Psyllid ID: psy12658

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60-------
Protein Sequence
MAFEKKAVHGLSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGIQRR
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccEEcccccccccEEcc
Secondary Structure Prediction (SSPRO)
ccHHHHHHcccccccccccccccccccHHHHHcccccHHHHHHHHHHcccccEEccHHEEEcccccc
Coil and Loop (DISEMBL)
MAFEKKAvhglstngkeqikakkapksrsqranlvfpvsrchRFLKKGRYAERiglgawsingiqrr
Flexible Loop (DISEMBL)
mafekkavhglstngkeqikakkapksrsqranlvfpvsrchrflkkgryaeriglgawsingiqrr
Low Complexity Region (SEG)
MAFEKKAVHGLSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGIQRR
Disordered region (IsUnstruct)
********************************NLVFPVSRCHRFLKKGRYAERIGLGAWSING****
Disordered Region (DISOPRED)
***********************************FPVSRCHRFLKKGRYAERIGLGAWSINGIQ**
Disordered Region (DISEMBL)
******************************RANLVFPVSRCHRFLKKGRYAERIGLGAWSINGIQRR
Disordered Region (DISPRO)
********************************NLVFPVSRCHRFLKKGRYAERIGLGAWSINGIQ**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAFEKKAVHGLSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGIQRR
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	67	2.2.26 [Sep-21-2011]
Q96QV6	131	Histone H2A type 1-A OS=H	yes	N/A	0.716	0.366	0.604	6e-08
Q64522	130	Histone H2A type 2-B OS=M	yes	N/A	0.716	0.369	0.583	7e-08
P0CC09	130	Histone H2A type 2-A OS=R	yes	N/A	0.716	0.369	0.583	8e-08
Q6GSS7	130	Histone H2A type 2-A OS=M	yes	N/A	0.716	0.369	0.583	8e-08
Q6FI13	130	Histone H2A type 2-A OS=H	no	N/A	0.716	0.369	0.583	8e-08
P0C169	130	Histone H2A type 1-C OS=R	yes	N/A	0.716	0.369	0.583	8e-08
Q93077	130	Histone H2A type 1-C OS=H	no	N/A	0.716	0.369	0.583	8e-08
P02262	130	Histone H2A type 1 OS=Rat	yes	N/A	0.716	0.369	0.583	8e-08
Q64523	129	Histone H2A type 2-C OS=M	yes	N/A	0.716	0.372	0.583	8e-08
Q16777	129	Histone H2A type 2-C OS=H	no	N/A	0.716	0.372	0.583	8e-08

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

 Score = 56.2 bits (134), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 29/48 (60%), Positives = 33/48 (68%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAERIG GA
Sbjct: 1  MSGRGKQGGKARAKSKSRSSRAGLQFPVGRIHRLLRKGNYAERIGAGA 48

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.
Homo sapiens (taxid: 9606)

>sp|Q64522|H2A2B_MOUSE Histone H2A type 2-B OS=Mus musculus GN=Hist2h2ab PE=1 SV=3

 Score = 55.8 bits (133), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

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.

Mus musculus (taxid: 10090)

>sp|P0CC09|H2A2A_RAT Histone H2A type 2-A OS=Rattus norvegicus GN=Hist2h2aa3 PE=1 SV=1

 Score = 55.8 bits (133), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

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.

Rattus norvegicus (taxid: 10116)

>sp|Q6GSS7|H2A2A_MOUSE Histone H2A type 2-A OS=Mus musculus GN=Hist2h2aa1 PE=1 SV=3

 Score = 55.8 bits (133), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

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.

Mus musculus (taxid: 10090)

>sp|Q6FI13|H2A2A_HUMAN Histone H2A type 2-A OS=Homo sapiens GN=HIST2H2AA3 PE=1 SV=3

 Score = 55.8 bits (133), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

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

Homo sapiens (taxid: 9606)

>sp|P0C169|H2A1C_RAT Histone H2A type 1-C OS=Rattus norvegicus PE=1 SV=2

 Score = 55.8 bits (133), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

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.

Rattus norvegicus (taxid: 10116)

>sp|Q93077|H2A1C_HUMAN Histone H2A type 1-C OS=Homo sapiens GN=HIST1H2AC PE=1 SV=3

 Score = 55.8 bits (133), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

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

Homo sapiens (taxid: 9606)

>sp|P02262|H2A1_RAT Histone H2A type 1 OS=Rattus norvegicus PE=1 SV=2

 Score = 55.8 bits (133), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

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.

Rattus norvegicus (taxid: 10116)

>sp|Q64523|H2A2C_MOUSE Histone H2A type 2-C OS=Mus musculus GN=Hist2h2ac PE=1 SV=3

 Score = 55.8 bits (133), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

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.

Mus musculus (taxid: 10090)

>sp|Q16777|H2A2C_HUMAN Histone H2A type 2-C OS=Homo sapiens GN=HIST2H2AC PE=1 SV=4

 Score = 55.8 bits (133), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

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

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	67
156547956	132	PREDICTED: late histone H2A.L3-like [Nas	0.716	0.363	0.625	7e-08
209737850	139	Late histone H2A.2.2 [Salmo salar]	0.716	0.345	0.583	1e-06
281346002	137	hypothetical protein PANDA_016839 [Ailur	0.731	0.357	0.571	2e-06
326935672	127	PREDICTED: histone H2A type 2-B-like [Me	0.716	0.377	0.583	2e-06
403302779	192	PREDICTED: histone H2A type 2-A-like [Sa	0.805	0.281	0.555	2e-06
32822897	391	Zgc:63676 [Danio rerio]	0.716	0.122	0.562	2e-06
510990	57	histone H2A [Homo sapiens]	0.716	0.842	0.583	2e-06
297663784	76	PREDICTED: histone H2A type 2-C-like, pa	0.716	0.631	0.583	2e-06
355732564	87	histone 2, H2ac [Mustela putorius furo]	0.716	0.551	0.583	2e-06
348544205	124	PREDICTED: histone H2A-like [Oreochromis	0.582	0.314	0.666	2e-06

>gi|156547956|ref|XP_001604939.1| PREDICTED: late histone H2A.L3-like [Nasonia vitripennis]

 Score = 61.2 bits (147), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 30/48 (62%), Positives = 35/48 (72%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S+ GK   KAK+ PKSRS RA L FPV R HR L+KGRYA +IG GA
Sbjct: 1  MSSRGKGSDKAKRKPKSRSNRAGLQFPVGRIHRLLRKGRYANQIGAGA 48

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|209737850|gb|ACI69794.1| Late histone H2A.2.2 [Salmo salar]

 Score = 57.0 bits (136), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 28/48 (58%), Positives = 31/48 (64%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+ +   K P SRS RA L FPV R HR LKKG YA RIG GA
Sbjct: 1  MSGRGKKAVSKSKTPTSRSVRAGLQFPVGRIHRLLKKGHYATRIGTGA 48

Source: Salmo salar

Species: Salmo salar

Genus: Salmo

Family: Salmonidae

Order: Salmoniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|281346002|gb|EFB21586.1| hypothetical protein PANDA_016839 [Ailuropoda melanoleuca]

 Score = 57.0 bits (136), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/49 (57%), Positives = 34/49 (69%)

Query: 10 GLSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          G+S  GK+  KA+   K+RS RA L FPV R HR L+KG YAER+G GA
Sbjct: 7  GMSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 55

Source: Ailuropoda melanoleuca

Species: Ailuropoda melanoleuca

Genus: Ailuropoda

Family: Ursidae

Order: Carnivora

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|326935672|ref|XP_003213892.1| PREDICTED: histone H2A type 2-B-like [Meleagris gallopavo]

 Score = 56.6 bits (135), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  MSGRGKQSGKARSKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

Source: Meleagris gallopavo

Species: Meleagris gallopavo

Genus: Meleagris

Family: Phasianidae

Order: Galliformes

Class: Aves

Phylum: Chordata

Superkingdom: Eukaryota

>gi|403302779|ref|XP_003942030.1| PREDICTED: histone H2A type 2-A-like [Saimiri boliviensis boliviensis]

 Score = 56.6 bits (135), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 30/54 (55%), Positives = 36/54 (66%)

Query: 5   KKAVHGLSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
           + AV  +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 57  RAAVAVMSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 110

