Citrus Sinensis ID: 032701

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-----
MSGKGAKGLITGKTTINNNKDKDKKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGVIPHIHKSLINKSSKE
ccccccccccccccccccccccccccccccccccccccccHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccc
cccccccccccccccccccccccccccccHHHHHcccccHHHHHHHHHHccccccEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEcHHHHHHHHHHcHHHHHHcccEEccccccccHHHHHccccccc
msgkgakglitgkttinnnkdkdkkkpvsrssraglqfpvGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGnaskdlkvkritpRHLQLAIRGDEELDTLIKgtiagggviphIHKSlinksske
msgkgakglitgkttinnnkdkdkkkpvsrssraglqfpvgRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGnaskdlkvkritprhlqlairgdeelDTLIKGtiagggviphihkslinksske
MSGKGAKGLITGKTTInnnkdkdkkkPVSRSSRAGLQFPVGRVHRLLKEraaahgrvgataavYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGVIPHIHKSLINKSSKE
************************************QFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGVIPHIHKSL*******
************************************QFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGVIPHIHK**IN*****
********LITGKTTINNN*************RAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGVIPHIHKSLINKSSKE
**********************************GLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGVIPHIHKSLINK****
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MSGKGAKGLITGKTTINNNKDKDKKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGVIPHIHKSLINKSSKE
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query135 2.2.26 [Sep-21-2011]
Q9C944134 Probable histone H2A vari yes no 0.992 1.0 0.896 2e-58
Q84MP7137 Probable histone H2A vari yes no 1.0 0.985 0.854 1e-57
Q9SII0136 Probable histone H2A vari no no 1.0 0.992 0.823 2e-56
O23628136 Histone H2A variant 1 OS= no no 1.0 0.992 0.845 3e-56
Q8H7Y8138 Probable histone H2A vari no no 1.0 0.978 0.855 3e-55
Q8S857139 Probable histone H2A vari no no 1.0 0.971 0.798 5e-53
Q5ZMD6128 Histone H2A.Z OS=Gallus g yes no 0.866 0.914 0.820 1e-49
Q6YNC8128 Histone H2A.Z OS=Ovis ari N/A no 0.866 0.914 0.820 2e-49
P0C0S7128 Histone H2A.Z OS=Rattus n yes no 0.866 0.914 0.820 2e-49
Q5RC42128 Histone H2A.Z OS=Pongo ab yes no 0.866 0.914 0.820 2e-49
>sp|Q9C944|H2AV3_ARATH Probable histone H2A variant 3 OS=Arabidopsis thaliana GN=At1g52740 PE=1 SV=1 Back     alignment and function desciption
 Score =  223 bits (569), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 121/135 (89%), Positives = 129/135 (95%), Gaps = 1/135 (0%)

Query: 1   MSGKGAKGLITGKTTINNNKDKDKKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGAT 60
           MSGKGAKGLI GK +  ++KDKDKKKP++RSSRAGLQFPVGRVHRLLK R+ AHGRVGAT
Sbjct: 1   MSGKGAKGLIMGKPS-GSDKDKDKKKPITRSSRAGLQFPVGRVHRLLKTRSTAHGRVGAT 59

Query: 61  AAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGV 120
           AAVYTAAILEYLTAEVLELAGNASKDLKVKRI+PRHLQLAIRGDEELDTLIKGTIAGGGV
Sbjct: 60  AAVYTAAILEYLTAEVLELAGNASKDLKVKRISPRHLQLAIRGDEELDTLIKGTIAGGGV 119

Query: 121 IPHIHKSLINKSSKE 135
           IPHIHKSLINKS+KE
Sbjct: 120 IPHIHKSLINKSAKE 134
Variant histones H2A are synthesized throughout the cell cycle and are very different from classical S-phase regulated H2A. May replace conventional H2A in a subset of nucleosomes. 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|Q84MP7|H2AV3_ORYSJ Probable histone H2A variant 3 OS=Oryza sativa subsp. japonica GN=Os03g0743400 PE=2 SV=1 Back     alignment and function description
>sp|Q9SII0|H2AV2_ARATH Probable histone H2A variant 2 OS=Arabidopsis thaliana GN=At2g38810 PE=2 SV=1 Back     alignment and function description
>sp|O23628|H2AV1_ARATH Histone H2A variant 1 OS=Arabidopsis thaliana GN=H2AV PE=1 SV=1 Back     alignment and function description
>sp|Q8H7Y8|H2AV1_ORYSJ Probable histone H2A variant 1 OS=Oryza sativa subsp. japonica GN=Os03g0162200 PE=2 SV=1 Back     alignment and function description
>sp|Q8S857|H2AV2_ORYSJ Probable histone H2A variant 2 OS=Oryza sativa subsp. japonica GN=Os10g0418000 PE=2 SV=1 Back     alignment and function description
>sp|Q5ZMD6|H2AZ_CHICK Histone H2A.Z OS=Gallus gallus GN=H2AFZ PE=1 SV=3 Back     alignment and function description
>sp|Q6YNC8|H2AZ_SHEEP Histone H2A.Z OS=Ovis aries GN=H2AFZ PE=2 SV=3 Back     alignment and function description
>sp|P0C0S7|H2AZ_RAT Histone H2A.Z OS=Rattus norvegicus GN=H2afz PE=1 SV=2 Back     alignment and function description
>sp|Q5RC42|H2AZ_PONAB Histone H2A.Z OS=Pongo abelii GN=H2AFZ PE=2 SV=3 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query135
224143081134 histone 2 [Populus trichocarpa] gi|22286 0.992 1.0 0.911 3e-62
224092416134 histone 2 [Populus trichocarpa] gi|22409 0.992 1.0 0.911 4e-62
388520981134 unknown [Medicago truncatula] 0.992 1.0 0.918 6e-62
357436879 345 Histone H2A [Medicago truncatula] gi|355 0.977 0.382 0.917 4e-61
225430153134 PREDICTED: probable histone H2A variant 0.992 1.0 0.903 5e-61
351724333128 uncharacterized protein LOC100500629 [Gl 0.948 1.0 0.896 2e-60
225442801136 PREDICTED: probable histone H2A variant 1.0 0.992 0.926 2e-59
226532207138 uncharacterized protein LOC100273753 [Ze 1.0 0.978 0.855 4e-59
255576964134 histone h2a, putative [Ricinus communis] 0.992 1.0 0.925 8e-59
388506528135 unknown [Lotus japonicus] 1.0 1.0 0.844 9e-59
>gi|224143081|ref|XP_002324843.1| histone 2 [Populus trichocarpa] gi|222866277|gb|EEF03408.1| histone 2 [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  242 bits (618), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 123/135 (91%), Positives = 127/135 (94%), Gaps = 1/135 (0%)

Query: 1   MSGKGAKGLITGKTTINNNKDKDKKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGAT 60
           MSGKGAKGL+T KT    +KDKDKKKP SRSSRAGLQFPVGR+HRLLK RA AHGRVGAT
Sbjct: 1   MSGKGAKGLLTSKTP-AQSKDKDKKKPTSRSSRAGLQFPVGRIHRLLKSRATAHGRVGAT 59

Query: 61  AAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGV 120
           AAVY+AAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGV
Sbjct: 60  AAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGV 119

