHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHhh
Confidence            4566778888887555688999999999999999999999999999999999999999999987654

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

Probab=94.32  E-value=0.046  Score=41.81  Aligned_cols=67  Identities=24%  Similarity=0.212  Sum_probs=54.2

Q ss_pred             ccccchhhhhHHHhcCC--c-----ccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         22 GLQFPVGRIHRLLRKGN--Y-----AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        22 gl~fPv~ri~R~lk~~~--~-----~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      .|-+|-.++.|+.++--  +     ..|..++|...|.-+-|.++-.++|.+.-.|.|.++-+|.|.|+++|-+
T Consensus         9 ~~lI~KlPFqRLVREIaq~~~~~~~~lRfqs~Al~ALQEAaEayLV~LFEd~nLcaiHAkRVTim~kDiqLarr   82 (235)
T 2l5a_A            9 KLLISKIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKRITIMKKDMQLARR   82 (235)
T ss_dssp             --CCSCCHHHHHHHHHHHTSCGGGTTCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHSTTTSGGGTTHHHHHHT
T ss_pred             cccccCccHHHHHHHHHHHhccCCccceecHHHHHHHHHHHHHHHHHHHhhhHHHHhcccccccchhhHHHHHH
Confidence            45566666666665521  1     3689999999999999999999999999999999999999999999953

>1wwi_A Hypothetical protein TTHA1479; structural genomics, unknown function, riken structural genomics/proteomics initiative, RSGI; 1.58A {Thermus thermophilus HB8} SCOP: a.22.1.4 PDB: 1wws_A

Probab=90.58  E-value=0.54  Score=33.49  Aligned_cols=61  Identities=18%  Similarity=0.242  Sum_probs=53.2

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHH
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQL   85 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~   85 (124)
                      .+++.+++|+++... .--|..+-.--+..++|--+.+++..|...|+.|||..|.|.|+-.
T Consensus         2 vm~~~~~e~lFR~aa-~LdvdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~n~RdvI~~~DLPI   62 (148)
T 1wwi_A            2 LMKVAEFERLFRQAA-GLDVDKNDLKRVSDFLRNKLYDLLAVAERNAKYNGRDLIFEPDLPI   62 (148)
T ss_dssp             CSCHHHHHHHHHHHH-CCCCCGGGHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECGGGSCC
T ss_pred             cCCHHHHHHHHHHHh-ccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeeccccCCc
Confidence            467889999999964 5667778888889999999999999999999999999999999754

>1k6k_A ATP-dependent CLP protease ATP-binding subunit CLPA; chaperone, ATPase, adaptor binding, X-RAY, structure, N-domain, hydrolase; 1.80A {Escherichia coli} SCOP: a.174.1.1 PDB: 1r6c_X 1r6o_A* 1r6q_A* 1mg9_B* 1lzw_B* 1mbx_A* 1mbv_A 1mbu_A*

Probab=87.43  E-value=0.68  Score=31.10  Aligned_cols=40  Identities=23%  Similarity=0.268  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhhhc
Q psy17762         59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLS   98 (124)
Q Consensus        59 ~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L~~   98 (124)
                      +.++++.|...|...+...|+|+||-+|+-.+++...++.
T Consensus         6 ~~~~l~~A~~~A~~~~~~~i~~eHlLlaLl~~~~~~~iL~   45 (143)
T 1k6k_A            6 LELSLNMAFARAREHRHEFMTVEHLLLALLSNPSAREALE   45 (143)
T ss_dssp             HHHHHHHHHHHHHHHTBSEECHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCCcCHHHHHHHHHcCchHHHHHH
Confidence            4578899999999999999999999999988776555554

>1khy_A CLPB protein; alpha helix, chaperone; 1.95A {Escherichia coli} SCOP: a.174.1.1

Probab=83.24  E-value=1.3  Score=29.71  Aligned_cols=33  Identities=30%  Similarity=0.208  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHHHhCCCceechhhHHHhhhCch
Q psy17762         59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE   91 (124)
Q Consensus        59 ~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~   91 (124)
                      +.++++.|...|...+...|+|+||-+|+-.++
T Consensus        10 ~~~~l~~A~~~A~~~~~~~i~~eHlLlaLl~~~   42 (148)
T 1khy_A           10 FQLALADAQSLALGHDNQFIEPLHLMSALLNQE   42 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCSSBCHHHHHHHHHTCT
T ss_pred             HHHHHHHHHHHHHHcCCCccCHHHHHHHHHcCC
Confidence            356889999999999999999999999997665

>1r4v_A Hypothetical protein AQ_328; structural genomics, all-alpha, histon fold, PSI, protein ST initiative, midwest center for structural genomics; HET: MSE; 1.90A {Aquifex aeolicus} SCOP: a.22.1.4

Probab=82.92  E-value=0.8  Score=33.29  Aligned_cols=61  Identities=13%  Similarity=0.046  Sum_probs=53.6

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHH
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQL   85 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~   85 (124)
                      .+++.+++|+++... .--|..+-.--+..++|--+.+++..|...|+.++|..|.|.||-+
T Consensus        26 vmg~~kferlFR~aa-gLDvdK~d~kr~~d~V~~Kl~DLl~va~~~Ak~NgRDvI~~~DLPI   86 (171)
T 1r4v_A           26 PKGFDKLDHYFRTEL-DIDLTDETIELLLNSVKAAFGKLFYGAEQRARWNGRDFIALADLNI   86 (171)
T ss_dssp             CTTHHHHHHHHHHHH-CCCCCHHHHHHHHHHHHHHHHHTTTTHHHHHHHTTCSEECGGGSCC
T ss_pred             cCChHHHHHHHHHHh-ccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeeccccCCc
Confidence            789999999999964 5667777778888999999999999999999999999999999754