Source: Saimiri boliviensis boliviensis

Species: Saimiri boliviensis

Genus: Saimiri

Family: Cebidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|32822897|gb|AAH55199.1| Zgc:63676 [Danio rerio]

 Score = 56.6 bits (135), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 27/48 (56%), Positives = 32/48 (66%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK   KA+   K+RS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  MSGRGKTGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

Source: Danio rerio

Species: Danio rerio

Genus: Danio

Family: Cyprinidae

Order: Cypriniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|510990|emb|CAA41050.1| histone H2A [Homo sapiens]

 Score = 56.6 bits (135), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

Source: Homo sapiens

Species: Homo sapiens

Genus: Homo

Family: Hominidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|297663784|ref|XP_002810351.1| PREDICTED: histone H2A type 2-C-like, partial [Pongo abelii]

 Score = 56.2 bits (134), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

Source: Pongo abelii

Species: Pongo abelii

Genus: Pongo

Family: Hominidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|355732564|gb|AES10744.1| histone 2, H2ac [Mustela putorius furo]

 Score = 56.2 bits (134), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 8  MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 55

Source: Mustela putorius furo

Species: Mustela putorius

Genus: Mustela

Family: Mustelidae

Order: Carnivora

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|348544205|ref|XP_003459572.1| PREDICTED: histone H2A-like [Oreochromis niloticus]

 Score = 56.2 bits (134), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 26/39 (66%), Positives = 29/39 (74%)

Query: 20 KAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          KAK  PK+RS RA L FPV R HR L+KG YAER+G GA
Sbjct: 9  KAKAKPKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 47

Source: Oreochromis niloticus

Species: Oreochromis niloticus

Genus: Oreochromis

Family: Cichlidae

Order: Perciformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

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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	67
UNIPROTKB|F1NCL1	134	LOC100858459 "Histone H2A" [Ga	0.791	0.395	0.547	5.2e-10
UNIPROTKB|F1NLT9	136	LOC100858459 "Histone H2A" [Ga	0.776	0.382	0.557	8.4e-10
UNIPROTKB|F1NDS3	134	LOC100858459 "Histone H2A" [Ga	0.776	0.388	0.557	1.4e-09
UNIPROTKB|Q96QV6	131	HIST1H2AA "Histone H2A type 1-	0.716	0.366	0.604	1.4e-09
UNIPROTKB|F1RTQ7	131	HIST1H2AA "Histone H2A" [Sus s	0.716	0.366	0.604	1.4e-09
UNIPROTKB|F1NDS4	93	LOC100858459 "Histone H2A" [Ga	0.716	0.516	0.583	1.8e-09
UNIPROTKB|P02263	129	P02263 "Histone H2A-IV" [Gallu	0.716	0.372	0.583	1.8e-09
UNIPROTKB|P35062	129	P35062 "Histone H2A-III" [Gall	0.716	0.372	0.583	1.8e-09
UNIPROTKB|Q788R3	102	LOC100858459 "Histone H2A" [Ga	0.716	0.470	0.583	1.8e-09
UNIPROTKB|Q788R4	63	LOC100858459 "Histone H2A" [Ga	0.716	0.761	0.583	1.8e-09

UNIPROTKB|F1NCL1 LOC100858459 "Histone H2A" [Gallus gallus (taxid:9031)]

 Score = 143 (55.4 bits), Expect = 5.2e-10, P = 5.2e-10
 Identities = 29/53 (54%), Positives = 36/53 (67%)

Query:     6 KAVHGLSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
             ++V  +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct:     1 RSVAAMSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 53

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0000786 "nucleosome" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|F1NLT9 LOC100858459 "Histone H2A" [Gallus gallus (taxid:9031)]

 Score = 141 (54.7 bits), Expect = 8.4e-10, P = 8.4e-10
 Identities = 29/52 (55%), Positives = 35/52 (67%)

Query:     7 AVHGLSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
             +V  +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct:     4 SVAAMSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 55

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0000786 "nucleosome" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|F1NDS3 LOC100858459 "Histone H2A" [Gallus gallus (taxid:9031)]

 Score = 139 (54.0 bits), Expect = 1.4e-09, P = 1.4e-09
 Identities = 29/52 (55%), Positives = 34/52 (65%)

Query:     7 AVHGLSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
             A   +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct:     2 AGEAMSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 53

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0000786 "nucleosome" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|Q96QV6 HIST1H2AA "Histone H2A type 1-A" [Homo sapiens (taxid:9606)]

 Score = 139 (54.0 bits), Expect = 1.4e-09, P = 1.4e-09
 Identities = 29/48 (60%), Positives = 33/48 (68%)

Query:    11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
             +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAERIG GA
Sbjct:     1 MSGRGKQGGKARAKSKSRSSRAGLQFPVGRIHRLLRKGNYAERIGAGA 48

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0000786 "nucleosome" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|F1RTQ7 HIST1H2AA "Histone H2A" [Sus scrofa (taxid:9823)]

 Score = 139 (54.0 bits), Expect = 1.4e-09, P = 1.4e-09
 Identities = 29/48 (60%), Positives = 33/48 (68%)

Query:    11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
             +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAERIG GA
Sbjct:     1 MSGRGKQGGKARAKAKSRSSRAGLQFPVGRIHRLLRKGNYAERIGAGA 48

GO:0005634 "nucleus" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0000786 "nucleosome" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0006334 "nucleosome assembly" evidence=IEA

UNIPROTKB|F1NDS4 LOC100858459 "Histone H2A" [Gallus gallus (taxid:9031)]

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query:    11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
             +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct:     1 MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0000786 "nucleosome" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|P02263 P02263 "Histone H2A-IV" [Gallus gallus (taxid:9031)]

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query:    11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
             +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct:     1 MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0000786 "nucleosome" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|P35062 P35062 "Histone H2A-III" [Gallus gallus (taxid:9031)]

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query:    11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
             +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct:     1 MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0000786 "nucleosome" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|Q788R3 LOC100858459 "Histone H2A" [Gallus gallus (taxid:9031)]

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query:    11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
             +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct:     1 MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0000786 "nucleosome" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|Q788R4 LOC100858459 "Histone H2A" [Gallus gallus (taxid:9031)]

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 28/48 (58%), Positives = 33/48 (68%)

Query:    11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
             +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct:     1 MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

GO:0006334 "nucleosome assembly" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0000786 "nucleosome" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8R1M2	H2AJ_MOUSE	No assigned EC number	0.5625	0.7164	0.3720	yes	N/A
Q96KK5	H2A1H_HUMAN	No assigned EC number	0.5625	0.7164	0.375	yes	N/A
Q3ZBX9	H2AJ_BOVIN	No assigned EC number	0.5625	0.7164	0.3720	yes	N/A
Q64522	H2A2B_MOUSE	No assigned EC number	0.5833	0.7164	0.3692	yes	N/A
Q64523	H2A2C_MOUSE	No assigned EC number	0.5833	0.7164	0.3720	yes	N/A
Q74ZL4	H2A1_ASHGO	No assigned EC number	0.5416	0.7164	0.3664	yes	N/A
P16886	H2AL_STRPU	No assigned EC number	0.5833	0.7164	0.3809	yes	N/A
P35062	H2A3_CHICK	No assigned EC number	0.5833	0.7164	0.3720	yes	N/A
P70082	H2AJ_CHICK	No assigned EC number	0.5625	0.7164	0.3720	yes	N/A
P0C169	H2A1C_RAT	No assigned EC number	0.5833	0.7164	0.3692	yes	N/A
Q4FZT6	H2A3_RAT	No assigned EC number	0.5625	0.7164	0.3692	yes	N/A
A1A4R1	H2A2C_BOVIN	No assigned EC number	0.5833	0.7164	0.3720	yes	N/A
P0CC09	H2A2A_RAT	No assigned EC number	0.5833	0.7164	0.3692	yes	N/A
Q8IUE6	H2A2B_HUMAN	No assigned EC number	0.5833	0.7164	0.3692	yes	N/A
Q757L4	H2A2_ASHGO	No assigned EC number	0.5416	0.7164	0.3664	yes	N/A
Q64598	H2A1F_RAT	No assigned EC number	0.5416	0.7164	0.3692	yes	N/A
Q96QV6	H2A1A_HUMAN	No assigned EC number	0.6041	0.7164	0.3664	yes	N/A
Q99878	H2A1J_HUMAN	No assigned EC number	0.5625	0.7164	0.375	yes	N/A
P0C0S9	H2A1_BOVIN	No assigned EC number	0.5625	0.7164	0.3692	yes	N/A
Q6GSS7	H2A2A_MOUSE	No assigned EC number	0.5833	0.7164	0.3692	yes	N/A
P0C170	H2A1E_RAT	No assigned EC number	0.5625	0.7164	0.3692	yes	N/A
Q6CK59	H2A_KLULA	No assigned EC number	0.5416	0.7164	0.3692	yes	N/A
P02262	H2A1_RAT	No assigned EC number	0.5833	0.7164	0.3692	yes	N/A
P02263	H2A4_CHICK	No assigned EC number	0.5833	0.7164	0.3720	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	67
cd00074	115	cd00074, H2A, Histone 2A; H2A is a subunit of the	1e-12
PTZ00017	134	PTZ00017, PTZ00017, histone H2A; Provisional	2e-11
smart00414	106	smart00414, H2A, Histone 2A	2e-11
PLN00157	132	PLN00157, PLN00157, histone H2A; Provisional	2e-09
PLN00156	139	PLN00156, PLN00156, histone H2AX; Provisional	3e-08
PLN00153	129	PLN00153, PLN00153, histone H2A; Provisional	1e-07
COG5262	132	COG5262, HTA1, Histone H2A [Chromatin structure an	5e-07
PLN00155	58	PLN00155, PLN00155, histone H2A; Provisional	6e-07
PLN00154	136	PLN00154, PLN00154, histone H2A; Provisional	2e-06
PTZ00252	134	PTZ00252, PTZ00252, histone H2A; Provisional	1e-04