Query: 121 IPHIHKSLINKSSKE 135
           IPHIHKSLINKSSKE
Sbjct: 120 IPHIHKSLINKSSKE 134

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224092416|ref|XP_002309600.1| histone 2 [Populus trichocarpa] gi|224092420|ref|XP_002309601.1| histone 2 [Populus trichocarpa] gi|118488791|gb|ABK96206.1| unknown [Populus trichocarpa] gi|222855576|gb|EEE93123.1| histone 2 [Populus trichocarpa] gi|222855577|gb|EEE93124.1| histone 2 [Populus trichocarpa] Back     alignment and taxonomy information
>gi|388520981|gb|AFK48552.1| unknown [Medicago truncatula] Back     alignment and taxonomy information
>gi|357436879|ref|XP_003588715.1| Histone H2A [Medicago truncatula] gi|355477763|gb|AES58966.1| Histone H2A [Medicago truncatula] Back     alignment and taxonomy information
>gi|225430153|ref|XP_002284738.1| PREDICTED: probable histone H2A variant 3 [Vitis vinifera] gi|296081964|emb|CBI20969.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|351724333|ref|NP_001237054.1| uncharacterized protein LOC100500629 [Glycine max] gi|255630786|gb|ACU15754.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|225442801|ref|XP_002285266.1| PREDICTED: probable histone H2A variant 3 [Vitis vinifera] gi|147787162|emb|CAN64650.1| hypothetical protein VITISV_002812 [Vitis vinifera] gi|297743375|emb|CBI36242.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|226532207|ref|NP_001141633.1| uncharacterized protein LOC100273753 [Zea mays] gi|242065684|ref|XP_002454131.1| hypothetical protein SORBIDRAFT_04g025140 [Sorghum bicolor] gi|194705342|gb|ACF86755.1| unknown [Zea mays] gi|195605334|gb|ACG24497.1| histone H2A variant 1 [Zea mays] gi|195605602|gb|ACG24631.1| histone H2A variant 1 [Zea mays] gi|195624562|gb|ACG34111.1| histone H2A variant 1 [Zea mays] gi|241933962|gb|EES07107.1| hypothetical protein SORBIDRAFT_04g025140 [Sorghum bicolor] gi|414864935|tpg|DAA43492.1| TPA: histone H2A [Zea mays] Back     alignment and taxonomy information
>gi|255576964|ref|XP_002529367.1| histone h2a, putative [Ricinus communis] gi|223531187|gb|EEF33034.1| histone h2a, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|388506528|gb|AFK41330.1| unknown [Lotus japonicus] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query135
TAIR|locus:2011456134 HTA9 "histone H2A protein 9" [ 0.992 1.0 0.755 1.4e-46
TAIR|locus:2096951136 HTA11 "histone H2A 11" [Arabid 1.0 0.992 0.698 3.1e-44
TAIR|locus:2040384136 HTA8 "histone H2A 8" [Arabidop 1.0 0.992 0.691 3.9e-44
UNIPROTKB|F2Z4M5127 H2AFZ "Histone H2A" [Gallus ga 0.8 0.850 0.759 8.9e-38
UNIPROTKB|Q5ZMD6128 H2AFZ "Histone H2A.Z" [Gallus 0.8 0.843 0.759 8.9e-38
UNIPROTKB|P0C0S4128 H2AFZ "Histone H2A.Z" [Bos tau 0.8 0.843 0.759 8.9e-38
UNIPROTKB|E2R678128 H2AFZ "Uncharacterized protein 0.8 0.843 0.759 8.9e-38
UNIPROTKB|F6X834128 H2AFZ "Histone H2A" [Canis lup 0.8 0.843 0.759 8.9e-38
UNIPROTKB|P0C0S5128 H2AFZ "Histone H2A.Z" [Homo sa 0.8 0.843 0.759 8.9e-38
MGI|MGI:1888388128 H2afz "H2A histone family, mem 0.8 0.843 0.759 8.9e-38
TAIR|locus:2011456 HTA9 "histone H2A protein 9" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 488 (176.8 bits), Expect = 1.4e-46, P = 1.4e-46
 Identities = 102/135 (75%), Positives = 107/135 (79%)

Query:     1 MSGKGAKGLITGKTTIXXXXXXXXXXPVSRSSRAGLQFPVGRVHRLLKEXXXXXXXXXXX 60
             MSGKGAKGLI GK +           P++RSSRAGLQFPVGRVHRLLK            
Sbjct:     1 MSGKGAKGLIMGKPS-GSDKDKDKKKPITRSSRAGLQFPVGRVHRLLKTRSTAHGRVGAT 59

Query:    61 XXXYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGV 120
                YTAAILEYLTAEVLELAGNASKDLKVKRI+PRHLQLAIRGDEELDTLIKGTIAGGGV
Sbjct:    60 AAVYTAAILEYLTAEVLELAGNASKDLKVKRISPRHLQLAIRGDEELDTLIKGTIAGGGV 119

Query:   121 IPHIHKSLINKSSKE 135
             IPHIHKSLINKS+KE
Sbjct:   120 IPHIHKSLINKSAKE 134
GO:0000786 "nucleosome" evidence=IEA
GO:0003677 "DNA binding" evidence=IEA;ISS
GO:0005634 "nucleus" evidence=ISM;IEA
GO:0005773 "vacuole" evidence=IDA
GO:0009909 "regulation of flower development" evidence=IGI;RCA
GO:0042742 "defense response to bacterium" evidence=IGI;RCA
GO:0005515 "protein binding" evidence=IPI
GO:0009266 "response to temperature stimulus" evidence=IGI
GO:0006338 "chromatin remodeling" evidence=RCA
GO:0010468 "regulation of gene expression" evidence=IGI
GO:0044030 "regulation of DNA methylation" evidence=IGI
TAIR|locus:2096951 HTA11 "histone H2A 11" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2040384 HTA8 "histone H2A 8" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|F2Z4M5 H2AFZ "Histone H2A" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|Q5ZMD6 H2AFZ "Histone H2A.Z" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|P0C0S4 H2AFZ "Histone H2A.Z" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E2R678 H2AFZ "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F6X834 H2AFZ "Histone H2A" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|P0C0S5 H2AFZ "Histone H2A.Z" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
MGI|MGI:1888388 H2afz "H2A histone family, member Z" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms

