Citrus Sinensis ID: 032326

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140---
Protein Sequence
MEVTKPTKGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTSTSETPKSPKSPKKA
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHcccccccccccccccEEccccccHHHHHHHccEEEcccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccHHHHHcccccHHHHHHHHHHcccccEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEcHHHHHHHHHccHHHHHHcccEEEccccccccccHHHccccccccccccccccccccc
Coil and Loop (DISEMBL)
mevtkptkgaggrrgggerkKISKSVKAGLQFPVGRIARFLKKGRYaqrmgsgaPIYMAAVLEYLAAEVLELAGNaardnkknrinprHVLLAVRNDDELGKLLQgvtiasggvlpninpvllpkkttstsetpkspkspkka
Flexible Loop (DISEMBL)
mevtkptkgaggrrgggerkkisksvkaglqfpvgrIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGnaardnkknrinpRHVLLAVRNDDELGKLLQGvtiasggvlpninpvllpkkttstsetpkspkspkka
Low Complexity Region (SEG)
MEVTKPTkgaggrrgggerkkISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMaavleylaaevlelaGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLpkkttstsetpkspkspkkA
Disordered region (IsUnstruct)
***************************AGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL********************
Disordered Region (DISOPRED)
******************************QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNI*************************
Disordered Region (DISEMBL)
*************************VKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKK*****************
Disordered Region (DISPRO)
****************************GLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPK******************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEVTKPTKGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTSTSETPKSPKSPKKA
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	143	2.2.26 [Sep-21-2011]
Q94F49	150	Probable histone H2A.5 OS	yes	no	0.986	0.94	0.791	1e-60
P25469	146	Histone H2A.1 OS=Solanum	N/A	no	1.0	0.979	0.794	9e-59
P40281	149	Histone H2A.2 OS=Pisum sa	N/A	no	0.853	0.818	0.801	1e-52
Q9LZ46	153	Probable histone H2A.4 OS	no	no	0.881	0.823	0.769	3e-52
Q75L11	156	Probable histone H2A.6 OS	yes	no	0.909	0.833	0.786	3e-52
A2XZN0	156	Probable histone H2A.6 OS	N/A	no	0.909	0.833	0.786	3e-52
Q2HU65	153	Probable histone H2A.2 OS	N/A	no	0.839	0.784	0.808	6e-52
Q9M531	153	Histone H2A OS=Euphorbia	N/A	no	0.951	0.888	0.772	8e-52
Q2HU68	148	Probable histone H2A.1 OS	N/A	no	0.874	0.844	0.775	8e-52
Q6L500	163	Probable histone H2A.4 OS	no	no	0.853	0.748	0.793	1e-51

>sp|Q94F49|H2A5_ARATH Probable histone H2A.5 OS=Arabidopsis thaliana GN=At5g27670 PE=1 SV=1

 Score =  231 bits (589), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 114/144 (79%), Positives = 129/144 (89%), Gaps = 3/144 (2%)

Query: 3   VTKPTKGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVL 62
            TKPT+GAGGR+GG  +K +SKSVKAGLQFPVGRIAR+LKKGRYA R GSGAP+Y+AAVL
Sbjct: 7   TTKPTRGAGGRKGGDRKKSVSKSVKAGLQFPVGRIARYLKKGRYALRYGSGAPVYLAAVL 66

Query: 63  EYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVL 122
           EYLAAEVLELAGNAARDNKKNRINPRH+ LA+RND+ELG+LL GVTIASGGVLPNINPVL
Sbjct: 67  EYLAAEVLELAGNAARDNKKNRINPRHLCLAIRNDEELGRLLHGVTIASGGVLPNINPVL 126

Query: 123 LPKKTTSTS---ETPKSPKSPKKA 143
           LPKK+T++S   E   + KSPKKA
Sbjct: 127 LPKKSTASSSQAEKASATKSPKKA 150

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.
Arabidopsis thaliana (taxid: 3702)

>sp|P25469|H2A1_SOLLC Histone H2A.1 OS=Solanum lycopersicum PE=2 SV=1

 Score =  224 bits (572), Expect = 9e-59,   Method: Compositional matrix adjust.
 Identities = 116/146 (79%), Positives = 130/146 (89%), Gaps = 3/146 (2%)

Query: 1   MEVTKPTKGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAA 60
           M+ TK TKGAGGR+GG  +K ++KS+KAGLQFPVGRI R+LKKGRYAQR+GSGAPIY+AA
Sbjct: 1   MDATKTTKGAGGRKGGPRKKSVTKSIKAGLQFPVGRIGRYLKKGRYAQRVGSGAPIYLAA 60

Query: 61  VLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINP 120
           VLEYLAAEVLELAGNAARDNKK+RI PRHVLLAVRND+ELGKLL GVTIASGGVLPNINP
Sbjct: 61  VLEYLAAEVLELAGNAARDNKKSRIIPRHVLLAVRNDEELGKLLAGVTIASGGVLPNINP 120

Query: 121 VLLPKKTTSTSE-TPKSP--KSPKKA 143
           VLLPKK+    E +PK+   KSPKKA
Sbjct: 121 VLLPKKSAVAEEKSPKAKAGKSPKKA 146

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

Solanum lycopersicum (taxid: 4081)

>sp|P40281|H2A2_PEA Histone H2A.2 OS=Pisum sativum PE=2 SV=1

 Score =  204 bits (520), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 101/126 (80%), Positives = 114/126 (90%), Gaps = 4/126 (3%)

Query: 22  ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNK 81
           +++SV+AGLQFPVGRI RFLKKGRYAQR+G+GAP+Y+AAVLEYLAAEVLELAGNAARDNK
Sbjct: 24  VTRSVRAGLQFPVGRIGRFLKKGRYAQRVGTGAPVYLAAVLEYLAAEVLELAGNAARDNK 83

Query: 82  KNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTSTSETPKSP---- 137
           KNRI+PRH+LLAVRND ELGKLL GVTIA GGVLPNINPVLLPK+T S +  PKSP    
Sbjct: 84  KNRISPRHLLLAVRNDVELGKLLAGVTIAYGGVLPNINPVLLPKRTESAASAPKSPSKAK 143

Query: 138 KSPKKA 143
           K+PKKA
Sbjct: 144 KTPKKA 149

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.

Pisum sativum (taxid: 3888)

>sp|Q9LZ46|H2A4_ARATH Probable histone H2A.4 OS=Arabidopsis thaliana GN=At5g02560 PE=1 SV=1

 Score =  203 bits (517), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 97/126 (76%), Positives = 115/126 (91%)

Query: 18  ERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAA 77
           ++K +S+SVK+GLQFPVGRI R+LKKGRY++R+G+GAP+Y+AAVLEYLAAEVLELAGNAA
Sbjct: 21  KKKPVSRSVKSGLQFPVGRIGRYLKKGRYSKRVGTGAPVYLAAVLEYLAAEVLELAGNAA 80

Query: 78  RDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTSTSETPKSP 137
           RDNKKNRI PRHVLLAVRND+ELG LL+GVTIA GGVLPNINP+LLPKK+   + T K+P
Sbjct: 81  RDNKKNRIIPRHVLLAVRNDEELGTLLKGVTIAHGGVLPNINPILLPKKSEKAASTTKTP 140

Query: 138 KSPKKA 143
           KSP KA
Sbjct: 141 KSPSKA 146

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

Arabidopsis thaliana (taxid: 3702)

>sp|Q75L11|H2A6_ORYSJ Probable histone H2A.6 OS=Oryza sativa subsp. japonica GN=Os05g0113900 PE=2 SV=2

 Score =  203 bits (516), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 103/131 (78%), Positives = 116/131 (88%), Gaps = 1/131 (0%)

Query: 5   KPTKGAGGRRGGGERKK-ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLE 63
           K  K A GR+ GG +KK +S+SVKAGLQFPVGRI R+LKKGRYAQR+G+GAP+Y+AAVLE
Sbjct: 8   KAAKKAVGRKLGGPKKKPVSRSVKAGLQFPVGRIGRYLKKGRYAQRVGTGAPVYLAAVLE 67

Query: 64  YLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
           YLAAEVLELAGNAARDNKKNRI PRHVLLA+RND+ELGKLL GVTIA GGVLPNINPVLL
Sbjct: 68  YLAAEVLELAGNAARDNKKNRIIPRHVLLAIRNDEELGKLLAGVTIAHGGVLPNINPVLL 127

Query: 124 PKKTTSTSETP 134
           PKKT   ++ P
Sbjct: 128 PKKTAEKADKP 138

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.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|A2XZN0|H2A6_ORYSI Probable histone H2A.6 OS=Oryza sativa subsp. indica GN=OsI_017523 PE=3 SV=2

 Score =  203 bits (516), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 103/131 (78%), Positives = 116/131 (88%), Gaps = 1/131 (0%)

Query: 5   KPTKGAGGRRGGGERKK-ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLE 63
           K  K A GR+ GG +KK +S+SVKAGLQFPVGRI R+LKKGRYAQR+G+GAP+Y+AAVLE
Sbjct: 8   KAAKKAVGRKLGGPKKKPVSRSVKAGLQFPVGRIGRYLKKGRYAQRVGTGAPVYLAAVLE 67

Query: 64  YLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
           YLAAEVLELAGNAARDNKKNRI PRHVLLA+RND+ELGKLL GVTIA GGVLPNINPVLL
Sbjct: 68  YLAAEVLELAGNAARDNKKNRIIPRHVLLAIRNDEELGKLLAGVTIAHGGVLPNINPVLL 127

Query: 124 PKKTTSTSETP 134
           PKKT   ++ P
Sbjct: 128 PKKTAEKADKP 138

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.

Oryza sativa subsp. indica (taxid: 39946)

>sp|Q2HU65|H2A2_MEDTR Probable histone H2A.2 OS=Medicago truncatula GN=MtrDRAFT_AC149210g4v1 PE=3 SV=1

 Score =  202 bits (514), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 97/120 (80%), Positives = 110/120 (91%)

Query: 22  ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNK 81
           +++S++AGLQFPVGRI R+LKKGRYAQR+G+GAP+Y+AAVLEYLAAEVLELAGNAARDNK
Sbjct: 24  VTRSIRAGLQFPVGRIGRYLKKGRYAQRVGTGAPVYLAAVLEYLAAEVLELAGNAARDNK 83

Query: 82  KNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTSTSETPKSPKSPK 141
           KNRI PRHVLLAVRND+ELGKLL GVTIA GGVLPNINPVLLPKKT  ++   K PKSPK
Sbjct: 84  KNRIIPRHVLLAVRNDEELGKLLAGVTIAHGGVLPNINPVLLPKKTERSNTVSKEPKSPK 143

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

Medicago truncatula (taxid: 3880)

>sp|Q9M531|H2A_EUPES Histone H2A OS=Euphorbia esula PE=2 SV=1

 Score =  201 bits (512), Expect = 8e-52,   Method: Compositional matrix adjust.
 Identities = 112/145 (77%), Positives = 122/145 (84%), Gaps = 9/145 (6%)

Query: 8   KGAGGRRGGGERKK-ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLA 66
           KGAG R+GGG +KK +S+SVKAGLQFPVGRI RFLKKGRYAQR+GSGAP+Y+AAVLEYLA
Sbjct: 9   KGAGERKGGGPKKKPVSRSVKAGLQFPVGRIGRFLKKGRYAQRVGSGAPVYLAAVLEYLA 68

Query: 67  AEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKK 126
           AEVLELAGNAARDNKKNRI PRHVLLAVRND+ELGKLL GVTIA GGVLPNINPVLLPKK
Sbjct: 69  AEVLELAGNAARDNKKNRIIPRHVLLAVRNDEELGKLLAGVTIAHGGVLPNINPVLLPKK 128

Query: 127 TTSTSET--------PKSPKSPKKA 143
               +           K+ KSPKKA
Sbjct: 129 AEKAAAAATKEPKSPAKATKSPKKA 153

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.

Euphorbia esula (taxid: 3993)

>sp|Q2HU68|H2A1_MEDTR Probable histone H2A.1 OS=Medicago truncatula GN=MtrDRAFT_AC149210g1v1 PE=3 SV=1

 Score =  201 bits (512), Expect = 8e-52,   Method: Compositional matrix adjust.
 Identities = 100/129 (77%), Positives = 113/129 (87%), Gaps = 4/129 (3%)

Query: 19  RKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAAR 78
           +K +++S +AGLQFPVGRI R+LKKGRYAQR+G+GAP+Y+AAVLEYLAAEVLELAGNAAR
Sbjct: 20  KKSVTRSTRAGLQFPVGRIGRYLKKGRYAQRVGTGAPVYLAAVLEYLAAEVLELAGNAAR 79

Query: 79  DNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTSTSETPKSP- 137
           DNKKNRI PRHVLLAVRND+ELGKLL GVTIA GGVLPNINP+LLPKK    + T KSP 
Sbjct: 80  DNKKNRIIPRHVLLAVRNDEELGKLLAGVTIAHGGVLPNINPILLPKKNEKAATTTKSPS 139

Query: 138 ---KSPKKA 143
              KSPKKA
Sbjct: 140 KATKSPKKA 148

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

Medicago truncatula (taxid: 3880)

>sp|Q6L500|H2A4_ORYSJ Probable histone H2A.4 OS=Oryza sativa subsp. japonica GN=Os05g0461400 PE=2 SV=1

 Score =  201 bits (511), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 100/126 (79%), Positives = 114/126 (90%), Gaps = 4/126 (3%)

Query: 22  ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNK 81
           +S+SVKAGLQFPVGRI R+LK+GRY+QR+G+GAP+Y+AAVLEYLAAEVLELAGNAARDNK
Sbjct: 27  VSRSVKAGLQFPVGRIGRYLKQGRYSQRIGTGAPVYLAAVLEYLAAEVLELAGNAARDNK 86

Query: 82  KNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTST----SETPKSP 137
           KNRI PRHVLLA+RND+ELGKLL GVTIA GGVLPNINPVLLPKKT S     ++  K+P
Sbjct: 87  KNRIIPRHVLLAIRNDEELGKLLAGVTIAHGGVLPNINPVLLPKKTGSAAAKEAKEGKTP 146

Query: 138 KSPKKA 143
           KSPKKA
Sbjct: 147 KSPKKA 152

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.

Oryza sativa subsp. japonica (taxid: 39947)

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	143
225450811	137	PREDICTED: probable histone H2A.5 [Vitis	0.958	1.0	0.832	3e-59
15241016	150	histone H2A 7 [Arabidopsis thaliana] gi|	0.986	0.94	0.791	7e-59
449454085	141	PREDICTED: probable histone H2A.5-like [	0.944	0.957	0.857	7e-58
357511939	144	Histone H2A [Medicago truncatula] gi|124	0.916	0.909	0.847	1e-57
374428670	387	fusion protein of histone 2A and enhance	1.0	0.369	0.794	5e-57
122003	146	RecName: Full=Histone H2A.1; AltName: Fu	1.0	0.979	0.794	6e-57
356572998	144	PREDICTED: probable histone H2A.5 [Glyci	0.860	0.854	0.846	1e-53
255542708	146	histone h2a, putative [Ricinus communis]	0.853	0.835	0.864	1e-53
27529852	148	H2A histone [Nicotiana tabacum]	0.853	0.824	0.856	2e-53
297796941	149	hypothetical protein ARALYDRAFT_358204 [	1.0	0.959	0.758	5e-53

>gi|225450811|ref|XP_002283971.1| PREDICTED: probable histone H2A.5 [Vitis vinifera] gi|147820539|emb|CAN67660.1| hypothetical protein VITISV_044408 [Vitis vinifera] gi|296089682|emb|CBI39501.3| unnamed protein product [Vitis vinifera]

 Score =  233 bits (593), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 119/143 (83%), Positives = 129/143 (90%), Gaps = 6/143 (4%)

Query: 1   MEVTKPTKGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAA 60
           ME TKPTKGAGGR+GG  +K +SKSVKAGLQFPVGRIARFLK GRYAQR G+GAPIY+AA
Sbjct: 1   MENTKPTKGAGGRKGGERKKSVSKSVKAGLQFPVGRIARFLKTGRYAQRTGTGAPIYLAA 60

Query: 61  VLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINP 120
           VLEYLAAEVLELAGNAARDNKKNRI+PRHVLLAVRND+ELGKLL+GVTIA+GGVLPNINP
Sbjct: 61  VLEYLAAEVLELAGNAARDNKKNRISPRHVLLAVRNDEELGKLLRGVTIANGGVLPNINP 120

Query: 121 VLLPKKTTSTSETPKSPKSPKKA 143
           VLLPKK+ S       PKSPKKA
Sbjct: 121 VLLPKKSNS------EPKSPKKA 137

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15241016|ref|NP_198119.1| histone H2A 7 [Arabidopsis thaliana] gi|75306451|sp|Q94F49.1|H2A5_ARATH RecName: Full=Probable histone H2A.5; AltName: Full=HTA7 gi|14326516|gb|AAK60303.1|AF385711_1 AT5g27670/F15A18_130 [Arabidopsis thaliana] gi|18700220|gb|AAL77720.1| AT5g27670/F15A18_130 [Arabidopsis thaliana] gi|332006330|gb|AED93713.1| histone H2A 7 [Arabidopsis thaliana]

 Score =  231 bits (589), Expect = 7e-59,   Method: Compositional matrix adjust.
 Identities = 114/144 (79%), Positives = 129/144 (89%), Gaps = 3/144 (2%)

Query: 3   VTKPTKGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVL 62
            TKPT+GAGGR+GG  +K +SKSVKAGLQFPVGRIAR+LKKGRYA R GSGAP+Y+AAVL
Sbjct: 7   TTKPTRGAGGRKGGDRKKSVSKSVKAGLQFPVGRIARYLKKGRYALRYGSGAPVYLAAVL 66

Query: 63  EYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVL 122
           EYLAAEVLELAGNAARDNKKNRINPRH+ LA+RND+ELG+LL GVTIASGGVLPNINPVL
Sbjct: 67  EYLAAEVLELAGNAARDNKKNRINPRHLCLAIRNDEELGRLLHGVTIASGGVLPNINPVL 126

Query: 123 LPKKTTSTS---ETPKSPKSPKKA 143
           LPKK+T++S   E   + KSPKKA
Sbjct: 127 LPKKSTASSSQAEKASATKSPKKA 150

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449454085|ref|XP_004144786.1| PREDICTED: probable histone H2A.5-like [Cucumis sativus] gi|449521036|ref|XP_004167537.1| PREDICTED: probable histone H2A.5-like [Cucumis sativus]

 Score =  228 bits (581), Expect = 7e-58,   Method: Compositional matrix adjust.
 Identities = 120/140 (85%), Positives = 128/140 (91%), Gaps = 5/140 (3%)

Query: 7   TKGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLA 66
           TKGAGGR+GG +R K+SKSVKAGLQFPVGRI R+LKKGRYAQR  +GAPIY+AAVLEYLA
Sbjct: 4   TKGAGGRKGG-DRTKVSKSVKAGLQFPVGRIGRYLKKGRYAQRTAAGAPIYLAAVLEYLA 62

Query: 67  AEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKK 126
           AEVLELAGNAARDNKKNRINPRHVLLAVRND+ELGKLLQGVTIASGGVLPNINPVLLPKK
Sbjct: 63  AEVLELAGNAARDNKKNRINPRHVLLAVRNDEELGKLLQGVTIASGGVLPNINPVLLPKK 122

Query: 127 TTSTSETP---KSPKSPKKA 143
           T S S TP   K+ KSPKKA
Sbjct: 123 TASNS-TPTAEKAQKSPKKA 141

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357511939|ref|XP_003626258.1| Histone H2A [Medicago truncatula] gi|124360019|gb|ABN08035.1| Histone H2A; Histone-fold [Medicago truncatula] gi|355501273|gb|AES82476.1| Histone H2A [Medicago truncatula]

 Score =  227 bits (579), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 111/131 (84%), Positives = 121/131 (92%)

Query: 8   KGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAA 67
           KGAGGR+GG  +K +SKS KAGLQFPVGRIARF+KKGRY+QR+G+GAPIY+AAVLEYLAA
Sbjct: 13  KGAGGRKGGERKKAVSKSSKAGLQFPVGRIARFMKKGRYSQRVGTGAPIYLAAVLEYLAA 72

Query: 68  EVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKT 127
           EVLELAGNAARDNKKNRINPRHV LAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKT
Sbjct: 73  EVLELAGNAARDNKKNRINPRHVCLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKT 132

Query: 128 TSTSETPKSPK 138
            +  +T  SPK
Sbjct: 133 AAAEKTTNSPK 143

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|374428670|dbj|BAL49713.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00001] gi|374428674|dbj|BAL49716.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00002] gi|374428678|dbj|BAL49719.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00003] gi|374428682|dbj|BAL49722.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00004] gi|374428686|dbj|BAL49725.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00005] gi|374428690|dbj|BAL49728.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00006] gi|374428694|dbj|BAL49731.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00007] gi|374428698|dbj|BAL49734.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00008] gi|374428702|dbj|BAL49737.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00009] gi|374428706|dbj|BAL49740.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00010] gi|374428710|dbj|BAL49743.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00011] gi|374428714|dbj|BAL49746.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00012] gi|374428718|dbj|BAL49749.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00013] gi|374428722|dbj|BAL49752.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00014] gi|374428726|dbj|BAL49755.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00015] gi|374428730|dbj|BAL49758.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00016] gi|374428734|dbj|BAL49761.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00017] gi|374428738|dbj|BAL49764.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00018] gi|374428742|dbj|BAL49767.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00019] gi|374428748|dbj|BAL49770.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00020] gi|374428752|dbj|BAL49773.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00021] gi|374428756|dbj|BAL49776.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00022] gi|374428760|dbj|BAL49779.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00023] gi|374428764|dbj|BAL49782.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00024] gi|374428768|dbj|BAL49785.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00025] gi|374428772|dbj|BAL49788.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00026] gi|374428776|dbj|BAL49791.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00027] gi|374428780|dbj|BAL49794.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00028] gi|374428784|dbj|BAL49797.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00029] gi|374428788|dbj|BAL49800.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00030] gi|374428792|dbj|BAL49803.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00031] gi|374428796|dbj|BAL49806.1| fusion protein of histone 2A and enhanced yellow fluorescence protein [Cloning vector pSolycp00032]

 Score =  225 bits (573), Expect = 5e-57,   Method: Compositional matrix adjust.
 Identities = 116/146 (79%), Positives = 130/146 (89%), Gaps = 3/146 (2%)

Query: 1   MEVTKPTKGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAA 60
           M+ TK TKGAGGR+GG  +K ++KS+KAGLQFPVGRI R+LKKGRYAQR+GSGAPIY+AA
Sbjct: 1   MDATKTTKGAGGRKGGPRKKSVTKSIKAGLQFPVGRIGRYLKKGRYAQRVGSGAPIYLAA 60

Query: 61  VLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINP 120
           VLEYLAAEVLELAGNAARDNKK+RI PRHVLLAVRND+ELGKLL GVTIASGGVLPNINP
Sbjct: 61  VLEYLAAEVLELAGNAARDNKKSRIIPRHVLLAVRNDEELGKLLAGVTIASGGVLPNINP 120

Query: 121 VLLPKKTTSTSE-TPKSP--KSPKKA 143
           VLLPKK+    E +PK+   KSPKKA
Sbjct: 121 VLLPKKSAVAEEKSPKAKAGKSPKKA 146

Source: Cloning vector pSolycp00001

Species: Cloning vector pSolycp00001

Genus: N/A

Family: N/A

Order: N/A

Class: N/A

Phylum: N/A

>gi|122003|sp|P25469.1|H2A1_SOLLC RecName: Full=Histone H2A.1; AltName: Full=LeH2A-1 gi|355477218|gb|AES12482.1| putative histone 2A protein [Solanum lycopersicum]

 Score =  224 bits (572), Expect = 6e-57,   Method: Compositional matrix adjust.
 Identities = 116/146 (79%), Positives = 130/146 (89%), Gaps = 3/146 (2%)

Query: 1   MEVTKPTKGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAA 60
           M+ TK TKGAGGR+GG  +K ++KS+KAGLQFPVGRI R+LKKGRYAQR+GSGAPIY+AA
Sbjct: 1   MDATKTTKGAGGRKGGPRKKSVTKSIKAGLQFPVGRIGRYLKKGRYAQRVGSGAPIYLAA 60

Query: 61  VLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINP 120
           VLEYLAAEVLELAGNAARDNKK+RI PRHVLLAVRND+ELGKLL GVTIASGGVLPNINP
Sbjct: 61  VLEYLAAEVLELAGNAARDNKKSRIIPRHVLLAVRNDEELGKLLAGVTIASGGVLPNINP 120

Query: 121 VLLPKKTTSTSE-TPKSP--KSPKKA 143
           VLLPKK+    E +PK+   KSPKKA
Sbjct: 121 VLLPKKSAVAEEKSPKAKAGKSPKKA 146

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356572998|ref|XP_003554652.1| PREDICTED: probable histone H2A.5 [Glycine max]

 Score =  214 bits (544), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 105/124 (84%), Positives = 117/124 (94%), Gaps = 1/124 (0%)

Query: 6   PTKGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYL 65
           P KGA GRRG   +K +SKS+KAGLQFPV R+AR+LKKGRY++R+G+GAPIY+AAVLEYL
Sbjct: 4   PPKGAAGRRGD-RKKSVSKSIKAGLQFPVSRVARYLKKGRYSRRLGTGAPIYLAAVLEYL 62

Query: 66  AAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPK 125
           AAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPK
Sbjct: 63  AAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPK 122

Query: 126 KTTS 129
           K+T+
Sbjct: 123 KSTT 126

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255542708|ref|XP_002512417.1| histone h2a, putative [Ricinus communis] gi|223548378|gb|EEF49869.1| histone h2a, putative [Ricinus communis]

 Score =  213 bits (543), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 108/125 (86%), Positives = 115/125 (92%), Gaps = 3/125 (2%)

Query: 22  ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNK 81
           +SKSVKAGLQFPVGRIARFLKKGRYAQR GSGAP+Y+AAVLEYLAAEVLELAGNAARDNK
Sbjct: 22  VSKSVKAGLQFPVGRIARFLKKGRYAQRFGSGAPVYLAAVLEYLAAEVLELAGNAARDNK 81

Query: 82  KNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTT---STSETPKSPK 138
           KNRINPRHVLLAVRND+ELGKLL GVTIASGGVLPNINPVLLPKK+    +   + KSPK
Sbjct: 82  KNRINPRHVLLAVRNDEELGKLLHGVTIASGGVLPNINPVLLPKKSAAGPADKPSEKSPK 141

Query: 139 SPKKA 143
           SPKKA
Sbjct: 142 SPKKA 146

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|27529852|dbj|BAC53941.1| H2A histone [Nicotiana tabacum]

 Score =  213 bits (543), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 107/125 (85%), Positives = 116/125 (92%), Gaps = 3/125 (2%)

Query: 22  ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNK 81
           ++KSVKAGLQFPVGRIARFLKKGRYAQR+GSGAPIY+AAVLEYLAAEVLELAGNAARDNK
Sbjct: 24  VTKSVKAGLQFPVGRIARFLKKGRYAQRVGSGAPIYLAAVLEYLAAEVLELAGNAARDNK 83