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

 Score = 57.0 bits (138), Expect = 1e-12
 Identities = 27/43 (62%), Positives = 30/43 (69%)

Query: 16 KEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          K   K K   +SRS RA L FPV R HR+LKKGRYAER+G GA
Sbjct: 1  KGGGKKKSKKRSRSARAGLQFPVGRIHRYLKKGRYAERVGAGA 43

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|185399 PTZ00017, PTZ00017, histone H2A; Provisional

 Score = 54.8 bits (132), Expect = 2e-11
 Identities = 25/39 (64%), Positives = 29/39 (74%)

Query: 20 KAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
            KK P SRS +A L FPV R HR+LKKGRYA+R+G GA
Sbjct: 12 AGKKKPVSRSAKAGLQFPVGRVHRYLKKGRYAKRVGAGA 50

Length = 134

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

 Score = 53.5 bits (129), Expect = 2e-11
 Identities = 21/32 (65%), Positives = 24/32 (75%)

Query: 27 SRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          SRS RA L FPV R HR L+KG YA+R+G GA
Sbjct: 1  SRSARAGLQFPVGRIHRLLRKGTYAKRVGAGA 32

Length = 106

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

 Score = 49.5 bits (118), Expect = 2e-09
 Identities = 20/39 (51%), Positives = 24/39 (61%)

Query: 20 KAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
             K   SRS +A L FPV R  R+LK G+YA R+G GA
Sbjct: 11 GGGKKATSRSAKAGLQFPVGRIARYLKAGKYATRVGAGA 49

Length = 132

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

 Score = 46.5 bits (110), Expect = 3e-08
 Identities = 25/47 (53%), Positives = 32/47 (68%), Gaps = 1/47 (2%)

Query: 12 STNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +  G+ + KA K+  SRS +A L FPV R  RFLK G+YAER+G GA
Sbjct: 7  TKGGRGKPKATKS-VSRSSKAGLQFPVGRIARFLKAGKYAERVGAGA 52

Length = 139

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

 Score = 44.7 bits (105), Expect = 1e-07
 Identities = 27/48 (56%), Positives = 33/48 (68%), Gaps = 1/48 (2%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          ++  GK +   KKA  SRS +A L FPV R  R+LKKG+YAERIG GA
Sbjct: 1  MAGRGKGKTSGKKA-VSRSAKAGLQFPVGRIARYLKKGKYAERIGAGA 47

Length = 129

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

 Score = 42.9 bits (101), Expect = 5e-07
 Identities = 20/38 (52%), Positives = 24/38 (63%)

Query: 21 AKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
            +  +SRS +A L+FPV R  R LKKG Y  RIG GA
Sbjct: 12 DARVSQSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGA 49

Length = 132

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

 Score = 41.2 bits (96), Expect = 6e-07
 Identities = 27/48 (56%), Positives = 33/48 (68%), Gaps = 1/48 (2%)

Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          ++  GK +   KKA  SRS +A L FPV R  R+LKKG+YAERIG GA
Sbjct: 1  MAGRGKGKTSGKKA-VSRSAKAGLQFPVGRIARYLKKGKYAERIGAGA 47

Length = 58

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

 Score = 41.5 bits (97), Expect = 2e-06
 Identities = 18/38 (47%), Positives = 22/38 (57%)

Query: 10 GLSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKK 47
            +    ++ K KK P SRS RA L FPV R HR LK+
Sbjct: 13 KTTAAAAKKDKDKKKPTSRSSRAGLQFPVGRIHRQLKQ 50

Length = 136

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

 Score = 36.9 bits (85), Expect = 1e-04
 Identities = 18/36 (50%), Positives = 24/36 (66%)

Query: 20 KAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIG 55
          KA K+   RS +A L+FPV R    L++G+YA RIG
Sbjct: 10 KASKSGSGRSAKAGLIFPVGRVGSLLRRGQYARRIG 45

Length = 134

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	67
PLN00155	58	histone H2A; Provisional	99.93
PLN00153	129	histone H2A; Provisional	99.88
PLN00157	132	histone H2A; Provisional	99.88
PTZ00017	134	histone H2A; Provisional	99.85
PLN00156	139	histone H2AX; Provisional	99.83
PLN00154	136	histone H2A; Provisional	99.83
PTZ00252	134	histone H2A; Provisional	99.81
KOG1756|consensus	131		99.78
cd00074	115	H2A Histone 2A; H2A is a subunit of the nucleosome	99.76
smart00414	106	H2A Histone 2A.	99.73
COG5262	132	HTA1 Histone H2A [Chromatin structure and dynamics	99.6
KOG1757|consensus	131		99.56
PF00125	75	Histone: Core histone H2A/H2B/H3/H4 histone h2a si	94.79
PLN00035	103	histone H4; Provisional	86.47

>PLN00155 histone H2A; Provisional

Probab=99.93  E-value=4.2e-27  Score=140.77  Aligned_cols=53  Identities=47%  Similarity=0.690  Sum_probs=47.3

Q ss_pred             cccCCcccccccCCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        11 msg~gk~~~k~k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      |||+|+++ +.+++++|+|++|||||||+||||+|++|+|++|||++|||||||
T Consensus         1 msg~g~g~-~~~~k~~srS~rAgL~FPVgri~r~Lr~g~~a~Rvga~apVYlAA   53 (58)
T PLN00155          1 MAGRGKGK-TSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAA   53 (58)
T ss_pred             CCCCCCCC-ccccCccCcccccccccchHHHHHHHhcCChhhcccCCcHHHHHH
Confidence            88777643 344577999999999999999999999999999999999999998

>PLN00153 histone H2A; Provisional

Probab=99.88  E-value=4.2e-24  Score=143.80  Aligned_cols=53  Identities=47%  Similarity=0.690  Sum_probs=47.7

Q ss_pred             cccCCcccccccCCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        11 msg~gk~~~k~k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      |||+|+++ +.+++.+|+|+|||||||||||||+|++|+|++|||++|||||||
T Consensus         1 m~g~~~~~-~~~~k~~srS~ragL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAA   53 (129)
T PLN00153          1 MAGRGKGK-TSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAA   53 (129)
T ss_pred             CCCCCCCC-ccccCccCcccccCcccchHHHHHHHhcCchhhccCCCchHHHHH
Confidence            89887743 345578999999999999999999999999999999999999997

>PLN00157 histone H2A; Provisional

Probab=99.88  E-value=7e-24  Score=143.19  Aligned_cols=54  Identities=43%  Similarity=0.613  Sum_probs=48.3