>3fes_A ATP-dependent CLP endopeptidase; alpha-helical bundles, structural genomics, PSI-2, protein S initiative; HET: PG4 EPE; 1.82A {Clostridium difficile}

Probab=82.43  E-value=1  Score=30.73  Aligned_cols=39  Identities=23%  Similarity=0.303  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHHhCCCceechhhHHHhhhCch--HHhhhh
Q psy17762         59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE--ELNKLL   97 (124)
Q Consensus        59 ~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~--eL~~L~   97 (124)
                      +.++++.|...|...+...|+|+||-+|+-.++  ....++
T Consensus        12 a~~~l~~A~~~A~~~~~~~i~~eHLLlaLl~~~~~~~~~iL   52 (145)
T 3fes_A           12 AKKAIDLAFESAKSLGHNIVGSEHILLGLLREEEGIAAKVL   52 (145)
T ss_dssp             HHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHCSSHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCCccHHHHHHHHHhCCCChHHHHH
Confidence            457889999999999999999999999997654  334444

>2y1q_A CLPC N-domain, negative regulator of genetic competence CLPC/MEC; transcription, proteolysis; 1.50A {Bacillus subtilis} PDB: 2y1r_A* 2k77_A

Probab=80.94  E-value=1.3  Score=29.85  Aligned_cols=34  Identities=29%  Similarity=0.321  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHHHhCCCceechhhHHHhhhCchH
Q psy17762         59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE   92 (124)
Q Consensus        59 ~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~e   92 (124)
                      +.++++.|...|...+...|+|+||-+|+-.+++
T Consensus        10 ~~~al~~A~~~A~~~~h~~i~~eHlLlaLl~~~~   43 (150)
T 2y1q_A           10 AQKVLALAQEEALRLGHNNIGTEHILLGLVREGE   43 (150)
T ss_dssp             HHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHHHcCCCCccHHHHHHHHHhCCC
Confidence            3568899999999999999999999999976543

>3fh2_A Probable ATP-dependent protease (heat shock prote; struct genomics, PSI2, MCSG, protein structure initiative; 1.60A {Corynebacterium glutamicum}

Probab=80.19  E-value=1.2  Score=30.30  Aligned_cols=40  Identities=28%  Similarity=0.268  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHHHHhCCCceechhhHHHhhhCc--hHHhhhhc
Q psy17762         59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRND--EELNKLLS   98 (124)
Q Consensus        59 ~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d--~eL~~L~~   98 (124)
                      +.++++.|...|...+...|+|+||-+|+-.|  .....++.
T Consensus        11 ~~~~l~~A~~~A~~~~~~~i~~eHLLlaLl~~~~~~~~~iL~   52 (146)
T 3fh2_A           11 ARRVIVLAQEEARMLNHNYIGTEHILLGLIHEGEGVAAKALE   52 (146)
T ss_dssp             HHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHCCSHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCCchHHHHHHHHHhCCCChHHHHHH
Confidence            35688999999999999999999999999765  33444443

---

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	124
d1tzya_	106	a.22.1.1 (A:) Histone H2A {Chicken (Gallus gallus)	3e-62
d1u35c1	106	a.22.1.1 (C:814-919) macro-H2A.1, histone domain {	2e-61
d1f66c_	103	a.22.1.1 (C:) Histone H2A {Human (Homo sapiens), v	1e-51
d1q9ca_	172	a.22.1.3 (A:) Histone domain of Son of sevenless p	5e-45
d1jfia_	66	a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chai	5e-23
d1n1jb_	78	a.22.1.3 (B:) Nuclear transcription factor Y subun	9e-21
d1f1ea_	151	a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy	7e-14
d1f1ea_	151	a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy	7e-11

>d1tzya_ a.22.1.1 (A:) Histone H2A {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]} Length = 106

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

 Score =  183 bits (466), Expect = 3e-62
 Identities = 98/106 (92%), Positives = 103/106 (97%)

Query: 13  KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARD 72
           K+K+RSSRAGLQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL AE+LELAGNAARD
Sbjct: 1   KAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARD 60

Query: 73  NKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPK 118
           NKKTRIIPRHLQLAIRNDEELNKLL  VTIAQGGVLPNIQAVLLPK
Sbjct: 61  NKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPK 106

>d1u35c1 a.22.1.1 (C:814-919) macro-H2A.1, histone domain {Human (Homo sapiens) [TaxId: 9606]} Length = 106

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]

 Score =  181 bits (460), Expect = 2e-61
 Identities = 69/105 (65%), Positives = 85/105 (80%)

Query: 15  KTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNK 74
            +RS++AG+ FPVGR+ R ++KG+   R+G GAPVY+AAV+EYL AE+LELA NAARDNK
Sbjct: 2   TSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELAVNAARDNK 61

Query: 75  KTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 119
           K R+ PRH+ LA+ NDEELN+LL GVTIA GGVLPNI   LL KK
Sbjct: 62  KGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPELLAKK 106

>d1f66c_ a.22.1.1 (C:) Histone H2A {Human (Homo sapiens), variant H2A.Z [TaxId: 9606]} Length = 103

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]

 Score =  156 bits (396), Expect = 1e-51
 Identities = 65/104 (62%), Positives = 78/104 (75%), Gaps = 2/104 (1%)

Query: 14  SKTRSSRAGLQFPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVMEYLAAEVLELAGNAARD 72
           + +RS RAGLQFPVGRIHR L+    +  RVGA A VY AA++EYL AEVLELAGNA++D
Sbjct: 1   AVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKD 60

Query: 73  NKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLL 116
            K  RI PRHLQLAIR DEEL+ L+   TIA GGV+P+I   L+
Sbjct: 61  LKVKRITPRHLQLAIRGDEELDSLI-KATIAGGGVIPHIHKSLI 103