Query: 82  KNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTSTSE---TPKSPK 138
           K+RI PRHVLLAVRND+ELGKLL GVTIASGGVLPNINPVLLPKK+ +  E   TPK+ K
Sbjct: 84  KSRIIPRHVLLAVRNDEELGKLLSGVTIASGGVLPNINPVLLPKKSAAAEEKASTPKATK 143

Query: 139 SPKKA 143
           SPKKA
Sbjct: 144 SPKKA 148

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297796941|ref|XP_002866355.1| hypothetical protein ARALYDRAFT_358204 [Arabidopsis lyrata subsp. lyrata] gi|297312190|gb|EFH42614.1| hypothetical protein ARALYDRAFT_358204 [Arabidopsis lyrata subsp. lyrata]

 Score =  212 bits (539), Expect = 5e-53,   Method: Compositional matrix adjust.
 Identities = 110/145 (75%), Positives = 122/145 (84%), Gaps = 2/145 (1%)

Query: 1   MEVTKPTKGA-GGRR-GGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYM 58
           ME T   K A GGR+ GG + K +SKS+KAGLQFPVGRI RFLKKGRYAQR+G GAP+YM
Sbjct: 1   METTAKVKKAFGGRKPGGAKTKSVSKSIKAGLQFPVGRITRFLKKGRYAQRLGGGAPVYM 60

Query: 59  AAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNI 118
           AAVLEYLAAEVLELAGNAARDNKK+RI PRH+LLA+RND+ELGKLL GVTIA GGVLPNI
Sbjct: 61  AAVLEYLAAEVLELAGNAARDNKKSRIIPRHLLLAIRNDEELGKLLSGVTIAHGGVLPNI 120

Query: 119 NPVLLPKKTTSTSETPKSPKSPKKA 143
           N VLLPKKT S S   K+ KSP K+
Sbjct: 121 NSVLLPKKTASKSTEEKASKSPVKS 145

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	143
TAIR|locus:2143651	150	HTA7 "histone H2A 7" [Arabidop	0.839	0.8	0.658	6.3e-37
TAIR|locus:2168148	150	HTA6 "histone H2A 6" [Arabidop	0.713	0.68	0.715	2.2e-34
TAIR|locus:2036054	142	H2AXA [Arabidopsis thaliana (t	0.713	0.718	0.637	4.9e-30
TAIR|locus:2199486	142	GAMMA-H2AX "gamma histone vari	0.713	0.718	0.637	6.2e-30
TAIR|locus:2026032	132	HTA10 "histone H2A 10" [Arabid	0.706	0.765	0.633	1.3e-29
TAIR|locus:2131704	131	HTA2 "histone H2A 2" [Arabidop	0.706	0.770	0.633	2.7e-29
TAIR|locus:2172119	130	RAT5 "RESISTANT TO AGROBACTERI	0.706	0.776	0.633	2.7e-29
TAIR|locus:2083430	132	HTA13 "histone H2A 13" [Arabid	0.706	0.765	0.633	3.4e-29
WB|WBGene00001877	127	his-3 [Caenorhabditis elegans	0.706	0.795	0.633	4.4e-29
WB|WBGene00001881	127	his-7 [Caenorhabditis elegans	0.706	0.795	0.633	4.4e-29

TAIR|locus:2143651 HTA7 "histone H2A 7" [Arabidopsis thaliana (taxid:3702)]

 Score = 397 (144.8 bits), Expect = 6.3e-37, P = 6.3e-37
 Identities = 79/120 (65%), Positives = 87/120 (72%)

Query:     4 TKPTXXXXXXXXXXXXXXISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXX 63
             TKPT              +SKSVKAGLQFPVGRIAR+LKKGRYA R GSGAP+Y+     
Sbjct:     8 TKPTRGAGGRKGGDRKKSVSKSVKAGLQFPVGRIARYLKKGRYALRYGSGAPVYLAAVLE 67

Query:    64 XXXXXXXXXXGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
                       GNAARDNKKNRINPRH+ LA+RND+ELG+LL GVTIASGGVLPNINPVLL
Sbjct:    68 YLAAEVLELAGNAARDNKKNRINPRHLCLAIRNDEELGRLLHGVTIASGGVLPNINPVLL 127

GO:0000786 "nucleosome" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0005730 "nucleolus" evidence=IDA

GO:0006816 "calcium ion transport" evidence=RCA

GO:0007030 "Golgi organization" evidence=RCA

GO:0009651 "response to salt stress" evidence=RCA

TAIR|locus:2168148 HTA6 "histone H2A 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 373 (136.4 bits), Expect = 2.2e-34, P = 2.2e-34
 Identities = 73/102 (71%), Positives = 81/102 (79%)

Query:    22 ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNK 81
             +SKS+KAGLQFPVGRI RFLKKGRYAQR+G GAP+YM               GNAARDNK
Sbjct:    25 VSKSMKAGLQFPVGRITRFLKKGRYAQRLGGGAPVYMAAVLEYLAAEVLELAGNAARDNK 84

Query:    82 KNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
             K+RI PRH+LLA+RND+ELGKLL GVTIA GGVLPNIN VLL
Sbjct:    85 KSRIIPRHLLLAIRNDEELGKLLSGVTIAHGGVLPNINSVLL 126

GO:0000786 "nucleosome" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0005730 "nucleolus" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0008283 "cell proliferation" evidence=RCA

TAIR|locus:2036054 H2AXA [Arabidopsis thaliana (taxid:3702)]

 Score = 332 (121.9 bits), Expect = 4.9e-30, P = 4.9e-30
 Identities = 65/102 (63%), Positives = 77/102 (75%)

Query:    22 ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNK 81
             +S+S KAGLQFPVGRIARFLK G+YA+R+G+GAP+Y+               GNAARDNK
Sbjct:    23 VSRSSKAGLQFPVGRIARFLKSGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNK 82

Query:    82 KNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
             K RI PRH+ LAVRND+EL KLL  VTIA+GGVLPNI+  LL
Sbjct:    83 KTRIVPRHIQLAVRNDEELSKLLGSVTIANGGVLPNIHQTLL 124

GO:0000786 "nucleosome" evidence=IEA

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

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

GO:0006334 "nucleosome assembly" evidence=IEA

TAIR|locus:2199486 GAMMA-H2AX "gamma histone variant H2AX" [Arabidopsis thaliana (taxid:3702)]

 Score = 331 (121.6 bits), Expect = 6.2e-30, P = 6.2e-30
 Identities = 65/102 (63%), Positives = 77/102 (75%)

Query:    22 ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNK 81
             +S+S KAGLQFPVGRIARFLK G+YA+R+G+GAP+Y+               GNAARDNK
Sbjct:    23 VSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNK 82

Query:    82 KNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
             K RI PRH+ LAVRND+EL KLL  VTIA+GGVLPNI+  LL
Sbjct:    83 KTRIVPRHIQLAVRNDEELSKLLGSVTIANGGVLPNIHQTLL 124

GO:0000786 "nucleosome" evidence=IEA

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

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

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0005730 "nucleolus" evidence=IDA

GO:0001510 "RNA methylation" evidence=RCA

GO:0008283 "cell proliferation" evidence=RCA

TAIR|locus:2026032 HTA10 "histone H2A 10" [Arabidopsis thaliana (taxid:3702)]

 Score = 328 (120.5 bits), Expect = 1.3e-29, P = 1.3e-29
 Identities = 64/101 (63%), Positives = 78/101 (77%)

Query:    23 SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
             ++S KAGLQFPVGRIARFLKKG+YA+R+G+GAP+Y+               GNAARDNKK
Sbjct:    18 TRSSKAGLQFPVGRIARFLKKGKYAERVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKK 77

Query:    83 NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
              RI PRH+ LAVRND+EL KLL  VTIA+GGV+PNI+ +LL
Sbjct:    78 TRIVPRHIQLAVRNDEELSKLLGDVTIANGGVMPNIHNLLL 118

GO:0000786 "nucleosome" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0005730 "nucleolus" evidence=IDA

GO:0005618 "cell wall" evidence=IDA

TAIR|locus:2131704 HTA2 "histone H2A 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 325 (119.5 bits), Expect = 2.7e-29, P = 2.7e-29
 Identities = 64/101 (63%), Positives = 77/101 (76%)

Query:    23 SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
             S+S KAGLQFPVGRIARFLK G+YA+R+G+GAP+Y+               GNAARDNKK
Sbjct:    18 SRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKK 77

Query:    83 NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
              RI PRH+ LAVRND+EL KLL  VTIA+GGV+PNI+ +LL
Sbjct:    78 TRIVPRHIQLAVRNDEELSKLLGDVTIANGGVMPNIHNLLL 118

GO:0000786 "nucleosome" evidence=IEA

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

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

GO:0006334 "nucleosome assembly" evidence=IEA

TAIR|locus:2172119 RAT5 "RESISTANT TO AGROBACTERIUM TRANSFORMATION 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 325 (119.5 bits), Expect = 2.7e-29, P = 2.7e-29
 Identities = 64/101 (63%), Positives = 77/101 (76%)

Query:    23 SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
             S+S KAGLQFPVGRIARFLK G+YA+R+G+GAP+Y+               GNAARDNKK
Sbjct:    18 SRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKK 77

Query:    83 NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
              RI PRH+ LAVRND+EL KLL  VTIA+GGV+PNI+ +LL
Sbjct:    78 TRIVPRHIQLAVRNDEELSKLLGDVTIANGGVMPNIHNLLL 118

GO:0000786 "nucleosome" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0005730 "nucleolus" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0009294 "DNA mediated transformation" evidence=IMP

GO:0009611 "response to wounding" evidence=IEP

GO:0009617 "response to bacterium" evidence=IEP

TAIR|locus:2083430 HTA13 "histone H2A 13" [Arabidopsis thaliana (taxid:3702)]

 Score = 324 (119.1 bits), Expect = 3.4e-29, P = 3.4e-29
 Identities = 64/101 (63%), Positives = 76/101 (75%)

Query:    23 SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
             S+S KAGLQFPVGRIARFLK G+YA R+G+GAP+Y+               GNAARDNKK
Sbjct:    18 SRSSKAGLQFPVGRIARFLKNGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKK 77

Query:    83 NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
              RI PRH+ LAVRND+EL KLL  VTIA+GGV+PNI+ +LL
Sbjct:    78 TRIVPRHIQLAVRNDEELSKLLGDVTIANGGVMPNIHSLLL 118

GO:0000786 "nucleosome" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0008283 "cell proliferation" evidence=RCA

WB|WBGene00001877 his-3 [Caenorhabditis elegans (taxid:6239)]

 Score = 323 (118.8 bits), Expect = 4.4e-29, P = 4.4e-29
 Identities = 64/101 (63%), Positives = 74/101 (73%)

Query:    23 SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
             S+S +AGLQFPVGR+ R L+KG YAQR+G+GAP+Y+               GNAARDNKK
Sbjct:    18 SRSSRAGLQFPVGRLHRILRKGNYAQRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKK 77

Query:    83 NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
              RI PRH+ LAVRND+EL KLL GVTIA GGVLPNI  VLL
Sbjct:    78 TRIAPRHLQLAVRNDEELNKLLAGVTIAQGGVLPNIQAVLL 118

GO:0000786 "nucleosome" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0040011 "locomotion" evidence=IMP

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

WB|WBGene00001881 his-7 [Caenorhabditis elegans (taxid:6239)]

 Score = 323 (118.8 bits), Expect = 4.4e-29, P = 4.4e-29
 Identities = 64/101 (63%), Positives = 74/101 (73%)

Query:    23 SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
             S+S +AGLQFPVGR+ R L+KG YAQR+G+GAP+Y+               GNAARDNKK
Sbjct:    18 SRSSRAGLQFPVGRLHRILRKGNYAQRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKK 77

Query:    83 NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
              RI PRH+ LAVRND+EL KLL GVTIA GGVLPNI  VLL
Sbjct:    78 TRIAPRHLQLAVRNDEELNKLLAGVTIAQGGVLPNIQAVLL 118

GO:0000786 "nucleosome" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0040011 "locomotion" evidence=IMP

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

---

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)
A2WQG7	H2A5_ORYSI	No assigned EC number	0.7375	0.9160	0.8238	N/A	no
P40280	H2A_MAIZE	No assigned EC number	0.7950	0.8461	0.7610	N/A	no
P40281	H2A2_PEA	No assigned EC number	0.8015	0.8531	0.8187	N/A	no
P40282	H2A_PLAFA	No assigned EC number	0.7166	0.8251	0.8939	yes	no
O65759	H2AX_CICAR	No assigned EC number	0.7086	0.8741	0.8992	N/A	no
P16886	H2AL_STRPU	No assigned EC number	0.72	0.8461	0.9603	yes	no
P35063	H2AX_PICAB	No assigned EC number	0.7606	0.8181	0.8478	N/A	no
P35064	H2AX_TETTS	No assigned EC number	0.7297	0.7762	0.8043	N/A	no
P35065	H2A1_TETTS	No assigned EC number	0.7256	0.7902	0.8496	N/A	no
Q9LZ46	H2A4_ARATH	No assigned EC number	0.7698	0.8811	0.8235	no	no
P02276	H2A2_WHEAT	No assigned EC number	0.8	0.7692	0.7284	N/A	no
P02275	H2A1_WHEAT	No assigned EC number	0.7685	0.8461	0.8287	N/A	no
P02274	H2A1_TETPY	No assigned EC number	0.7433	0.7902	0.8496	N/A	no
P02273	H2AX_TETPY	No assigned EC number	0.7297	0.7762	0.8043	N/A	no
P25469	H2A1_SOLLC	No assigned EC number	0.7945	1.0	0.9794	N/A	no
Q43208	H2A4_WHEAT	No assigned EC number	0.7777	0.7552	0.8	N/A	no
Q9M531	H2A_EUPES	No assigned EC number	0.7724	0.9510	0.8888	N/A	no
P13630	H2A_PARLI	No assigned EC number	0.7166	0.8391	0.9677	N/A	no
P16866	H2A4_VOLCA	No assigned EC number	0.7889	0.7622	0.8449	N/A	no
P16865	H2A3_VOLCA	No assigned EC number	0.7889	0.7622	0.8449	N/A	no
Q75L11	H2A6_ORYSJ	No assigned EC number	0.7862	0.9090	0.8333	yes	no
P27661	H2AX_MOUSE	No assigned EC number	0.6766	0.9160	0.9160	yes	no
Q1S053	H2A3_MEDTR	No assigned EC number	0.7578	0.8531	0.8026	N/A	no
A2Y5G8	H2A4_ORYSI	No assigned EC number	0.7936	0.8531	0.7484	N/A	no
Q2HU68	H2A1_MEDTR	No assigned EC number	0.7751	0.8741	0.8445	N/A	no
P02277	H2A3_WHEAT	No assigned EC number	0.6821	1.0	0.9470	N/A	no
A2XZN0	H2A6_ORYSI	No assigned EC number	0.7862	0.9090	0.8333	N/A	no
Q2HU65	H2A2_MEDTR	No assigned EC number	0.8083	0.8391	0.7843	N/A	no
P19177	H2A_PETCR	No assigned EC number	0.7769	0.8741	0.8389	N/A	no
Q9LD28	H2A6_ARATH	No assigned EC number	0.7391	0.8041	0.8846	no	no
P06897	H2A1_XENLA	No assigned EC number	0.6899	0.8671	0.9538	N/A	no
A2ZK29	H2A7_ORYSI	No assigned EC number	0.7777	0.7552	0.8	N/A	no
P69142	H2AE_PSAMI	No assigned EC number	0.7083	0.8391	0.9677	N/A	no
Q9C681	H2A1_ARATH	No assigned EC number	0.7391	0.8041	0.8712	no	no
P69141	H2A_STRPU	No assigned EC number	0.7083	0.8391	0.9677	no	no
P16104	H2AX_HUMAN	No assigned EC number	0.6842	0.9160	0.9160	yes	no
Q43214	H2A6_WHEAT	No assigned EC number	0.7480	0.9090	0.8783	N/A	no
Q43312	H2A7_WHEAT	No assigned EC number	0.7589	0.7832	0.8358	N/A	no
Q43213	H2A5_WHEAT	No assigned EC number	0.7685	0.8461	0.8344	N/A	no
P25470	H2A1_PEA	No assigned EC number	0.8476	0.7342	0.7	N/A	no
Q94E96	H2A5_ORYSJ	No assigned EC number	0.7375	0.9160	0.8238	no	no
Q94F49	H2A5_ARATH	No assigned EC number	0.7916	0.9860	0.94	yes	no
P02269	H2A_ASTRU	No assigned EC number	0.7083	0.8321	0.952	N/A	no
Q9FJE8	H2A7_ARATH	No assigned EC number	0.7260	1.0	0.9533	no	no
P50567	H2A_CHLRE	No assigned EC number	0.7981	0.7622	0.8449	N/A	no
O81826	H2A3_ARATH	No assigned EC number	0.7288	0.8251	0.9007	no	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00022735001	RecName- Full=Histone H2A; (137 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00036813001	RecName- Full=Histone H3.3;; Variant histone H3 which replaces conventional H3 in a wide range [...] (136 aa)							•		0.483
	GSVIVG00034895001	RecName- Full=Histone H3; (136 aa)							•		0.483
	GSVIVG00027005001	RecName- Full=Histone H3; (156 aa)							•		0.483
	GSVIVG00024652001	RecName- Full=Histone H3; (136 aa)							•		0.483
	GSVIVG00013065001	RecName- Full=Histone H3.3;; Variant histone H3 which replaces conventional H3 in a wide range [...] (136 aa)							•		0.483
	GSVIVG00024423001	RecName- Full=Histone H4;; Core component of nucleosome. Nucleosomes wrap and compact DNA into [...] (103 aa)							•		0.481

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	143
PLN00157	132	PLN00157, PLN00157, histone H2A; Provisional	2e-66
PTZ00017	134	PTZ00017, PTZ00017, histone H2A; Provisional	2e-64
cd00074	115	cd00074, H2A, Histone 2A; H2A is a subunit of the	5e-62
smart00414	106	smart00414, H2A, Histone 2A	7e-62
PLN00156	139	PLN00156, PLN00156, histone H2AX; Provisional	5e-55
PLN00153	129	PLN00153, PLN00153, histone H2A; Provisional	3e-49
COG5262	132	COG5262, HTA1, Histone H2A [Chromatin structure an	1e-48
PLN00154	136	PLN00154, PLN00154, histone H2A; Provisional	1e-36
PTZ00252	134	PTZ00252, PTZ00252, histone H2A; Provisional	1e-29
pfam00125	75	pfam00125, Histone, Core histone H2A/H2B/H3/H4	2e-24
PLN00155	58	PLN00155, PLN00155, histone H2A; Provisional	7e-16
pfam00808	65	pfam00808, CBFD_NFYB_HMF, Histone-like transcripti	8e-05
COG5247	113	COG5247, BUR6, Class 2 transcription repressor NC2	0.001

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

 Score =  197 bits (503), Expect = 2e-66
 Identities = 95/131 (72%), Positives = 110/131 (83%), Gaps = 1/131 (0%)

Query: 8   KGAGGRRGGGERKK-ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLA 66
            G G R+GGG  KK  S+S KAGLQFPVGRIAR+LK G+YA R+G+GAP+Y+AAVLEYLA
Sbjct: 2   SGRGKRKGGGGGKKATSRSAKAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLA 61

Query: 67  AEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKK 126
           AEVLELAGNAARDNKK+RI PRH+ LAVRND+EL KLL GVTIA+GGVLPNI+ VLLPKK
Sbjct: 62  AEVLELAGNAARDNKKSRIVPRHIQLAVRNDEELSKLLGGVTIAAGGVLPNIHSVLLPKK 121

Query: 127 TTSTSETPKSP 137
           +  +   PK P
Sbjct: 122 SGKSKGEPKDP 132

Length = 132

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

 Score =  192 bits (490), Expect = 2e-64
 Identities = 87/131 (66%), Positives = 107/131 (81%)

Query: 8   KGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAA 67
           KG  G    G++K +S+S KAGLQFPVGR+ R+LKKGRYA+R+G+GAP+Y+AAVLEYL A
Sbjct: 4   KGKTGGGKAGKKKPVSRSAKAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTA 63

Query: 68  EVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKT 127
           EVLELAGNAA+DNKK RI PRH+ LA+RND+EL KLL GVTIASGGVLPNI+ VLLPKK+
Sbjct: 64  EVLELAGNAAKDNKKKRITPRHIQLAIRNDEELNKLLAGVTIASGGVLPNIHKVLLPKKS 123

Query: 128 TSTSETPKSPK 138
                  ++ +
Sbjct: 124 KPKQGKKQNKQ 134

Length = 134

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

 Score =  185 bits (472), Expect = 5e-62
 Identities = 87/112 (77%), Positives = 100/112 (89%)

Query: 15  GGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAG 74
           G  + KK S+S +AGLQFPVGRI R+LKKGRYA+R+G+GAP+Y+AAVLEYL AEVLELAG
Sbjct: 4   GKKKSKKRSRSARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAG 63

Query: 75  NAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKK 126
           NAARDNKK RI PRH+ LAVRND+EL KLL+GVTIASGGVLPNI+ VLLPKK
Sbjct: 64  NAARDNKKKRITPRHLQLAVRNDEELNKLLKGVTIASGGVLPNIHKVLLPKK 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|197711 smart00414, H2A, Histone 2A

 Score =  184 bits (470), Expect = 7e-62
 Identities = 81/105 (77%), Positives = 94/105 (89%)

Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKK 82
           S+S +AGLQFPVGRI R L+KG YA+R+G+GAP+Y+AAVLEYL AEVLELAGNAARDNKK
Sbjct: 1   SRSARAGLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKK 60

Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKT 127
            RI PRH+ LA+RND+EL KLL+GVTIA GGVLPNI+ VLLPKKT
Sbjct: 61  RRITPRHLQLAIRNDEELNKLLKGVTIAQGGVLPNIHKVLLPKKT 105

Length = 106

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

 Score =  168 bits (428), Expect = 5e-55
 Identities = 87/122 (71%), Positives = 100/122 (81%)

Query: 6   PTKGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYL 65
                GGR      K +S+S KAGLQFPVGRIARFLK G+YA+R+G+GAP+Y++AVLEYL
Sbjct: 4   SGTTKGGRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYL 63

Query: 66  AAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPK 125
           AAEVLELAGNAARDNKKNRI PRH+ LAVRND+EL KLL  VTIA+GGVLPNI+  LLPK
Sbjct: 64  AAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLGSVTIAAGGVLPNIHQTLLPK 123

Query: 126 KT 127
           K 
Sbjct: 124 KV 125

Length = 139

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

 Score =  153 bits (388), Expect = 3e-49
 Identities = 90/117 (76%), Positives = 105/117 (89%), Gaps = 3/117 (2%)

Query: 14  RGGGE---RKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVL 70
           RG G+   +K +S+S KAGLQFPVGRIAR+LKKG+YA+R+G+GAP+Y+AAVLEYL AEVL
Sbjct: 4   RGKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVL 63

Query: 71  ELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKT 127
           ELAGNAARDNKKNRI PRH+ LA+RND+ELGKLL  VTIASGGVLPNI+ VLLPKKT
Sbjct: 64  ELAGNAARDNKKNRIVPRHIQLAIRNDEELGKLLGEVTIASGGVLPNIHAVLLPKKT 120

Length = 129

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

 Score =  152 bits (385), Expect = 1e-48
 Identities = 83/125 (66%), Positives = 96/125 (76%), Gaps = 1/125 (0%)

Query: 8   KGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAA 67
            G GG+     R   S+S KAGL FPVGR+ R LKKG Y  R+G+GAP+Y+AAVLEYLAA
Sbjct: 4   GGKGGK-AADARVSQSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAA 62

Query: 68  EVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKT 127
           E+LELAGNAARDNKK RI PRH+ LA+RND+EL KLL  VTIA GGVLPNINP LLPK +
Sbjct: 63  EILELAGNAARDNKKKRIIPRHLQLAIRNDEELNKLLGDVTIAQGGVLPNINPGLLPKSS 122

Query: 128 TSTSE 132
              S+
Sbjct: 123 KKGSK 127

Length = 132

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

 Score =  121 bits (306), Expect = 1e-36
 Identities = 65/126 (51%), Positives = 88/126 (69%), Gaps = 2/126 (1%)

Query: 3   VTKPTKGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYA-QRMGSGAPIYMAAV 61
           +   T  A  ++   ++K  S+S +AGLQFPVGRI R LK+   A  R+G+ A +Y AA+
Sbjct: 10  LAAKTTAAAAKKDKDKKKPTSRSSRAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAI 69

Query: 62  LEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPV 121
           LEYL AEVLELAGNA++D K  RI PRH+ LA+R D+EL  L++G TIA GGV+P+I+  
Sbjct: 70  LEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKG-TIAGGGVIPHIHKS 128

Query: 122 LLPKKT 127
           L+ K T
Sbjct: 129 LINKST 134

Length = 136

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

 Score =  104 bits (260), Expect = 1e-29
 Identities = 56/110 (50%), Positives = 77/110 (70%), Gaps = 2/110 (1%)

Query: 19  RKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAAR 78
           +    +S KAGL FPVGR+   L++G+YA+R+G+   +YMAAVLEYL AE+LEL+  AA 
Sbjct: 13  KSGSGRSAKAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAA 72

Query: 79  DN--KKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKK 126
               K  R+ PR V LAVR+DD+LG LL+ VT++ GGV+P++N  L  K 
Sbjct: 73  QQAKKPKRLTPRTVTLAVRHDDDLGSLLKNVTLSRGGVMPSLNKALAKKH 122

Length = 134

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

 Score = 88.8 bits (221), Expect = 2e-24
 Identities = 33/75 (44%), Positives = 42/75 (56%), Gaps = 1/75 (1%)

Query: 24 KSVKAGLQFPVGRIARFLKKGRYA-QRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKK 82
           S    L+ P  R+ R LK+G YA  R+ S AP+ +   LE L  E+LE AG  AR  K+
Sbjct: 1  SSRLLILKLPFSRVVRELKEGFYAELRISSKAPVALQEALEDLLEEILEDAGLLARHAKR 60

Query: 83 NRINPRHVLLAVRND 97
            I PR + LAVR D
Sbjct: 61 KTITPRDIQLAVRLD 75

Length = 75

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

 Score = 67.0 bits (163), Expect = 7e-16
 Identities = 35/47 (74%), Positives = 45/47 (95%)

Query: 19 RKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYL 65
          +K +S+S KAGLQFPVGRIAR+LKKG+YA+R+G+GAP+Y+AAVLEYL
Sbjct: 12 KKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYL 58

Length = 58

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

 Score = 38.0 bits (89), Expect = 8e-05
 Identities = 17/63 (26%), Positives = 27/63 (42%)

Query: 32 FPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVL 91
           P+ R+ R +K    A R+   A   +A  +E     +   A    +  K+  IN  H+ 
Sbjct: 3  LPIARVKRIMKSDPDAGRISQDAKELIAECVEEFIEFIASEAAEICKKEKRKTINAEHIK 62