Q ss_pred             cccCCccc-ccccCCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         11 LSTNGKEQ-IKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        11 msg~gk~~-~k~k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      |||+|+.. ++.+++..|+|+|||||||||||||+|++|+|++||+++|||||||
T Consensus         1 ms~~g~~~~~~~~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAA   55 (132)
T PLN00157          1 MSGRGKRKGGGGGKKATSRSAKAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAA   55 (132)
T ss_pred             CCCCCCCCCCccCcCCcCcccccCcccchHHHHHHHhcCchhhhcCCCcHhHHHH
Confidence            88877642 3456678999999999999999999999999999999999999997

>PTZ00017 histone H2A; Provisional

Probab=99.85  E-value=2.1e-22  Score=136.26  Aligned_cols=54  Identities=50%  Similarity=0.708  Sum_probs=45.9

Q ss_pred             cccCCccccc--ccCCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         11 LSTNGKEQIK--AKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        11 msg~gk~~~k--~k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      |||+|+.+++  .++++.|+|+||||||||+||||+|++|+|++||+++|||||||
T Consensus         1 ~~~~~~~~~~~~~~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAA   56 (134)
T PTZ00017          1 KGGKGKTGGGKAGKKKPVSRSAKAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAA   56 (134)
T ss_pred             CCCCCcCCCCcccCcCcccccccCCcccchHHHHHHHhccchhccccccchhhhHH
Confidence            4555543322  35678999999999999999999999999999999999999997

>PLN00156 histone H2AX; Provisional

Probab=99.83  E-value=7.3e-22  Score=134.39  Aligned_cols=44  Identities=48%  Similarity=0.681  Sum_probs=42.0

Q ss_pred             ccCCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         21 AKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        21 ~k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      .++++.|+|+||||||||+||||+|++|+|++||+++|||||||
T Consensus        15 ~~~k~~srS~rAgL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAA   58 (139)
T PLN00156         15 KATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSA   58 (139)
T ss_pred             cccCCcCcccccCcccchHHHHHHHhcCChhhccCCccHHHHHH
Confidence            46778999999999999999999999999999999999999997

>PLN00154 histone H2A; Provisional

Probab=99.83  E-value=7.6e-22  Score=133.95  Aligned_cols=60  Identities=40%  Similarity=0.451  Sum_probs=48.9

Q ss_pred             cccccccccCCccc-----ccccCCCccccccceeeeehhhhhhhccCCC-ccceeccCCceeeee
Q psy12658          5 KKAVHGLSTNGKEQ-----IKAKKAPKSRSQRANLVFPVSRCHRFLKKGR-YAERIGLGAWSINGI   64 (67)
Q Consensus         5 ~~~~~~msg~gk~~-----~k~k~k~~SrS~rAgLqFPVgRv~r~Lr~g~-ya~Rvga~ApVYlaa   64 (67)
                      .+....|+|.....     .+.+++..|+|+||||||||+||||+|++|+ |++|||++|||||||
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~k~~srS~rAgL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAA   68 (136)
T PLN00154          3 GKGGKGLLAAKTTAAAAKKDKDKKKPTSRSSRAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAA   68 (136)
T ss_pred             CccccccccCCcCCcccccccCCcCCcCcccccCccCchHHHHHHHHhhhhhccccccchHHHHHH
Confidence            45567888743211     2245678999999999999999999999998 568999999999997

>PTZ00252 histone H2A; Provisional

Probab=99.81  E-value=2.6e-21  Score=131.14  Aligned_cols=41  Identities=39%  Similarity=0.644  Sum_probs=38.8

Q ss_pred             CCcc-ccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         24 APKS-RSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        24 k~~S-rS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      +..+ +|+|||||||||||||+|++|+|++|||++|||||||
T Consensus        13 ~~~~~rS~rAGL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAA   54 (134)
T PTZ00252         13 KSGSGRSAKAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAA   54 (134)
T ss_pred             ccccccccccCccCchHHHHHHHHcCCcccccCCccHHHHHH
Confidence            4555 9999999999999999999999999999999999997

>KOG1756|consensus

Probab=99.78  E-value=1.4e-20  Score=127.30  Aligned_cols=54  Identities=52%  Similarity=0.753  Sum_probs=46.8

Q ss_pred             cccCCccc-cccc-CCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         11 LSTNGKEQ-IKAK-KAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        11 msg~gk~~-~k~k-~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      ||++++++ ++.+ ++..|+|.+||||||||||||+||+|+|++||+++|||||||
T Consensus         1 ~s~~~k~gk~~~~~~~~~srs~~agl~fPvgri~r~Lr~~~~~~ri~~gapV~laa   56 (131)
T KOG1756|consen    1 MSGRGKGGKAKPRAKAKSSRSSRAGLQFPVGRIHRLLRKGRYAQRVGAGAPVYLAA   56 (131)
T ss_pred             CCccCCCCcccchhhhhcchhhhcccccCHHHHHHHHHccchhhhccCCChHHHHH
Confidence            67777665 3333 567799999999999999999999999999999999999987

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

Probab=99.76  E-value=5.5e-20  Score=121.15  Aligned_cols=47  Identities=55%  Similarity=0.753  Sum_probs=43.5

Q ss_pred             ccccCCCccccccceeeeehhhhhhhccCCCccceeccCCceeeeee
Q psy12658         19 IKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGIQ   65 (67)
Q Consensus        19 ~k~k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa~   65 (67)
                      +|.++++.|+|+||||||||+||||+|++++|++||+++|||||||-
T Consensus         4 ~k~~~~~~s~s~ragL~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAv   50 (115)
T cd00074           4 GKKKSKKRSRSARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAV   50 (115)
T ss_pred             CccCcCccccccccCccCcHHHHHHHHHcCccccccccchHHHHHHH
Confidence            46667788999999999999999999999999999999999999973

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.

>smart00414 H2A Histone 2A

Probab=99.73  E-value=3.1e-19  Score=116.10  Aligned_cols=38  Identities=55%  Similarity=0.820  Sum_probs=37.1

Q ss_pred             cccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         27 SRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        27 SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      |+|+|||||||||||||+|++++|++||+++|||||||
T Consensus         1 srS~ragL~fPVgRi~r~Lk~~~~~~Rv~~~A~VyLaA   38 (106)
T smart00414        1 SRSARAGLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAA   38 (106)
T ss_pred             CccccCCccCchHHHHHHHHcCccccccccccHHHHHH
Confidence            68999999999999999999999999999999999997

>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]

Probab=99.60  E-value=1.2e-16  Score=107.91  Aligned_cols=44  Identities=45%  Similarity=0.693  Sum_probs=40.8

Q ss_pred             ccCCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         21 AKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        21 ~k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      .-+...|+|++|||+||||||+|+|++++|..|||++|||||+|
T Consensus        12 ~~r~~~s~sa~agl~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~A   55 (132)
T COG5262          12 DARVSQSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAA   55 (132)
T ss_pred             cchhccchhhhcCccccHHHHHHHHHcCccceeecCCcHHHHHH
Confidence            34556899999999999999999999999999999999999987

>KOG1757|consensus

Probab=99.56  E-value=2e-16  Score=106.48  Aligned_cols=43  Identities=42%  Similarity=0.528  Sum_probs=39.9

Q ss_pred             cCCCccccccceeeeehhhhhhhccCCCccc-eeccCCceeeee
Q psy12658         22 KKAPKSRSQRANLVFPVSRCHRFLKKGRYAE-RIGLGAWSINGI   64 (67)
Q Consensus        22 k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~-Rvga~ApVYlaa   64 (67)
                      +.+..|+|+||||||||+||||+|+....+. |||+.|.||+||
T Consensus        17 ~~k~vs~s~raGlqFpVgRihr~LK~r~t~h~rVGataavy~aa   60 (131)
T KOG1757|consen   17 KAKAVSRSARAGLQFPVGRIHRHLKTRTTSHGRVGATAAVYSAA   60 (131)
T ss_pred             hhhhhhHHHhcccccchHHHHHHHHHhcccccccchHHHHHHHH
Confidence            4778999999999999999999999998885 999999999987

>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=94.79  E-value=0.00096  Score=39.07  Aligned_cols=36  Identities=25%  Similarity=0.196  Sum_probs=31.7