>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 =  142 bits (359), Expect = 5e-45
 Identities = 27/95 (28%), Positives = 52/95 (54%), Gaps = 1/95 (1%)

Query: 3   GRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEV 62
            +     A++  + R  R  L  PV +IH LL++     ++     VY+ AV+EY++A++
Sbjct: 78  DKWAIADAQSAIEKRKRRNPLSLPVEKIHPLLKEV-LGYKIDHQVSVYIVAVLEYISADI 136

Query: 63  LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL 97
           L+LAGN  R+ +   I  + +++A+  D+ L  + 
Sbjct: 137 LKLAGNYVRNIRHYEITKQDIKVAMCADKVLMDMF 171

>d1jfia_ a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chain {Human (Homo sapiens) [TaxId: 9606]} Length = 66

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]

 Score = 82.9 bits (205), Expect = 5e-23
 Identities = 14/64 (21%), Positives = 28/64 (43%)

Query: 24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHL 83
          +FP  RI ++++      +V A  PV ++  +E     +L+ A    +      +   HL
Sbjct: 2  RFPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHL 61

Query: 84 QLAI 87
          +  I
Sbjct: 62 KQCI 65

>d1n1jb_ a.22.1.3 (B:) Nuclear transcription factor Y subunit gamma (Nf-Yc2) {Human (Homo sapiens) [TaxId: 9606]} Length = 78

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]

 Score = 77.6 bits (191), Expect = 9e-21
 Identities = 17/75 (22%), Positives = 34/75 (45%)

Query: 26  PVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQL 85
           P+ RI ++++     + + A APV  A   +    E+   A     DNK+  +    + +
Sbjct: 2   PLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAM 61

Query: 86  AIRNDEELNKLLSGV 100
           AI   ++ + L+  V
Sbjct: 62  AITKFDQFDFLIDIV 76

>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 = 61.7 bits (150), Expect = 7e-14
 Identities = 13/76 (17%), Positives = 28/76 (36%), Gaps = 1/76 (1%)

Query: 14  SKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDN 73
            +      G  F    + R+L++    ER  + A      ++     E+ E A   A ++
Sbjct: 69  VEGVEDYDGELFGRATVRRILKRAG-IERASSDAVDLYNKLICRATEELGEKAAEYADED 127

Query: 74  KKTRIIPRHLQLAIRN 89
            +  +    ++ AI  
Sbjct: 128 GRKTVQGEDVEKAITY 143

>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 = 54.0 bits (130), Expect = 7e-11
 Identities = 13/65 (20%), Positives = 25/65 (38%)

Query: 24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHL 83
          + P   I R+ R+G    R+   A   +   +  +A  V   A +    + K  ++  HL
Sbjct: 1  ELPKAAIERIFRQGIGERRLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHL 60

Query: 84 QLAIR 88
          +    
Sbjct: 61 KALAD 65

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	124
d1u35c1	106	macro-H2A.1, histone domain {Human (Homo sapiens)	100.0
d1tzya_	106	Histone H2A {Chicken (Gallus gallus), erythrocytes	100.0
d1f66c_	103	Histone H2A {Human (Homo sapiens), variant H2A.Z [	100.0
d1q9ca_	172	Histone domain of Son of sevenless protein {Human	99.96
d1jfia_	66	Negative cofactor 2, NC2, alpha chain {Human (Homo	99.71
d1n1jb_	78	Nuclear transcription factor Y subunit gamma (Nf-Y	99.64
d1f1ea_	151	Archaeal histone {Archaeon Methanopyrus kandleri [	99.5
d1ku5a_	66	Archaeal histone {Archaeon (Pyrococcus horikoshii)	99.41
d1htaa_	68	Archaeal histone {Archaeon Methanothermus fervidus	99.39
d1n1ja_	87	Nuclear transcription factor Y subunit beta (Nf-Yb	99.23
d2huec1	82	Histone H4 {African clawed frog (Xenopus laevis) [	99.07
d1f1ea_	151	Archaeal histone {Archaeon Methanopyrus kandleri [	99.02
d1jfib_	135	Negative cofactor 2, NC2, beta chain {Human (Homo	99.02
d2byka1	72	Chrac-16 {Fruit fly (Drosophila melanogaster) [Tax	98.87
d2bykb1	89	Chrac-14 {Fruit fly (Drosophila melanogaster) [Tax	98.74
d1tzyb_	92	Histone H2B {Chicken (Gallus gallus), erythrocytes	97.61
d1tzyc_	95	Histone H3 {Chicken (Gallus gallus), erythrocytes	97.5
d1tafb_	70	TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta	97.38
d1bh9b_	89	TAF(II)28 {Human (Homo sapiens) [TaxId: 9606]}	97.08
d1tafa_	68	TAF(II)42 {Fruit fly (Drosophila melanogaster) [Ta	96.93
d1h3ob_	74	TAF(II)-20, (TAF(II)-15, hTAF12), histone fold dom	95.37
d1k6ka_	142	N-terminal, ClpS-binding domain of ClpA, an Hsp100	91.37
d1wwia1	148	Hypothetical protein TTHA1479 {Thermus thermophilu	91.05
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	89.19
d1khya_	139	N-terminal domain of ClpB (heat shock protein F84.	87.52
d1qvra1	145	N-terminal domain of ClpB (heat shock protein F84.	87.38

>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=100.00  E-value=1.7e-47  Score=262.37  Aligned_cols=106  Identities=65%  Similarity=1.016  Sum_probs=103.8