Query: 92 LAV 94
          LAV
Sbjct: 63 LAV 65

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

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

 Score = 36.1 bits (83), Expect = 0.001
 Identities = 15/82 (18%), Positives = 34/82 (41%)

Query: 31  QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHV 90
           +FP+ R+ + ++      ++G   P+  +  LE    E++ L+   AR     R+    +
Sbjct: 23  RFPIARLKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFL 82

Query: 91  LLAVRNDDELGKLLQGVTIASG 112
             A  +D++   L       + 
Sbjct: 83  KRATESDEKFDFLKNMEQFKNR 104

Length = 113

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	143
PLN00157	132	histone H2A; Provisional	100.0
PLN00156	139	histone H2AX; Provisional	100.0
PTZ00252	134	histone H2A; Provisional	100.0
PLN00153	129	histone H2A; Provisional	100.0
PTZ00017	134	histone H2A; Provisional	100.0
PLN00154	136	histone H2A; Provisional	100.0
smart00414	106	H2A Histone 2A.	100.0
KOG1756	131	consensus Histone 2A [Chromatin structure and dyna	100.0
cd00074	115	H2A Histone 2A; H2A is a subunit of the nucleosome	100.0
COG5262	132	HTA1 Histone H2A [Chromatin structure and dynamics	100.0
KOG1757	131	consensus Histone 2A [Chromatin structure and dyna	100.0
PLN00155	58	histone H2A; Provisional	99.83
PF00125	75	Histone: Core histone H2A/H2B/H3/H4 histone h2a si	99.53
COG5247	113	BUR6 Class 2 transcription repressor NC2, alpha su	99.52
KOG1659	224	consensus Class 2 transcription repressor NC2, alp	99.28
PF00808	65	CBFD_NFYB_HMF: Histone-like transcription factor (	98.94
PTZ00015	102	histone H4; Provisional	98.37
PLN00035	103	histone H4; Provisional	98.36
KOG1657	236	consensus CCAAT-binding factor, subunit C (HAP5) [	98.15
smart00803	65	TAF TATA box binding protein associated factor. TA	98.15
COG5208	286	HAP5 CCAAT-binding factor, subunit C [Transcriptio	98.14
COG2036	91	HHT1 Histones H3 and H4 [Chromatin structure and d	98.02
cd00076	85	H4 Histone H4, one of the four histones, along wit	97.86
smart00417	74	H4 Histone H4.	97.36
cd08048	85	TAF11 TATA Binding Protein (TBP) Associated Factor	97.32
cd07981	72	TAF12 TATA Binding Protein (TBP) Associated Factor	97.27
PF04719	90	TAFII28: hTAFII28-like protein conserved region; I	96.59
PF02969	66	TAF: TATA box binding protein associated factor (T	96.58
KOG3219	195	consensus Transcription initiation factor TFIID, s	96.53
cd07979	117	TAF9 TATA Binding Protein (TBP) Associated Factor	96.51
PLN00158	116	histone H2B; Provisional	96.51
PTZ00463	117	histone H2B; Provisional	96.06
cd08050	343	TAF6 TATA Binding Protein (TBP) Associated Factor	95.9
smart00427	89	H2B Histone H2B.	95.71
smart00576	77	BTP Bromodomain transcription factors and PHD doma	95.32
PF09415	72	CENP-X: CENP-S associating Centromere protein X; I	95.21
smart00428	105	H3 Histone H3.	94.01
KOG3467	103	consensus Histone H4 [Chromatin structure and dyna	92.92
KOG1744	127	consensus Histone H2B [Chromatin structure and dyn	92.66
KOG0869	168	consensus CCAAT-binding factor, subunit A (HAP3) [	92.3
KOG1658	162	consensus DNA polymerase epsilon, subunit C [Repli	92.07
PF15630	76	CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C	91.49
PF03847	68	TFIID_20kDa: Transcription initiation factor TFIID	91.1
KOG0871	156	consensus Class 2 transcription repressor NC2, bet	89.4
PF15511	414	CENP-T: Centromere kinetochore component CENP-T; P	88.5
cd07978	92	TAF13 The TATA Binding Protein (TBP) Associated Fa	88.11
PF02269	93	TFIID-18kDa: Transcription initiation factor IID,	86.98
PF02291	129	TFIID-31kDa: Transcription initiation factor IID,	86.3
KOG0870	172	consensus DNA polymerase epsilon, subunit D [Trans	85.68
PF07524	77	Bromo_TP: Bromodomain associated; InterPro: IPR006	85.6
PLN00161	135	histone H3; Provisional	84.88
PF02861	53	Clp_N: Clp amino terminal domain; InterPro: IPR004	81.69

>PLN00157 histone H2A; Provisional

Probab=100.00  E-value=5.4e-50  Score=301.05  Aligned_cols=121  Identities=74%  Similarity=1.142  Sum_probs=113.7

Q ss_pred             CCCcc-cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           17 GERKK-ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        17 ~~~~~-~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      +.+++ .|+|+||||||||+||+|||++++|+.||+.+|+|||+||||||++||||||+|+|++++++||+|+||++||+
T Consensus        11 ~~~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~   90 (132)
T PLN00157         11 GGGKKATSRSAKAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVR   90 (132)
T ss_pred             ccCcCCcCcccccCcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhccc
Confidence            33444 89999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccHHHHhhhcCceecCCccCCCCCccCCCCCCCCCCCCCCCC
Q 032326           96 NDDELGKLLQGVTIASGGVLPNINPVLLPKKTTSTSETPKSP  137 (143)
Q Consensus        96 nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~~~~~~~~  137 (143)
                      ||+||+.||++|||++|||+|+||++|+++|.+++..++|.|
T Consensus        91 nDeEL~~Ll~~vtIa~GGV~P~i~~~ll~kk~~~~~~~~~~~  132 (132)
T PLN00157         91 NDEELSKLLGGVTIAAGGVLPNIHSVLLPKKSGKSKGEPKDP  132 (132)
T ss_pred             CcHHHHHHHcCceecCCccCCCcchhhcCCCCCCCCCCCCCC
Confidence            999999999999999999999999999999987666666653

>PLN00156 histone H2AX; Provisional

Probab=100.00  E-value=2e-49  Score=299.90  Aligned_cols=121  Identities=72%  Similarity=1.088  Sum_probs=112.5

Q ss_pred             CCCCCCCCCCcccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhh
Q 032326           10 AGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRH   89 (143)
Q Consensus        10 ~~~~~~~~~~~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~h   89 (143)
                      ++|+++.+.++..|||+||||||||+||+|||++++|+.||+.+|||||+||||||++||||||+|+|++++++||+|+|
T Consensus         8 ~~~~g~~~~~k~~srS~rAgL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrH   87 (139)
T PLN00156          8 KGGRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRH   87 (139)
T ss_pred             CCCCCcccccCCcCcccccCcccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHH
Confidence            44555444445599999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhccHHHHhhhcCceecCCccCCCCCccCCCCCCCCC
Q 032326           90 VLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTST  130 (143)
Q Consensus        90 I~~AI~nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~  130 (143)
                      |++||+||+|||.||++|||++|||+|+||++|+++|+++.
T Consensus        88 i~lAIrnDeEL~~Ll~~vTIa~GGV~P~i~~~l~~kk~~~~  128 (139)
T PLN00156         88 IQLAVRNDEELSKLLGSVTIAAGGVLPNIHQTLLPKKVGKG  128 (139)
T ss_pred             HHhhccCcHHHHHHHCCCccCCCccCCCccHhhcccccccc
Confidence            99999999999999999999999999999999999988644

>PTZ00252 histone H2A; Provisional

Probab=100.00  E-value=4.2e-49  Score=296.24  Aligned_cols=117  Identities=50%  Similarity=0.856  Sum_probs=106.9

Q ss_pred             cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHh--cCCcccchhhHHHHhhccHH
Q 032326           22 ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARD--NKKNRINPRHVLLAVRNDDE   99 (143)
Q Consensus        22 ~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~--~~~krItP~hI~~AI~nD~E   99 (143)
                      .+||+||||||||+||+|||++++|+.||+++|||||+||||||++||||||+|+|++  ++++||+|+||++||+||+|
T Consensus        16 ~~rS~rAGL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrNDeE   95 (134)
T PTZ00252         16 SGRSAKAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRHDDD   95 (134)
T ss_pred             cccccccCccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccChHH
Confidence            3499999999999999999999999999999999999999999999999999999976  67899999999999999999


Q ss_pred             HHhhhcCceecCCccCCCCCccCCCCCCCCCCCCCCCCCCCCCC
Q 032326          100 LGKLLQGVTIASGGVLPNINPVLLPKKTTSTSETPKSPKSPKKA  143 (143)
Q Consensus       100 L~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~~~~~~~~~~~~~~  143 (143)
                      ||.||++|||++|||+|+||++|+++++..     +..|++|+|
T Consensus        96 L~~Ll~~vTIa~GGVlP~i~~~l~~k~~~~-----~~~~~~~~~  134 (134)
T PTZ00252         96 LGSLLKNVTLSRGGVMPSLNKALAKKHKSG-----KKAKATPSA  134 (134)
T ss_pred             HHHHHcCCccCCCccCCCccHhhccccccC-----CCCCCCCCC
Confidence            999999999999999999999999994432     233466664

>PLN00153 histone H2A; Provisional

Probab=100.00  E-value=4.7e-49  Score=294.98  Aligned_cols=111  Identities=78%  Similarity=1.197  Sum_probs=107.0

Q ss_pred             cccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHH
Q 032326           20 KKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDE   99 (143)
Q Consensus        20 ~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~E   99 (143)
                      +..|||+||||||||+||+|||++++|+.||+++|||||+||||||++||||||+|+|++++++||+|+||++||+||+|
T Consensus        13 k~~srS~ragL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~nDeE   92 (129)
T PLN00153         13 KAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRNDEE   92 (129)
T ss_pred             CccCcccccCcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhccCcHH
Confidence            34899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCceecCCccCCCCCccCCCCCCCCC
Q 032326          100 LGKLLQGVTIASGGVLPNINPVLLPKKTTST  130 (143)
Q Consensus       100 L~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~  130 (143)
                      ||.||++|||++|||+|+||++|+++|.+++
T Consensus        93 L~~Ll~~vTIa~GGV~P~i~~~l~~kk~~~~  123 (129)
T PLN00153         93 LGKLLGEVTIASGGVLPNIHAVLLPKKTKGG  123 (129)
T ss_pred             HHHHHCCCccCCCccCCCcchhhcCcccCCC
Confidence            9999999999999999999999999986444

>PTZ00017 histone H2A; Provisional

Probab=100.00  E-value=1.1e-48  Score=294.73  Aligned_cols=114  Identities=73%  Similarity=1.165  Sum_probs=108.6

Q ss_pred             CCcccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326           18 ERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRND   97 (143)
Q Consensus        18 ~~~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD   97 (143)
                      +++..|||+||||||||+||+|||++++|+.||+.+|+|||+||||||++||||||+|+|++++++||+|+||++||+||
T Consensus        14 ~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~nD   93 (134)
T PTZ00017         14 KKKPVSRSAKAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRND   93 (134)
T ss_pred             CcCcccccccCCcccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccCc
Confidence            33448999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhhcCceecCCccCCCCCccCCCCCCCCCC
Q 032326           98 DELGKLLQGVTIASGGVLPNINPVLLPKKTTSTS  131 (143)
Q Consensus        98 ~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~~  131 (143)
                      +|||.||+++||++|||+|+||++|+++|.+.+.
T Consensus        94 eEL~~Ll~~vtIa~GGV~P~i~~~l~~k~~~~~~  127 (134)
T PTZ00017         94 EELNKLLAGVTIASGGVLPNIHKVLLPKKSKPKQ  127 (134)
T ss_pred             HHHHHHHcCCcccCCccCCCccHhhccCCCCccc
Confidence            9999999999999999999999999999875544

>PLN00154 histone H2A; Provisional

Probab=100.00  E-value=6.5e-47  Score=285.14  Aligned_cols=110  Identities=56%  Similarity=0.864  Sum_probs=104.1

Q ss_pred             CCcc-cccccccccccchhhHHHHHhccC-cccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           18 ERKK-ISKSVKAGLQFPVGRIARFLKKGR-YAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        18 ~~~~-~srs~RagL~FpVsri~r~Lr~~~-~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      .+++ .|||+||||||||+||+|+|+++. |..||+.+|||||+||||||++||||||+|+|++++++||+|+||++||+
T Consensus        24 ~~~k~~srS~rAgL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIr  103 (136)
T PLN00154         24 DKKKPTSRSSRAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR  103 (136)
T ss_pred             CCcCCcCcccccCccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhcc
Confidence            3444 999999999999999999999997 46799999999999999999999999999999999999999999999999


Q ss_pred             ccHHHHhhhcCceecCCccCCCCCccCCCCCCC
Q 032326           96 NDDELGKLLQGVTIASGGVLPNINPVLLPKKTT  128 (143)
Q Consensus        96 nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~  128 (143)
                      ||+||++||+ +||++|||+|+||++|+++|.+
T Consensus       104 nDeEL~~Ll~-~TIa~GGVlP~i~~~l~~k~~~  135 (136)
T PLN00154        104 GDEELDTLIK-GTIAGGGVIPHIHKSLINKSTK  135 (136)
T ss_pred             CcHHHHHHhc-CCccCCccCCCcchhhcccccC
Confidence            9999999998 6999999999999999998764

>smart00414 H2A Histone 2A

Probab=100.00  E-value=1.1e-46  Score=274.68  Aligned_cols=105  Identities=77%  Similarity=1.209  Sum_probs=103.3

Q ss_pred             ccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHh
Q 032326           23 SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGK  102 (143)
Q Consensus        23 srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~  102 (143)
                      |||+||||||||+||+|||++++|++||+++|+|||+||||||++||||+|+|+|++++++||+|+||++||+||+|||+
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 032326          103 LLQGVTIASGGVLPNINPVLLPKKT  127 (143)
Q Consensus       103 L~~~~~Ia~ggv~P~~~~~l~~~k~  127 (143)
                      ||+++||++|||+|+||++|+++|+
T Consensus        81 L~~~vti~~ggv~p~i~~~l~~~~~  105 (106)
T smart00414       81 LLKGVTIAQGGVLPNIHKVLLPKKT  105 (106)
T ss_pred             HHcCcccCCCccCCCcchhhcccCC
Confidence            9999999999999999999999985

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

Probab=100.00  E-value=2.5e-46  Score=278.55  Aligned_cols=120  Identities=69%  Similarity=1.082  Sum_probs=111.1

Q ss_pred             CCCCCCCCCCcccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhh
Q 032326           10 AGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRH   89 (143)
Q Consensus        10 ~~~~~~~~~~~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~h   89 (143)
                      +.|+...+++++.++|.|+||||||+||+|+|++++|.+||+.+|||||+||||||++||||+|+|+|+++++.||+|+|
T Consensus         6 k~gk~~~~~~~~~srs~~agl~fPvgri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH   85 (131)
T KOG1756|consen    6 KGGKAKPRAKAKSSRSSRAGLQFPVGRIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRH   85 (131)
T ss_pred             CCCcccchhhhhcchhhhcccccCHHHHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHH
Confidence            34444333444489999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhccHHHHhhhcCceecCCccCCCCCccCCCCCCCC
Q 032326           90 VLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTS  129 (143)
Q Consensus        90 I~~AI~nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~  129 (143)
                      |++||+||+||++|+++|||++|||+|+||+.|+++|..+
T Consensus        86 ~~lAI~NDeEL~~lL~~vtIa~GGvlPnI~~~lLpKk~~~  125 (131)
T KOG1756|consen   86 LQLAIRNDEELNKLLGKVTIAQGGVLPNIQAILLPKKTGK  125 (131)
T ss_pred             HHHHHhCcHHHHHHhccceeccCCcccccchhhccccccc
Confidence            9999999999999999999999999999999999998755

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

Probab=100.00  E-value=9.3e-46  Score=273.13  Aligned_cols=109  Identities=79%  Similarity=1.207  Sum_probs=105.0

Q ss_pred             CCcccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326           18 ERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRND   97 (143)
Q Consensus        18 ~~~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD   97 (143)
                      .++++|+|+|+||+|||+||+|||+++.|+.||+++|+|||+||||||++||||+|+|.|+++++++|+|+||++||+||
T Consensus         7 ~~~~~s~s~ragL~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~nD   86 (115)
T cd00074           7 KSKKRSRSARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRND   86 (115)
T ss_pred             CcCccccccccCccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhcc
Confidence            33448999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhhcCceecCCccCCCCCccCCCCC
Q 032326           98 DELGKLLQGVTIASGGVLPNINPVLLPKK  126 (143)
Q Consensus        98 ~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k  126 (143)
                      +|||+||+++||++|||+|+||++|+++|
T Consensus        87 ~EL~~L~~~vtI~~ggv~p~i~~~l~~~~  115 (115)
T cd00074          87 EELNKLLKGVTIASGGVLPNIHKVLLPKK  115 (115)
T ss_pred             HHHHHHHcCCcccCCccCCCcchhhcCCC
Confidence            99999999999999999999999999875

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.

>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]

Probab=100.00  E-value=8.8e-45  Score=267.60  Aligned_cols=124  Identities=67%  Similarity=1.040  Sum_probs=112.9

Q ss_pred             CCCCCCCCCCCCcccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccch
Q 032326            8 KGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINP   87 (143)
Q Consensus         8 ~~~~~~~~~~~~~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP   87 (143)
                      +||+||+. .++.-.|+|.++||+|||+||+|+|+.++|..||+++|+||++||||||++||||+|+|+|++++++||+|
T Consensus         4 ~GKGgK~a-~~r~~~s~sa~agl~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~P   82 (132)
T COG5262           4 GGKGGKAA-DARVSQSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIP   82 (132)
T ss_pred             CCcCcccc-cchhccchhhhcCccccHHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceech
Confidence            34455541 34445899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhccHHHHhhhcCceecCCccCCCCCccCCCCCCCCCCC
Q 032326           88 RHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTSTSE  132 (143)
Q Consensus        88 ~hI~~AI~nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~~~  132 (143)
                      +||++||+||+||++|+++|+|++|||+|+||+.|+++..++.++
T Consensus        83 rHlqlAIrnD~EL~~l~~~~tIa~GGvlp~I~~~ll~k~skK~sk  127 (132)
T COG5262          83 RHLQLAIRNDEELNKLLGDVTIAQGGVLPNINPGLLPKSSKKGSK  127 (132)
T ss_pred             HHHHHHhcCcHHHHHHhhhheeecCCcccccChhhhhhhhccCCc
Confidence            999999999999999999999999999999999999987665543

>KOG1757 consensus Histone 2A [Chromatin structure and dynamics]

Probab=100.00  E-value=3e-41  Score=247.48  Aligned_cols=123  Identities=52%  Similarity=0.855  Sum_probs=113.2

Q ss_pred             CCCCCCCCCCCC---cc-cccccccccccchhhHHHHHhccCccc-ccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 032326            8 KGAGGRRGGGER---KK-ISKSVKAGLQFPVGRIARFLKKGRYAQ-RMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKK   82 (143)
Q Consensus         8 ~~~~~~~~~~~~---~~-~srs~RagL~FpVsri~r~Lr~~~~~~-rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~   82 (143)
                      ++.+||++++++   .+ .|+|.|+||||||+||+|+|+....+. ||+..+.||++|+||||++|+||||+|++.+.+.
T Consensus         3 g~~~gk~~~~~k~~~~k~vs~s~raGlqFpVgRihr~LK~r~t~h~rVGataavy~aaileYLTaEVLeLAgNasKdLKv   82 (131)
T KOG1757|consen    3 GGKAGKDSGKAKDSKAKAVSRSARAGLQFPVGRIHRHLKTRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKV   82 (131)
T ss_pred             CccccCcccccchhhhhhhhHHHhcccccchHHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHccccccccee
Confidence            446777777766   55 899999999999999999999887775 9999999999999999999999999999999999


Q ss_pred             cccchhhHHHHhhccHHHHhhhcCceecCCccCCCCCccCCCCCCCCCC
Q 032326           83 NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTSTS  131 (143)
Q Consensus        83 krItP~hI~~AI~nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~~  131 (143)
                      +||||+|+++||+.|+|||.|++. ||+.|||+||||.+|+.+++++.+
T Consensus        83 KRitprHlqLAiRGDeELDtLIk~-TiagGgViPhihk~l~~k~~~~~~  130 (131)
T KOG1757|consen   83 KRITPRHLQLAIRGDEELDTLIKA-TIAGGGVIPHIHKSLINKKGKKKT  130 (131)
T ss_pred             eeccchhheeeecCcHHHHHHHHH-hhccCccccchHHHHhccccccCC
Confidence            999999999999999999999987 999999999999999999876654

>PLN00155 histone H2A; Provisional

Probab=99.83  E-value=3.5e-21  Score=126.52  Aligned_cols=46  Identities=76%  Similarity=1.316  Sum_probs=44.2

Q ss_pred             cccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHH
Q 032326           20 KKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYL   65 (143)
Q Consensus        20 ~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL   65 (143)
                      +..++|+|+||||||+||+|+|++++|+.||+.+|||||+||||||
T Consensus        13 k~~srS~rAgL~FPVgri~r~Lr~g~~a~Rvga~apVYlAAVLEYL   58 (58)
T PLN00155         13 KAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYL   58 (58)
T ss_pred             CccCcccccccccchHHHHHHHhcCChhhcccCCcHHHHHHHHHhC
Confidence            3489999999999999999999999999999999999999999997

>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=99.53  E-value=1.3e-14  Score=97.80  Aligned_cols=74  Identities=39%  Similarity=0.587  Sum_probs=69.2

Q ss_pred             cccccccccchhhHHHHHhccCccc-ccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326           24 KSVKAGLQFPVGRIARFLKKGRYAQ-RMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRND   97 (143)
Q Consensus        24 rs~RagL~FpVsri~r~Lr~~~~~~-rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD   97 (143)
                      ++.+..+.||+.|+.+-+..+.+.. ||+..|.+||.+++||++.+|++.|++.|..+++++|+|+||++|+++|
T Consensus         1 ~~~~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~~   75 (75)
T PF00125_consen    1 RTRRLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRID   75 (75)
T ss_dssp             HHSHSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHHT
T ss_pred             CcccccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhcC
Confidence            3567788999999999999997775 9999999999999999999999999999999999999999999999876

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 ....

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

Probab=99.52  E-value=2.2e-14  Score=104.04  Aligned_cols=80  Identities=20%  Similarity=0.396  Sum_probs=76.2

Q ss_pred             ccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhcC
Q 032326           27 KAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQG  106 (143)
Q Consensus        27 RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~~  106 (143)
                      +-...||++|++++||-+++..+|++.+||..+..||+|+++|+.+++.+|+..+.+|||.+||..|+.+|+.|++|-.-
T Consensus        19 ~~ktrFP~ar~KkIMQ~deDiGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdFL~~~   98 (113)
T COG5247          19 KKKTRFPIARLKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFLKNM   98 (113)
T ss_pred             hhhhcCCHHHHHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHHHHHH
Confidence            55667999999999999999999999999999999999999999999999999999999999999999999999998754

>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]

Probab=99.28  E-value=6e-12  Score=101.46  Aligned_cols=80  Identities=19%  Similarity=0.340  Sum_probs=75.6

Q ss_pred             cccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326           26 VKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQ  105 (143)
Q Consensus        26 ~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~  105 (143)
                      .+-...||++||+++||.+++..+|.+.+||.+...||.|+.+|+..++.+++..+.++++++||..||.+|+.|++|-.
T Consensus         8 ~~~~trfp~aRiKKIMQ~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFLk~   87 (224)
T KOG1659|consen    8 KKYKTRFPPARIKKIMQSDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFLKE   87 (224)
T ss_pred             hhhhccCCHHHHHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHHHH
Confidence            34456799999999999999999999999999999999999999999999999999999999999999999999999875

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

Probab=98.94  E-value=2.8e-09  Score=70.42  Aligned_cols=64  Identities=23%  Similarity=0.280  Sum_probs=58.0

Q ss_pred             ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHh
Q 032326           31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAV   94 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI   94 (143)
                      .||+++|+|+|+.+....+|+.+|..+++.+.|.|+.+|...|...|...+++.|+++||..||
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            5999999999999977789999999999999999999999999999999999999999999886

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 ....