Q ss_pred             cccceeeeehhhhhhhccCCCccc-eeccCCceeeee
Q psy12658         29 SQRANLVFPVSRCHRFLKKGRYAE-RIGLGAWSINGI   64 (67)
Q Consensus        29 S~rAgLqFPVgRv~r~Lr~g~ya~-Rvga~ApVYlaa   64 (67)
                      +....+.||+.||.+.+....+.+ ||++.|++||.+
T Consensus         2 ~~~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~   38 (75)
T PF00125_consen    2 TRRLIPKFPFSRLLREIGEEILSKYRISSEALVALQS   38 (75)
T ss_dssp             HSHSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHH
T ss_pred             cccccCceEEeeeeehhhcccccccccccccchhhhh
Confidence            456778999999999999999997 999999999864

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

>PLN00035 histone H4; Provisional

Probab=86.47  E-value=0.11  Score=34.05  Aligned_cols=45  Identities=22%  Similarity=0.239  Sum_probs=28.3

Q ss_pred             cccCCccccc-----ccC-CCccccccceeeeehhhhhhhccCCCccceeccCC
Q psy12658         11 LSTNGKEQIK-----AKK-APKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA   58 (67)
Q Consensus        11 msg~gk~~~k-----~k~-k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~A   58 (67)
                      |||+||++.+     .|+ +...+-+-++  +|..-|.|+++.+- ++||+..+
T Consensus         1 m~~~~k~~~g~g~~g~kr~~k~~~d~i~~--ipk~~IrRLARr~G-vkRIS~~a   51 (103)
T PLN00035          1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQG--ITKPAIRRLARRGG-VKRISGLI   51 (103)
T ss_pred             CCCCCCCCCCCCCCcchHHHHHHHhhhcc--CCHHHHHHHHHHcC-cccchHHH
Confidence            7777765321     111 1122333344  88889999999877 88998764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	67
1eqz_A	129	X-Ray Structure Of The Nucleosome Core Particle At		6e-09
2hio_A	128	Histone Octamer (Chicken), Chromosomal Protein Leng		1e-08
2f8n_K	149	2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a Nuc		2e-08
3a6n_C	133	The Nucleosome Containing A Testis-Specific Histone		2e-08
2cv5_C	130	Crystal Structure Of Human Nucleosome Core Particle		3e-08
1kx3_C	128	X-Ray Structure Of The Nucleosome Core Particle, Nc		6e-08
1s32_C	119	Molecular Recognition Of The Nucleosomal 'supergroo		6e-08
3c1b_C	129	The Effect Of H3 K79 Dimethylation And H4 K20 Trime		6e-08
1m18_C	129	Ligand Binding Alters The Structure And Dynamics Of		6e-08
1zbb_C	129	Structure Of The 4_601_167 Tetranucleosome Length =		6e-08
1zla_C	129	X-Ray Structure Of A Kaposi's Sarcoma Herpesvirus L		7e-08
1aoi_C	116	Complex Between Nucleosome Core Particle (H3,H4,H2a		9e-08
2xql_A	91	Fitting Of The H2a-H2b Histones In The Electron Mic		2e-07
1hio_A	95	Histone Octamer (Chicken), Chromosomal Protein, Alp		3e-07
3kwq_C	107	Structural Characterization Of H3k56q Nucleosomes A		4e-07
2nqb_C	123	Drosophila Nucleosome Structure Length = 123		6e-07
2pyo_C	120	Drosophila Nucleosome Core Length = 120		7e-07
1id3_C	131	Crystal Structure Of The Yeast Nucleosome Core Part		3e-06
1f66_C	128	2.6 A Crystal Structure Of A Nucleosome Core Partic		5e-04
1u35_C	120	Crystal Structure Of The Nucleosome Core Particle C		7e-04

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

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 28/48 (58%), Positives = 33/48 (68%)
Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

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

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 28/47 (59%), Positives = 32/47 (68%)
Query: 12 STNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  SGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 47

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 26/48 (54%), Positives = 33/48 (68%)
Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   K+RS RA L FPV R HR L+KG Y+ER+G GA
Sbjct: 20 MSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGA 67

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 26/48 (54%), Positives = 33/48 (68%)
Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   K+RS RA L FPV R HR L+KG Y+ER+G GA
Sbjct: 4  MSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGA 51

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

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 26/48 (54%), Positives = 33/48 (68%)
Query: 11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +S  GK+  KA+   K+RS RA L FPV R HR L+KG Y+ER+G GA
Sbjct: 1  MSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGA 48

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

Iteration: 1
 Score = 52.4 bits (124), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 26/47 (55%), Positives = 31/47 (65%)
Query: 12 STNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          S  GK+  K +   K+RS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  SGRGKQGGKTRAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 47

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

Iteration: 1
 Score = 52.4 bits (124), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 26/47 (55%), Positives = 31/47 (65%)
Query: 12 STNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          S  GK+  K +   K+RS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  SGRGKQGGKTRAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 47

>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 = 52.4 bits (124), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 26/47 (55%), Positives = 31/47 (65%)
Query: 12 STNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          S  GK+  K +   K+RS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  SGRGKQGGKTRAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 47

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

Iteration: 1
 Score = 52.4 bits (124), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 26/47 (55%), Positives = 31/47 (65%)
Query: 12 STNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          S  GK+  K +   K+RS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  SGRGKQGGKTRAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 47

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

Iteration: 1
 Score = 52.4 bits (124), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 26/47 (55%), Positives = 31/47 (65%)
Query: 12 STNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          S  GK+  K +   K+RS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  SGRGKQGGKTRAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 47

>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 = 52.4 bits (124), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 26/47 (55%), Positives = 31/47 (65%)
Query: 12 STNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          S  GK+  K +   K+RS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  SGRGKQGGKTRAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 47

>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 = 52.0 bits (123), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 25/44 (56%), Positives = 30/44 (68%)
Query: 15 GKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          GK+  K +   K+RS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  GKQGGKTRAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 44

>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 = 50.4 bits (119), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 23/33 (69%), Positives = 25/33 (75%)
Query: 26 KSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  KSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 33

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 23/33 (69%), Positives = 25/33 (75%)
Query: 26 KSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 1  KSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 33

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 22/33 (66%), Positives = 25/33 (75%)
Query: 26 KSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          K+RS RA L FPV R HR L+KG YAER+G GA
Sbjct: 2  KTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 34

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 22/32 (68%), Positives = 24/32 (75%)
Query: 27 SRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          SRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 15 SRSNRAGLQFPVGRIHRLLRKGNYAERVGAGA 46

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 22/32 (68%), Positives = 24/32 (75%)
Query: 27 SRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          SRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 15 SRSNRAGLQFPVGRIHRLLRKGNYAERVGAGA 46

>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 = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 20/33 (60%), Positives = 25/33 (75%)
Query: 26 KSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          +SRS +A L FPV R HR L++G YA+RIG GA
Sbjct: 16 QSRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGA 48

>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 = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 20/32 (62%), Positives = 21/32 (65%)
Query: 15 GKEQIKAKKAPKSRSQRANLVFPVSRCHRFLK 46
          GK+  KAK    SRSQRA L FPV R HR LK
Sbjct: 7  GKDSGKAKTKAVSRSQRAGLQFPVGRIHRHLK 38

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

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 19/39 (48%), Positives = 25/39 (64%)
Query: 20 KAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          K K    SRS +A ++FPV R  R++KKG    RIG+GA
Sbjct: 7  KKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGA 45
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	67
2f8n_K	149	Histone H2A type 1; nucleosome, NCP, macroh2A, his	4e-09
1tzy_A	129	Histone H2A-IV; histone-fold, tetramer-dimer-dimer	2e-08
2nqb_C	123	Histone H2A; nucleosome, NCP, chromatin, structura	9e-08
1id3_C	131	Histone H2A.1; nucleosome core particle, chromatin	4e-07
2f8n_G	120	Core histone macro-H2A.1; nucleosome, NCP, macroh2	8e-07
1f66_C	128	Histone H2A.Z; nucleosome, chromatin, histone vari	1e-06

>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 = 48.3 bits (114), Expect = 4e-09
 Identities = 26/50 (52%), Positives = 33/50 (66%)

Query: 9  HGLSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
            +S  GK+  KA+   K+RS RA L FPV R HR L+KG Y+ER+G GA
Sbjct: 18 GSMSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGA 67

>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 = 46.0 bits (108), Expect = 2e-08
 Identities = 28/47 (59%), Positives = 32/47 (68%)

Query: 12 STNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          S  GK+  KA+   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 2  SGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48

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

 Score = 44.5 bits (104), Expect = 9e-08
 Identities = 25/39 (64%), Positives = 27/39 (69%)