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) ?
Q4PHE4H2AZ_USTMANo assigned EC number0.67400.97030.9703N/Ano
Q5RC42H2AZ_PONABNo assigned EC number0.82050.86660.9140yesno
Q2UJ80H2AZ_ASPORNo assigned EC number0.69020.83700.8188yesno
A5DXC6H2AZ_LODELNo assigned EC number0.72070.82220.8345N/Ano
Q8H7Y8H2AV1_ORYSJNo assigned EC number0.85501.00.9782nono
Q6DER6H2AZL_XENTRNo assigned EC number0.82450.84440.8906nono
Q873G4H2AZ_NEUCRNo assigned EC number0.73830.79250.7482N/Ano
A4QVR2H2AZ_MAGO7No assigned EC number0.73830.79250.7535N/Ano
Q6Y237H2AV_PAGMANo assigned EC number0.82050.86660.9140N/Ano
Q3THW5H2AV_MOUSENo assigned EC number0.82050.86660.9140yesno
Q4IMD1H2AZ_GIBZENo assigned EC number0.73830.79250.7430yesno
A5DQL2H2AZ_PICGUNo assigned EC number0.70270.82220.8345N/Ano
Q32LA7H2AV_BOVINNo assigned EC number0.82050.86660.9140yesno
Q71PD7H2AV_DANRENo assigned EC number0.82050.86660.9140yesno
Q84MP7H2AV3_ORYSJNo assigned EC number0.85401.00.9854yesno
P02272H2AV_CHICKNo assigned EC number0.82050.86660.9140yesno
Q2GUP0H2AZ_CHAGBNo assigned EC number0.71170.82220.7762N/Ano
P08991H2AV_STRPUNo assigned EC number0.84950.83700.904yesno
Q6GM74H2AV_XENLANo assigned EC number0.82050.86660.9140N/Ano
O23628H2AV1_ARATHNo assigned EC number0.84551.00.9926nono
P22647H2AZ_ONCMYNo assigned EC number0.82050.86660.9140N/Ano
A3GHC1H2AZ_PICSTNo assigned EC number0.70270.82220.8409yesno
A1C5F1H2AZ_ASPCLNo assigned EC number0.69020.83700.8188N/Ano
Q5ZMD6H2AZ_CHICKNo assigned EC number0.82050.86660.9140yesno
Q4WE68H2AZ_ASPFUNo assigned EC number0.69640.82960.8115yesno
A1D0C1H2AZ_NEOFINo assigned EC number0.69640.82960.8115N/Ano
Q9C944H2AV3_ARATHNo assigned EC number0.89620.99251.0yesno
Q6BQE9H2AZ_DEBHANo assigned EC number0.70270.82220.8409yesno
Q6YNC8H2AZ_SHEEPNo assigned EC number0.82050.86660.9140N/Ano
Q8S857H2AV2_ORYSJNo assigned EC number0.79851.00.9712nono
Q6CUC8H2AZ_KLULANo assigned EC number0.63700.96290.9848yesno
P0CO00H2AZ_CRYNJNo assigned EC number0.75230.77770.7608yesno
P0CO01H2AZ_CRYNBNo assigned EC number0.75230.77770.7608N/Ano
P08985H2AV_DROMENo assigned EC number0.87270.81480.7801yesno
Q75CC6H2AZ_ASHGONo assigned EC number0.71960.79250.8045yesno
P0C0S6H2AZ_MOUSENo assigned EC number0.82050.86660.9140yesno
P0C0S7H2AZ_RATNo assigned EC number0.82050.86660.9140yesno
P0C0S4H2AZ_BOVINNo assigned EC number0.82050.86660.9140yesno
P0C0S5H2AZ_HUMANNo assigned EC number0.82050.86660.9140yesno
P70094H2AZL_XENLANo assigned EC number0.82450.84440.8906N/Ano
O62695H2AV_RABITNo assigned EC number0.81190.86660.9140yesno
Q5AEE1H2AZ_CANALNo assigned EC number0.72070.82220.8345N/Ano
Q6C341H2AZ_YARLINo assigned EC number0.74750.76290.7357yesno
Q27511H2AV_CAEELNo assigned EC number0.79160.88880.8571yesno
A2R702H2AZ_ASPNCNo assigned EC number0.69020.83700.8188yesno
Q71UI9H2AV_HUMANNo assigned EC number0.82050.86660.9140yesno
P48003H2AZ_SCHPONo assigned EC number0.73830.79250.7697yesno
Q5BJ65H2AV_XENTRNo assigned EC number0.82050.86660.9140yesno
P08992H2AV_TETTSNo assigned EC number0.81300.79250.7328N/Ano
Q9SII0H2AV2_ARATHNo assigned EC number0.82351.00.9926nono

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

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query135
PLN00154136 PLN00154, PLN00154, histone H2A; Provisional 1e-77
PTZ00017134 PTZ00017, PTZ00017, histone H2A; Provisional 5e-60
cd00074115 cd00074, H2A, Histone 2A; H2A is a subunit of the 1e-55
smart00414106 smart00414, H2A, Histone 2A 3e-54
COG5262132 COG5262, HTA1, Histone H2A [Chromatin structure an 1e-42
PLN00157132 PLN00157, PLN00157, histone H2A; Provisional 7e-41
PLN00156139 PLN00156, PLN00156, histone H2AX; Provisional 1e-35
PLN00153129 PLN00153, PLN00153, histone H2A; Provisional 6e-33
pfam0012575 pfam00125, Histone, Core histone H2A/H2B/H3/H4 1e-23
PTZ00252134 PTZ00252, PTZ00252, histone H2A; Provisional 3e-23
PLN0015558 PLN00155, PLN00155, histone H2A; Provisional 2e-09
COG5247113 COG5247, BUR6, Class 2 transcription repressor NC2 1e-04
>gnl|CDD|177756 PLN00154, PLN00154, histone H2A; Provisional Back     alignment and domain information 
 Score =  225 bits (575), Expect = 1e-77
 Identities = 119/136 (87%), Positives = 125/136 (91%), Gaps = 1/136 (0%)

Query: 1   MSGKGAKGLITGKTT-INNNKDKDKKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGA 59
           MSGKG KGL+  KTT     KDKDKKKP SRSSRAGLQFPVGR+HR LK+R +AHGRVGA
Sbjct: 1   MSGKGGKGLLAAKTTAAAAKKDKDKKKPTSRSSRAGLQFPVGRIHRQLKQRVSAHGRVGA 60

Query: 60  TAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGG 119
           TAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGG
Sbjct: 61  TAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGG 120