Q ss_pred             cCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHH
Q psy17762         14 SKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEEL   93 (124)
Q Consensus        14 ~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL   93 (124)
                      +.|+|+||||+|||+||+|+|++++|++||+++|||||+||||||++||||+|+|+|.++++++|+|+||++||+||+||
T Consensus         1 k~srs~ragL~FpV~ri~r~Lk~~~~~~rv~~~apVylaAVLEYL~aEILELAgn~a~~~k~~rItprhi~lairnD~EL   80 (106)
T d1u35c1           1 KTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELAVNAARDNKKGRVTPRHILLAVANDEEL   80 (106)
T ss_dssp             CCCHHHHHTCSSCHHHHHHHHHHHSTTSEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHSHHH
T ss_pred             CCCccccCCcccCHHHHHHHHhCCCCccccCCCCchhHHHHHHHHHHHHHHHHHHHHHHcCCCeeecchhhhcccCHHHH
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhcCceeccCccCCCccccccCcc
Q psy17762         94 NKLLSGVTIAQGGVLPNIQAVLLPKK  119 (124)
Q Consensus        94 ~~L~~~~~i~~gg~~p~~~~~~~~~k  119 (124)
                      +.||+++||++|||+|+||++|++||
T Consensus        81 ~~L~~~vtI~~GGv~p~Ih~~Ll~kk  106 (106)
T d1u35c1          81 NQLLKGVTIASGGVLPNIHPELLAKK  106 (106)
T ss_dssp             HHHTTTEEETTCCCCCCCCGGGSCCC
T ss_pred             HHHHcCCeEeCCcccCCcCHHhcCCC
Confidence            99999999999999999999999987

>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=100.00  E-value=2.6e-47  Score=261.34  Aligned_cols=106  Identities=92%  Similarity=1.329  Sum_probs=103.8

Q ss_pred             ccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchH
Q psy17762         13 KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE   92 (124)
Q Consensus        13 ~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~e   92 (124)
                      |.+|+|+||||+|||++|+|+|+++.|++||+++|||||+||||||++||||+|+|+|+++++++|+|+||++||+||+|
T Consensus         1 k~~Srs~rAgL~FpV~rv~r~Lk~~~~~~rv~~~apVylaAVLEYLtaEiLELAgn~a~~~k~~rItPrhi~lAirnDee   80 (106)
T d1tzya_           1 KAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRNDEE   80 (106)
T ss_dssp             CCCCHHHHHTCSSCHHHHHHHHHHTTSSSEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHTSHH
T ss_pred             CCccccccCCccCChHHHHHHHHcCccccccCCCchHHHHHHHHHHHHHHHHHhhHHHHhcCCceecchhhhhcccCHHH
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhhcCceeccCccCCCccccccCc
Q psy17762         93 LNKLLSGVTIAQGGVLPNIQAVLLPK  118 (124)
Q Consensus        93 L~~L~~~~~i~~gg~~p~~~~~~~~~  118 (124)
                      |+.||+++||++|||+|+||++|++|
T Consensus        81 L~~L~~~vtI~~GGv~P~Ih~~Llpk  106 (106)
T d1tzya_          81 LNKLLGKVTIAQGGVLPNIQAVLLPK  106 (106)
T ss_dssp             HHHHTTTEEETTCCCCCCCCGGGSCC
T ss_pred             HHHHHcCCeecCCCccCccCHhhcCC
Confidence            99999999999999999999999986

>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=100.00  E-value=1.2e-44  Score=247.38  Aligned_cols=101  Identities=64%  Similarity=0.964  Sum_probs=97.7

Q ss_pred             CCCCcccccccchhhhhHHHhcCCccc-ccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHH
Q psy17762         15 KTRSSRAGLQFPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEEL   93 (124)
Q Consensus        15 ~s~s~ragl~fPv~ri~R~lk~~~~~~-rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL   93 (124)
                      +|+|+||||+|||+||+|||++++++. ||+++|||||+||||||++||+|+|+++|.++++++|+|+||++||+||+||
T Consensus         2 ~Srs~rAgL~FpVgrv~r~L~~~~~~~~rv~~~A~VyLaAvLEYL~aEILelagn~a~~~~~~rItpr~l~lai~nD~EL   81 (103)
T d1f66c_           2 VSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEEL   81 (103)
T ss_dssp             CCHHHHHTCSSCHHHHHHHHHHTSCSSCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHHHSHHH
T ss_pred             CCccccCCcccChHHHHHHHhccCccceecCCCceeeHHHHHHHHHHHHHHHhhhhhccCCCCeeechhhhccccCcHHH
Confidence            689999999999999999999999885 6999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhcCceeccCccCCCcccccc
Q psy17762         94 NKLLSGVTIAQGGVLPNIQAVLL  116 (124)
Q Consensus        94 ~~L~~~~~i~~gg~~p~~~~~~~  116 (124)
                      |.|| ++||++|||+|+||++|+
T Consensus        82 ~~L~-~vti~~GGv~p~I~~~Ll  103 (103)
T d1f66c_          82 DSLI-KATIAGGGVIPHIHKSLI  103 (103)
T ss_dssp             HHHC-CSEETTCCCCCCCCGGGC
T ss_pred             HHHh-CeEeeCCeecccccHhhC
Confidence            9999 599999999999999986

>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=99.96  E-value=4.2e-30  Score=188.53  Aligned_cols=86  Identities=30%  Similarity=0.555  Sum_probs=74.5