Query: 20 KAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          K K   KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 8  KVKGKAKSRSNRAGLQFPVGRIHRLLRKGNYAERVGAGA 46

>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 = 42.6 bits (99), Expect = 4e-07
 Identities = 24/44 (54%), Positives = 30/44 (68%)

Query: 15 GKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          G +   A KA +SRS +A L FPV R HR L++G YA+RIG GA
Sbjct: 5  GGKAGSAAKASQSRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGA 48

>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 = 41.8 bits (97), Expect = 8e-07
 Identities = 19/39 (48%), Positives = 25/39 (64%)

Query: 20 KAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
          K K    SRS +A ++FPV R  R++KKG    RIG+GA
Sbjct: 7  KKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGA 45

>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 = 41.8 bits (97), Expect = 1e-06
 Identities = 20/41 (48%), Positives = 22/41 (53%)

Query: 14 NGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERI 54
           GK+  KAK    SRSQRA L FPV R HR LK    +   
Sbjct: 6  AGKDSGKAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGR 46

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	67
2f8n_K	149	Histone H2A type 1; nucleosome, NCP, macroh2A, his	99.82
1tzy_A	129	Histone H2A-IV; histone-fold, tetramer-dimer-dimer	99.82
2f8n_G	120	Core histone macro-H2A.1; nucleosome, NCP, macroh2	99.8
2nqb_C	123	Histone H2A; nucleosome, NCP, chromatin, structura	99.78
1f66_C	128	Histone H2A.Z; nucleosome, chromatin, histone vari	99.77
1id3_C	131	Histone H2A.1; nucleosome core particle, chromatin	99.75
2jss_A	192	Chimera of histone H2B.1 and histone H2A.Z; histon	99.5
3ksy_A	1049	SOS-1, SON of sevenless homolog 1; RAS, RAS activa	99.4
1jfi_A	98	Transcription regulator NC2 alpha chain; histone,	98.91
2yfw_B	103	Histone H4, H4; cell cycle, kinetochore, centromer	98.09
1tzy_D	103	Histone H4-VI; histone-fold, tetramer-dimer-dimer,	98.08
1n1j_B	97	NF-YC; histone-like PAIR, DNA binding protein; 1.6	97.99
2byk_A	140	Chrac-16; nucleosome sliding, histone fold, DNA-bi	97.94
4g92_C	119	HAPE; transcription factor, nucleosome, minor groo	97.72
1f1e_A	154	Histone fold protein; archaeal histone protein, DN	96.22

>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=99.82  E-value=1.7e-22  Score=137.19  Aligned_cols=58  Identities=45%  Similarity=0.658  Sum_probs=39.4

Q ss_pred             cccccccCCcccccccCCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658          7 AVHGLSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus         7 ~~~~msg~gk~~~k~k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      +...|||+|++.++.+++.+|+|+||||||||+||+|+|++++|++||+++|||||||
T Consensus        16 ~~~~~~~~~~~~~~~~~k~~srS~ragLqFPVgrI~R~LK~~~~a~RVs~~A~VyLAA   73 (149)
T 2f8n_K           16 PRGSMSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVYLAA   73 (149)
T ss_dssp             ------------------CCCHHHHHTCSSCHHHHHHHHHHTTSCSEECTTHHHHHHH
T ss_pred             cccccccCCCCCCCCCCCCCCccccCCeeccHHHHHHHHHccccccccCcCcHHHHHH
Confidence            3567998887656777889999999999999999999999999999999999999997

>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=99.82  E-value=1.6e-22  Score=133.98  Aligned_cols=54  Identities=52%  Similarity=0.735  Sum_probs=40.2

Q ss_pred             cccCCcccccccCCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        11 msg~gk~~~k~k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      |||+|+.+++.+++.+|+|+||||||||+||||+|++++|++||+++|||||||
T Consensus         1 m~~~~~~~~~~~~~~~srS~ragLqfPV~rI~R~Lk~~~~a~RVs~~A~VyLaA   54 (129)
T 1tzy_A            1 MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAA   54 (129)
T ss_dssp             -------------CCCCHHHHHTCSSCHHHHHHHHHHTTSSSEECTHHHHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCccccCceeccHHHHHHHHHccccccccchhhHHHHHH
Confidence            888776456677788999999999999999999999999999999999999987

>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=99.80  E-value=6.1e-22  Score=129.77  Aligned_cols=51  Identities=41%  Similarity=0.599  Sum_probs=40.8

Q ss_pred             cccCCcccccccCCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         11 LSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        11 msg~gk~~~k~k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      |||+|   ++.+++++|+|+||||||||+||||+|++++|++||+++|||||||
T Consensus         1 m~~~~---~~~~~~~~srs~ragLqfPV~ri~R~Lk~~~~a~RV~~~A~VyLaA   51 (120)
T 2f8n_G            1 MSSRG---GKKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAA   51 (120)
T ss_dssp             ------------CCCCCHHHHHTCSSCHHHHHHHHHHHSSSCEECTHHHHHHHH
T ss_pred             CCCCC---CCCCcCCcCcccccCccCChHHHHHHHHcCccccccccchHHHHHH
Confidence            78654   4566778999999999999999999999999999999999999987

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

Probab=99.78  E-value=2.3e-21  Score=127.47  Aligned_cols=52  Identities=54%  Similarity=0.716  Sum_probs=39.3

Q ss_pred             ccCCcccccccCCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         12 STNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        12 sg~gk~~~k~k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      ||+||+ ++.+++++|+|+||||||||+||||+|++++|++||+++|||||||
T Consensus         1 ~~~~~~-~~~~~~~~s~s~ragL~fPV~ri~R~Lk~~~~a~RV~~~A~VyLaA   52 (123)
T 2nqb_C            1 SGRGKG-GKVKGKAKSRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAA   52 (123)
T ss_dssp             -------------CCCHHHHHTCSSCHHHHHHHHHHTTSCSEECTHHHHHHHH
T ss_pred             CCCCCC-CCCCCCCCCccccCCeeccHHHHHHHHHccccccccchhhHHHHHH
Confidence            455663 4567788999999999999999999999999999999999999997

>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=99.77  E-value=8.7e-21  Score=125.50  Aligned_cols=54  Identities=43%  Similarity=0.546  Sum_probs=38.6

Q ss_pred             cccC--CcccccccCCCccccccceeeeehhhhhhhccCCCccc-eeccCCceeeee
Q psy12658         11 LSTN--GKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAE-RIGLGAWSINGI   64 (67)
Q Consensus        11 msg~--gk~~~k~k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~-Rvga~ApVYlaa   64 (67)
                      |||.  |++.++.+++.+|+|+||||||||+||||+|++++|++ ||+++|||||||
T Consensus         1 m~~~~~~~~~~~~~~~~~srS~ragLqfPV~ri~R~Lk~~~~a~~RV~~~A~VyLaA   57 (128)
T 1f66_C            1 MAGGKAGKDSGKAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAA   57 (128)
T ss_dssp             ----------------CCCHHHHHTCSSCHHHHHHHHHHTSCSSCEECTTHHHHHHH
T ss_pred             CCCCCCCCCCCCcCCCCcCccccCCccCChHHHHHHHHHcccchhhccccHHHHHHH
Confidence            5643  33344566778999999999999999999999999984 999999999997

>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=99.75  E-value=3.8e-20  Score=122.83  Aligned_cols=46  Identities=50%  Similarity=0.711  Sum_probs=38.5

Q ss_pred             ccccCCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         19 IKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        19 ~k~k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      ++.+++.+|+|+||||||||+||||+|++++|++||+++|||||||
T Consensus         9 ~~~~~~~~srS~ragLqfPV~rI~R~Lk~~~~a~RVs~~A~VyLaA   54 (131)
T 1id3_C            9 GSAAKASQSRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGAPVYLTA   54 (131)
T ss_dssp             -------CCTTGGGTCSSCHHHHHHHHHTTCSCSEECSSHHHHHHH
T ss_pred             CCCCCCCCCccccCCeecCHHHHHHHHHccccccccchhhHHHHHH
Confidence            4456678999999999999999999999999999999999999997

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

Probab=99.50  E-value=9.3e-16  Score=105.82  Aligned_cols=42  Identities=36%  Similarity=0.454  Sum_probs=39.3