Query: 120 VIPHIHKSLINKSSKE 135
           VIPHIHKSLINKS+K+
Sbjct: 121 VIPHIHKSLINKSTKK 136

Length = 136
>gnl|CDD|185399 PTZ00017, PTZ00017, histone H2A; Provisional Back     alignment and domain information
>gnl|CDD|238029 cd00074, H2A, Histone 2A; H2A is a subunit of the nucleosome Back     alignment and domain information
>gnl|CDD|197711 smart00414, H2A, Histone 2A Back     alignment and domain information
>gnl|CDD|227587 COG5262, HTA1, Histone H2A [Chromatin structure and dynamics] Back     alignment and domain information
>gnl|CDD|177758 PLN00157, PLN00157, histone H2A; Provisional Back     alignment and domain information
>gnl|CDD|215080 PLN00156, PLN00156, histone H2AX; Provisional Back     alignment and domain information
>gnl|CDD|165721 PLN00153, PLN00153, histone H2A; Provisional Back     alignment and domain information
>gnl|CDD|201020 pfam00125, Histone, Core histone H2A/H2B/H3/H4 Back     alignment and domain information
>gnl|CDD|240330 PTZ00252, PTZ00252, histone H2A; Provisional Back     alignment and domain information
>gnl|CDD|165723 PLN00155, PLN00155, histone H2A; Provisional Back     alignment and domain information
>gnl|CDD|227572 COG5247, BUR6, Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 135
PLN00154136 histone H2A; Provisional 100.0
PTZ00017134 histone H2A; Provisional 100.0
PLN00157132 histone H2A; Provisional 100.0
PLN00153129 histone H2A; Provisional 100.0
PLN00156139 histone H2AX; Provisional 100.0
PTZ00252134 histone H2A; Provisional 100.0
smart00414106 H2A Histone 2A. 100.0
cd00074115 H2A Histone 2A; H2A is a subunit of the nucleosome 100.0
KOG1756131 consensus Histone 2A [Chromatin structure and dyna 100.0
COG5262132 HTA1 Histone H2A [Chromatin structure and dynamics 100.0
KOG1757131 consensus Histone 2A [Chromatin structure and dyna 100.0
PLN0015558 histone H2A; Provisional 99.84
PF0012575 Histone: Core histone H2A/H2B/H3/H4 histone h2a si 99.56
COG5247113 BUR6 Class 2 transcription repressor NC2, alpha su 99.5
KOG1659 224 consensus Class 2 transcription repressor NC2, alp 99.22
PF0080865 CBFD_NFYB_HMF: Histone-like transcription factor ( 98.93
PLN00035103 histone H4; Provisional 98.52
PTZ00015102 histone H4; Provisional 98.39
smart0080365 TAF TATA box binding protein associated factor. TA 98.28
KOG1657236 consensus CCAAT-binding factor, subunit C (HAP5) [ 98.04
COG203691 HHT1 Histones H3 and H4 [Chromatin structure and d 98.03
COG5208286 HAP5 CCAAT-binding factor, subunit C [Transcriptio 97.95
cd0007685 H4 Histone H4, one of the four histones, along wit 97.86
smart0041774 H4 Histone H4. 97.51
cd0798172 TAF12 TATA Binding Protein (TBP) Associated Factor 97.27
cd0804885 TAF11 TATA Binding Protein (TBP) Associated Factor 97.22
PF0471990 TAFII28: hTAFII28-like protein conserved region; I 96.95
PLN00158116 histone H2B; Provisional 96.94
PF0296966 TAF: TATA box binding protein associated factor (T 96.94
PTZ00463117 histone H2B; Provisional 96.73
cd07979117 TAF9 TATA Binding Protein (TBP) Associated Factor 96.73
KOG3219195 consensus Transcription initiation factor TFIID, s 96.57
cd08050 343 TAF6 TATA Binding Protein (TBP) Associated Factor 96.15
smart0042789 H2B Histone H2B. 96.03
smart00428105 H3 Histone H3. 95.47
smart0057677 BTP Bromodomain transcription factors and PHD doma 95.44
PF0941572 CENP-X: CENP-S associating Centromere protein X; I 94.39
KOG3467103 consensus Histone H4 [Chromatin structure and dyna 94.13
KOG0869168 consensus CCAAT-binding factor, subunit A (HAP3) [ 93.97
PF15511414 CENP-T: Centromere kinetochore component CENP-T; P 93.67
KOG1744127 consensus Histone H2B [Chromatin structure and dyn 93.52
PF1563076 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 92.83
KOG0871156 consensus Class 2 transcription repressor NC2, bet 92.21
PF0384768 TFIID_20kDa: Transcription initiation factor TFIID 91.25
KOG1658162 consensus DNA polymerase epsilon, subunit C [Repli 90.64
PF02291129 TFIID-31kDa: Transcription initiation factor IID, 87.94
PTZ00018136 histone H3; Provisional 87.78
PLN00121136 histone H3; Provisional 87.32
PF0752477 Bromo_TP: Bromodomain associated; InterPro: IPR006 87.06
cd0797892 TAF13 The TATA Binding Protein (TBP) Associated Fa 86.49
PLN0016097 histone H3; Provisional 84.43
KOG0870172 consensus DNA polymerase epsilon, subunit D [Trans 83.8
PLN00161135 histone H3; Provisional 83.01
PF0286153 Clp_N: Clp amino terminal domain; InterPro: IPR004 82.81
PF0226993 TFIID-18kDa: Transcription initiation factor IID, 80.93
>PLN00154 histone H2A; Provisional Back     alignment and domain information 
Probab=100.00  E-value=7.5e-52  Score=307.75  Aligned_cols=135  Identities=88%  Similarity=1.234  Sum_probs=123.0

Q ss_pred             CCCCCCCcccccccc-ccCCCCCCCCCCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHH
Q 032701            1 MSGKGAKGLITGKTT-INNNKDKDKKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLEL   79 (135)
Q Consensus         1 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILel   79 (135)
                      |++++||+|+|||.. .+..+...+++..|||+||||||||+||+|+|+++++..+||+++|||||+||||||++|||||
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~k~~srS~rAgL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLEL   80 (136)
T PLN00154          1 MSGKGGKGLLAAKTTAAAAKKDKDKKKPTSRSSRAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLEL   80 (136)
T ss_pred             CCCccccccccCCcCCcccccccCCcCCcCcccccCccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHH
Confidence            889999999998853 2334455567899999999999999999999999984334999999999999999999999999


Q ss_pred             HHHHHHhCCCceechhhHHHHhhCChHHHHHhhccccCCcccCCCccccccccCCC
Q 032701           80 AGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGVIPHIHKSLINKSSKE  135 (135)
Q Consensus        80 Ag~~A~~~~~~rItP~hI~~aI~nD~EL~~L~~~~ia~ggv~p~i~~~l~~~~~~~  135 (135)
                      |+|+|++++++||+|+||++||+||+||++||+.||++|||+|+||++|+|++.++
T Consensus        81 AGNaA~d~kk~RItPrHi~lAIrnDeEL~~Ll~~TIa~GGVlP~i~~~l~~k~~~~  136 (136)
T PLN00154         81 AGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGVIPHIHKSLINKSTKK  136 (136)
T ss_pred             HHHHHHhhCCceecHHHhhhhccCcHHHHHHhcCCccCCccCCCcchhhcccccCC
Confidence            99999999999999999999999999999999889999999999999999999764