>PTZ00015 histone H4; Provisional

Probab=98.37  E-value=1.3e-06  Score=63.55  Aligned_cols=80  Identities=18%  Similarity=0.314  Sum_probs=65.9

Q ss_pred             CCCCCCCcccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHH
Q 032326           13 RRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLL   92 (143)
Q Consensus        13 ~~~~~~~~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~   92 (143)
                      +++.+.-+|..+.+-.+++  ..-|.|+.+... +.|||.++-..+..+||.++.+|+.-|...|...+++.|+.+||.+
T Consensus        14 ~g~~kr~rk~~r~~i~gI~--k~~IrRLarr~G-vkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~   90 (102)
T PTZ00015         14 KGGQKRQKKVLRDNIRGIT--KGAIRRLARRGG-VKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVY   90 (102)
T ss_pred             ccchhhHHHHHhhcccCCC--HHHHHHHHHHcC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHH
Confidence            3333333445566666754  556999999885 6899999999999999999999999999999999999999999999


Q ss_pred             Hhh
Q 032326           93 AVR   95 (143)
Q Consensus        93 AI~   95 (143)
                      |+.
T Consensus        91 AlK   93 (102)
T PTZ00015         91 ALK   93 (102)
T ss_pred             HHH
Confidence            975

>PLN00035 histone H4; Provisional

Probab=98.36  E-value=1.3e-06  Score=63.75  Aligned_cols=72  Identities=15%  Similarity=0.235  Sum_probs=65.0

Q ss_pred             cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326           22 ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN   96 (143)
Q Consensus        22 ~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n   96 (143)
                      ..+.+-++  +|..-|.|+.+... ..|||.++-..|..+||.+..+|+.-|...|...+++.|+.+||.+|+..
T Consensus        22 ~~~d~i~~--ipk~~IrRLARr~G-vkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr   93 (103)
T PLN00035         22 VLRDNIQG--ITKPAIRRLARRGG-VKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKR   93 (103)
T ss_pred             HHHhhhcc--CCHHHHHHHHHHcC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence            56667777  67777999999996 78999999999999999999999999999999999999999999999863

>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]

Probab=98.15  E-value=2e-06  Score=70.68  Aligned_cols=82  Identities=17%  Similarity=0.219  Sum_probs=75.8

Q ss_pred             ccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhh
Q 032326           25 SVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLL  104 (143)
Q Consensus        25 s~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~  104 (143)
                      ..=....||++||+++|+.+....-|+..|||.++.++|+|+.|+-..++..+.+++++.+.-.||..++.+..-+++|.
T Consensus        68 ~d~~~~~lPlaRiKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdFL~  147 (236)
T KOG1657|consen   68 LDFKNHILPLARIKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDFLR  147 (236)
T ss_pred             cchhhccCcHhhccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCcccee
Confidence            33345679999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cC
Q 032326          105 QG  106 (143)
Q Consensus       105 ~~  106 (143)
                      ..
T Consensus       148 Di  149 (236)
T KOG1657|consen  148 DI  149 (236)
T ss_pred             cc
Confidence            75

>smart00803 TAF TATA box binding protein associated factor

Probab=98.15  E-value=8.7e-06  Score=54.55  Aligned_cols=64  Identities=19%  Similarity=0.217  Sum_probs=59.3

Q ss_pred             ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      .+|..-|.++.+.... .||+.++...|+-.+||.+.+|++-|.+.++..+++.++++||..|+.
T Consensus         2 ~~p~~~i~ria~~~Gi-~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk   65 (65)
T smart00803        2 WLPKETIKDVAESLGI-GNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR   65 (65)
T ss_pred             CCCHHHHHHHHHHCCC-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence            4788999999998864 699999999999999999999999999999999999999999999863

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=98.14  E-value=6.1e-06  Score=67.64  Aligned_cols=76  Identities=21%  Similarity=0.364  Sum_probs=71.8

Q ss_pred             cccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326           30 LQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQ  105 (143)
Q Consensus        30 L~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~  105 (143)
                      +.+|..||+++|+.+....-|++.|||.++.+-|-|++|+.-.|+-.|..+++..+.-.||..|+...+-+++|+.
T Consensus       108 h~LPlARIkkvMKtdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFLid  183 (286)
T COG5208         108 HNLPLARIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFLID  183 (286)
T ss_pred             ccCcHHHHHHHHhcccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHHhh
Confidence            4599999999999999988999999999999999999999999999999999988999999999999999999995

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

Probab=98.02  E-value=8e-06  Score=58.36  Aligned_cols=67  Identities=27%  Similarity=0.363  Sum_probs=60.1

Q ss_pred             cccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           28 AGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        28 agL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      ..+-+|+.=|.|+|++.. ..||+.+|...|..++|-++.+|.+.|...|...+++.|+++||++|+.
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            345577777999999884 4599999999999999999999999999999999999999999999975

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

Probab=97.86  E-value=3.3e-05  Score=54.49  Aligned_cols=72  Identities=18%  Similarity=0.286  Sum_probs=63.0

Q ss_pred             cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326           22 ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN   96 (143)
Q Consensus        22 ~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n   96 (143)
                      .-+.+-+|  +|..-|.|+.+.+. ..|||.++-.-+..+||.+..+|+.-|...|...+++.|+.+||.+|+..
T Consensus         6 ~~~~~~~g--i~k~~I~RLarr~G-vkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr   77 (85)
T cd00076           6 VLRDNIKG--ITKPAIRRLARRGG-VKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKR   77 (85)
T ss_pred             HHHHhhcc--CCHHHHHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence            34455566  56667999999996 78999999999999999999999999999999999999999999999864

>smart00417 H4 Histone H4

Probab=97.36  E-value=0.00042  Score=47.78  Aligned_cols=67  Identities=15%  Similarity=0.181  Sum_probs=57.8

Q ss_pred             ccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHH
Q 032326           23 SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLL   92 (143)
Q Consensus        23 srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~   92 (143)
                      -+.+-.|  +|..-|.|+++.+. +.|||.++-..+..+||.+..+|+..|...|...+++.|+.+|+..
T Consensus         7 ~~d~i~g--I~k~~IrRLaRr~G-vkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~   73 (74)
T smart00417        7 LRDNIQG--ITKPAIRRLARRGG-VKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVY   73 (74)
T ss_pred             HHhhhcC--CCHHHHHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhee
Confidence            3445556  45556999999985 6899999999999999999999999999999999999999999864

>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=97.32  E-value=0.0012  Score=46.47  Aligned_cols=63  Identities=24%  Similarity=0.385  Sum_probs=54.8

Q ss_pred             cchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcC---CcccchhhHHHHhh
Q 032326           32 FPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNK---KNRINPRHVLLAVR   95 (143)
Q Consensus        32 FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~---~krItP~hI~~AI~   95 (143)
                      ||-..++|+++.. ....+++...+.|+++-.-|+.||+|.|...-...+   ...|.|.||+.|.+
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            7777899999976 458999999999999999999999999988766644   47899999999865

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

>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=97.27  E-value=0.0014  Score=44.45  Aligned_cols=66  Identities=14%  Similarity=0.210  Sum_probs=58.5

Q ss_pred             chhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccH
Q 032326           33 PVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDD   98 (143)
Q Consensus        33 pVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~   98 (143)
                      +-..+..++++..-..|++.++...|..++|-|+.+|++.|...|...+++.|.++||++++....
T Consensus         3 ~k~~l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~~   68 (72)
T cd07981           3 TKRKLQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERNW   68 (72)
T ss_pred             cHHHHHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Confidence            445677888877656799999999999999999999999999999999999999999999987653

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

>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=96.59  E-value=0.0058  Score=43.55  Aligned_cols=64  Identities=19%  Similarity=0.276  Sum_probs=47.0

Q ss_pred             cchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcC-CcccchhhHHHHhh
Q 032326           32 FPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNK-KNRINPRHVLLAVR   95 (143)
Q Consensus        32 FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~-~krItP~hI~~AI~   95 (143)
                      ||=+-|+++++.-.-.+.|+....+.++++--.|+.||+|.|.....+.+ ...|.|.||+.|.+
T Consensus        24 ~~k~~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~r   88 (90)
T PF04719_consen   24 FNKAAIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYR   88 (90)
T ss_dssp             --HHHHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHH
T ss_pred             CCHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence            77888999999863227899999999999999999999999988765544 45899999998864

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.

>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=96.58  E-value=0.01  Score=40.02  Aligned_cols=64  Identities=17%  Similarity=0.230  Sum_probs=48.9

Q ss_pred             ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      .||..-|+.+-..-.. ..++..+.-.|+-=+||-+.||++-|.+..+..+++++|+.||+.|++
T Consensus         3 ~~~~esvk~iAes~Gi-~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr   66 (66)
T PF02969_consen    3 VFSQESVKDIAESLGI-SNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR   66 (66)
T ss_dssp             ---HHHHHHHHHHTT----B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred             cCCHHHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence            4677777776665544 468999999999999999999999999999999999999999999874

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.

>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]

Probab=96.53  E-value=0.0039  Score=50.14  Aligned_cols=65  Identities=23%  Similarity=0.360  Sum_probs=55.5

Q ss_pred             cccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcC-CcccchhhHHHHhh
Q 032326           30 LQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNK-KNRINPRHVLLAVR   95 (143)
Q Consensus        30 L~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~-~krItP~hI~~AI~   95 (143)
                      .-||-+.|++||+.-. .+-|+..+.++++++-.-|+.||+|.|.......+ ...+.|.||+.|.+
T Consensus       111 s~f~Ka~iKkL~~~it-g~~v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~r  176 (195)
T KOG3219|consen  111 SAFPKAQIKKLMSSIT-GQSVSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYR  176 (195)
T ss_pred             hcCCHHHHHHHHHHHh-CCccCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHH
Confidence            3499999999999874 44599999999999999999999999988765544 56799999999875

>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=96.51  E-value=0.0098  Score=43.96  Aligned_cols=64  Identities=19%  Similarity=0.125  Sum_probs=56.4

Q ss_pred             hhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHH
Q 032326           35 GRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDE   99 (143)
Q Consensus        35 sri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~E   99 (143)
                      --|+++|++.. ..+++..++..|.-.++-.+.+|+.-|...|...+++.|+.+||++||..--+
T Consensus         5 ~~v~~iLk~~G-v~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~   68 (117)
T cd07979           5 RVIAAILKSMG-ITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVD   68 (117)
T ss_pred             HHHHHHHHHCC-CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc
Confidence            35889999863 46899999999999999999999999999999999999999999999985443

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

>PLN00158 histone H2B; Provisional

Probab=96.51  E-value=0.013  Score=43.65  Aligned_cols=61  Identities=28%  Similarity=0.275  Sum_probs=52.4

Q ss_pred             hhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           35 GRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        35 sri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      ..|++.|+...-..-|+..+.-.|...+..++..|...|...++-+++..|++++|+-||+
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            3699999988766678888888888888888888888888888889999999999999987

>PTZ00463 histone H2B; Provisional

Probab=96.06  E-value=0.043  Score=40.95  Aligned_cols=60  Identities=15%  Similarity=0.180  Sum_probs=48.9

Q ss_pred             hHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           36 RIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        36 ri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      .|++.|+.-.-..-|+..+.-.|...+.=+...|...|...|+-+++..|++++|+.|++
T Consensus        33 YI~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvr   92 (117)
T PTZ00463         33 YIFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIR   92 (117)
T ss_pred             HHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHh
Confidence            689999987666678888877777777777777777777778888999999999999987

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

Probab=95.90  E-value=0.025  Score=48.50  Aligned_cols=65  Identities=20%  Similarity=0.227  Sum_probs=53.7

Q ss_pred             HHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh--ccHHHHh
Q 032326           37 IARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR--NDDELGK  102 (143)
Q Consensus        37 i~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~--nD~EL~~  102 (143)
                      |+-+.+.- -..+++.++...|+..+||.+.+|++.|.+.++..++++++.+||+.|++  |.+-|+.
T Consensus         5 i~~ia~~~-Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~n~eplyG   71 (343)
T cd08050           5 IKLIAESL-GIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLRNVEPLYG   71 (343)
T ss_pred             HHHHHHHc-CCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHhCCCcccC
Confidence            44444433 34699999999999999999999999999999999999999999999976  4444433

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

>smart00427 H2B Histone H2B

Probab=95.71  E-value=0.044  Score=39.07  Aligned_cols=60  Identities=27%  Similarity=0.271  Sum_probs=51.3

Q ss_pred             hHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           36 RIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        36 ri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      .|++.|+.-.-..-|+..+.-.|...+..+...|...|..-++-+++..|++++|+.|++
T Consensus         6 Yi~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvr   65 (89)
T smart00427        6 YIYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVR   65 (89)
T ss_pred             HHHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH
Confidence            588888887666678888888888888888888888888888888999999999999987

>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins

Probab=95.32  E-value=0.085  Score=35.85  Aligned_cols=59  Identities=20%  Similarity=0.192  Sum_probs=51.1

Q ss_pred             HHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326           37 IARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN   96 (143)
Q Consensus        37 i~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n   96 (143)
                      |.++|+... +.+++.+|.-.|+-++|-.+.+|...+-+.|...+++..++.||.+|+.+
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            445666654 46999999999999999999999999999999999999999999999754

subdomain of archael histone-like transcription factors

>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=95.21  E-value=0.11  Score=35.54  Aligned_cols=61  Identities=20%  Similarity=0.203  Sum_probs=47.3

Q ss_pred             chhhHHHHHhccC--cccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcc-cchhhHHHH
Q 032326           33 PVGRIARFLKKGR--YAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNR-INPRHVLLA   93 (143)
Q Consensus        33 pVsri~r~Lr~~~--~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~kr-ItP~hI~~A   93 (143)
                      |..-|.|+|+...  ..-||+.+|...++..|+.|+.|-+-+|...+.+.+... |..+||+..
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            4455778887432  223999999999999999999999999999999998888 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.

>smart00428 H3 Histone H3

Probab=94.01  E-value=0.19  Score=36.73  Aligned_cols=68  Identities=21%  Similarity=0.203  Sum_probs=54.7

Q ss_pred             cccccchhhHHHHHhc----cCc--ccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           28 AGLQFPVGRIARFLKK----GRY--AQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        28 agL~FpVsri~r~Lr~----~~~--~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      ..|-+|-.-|.|+.++    ...  ..|++.+|...|-.+.|..+.+++|-|...|...++..|+|+|+++|.+
T Consensus        26 t~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~r   99 (105)
T smart00428       26 TDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARR   99 (105)
T ss_pred             cccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHH
Confidence            4566666666666543    211  3499999999999999999999999998888888999999999999853

>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]

Probab=92.92  E-value=0.33  Score=34.82  Aligned_cols=84  Identities=19%  Similarity=0.304  Sum_probs=59.8

Q ss_pred             CCCCCCCCCCCcccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchh
Q 032326            9 GAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPR   88 (143)
Q Consensus         9 ~~~~~~~~~~~~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~   88 (143)
                      .++||+.-+.-+|.-+.+-.|++-|.  |.|+-+.+. ..||+..---=.-.++.-++.+++-.|...+...+++.||.-
T Consensus         9 KG~~KG~AKrHRK~LsDnIqgitKpa--IRRlARr~G-VkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~   85 (103)
T KOG3467|consen    9 KGLGKGGAKRHRKVLRDNIQGITKPA--IRRLARRGG-VKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAM   85 (103)
T ss_pred             cccccchHHHHHHHHHhhccccchHH--HHHHHHhcC-cchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHH
Confidence            33556544433445667777888887  888888875 468876554445566666778888888888888889999998


Q ss_pred             hHHHHhh
Q 032326           89 HVLLAVR   95 (143)
Q Consensus        89 hI~~AI~   95 (143)
                      ++-.+..
T Consensus        86 dvv~~LK   92 (103)
T KOG3467|consen   86 DVVYALK   92 (103)
T ss_pred             HHHHHHH
Confidence            8876654

>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]

Probab=92.66  E-value=0.86  Score=34.50  Aligned_cols=66  Identities=26%  Similarity=0.216  Sum_probs=47.1

Q ss_pred             ccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           27 KAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        27 RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      .-...++|-|   .|+...-.--|+..+.-.+-+.+--+...|...|+..|+-+++..|+.++|+.|++
T Consensus        36 ~e~~s~yv~k---vlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~r  101 (127)
T KOG1744|consen   36 KESYSEYVYK---VLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVR  101 (127)
T ss_pred             cCceeeehhh---hhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHH
Confidence            3344455544   55544333346777766666666666788888889999999999999999999875

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

Probab=92.30  E-value=0.51  Score=37.09  Aligned_cols=65  Identities=20%  Similarity=0.291  Sum_probs=51.2

Q ss_pred             ccchhhHHHHHhccCccc-ccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           31 QFPVGRIARFLKKGRYAQ-RMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~-rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      -+|+.-|-|+|+..--.. +|+.+|--.+--++--|++=|---|...|+..+++.|+..||-+|+.
T Consensus        32 ~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~   97 (168)
T KOG0869|consen   32 FLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMS   97 (168)
T ss_pred             hccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHH
Confidence            389999999999875543 89999987766555555555666666677778899999999999986

>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]

Probab=92.07  E-value=0.14  Score=40.11  Aligned_cols=76  Identities=21%  Similarity=0.213  Sum_probs=65.6

Q ss_pred             cccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326           30 LQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQ  105 (143)
Q Consensus        30 L~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~  105 (143)
                      +++|..||+.+++.+....-....+...++-.-|-++.+|-..++..+...+++.+.-+++..||..-+|+.++..
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            5799999999999886554455666666888999999999999999888888899999999999999999988875

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

Probab=91.49  E-value=0.87  Score=31.36  Aligned_cols=69  Identities=26%  Similarity=0.368  Sum_probs=46.1

Q ss_pred             cccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHH---HHHhcCCcccchhhHHHHhhccHHH
Q 032326           28 AGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGN---AARDNKKNRINPRHVLLAVRNDDEL  100 (143)
Q Consensus        28 agL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn---~A~~~~~krItP~hI~~AI~nD~EL  100 (143)
                      +.|++-|++|=.   +... ..=-.-++-|++|+.|-....+-.++..   .|+-.|+..|++.|+.+..+.++.|
T Consensus         5 aal~~~v~ki~e---e~~~-~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~Rrn~~L   76 (76)
T PF15630_consen    5 AALWYTVGKIVE---EEAK-EKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLARRNPSL   76 (76)
T ss_dssp             HHHHHHHHHHHH---HCCC-CTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTTT-HHH
T ss_pred             HHHHHHHHHHHH---HHHh-ccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhhcCCCC
Confidence            445566655543   2211 1111356899999999999988888854   4677899999999999999998876

>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=91.10  E-value=0.86  Score=30.69  Aligned_cols=62  Identities=11%  Similarity=0.263  Sum_probs=48.4

Q ss_pred             hHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326           36 RIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRND   97 (143)
Q Consensus        36 ri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD   97 (143)
                      ++..++++-.-...+...+--.|.-+.+=|+..+++.|...|+..+...+.+++|++....+
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            56777777766678999999999999999999999999999999999999999999887643

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

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

Probab=89.40  E-value=1.6  Score=34.06  Aligned_cols=69  Identities=20%  Similarity=0.367  Sum_probs=51.5

Q ss_pred             ccccccchhhHHHHHhccCc-ccccCCCh-hHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326           27 KAGLQFPVGRIARFLKKGRY-AQRMGSGA-PIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN   96 (143)
Q Consensus        27 RagL~FpVsri~r~Lr~~~~-~~rIs~~A-~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n   96 (143)
                      .-.+.+|-.-|..++++.-- ..||..++ -+++..++||+ .-|---|..+|....++.|.|+|+..|..|
T Consensus         8 dde~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI-~liSsEAneic~~e~KKTIa~EHV~KALe~   78 (156)
T KOG0871|consen    8 DDELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFI-NLISSEANEICNKEAKKTIAPEHVIKALEN   78 (156)
T ss_pred             cccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHH-HHHHHHHHHHHhHHhcccCCHHHHHHHHHH
Confidence            34688999999999988755 45888888 56666777765 344444555677778889999999999875

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

Probab=88.50  E-value=0.81  Score=40.36  Aligned_cols=72  Identities=13%  Similarity=0.159  Sum_probs=42.6

Q ss_pred             CCcccccccccccccchhhHHHHHhcc----Cccc-ccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhh
Q 032326           18 ERKKISKSVKAGLQFPVGRIARFLKKG----RYAQ-RMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRH   89 (143)
Q Consensus        18 ~~~~~srs~RagL~FpVsri~r~Lr~~----~~~~-rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~h   89 (143)
                      .++|.|+-.-....+|.+-|++++..-    .|++ +|+.+|.--|.-++||+...|-+==..+|...|+|.|.+.|
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            344478877788889999999986644    4554 99999999999999999999887777888888999998764

>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=88.11  E-value=3.1  Score=29.47  Aligned_cols=39  Identities=13%  Similarity=0.371  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHH---HHHHHhcCCcccchhhHHHHhhccHHHHh
Q 032326           63 EYLAAEVLELA---GNAARDNKKNRINPRHVLLAVRNDDELGK  102 (143)
Q Consensus        63 EYL~aEILElA---gn~A~~~~~krItP~hI~~AI~nD~EL~~  102 (143)
                      |+++..|.+++   ...|. .++.+|+++|+..+|++|+.=-.
T Consensus        31 ~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D~~Kl~   72 (92)
T cd07978          31 DIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKDPKKLA   72 (92)
T ss_pred             HHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcCHHHHH
Confidence            34444444444   44454 46778899999999999986433

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

>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=86.98  E-value=0.69  Score=32.75  Aligned_cols=47  Identities=19%  Similarity=0.263  Sum_probs=8.5

Q ss_pred             HHHHHHHHHHHHHHH---HHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326           59 AAVLEYLAAEVLELA---GNAARDNKKNRINPRHVLLAVRNDDELGKLLQ  105 (143)
Q Consensus        59 aAvLEYL~aEILElA---gn~A~~~~~krItP~hI~~AI~nD~EL~~L~~  105 (143)
                      ..+-|+++.+|.++.   ...|...|.++|+++|+..++++|+.-..-+.
T Consensus        26 ~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D~~Kl~Rl~   75 (93)
T PF02269_consen   26 DLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKDPKKLARLR   75 (93)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcCHHHHHHHH
Confidence            334455555555555   45566667789999999999999987544443

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

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

Probab=86.30  E-value=3.6  Score=31.02  Aligned_cols=59  Identities=25%  Similarity=0.280  Sum_probs=42.1

Q ss_pred             hhHHHHHhccCcccccCCChhHHHHHHHHHH---HHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326           35 GRIARFLKKGRYAQRMGSGAPIYMAAVLEYL---AAEVLELAGNAARDNKKNRINPRHVLLAVRND   97 (143)
Q Consensus        35 sri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL---~aEILElAgn~A~~~~~krItP~hI~~AI~nD   97 (143)
                      --|+.+|++..    |.+.-+-...-.|||.   +.+||+-|-.+|...++..|+..|+++||..-
T Consensus        16 ~~i~~iL~~~G----v~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r   77 (129)
T PF02291_consen   16 RVIHLILKSMG----VTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSR   77 (129)
T ss_dssp             HHHHHHHHHTT-------B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT
T ss_pred             HHHHHHHHHcC----CcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHH
Confidence            45778888875    3455666666667764   67788889888988999999999999999943

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

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

Probab=85.68  E-value=3.1  Score=32.97  Aligned_cols=67  Identities=21%  Similarity=0.283  Sum_probs=52.8

Q ss_pred             ccccchhhHHHHHhccCc--ccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           29 GLQFPVGRIARFLKKGRY--AQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        29 gL~FpVsri~r~Lr~~~~--~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      -|-||-+-|-|+.++---  .--|+..|...|+-.---|+..+...|.+.|++++++.|++.++-.|+.
T Consensus         8 dl~lP~AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~   76 (172)
T KOG0870|consen    8 DLNLPNAIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALD   76 (172)
T ss_pred             HhhccHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHH
Confidence            467898888877665411  1246778877777777778888899999999999999999999988875

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

Probab=85.60  E-value=4.3  Score=27.11  Aligned_cols=56  Identities=18%  Similarity=0.172  Sum_probs=46.5

Q ss_pred             HHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           39 RFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        39 r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      .+|+...+ ..++.+|.-.|+-+++..+.+|...+-..|...++...++.|+..|..
T Consensus        14 ~il~~~GF-~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~   69 (77)
T PF07524_consen   14 QILKHAGF-DSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALE   69 (77)
T ss_pred             HHHHHcCc-cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            34544433 578888899999999999999999999999889999999999998874

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 [, ].

>PLN00161 histone H3; Provisional

Probab=84.88  E-value=5.7  Score=30.37  Aligned_cols=68  Identities=21%  Similarity=0.176  Sum_probs=51.6

Q ss_pred             cccccchhhHHHHHhccC-----cccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           28 AGLQFPVGRIARFLKKGR-----YAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        28 agL~FpVsri~r~Lr~~~-----~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      .+|-+|-.-|.|+.++-.     ...|+..+|..-|--+-|.++-.++|-+.--|...++-.|.|.||+++.+
T Consensus        52 t~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~r  124 (135)
T PLN00161         52 TELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARR  124 (135)
T ss_pred             cccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHH
Confidence            345566666666655421     12488888888899999999999999997777777888899999998854

>PF02861 Clp_N: Clp amino terminal domain; InterPro: IPR004176 This short domain is found in one or two copies at the amino terminus of ClpA and ClpB proteins from bacteria and eukaryotes

Probab=81.69  E-value=1.6  Score=26.32  Aligned_cols=34  Identities=32%  Similarity=0.508  Sum_probs=26.4

Q ss_pred             HHHHHHhcCCcccchhhHHHHhhccH--HHHhhhcC
Q 032326           73 AGNAARDNKKNRINPRHVLLAVRNDD--ELGKLLQG  106 (143)
Q Consensus        73 Agn~A~~~~~krItP~hI~~AI~nD~--EL~~L~~~  106 (143)
                      |-+.|...+...|+|+||-+|+-.|+  .+..+|+.
T Consensus         1 A~~~A~~~~~~~i~~eHlL~all~~~~~~~~~il~~   36 (53)
T PF02861_consen    1 AQELARERGHQYISPEHLLLALLEDPDSIAARILKK   36 (53)
T ss_dssp             HHHHHHHTTBSSE-HHHHHHHHHHHTTSHHHHHHHH
T ss_pred             CHHHHHHcCCCcccHHHHHHHHHhhhhHHHHHHHHH
Confidence            44678888999999999999988766  77777753

The function of these domains is uncertain but they may form a protein binding site []. The proteins are thought to be subunits of ATP-dependent proteases which act as chaperones to target the proteases to substrates.; GO: 0019538 protein metabolic process; PDB: 3FH2_A 3ZRJ_A 3ZRI_A 1QVR_C 3FES_C 2Y1R_F 3PXG_D 2Y1Q_A 3PXI_C 2K77_A ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	143
2nqb_C	123	Drosophila Nucleosome Structure Length = 123		9e-31
2pyo_C	120	Drosophila Nucleosome Core Length = 120		1e-30
1id3_C	131	Crystal Structure Of The Yeast Nucleosome Core Part		1e-29
1eqz_A	129	X-Ray Structure Of The Nucleosome Core Particle At		2e-29
2hio_A	128	Histone Octamer (Chicken), Chromosomal Protein Leng		2e-29
3c1b_C	129	The Effect Of H3 K79 Dimethylation And H4 K20 Trime		2e-29
1zbb_C	129	Structure Of The 4_601_167 Tetranucleosome Length =		2e-29
1m18_C	129	Ligand Binding Alters The Structure And Dynamics Of		2e-29
3kwq_C	107	Structural Characterization Of H3k56q Nucleosomes A		2e-29
1s32_C	119	Molecular Recognition Of The Nucleosomal 'supergroo		4e-29
1kx3_C	128	X-Ray Structure Of The Nucleosome Core Particle, Nc		4e-29
1aoi_C	116	Complex Between Nucleosome Core Particle (H3,H4,H2a		4e-29
3a6n_C	133	The Nucleosome Containing A Testis-Specific Histone		1e-28
2cv5_C	130	Crystal Structure Of Human Nucleosome Core Particle		1e-28
2f8n_K	149	2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a Nuc		2e-28
1zla_C	129	X-Ray Structure Of A Kaposi's Sarcoma Herpesvirus L		3e-28
1u35_C	120	Crystal Structure Of The Nucleosome Core Particle C		7e-28
1hio_A	95	Histone Octamer (Chicken), Chromosomal Protein, Alp		6e-27
2xql_A	91	Fitting Of The H2a-H2b Histones In The Electron Mic		1e-24
2jss_A	192	Nmr Structure Of Chaperone Chz1 Complexed With Hist		5e-19
1f66_C	128	2.6 A Crystal Structure Of A Nucleosome Core Partic		5e-17

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

Iteration: 1
 Score =  128 bits (322), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 63/101 (62%), Positives = 74/101 (73%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           S+S +AGLQFPVGRI R L+KG YA+R+G+GAP+Y+               GNAARDNKK
Sbjct: 15  SRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK 74
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            RI PRH+ LA+RND+EL KLL GVTIA GGVLPNI  VLL
Sbjct: 75  TRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLL 115

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

Iteration: 1
 Score =  128 bits (322), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 63/101 (62%), Positives = 74/101 (73%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           S+S +AGLQFPVGRI R L+KG YA+R+G+GAP+Y+               GNAARDNKK
Sbjct: 15  SRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK 74
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            RI PRH+ LA+RND+EL KLL GVTIA GGVLPNI  VLL
Sbjct: 75  TRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLL 115

>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 =  125 bits (313), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 62/101 (61%), Positives = 72/101 (71%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           S+S KAGL FPVGR+ R L++G YAQR+GSGAP+Y+               GNAARDNKK
Sbjct: 17  SRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYLAAEILELAGNAARDNKK 76
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            RI PRH+ LA+RNDDEL KLL  VTIA GGVLPNI+  LL
Sbjct: 77  TRIIPRHLQLAIRNDDELNKLLGNVTIAQGGVLPNIHQNLL 117