Q ss_pred             CCCccccccceeeeehhhhhhhccCCCcc-ceeccCCceeeee
Q psy12658         23 KAPKSRSQRANLVFPVSRCHRFLKKGRYA-ERIGLGAWSINGI   64 (67)
Q Consensus        23 ~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya-~Rvga~ApVYlaa   64 (67)
                      ++.+|+|+||||||||+||||+|++++|+ +||+++|||||||
T Consensus        93 k~~~s~s~ragl~fPv~ri~R~lk~~~~a~~Rv~~~A~vyLaa  135 (192)
T 2jss_A           93 TQAQSSSARAGLQFPVGRIKRYLKRHATGRTRVGSKAAIYLTA  135 (192)
T ss_dssp             CSSSCHHHHSSCCSCHHHHHHHHHHTTCSSCCCCTTTHHHHHH
T ss_pred             cccccccccCCCcCCHHHHHHHHHhcCccccccccChHHHHHH
Confidence            35779999999999999999999999998 6999999999987

>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=99.40  E-value=4.6e-15  Score=120.02  Aligned_cols=42  Identities=24%  Similarity=0.253  Sum_probs=38.9

Q ss_pred             cCCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         22 KKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        22 k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      +.+..|+|+|||||||||||||+| +|+|++|||++|||||||
T Consensus        91 ~~~~~~~~~~~~l~~pv~~~~~~l-~~~~~~r~~~~~~~y~~a  132 (1049)
T 3ksy_A           91 QSAIEKRKRRNPLSLPVEKIHPLL-KEVLGYKIDHQVSVYIVA  132 (1049)
T ss_dssp             HHHHTTCCCSSSCSSCHHHHHHHH-HHHHCSCCCHHHHHHHHH
T ss_pred             HHhhhcccccCCccccHHHHHHHh-hcccccccCCCCcchhHH
Confidence            344579999999999999999999 999999999999999998

>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=98.91  E-value=9.2e-11  Score=73.64  Aligned_cols=37  Identities=14%  Similarity=0.242  Sum_probs=30.0

Q ss_pred             ccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         28 RSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        28 rS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      .+.+++++|||+||+|.|+.+.+..||+++||||+++
T Consensus         4 ~~kk~~~~fPvaRIkrimK~~~~~~~vs~~A~v~la~   40 (98)
T 1jfi_A            4 KKKKYNARFPPARIKKIMQTDEEIGKVAAAVPVIISR   40 (98)
T ss_dssp             ------CCCCHHHHHHHHTTSTTCCCBCTTHHHHHHH
T ss_pred             cccccCCCCChHHHHHHHHcCccccccchHHHHHHHH
Confidence            5678999999999999999999999999999999975

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

Probab=98.09  E-value=2.1e-07  Score=58.64  Aligned_cols=51  Identities=16%  Similarity=0.121  Sum_probs=25.7

Q ss_pred             cccCCccc-----cc-ccCCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         11 LSTNGKEQ-----IK-AKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        11 msg~gk~~-----~k-~k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      |||+||++     ++ ++.+..++++.++  ||+..|+|+++.+.+ +||+..++++|+.
T Consensus         1 m~~~gk~gkg~~~~~~kr~~~~~r~~~~g--ip~~~I~Rlar~~G~-~rIs~~a~~~l~~   57 (103)
T 2yfw_B            1 MSGRGKGGKGLGKGGAKRHRKILRDNIQG--ITKPAIRRLARRGGV-KRISGLIYEEVRN   57 (103)
T ss_dssp             -------------------------------CCHHHHHHHHHHTTC-CEECTTHHHHHHH
T ss_pred             CCCCCCCCCCCCCCCccchhhhhhhhhcc--CCHHHHHHHHHHcCc-cccCHHHHHHHHH
Confidence            67665432     11 2344567999999  999999999999988 8999999998864

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

Probab=98.08  E-value=2.9e-07  Score=57.89  Aligned_cols=51  Identities=16%  Similarity=0.130  Sum_probs=33.4

Q ss_pred             cccCCccc-----cc-ccCCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         11 LSTNGKEQ-----IK-AKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        11 msg~gk~~-----~k-~k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      |||+||++     ++ ++.+..++++..+  ||+..|+|+++.+.+ +||+..++++|+.
T Consensus         1 m~g~gk~~kg~~~~~~kr~~k~~r~~~~g--ip~~~I~Rlar~~G~-~rIs~~a~~~l~~   57 (103)
T 1tzy_D            1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQG--ITKPAIRRLARRGGV-KRISGLIYEETRG   57 (103)
T ss_dssp             --------------------CCCCCGGGG--SCHHHHHHHHHHTTC-CEECTTHHHHHHH
T ss_pred             CCCCCCCCCCCCCCCccccccchhhhccc--CCHHHHHHHHHHcCc-cccCHHHHHHHHH
Confidence            67665432     12 2344568999999  999999999999987 8999999998864

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

Probab=97.99  E-value=3.9e-07  Score=56.71  Aligned_cols=34  Identities=15%  Similarity=0.090  Sum_probs=27.7

Q ss_pred             cceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         31 RANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        31 rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      -.+++||++||+|.++.+.+..+|++.||||++.
T Consensus        15 ~~~~~lP~arIkrImK~~~~~~~is~eA~~~lak   48 (97)
T 1n1j_B           15 FRVQELPLARIKKIMKLDEDVKMISAEAPVLFAK   48 (97)
T ss_dssp             -----CCHHHHHHHHTTSTTCCCBCTHHHHHHHH
T ss_pred             cCCCcCCHHHHHHHHccCccccccChHHHHHHHH
Confidence            3478999999999999999999999999999874

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

Probab=97.94  E-value=5.3e-07  Score=60.00  Aligned_cols=42  Identities=19%  Similarity=0.217  Sum_probs=18.3

Q ss_pred             CCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         23 KAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        23 ~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      .++.+++...+++||++||.+.++...+..+|++.|||+++.
T Consensus         7 ~k~~s~~~~~~~~LPlaRIKrIMK~dpdv~~Is~eA~vliak   48 (140)
T 2byk_A            7 QPPVERPPTAETFLPLSRVRTIMKSSMDTGLITNEVLFLMTK   48 (140)
T ss_dssp             ----------------------CCSSSSCSCCCHHHHHHHHH
T ss_pred             CCCCCCCcccCCCCCHHHHHHHHhcCcccccccHHHHHHHHH
Confidence            346789999999999999999999999999999999999863

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

Probab=97.72  E-value=1.9e-06  Score=55.55  Aligned_cols=31  Identities=16%  Similarity=0.152  Sum_probs=28.9

Q ss_pred             eeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         34 LVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        34 LqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      -||||+||+|.+|.+.+..+|++.||||++.
T Consensus        40 ~~lPvaRIkrImK~d~~~~~is~eA~v~la~   70 (119)
T 4g92_C           40 HQLPLARIKKVMKADPEVKMISAEAPILFAK   70 (119)
T ss_dssp             CSSCHHHHHHHHHTSTTCCEECTHHHHHHHH
T ss_pred             CCCCHHHHHHHHhhCCccccccHHHHHHHHH
Confidence            4799999999999999999999999999874

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

Probab=96.22  E-value=0.00025  Score=47.90  Aligned_cols=33  Identities=21%  Similarity=0.228  Sum_probs=30.3

Q ss_pred             ccceeeeehhhhhhhccCCCccceeccCCceeee
Q psy12658         30 QRANLVFPVSRCHRFLKKGRYAERIGLGAWSING   63 (67)
Q Consensus        30 ~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYla   63 (67)
                      .+++|.||++.|+|++|++ ++.||+..|.++|+
T Consensus        77 d~~~l~lP~a~V~Ri~k~~-g~~RVS~~A~~~l~  109 (154)
T 1f1e_A           77 DYDGELFGRATVRRILKRA-GIERASSDAVDLYN  109 (154)
T ss_dssp             TCCSCCCCHHHHHHHHHHT-TCCEECHHHHHHHH
T ss_pred             ccccccCCccHHHHHHHHc-CCccchHHHHHHHH
Confidence            4789999999999999999 89999999998875

---

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	67
d1u35c1	106	a.22.1.1 (C:814-919) macro-H2A.1, histone domain {	5e-12
d1tzya_	106	a.22.1.1 (A:) Histone H2A {Chicken (Gallus gallus)	1e-11
d1f66c_	103	a.22.1.1 (C:) Histone H2A {Human (Homo sapiens), v	6e-10
d1q9ca_	172	a.22.1.3 (A:) Histone domain of Son of sevenless p	5e-09