Q ss_pred             CccCCCCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCch
Q psy17762         12 AKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE   91 (124)
Q Consensus        12 ~~~~s~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~   91 (124)
                      ..-.|+|.|+||+|||++|+|+||+. +++|||++|+|||+||||||++||+++|+++|+++++++|+|+||++||+||+
T Consensus        87 ~~~~srs~ragL~fPV~rv~rlLk~~-~a~RVs~~A~vyLaavLEyl~aeILelAgn~a~~~krkrItp~dI~lAi~nD~  165 (172)
T d1q9ca_          87 SAIEKRKRRNPLSLPVEKIHPLLKEV-LGYKIDHQVSVYIVAVLEYISADILKLAGNYVRNIRHYEITKQDIKVAMCADK  165 (172)
T ss_dssp             HHHC--------CCCHHHHHHHHHHH-HSSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSBCCHHHHHHHHHTCH
T ss_pred             HHHhccccccCceecHHHHHHHHHhc-cccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCceecHHHHHHHHhCCH
Confidence            34578999999999999999999996 79999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhhc
Q psy17762         92 ELNKLLS   98 (124)
Q Consensus        92 eL~~L~~   98 (124)
                      ||+.||+
T Consensus       166 eL~~Lf~  172 (172)
T d1q9ca_         166 VLMDMFH  172 (172)
T ss_dssp             HHHHHCC
T ss_pred             HHHHhhC
Confidence            9999994

>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=99.71  E-value=7.9e-18  Score=105.08  Aligned_cols=65  Identities=22%  Similarity=0.449  Sum_probs=60.0

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      +||++||+|+||.+.+..+||.+|+++++.++|||+.++++.|++.|..+++++|+++||..||+
T Consensus         2 ~fP~srVkkimk~~~~~~~is~~A~~~~~~a~E~Fi~~l~~~A~~~a~~~krktI~~~dl~~ai~   66 (66)
T d1jfia_           2 RFPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQCIE   66 (66)
T ss_dssp             CCCHHHHHHHHTTSTTCCCBCTTHHHHHHHHHHHHHHHHHHHHHHHHHTC---CBCHHHHHTTCC
T ss_pred             CCChHHHHHHHhcCCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHhC
Confidence            69999999999999999999999999999999999999999999999999999999999999874

>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=99.64  E-value=3e-16  Score=100.42  Aligned_cols=73  Identities=22%  Similarity=0.377  Sum_probs=70.9

Q ss_pred             cchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhhh
Q psy17762         25 FPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL   97 (124)
Q Consensus        25 fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L~   97 (124)
                      +|+++|+|+||.+....+|+.+|+++++.++|+|+.++.+.|++.|...++++|+++||..||+++++|++|.
T Consensus         1 LP~srVkrImK~~~~~~~is~ea~~~i~~a~E~Fi~~l~~~A~~~a~~~~rkti~~~dl~~av~~~~~~~FL~   73 (78)
T d1n1jb_           1 LPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAITKFDQFDFLI   73 (78)
T ss_dssp             CCHHHHHHHHTTSTTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTCGGGGGGT
T ss_pred             CCHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHhcCChhHHHH
Confidence            6999999999988889999999999999999999999999999999999999999999999999999999986

>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=99.50  E-value=1.7e-14  Score=102.74  Aligned_cols=71  Identities=18%  Similarity=0.238  Sum_probs=67.3

Q ss_pred             CcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhC
Q psy17762         18 SSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   89 (124)
Q Consensus        18 s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~   89 (124)
                      +.++++.||+++|+|+|++.+ ..|||.+|.++|+.++|||+.+|++.|.++|.+++|++|+++||++|+..
T Consensus        73 ~~~~~~~fp~a~IkRi~k~~g-~~ris~dA~~~l~~~~E~fi~~l~~~A~~~a~~~kRkTI~~~DI~~Av~~  143 (151)
T d1f1ea_          73 EDYDGELFGRATVRRILKRAG-IERASSDAVDLYNKLICRATEELGEKAAEYADEDGRKTVQGEDVEKAITY  143 (151)
T ss_dssp             TTCCSCCCCHHHHHHHHHHTT-CCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             cccccCccCHHHHHHHHHcCC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHH
Confidence            456799999999999999976 89999999999999999999999999999999999999999999999963

>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=99.41  E-value=2.6e-13  Score=84.01  Aligned_cols=65  Identities=32%  Similarity=0.468  Sum_probs=62.2

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhC
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   89 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~   89 (124)
                      ++|.++|.|+|++++ ..||+.+|...+..++|.|+.++...|..+|.+.+|++|+++||..|+++
T Consensus         2 ~LP~a~I~rI~k~~~-~~ris~ea~~~l~~a~e~Fi~~l~~~a~~~a~~~~RKTI~~~Dv~~Al~s   66 (66)
T d1ku5a_           2 ELPIAPVDRLIRKAG-AERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIKS   66 (66)
T ss_dssp             CSCHHHHHHHHHHTT-CSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHhCc-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHhC
Confidence            689999999999986 57999999999999999999999999999999999999999999999975

>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=99.39  E-value=3.1e-13  Score=83.97  Aligned_cols=64  Identities=28%  Similarity=0.454  Sum_probs=61.3

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      ++|.++|.|++++++ ..||+.+|...++.++|+|+.+|++.|..+|.+.+|++|+++||..|++
T Consensus         3 eLP~a~I~ri~k~~~-~~ris~ea~~~l~~~~e~fi~~l~~~a~~~a~~~kRkTi~~~DV~~Alk   66 (68)
T d1htaa_           3 ELPIAPIGRIIKNAG-AERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARK   66 (68)
T ss_dssp             CSCHHHHHHHHHHTT-CSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHCC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHH
Confidence            489999999999986 6899999999999999999999999999999999999999999999986

>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=99.23  E-value=8.1e-12  Score=81.01  Aligned_cols=74  Identities=9%  Similarity=0.185  Sum_probs=67.1