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

Iteration: 1
 Score =  124 bits (311), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 61/101 (60%), Positives = 73/101 (72%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           S+S +AGLQFPVGR+ R L+KG YA+R+G+GAP+Y+               GNAARDNKK
Sbjct: 17  SRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKK 76
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            RI PRH+ LA+RND+EL KLL  VTIA GGVLPNI  VLL
Sbjct: 77  TRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLL 117

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

Iteration: 1
 Score =  124 bits (311), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 61/101 (60%), Positives = 73/101 (72%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           S+S +AGLQFPVGR+ R L+KG YA+R+G+GAP+Y+               GNAARDNKK
Sbjct: 16  SRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKK 75
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            RI PRH+ LA+RND+EL KLL  VTIA GGVLPNI  VLL
Sbjct: 76  TRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLL 116

>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 =  124 bits (311), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 61/101 (60%), Positives = 73/101 (72%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           ++S +AGLQFPVGR+ R L+KG YA+R+G+GAP+Y+               GNAARDNKK
Sbjct: 16  TRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKK 75
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            RI PRH+ LAVRND+EL KLL  VTIA GGVLPNI  VLL
Sbjct: 76  TRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLL 116

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

Iteration: 1
 Score =  124 bits (311), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 61/101 (60%), Positives = 73/101 (72%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           ++S +AGLQFPVGR+ R L+KG YA+R+G+GAP+Y+               GNAARDNKK
Sbjct: 16  TRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKK 75
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            RI PRH+ LAVRND+EL KLL  VTIA GGVLPNI  VLL
Sbjct: 76  TRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLL 116

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

Iteration: 1
 Score =  124 bits (310), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 61/101 (60%), Positives = 73/101 (72%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           ++S +AGLQFPVGR+ R L+KG YA+R+G+GAP+Y+               GNAARDNKK
Sbjct: 16  TRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKK 75
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            RI PRH+ LAVRND+EL KLL  VTIA GGVLPNI  VLL
Sbjct: 76  TRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLL 116

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

Iteration: 1
 Score =  124 bits (310), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 61/101 (60%), Positives = 73/101 (72%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           ++S +AGLQFPVGR+ R L+KG YA+R+G+GAP+Y+               GNAARDNKK
Sbjct: 3   TRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKK 62
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            RI PRH+ LAVRND+EL KLL  VTIA GGVLPNI  VLL
Sbjct: 63  TRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLL 103

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

Iteration: 1
 Score =  123 bits (308), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 61/101 (60%), Positives = 73/101 (72%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           ++S +AGLQFPVGR+ R L+KG YA+R+G+GAP+Y+               GNAARDNKK
Sbjct: 16  TRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKK 75
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            RI PRH+ LAVRND+EL KLL  VTIA GGVLPNI  VLL
Sbjct: 76  TRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLL 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 =  123 bits (308), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 61/101 (60%), Positives = 73/101 (72%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           ++S +AGLQFPVGR+ R L+KG YA+R+G+GAP+Y+               GNAARDNKK
Sbjct: 16  TRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKK 75
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            RI PRH+ LAVRND+EL KLL  VTIA GGVLPNI  VLL
Sbjct: 76  TRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLL 116

>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 =  123 bits (308), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 61/101 (60%), Positives = 73/101 (72%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           ++S +AGLQFPVGR+ R L+KG YA+R+G+GAP+Y+               GNAARDNKK
Sbjct: 13  TRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKK 72
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            RI PRH+ LAVRND+EL KLL  VTIA GGVLPNI  VLL
Sbjct: 73  TRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLL 113

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

Iteration: 1
 Score =  121 bits (304), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 59/101 (58%), Positives = 73/101 (72%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           ++S +AGLQFPVGR+ R L+KG Y++R+G+GAP+Y+               GNAARDNKK
Sbjct: 20  TRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKK 79
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            RI PRH+ LA+RND+EL KLL  VTIA GGVLPNI  VLL
Sbjct: 80  TRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLL 120

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

Iteration: 1
 Score =  121 bits (304), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 59/101 (58%), Positives = 73/101 (72%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           ++S +AGLQFPVGR+ R L+KG Y++R+G+GAP+Y+               GNAARDNKK
Sbjct: 17  TRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKK 76
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            RI PRH+ LA+RND+EL KLL  VTIA GGVLPNI  VLL
Sbjct: 77  TRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLL 117

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

Iteration: 1
 Score =  121 bits (303), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 59/101 (58%), Positives = 73/101 (72%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           ++S +AGLQFPVGR+ R L+KG Y++R+G+GAP+Y+               GNAARDNKK
Sbjct: 36  TRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKK 95
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            RI PRH+ LA+RND+EL KLL  VTIA GGVLPNI  VLL
Sbjct: 96  TRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLL 136

>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 =  120 bits (301), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 59/101 (58%), Positives = 71/101 (70%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           ++S +AGLQFPVGR+ R L+KG YA+R+G+GAP+Y+               GN  RDNKK
Sbjct: 16  TRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNWERDNKK 75
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            RI PRH+ LAVRND+EL KLL  VTIA GGVLPNI  VLL
Sbjct: 76  TRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLL 116

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

Iteration: 1
 Score =  119 bits (297), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 59/101 (58%), Positives = 72/101 (71%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           S+S KAG+ FPVGR+ R++KKG    R+G GAP+YM                NAARDNKK
Sbjct: 14  SRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELAVNAARDNKK 73
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
            R+ PRH+LLAV ND+EL +LL+GVTIASGGVLPNI+P LL
Sbjct: 74  GRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPELL 114

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

Iteration: 1
 Score =  115 bits (289), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 56/94 (59%), Positives = 68/94 (72%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           S+S +AGLQFPVGR+ R L+KG YA+R+G+GAP+Y+               GNAARDNKK
Sbjct: 2   SRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKK 61
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLP 116
            RI PRH+ LA+RND+EL KLL  VTIA GGVLP
Sbjct: 62  TRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLP 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 =  108 bits (269), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 52/90 (57%), Positives = 64/90 (71%)
Query: 23  SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKK 82
           S+S +AGLQFPVGR+ R L+KG YA+R+G+GAP+Y+               GNAARDNKK
Sbjct: 2   SRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKK 61
Query: 83  NRINPRHVLLAVRNDDELGKLLQGVTIASG 112
            RI PRH+ LA+RND+EL KLL  VTIA G
Sbjct: 62  TRIIPRHLQLAIRNDEELNKLLGKVTIAQG 91

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

Iteration: 1
 Score = 89.7 bits (221), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 50/95 (52%), Positives = 61/95 (64%), Gaps = 6/95 (6%)
Query: 27  KAGLQFPVGRIARFLKK---GRYAQRMGSGAPIYMXXXXXXXXXXXXXXXGNAARDNKKN 83
           +AGLQFPVGRI R+LK+   GR   R+GS A IY+               GNAA+D K  
Sbjct: 101 RAGLQFPVGRIKRYLKRHATGR--TRVGSKAAIYLTAVLEYLTAEVLELAGNAAKDLKVK 158
Query: 84  RINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNI 118
           RI PRH+ LA+R DDEL  L++  TIASGGVLP+I
Sbjct: 159 RITPRHLQLAIRGDDELDSLIRA-TIASGGVLPHI 192

>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 = 83.2 bits (204), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 45/103 (43%), Positives = 63/103 (61%), Gaps = 2/103 (1%)
Query: 22  ISKSVKAGLQFPVGRIARFLKKGRYAQ-RMGSGAPIYMXXXXXXXXXXXXXXXGNAARDN 80
           +S+S +AGLQFPVGRI R LK    +  R+G+ A +Y                GNA++D 
Sbjct: 18  VSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDL 77
Query: 81  KKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
           K  RI PRH+ LA+R D+EL  L++  TIA GGV+P+I+  L+
Sbjct: 78  KVKRITPRHLQLAIRGDEELDSLIK-ATIAGGGVIPHIHKSLI 119
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	143
2f8n_G	120	Core histone macro-H2A.1; nucleosome, NCP, macroh2	9e-46
2f8n_K	149	Histone H2A type 1; nucleosome, NCP, macroh2A, his	6e-44
1tzy_A	129	Histone H2A-IV; histone-fold, tetramer-dimer-dimer	1e-43
1id3_C	131	Histone H2A.1; nucleosome core particle, chromatin	4e-43
2nqb_C	123	Histone H2A; nucleosome, NCP, chromatin, structura	6e-43
1f66_C	128	Histone H2A.Z; nucleosome, chromatin, histone vari	2e-36
2jss_A	192	Chimera of histone H2B.1 and histone H2A.Z; histon	1e-26
1jfi_A	98	Transcription regulator NC2 alpha chain; histone,	6e-21
1n1j_B	97	NF-YC; histone-like PAIR, DNA binding protein; 1.6	2e-10
3ksy_A	1049	SOS-1, SON of sevenless homolog 1; RAS, RAS activa	2e-07
2byk_A	140	Chrac-16; nucleosome sliding, histone fold, DNA-bi	4e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-04
4dra_A	113	Centromere protein S; DNA binding complex, DNA dam	7e-04

>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 =  144 bits (363), Expect = 9e-46
 Identities = 78/118 (66%), Positives = 93/118 (78%)

Query: 12  GRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLE 71
            R G  +  K S+S KAG+ FPVGR+ R++KKG    R+G GAP+YMAAVLEYL AE+LE
Sbjct: 3   SRGGKKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILE 62

Query: 72  LAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTS 129
           LA NAARDNKK R+ PRH+LLAV ND+EL +LL+GVTIASGGVLPNI+P LL KK  S
Sbjct: 63  LAVNAARDNKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPELLAKKRGS 120

>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 =  140 bits (353), Expect = 6e-44
 Identities = 83/132 (62%), Positives = 103/132 (78%), Gaps = 1/132 (0%)

Query: 3   VTKPTKGAGGRRGGGERKK-ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAV 61
           V + +    G++GG  R K  ++S +AGLQFPVGR+ R L+KG Y++R+G+GAP+Y+AAV
Sbjct: 15  VPRGSMSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVYLAAV 74

Query: 62  LEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPV 121
           LEYL AE+LELAGNAARDNKK RI PRH+ LA+RND+EL KLL  VTIA GGVLPNI  V
Sbjct: 75  LEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQAV 134

Query: 122 LLPKKTTSTSET 133
           LLPKKT S  + 
Sbjct: 135 LLPKKTESHHKA 146

>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 =  139 bits (350), Expect = 1e-43
 Identities = 84/127 (66%), Positives = 98/127 (77%)

Query: 9   GAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAE 68
           G G + G    K  S+S +AGLQFPVGR+ R L+KG YA+R+G+GAP+Y+AAVLEYL AE
Sbjct: 3   GRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAE 62

Query: 69  VLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTT 128
           +LELAGNAARDNKK RI PRH+ LA+RND+EL KLL  VTIA GGVLPNI  VLLPKKT 
Sbjct: 63  ILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPKKTD 122

Query: 129 STSETPK 135
           S     K
Sbjct: 123 SHKAKAK 129

>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 =  137 bits (346), Expect = 4e-43
 Identities = 82/128 (64%), Positives = 99/128 (77%)

Query: 9   GAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAE 68
           G GG+ G   +   S+S KAGL FPVGR+ R L++G YAQR+GSGAP+Y+ AVLEYLAAE
Sbjct: 3   GKGGKAGSAAKASQSRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYLAAE 62

Query: 69  VLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTT 128
           +LELAGNAARDNKK RI PRH+ LA+RNDDEL KLL  VTIA GGVLPNI+  LLPKK+ 
Sbjct: 63  ILELAGNAARDNKKTRIIPRHLQLAIRNDDELNKLLGNVTIAQGGVLPNIHQNLLPKKSA 122

Query: 129 STSETPKS 136
             ++  + 
Sbjct: 123 KATKASQE 130

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

 Score =  137 bits (345), Expect = 6e-43
 Identities = 84/120 (70%), Positives = 99/120 (82%)

Query: 12  GRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLE 71
           G+ G  + K  S+S +AGLQFPVGRI R L+KG YA+R+G+GAP+Y+AAV+EYLAAEVLE
Sbjct: 4   GKGGKVKGKAKSRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLE 63

Query: 72  LAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTSTS 131
           LAGNAARDNKK RI PRH+ LA+RND+EL KLL GVTIA GGVLPNI  VLLPKKT   +
Sbjct: 64  LAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKKA 123

>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 =  120 bits (302), Expect = 2e-36
 Identities = 63/125 (50%), Positives = 83/125 (66%), Gaps = 2/125 (1%)

Query: 8   KGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQR-MGSGAPIYMAAVLEYLA 66
             AG   G  + K +S+S +AGLQFPVGRI R LK    +   +G+ A +Y AA+LEYL 
Sbjct: 4   GKAGKDSGKAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLT 63

Query: 67  AEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKK 126
           AEVLELAGNA++D K  RI PRH+ LA+R D+EL  L+   TIA GGV+P+I+  L+ KK
Sbjct: 64  AEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI-KATIAGGGVIPHIHKSLIGKK 122

Query: 127 TTSTS 131
               +
Sbjct: 123 GQQKT 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 = 97.9 bits (242), Expect = 1e-26
 Identities = 62/102 (60%), Positives = 74/102 (72%), Gaps = 2/102 (1%)

Query: 18  ERKKISKSVKAGLQFPVGRIARFLKKGRYAQRM-GSGAPIYMAAVLEYLAAEVLELAGNA 76
             +  S S +AGLQFPVGRI R+LK+    +   GS A IY+ AVLEYL AEVLELAGNA
Sbjct: 92  STQAQSSSARAGLQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNA 151

Query: 77  ARDNKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNI 118
           A+D K  RI PRH+ LA+R DDEL  L++  TIASGGVLP+I
Sbjct: 152 AKDLKVKRITPRHLQLAIRGDDELDSLIR-ATIASGGVLPHI 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 = 80.3 bits (198), Expect = 6e-21
 Identities = 13/77 (16%), Positives = 31/77 (40%)

Query: 23 SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKK 82
          SK  K   +FP  RI + ++      ++ +  P+ ++  LE     +L+ A    +    
Sbjct: 3  SKKKKYNARFPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNA 62

Query: 83 NRINPRHVLLAVRNDDE 99
            +   H+   +  + +
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 = 53.4 bits (128), Expect = 2e-10
 Identities = 15/83 (18%), Positives = 34/83 (40%)

Query: 18  ERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAA 77
           E + ++       + P+ RI + +K     + + + AP+  A   +    E+   A    
Sbjct: 6   EIRNLTVKDFRVQELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHT 65

Query: 78  RDNKKNRINPRHVLLAVRNDDEL 100
            DNK+  +    + +A+   D+ 
Sbjct: 66  EDNKRRTLQRNDIAMAITKFDQF 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 = 47.5 bits (112), Expect = 2e-07
 Identities = 22/74 (29%), Positives = 40/74 (54%), Gaps = 1/74 (1%)

Query: 27  KAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRIN 86
           +  L  PV +I   LK+     ++     +Y+ AVLEY++A++L+L GN  R+ +   I 
Sbjct: 100 RNPLSLPVEKIHPLLKE-VLGYKIDHQVSVYIVAVLEYISADILKLVGNYVRNIRHYEIT 158

Query: 87  PRHVLLAVRNDDEL 100
            + + +A+  D  L
Sbjct: 159 KQDIKVAMCADKVL 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 = 4e-05
 Identities = 10/82 (12%), Positives = 22/82 (26%), Gaps = 1/82 (1%)

Query: 20  KKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARD 79
             + +   A    P+ R+   +K       + +     M    E     +   A      
Sbjct: 8   PPVERPPTAETFLPLSRVRTIMKSSMDTGLITNEVLFLMTKCTELFVRHLAGAAYTEEFG 67

Query: 80  NKKNR-INPRHVLLAVRNDDEL 100
            +    +   H+   V  +  L
Sbjct: 68  QRPGEALKYEHLSQVVNKNKNL 89

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

 Score = 38.3 bits (88), Expect = 5e-04
 Identities = 17/131 (12%), Positives = 41/131 (31%), Gaps = 27/131 (20%)

Query: 18  ERKKISKSVKAGLQFPVGRIARF--LKKGRYAQRMGSGAPIY-MA----AVLEYLAAEVL 70
           +R ++    +   ++ V R+  +  L++     R      I  +       +   A +V 
Sbjct: 115 QRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWV---ALDVC 171

Query: 71  ELAGNAARDNKKNRINPRHVL-LAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTS 129
                     K        +  L ++N +    +L+        +L  +    +    TS
Sbjct: 172 -------LSYKVQCKMDFKIFWLNLKNCNSPETVLE--------MLQKLL-YQIDPNWTS 215

Query: 130 TSETPKSPKSP 140
            S+   + K  
Sbjct: 216 RSDHSSNIKLR 226

>4dra_A Centromere protein S; DNA binding complex, DNA damage repair, histone-fold, DNA BI protein; 2.41A {Homo sapiens} PDB: 4drb_A Length = 113

 Score = 36.2 bits (83), Expect = 7e-04
 Identities = 20/92 (21%), Positives = 33/92 (35%), Gaps = 9/92 (9%)

Query: 18  ERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGA-PIYMAAVLEYLAAEVLELAGNA 76
           +R    + +KA + + VG +         A           +AA+ E    +    A + 
Sbjct: 17  QRFSYQQRLKAAVHYTVGCLCE-----EVALDKEMQFSKQTIAAISELTFRQCENFAKDL 71

Query: 77  ---ARDNKKNRINPRHVLLAVRNDDELGKLLQ 105
              AR  K+  IN   V L  R  + L K + 
Sbjct: 72  EMFARHAKRTTINTEDVKLLARRSNSLLKYIT 103

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	143
1id3_C	131	Histone H2A.1; nucleosome core particle, chromatin	100.0
1f66_C	128	Histone H2A.Z; nucleosome, chromatin, histone vari	100.0
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
2jss_A	192	Chimera of histone H2B.1 and histone H2A.Z; histon	100.0
3ksy_A	1049	SOS-1, SON of sevenless homolog 1; RAS, RAS activa	99.92
1jfi_A	98	Transcription regulator NC2 alpha chain; histone,	99.89
1n1j_B	97	NF-YC; histone-like PAIR, DNA binding protein; 1.6	99.79
4g92_C	119	HAPE; transcription factor, nucleosome, minor groo	99.77
2byk_A	140	Chrac-16; nucleosome sliding, histone fold, DNA-bi	99.69
1tzy_D	103	Histone H4-VI; histone-fold, tetramer-dimer-dimer,	99.58
2yfw_B	103	Histone H4, H4; cell cycle, kinetochore, centromer	99.56
1f1e_A	154	Histone fold protein; archaeal histone protein, DN	99.22
1b67_A	68	Protein (histone HMFA); DNA binding protein; 1.48A	98.95
1ku5_A	70	HPHA, archaeal histon; histone fold, DNA binding p	98.81
1id3_B	102	Histone H4; nucleosome core particle, chromatin, p	98.73
1n1j_A	93	NF-YB; histone-like PAIR, DNA binding protein; 1.6	98.65
2byk_B	128	Chrac-14; nucleosome sliding, histone fold, DNA-bi	98.54
3b0c_W	76	CENP-W, centromere protein W; histone fold, DNA bi	98.43
2hue_C	84	Histone H4; mini beta sheet, elongated beta sandwh	98.27
1f1e_A	154	Histone fold protein; archaeal histone protein, DN	98.05
1taf_B	70	TFIID TBP associated factor 62; transcription init	97.95
1jfi_B	179	DR1 protein, transcription regulator NC2 beta chai	97.83
3b0c_T	111	CENP-T, centromere protein T; histone fold, DNA bi	97.62
1tzy_B	126	Histone H2B; histone-fold, tetramer-dimer-dimer, D	97.45
3v9r_A	90	MHF1, uncharacterized protein YOL086W-A; histone f	97.34
1taf_A	68	TFIID TBP associated factor 42; transcription init	97.33
2nqb_D	123	Histone H2B; nucleosome, NCP, chromatin, structura	97.27
4dra_A	113	Centromere protein S; DNA binding complex, DNA dam	96.95
3b0b_B	107	CENP-S, centromere protein S; histone fold, DNA bi	96.93
1bh9_B	89	TAFII28; histone fold, tata binding protein, trans	96.83
3vh5_A	140	CENP-S; histone fold, chromosome segregation, DNA	96.62
3nqj_A	82	Histone H3-like centromeric protein A; alpha helix	96.54
2hue_B	77	Histone H3; mini beta sheet, elongated beta sandwh	96.43
2jss_A	192	Chimera of histone H2B.1 and histone H2A.Z; histon	96.37
3nqu_A	140	Histone H3-like centromeric protein A; alpha helix	96.34
3r45_A	156	Histone H3-like centromeric protein A; histone fol	96.33
2yfv_A	100	Histone H3-like centromeric protein CSE4; cell cyc	96.08
1tzy_C	136	Histone H3; histone-fold, tetramer-dimer-dimer, DN	96.02
3b0b_C	81	CENP-X, centromere protein X; histone fold, DNA bi	95.98
4dra_E	84	Centromere protein X; DNA binding complex, DNA dam	95.96
2ly8_A	121	Budding yeast chaperone SCM3; centromere protein,	95.65
2l5a_A	235	Histone H3-like centromeric protein CSE4, protein	94.97
1k6k_A	143	ATP-dependent CLP protease ATP-binding subunit CLP	90.08
1h3o_B	76	Transcription initiation factor TFIID 20/15 kDa su	88.33
1khy_A	148	CLPB protein; alpha helix, chaperone; 1.95A {Esche	86.41
2y1q_A	150	CLPC N-domain, negative regulator of genetic compe	85.74
3fes_A	145	ATP-dependent CLP endopeptidase; alpha-helical bun	85.58
3fh2_A	146	Probable ATP-dependent protease (heat shock prote;	84.97
1wwi_A	148	Hypothetical protein TTHA1479; structural genomics	83.79
3fes_A	145	ATP-dependent CLP endopeptidase; alpha-helical bun	81.97
3fh2_A	146	Probable ATP-dependent protease (heat shock prote;	81.36
3zri_A	171	CLPB protein, CLPV; chaperone, HSP100 proteins, AA	81.15

>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=3e-47  Score=285.46  Aligned_cols=121  Identities=69%  Similarity=1.087  Sum_probs=106.8

Q ss_pred             CCCCCCCCCCCcc-cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccch
Q 032326            9 GAGGRRGGGERKK-ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINP   87 (143)
Q Consensus         9 ~~~~~~~~~~~~~-~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP   87 (143)
                      +++|+++ +.+++ +|+|+|+||+|||+||+|||++++|++||+++|+|||+||||||++||||+|+|+|+++++++|+|
T Consensus         3 ~~~~~~~-~~~~~~~srS~ragLqfPV~rI~R~Lk~~~~a~RVs~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp   81 (131)
T 1id3_C            3 GKGGKAG-SAAKASQSRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYLAAEILELAGNAARDNKKTRIIP   81 (131)
T ss_dssp             --------------CCTTGGGTCSSCHHHHHHHHHTTCSCSEECSSHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECH
T ss_pred             CCCCCCC-CCCCCCCCccccCCeecCHHHHHHHHHccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceEcH
Confidence            4455553 33444 899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhccHHHHhhhcCceecCCccCCCCCccCCCCCCCCC
Q 032326           88 RHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTST  130 (143)
Q Consensus        88 ~hI~~AI~nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~  130 (143)
                      +||++||+||+|||+||+++||++|||+|+||++|+++|.+++
T Consensus        82 ~hI~lAI~nDeEL~~Ll~~vtIa~ggvlP~i~~~l~~k~~~~~  124 (131)
T 1id3_C           82 RHLQLAIRNDDELNKLLGNVTIAQGGVLPNIHQNLLPKKSAKA  124 (131)
T ss_dssp             HHHHHHHHTCHHHHHHTTTEEETTCCCCCCCCGGGSCCSCCSC
T ss_pred             HHHHHHHhccHHHHHHhcCceecCCccCCCccHHHcCcccccc
Confidence            9999999999999999999999999999999999999987654

>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=6.2e-47  Score=282.76  Aligned_cols=121  Identities=53%  Similarity=0.860  Sum_probs=98.9

Q ss_pred             CCCCCCCCCCCCcc-cccccccccccchhhHHHHHhccCccc-ccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCccc
Q 032326            8 KGAGGRRGGGERKK-ISKSVKAGLQFPVGRIARFLKKGRYAQ-RMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRI   85 (143)
Q Consensus         8 ~~~~~~~~~~~~~~-~srs~RagL~FpVsri~r~Lr~~~~~~-rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krI   85 (143)
                      ++++|+++++.+++ +|||+|+||||||+||+|||++++|+. ||+++|+|||+||||||++||||+|+|+|+++++++|
T Consensus         3 ~~~~~~~~~~~~~~~~srS~ragLqfPV~ri~R~Lk~~~~a~~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krI   82 (128)
T 1f66_C            3 GGKAGKDSGKAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRI   82 (128)
T ss_dssp             --------------CCCHHHHHTCSSCHHHHHHHHHHTSCSSCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEE
T ss_pred             CCCCCCCCCCcCCCCcCccccCCccCChHHHHHHHHHcccchhhccccHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeE
Confidence            45667777776666 899999999999999999999999874 9999999999999999999999999999999999999


Q ss_pred             chhhHHHHhhccHHHHhhhcCceecCCccCCCCCccCCCCCCCC
Q 032326           86 NPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTS  129 (143)
Q Consensus        86 tP~hI~~AI~nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~  129 (143)
                      +|+||++||+||+|||+||+. ||++|||+|+||++|+++|.++
T Consensus        83 tprhi~lAI~nDeEL~~Ll~~-tia~ggv~P~i~~~l~~k~~~~  125 (128)
T 1f66_C           83 TPRHLQLAIRGDEELDSLIKA-TIAGGGVIPHIHKSLIGKKGQQ  125 (128)
T ss_dssp             CHHHHHHHHHHSHHHHHHCCS-EETTCCCCCCCCGGGC------
T ss_pred             cHHHHHHHHhccHHHhhhhcc-eecCCccCCCCCHHhcCccccc
Confidence            999999999999999999965 9999999999999999998765

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

Probab=100.00  E-value=8e-47  Score=280.49  Aligned_cols=113  Identities=73%  Similarity=1.108  Sum_probs=104.2

Q ss_pred             CCCcc-cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           17 GERKK-ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        17 ~~~~~-~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      +.+++ .|+|+|+||||||+||+|||++++|++||+++|+|||+||||||++||||+|+|+|+++++++|+|+||++||+
T Consensus         8 ~~~~~~~s~s~ragL~fPV~ri~R~Lk~~~~a~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp~hi~lAI~   87 (123)
T 2nqb_C            8 KVKGKAKSRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   87 (123)
T ss_dssp             -----CCCHHHHHTCSSCHHHHHHHHHHTTSCSEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             CCCCCCCCccccCCeeccHHHHHHHHHccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHHHHHh
Confidence            33444 89999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccHHHHhhhcCceecCCccCCCCCccCCCCCCCC
Q 032326           96 NDDELGKLLQGVTIASGGVLPNINPVLLPKKTTS  129 (143)
Q Consensus        96 nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~  129 (143)
                      ||+|||+||+++||++|||+|+||++|+++|.++
T Consensus        88 nDeEL~~Ll~~vtia~ggvlp~i~~~l~~k~~~~  121 (123)
T 2nqb_C           88 NDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEK  121 (123)
T ss_dssp             TSHHHHHHTTTEEETTCCCCCCCCGGGSSCC---
T ss_pred             ccHHHHHHhcCceeCCCCcCCCccHHHcCccccc
Confidence            9999999999999999999999999999998754