>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 = 53.6 bits (129), Expect = 5e-12
 Identities = 17/33 (51%), Positives = 23/33 (69%)

Query: 26 KSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
           SRS +A ++FPV R  R++KKG    RIG+GA
Sbjct: 2  TSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGA 34

>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 = 52.9 bits (127), Expect = 1e-11
 Identities = 23/34 (67%), Positives = 25/34 (73%)

Query: 25 PKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
           KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 2  AKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 35

>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 = 48.3 bits (115), Expect = 6e-10
 Identities = 15/28 (53%), Positives = 16/28 (57%)

Query: 26 KSRSQRANLVFPVSRCHRFLKKGRYAER 53
           SRSQRA L FPV R HR LK    +  
Sbjct: 2  VSRSQRAGLQFPVGRIHRHLKSRTTSHG 29

>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 = 47.1 bits (112), Expect = 5e-09
 Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 1/39 (2%)

Query: 20  KAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
            A+ A + R +R  L  PV + H  LK+     +I    
Sbjct: 84  DAQSAIEKRKRRNPLSLPVEKIHPLLKEV-LGYKIDHQV 121

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	67
d1tzya_	106	Histone H2A {Chicken (Gallus gallus), erythrocytes	99.77
d1u35c1	106	macro-H2A.1, histone domain {Human (Homo sapiens)	99.75
d1f66c_	103	Histone H2A {Human (Homo sapiens), variant H2A.Z [	99.71
d1q9ca_	172	Histone domain of Son of sevenless protein {Human	99.3
d1jfia_	66	Negative cofactor 2, NC2, alpha chain {Human (Homo	97.69
d1f1ea_	151	Archaeal histone {Archaeon Methanopyrus kandleri [	93.7
d1n1jb_	78	Nuclear transcription factor Y subunit gamma (Nf-Y	85.13

>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=99.77  E-value=2.3e-21  Score=124.20  Aligned_cols=41  Identities=56%  Similarity=0.821  Sum_probs=39.5

Q ss_pred             CCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         24 APKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        24 k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      |.+|+|+|||||||||||||+|++|+|++|||++|||||||
T Consensus         1 k~~Srs~rAgL~FpV~rv~r~Lk~~~~~~rv~~~apVylaA   41 (106)
T d1tzya_           1 KAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAA   41 (106)
T ss_dssp             CCCCHHHHHTCSSCHHHHHHHHHHTTSSSEECTHHHHHHHH
T ss_pred             CCccccccCCccCChHHHHHHHHcCccccccCCCchHHHHH
Confidence            46899999999999999999999999999999999999997

>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=99.75  E-value=6.8e-21  Score=121.92  Aligned_cols=39  Identities=44%  Similarity=0.655  Sum_probs=38.0

Q ss_pred             ccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         26 KSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        26 ~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      .|||+|||||||||||||+|++|+|++|||++|||||||
T Consensus         2 ~srs~ragL~FpV~ri~r~Lk~~~~~~rv~~~apVylaA   40 (106)
T d1u35c1           2 TSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAA   40 (106)
T ss_dssp             CCHHHHHTCSSCHHHHHHHHHHHSTTSEECTTHHHHHHH
T ss_pred             CCccccCCcccCHHHHHHHHhCCCCccccCCCCchhHHH
Confidence            589999999999999999999999999999999999997

>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=99.71  E-value=1e-19  Score=115.53  Aligned_cols=40  Identities=45%  Similarity=0.571  Sum_probs=37.8

Q ss_pred             CccccccceeeeehhhhhhhccCCCccc-eeccCCceeeee
Q psy12658         25 PKSRSQRANLVFPVSRCHRFLKKGRYAE-RIGLGAWSINGI   64 (67)
Q Consensus        25 ~~SrS~rAgLqFPVgRv~r~Lr~g~ya~-Rvga~ApVYlaa   64 (67)
                      +.|||+|||||||||||||+|++++|++ ||+++|||||||
T Consensus         1 ~~Srs~rAgL~FpVgrv~r~L~~~~~~~~rv~~~A~VyLaA   41 (103)
T d1f66c_           1 AVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAA   41 (103)
T ss_dssp             CCCHHHHHTCSSCHHHHHHHHHHTSCSSCEECTTHHHHHHH
T ss_pred             CCCccccCCcccChHHHHHHHhccCccceecCCCceeeHHH
Confidence            3699999999999999999999999996 699999999997

>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=99.30  E-value=1.6e-14  Score=98.04  Aligned_cols=42  Identities=24%  Similarity=0.259  Sum_probs=30.8

Q ss_pred             cCCCccccccceeeeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         22 KKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        22 k~k~~SrS~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      ..+..|+|.||||+|||+||||+||++ |++||+++|||||||
T Consensus        86 ~~~~~srs~ragL~fPV~rv~rlLk~~-~a~RVs~~A~vyLaa  127 (172)
T d1q9ca_          86 QSAIEKRKRRNPLSLPVEKIHPLLKEV-LGYKIDHQVSVYIVA  127 (172)
T ss_dssp             HHHHC--------CCCHHHHHHHHHHH-HSSCCCHHHHHHHHH
T ss_pred             HHHHhccccccCceecHHHHHHHHHhc-cccccccchHHHHHH
Confidence            444579999999999999999999997 999999999999987

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

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

Probab=97.69  E-value=1.8e-06  Score=48.76  Aligned_cols=30  Identities=13%  Similarity=0.216  Sum_probs=28.0

Q ss_pred             eeehhhhhhhccCCCccceeccCCceeeee
Q psy12658         35 VFPVSRCHRFLKKGRYAERIGLGAWSINGI   64 (67)
Q Consensus        35 qFPVgRv~r~Lr~g~ya~Rvga~ApVYlaa   64 (67)
                      |||++||.+.++......+|+..||++++.
T Consensus         2 ~fP~srVkkimk~~~~~~~is~~A~~~~~~   31 (66)
T d1jfia_           2 RFPPARIKKIMQTDEEIGKVAAAVPVIISR   31 (66)
T ss_dssp             CCCHHHHHHHHTTSTTCCCBCTTHHHHHHH
T ss_pred             CCChHHHHHHHhcCCccccccHHHHHHHHH
Confidence            699999999999999999999999999863

>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=93.70  E-value=0.0019  Score=40.95  Aligned_cols=34  Identities=21%  Similarity=0.253  Sum_probs=28.9

Q ss_pred             cccceeeeehhhhhhhccCCCccceeccCCceeee
Q psy12658         29 SQRANLVFPVSRCHRFLKKGRYAERIGLGAWSING   63 (67)
Q Consensus        29 S~rAgLqFPVgRv~r~Lr~g~ya~Rvga~ApVYla   63 (67)
                      +.++++.||+++|.|++++.. ..||+..|+++|+
T Consensus        73 ~~~~~~~fp~a~IkRi~k~~g-~~ris~dA~~~l~  106 (151)
T d1f1ea_          73 EDYDGELFGRATVRRILKRAG-IERASSDAVDLYN  106 (151)
T ss_dssp             TTCCSCCCCHHHHHHHHHHTT-CCEECHHHHHHHH
T ss_pred             cccccCccCHHHHHHHHHcCC-cchhhHHHHHHHH
Confidence            456799999999999999754 6799999998875

>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=85.13  E-value=0.042  Score=30.63  Aligned_cols=28  Identities=18%  Similarity=0.247  Sum_probs=24.2

Q ss_pred             eehhhhhhhccCCCccceeccCCceeee
Q psy12658         36 FPVSRCHRFLKKGRYAERIGLGAWSING   63 (67)
Q Consensus        36 FPVgRv~r~Lr~g~ya~Rvga~ApVYla   63 (67)
                      .|++||.+.++......+|++.|+++++
T Consensus         1 LP~srVkrImK~~~~~~~is~ea~~~i~   28 (78)
T d1n1jb_           1 LPLARIKKIMKLDEDVKMISAEAPVLFA   28 (78)
T ss_dssp             CCHHHHHHHHTTSTTCCCBCTHHHHHHH
T ss_pred             CCHHHHHHHHhcCCcccccchHHHHHHH
Confidence            4999999999987777899999988764