Q ss_pred             cccchhhhhHHHhcC-CcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhh
Q psy17762         23 LQFPVGRIHRLLRKG-NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKL   96 (124)
Q Consensus        23 l~fPv~ri~R~lk~~-~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L   96 (124)
                      |-||.++|.|+||+. ....+||.+|...++.+.|.|+..+...|...|...++++|+++||..|+.+.+-++++
T Consensus         1 l~LP~a~v~ri~K~~~p~~~~is~ea~~~i~~a~e~Fi~~lt~~A~~~a~~~~rKTI~~~dv~~Al~~~~~~~fl   75 (87)
T d1n1ja_           1 IYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMSTLGFDSYV   75 (87)
T ss_dssp             CCCCHHHHHHHHHHTSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHTTCGGGH
T ss_pred             CCCcHhHHHHHHHHhCCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCcHhHH
Confidence            569999999999975 45799999999999999999999999999999999999999999999999987655443

>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=99.07  E-value=2.6e-10  Score=73.30  Aligned_cols=71  Identities=18%  Similarity=0.261  Sum_probs=63.6

Q ss_pred             CCcccccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCc
Q psy17762         17 RSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND   90 (124)
Q Consensus        17 ~s~ragl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d   90 (124)
                      +++-.|  +|-+-|.|+++..+ +.|||+++...|+.++||++.+|+..|..++.|+++++|+++||.+|++..
T Consensus         4 ~d~i~g--I~k~~i~Riar~~G-v~ris~d~~~~l~~~l~~~l~~i~~~a~~~~~hakRKTvt~~DV~~Alkr~   74 (82)
T d2huec1           4 RDNIQG--ITKPAIRRLARRGG-VKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQ   74 (82)
T ss_dssp             GGGCCS--SCHHHHHHHHHHTT-CCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTT
T ss_pred             hhhhcC--cCHHHHHHHHHHcC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHhc
Confidence            344455  44556999999998 899999999999999999999999999999999999999999999999865

>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=99.02  E-value=2.5e-10  Score=80.71  Aligned_cols=65  Identities=20%  Similarity=0.280  Sum_probs=61.3

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      +||++.|.|+|++.--..|||.+|...|..++++++..|...|.+.|.+++++||+++||+.|++
T Consensus         1 ~lP~a~I~rilk~~~~~~ris~da~~~l~~~~~~~~~~Ia~eA~~l~~~~~rKTi~~edi~~a~~   65 (151)
T d1f1ea_           1 ELPKAAIERIFRQGIGERRLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHLKALAD   65 (151)
T ss_dssp             CCCHHHHHHHHHTTSTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHH
T ss_pred             CCCccHHHHHHHHhCCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence            58999999999986447899999999999999999999999999999999999999999999985

>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=99.02  E-value=1.8e-10  Score=80.19  Aligned_cols=70  Identities=17%  Similarity=0.221  Sum_probs=65.6

Q ss_pred             ccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCch
Q psy17762         22 GLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE   91 (124)
Q Consensus        22 gl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~   91 (124)
                      .+.||.++|.|+|+..-...+||.+|...++.+.|.|+..|...|...|...+|++|+++||..|+.+-+
T Consensus         2 dl~LP~a~I~kI~K~~~~~~~is~dA~~~i~~a~~~Fi~~lt~~A~~~a~~~~RkTi~~~Dv~~Al~~~~   71 (135)
T d1jfib_           2 DLTIPRAAINKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALESLG   71 (135)
T ss_dssp             CCCCCHHHHHHHHHHHSTTCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHT
T ss_pred             cccccHHHHHHHHhhCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcC
Confidence            3789999999999998777899999999999999999999999999999999999999999999998543

>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=98.87  E-value=1.3e-09  Score=68.22  Aligned_cols=64  Identities=11%  Similarity=0.123  Sum_probs=57.9

Q ss_pred             HhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHH-hCCCceechhhHHHhhhCchHHhhhh
Q psy17762         34 LRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAAR-DNKKTRIIPRHLQLAIRNDEELNKLL   97 (124)
Q Consensus        34 lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~-~~~~k~I~p~~i~~AI~~d~eL~~L~   97 (124)
                      ||.+.....||.+|++.++.++|.|+.++.+.|+..+. ++++++|++.||..||.+++.|+||-
T Consensus         1 Mk~d~dv~~is~ea~~lvskAtElFi~~L~~~a~~~a~~~~~~ktl~~~dl~~aV~~~~~f~FL~   65 (72)
T d2byka1           1 MKSSMDTGLITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPGEALKYEHLSQVVNKNKNLEFLL   65 (72)
T ss_dssp             CCSSSSCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCEECHHHHHHHHHTCSTTGGGT
T ss_pred             CCCCHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCccccHHHHHHHHccCchhhHHH
Confidence            56677789999999999999999999999999998775 45568999999999999999999987

>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=98.74  E-value=7.1e-09  Score=67.03  Aligned_cols=70  Identities=16%  Similarity=0.206  Sum_probs=62.3

Q ss_pred             chhhhhHHHhcC-CcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhh
Q psy17762         26 PVGRIHRLLRKG-NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKL   96 (124)
Q Consensus        26 Pv~ri~R~lk~~-~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L   96 (124)
                      |.++|.|+|++. ....+||.+|...++.+.|.|+..+...|...|...++++|+++||..|+.+- +|+.+
T Consensus         1 P~a~i~ri~K~~~p~~~~iskeA~~~i~~aae~FI~~lt~~A~~~a~~~~rKtI~~~dv~~Al~~~-~f~~~   71 (89)
T d2bykb1           1 PNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLTEL-DFESF   71 (89)
T ss_dssp             CCSHHHHHHHHHSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHT-TCTTT
T ss_pred             CccHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHHC-CcHHH
Confidence            889999999963 45799999999999999999999999999999999999999999999999743 34443

>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=97.61  E-value=6.1e-05  Score=48.60  Aligned_cols=60  Identities=18%  Similarity=0.244  Sum_probs=56.4