>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=1.3e-46  Score=281.32  Aligned_cols=115  Identities=71%  Similarity=1.099  Sum_probs=103.9

Q ss_pred             CCCCcc-cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHh
Q 032326           16 GGERKK-ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAV   94 (143)
Q Consensus        16 ~~~~~~-~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI   94 (143)
                      ++.+++ .|+|+|+||||||+||+|||++++|++||+++|+|||+||||||++||||+|+|+|+++++++|+|+||++||
T Consensus         9 ~~~~~~~~srS~ragLqfPV~rI~R~Lk~~~~a~RVs~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp~hi~lAI   88 (129)
T 1tzy_A            9 GKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAI   88 (129)
T ss_dssp             -----CCCCHHHHHTCSSCHHHHHHHHHHTTSSSEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHH
T ss_pred             CCCCCCCCCccccCceeccHHHHHHHHHccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEcHHHHHHHH
Confidence            444545 8999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccHHHHhhhcCceecCCccCCCCCccCCCCCCCCC
Q 032326           95 RNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTST  130 (143)
Q Consensus        95 ~nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~  130 (143)
                      +||+|||+||+++||++|||+|+||++|+++|.+++
T Consensus        89 ~nDeEL~~L~~~vtIa~ggvlP~i~~~l~~k~~~~~  124 (129)
T 1tzy_A           89 RNDEELNKLLGKVTIAQGGVLPNIQAVLLPKKTDSH  124 (129)
T ss_dssp             HTSHHHHHHTTTEEETTCCCCCCCCGGGSCC-----
T ss_pred             hccHHHHHHhCCCeecCCCcCCCCCHHHcCcccccc
Confidence            999999999999999999999999999999987654

>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=2.2e-46  Score=277.10  Aligned_cols=112  Identities=66%  Similarity=1.026  Sum_probs=104.9

Q ss_pred             CCCcc-cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           17 GERKK-ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        17 ~~~~~-~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      +.+++ +|+|+|+||||||+||+|||++++|++||+++|+|||+||||||++||||+|+|+|+++++++|+|+||++||+
T Consensus         7 ~~~~~~~srs~ragLqfPV~ri~R~Lk~~~~a~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~~rItp~hi~lAI~   86 (120)
T 2f8n_G            7 KKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELAVNAARDNKKGRVTPRHILLAVA   86 (120)
T ss_dssp             ---CCCCCHHHHHTCSSCHHHHHHHHHHHSSSCEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             CCCcCCcCcccccCccCChHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHhhcCCceEcHHHHHHHHh
Confidence            33444 89999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccHHHHhhhcCceecCCccCCCCCccCCCCCCC
Q 032326           96 NDDELGKLLQGVTIASGGVLPNINPVLLPKKTT  128 (143)
Q Consensus        96 nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~  128 (143)
                      ||+|||+||+++||++|||+|+||++|+++|.+
T Consensus        87 nDeEL~~Ll~~vtia~ggv~p~i~~~l~~k~~~  119 (120)
T 2f8n_G           87 NDEELNQLLKGVTIASGGVLPNIHPELLAKKRG  119 (120)
T ss_dssp             TSHHHHHHTTTEEETTCCCCCCCCGGGSCCC--
T ss_pred             cCHHHHHHhCCceECCCCcCCCcCHHHcCCccC
Confidence            999999999999999999999999999999753

>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=3.2e-46  Score=285.04  Aligned_cols=119  Identities=69%  Similarity=1.105  Sum_probs=103.4

Q ss_pred             CCCCCCCCcc-cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhH
Q 032326           12 GRRGGGERKK-ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHV   90 (143)
Q Consensus        12 ~~~~~~~~~~-~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI   90 (143)
                      |+++++.+++ +|+|+||||||||+||+|||++++|++||+++|+|||+||||||++||||+|+|+|+++++++|+|+||
T Consensus        24 ~~~~~~~~~k~~srS~ragLqFPVgrI~R~LK~~~~a~RVs~~A~VyLAAVLEYL~aEILelAgn~A~~~krkrItprhI  103 (149)
T 2f8n_K           24 GKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHL  103 (149)
T ss_dssp             ----------CCCHHHHHTCSSCHHHHHHHHHHTTSCSEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHH
T ss_pred             CCCCCCCCCCCCCccccCCeeccHHHHHHHHHccccccccCcCcHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHH
Confidence            4444555655 899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhccHHHHhhhcCceecCCccCCCCCccCCCCCCCCC
Q 032326           91 LLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTST  130 (143)
Q Consensus        91 ~~AI~nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~  130 (143)
                      ++||+||+|||+||+++||++|||+|+||++|+++|.+++
T Consensus       104 ~lAI~nDeEL~~Ll~~vtIa~gGVlP~i~~~l~~k~~~~~  143 (149)
T 2f8n_K          104 QLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTESH  143 (149)
T ss_dssp             HHHHHHSHHHHHHTTTEEETTCCCCCCCCGGGSCC-----
T ss_pred             HHHHhccHHHHHHhcCceEcCCCCCCCccHHHcCcccccc
Confidence            9999999999999999999999999999999999987654

>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=239.61  Aligned_cols=97  Identities=65%  Similarity=0.980  Sum_probs=93.6

Q ss_pred             ccccccccccccchhhHHHHHhccCcc-cccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHH
Q 032326           21 KISKSVKAGLQFPVGRIARFLKKGRYA-QRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDE   99 (143)
Q Consensus        21 ~~srs~RagL~FpVsri~r~Lr~~~~~-~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~E   99 (143)
                      .+++|+|+||||||+||+|||++++++ .||+++|+|||+||||||++||||+|+|+|+++++++|+|+||++||+||+|
T Consensus        95 ~~s~s~ragl~fPv~ri~R~lk~~~~a~~Rv~~~A~vyLaavLEyl~~eIlelA~n~a~~~~~~~I~p~~i~lAi~nD~e  174 (192)
T 2jss_A           95 AQSSSARAGLQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNAAKDLKVKRITPRHLQLAIRGDDE  174 (192)
T ss_dssp             SSCHHHHSSCCSCHHHHHHHHHHTTCSSCCCCTTTHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHHHHTSHH
T ss_pred             cccccccCCCcCCHHHHHHHHHhcCccccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHhccHH
Confidence            379999999999999999999999887 6999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCceecCCccCCCC
Q 032326          100 LGKLLQGVTIASGGVLPNI  118 (143)
Q Consensus       100 L~~L~~~~~Ia~ggv~P~~  118 (143)
                      ||+||+ +||++|||+|+|
T Consensus       175 L~~L~~-~ti~~ggv~p~i  192 (192)
T 2jss_A          175 LDSLIR-ATIASGGVLPHI  192 (192)
T ss_dssp             HHHHHC-SCCTTTCCSSCC
T ss_pred             HHHHHh-hhhcCCCcCCCC
Confidence            999997 599999999987

>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=99.92  E-value=2.9e-26  Score=215.03  Aligned_cols=98  Identities=23%  Similarity=0.412  Sum_probs=81.7

Q ss_pred             cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHH
Q 032326           22 ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELG  101 (143)
Q Consensus        22 ~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~  101 (143)
                      .++|+||||+|||+||||+| +++|++||+.+||||||||||||++||||||||+|+++++.+|+|+||++||+||+||+
T Consensus        95 ~~~~~~~~l~~pv~~~~~~l-~~~~~~r~~~~~~~y~~avleyl~~~~l~la~~~~~~~~~~~i~p~~~~~ai~~d~eL~  173 (1049)
T 3ksy_A           95 EKRKRRNPLSLPVEKIHPLL-KEVLGYKIDHQVSVYIVAVLEYISADILKLVGNYVRNIRHYEITKQDIKVAMCADKVLM  173 (1049)
T ss_dssp             TTCCCSSSCSSCHHHHHHHH-HHHHCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCBCCHHHHHHHHHHCSSHH
T ss_pred             hcccccCCccccHHHHHHHh-hcccccccCCCCcchhHHHHHHHHHHHHHHHHHHHHHcCCceecCccccccccCCHHHH
Confidence            69999999999999999999 99999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcCceecCCccCCCCCcc
Q 032326          102 KLLQGVTIASGGVLPNINPV  121 (143)
Q Consensus       102 ~L~~~~~Ia~ggv~P~~~~~  121 (143)
                      .||+.. ...+|++|.....
T Consensus       174 ~l~~~d-ee~~~~lp~~~~~  192 (1049)
T 3ksy_A          174 DMFHQD-VEDINILSLTDEE  192 (1049)
T ss_dssp             HHCC----------------
T ss_pred             HHHhhc-cccccCCCCcccc
Confidence            999874 4567788875543

>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=99.89  E-value=7.1e-24  Score=151.17  Aligned_cols=83  Identities=16%  Similarity=0.304  Sum_probs=62.5

Q ss_pred             ccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHh
Q 032326           23 SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGK  102 (143)
Q Consensus        23 srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~  102 (143)
                      +++.+++++|||+||+|+|+.+.+..||+++|+||+++++|||+.||+++|++.|+++++++|+|+||..||++|++|++
T Consensus         3 ~~~kk~~~~fPvaRIkrimK~~~~~~~vs~~A~v~la~a~E~Fi~el~~~A~~~a~~~krktI~~~di~~av~~~e~l~F   82 (98)
T 1jfi_A            3 SKKKKYNARFPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQCIELEGDPAA   82 (98)
T ss_dssp             -------CCCCHHHHHHHHTTSTTCCCBCTTHHHHHHHHHHHHHHHHHHHHHHHHHTC---CBCHHHHHTTCC-------
T ss_pred             CcccccCCCCChHHHHHHHHcCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHhcCchhhH
Confidence            35778999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhc
Q 032326          103 LLQ  105 (143)
Q Consensus       103 L~~  105 (143)
                      |+.
T Consensus        83 L~d   85 (98)
T 1jfi_A           83 NKA   85 (98)
T ss_dssp             ---
T ss_pred             HHh
Confidence            994

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

Probab=99.79  E-value=2.5e-19  Score=127.21  Aligned_cols=80  Identities=19%  Similarity=0.289  Sum_probs=72.4

Q ss_pred             cccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326           26 VKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQ  105 (143)
Q Consensus        26 ~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~  105 (143)
                      .-.+++||++||+|+|+.+.+..+|+.+|++|+++++|||+.+|++.|++.|..+++++|+++||..||.+|++|++|..
T Consensus        14 ~~~~~~lP~arIkrImK~~~~~~~is~eA~~~laka~E~Fi~~l~~~A~~~a~~~krktI~~~di~~Av~~~e~~~FL~d   93 (97)
T 1n1j_B           14 DFRVQELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAITKFDQFDFLID   93 (97)
T ss_dssp             ------CCHHHHHHHHTTSTTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTCGGGGGGTT
T ss_pred             CcCCCcCCHHHHHHHHccCccccccChHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCHHHHHHHHhcCcHHHHHHh
Confidence            34578999999999999999999999999999999999999999999999999999999999999999999999999984

>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=99.77  E-value=7.8e-19  Score=129.00  Aligned_cols=77  Identities=23%  Similarity=0.308  Sum_probs=73.5

Q ss_pred             ccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326           29 GLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQ  105 (143)
Q Consensus        29 gL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~  105 (143)
                      -.+||++||+|+|+.+.+..+|+.+|++|+++++|||+.+|++.|++.|.++++++|+|+||..||.+|++|++|..
T Consensus        39 ~~~lPvaRIkrImK~d~~~~~is~eA~v~la~a~E~Fi~~L~~~A~~~a~~~krktI~~~di~~Av~~~e~~dFL~D  115 (119)
T 4g92_C           39 IHQLPLARIKKVMKADPEVKMISAEAPILFAKGCDVFITELTMRAWIHAEDNKRRTLQRSDIAAALSKSDMFDFLID  115 (119)
T ss_dssp             CCSSCHHHHHHHHHTSTTCCEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTCGGGGGGTT
T ss_pred             cCCCCHHHHHHHHhhCCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccCHHHHHHHHhcCchhhHHHH
Confidence            34699999999999999999999999999999999999999999999999999999999999999999999998763

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

Probab=99.69  E-value=1.5e-17  Score=125.53  Aligned_cols=83  Identities=14%  Similarity=0.195  Sum_probs=62.7

Q ss_pred             cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHH-HhcCCcccchhhHHHHhhccHHH
Q 032326           22 ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAA-RDNKKNRINPRHVLLAVRNDDEL  100 (143)
Q Consensus        22 ~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A-~~~~~krItP~hI~~AI~nD~EL  100 (143)
                      .+++.+..++||++||+|+|+.+.+..+|+..|+++++.++|||+.+|++.|++.| ...++++|+++||..||.++++|
T Consensus        10 ~s~~~~~~~~LPlaRIKrIMK~dpdv~~Is~eA~vliakA~ElFI~~Lt~~A~~~a~~~~kRKtI~~~Dl~~AV~~~e~~   89 (140)
T 2byk_A           10 VERPPTAETFLPLSRVRTIMKSSMDTGLITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPGEALKYEHLSQVVNKNKNL   89 (140)
T ss_dssp             -------------------CCSSSSCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCEECHHHHHHHHHTCSTT
T ss_pred             CCCCcccCCCCCHHHHHHHHhcCcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccCHHHHHHHHhcCchh
Confidence            58888999999999999999999999999999999999999999999999999999 99999999999999999999999


Q ss_pred             Hhhh
Q 032326          101 GKLL  104 (143)
Q Consensus       101 ~~L~  104 (143)
                      ++|.
T Consensus        90 dFL~   93 (140)
T 2byk_A           90 EFLL   93 (140)
T ss_dssp             GGGT
T ss_pred             hhHh
Confidence            9998

>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=99.58  E-value=4.9e-15  Score=106.08  Aligned_cols=76  Identities=17%  Similarity=0.248  Sum_probs=70.9

Q ss_pred             cccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccH
Q 032326           20 KKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDD   98 (143)
Q Consensus        20 ~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~   98 (143)
                      ++.++++.++  ||+..|+|+++...+ .||+.++..+|+.+|||++.||++.|.+.|+..+++.|+++||.+|+.+..
T Consensus        20 ~k~~r~~~~g--ip~~~I~Rlar~~G~-~rIs~~a~~~l~~vle~~~~~V~~dA~~~a~hakRktIt~~DV~~Alr~~g   95 (103)
T 1tzy_D           20 RKVLRDNIQG--ITKPAIRRLARRGGV-KRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQG   95 (103)
T ss_dssp             -CCCCCGGGG--SCHHHHHHHHHHTTC-CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHTT
T ss_pred             ccchhhhccc--CCHHHHHHHHHHcCc-cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHHcC
Confidence            3479999999  999999999999976 799999999999999999999999999999999999999999999999753

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

Probab=99.56  E-value=5.3e-15  Score=106.01  Aligned_cols=76  Identities=18%  Similarity=0.249  Sum_probs=63.2

Q ss_pred             cccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccH
Q 032326           20 KKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDD   98 (143)
Q Consensus        20 ~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~   98 (143)
                      +++++++.++  ||++.|+|+++...+ .||+.++..+|+.+|||++.||++.|.+.|+..+++.|+++||.+|+.+..
T Consensus        20 ~~~~r~~~~g--ip~~~I~Rlar~~G~-~rIs~~a~~~l~~vle~~~~~V~~dA~~~a~hakRktvt~~DV~~Alr~~g   95 (103)
T 2yfw_B           20 RKILRDNIQG--ITKPAIRRLARRGGV-KRISGLIYEEVRNVLKTFLESVIRDAVTYTEHAKRKTVTSLDVVYALKRQG   95 (103)
T ss_dssp             ------------CCHHHHHHHHHHTTC-CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHC
T ss_pred             hhhhhhhhcc--CCHHHHHHHHHHcCc-cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHcC
Confidence            3478999999  999999999999977 799999999999999999999999999999999999999999999999654

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

Probab=99.22  E-value=1.4e-11  Score=94.15  Aligned_cols=71  Identities=20%  Similarity=0.176  Sum_probs=68.0

Q ss_pred             cccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326           26 VKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRND   97 (143)
Q Consensus        26 ~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD   97 (143)
                      .+.++.||++.|.|+|++. ...|||.+|.++|..+||||+.+|...|.+.|+..+++.|+++||.+|+.++
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 DYDGELFGRATVRRILKRA-GIERASSDAVDLYNKLICRATEELGEKAAEYADEDGRKTVQGEDVEKAITYS  147 (154)
T ss_dssp             TCCSCCCCHHHHHHHHHHT-TCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHH
T ss_pred             ccccccCCccHHHHHHHHc-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHhc
Confidence            4789999999999999999 7889999999999999999999999999999999999999999999999875

>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=98.95  E-value=1.8e-09  Score=71.16  Aligned_cols=65  Identities=28%  Similarity=0.405  Sum_probs=61.3

Q ss_pred             ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326           31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN   96 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n   96 (143)
                      .||.+.|.|+|++. ...||+.+|...|.-++|+++.+|.+-|...|...+++.|+|+||++|++.
T Consensus         2 ~lP~a~v~Ri~k~~-~~~ris~~A~~~l~~a~e~fi~~l~~~A~~~a~~~kRkTI~~~Di~~A~~~   66 (68)
T 1b67_A            2 ELPIAPIGRIIKNA-GAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARKM   66 (68)
T ss_dssp             CSCHHHHHHHHHHT-TCSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHGGG
T ss_pred             CCCccHHHHHHhcC-CcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHh
Confidence            48999999999999 668999999999999999999999999999999999999999999999863

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

Probab=98.81  E-value=9.5e-09  Score=68.23  Aligned_cols=65  Identities=25%  Similarity=0.399  Sum_probs=61.5

Q ss_pred             ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326           31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN   96 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n   96 (143)
                      .||.+.|.|++++. ...|++..+...|..++|+++.+|++-|...|...+++.|+++||++|+++
T Consensus         6 ~lp~a~v~Rl~r~~-g~~ris~~a~~~l~e~~~~~~~~v~~dA~~~a~hakRkTI~~~DV~lA~~~   70 (70)
T 1ku5_A            6 ELPIAPVDRLIRKA-GAERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIKS   70 (70)
T ss_dssp             CSCHHHHHHHHHHT-TCSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHTC
T ss_pred             cCChHHHHHHHHHc-CcceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHC
Confidence            58999999999988 468999999999999999999999999999999999999999999999875

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

Probab=98.73  E-value=3.8e-08  Score=70.25  Aligned_cols=74  Identities=19%  Similarity=0.255  Sum_probs=64.5

Q ss_pred             ccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326           21 KISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRND   97 (143)
Q Consensus        21 ~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD   97 (143)
                      |+.+.+..+  +|..-|.|+++... ..||+.++..-|..+|||++.+|+.-|...|+..+++.|+++||.+|+...
T Consensus        20 k~~r~~i~~--ip~~~I~Rlar~~G-v~rIS~da~~~l~~~le~fi~~I~~dA~~~a~HakRKTVt~~DV~~ALkr~   93 (102)
T 1id3_B           20 KILRDNIQG--ITKPAIRRLARRGG-VKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALKRQ   93 (102)
T ss_dssp             ----CCGGG--SCHHHHHHHHHHTT-CCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHT
T ss_pred             HHHHhccCC--CCHHHHHHHHHHcC-chhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHc
Confidence            367777777  78888999999985 489999999999999999999999999999999999999999999999854

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

Probab=98.65  E-value=6e-08  Score=67.56  Aligned_cols=68  Identities=16%  Similarity=0.321  Sum_probs=62.5

Q ss_pred             cccccchhhHHHHHhcc-CcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           28 AGLQFPVGRIARFLKKG-RYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        28 agL~FpVsri~r~Lr~~-~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      ..+.||.++|.|+|++. ....||+.+|...|.-+.|.|+.+|.+.|...|...+++.|+++||..|+.
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            35789999999999998 445799999999999999999999999999999999999999999999997

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

Probab=98.54  E-value=9.9e-08  Score=70.59  Aligned_cols=75  Identities=17%  Similarity=0.170  Sum_probs=64.1

Q ss_pred             ccccchhhHHHHHhc-cCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhh
Q 032326           29 GLQFPVGRIARFLKK-GRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKL  103 (143)
Q Consensus        29 gL~FpVsri~r~Lr~-~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L  103 (143)
                      .+.||+++|.|+|++ .....+|+.+|...|+-+.|.|+.+|...|...|...+++.|+++||..|+...+-++++
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            468999999999995 555679999999999999999999999999999999999999999999999976644443

>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=98.43  E-value=7e-07  Score=60.17  Aligned_cols=65  Identities=22%  Similarity=0.357  Sum_probs=59.8

Q ss_pred             ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      .||.+.|.|+|++.--..+|+.+|...|.-++|-|+.+|-.-|...|..++++.|+++||..|+.
T Consensus         4 ~LP~A~V~rI~K~~~p~~~is~~A~~~i~~~~~~Fi~~la~eA~~~a~~~~rKTI~~~dI~~A~~   68 (76)
T 3b0c_W            4 TVPRGTLRKIIKKHKPHLRLAANTDLLVHLSFLLFLHRLAEEARTNAFENKSKIIKPEHTIAAAK   68 (76)
T ss_dssp             CCCHHHHHHHHHHHCTTCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHH
T ss_pred             cccccHHHHHHHHhCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            58999999999965335699999999999999999999999999999999999999999999986

>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=98.27  E-value=4e-06  Score=57.52  Aligned_cols=72  Identities=17%  Similarity=0.225  Sum_probs=64.6

Q ss_pred             ccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326           23 SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRND   97 (143)
Q Consensus        23 srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD   97 (143)
                      -|.+..+  +|..-|.|+++... ..||+.++..-|..+|||++.+|+.-|...++..+++.|+++||.+|+...
T Consensus         4 ~r~~~~~--ip~~~I~Riar~~G-v~rIs~da~~~l~~~l~~~~~~I~~dA~~~a~ha~RKTvt~~DV~~Alk~~   75 (84)
T 2hue_C            4 LRDNIQG--ITKPAIRRLARRGG-VKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQ   75 (84)
T ss_dssp             GGGGCCS--SCHHHHHHHHHHTT-CCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTT
T ss_pred             ccccCCC--CCHHHHHHHHHHcC-chhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHc
Confidence            4555556  78888999999885 489999999999999999999999999999999999999999999999864

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

Probab=98.05  E-value=8.7e-06  Score=61.99  Aligned_cols=64  Identities=17%  Similarity=0.227  Sum_probs=60.1

Q ss_pred             ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHh
Q 032326           31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAV   94 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI   94 (143)
                      -+|..-|.|+|++.--..|||.+|...|..++|.|+.+|...|.+.|...+++.|+++||.+|+
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 ELPKAAIERIFRQGIGERRLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHLKALA   67 (154)
T ss_dssp             CCCHHHHHHHHHTTSTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHH
T ss_pred             cCCccHHHHHHHhcCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHH
Confidence            3788899999999933489999999999999999999999999999999999999999999998

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

Probab=97.95  E-value=2.9e-05  Score=52.01  Aligned_cols=65  Identities=8%  Similarity=0.112  Sum_probs=61.0

Q ss_pred             cccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           30 LQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        30 L~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      -.||+.-|+++.+.-.. .+|+.++...|+--+||-+.||++-|.+.++..+++.++.+||+.|++
T Consensus         5 s~lp~~~v~~iaes~Gi-~~lsddaa~~LA~dvEyr~~eI~qeA~kfmrHakRk~Lt~~DI~~Alk   69 (70)
T 1taf_B            5 SSISAESMKVIAESIGV-GSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLK   69 (70)
T ss_dssp             CCCCHHHHHHHHHHTTC-CCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred             ccCCHHHHHHHHHHCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHc
Confidence            46999999999998864 799999999999999999999999999999999999999999999974

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

Probab=97.83  E-value=4e-05  Score=59.67  Aligned_cols=77  Identities=18%  Similarity=0.274  Sum_probs=66.4

Q ss_pred             ccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhh
Q 032326           27 KAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLL  104 (143)
Q Consensus        27 RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~  104 (143)
                      -..+.||.+.|.|+|++.--..+|+.+|...|.-+++-|+.+|--.|...|...+++.|+++||..|+. +-+|..++
T Consensus        11 ~eD~~LP~A~V~RImK~alp~~rISkDA~~al~ec~~eFI~~LtseA~e~a~~~~RKTI~~eDVl~Al~-~LgF~~fv   87 (179)
T 1jfi_B           11 DDDLTIPRAAINKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALE-SLGFGSYI   87 (179)
T ss_dssp             -CCCCCCHHHHHHHHHHHSTTCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH-HHTTGGGH
T ss_pred             hhhhhcCHHHHHHHHHHhCCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH-hcChHHHH
Confidence            346789999999999988435799999999999999999999999999999999999999999999998 44444443

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

Probab=97.62  E-value=6.1e-05  Score=54.26  Aligned_cols=71  Identities=8%  Similarity=0.027  Sum_probs=61.0

Q ss_pred             ccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHH
Q 032326           29 GLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDEL  100 (143)
Q Consensus        29 gL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL  100 (143)
                      .+.+|-+-|.|++++. -..|||..+...|.-+++.++.+|..-|...|+..+++.|+++||.+|++....+
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 EPEIASSLIKQIFSHY-VKTPVTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADVELLMRRQGLV   75 (111)
T ss_dssp             -----CHHHHHHHHHH-HCSCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHTTSS
T ss_pred             CCCCCHHHHHHHHHHC-CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHHCCCc
Confidence            3568999999999998 4579999999999999999999999999999999999999999999999976544

>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=97.45  E-value=0.00025  Score=52.38  Aligned_cols=66  Identities=21%  Similarity=0.227  Sum_probs=59.0

Q ss_pred             ccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           29 GLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        29 gL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      .-.|.+ .|+++|+.-.-...|++.|.-.|...++.+...|..-|...++-+++..|++++|+.|++
T Consensus        35 ~esy~~-YIyKVLKQVhpd~gISskAm~ImnSfvnDiferIA~EAs~La~~nkr~TitsreIqtAvr  100 (126)
T 1tzy_B           35 KESYSI-YVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVR  100 (126)
T ss_dssp             CCCCHH-HHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             cccHHH-HHHHHHHHhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            345666 799999988655689999999999999999999999999999999999999999999986

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

Probab=97.34  E-value=0.00058  Score=47.67  Aligned_cols=78  Identities=14%  Similarity=0.075  Sum_probs=59.3