>PTZ00017 histone H2A; Provisional Back     alignment and domain information
>PLN00157 histone H2A; Provisional Back     alignment and domain information
>PLN00153 histone H2A; Provisional Back     alignment and domain information
>PLN00156 histone H2AX; Provisional Back     alignment and domain information
>PTZ00252 histone H2A; Provisional Back     alignment and domain information
>smart00414 H2A Histone 2A Back     alignment and domain information
>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome Back     alignment and domain information
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics] Back     alignment and domain information
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics] Back     alignment and domain information
>KOG1757 consensus Histone 2A [Chromatin structure and dynamics] Back     alignment and domain information
>PLN00155 histone H2A; Provisional Back     alignment and domain information
>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 [, ] Back     alignment and domain information
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription] Back     alignment and domain information
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription] Back     alignment and domain information
>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 Back     alignment and domain information
>PLN00035 histone H4; Provisional Back     alignment and domain information
>PTZ00015 histone H4; Provisional Back     alignment and domain information
>smart00803 TAF TATA box binding protein associated factor Back     alignment and domain information
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription] Back     alignment and domain information
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics] Back     alignment and domain information
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription] Back     alignment and domain information
>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 Back     alignment and domain information
>smart00417 H4 Histone H4 Back     alignment and domain information
>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 Back     alignment and domain information
>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 Back     alignment and domain information
>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 Back     alignment and domain information
>PLN00158 histone H2B; Provisional Back     alignment and domain information
>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 Back     alignment and domain information
>PTZ00463 histone H2B; Provisional Back     alignment and domain information
>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 Back     alignment and domain information
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription] Back     alignment and domain information
>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 Back     alignment and domain information
>smart00427 H2B Histone H2B Back     alignment and domain information
>smart00428 H3 Histone H3 Back     alignment and domain information
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins Back     alignment and domain information
>PF09415 CENP-X: CENP-S associating Centromere protein X; InterPro: IPR018552 Centromere protein X (CENP-X) is a component of the CENP-S complex Back     alignment and domain information
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics] Back     alignment and domain information
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription] Back     alignment and domain information
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T Back     alignment and domain information
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics] Back     alignment and domain information
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C Back     alignment and domain information
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription] Back     alignment and domain information
>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 [] Back     alignment and domain information
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair] Back     alignment and domain information
>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 [] Back     alignment and domain information
>PTZ00018 histone H3; Provisional Back     alignment and domain information
>PLN00121 histone H3; Provisional Back     alignment and domain information
>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO) Back     alignment and domain information
>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 Back     alignment and domain information
>PLN00160 histone H3; Provisional Back     alignment and domain information
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription] Back     alignment and domain information
>PLN00161 histone H3; Provisional Back     alignment and domain information
>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 Back     alignment and domain information
>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) Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query135
1f66_C128 2.6 A Crystal Structure Of A Nucleosome Core Partic 2e-41
2jss_A192 Nmr Structure Of Chaperone Chz1 Complexed With Hist 6e-32
2hio_A128 Histone Octamer (Chicken), Chromosomal Protein Leng 7e-28
1eqz_A129 X-Ray Structure Of The Nucleosome Core Particle At 8e-28
2nqb_C123 Drosophila Nucleosome Structure Length = 123 2e-27
2pyo_C120 Drosophila Nucleosome Core Length = 120 3e-27
1m18_C129 Ligand Binding Alters The Structure And Dynamics Of 3e-27
1zbb_C129 Structure Of The 4_601_167 Tetranucleosome Length = 3e-27
3c1b_C129 The Effect Of H3 K79 Dimethylation And H4 K20 Trime 4e-27
2cv5_C130 Crystal Structure Of Human Nucleosome Core Particle 4e-27
3kwq_C107 Structural Characterization Of H3k56q Nucleosomes A 4e-27
2f8n_K149 2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a Nuc 5e-27
1aoi_C116 Complex Between Nucleosome Core Particle (H3,H4,H2a 5e-27
3a6n_C133 The Nucleosome Containing A Testis-Specific Histone 5e-27
1s32_C119 Molecular Recognition Of The Nucleosomal 'supergroo 6e-27
1kx3_C128 X-Ray Structure Of The Nucleosome Core Particle, Nc 1e-26
1zla_C129 X-Ray Structure Of A Kaposi's Sarcoma Herpesvirus L 2e-26
1hio_A95 Histone Octamer (Chicken), Chromosomal Protein, Alp 3e-26
1id3_C131 Crystal Structure Of The Yeast Nucleosome Core Part 5e-26
2xql_A91 Fitting Of The H2a-H2b Histones In The Electron Mic 6e-24
1u35_C120 Crystal Structure Of The Nucleosome Core Particle C 2e-22
3ksy_A 1049 Crystal Structure Of The Histone Domain, Dh-Ph Unit 5e-06
1q9c_A191 Crystal Structure Of The Histone Domain Of Son Of S 8e-06
>pdb|1F66|C Chain C, 2.6 A Crystal Structure Of A Nucleosome Core Particle Containing The Variant Histone H2a.Z Length = 128 Back     alignment and structure 
Iteration: 1

 Score =  164 bits (414), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 82/108 (75%), Positives = 87/108 (80%)
Query: 28  VSRSSRAGLQFPVGRVHRLLKEXXXXXXXXXXXXXXYTAAILEYLTAEVLELAGNASKDL 87
           VSRS RAGLQFPVGR+HR LK               Y+AAILEYLTAEVLELAGNASKDL
Sbjct: 18  VSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDL 77
Query: 88  KVKRITPRHLQLAIRGDEELDTLIKGTIAGGGVIPHIHKSLINKSSKE 135
           KVKRITPRHLQLAIRGDEELD+LIK TIAGGGVIPHIHKSLI K  ++
Sbjct: 78  KVKRITPRHLQLAIRGDEELDSLIKATIAGGGVIPHIHKSLIGKKGQQ 125
>pdb|2JSS|A Chain A, Nmr Structure Of Chaperone Chz1 Complexed With Histone H2a.Z-H2b Length = 192 Back     alignment and structure
>pdb|2HIO|A Chain A, Histone Octamer (Chicken), Chromosomal Protein Length = 128 Back     alignment and structure
>pdb|1EQZ|A Chain A, X-Ray Structure Of The Nucleosome Core Particle At 2.5 A Resolution Length = 129 Back     alignment and structure
>pdb|2NQB|C Chain C, Drosophila Nucleosome Structure Length = 123 Back     alignment and structure
>pdb|2PYO|C Chain C, Drosophila Nucleosome Core Length = 120 Back     alignment and structure
>pdb|1M18|C Chain C, Ligand Binding Alters The Structure And Dynamics Of Nucleosomal Dna Length = 129 Back     alignment and structure
>pdb|1ZBB|C Chain C, Structure Of The 4_601_167 Tetranucleosome Length = 129 Back     alignment and structure
>pdb|3C1B|C Chain C, The Effect Of H3 K79 Dimethylation And H4 K20 Trimethylation On Nucleosome And Chromatin Structure Length = 129 Back     alignment and structure
>pdb|2CV5|C Chain C, Crystal Structure Of Human Nucleosome Core Particle Length = 130 Back     alignment and structure
>pdb|3KWQ|C Chain C, Structural Characterization Of H3k56q Nucleosomes And Nucleo Arrays Length = 107 Back     alignment and structure
>pdb|2F8N|K Chain K, 2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a Nucleosomes Length = 149 Back     alignment and structure
>pdb|1AOI|C Chain C, Complex Between Nucleosome Core Particle (H3,H4,H2a,H2b) And 146 Bp Long Dna Fragment Length = 116 Back     alignment and structure
>pdb|3A6N|C Chain C, The Nucleosome Containing A Testis-Specific Histone Variant, Human H3t Length = 133 Back     alignment and structure
>pdb|1S32|C Chain C, Molecular Recognition Of The Nucleosomal 'supergroove' Length = 119 Back     alignment and structure
>pdb|1KX3|C Chain C, X-Ray Structure Of The Nucleosome Core Particle, Ncp146, At 2.0 A Resolution Length = 128 Back     alignment and structure
>pdb|1ZLA|C Chain C, X-Ray Structure Of A Kaposi's Sarcoma Herpesvirus Lana Peptide Bound To The Nucleosomal Core Length = 129 Back     alignment and structure
>pdb|1HIO|A Chain A, Histone Octamer (Chicken), Chromosomal Protein, Alpha Carbons Only Length = 95 Back     alignment and structure
>pdb|1ID3|C Chain C, Crystal Structure Of The Yeast Nucleosome Core Particle Reveals Fundamental Differences In Inter-Nucleosome Interactions Length = 131 Back     alignment and structure
>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 Back     alignment and structure
>pdb|1U35|C Chain C, Crystal Structure Of The Nucleosome Core Particle Containing The Histone Domain Of Macroh2a Length = 120 Back     alignment and structure
>pdb|3KSY|A Chain A, Crystal Structure Of The Histone Domain, Dh-Ph Unit, And Catalytic Unit Of The Ras Activator Son Of Sevenless (Sos) Length = 1049 Back     alignment and structure
>pdb|1Q9C|A Chain A, Crystal Structure Of The Histone Domain Of Son Of Sevenless Length = 191 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query135
1f66_C128 Histone H2A.Z; nucleosome, chromatin, histone vari 9e-40
1tzy_A129 Histone H2A-IV; histone-fold, tetramer-dimer-dimer 7e-39
2f8n_K149 Histone H2A type 1; nucleosome, NCP, macroh2A, his 2e-38
2f8n_G120 Core histone macro-H2A.1; nucleosome, NCP, macroh2 1e-37
2nqb_C123 Histone H2A; nucleosome, NCP, chromatin, structura 2e-36
1id3_C131 Histone H2A.1; nucleosome core particle, chromatin 7e-35
2jss_A192 Chimera of histone H2B.1 and histone H2A.Z; histon 6e-28
1jfi_A98 Transcription regulator NC2 alpha chain; histone, 7e-17
3ksy_A 1049 SOS-1, SON of sevenless homolog 1; RAS, RAS activa 7e-12
1n1j_B97 NF-YC; histone-like PAIR, DNA binding protein; 1.6 3e-08
2byk_A140 Chrac-16; nucleosome sliding, histone fold, DNA-bi 3e-05
>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 Back     alignment and structure
 Score =  128 bits (323), Expect = 9e-40
 Identities = 99/135 (73%), Positives = 107/135 (79%), Gaps = 10/135 (7%)