Q ss_pred             hhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         29 RIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        29 ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      .|+|.||+-.....||+.|...+...+.++.+.|...|...|..+++++|+.++|+.|++
T Consensus         8 Yi~kVLKqVhp~~giS~kam~imnsfvndiferIa~EA~~La~~~kr~TitsreIqtAvr   67 (92)
T d1tzyb_           8 YVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVR   67 (92)
T ss_dssp             HHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             HHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHH
Confidence            688999997667899999999999999999999999999999999999999999999996

>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=97.50  E-value=0.00014  Score=47.14  Aligned_cols=68  Identities=25%  Similarity=0.255  Sum_probs=60.2

Q ss_pred             cccccchhhhhHHHhcC----CcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         21 AGLQFPVGRIHRLLRKG----NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        21 agl~fPv~ri~R~lk~~----~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      .+|-+|-.++.|+.++-    ....|+..+|...|--+.|.++-++++.|...|.|.++.+|+|.|+++|..
T Consensus        18 t~lLIpk~pF~RLVRei~~~~~~~~r~~~~Al~aLQea~E~yLv~lfeda~~~a~HakRvTl~~kD~~Larr   89 (95)
T d1tzyc_          18 TELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR   89 (95)
T ss_dssp             CSCCSCHHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             cccccccccHHHHHHHHHHhcCCCCEeeHHHHHHHHHHHHHHHHHHHHHhHHHHHhcCCCcCCHHHHHHHHH
Confidence            46778999999888763    124799999999999999999999999999999999999999999999864

>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=97.38  E-value=0.00035  Score=42.77  Aligned_cols=66  Identities=11%  Similarity=0.177  Sum_probs=60.4

Q ss_pred             ccccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhh
Q psy17762         22 GLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   88 (124)
Q Consensus        22 gl~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~   88 (124)
                      +-.||..-|+-+...-+ ...++.++.-.|+-=+||=+.||++.|.+.-+|.+|+++|.+||+.|.+
T Consensus         4 ~S~~~~esik~iAeS~G-i~~l~de~a~~LA~DveYRl~eiiQeA~KFMrhskR~~Ltt~Did~ALk   69 (70)
T d1tafb_           4 GSSISAESMKVIAESIG-VGSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLK   69 (70)
T ss_dssp             SCCCCHHHHHHHHHHTT-CCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred             cccCCHHHHHHHHHHcC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcCcHHHHHHHHc
Confidence            45788888988888876 6789999999999999999999999999999999999999999999875

>d1bh9b_ a.22.1.3 (B:) TAF(II)28 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)28
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.08  E-value=0.00052  Score=43.81  Aligned_cols=64  Identities=22%  Similarity=0.363  Sum_probs=56.1

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCC-CceechhhHHHhhh
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNK-KTRIIPRHLQLAIR   88 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~-~k~I~p~~i~~AI~   88 (124)
                      .||-+.|+|+++.- ....|+....+.++++---|+.||+|.|.......+ ...+.|+||..|.+
T Consensus        16 ~~~K~~vkrl~~~~-~g~sv~~~v~i~v~giaKvFvGEiVE~A~~V~~~~~e~~PL~P~HireA~r   80 (89)
T d1bh9b_          16 AFPKAAIKRLIQSI-TGTSVSQNVVIAMSGISKVFVGEVVEEALDVCEKWGEMPPLQPKHMREAVR   80 (89)
T ss_dssp             CCCHHHHHHHHHHH-HSSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSSCCHHHHHHHHH
T ss_pred             hCCHHHHHHHHHHH-cCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCcHHHHHHHH
Confidence            38888999999985 478999999999999999999999999998776544 45799999999986

>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=96.93  E-value=0.0018  Score=39.23  Aligned_cols=56  Identities=23%  Similarity=0.285  Sum_probs=42.8

Q ss_pred             hhHHHhcCCcccccCCChHHHHHHHHHH---HHHHHHHHHHHHHHhCCCceechhhHHHhhhC
Q psy17762         30 IHRLLRKGNYAERVGAGAPVYLAAVMEY---LAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   89 (124)
Q Consensus        30 i~R~lk~~~~~~rvs~~A~v~LaavLEy---l~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~   89 (124)
                      |+-+|++.+    |++.-|-...-.||+   .+.+||+-|.-++.|.+++.|...|+++||..
T Consensus         7 i~~iL~~~G----V~~yeprV~~qlLef~yRYtt~VL~DA~vys~HA~k~~id~dDVkLAi~~   65 (68)
T d1tafa_           7 IMSILKELN----VQEYEPRVVNQLLEFTFRYVTSILDDAKVYANHARKKTIDLDDVRLATEV   65 (68)
T ss_dssp             HHHHHHHTT----CCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             HHHHHHHcC----CccccHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHh
Confidence            667888876    334444444444554   67889999999999999999999999999963

>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=95.37  E-value=0.014  Score=35.66  Aligned_cols=64  Identities=17%  Similarity=0.269  Sum_probs=55.7

Q ss_pred             hhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHhhhCc
Q psy17762         27 VGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND   90 (124)
Q Consensus        27 v~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d   90 (124)
                      -.++..++++-.-...+..++-..|.-+.+-|+..++..|+..|+|.+..++.+.||++..+.+
T Consensus         6 K~~L~eLv~~idp~~~ld~~vee~ll~iADdFV~~V~~~ac~lAKhR~s~~le~kDvql~LeR~   69 (74)
T d1h3ob_           6 KKKLQDLVREVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQLHLERQ   69 (74)
T ss_dssp             HHHHHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcHHHHHHHHHhh
Confidence            3456667776555688999999999999999999999999999999999999999999988755

>d1k6ka_ a.174.1.1 (A:) N-terminal, ClpS-binding domain of ClpA, an Hsp100 chaperone {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Double Clp-N motif
superfamily: Double Clp-N motif
family: Double Clp-N motif
domain: N-terminal, ClpS-binding domain of ClpA, an Hsp100 chaperone
species: Escherichia coli [TaxId: 562]