Q ss_pred             ccccccchhhHHHHH-hccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326           27 KAGLQFPVGRIARFL-KKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQ  105 (143)
Q Consensus        27 RagL~FpVsri~r~L-r~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~  105 (143)
                      ++.|++-|++|=.-. +.+  ...++..+...|+-+++..+.+|.+-+...|+..|++.|++.||.++++.++.|..++.
T Consensus        11 Kaal~~~V~ki~~e~~~~~--g~~vs~~~i~aL~e~~~~~~~~ia~Dl~~fA~HAgRkTI~~eDV~L~~Rrn~~L~~~l~   88 (90)
T 3v9r_A           11 KARLWIRVEERLQQVLSSE--DIKYTPRFINSLLELAYLQLGEMGSDLQAFARHAGRGVVNKSDLMLYLRKQPDLQERVT   88 (90)
T ss_dssp             HHHHHHHHHHHHHHHSCSS--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTCHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHhc--CceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHhChHHHHHhh
Confidence            456777787765433 222  23577777777777777777777777777889999999999999999999999999886


Q ss_pred             C
Q 032326          106 G  106 (143)
Q Consensus       106 ~  106 (143)
                      +
T Consensus        89 ~   89 (90)
T 3v9r_A           89 Q   89 (90)
T ss_dssp             C
T ss_pred             c
Confidence            4

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

Probab=97.33  E-value=0.00082  Score=44.60  Aligned_cols=60  Identities=20%  Similarity=0.109  Sum_probs=55.6

Q ss_pred             hHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326           36 RIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN   96 (143)
Q Consensus        36 ri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n   96 (143)
                      -|+++|++.. ..+++..++.-|.-.+|-.+.+|+.-|...|...|++.|+.+||++||..
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            4789999885 47999999999999999999999999999999999999999999999975

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

Probab=97.27  E-value=0.0006  Score=50.15  Aligned_cols=64  Identities=23%  Similarity=0.223  Sum_probs=57.2

Q ss_pred             ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      .|. ..|+++|+.-.-...|++.|...|...++.+...|..-|...++-+++..|++++|+.||+
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            455 4789999987655689999999999999999999999999999999999999999999986

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

Probab=96.95  E-value=0.0013  Score=47.65  Aligned_cols=79  Identities=18%  Similarity=0.206  Sum_probs=63.0

Q ss_pred             ccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhcC
Q 032326           27 KAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQG  106 (143)
Q Consensus        27 RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~~  106 (143)
                      ++.|.+.|+||=+-.-..+ ...++..+...|+-+++..+.+|..-+...|+-.|++.|++.||.++++.++.|..+++.
T Consensus        26 Kaal~y~V~rIvke~gaer-~~~vS~~ai~aL~El~~~~~~~ia~Dl~~fAkHAgRkTI~~eDV~La~Rr~~~L~~~l~~  104 (113)
T 4dra_A           26 KAAVHYTVGCLCEEVALDK-EMQFSKQTIAAISELTFRQCENFAKDLEMFARHAKRTTINTEDVKLLARRSNSLLKYITD  104 (113)
T ss_dssp             HHHHHHHHHHHHHHHHHHH-TCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHc-CCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHHhCHHHHHHHHH
Confidence            4667888887765332221 124888888888888888888888888888999999999999999999999999888764

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

Probab=96.93  E-value=0.0012  Score=47.36  Aligned_cols=79  Identities=14%  Similarity=0.159  Sum_probs=63.6

Q ss_pred             ccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhcC
Q 032326           27 KAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQG  106 (143)
Q Consensus        27 RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~~  106 (143)
                      ++.|+|-|+||=+---.. ...+++..+...|+-+++..+.+|..-+...|+-.|++.|+++||.++++.++.|...++.
T Consensus        18 Kaal~~~V~rI~~~~g~~-~~~~vs~~~i~aL~E~~~~~~~~ia~Da~~fA~HAgRkTI~~eDV~La~Rrn~~l~~~l~~   96 (107)
T 3b0b_B           18 RAAVHYTTGCLCQDVAED-KGVLFSKQTVAAISEITFRQCENFARDLEMFARHAKRSTITSEDVKLLARRSNSLLKYITQ   96 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHH-HTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhh-cCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcCcCCHHHHHHHHHhCHHHHHHHHH
Confidence            566778887776533221 1248899999989988888888898888889999999999999999999999999877653

>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=96.83  E-value=0.0031  Score=43.77  Aligned_cols=64  Identities=23%  Similarity=0.334  Sum_probs=54.0

Q ss_pred             ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcC-CcccchhhHHHHhh
Q 032326           31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNK-KNRINPRHVLLAVR   95 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~-~krItP~hI~~AI~   95 (143)
                      .||=..|+|+++.- ....++....+.|+++--.|+.||+|.|.......+ ...|.|.||+.|.+
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            36667799998766 467899999999999999999999999998776654 56899999999875

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

Probab=96.62  E-value=0.0028  Score=47.54  Aligned_cols=79  Identities=16%  Similarity=0.182  Sum_probs=63.7

Q ss_pred             ccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhcC
Q 032326           27 KAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQG  106 (143)
Q Consensus        27 RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~~  106 (143)
                      ++.|+|-|++|=.=.-.. ....|+..+...|+-+++..+.+|..-+...|+..|++.|++.||.++++.++.|..++..
T Consensus        18 KaAl~y~VgkIvee~~~~-~~~~vS~~ai~aL~El~~~~~e~ia~DLe~FAkHAGRKTI~~eDVkLa~Rrn~~L~~~L~~   96 (140)
T 3vh5_A           18 RAAVHYTTGALAQDVAED-KGVLFSKQTVAAISEITFRQAENFARDLEMFARHAKRSTITSEDVKLLARRSNSLLKYITQ   96 (140)
T ss_dssp             HHHHHHHHHHHHHHHHHH-HTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHh-cCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHhCHHHHHHHHH
Confidence            566788888776533221 1236888888888888888888888888888999999999999999999999999998874

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

Probab=96.54  E-value=0.006  Score=41.81  Aligned_cols=65  Identities=15%  Similarity=0.065  Sum_probs=53.9

Q ss_pred             ccchhhHHHHHhccC------cccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           31 QFPVGRIARFLKKGR------YAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~------~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      -+|..=|.|++++-.      ...|++++|...|--+.|...-++.|-+..-|...++..|.|+||++|.+
T Consensus         3 LI~klPF~RLVREI~~~~~~~~~~R~q~~Al~aLQea~E~ylv~Lfeda~lcAiHAkRvTi~~kDiqLa~r   73 (82)
T 3nqj_A            3 LIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARR   73 (82)
T ss_dssp             SSCHHHHHHHHHHHHHHHHSSCCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             CcccccHHHHHHHHHHHhccCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcHHHHHHHHH
Confidence            345555666666543      35699999999999999999999999998888888999999999999865

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

Probab=96.43  E-value=0.0088  Score=40.51  Aligned_cols=66  Identities=20%  Similarity=0.185  Sum_probs=54.0

Q ss_pred             cccchhhHHHHHhcc----CcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           30 LQFPVGRIARFLKKG----RYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        30 L~FpVsri~r~Lr~~----~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      |-+|..=|.|++++-    ....|++++|...|--+.|...-++.|-+..-|...++..|.|+||++|.+
T Consensus         2 lli~k~PF~RLVRei~~~~~~~~R~q~~Al~aLQea~Eaylv~lfeda~l~A~HAkRvTi~~kDiqLa~r   71 (77)
T 2hue_B            2 ALIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKRVTIMPKDIQLARR   71 (77)
T ss_dssp             CCSCHHHHHHHHHHHHHTTCSSCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             CccccchHHHHHHHHHHHcCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcHhhHHHHHH
Confidence            345555566666544    224699999999999999999999999998888889999999999999975

>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=96.37  E-value=0.0073  Score=46.90  Aligned_cols=61  Identities=21%  Similarity=0.231  Sum_probs=54.3

Q ss_pred             hhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           35 GRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        35 sri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      ..|++.|+...-...|+..|..+|...++.++..|...|...+..++++.||+++|+.|++
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            3689999988655689999999999999999999999998888889999999999999996

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

Probab=96.34  E-value=0.0069  Score=45.35  Aligned_cols=69  Identities=16%  Similarity=0.077  Sum_probs=58.7

Q ss_pred             ccccccchhhHHHHHhccC------cccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           27 KAGLQFPVGRIARFLKKGR------YAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        27 RagL~FpVsri~r~Lr~~~------~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      -.+|.+|..-|.|++++-.      ...|+..+|...|--+.|.++.+++|-+..-|...++..|+|+||++|.+
T Consensus        57 st~LLIpKlPF~RLVREI~~~~~~~~~~Rfq~~Al~ALQEAaEayLv~LFEdanlcAiHAkRVTIm~kDiqLArr  131 (140)
T 3nqu_A           57 STHLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARR  131 (140)
T ss_dssp             --CCCSCTTHHHHHHHHHHHHHHTTCCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             ccccccccccHHHHHHHHHHHhcccccceecHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccccHHHHHHHHH
Confidence            3567788888888887654      35699999999999999999999999998888888999999999999975

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

Probab=96.33  E-value=0.0052  Score=46.77  Aligned_cols=70  Identities=16%  Similarity=0.063  Sum_probs=59.3

Q ss_pred             ccccccchhhHHHHHhccC------cccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326           27 KAGLQFPVGRIARFLKKGR------YAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN   96 (143)
Q Consensus        27 RagL~FpVsri~r~Lr~~~------~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n   96 (143)
                      -.+|.+|..-|.|++++-.      ...|+..+|...|--+.|.++.+|+|-|...|.-.++..|+|+||++|.+=
T Consensus        73 SteLLIpKlPF~RLVREIa~~~~~~~~lRfqs~Al~ALQEAaEayLV~LFEdanLcAiHAkRVTIm~kDIqLArrI  148 (156)
T 3r45_A           73 STHLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARRI  148 (156)
T ss_dssp             --CCCSCHHHHHHHHHHHHHTTTTTCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSEECHHHHHHHHHH
T ss_pred             ccccccccccHHHHHHHHHHHhccCccceecHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccccHHHHHHHHHH
Confidence            3567888888888888644      246999999999999999999999999988888889999999999999763

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

Probab=96.08  E-value=0.011  Score=41.74  Aligned_cols=70  Identities=23%  Similarity=0.131  Sum_probs=55.7

Q ss_pred             cccccccchhhHHHHHhccCc-------ccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           26 VKAGLQFPVGRIARFLKKGRY-------AQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        26 ~RagL~FpVsri~r~Lr~~~~-------~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      .-.+|-+|..-|.|++++-..       ..|++++|...|--+.|..+-+++|-+..-|...++..|.|+||++|.+
T Consensus        22 kst~llIpk~PF~RLVREI~~~~~~~~~~~R~q~~Al~ALQeaaEayLv~Lfeda~l~A~HAkRvTi~~kDiqLa~r   98 (100)
T 2yfv_A           22 RSTDLLISRMPFARLVKEVTDQFTTESEPLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKRITIMRKDMQLARR   98 (100)
T ss_dssp             ------CCHHHHHHHHHHHHHTTC-----CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             ccchhhhccccHHHHHHHHHHHhccccchhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCHHHHHHHHH
Confidence            335788888888888776541       4699999999999999999999999998888889999999999999864

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

Probab=96.02  E-value=0.016  Score=43.18  Aligned_cols=68  Identities=21%  Similarity=0.184  Sum_probs=58.3

Q ss_pred             cccccchhhHHHHHhccC----cccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           28 AGLQFPVGRIARFLKKGR----YAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        28 agL~FpVsri~r~Lr~~~----~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      .+|.+|..-|.|++++-.    ...|+.++|...|--+.|..+-+++|-+..-|...++..|.|+||++|.+
T Consensus        59 t~lLIpk~PF~RLVREI~~~~~~~~R~q~~Al~aLQeaaEayLv~Lfeda~l~A~HAkRvTi~~kDiqLa~r  130 (136)
T 1tzy_C           59 TELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR  130 (136)
T ss_dssp             CSCCSCHHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             hhhhhccchHHHHHHHHHHHhhhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcHHhHHHHHH
Confidence            466788888888877651    23699999999999999999999999998888888999999999999975

>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=95.98  E-value=0.02  Score=39.10  Aligned_cols=65  Identities=20%  Similarity=0.239  Sum_probs=56.1

Q ss_pred             ccccchhhHHHHHhccCc--ccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHH
Q 032326           29 GLQFPVGRIARFLKKGRY--AQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLA   93 (143)
Q Consensus        29 gL~FpVsri~r~Lr~~~~--~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~A   93 (143)
                      .-.||..-|.++|+..--  .-||+.+|...++..|+.|+.|.+.+|..+|...+...|..+||+..
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            457999999999997422  23999999999999999999999999999998888889999999874

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

Probab=95.96  E-value=0.028  Score=38.65  Aligned_cols=66  Identities=17%  Similarity=0.168  Sum_probs=55.9

Q ss_pred             cccccchhhHHHHHhccCc--ccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHH
Q 032326           28 AGLQFPVGRIARFLKKGRY--AQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLA   93 (143)
Q Consensus        28 agL~FpVsri~r~Lr~~~~--~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~A   93 (143)
                      ++..||..-|.|+|+..--  .-||+.+|...++..|+.|+.|.+-+|...|...+...|..+||+..
T Consensus         9 ~~~~i~~~li~ril~~~F~~~kTkIs~dAl~l~aeyl~iFV~EAv~RA~~~a~~e~~~~le~e~LEki   76 (84)
T 4dra_E            9 AGSGFRKELVSRLLHLHFKDDKTKVSGDALQLMVELLKVFVVEAAVRGVRQAQAEDALRVDVDQLEKV   76 (84)
T ss_dssp             --CCCCHHHHHHHHHTTCSSTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHhcCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHH
Confidence            4667999999999994432  23999999999999999999999999999888878888999999874

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

Probab=95.65  E-value=0.035  Score=40.56  Aligned_cols=50  Identities=16%  Similarity=0.195  Sum_probs=47.0

Q ss_pred             ccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326           47 AQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN   96 (143)
Q Consensus        47 ~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n   96 (143)
                      ..|||.++-.-+..+||.+..+|+.-|...+...+++.|+..||.+|++.
T Consensus        62 vkRIS~~iy~e~r~vl~~~l~~i~rdav~yaehA~RKTVta~DV~~Alkr  111 (121)
T 2ly8_A           62 SKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALKR  111 (121)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCBCHHHHHHHHHH
T ss_pred             ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHh
Confidence            46999999999999999999999999999999999999999999999863

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

Probab=94.97  E-value=0.035  Score=44.71  Aligned_cols=60  Identities=17%  Similarity=0.145  Sum_probs=53.8

Q ss_pred             HHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326           37 IARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRND   97 (143)
Q Consensus        37 i~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD   97 (143)
                      +.|+.+.+. +.|||..+-.-+..+||.+..+|+.-|...|...+++.|++.||.+|+..-
T Consensus       167 ~~RlaRrgG-VkRIS~~iyeelr~vLe~fle~IirdAv~yaeHA~RKTVta~DV~~ALKr~  226 (235)
T 2l5a_A          167 DEEDGDKGG-VKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALKRQ  226 (235)
T ss_dssp             CCTTSCCTT-CCTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHH
T ss_pred             HHHHhhcCC-chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHhc
Confidence            447777775 489999999999999999999999999999999999999999999998743

>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=90.08  E-value=0.37  Score=33.90  Aligned_cols=40  Identities=23%  Similarity=0.306  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326           66 AAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQ  105 (143)
Q Consensus        66 ~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~  105 (143)
                      +.++|+.|-+.|...+...|+|+||-+++-.|++...+++
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            4678999999999999999999999999998887766665

>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=88.33  E-value=1.9  Score=28.76  Aligned_cols=66  Identities=11%  Similarity=0.200  Sum_probs=57.7

Q ss_pred             ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326           31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN   96 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n   96 (143)
                      .++-.++..++++-.-...+...+--.|.-+-+-|+..+++.|...|+..+...+.++|+++....
T Consensus         5 vl~k~~L~~Lv~~idp~~~ld~~vee~ll~lADdFV~~V~~~ac~lAKhR~s~~le~kDvql~Ler   70 (76)
T 1h3o_B            5 VLTKKKLQDLVREVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQLHLER   70 (76)
T ss_dssp             SSCHHHHHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHHH
T ss_pred             cccHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHh
Confidence            356678888888776667889999999999999999999999999999999999999999987654

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

Probab=86.41  E-value=0.8  Score=32.21  Aligned_cols=40  Identities=25%  Similarity=0.287  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHHHHhcCCcccchhhHHHHhhccH--HHHhhhc
Q 032326           66 AAEVLELAGNAARDNKKNRINPRHVLLAVRNDD--ELGKLLQ  105 (143)
Q Consensus        66 ~aEILElAgn~A~~~~~krItP~hI~~AI~nD~--EL~~L~~  105 (143)
                      +.++|+.|-..|...+...|+|+||-+++-.++  ....++.
T Consensus        10 ~~~~l~~A~~~A~~~~~~~i~~eHlLlaLl~~~~~~~~~iL~   51 (148)
T 1khy_A           10 FQLALADAQSLALGHDNQFIEPLHLMSALLNQEGGSVSPLLT   51 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCSSBCHHHHHHHHHTCTTCSHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCccCHHHHHHHHHcCCCchHHHHHH
Confidence            357899999999999999999999999998765  3344443

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

Probab=85.74  E-value=0.65  Score=32.82  Aligned_cols=40  Identities=38%  Similarity=0.456  Sum_probs=32.9

Q ss_pred             HHHHHHHHHHHHHhcCCcccchhhHHHHhhccHH--HHhhhc
Q 032326           66 AAEVLELAGNAARDNKKNRINPRHVLLAVRNDDE--LGKLLQ  105 (143)
Q Consensus        66 ~aEILElAgn~A~~~~~krItP~hI~~AI~nD~E--L~~L~~  105 (143)
                      +.++|+.|-+.|...+...|+|+||-+++-.+++  ...++.
T Consensus        10 ~~~al~~A~~~A~~~~h~~i~~eHlLlaLl~~~~~~~~~iL~   51 (150)
T 2y1q_A           10 AQKVLALAQEEALRLGHNNIGTEHILLGLVREGEGIAAKALQ   51 (150)
T ss_dssp             HHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHCSSHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCCccHHHHHHHHHhCCCCHHHHHHH
Confidence            3578999999999999999999999999976654  455554

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

Probab=85.58  E-value=0.56  Score=33.50  Aligned_cols=40  Identities=25%  Similarity=0.405  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHHHhcCCcccchhhHHHHhhccH--HHHhhhc
Q 032326           66 AAEVLELAGNAARDNKKNRINPRHVLLAVRNDD--ELGKLLQ  105 (143)
Q Consensus        66 ~aEILElAgn~A~~~~~krItP~hI~~AI~nD~--EL~~L~~  105 (143)
                      +.++|+.|.+.|...+...|+|+||-+|+-.++  ....++.
T Consensus        12 a~~~l~~A~~~A~~~~~~~i~~eHLLlaLl~~~~~~~~~iL~   53 (145)
T 3fes_A           12 AKKAIDLAFESAKSLGHNIVGSEHILLGLLREEEGIAAKVLS   53 (145)
T ss_dssp             HHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHCSSHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCCccHHHHHHHHHhCCCChHHHHHH
Confidence            367899999999999999999999999998764  3455554

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

Probab=84.97  E-value=0.99  Score=32.12  Aligned_cols=40  Identities=33%  Similarity=0.404  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHHHhcCCcccchhhHHHHhhcc--HHHHhhhc
Q 032326           66 AAEVLELAGNAARDNKKNRINPRHVLLAVRND--DELGKLLQ  105 (143)
Q Consensus        66 ~aEILElAgn~A~~~~~krItP~hI~~AI~nD--~EL~~L~~  105 (143)
                      +.++|+.|.+.|...+...|+|+||-+|+-.|  .....++.
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            36789999999999999999999999999865  44555654

>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=83.79  E-value=2.6  Score=31.58  Aligned_cols=61  Identities=13%  Similarity=0.177  Sum_probs=51.9

Q ss_pred             ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHH
Q 032326           31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLL   92 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~   92 (143)
                      .+++.+++++++.. ..--|..+-.-=+..++|--+.++|+.|-..|+.|++--|.|.||-+
T Consensus         2 vm~~~~~e~lFR~a-a~LdvdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~n~RdvI~~~DLPI   62 (148)
T 1wwi_A            2 LMKVAEFERLFRQA-AGLDVDKNDLKRVSDFLRNKLYDLLAVAERNAKYNGRDLIFEPDLPI   62 (148)
T ss_dssp             CSCHHHHHHHHHHH-HCCCCCGGGHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECGGGSCC
T ss_pred             cCCHHHHHHHHHHH-hccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeeccccCCc
Confidence            47889999999987 34577777777788889999999999999999999999999999743

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

Probab=81.97  E-value=1.2  Score=31.64  Aligned_cols=40  Identities=38%  Similarity=0.566  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHHHHhcCCcccchhhHHHHhhccHH--HHhhhc
Q 032326           66 AAEVLELAGNAARDNKKNRINPRHVLLAVRNDDE--LGKLLQ  105 (143)
Q Consensus        66 ~aEILElAgn~A~~~~~krItP~hI~~AI~nD~E--L~~L~~  105 (143)
                      +.++|+.|...|...+...|+++||-+|+-.|.+  ...+|+
T Consensus        86 ~~~vl~~A~~~A~~~~~~~v~~eHlLlAll~~~~~~a~~iL~  127 (145)
T 3fes_A           86 SKQILELSGMFANKLKTNYIGTEHILLAIIQEGEGIANKILN  127 (145)
T ss_dssp             HHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCCCcHHHHHHH
Confidence            3567899999999999999999999999986653  555554

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

Probab=81.36  E-value=1.7  Score=30.90  Aligned_cols=39  Identities=21%  Similarity=0.250  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHHHhcCCcccchhhHHHHhhccH--HHHhhhc
Q 032326           67 AEVLELAGNAARDNKKNRINPRHVLLAVRNDD--ELGKLLQ  105 (143)
Q Consensus        67 aEILElAgn~A~~~~~krItP~hI~~AI~nD~--EL~~L~~  105 (143)
                      .++|+.|...|...+...|+++||-+|+-.|+  ....+|+
T Consensus        87 ~~vL~~A~~~a~~~~~~~i~~eHlLlall~~~~~~a~~iL~  127 (146)
T 3fh2_A           87 KKVLELSLREGLQMGHKYIGTEFLLLGLIREGEGVAAQVLV  127 (146)
T ss_dssp             HHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHCSSHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCcCcHHHHHHHHHhCCCcHHHHHHH
Confidence            57889999999999999999999999998654  4556665

>3zri_A CLPB protein, CLPV; chaperone, HSP100 proteins, AAA+ proteins, T6SS, secretion,; 1.80A {Vibrio cholerae} PDB: 3zrj_A

Probab=81.15  E-value=1.4  Score=33.00  Aligned_cols=49  Identities=14%  Similarity=0.234  Sum_probs=38.3

Q ss_pred             HHHHHHHHHH---HHHHHHHHHHHHhcCCcccchhhHHHHhhccH--HHHhhhc
Q 032326           57 YMAAVLEYLA---AEVLELAGNAARDNKKNRINPRHVLLAVRNDD--ELGKLLQ  105 (143)
Q Consensus        57 yLaAvLEYL~---aEILElAgn~A~~~~~krItP~hI~~AI~nD~--EL~~L~~  105 (143)
                      .+..+++-|+   .++|+.|.+.|...+...|+|+||-+|+-.|+  ....++.
T Consensus        17 ~l~~~~~kfT~~a~~aL~~A~~~A~~~~h~~I~~EHLLlaLL~~~~~~a~~iL~   70 (171)
T 3zri_A           17 ELPTLIAKLNAQSKLALEQAASLCIERQHPEVTLEHYLDVLLDNPLSDVRLVLK   70 (171)
T ss_dssp             CHHHHHHHBCHHHHHHHHHHHHHHHHHTCSEECHHHHHHHHTTCTTSHHHHHHH
T ss_pred             hHHHHHHHcCHHHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHccCcHHHHHHH
Confidence            3566666654   46899999999999999999999999998764  3555554

---

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	143
d1u35c1	106	a.22.1.1 (C:814-919) macro-H2A.1, histone domain {	1e-56
d1tzya_	106	a.22.1.1 (A:) Histone H2A {Chicken (Gallus gallus)	1e-55
d1f66c_	103	a.22.1.1 (C:) Histone H2A {Human (Homo sapiens), v	6e-47
d1q9ca_	172	a.22.1.3 (A:) Histone domain of Son of sevenless p	1e-37
d1jfia_	66	a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chai	3e-22
d1n1jb_	78	a.22.1.3 (B:) Nuclear transcription factor Y subun	2e-21
d1f1ea_	151	a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy	1e-12
d1f1ea_	151	a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy	5e-10
d1htaa_	68	a.22.1.2 (A:) Archaeal histone {Archaeon Methanoth	3e-06
d1ku5a_	66	a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococc	1e-05
d1jfib_	135	a.22.1.3 (B:) Negative cofactor 2, NC2, beta chain	3e-05

>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 =  169 bits (431), Expect = 1e-56
 Identities = 75/106 (70%), Positives = 89/106 (83%)

Query: 21  KISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDN 80
           K S+S KAG+ FPVGR+ R++KKG    R+G GAP+YMAAVLEYL AE+LELA NAARDN
Sbjct: 1   KTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELAVNAARDN 60

Query: 81  KKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKK 126
           KK R+ PRH+LLAV ND+EL +LL+GVTIASGGVLPNI+P LL KK
Sbjct: 61  KKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPELLAKK 106

>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 =  167 bits (424), Expect = 1e-55
 Identities = 77/106 (72%), Positives = 90/106 (84%)

Query: 20  KKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARD 79
           K  S+S +AGLQFPVGR+ R L+KG YA+R+G+GAP+Y+AAVLEYL AE+LELAGNAARD
Sbjct: 1   KAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARD 60

Query: 80  NKKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPK 125
           NKK RI PRH+ LA+RND+EL KLL  VTIA GGVLPNI  VLLPK
Sbjct: 61  NKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPK 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 =  145 bits (367), Expect = 6e-47
 Identities = 57/103 (55%), Positives = 74/103 (71%), Gaps = 2/103 (1%)

Query: 22  ISKSVKAGLQFPVGRIARFLKKGRYAQRM-GSGAPIYMAAVLEYLAAEVLELAGNAARDN 80
           +S+S +AGLQFPVGRI R LK    +    G+ A +Y AA+LEYL AEVLELAGNA++D 
Sbjct: 2   VSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDL 61

Query: 81  KKNRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLL 123
           K  RI PRH+ LA+R D+EL  L+   TIA GGV+P+I+  L+
Sbjct: 62  KVKRITPRHLQLAIRGDEELDSLI-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 =  124 bits (312), Expect = 1e-37
 Identities = 23/88 (26%), Positives = 44/88 (50%), Gaps = 1/88 (1%)

Query: 17  GERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNA 76
            +     +  +  L  PV +I   LK+     ++     +Y+ AVLEY++A++L+LAGN 
Sbjct: 85  AQSAIEKRKRRNPLSLPVEKIHPLLKEV-LGYKIDHQVSVYIVAVLEYISADILKLAGNY 143