Query: 1   MSGKGAKGLITGKTTINNNKDKDKKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGAT 60
           M+G  A            +  K K K VSRS RAGLQFPVGR+HR LK R  +HGRVGAT
Sbjct: 1   MAGGKAGK----------DSGKAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGAT 50

Query: 61  AAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGV 120
           AAVY+AAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELD+LIK TIAGGGV
Sbjct: 51  AAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIKATIAGGGV 110

Query: 121 IPHIHKSLINKSSKE 135
           IPHIHKSLI K  ++
Sbjct: 111 IPHIHKSLIGKKGQQ 125
>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 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C* Length = 123 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>1n1j_B NF-YC; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens} SCOP: a.22.1.3 Length = 97 Back     alignment and structure
>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 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query135
1f66_C128 Histone H2A.Z; nucleosome, chromatin, histone vari 100.0
2f8n_G120 Core histone macro-H2A.1; nucleosome, NCP, macroh2 100.0
1id3_C131 Histone H2A.1; nucleosome core particle, chromatin 100.0
2nqb_C123 Histone H2A; nucleosome, NCP, chromatin, structura 100.0
1tzy_A129 Histone H2A-IV; histone-fold, tetramer-dimer-dimer 100.0
2f8n_K149 Histone H2A type 1; nucleosome, NCP, macroh2A, his 100.0
2jss_A192 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 99.93
1jfi_A98 Transcription regulator NC2 alpha chain; histone, 99.89
1n1j_B97 NF-YC; histone-like PAIR, DNA binding protein; 1.6 99.78
4g92_C119 HAPE; transcription factor, nucleosome, minor groo 99.76
2byk_A140 Chrac-16; nucleosome sliding, histone fold, DNA-bi 99.69
1tzy_D103 Histone H4-VI; histone-fold, tetramer-dimer-dimer, 99.63
2yfw_B103 Histone H4, H4; cell cycle, kinetochore, centromer 99.62
1f1e_A154 Histone fold protein; archaeal histone protein, DN 99.26
1b67_A68 Protein (histone HMFA); DNA binding protein; 1.48A 98.98
1id3_B102 Histone H4; nucleosome core particle, chromatin, p 98.91
1ku5_A70 HPHA, archaeal histon; histone fold, DNA binding p 98.9
1n1j_A93 NF-YB; histone-like PAIR, DNA binding protein; 1.6 98.64
2byk_B128 Chrac-14; nucleosome sliding, histone fold, DNA-bi 98.51
3b0c_W76 CENP-W, centromere protein W; histone fold, DNA bi 98.47
2hue_C84 Histone H4; mini beta sheet, elongated beta sandwh 98.22
1f1e_A154 Histone fold protein; archaeal histone protein, DN 98.19
1taf_B70 TFIID TBP associated factor 62; transcription init 98.03
1jfi_B179 DR1 protein, transcription regulator NC2 beta chai 97.86
3b0c_T111 CENP-T, centromere protein T; histone fold, DNA bi 97.82
1taf_A68 TFIID TBP associated factor 42; transcription init 97.46
4dra_A113 Centromere protein S; DNA binding complex, DNA dam 97.34
3b0b_B107 CENP-S, centromere protein S; histone fold, DNA bi 97.28
1tzy_B126 Histone H2B; histone-fold, tetramer-dimer-dimer, D 97.23
2nqb_D123 Histone H2B; nucleosome, NCP, chromatin, structura 97.23
3v9r_A90 MHF1, uncharacterized protein YOL086W-A; histone f 97.21
2hue_B77 Histone H3; mini beta sheet, elongated beta sandwh 97.09
3vh5_A140 CENP-S; histone fold, chromosome segregation, DNA 97.07
1bh9_B89 TAFII28; histone fold, tata binding protein, trans 96.93
3nqj_A82 Histone H3-like centromeric protein A; alpha helix 96.92
3r45_A156 Histone H3-like centromeric protein A; histone fol 96.89
1tzy_C136 Histone H3; histone-fold, tetramer-dimer-dimer, DN 96.78
3nqu_A140 Histone H3-like centromeric protein A; alpha helix 96.72
2yfv_A100 Histone H3-like centromeric protein CSE4; cell cyc 96.69
2jss_A192 Chimera of histone H2B.1 and histone H2A.Z; histon 96.48
4dra_E84 Centromere protein X; DNA binding complex, DNA dam 96.08
3b0b_C81 CENP-X, centromere protein X; histone fold, DNA bi 96.06
2ly8_A121 Budding yeast chaperone SCM3; centromere protein, 95.76
2l5a_A235 Histone H3-like centromeric protein CSE4, protein 95.44
1k6k_A143 ATP-dependent CLP protease ATP-binding subunit CLP 90.7
1h3o_B76 Transcription initiation factor TFIID 20/15 kDa su 90.34
1wwi_A148 Hypothetical protein TTHA1479; structural genomics 86.07
1khy_A148 CLPB protein; alpha helix, chaperone; 1.95A {Esche 85.96
2y1q_A150 CLPC N-domain, negative regulator of genetic compe 85.84
3fes_A145 ATP-dependent CLP endopeptidase; alpha-helical bun 84.78
3fh2_A146 Probable ATP-dependent protease (heat shock prote; 84.36
>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 Back     alignment and structure
Probab=100.00  E-value=4.1e-48  Score=285.40  Aligned_cols=124  Identities=79%  Similarity=1.135  Sum_probs=100.6

Q ss_pred             cccccccccCCCCCCCCCCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCC
Q 032701            9 LITGKTTINNNKDKDKKKPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLK   88 (135)
Q Consensus         9 ~~~~~~~~~~~~~~~~~~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~   88 (135)
                      |++||.+  ++.++.+++++|+|+||||||||+||+|||++++|+.+||+++|||||+||||||++||||+|+|+|++++
T Consensus         1 m~~~~~~--~~~~~~~~~~~srS~ragLqfPV~ri~R~Lk~~~~a~~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k   78 (128)
T 1f66_C            1 MAGGKAG--KDSGKAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK   78 (128)
T ss_dssp             ------------------CCCHHHHHTCSSCHHHHHHHHHHTSCSSCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             CCCCCCC--CCCCCcCCCCcCccccCCccCChHHHHHHHHHcccchhhccccHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            3455532  23445567789999999999999999999999998756999999999999999999999999999999999