Probab=91.37  E-value=0.12  Score=33.35  Aligned_cols=39  Identities=23%  Similarity=0.273  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHHHHhCCCceechhhHHHhhhCchHHhhhh
Q psy17762         59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL   97 (124)
Q Consensus        59 ~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~eL~~L~   97 (124)
                      +.+++..|.+.|...+...|+|+||-+|+-+|++...++
T Consensus         6 l~~~l~~A~~~A~~~~h~~i~~EHLL~aLl~~~~~~~~l   44 (142)
T d1k6ka_           6 LELSLNMAFARAREHRHEFMTVEHLLLALLSNPSAREAL   44 (142)
T ss_dssp             HHHHHHHHHHHHHHHTBSEECHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhchhHHHHH
Confidence            356788999999999999999999999999988865444

>d1wwia1 a.22.1.4 (A:1-148) Hypothetical protein TTHA1479 {Thermus thermophilus [TaxId: 274]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Bacterial histone-fold protein
domain: Hypothetical protein TTHA1479
species: Thermus thermophilus [TaxId: 274]

Probab=91.05  E-value=0.21  Score=33.96  Aligned_cols=61  Identities=18%  Similarity=0.242  Sum_probs=53.6

Q ss_pred             ccchhhhhHHHhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHH
Q psy17762         24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQL   85 (124)
Q Consensus        24 ~fPv~ri~R~lk~~~~~~rvs~~A~v~LaavLEyl~~eIlelA~~~a~~~~~k~I~p~~i~~   85 (124)
                      ..|++++++++++.. .--|..+-.--+..+++-=+.+++..|-..|+.+||..|.|.|+-.
T Consensus         2 ~m~~~k~e~~FR~aa-~LdvdK~d~~r~~d~V~~Kl~DLllva~~~A~~n~RdvI~~~DLPI   62 (148)
T d1wwia1           2 LMKVAEFERLFRQAA-GLDVDKNDLKRVSDFLRNKLYDLLAVAERNAKYNGRDLIFEPDLPI   62 (148)
T ss_dssp             CSCHHHHHHHHHHHH-CCCCCGGGHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECGGGSCC
T ss_pred             CCcHHHHHHHHHHHh-ccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeeccccCCc
Confidence            368899999999964 5667888888889999999999999999999999999999999754

>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=89.19  E-value=0.18  Score=34.77  Aligned_cols=30  Identities=13%  Similarity=0.184  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHHhCCCceechhhHHHhhhCc
Q psy17762         61 EVLELAGNAARDNKKTRIIPRHLQLAIRND   90 (124)
Q Consensus        61 eIlelA~~~a~~~~~k~I~p~~i~~AI~~d   90 (124)
                      +++..|...|...++..|+++|++.|+..|
T Consensus       258 ~~l~~a~~~A~~~~~~~It~~~V~~A~~e~  287 (287)
T d1w5sa2         258 VALKMACEMAEAMGRDSLSEDLVRKAVSEN  287 (287)
T ss_dssp             HHHHHHHHHHHHTTCSSCCHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHcCCCCCCHHHHHHHHhcC
Confidence            577788888888899999999999999764

>d1khya_ a.174.1.1 (A:) N-terminal domain of ClpB (heat shock protein F84.1) {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Double Clp-N motif
superfamily: Double Clp-N motif
family: Double Clp-N motif
domain: N-terminal domain of ClpB (heat shock protein F84.1)
species: Escherichia coli [TaxId: 562]

Probab=87.52  E-value=0.3  Score=31.11  Aligned_cols=34  Identities=29%  Similarity=0.194  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHHHhCCCceechhhHHHhhhCchH
Q psy17762         59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE   92 (124)
Q Consensus        59 ~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~e   92 (124)
                      +.+++..|-..|...+...|+|+||-+|+-+|++
T Consensus         7 ~~~~l~~A~~~A~~~~h~~v~~eHlL~all~~~~   40 (139)
T d1khya_           7 FQLALADAQSLALGHDNQFIEPLHLMSALLNQEG   40 (139)
T ss_dssp             HHHHHHHHHHHHHHTTCSSBCHHHHHHHHHTCTT
T ss_pred             HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCcc
Confidence            4578899999999999999999999999987654

>d1qvra1 a.174.1.1 (A:4-148) N-terminal domain of ClpB (heat shock protein F84.1) {Thermus thermophilus [TaxId: 274]}

class: All alpha proteins
fold: Double Clp-N motif
superfamily: Double Clp-N motif
family: Double Clp-N motif
domain: N-terminal domain of ClpB (heat shock protein F84.1)
species: Thermus thermophilus [TaxId: 274]

Probab=87.38  E-value=0.34  Score=31.75  Aligned_cols=41  Identities=32%  Similarity=0.236  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHHhCCCceechhhHHHhhhCchH--HhhhhcC
Q psy17762         59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE--LNKLLSG   99 (124)
Q Consensus        59 ~~eIlelA~~~a~~~~~k~I~p~~i~~AI~~d~e--L~~L~~~   99 (124)
                      +.+++..|-..|...+...|+|+||-+|+-+|++  +..++..
T Consensus         7 a~~~l~~A~~~A~~~~~~~i~~~HlL~all~~~~~~~~~iL~~   49 (145)
T d1qvra1           7 AREALAQAQVLAQRMKHQAIDLPHLWAVLLKDERSLAWRLLEK   49 (145)
T ss_dssp             HHHHHHHHHHHHHHTTCSEECHHHHHHHHCCSSSSHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHcCCCcccHHHHHHHHHcCCcchHHHHHHH
Confidence            4578999999999999999999999999987664  6666653