Query: 77  ARDNKKNRINPRHVLLAVRNDDELGKLL 104
            R+ +   I  + + +A+  D  L  + 
Sbjct: 144 VRNIRHYEITKQDIKVAMCADKVLMDMF 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 = 81.3 bits (201), Expect = 3e-22
 Identities = 10/64 (15%), Positives = 26/64 (40%)

Query: 31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHV 90
          +FP  RI + ++      ++ +  P+ ++  LE     +L+ A    +      +   H+
Sbjct: 2  RFPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHL 61

Query: 91 LLAV 94
             +
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 = 79.9 bits (197), Expect = 2e-21
 Identities = 16/75 (21%), Positives = 32/75 (42%)

Query: 33  PVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLL 92
           P+ RI + +K     + + + AP+  A   +    E+   A     DNK+  +    + +
Sbjct: 2   PLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAM 61

Query: 93  AVRNDDELGKLLQGV 107
           A+   D+   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 = 59.0 bits (143), Expect = 1e-12
 Identities = 14/70 (20%), Positives = 25/70 (35%), Gaps = 1/70 (1%)

Query: 27  KAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRIN 86
             G  F    + R LK+    +R  S A      ++     E+ E A   A ++ +  + 
Sbjct: 75  YDGELFGRATVRRILKRAG-IERASSDAVDLYNKLICRATEELGEKAAEYADEDGRKTVQ 133

Query: 87  PRHVLLAVRN 96
              V  A+  
Sbjct: 134 GEDVEKAITY 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 = 52.1 bits (125), Expect = 5e-10
 Identities = 11/65 (16%), Positives = 23/65 (35%)

Query: 31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHV 90
          + P   I R  ++G   +R+   A   +   +  +A  V   A +    + K  +   H+
Sbjct: 1  ELPKAAIERIFRQGIGERRLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHL 60

Query: 91 LLAVR 95
               
Sbjct: 61 KALAD 65

>d1htaa_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanothermus fervidus, histone A [TaxId: 2180]} Length = 68

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

 Score = 40.1 bits (94), Expect = 3e-06
 Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 1/65 (1%)

Query: 31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHV 90
          + P+  I R +K    A+R+   A I +A VLE +  E+   A   A+   +  I    +
Sbjct: 3  ELPIAPIGRIIKNA-GAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDI 61

Query: 91 LLAVR 95
           LA +
Sbjct: 62 ELARK 66

>d1ku5a_ a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococcus horikoshii) [TaxId: 53953]} Length = 66

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

 Score = 38.6 bits (90), Expect = 1e-05
 Identities = 16/66 (24%), Positives = 32/66 (48%), Gaps = 1/66 (1%)

Query: 31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHV 90
          + P+  + R ++K   A+R+   A   +A  LE  A E+ + A   AR   +  +    +
Sbjct: 2  ELPIAPVDRLIRKA-GAERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDI 60

Query: 91 LLAVRN 96
           LA+++
Sbjct: 61 KLAIKS 66

>d1jfib_ a.22.1.3 (B:) Negative cofactor 2, NC2, beta chain {Human (Homo sapiens) [TaxId: 9606]} Length = 135

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]

 Score = 39.1 bits (91), Expect = 3e-05
 Identities = 13/69 (18%), Positives = 26/69 (37%)

Query: 30 LQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRH 89
          L  P   I + +K+     R+ + A   +          +   A      ++K  I+P H
Sbjct: 3  LTIPRAAINKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEH 62

Query: 90 VLLAVRNDD 98
          V+ A+ +  
Sbjct: 63 VIQALESLG 71

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	143
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	99.65
d1n1jb_	78	Nuclear transcription factor Y subunit gamma (Nf-Y	99.54
d1f1ea_	151	Archaeal histone {Archaeon Methanopyrus kandleri [	99.21
d1ku5a_	66	Archaeal histone {Archaeon (Pyrococcus horikoshii)	98.91
d1htaa_	68	Archaeal histone {Archaeon Methanothermus fervidus	98.9
d1n1ja_	87	Nuclear transcription factor Y subunit beta (Nf-Yb	98.89
d1jfib_	135	Negative cofactor 2, NC2, beta chain {Human (Homo	98.62
d2byka1	72	Chrac-16 {Fruit fly (Drosophila melanogaster) [Tax	98.58
d1f1ea_	151	Archaeal histone {Archaeon Methanopyrus kandleri [	98.38
d2bykb1	89	Chrac-14 {Fruit fly (Drosophila melanogaster) [Tax	98.31
d2huec1	82	Histone H4 {African clawed frog (Xenopus laevis) [	97.58
d1bh9b_	89	TAF(II)28 {Human (Homo sapiens) [TaxId: 9606]}	96.81
d1tzyb_	92	Histone H2B {Chicken (Gallus gallus), erythrocytes	96.38
d1tafb_	70	TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta	94.56
d1tzyc_	95	Histone H3 {Chicken (Gallus gallus), erythrocytes	93.28
d1k6ka_	142	N-terminal, ClpS-binding domain of ClpA, an Hsp100	92.43
d1khya_	139	N-terminal domain of ClpB (heat shock protein F84.	89.55
d1qvra1	145	N-terminal domain of ClpB (heat shock protein F84.	88.45
d1tafa_	68	TAF(II)42 {Fruit fly (Drosophila melanogaster) [Ta	88.22
d1h3ob_	74	TAF(II)-20, (TAF(II)-15, hTAF12), histone fold dom	87.17
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	84.79
d1wwia1	148	Hypothetical protein TTHA1479 {Thermus thermophilu	83.83

>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=4.3e-48  Score=279.13  Aligned_cols=106  Identities=71%  Similarity=1.088  Sum_probs=103.8

Q ss_pred             ccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHH
Q 032326           21 KISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDEL  100 (143)
Q Consensus        21 ~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL  100 (143)
                      |.|||+||||||||+||+|+|++++|+.||+.+|||||+||||||++||||+|||+|++++++||+|+||++||+||+||
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            35899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCceecCCccCCCCCccCCCCC
Q 032326          101 GKLLQGVTIASGGVLPNINPVLLPKK  126 (143)
Q Consensus       101 ~~L~~~~~Ia~ggv~P~~~~~l~~~k  126 (143)
                      +.||+++||++|||+|+||++|++||
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            99999999999999999999999986

>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=7.6e-48  Score=277.82  Aligned_cols=104  Identities=73%  Similarity=1.149  Sum_probs=102.5

Q ss_pred             cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHH
Q 032326           22 ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELG  101 (143)
Q Consensus        22 ~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~  101 (143)
                      +|||+||||||||+||+|+|++++|+.||+.+|||||+||||||++||||||||+|++++++||||+||++||+||+||+
T Consensus         3 ~Srs~rAgL~FpV~rv~r~Lk~~~~~~rv~~~apVylaAVLEYLtaEiLELAgn~a~~~k~~rItPrhi~lAirnDeeL~   82 (106)
T d1tzya_           3 KSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRNDEELN   82 (106)
T ss_dssp             CCHHHHHTCSSCHHHHHHHHHHTTSSSEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHTSHHHH
T ss_pred             ccccccCCccCChHHHHHHHHcCccccccCCCchHHHHHHHHHHHHHHHHHhhHHHHhcCCceecchhhhhcccCHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcCceecCCccCCCCCccCCCC
Q 032326          102 KLLQGVTIASGGVLPNINPVLLPK  125 (143)
Q Consensus       102 ~L~~~~~Ia~ggv~P~~~~~l~~~  125 (143)
                      .||+++||++|||+|+||++|++|
T Consensus        83 ~L~~~vtI~~GGv~P~Ih~~Llpk  106 (106)
T d1tzya_          83 KLLGKVTIAQGGVLPNIQAVLLPK  106 (106)
T ss_dssp             HHTTTEEETTCCCCCCCCGGGSCC
T ss_pred             HHHcCCeecCCCccCccCHhhcCC
Confidence            999999999999999999999975

>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=1.8e-45  Score=264.28  Aligned_cols=101  Identities=57%  Similarity=0.928  Sum_probs=97.9

Q ss_pred             cccccccccccchhhHHHHHhccCccc-ccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHH
Q 032326           22 ISKSVKAGLQFPVGRIARFLKKGRYAQ-RMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDEL  100 (143)
Q Consensus        22 ~srs~RagL~FpVsri~r~Lr~~~~~~-rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL  100 (143)
                      .|||+||||||||+||+|||++++|++ ||+++|||||+||||||++||||+|+|+|+++++++|||+||++||+||+||
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            589999999999999999999999996 6999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCceecCCccCCCCCccCC
Q 032326          101 GKLLQGVTIASGGVLPNINPVLL  123 (143)
Q Consensus       101 ~~L~~~~~Ia~ggv~P~~~~~l~  123 (143)
                      |.||+ +||++|||+|+||++|+
T Consensus        82 ~~L~~-vti~~GGv~p~I~~~Ll  103 (103)
T d1f66c_          82 DSLIK-ATIAGGGVIPHIHKSLI  103 (103)
T ss_dssp             HHHCC-SEETTCCCCCCCCGGGC
T ss_pred             HHHhC-eEeeCCeecccccHhhC
Confidence            99995 99999999999999985

>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=8.2e-30  Score=196.52  Aligned_cols=83  Identities=28%  Similarity=0.500  Sum_probs=73.2

Q ss_pred             cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHH
Q 032326           22 ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELG  101 (143)
Q Consensus        22 ~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~  101 (143)
                      .|+|+|+||+|||++|+|+|+++ +++||+++|+|||+||||||++||||+|||+|+++++++|+|+||++||+||+||+
T Consensus        90 ~srs~ragL~fPV~rv~rlLk~~-~a~RVs~~A~vyLaavLEyl~aeILelAgn~a~~~krkrItp~dI~lAi~nD~eL~  168 (172)
T d1q9ca_          90 EKRKRRNPLSLPVEKIHPLLKEV-LGYKIDHQVSVYIVAVLEYISADILKLAGNYVRNIRHYEITKQDIKVAMCADKVLM  168 (172)
T ss_dssp             C--------CCCHHHHHHHHHHH-HSSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSBCCHHHHHHHHHTCHHHH
T ss_pred             hccccccCceecHHHHHHHHHhc-cccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCceecHHHHHHHHhCCHHHH
Confidence            79999999999999999999997 89999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhc
Q 032326          102 KLLQ  105 (143)
Q Consensus       102 ~L~~  105 (143)
                      .||.
T Consensus       169 ~Lf~  172 (172)
T d1q9ca_         169 DMFH  172 (172)
T ss_dssp             HHCC
T ss_pred             HhhC
Confidence            9984

>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=99.65  E-value=1.1e-16  Score=104.58  Aligned_cols=65  Identities=15%  Similarity=0.393  Sum_probs=59.8

Q ss_pred             ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      +||++||+++|+.+.+..+|+.+|+++++.++|||+.+|++.|++.|..+++++|+|+||..||.
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            69999999999999999999999999999999999999999999999999999999999998873

>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=99.54  E-value=1.3e-14  Score=97.03  Aligned_cols=74  Identities=20%  Similarity=0.357  Sum_probs=70.9

Q ss_pred             cchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326           32 FPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQ  105 (143)
Q Consensus        32 FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~  105 (143)
                      +|++||+|+|+.+....+|+.+|+++++.++|+|+.++.+.|++.|...+++.|+++||..||+++++|++|..
T Consensus         1 LP~srVkrImK~~~~~~~is~ea~~~i~~a~E~Fi~~l~~~A~~~a~~~~rkti~~~dl~~av~~~~~~~FL~d   74 (78)
T d1n1jb_           1 LPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAITKFDQFDFLID   74 (78)
T ss_dssp             CCHHHHHHHHTTSTTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTCGGGGGGTT
T ss_pred             CCHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHhcCChhHHHHH
Confidence            69999999999988889999999999999999999999999999999999999999999999999999988764

>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=99.21  E-value=9.8e-12  Score=92.33  Aligned_cols=72  Identities=19%  Similarity=0.165  Sum_probs=66.9

Q ss_pred             cccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326           24 KSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN   96 (143)
Q Consensus        24 rs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n   96 (143)
                      .+.+.++.||+++|+|+|++. ...||+.+|..+|+.++|||+.+|++.|.+.|...+++.|+|+||++||..
T Consensus        72 ~~~~~~~~fp~a~IkRi~k~~-g~~ris~dA~~~l~~~~E~fi~~l~~~A~~~a~~~kRkTI~~~DI~~Av~~  143 (151)
T d1f1ea_          72 VEDYDGELFGRATVRRILKRA-GIERASSDAVDLYNKLICRATEELGEKAAEYADEDGRKTVQGEDVEKAITY  143 (151)
T ss_dssp             STTCCSCCCCHHHHHHHHHHT-TCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             ccccccCccCHHHHHHHHHcC-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHH
Confidence            345789999999999999976 467999999999999999999999999999999999999999999999974

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

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

Probab=98.91  E-value=1.4e-09  Score=69.91  Aligned_cols=65  Identities=25%  Similarity=0.414  Sum_probs=61.3

Q ss_pred             ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326           31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN   96 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n   96 (143)
                      ++|.++|.|+|+.+. ..||+.++...+.-++|.|+.+|.+.|...|...+++.|+++||..|+.+
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            589999999999985 46999999999999999999999999999999999999999999999875

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

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

Probab=98.90  E-value=1.9e-09  Score=69.57  Aligned_cols=64  Identities=28%  Similarity=0.438  Sum_probs=60.2

Q ss_pred             ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      .+|.++|.|+++.+. ..||+.++...|+-++|+|+.+|.+.|...|...+++.|+++||..|+.
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            389999999999884 4699999999999999999999999999999999999999999999985

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

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

Probab=98.89  E-value=1.4e-09  Score=73.44  Aligned_cols=74  Identities=15%  Similarity=0.245  Sum_probs=66.9

Q ss_pred             cccchhhHHHHHhcc-CcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhh
Q 032326           30 LQFPVGRIARFLKKG-RYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKL  103 (143)
Q Consensus        30 L~FpVsri~r~Lr~~-~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L  103 (143)
                      |.||.++|.|+|++. ....+|+.+|...++.+.|.|+.+|.+.|.+.|...+++.|+|+||..|+.+.+-++++
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            579999999999964 56679999999999999999999999999999999999999999999999988755443

>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=98.62  E-value=2.8e-08  Score=72.10  Aligned_cols=71  Identities=18%  Similarity=0.230  Sum_probs=65.9

Q ss_pred             ccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHH
Q 032326           29 GLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDE   99 (143)
Q Consensus        29 gL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~E   99 (143)
                      .|.||.++|.++|+..-...+|+.+|+..|+.+.|.|+.+|...|...|...+++.|++.||..|+.+-+-
T Consensus         2 dl~LP~a~I~kI~K~~~~~~~is~dA~~~i~~a~~~Fi~~lt~~A~~~a~~~~RkTi~~~Dv~~Al~~~~f   72 (135)
T d1jfib_           2 DLTIPRAAINKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALESLGF   72 (135)
T ss_dssp             CCCCCHHHHHHHHHHHSTTCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHTT
T ss_pred             cccccHHHHHHHHhhCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCc
Confidence            37899999999999987777999999999999999999999999999999999999999999999996443

>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=98.58  E-value=3.5e-08  Score=64.64  Aligned_cols=65  Identities=15%  Similarity=0.133  Sum_probs=57.9

Q ss_pred             HhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHh-cCCcccchhhHHHHhhccHHHHhhhc
Q 032326           41 LKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARD-NKKNRINPRHVLLAVRNDDELGKLLQ  105 (143)
Q Consensus        41 Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~-~~~krItP~hI~~AI~nD~EL~~L~~  105 (143)
                      ||.+.....|++.|++.++.++|.|+.++.+.|.+.+.. ++++.|++.||..||.+++.|++|-.
T Consensus         1 Mk~d~dv~~is~ea~~lvskAtElFi~~L~~~a~~~a~~~~~~ktl~~~dl~~aV~~~~~f~FL~d   66 (72)
T d2byka1           1 MKSSMDTGLITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPGEALKYEHLSQVVNKNKNLEFLLQ   66 (72)
T ss_dssp             CCSSSSCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCEECHHHHHHHHHTCSTTGGGTT
T ss_pred             CCCCHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCccccHHHHHHHHccCchhhHHHH
Confidence            567778889999999999999999999999999887755 45578999999999999999998874

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

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

Probab=98.38  E-value=2.9e-07  Score=67.60  Aligned_cols=65  Identities=17%  Similarity=0.222  Sum_probs=61.4

Q ss_pred             ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      .||.+.|.|+|++.....||+.+|...|..+++++..+|-..|.+.|...+++.|+|+||+.+++
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            48999999999987667899999999999999999999999999999999999999999999985

>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=98.31  E-value=5.1e-07  Score=60.78  Aligned_cols=65  Identities=17%  Similarity=0.177  Sum_probs=59.8

Q ss_pred             chhhHHHHHhc-cCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326           33 PVGRIARFLKK-GRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRND   97 (143)
Q Consensus        33 pVsri~r~Lr~-~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD   97 (143)
                      |.++|.|+|++ .....+|+.+|...++.+.|.|+.+|.+.|...|..++++.|+++||..|+.+-
T Consensus         1 P~a~i~ri~K~~~p~~~~iskeA~~~i~~aae~FI~~lt~~A~~~a~~~~rKtI~~~dv~~Al~~~   66 (89)
T d2bykb1           1 PNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLTEL   66 (89)
T ss_dssp             CCSHHHHHHHHHSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHT
T ss_pred             CccHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHHC
Confidence            78999999985 345679999999999999999999999999999999999999999999999854

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

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

Probab=97.58  E-value=0.00013  Score=48.19  Aligned_cols=65  Identities=17%  Similarity=0.233  Sum_probs=58.9

Q ss_pred             cchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326           32 FPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRND   97 (143)
Q Consensus        32 FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD   97 (143)
                      +|=.-|.|+++... ..||+.++..-|..++||++.+|+.-|...+...+++.|+++||.+|++..
T Consensus        10 I~k~~i~Riar~~G-v~ris~d~~~~l~~~l~~~l~~i~~~a~~~~~hakRKTvt~~DV~~Alkr~   74 (82)
T d2huec1          10 ITKPAIRRLARRGG-VKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQ   74 (82)
T ss_dssp             SCHHHHHHHHHHTT-CCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTT
T ss_pred             cCHHHHHHHHHHcC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHhc
Confidence            45566999999885 479999999999999999999999999999999999999999999999854

>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=96.81  E-value=0.0015  Score=43.83  Aligned_cols=63  Identities=24%  Similarity=0.340  Sum_probs=55.6

Q ss_pred             cchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcC-CcccchhhHHHHhh
Q 032326           32 FPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNK-KNRINPRHVLLAVR   95 (143)
Q Consensus        32 FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~-~krItP~hI~~AI~   95 (143)
                      ||=+.|+++|+.- .+..|+....+.++++---|+.||+|.|.+...+.+ ...|.|.||+.|.+
T Consensus        17 ~~K~~vkrl~~~~-~g~sv~~~v~i~v~giaKvFvGEiVE~A~~V~~~~~e~~PL~P~HireA~r   80 (89)
T d1bh9b_          17 FPKAAIKRLIQSI-TGTSVSQNVVIAMSGISKVFVGEVVEEALDVCEKWGEMPPLQPKHMREAVR   80 (89)
T ss_dssp             CCHHHHHHHHHHH-HSSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSSCCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH-cCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCcHHHHHHHH
Confidence            8888999999987 577999999999999999999999999988766544 45799999999976

>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=96.38  E-value=0.0036  Score=42.14  Aligned_cols=60  Identities=23%  Similarity=0.223  Sum_probs=55.5

Q ss_pred             hHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           36 RIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        36 ri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      .|++.|++-.-...|+..|.-.|-..+..+...|..-|...|+-+++..|+.++|+.|++
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            588999988777789999999999999999999999999999999999999999999997

>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=94.56  E-value=0.086  Score=33.48  Aligned_cols=66  Identities=9%  Similarity=0.144  Sum_probs=57.9

Q ss_pred             ccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           29 GLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        29 gL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      +-.||..-|+-+-..-.. ..++.++.-.|+-=+||=+.||++-|.+.-+..+++++|.+||+.|.+
T Consensus         4 ~S~~~~esik~iAeS~Gi-~~l~de~a~~LA~DveYRl~eiiQeA~KFMrhskR~~Ltt~Did~ALk   69 (70)
T d1tafb_           4 GSSISAESMKVIAESIGV-GSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLK   69 (70)
T ss_dssp             SCCCCHHHHHHHHHHTTC-CCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred             cccCCHHHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcCcHHHHHHHHc
Confidence            456888888887766643 478999999999999999999999999999999999999999999864

>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=93.28  E-value=0.094  Score=34.98  Aligned_cols=69  Identities=20%  Similarity=0.198  Sum_probs=57.4

Q ss_pred             ccccccchhhHHHHHhcc----CcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326           27 KAGLQFPVGRIARFLKKG----RYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR   95 (143)
Q Consensus        27 RagL~FpVsri~r~Lr~~----~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~   95 (143)
                      -..|-+|-.-|.|++++-    ....|+..+|...|=-+.|..+-+++|-|...|...++..|+|+|+++|-+
T Consensus        17 st~lLIpk~pF~RLVRei~~~~~~~~r~~~~Al~aLQea~E~yLv~lfeda~~~a~HakRvTl~~kD~~Larr   89 (95)
T d1tzyc_          17 STELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR   89 (95)
T ss_dssp             CCSCCSCHHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             CcccccccccHHHHHHHHHHhcCCCCEeeHHHHHHHHHHHHHHHHHHHHHhHHHHHhcCCCcCCHHHHHHHHH
Confidence            346778887788876643    223489999999999999999999999998889888999999999999854

>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=92.43  E-value=0.076  Score=35.76  Aligned_cols=40  Identities=23%  Similarity=0.306  Sum_probs=34.6

Q ss_pred             HHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326           66 AAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQ  105 (143)
Q Consensus        66 ~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~  105 (143)
                      +.++|..|.+.|...+...|+|+||-+|+-+|++...++.
T Consensus         6 l~~~l~~A~~~A~~~~h~~i~~EHLL~aLl~~~~~~~~l~   45 (142)
T d1k6ka_           6 LELSLNMAFARAREHRHEFMTVEHLLLALLSNPSAREALE   45 (142)
T ss_dssp             HHHHHHHHHHHHHHHTBSEECHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhchhHHHHHH
Confidence            3567899999999999999999999999999988765553

>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=89.55  E-value=0.18  Score=33.57  Aligned_cols=40  Identities=25%  Similarity=0.278  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHHHHhcCCcccchhhHHHHhhccHH--HHhhhc
Q 032326           66 AAEVLELAGNAARDNKKNRINPRHVLLAVRNDDE--LGKLLQ  105 (143)
Q Consensus        66 ~aEILElAgn~A~~~~~krItP~hI~~AI~nD~E--L~~L~~  105 (143)
                      +.++|..|-..|...+...|+|+||-+|+-+|++  +..++.
T Consensus         7 ~~~~l~~A~~~A~~~~h~~v~~eHlL~all~~~~~~~~~iL~   48 (139)
T d1khya_           7 FQLALADAQSLALGHDNQFIEPLHLMSALLNQEGGSVSPLLT   48 (139)
T ss_dssp             HHHHHHHHHHHHHHTTCSSBCHHHHHHHHHTCTTCSHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCcccHHHHHHH
Confidence            4678999999999999999999999999987664  445554

>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=88.45  E-value=0.23  Score=34.16  Aligned_cols=41  Identities=27%  Similarity=0.282  Sum_probs=35.4

Q ss_pred             HHHHHHHHHHHHHhcCCcccchhhHHHHhhccHH--HHhhhcC
Q 032326           66 AAEVLELAGNAARDNKKNRINPRHVLLAVRNDDE--LGKLLQG  106 (143)
Q Consensus        66 ~aEILElAgn~A~~~~~krItP~hI~~AI~nD~E--L~~L~~~  106 (143)
                      +.++|+.|-+.|...+...|+|.||-+|+-+|++  +..++..
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            4689999999999999999999999999987765  6777764

>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=88.22  E-value=1.3  Score=27.60  Aligned_cols=56  Identities=25%  Similarity=0.277  Sum_probs=43.0

Q ss_pred             HHHHHhccCcccccCCChhHHHHHHHHHH---HHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326           37 IARFLKKGRYAQRMGSGAPIYMAAVLEYL---AAEVLELAGNAARDNKKNRINPRHVLLAVRN   96 (143)
Q Consensus        37 i~r~Lr~~~~~~rIs~~A~VyLaAvLEYL---~aEILElAgn~A~~~~~krItP~hI~~AI~n   96 (143)
                      |+-+|++..    |.+.-|-...-.||+.   +.+||+-|--.+...+++.|+..++++||..
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            566677663    5566666666667765   5678888888888889999999999999974

>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=87.17  E-value=0.86  Score=28.80  Aligned_cols=66  Identities=11%  Similarity=0.212  Sum_probs=56.3

Q ss_pred             cchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326           32 FPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRND   97 (143)
Q Consensus        32 FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD   97 (143)
                      +.=.+++.++++-.-...+..++--.|.-+.+-|+..+++.|...|+..+...+.+++|++....+
T Consensus         4 l~K~~L~eLv~~idp~~~ld~~vee~ll~iADdFV~~V~~~ac~lAKhR~s~~le~kDvql~LeR~   69 (74)
T d1h3ob_           4 LTKKKLQDLVREVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQLHLERQ   69 (74)
T ss_dssp             SCHHHHHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcHHHHHHHHHhh
Confidence            344567778887766668899999999999999999999999999999999999999999887643

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

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

Probab=84.79  E-value=0.7  Score=32.67  Aligned_cols=30  Identities=20%  Similarity=0.219  Sum_probs=25.7

Q ss_pred             HHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326           68 EVLELAGNAARDNKKNRINPRHVLLAVRND   97 (143)
Q Consensus        68 EILElAgn~A~~~~~krItP~hI~~AI~nD   97 (143)
                      ++|..|...|...+...|+++|++.||..|
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            577778888888888999999999999865

>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=83.83  E-value=1.2  Score=31.59  Aligned_cols=61  Identities=13%  Similarity=0.177  Sum_probs=52.0

Q ss_pred             ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHH
Q 032326           31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLL   92 (143)
Q Consensus        31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~   92 (143)
                      ..++++++++++.. ..--|..+-.-=+..+++-=+.++|..|-.-|+.|++--|.|.||-+
T Consensus         2 ~m~~~k~e~~FR~a-a~LdvdK~d~~r~~d~V~~Kl~DLllva~~~A~~n~RdvI~~~DLPI   62 (148)
T d1wwia1           2 LMKVAEFERLFRQA-AGLDVDKNDLKRVSDFLRNKLYDLLAVAERNAKYNGRDLIFEPDLPI   62 (148)
T ss_dssp             CSCHHHHHHHHHHH-HCCCCCGGGHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECGGGSCC
T ss_pred             CCcHHHHHHHHHHH-hccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeeccccCCc
Confidence            46899999999987 34567777777788889999999999999999999999999999753