Q ss_pred             CceechhhHHHHhhCChHHHHHhhccccCCcccCCCccccccccCC
Q 032701           89 VKRITPRHLQLAIRGDEELDTLIKGTIAGGGVIPHIHKSLINKSSK  134 (135)
Q Consensus        89 ~~rItP~hI~~aI~nD~EL~~L~~~~ia~ggv~p~i~~~l~~~~~~  134 (135)
                      +++|+|+||++||+||+||++||+.||++|||+|+||++|+||+.+
T Consensus        79 ~krItprhi~lAI~nDeEL~~Ll~~tia~ggv~P~i~~~l~~k~~~  124 (128)
T 1f66_C           79 VKRITPRHLQLAIRGDEELDSLIKATIAGGGVIPHIHKSLIGKKGQ  124 (128)
T ss_dssp             CSEECHHHHHHHHHHSHHHHHHCCSEETTCCCCCCCCGGGC-----
T ss_pred             CCeEcHHHHHHHHhccHHHhhhhcceecCCccCCCCCHHhcCcccc
Confidence            9999999999999999999999977999999999999999999875
>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 Back     alignment and structure
>1id3_C Histone H2A.1; nucleosome core particle, chromatin, protein/DNA interaction, nucleoprotein, supercoiled DNA; 3.10A {Saccharomyces cerevisiae} SCOP: a.22.1.1 Back     alignment and structure
>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C* Back     alignment and structure
>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 ... Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>1n1j_B NF-YC; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens} SCOP: a.22.1.3 Back     alignment and structure
>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* Back     alignment and structure
>2byk_A Chrac-16; nucleosome sliding, histone fold, DNA-binding protein; 2.4A {Drosophila melanogaster} SCOP: a.22.1.3 PDB: 2bym_A Back     alignment and structure
>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 ... Back     alignment and structure
>2yfw_B Histone H4, H4; cell cycle, kinetochore, centromere, histone chaperone, BUDD; 2.60A {Kluyveromyces lactis nrrl y-1140} Back     alignment and structure
>1f1e_A Histone fold protein; archaeal histone protein, DNA binding protein; HET: MSE; 1.37A {Methanopyrus kandleri} SCOP: a.22.1.2 Back     alignment and structure
>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 Back     alignment and structure
>1id3_B Histone H4; nucleosome core particle, chromatin, protein/DNA interaction, nucleoprotein, supercoiled DNA; 3.10A {Saccharomyces cerevisiae} SCOP: a.22.1.1 Back     alignment and structure
>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A {Pyrococcus horikoshii} SCOP: a.22.1.2 Back     alignment and structure
>1n1j_A NF-YB; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens} SCOP: a.22.1.3 Back     alignment and structure
>2byk_B Chrac-14; nucleosome sliding, histone fold, DNA-binding protein; 2.4A {Drosophila melanogaster} SCOP: a.22.1.3 PDB: 2bym_B Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>1f1e_A Histone fold protein; archaeal histone protein, DNA binding protein; HET: MSE; 1.37A {Methanopyrus kandleri} SCOP: a.22.1.2 Back     alignment and structure
>1taf_B TFIID TBP associated factor 62; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>1taf_A TFIID TBP associated factor 42; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3 Back     alignment and structure
>4dra_A Centromere protein S; DNA binding complex, DNA damage repair, histone-fold, DNA BI protein; 2.41A {Homo sapiens} PDB: 4drb_A Back     alignment and structure
>3b0b_B CENP-S, centromere protein S; histone fold, DNA binding, DNA, nucleus, DNA binding protein; 2.15A {Gallus gallus} Back     alignment and structure
>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 ... Back     alignment and structure
>2nqb_D Histone H2B; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_D* Back     alignment and structure
>3v9r_A MHF1, uncharacterized protein YOL086W-A; histone fold, fanconi anemia, DNA repair, DNA BI protein; 2.40A {Saccharomyces cerevisiae} Back     alignment and structure
>2hue_B Histone H3; mini beta sheet, elongated beta sandwhich, DNA binding prote; 1.70A {Xenopus laevis} Back     alignment and structure
>3vh5_A CENP-S; histone fold, chromosome segregation, DNA binding, nucleus, binding protein; 2.40A {Gallus gallus} PDB: 3vh6_A Back     alignment and structure
>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* Back     alignment and structure
>3nqj_A Histone H3-like centromeric protein A; alpha helix, histone fold, centromere, DNA binding protein; 2.10A {Homo sapiens} Back     alignment and structure
>3r45_A Histone H3-like centromeric protein A; histone fold, centromere, CENP-A, histone chaperone, hjurp; 2.60A {Homo sapiens} Back     alignment and structure
>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 ... Back     alignment and structure
>3nqu_A Histone H3-like centromeric protein A; alpha helix, histone fold, centromere, DNA binding protein; 2.50A {Homo sapiens} PDB: 3an2_A Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>4dra_E Centromere protein X; DNA binding complex, DNA damage repair, histone-fold, DNA BI protein; 2.41A {Homo sapiens} PDB: 4drb_J Back     alignment and structure
>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 Back     alignment and structure
>2ly8_A Budding yeast chaperone SCM3; centromere protein, CENH3 variants, partially unfolded; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>2l5a_A Histone H3-like centromeric protein CSE4, protein histone H4; A single chain of CSE4+SCM3+H4, fusion protein; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>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* Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>1khy_A CLPB protein; alpha helix, chaperone; 1.95A {Escherichia coli} SCOP: a.174.1.1 Back     alignment and structure
>2y1q_A CLPC N-domain, negative regulator of genetic competence CLPC/MEC; transcription, proteolysis; 1.50A {Bacillus subtilis} PDB: 2y1r_A* 2k77_A Back     alignment and structure
>3fes_A ATP-dependent CLP endopeptidase; alpha-helical bundles, structural genomics, PSI-2, protein S initiative; HET: PG4 EPE; 1.82A {Clostridium difficile} Back     alignment and structure
>3fh2_A Probable ATP-dependent protease (heat shock prote; struct genomics, PSI2, MCSG, protein structure initiative; 1.60A {Corynebacterium glutamicum} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 135
d1tzya_106 a.22.1.1 (A:) Histone H2A {Chicken (Gallus gallus) 4e-50
d1f66c_103 a.22.1.1 (C:) Histone H2A {Human (Homo sapiens), v 1e-49
d1u35c1106 a.22.1.1 (C:814-919) macro-H2A.1, histone domain { 2e-49
d1q9ca_172 a.22.1.3 (A:) Histone domain of Son of sevenless p 2e-37
d1jfia_66 a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chai 2e-17
d1n1jb_78 a.22.1.3 (B:) Nuclear transcription factor Y subun 2e-17
d1f1ea_151 a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy 8e-10
d1f1ea_151 a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy 7e-06
d1htaa_68 a.22.1.2 (A:) Archaeal histone {Archaeon Methanoth 0.002
>d1tzya_ a.22.1.1 (A:) Histone H2A {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]} Length = 106 Back     information, alignment and structure

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 =  153 bits (387), Expect = 4e-50
 Identities = 72/107 (67%), Positives = 83/107 (77%), Gaps = 2/107 (1%)

Query: 26  KPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASK 85
           K  SRSSRAGLQFPVGRVHRLL++   A  RVGA A VY AA+LEYLTAE+LELAGNA++
Sbjct: 1   KAKSRSSRAGLQFPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNAAR 59

Query: 86  DLKVKRITPRHLQLAIRGDEELDTLIKG-TIAGGGVIPHIHKSLINK 131
           D K  RI PRHLQLAIR DEEL+ L+   TIA GGV+P+I   L+ K
Sbjct: 60  DNKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPK 106
>d1f66c_ a.22.1.1 (C:) Histone H2A {Human (Homo sapiens), variant H2A.Z [TaxId: 9606]} Length = 103 Back     information, alignment and structure
>d1u35c1 a.22.1.1 (C:814-919) macro-H2A.1, histone domain {Human (Homo sapiens) [TaxId: 9606]} Length = 106 Back     information, alignment and structure
>d1q9ca_ a.22.1.3 (A:) Histone domain of Son of sevenless protein {Human (Homo sapiens) [TaxId: 9606]} Length = 172 Back     information, alignment and structure
>d1jfia_ a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chain {Human (Homo sapiens) [TaxId: 9606]} Length = 66 Back     information, alignment and structure
>d1n1jb_ a.22.1.3 (B:) Nuclear transcription factor Y subunit gamma (Nf-Yc2) {Human (Homo sapiens) [TaxId: 9606]} Length = 78 Back     information, alignment and structure
>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} Length = 151 Back     information, alignment and structure
>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} Length = 151 Back     information, alignment and structure
>d1htaa_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanothermus fervidus, histone A [TaxId: 2180]} Length = 68 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query135
d1tzya_106 Histone H2A {Chicken (Gallus gallus), erythrocytes 100.0
d1u35c1106 macro-H2A.1, histone domain {Human (Homo sapiens) 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 99.63
d1n1jb_78 Nuclear transcription factor Y subunit gamma (Nf-Y 99.5
d1f1ea_151 Archaeal histone {Archaeon Methanopyrus kandleri [ 99.25
d1ku5a_66 Archaeal histone {Archaeon (Pyrococcus horikoshii) 98.96
d1htaa_68 Archaeal histone {Archaeon Methanothermus fervidus 98.95
d1n1ja_87 Nuclear transcription factor Y subunit beta (Nf-Yb 98.9
d1jfib_135 Negative cofactor 2, NC2, beta chain {Human (Homo 98.58
d2byka172 Chrac-16 {Fruit fly (Drosophila melanogaster) [Tax 98.47
d1f1ea_151 Archaeal histone {Archaeon Methanopyrus kandleri [ 98.44
d2bykb189 Chrac-14 {Fruit fly (Drosophila melanogaster) [Tax 98.34
d2huec182 Histone H4 {African clawed frog (Xenopus laevis) [ 97.8
d1bh9b_89 TAF(II)28 {Human (Homo sapiens) [TaxId: 9606]} 96.91
d1tzyb_92 Histone H2B {Chicken (Gallus gallus), erythrocytes 96.68
d1tafb_70 TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta 95.83
d1tzyc_95 Histone H3 {Chicken (Gallus gallus), erythrocytes 95.58
d1k6ka_142 N-terminal, ClpS-binding domain of ClpA, an Hsp100 92.49
d1tafa_68 TAF(II)42 {Fruit fly (Drosophila melanogaster) [Ta 90.71
d1khya_139 N-terminal domain of ClpB (heat shock protein F84. 88.78
d1qvra1145 N-terminal domain of ClpB (heat shock protein F84. 88.62
d1h3ob_74 TAF(II)-20, (TAF(II)-15, hTAF12), histone fold dom 88.5
d1wwia1148 Hypothetical protein TTHA1479 {Thermus thermophilu 86.58
>d1tzya_ a.22.1.1 (A:) Histone H2A {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]} Back     information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H2A
species: Chicken (Gallus gallus), erythrocytes [TaxId: 9031]

Probab=100.00  E-value=2.2e-48  Score=276.87  Aligned_cols=105  Identities=69%  Similarity=0.983  Sum_probs=102.5

Q ss_pred             CCCCcccccCcccchhHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCceechhhHHHHhhCCh
Q 032701           26 KPVSRSSRAGLQFPVGRVHRLLKERAAAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDE  105 (135)
Q Consensus        26 ~~~s~SsRagL~FPVsrv~r~L~~~~~~~~RIs~~ApVyLaAvLEYL~aEILelAg~~A~~~~~~rItP~hI~~aI~nD~  105 (135)
                      +.+|||+||||||||+||+|+|++++|++ ||+++|||||+||||||++||||||||+|++++++||+|+||++||+||+
T Consensus         1 k~~Srs~rAgL~FpV~rv~r~Lk~~~~~~-rv~~~apVylaAVLEYLtaEiLELAgn~a~~~k~~rItPrhi~lAirnDe   79 (106)
T d1tzya_           1 KAKSRSSRAGLQFPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRNDE   79 (106)
T ss_dssp             CCCCHHHHHTCSSCHHHHHHHHHHTTSSS-EECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHTSH
T ss_pred             CCccccccCCccCChHHHHHHHHcCcccc-ccCCCchHHHHHHHHHHHHHHHHHhhHHHHhcCCceecchhhhhcccCHH
Confidence            46899999999999999999999999986 99999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhc-cccCCcccCCCccccccc
Q 032701          106 ELDTLIKG-TIAGGGVIPHIHKSLINK  131 (135)
Q Consensus       106 EL~~L~~~-~ia~ggv~p~i~~~l~~~  131 (135)
                      ||++||.+ ||++|||+|+||++|+||
T Consensus        80 eL~~L~~~vtI~~GGv~P~Ih~~Llpk  106 (106)
T d1tzya_          80 ELNKLLGKVTIAQGGVLPNIQAVLLPK  106 (106)
T ss_dssp             HHHHHTTTEEETTCCCCCCCCGGGSCC
T ss_pred             HHHHHHcCCeecCCCccCccCHhhcCC
Confidence            99999999 999999999999999987
>d1u35c1 a.22.1.1 (C:814-919) macro-H2A.1, histone domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1f66c_ a.22.1.1 (C:) Histone H2A {Human (Homo sapiens), variant H2A.Z [TaxId: 9606]} Back     information, alignment and structure
>d1q9ca_ a.22.1.3 (A:) Histone domain of Son of sevenless protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jfia_ a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1n1jb_ a.22.1.3 (B:) Nuclear transcription factor Y subunit gamma (Nf-Yc2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} Back     information, alignment and structure
>d1ku5a_ a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococcus horikoshii) [TaxId: 53953]} Back     information, alignment and structure
>d1htaa_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanothermus fervidus, histone A [TaxId: 2180]} Back     information, alignment and structure
>d1n1ja_ a.22.1.3 (A:) Nuclear transcription factor Y subunit beta (Nf-Yb3) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jfib_ a.22.1.3 (B:) Negative cofactor 2, NC2, beta chain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2byka1 a.22.1.3 (A:29-100) Chrac-16 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} Back     information, alignment and structure
>d2bykb1 a.22.1.3 (B:11-99) Chrac-14 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]} Back     information, alignment and structure
>d1bh9b_ a.22.1.3 (B:) TAF(II)28 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1tzyb_ a.22.1.1 (B:) Histone H2B {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]} Back     information, alignment and structure
>d1tafb_ a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d1tzyc_ a.22.1.1 (C:) Histone H3 {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]} Back     information, alignment and structure
>d1k6ka_ a.174.1.1 (A:) N-terminal, ClpS-binding domain of ClpA, an Hsp100 chaperone {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1tafa_ a.22.1.3 (A:) TAF(II)42 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d1khya_ a.174.1.1 (A:) N-terminal domain of ClpB (heat shock protein F84.1) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1qvra1 a.174.1.1 (A:4-148) N-terminal domain of ClpB (heat shock protein F84.1) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1h3ob_ a.22.1.3 (B:) TAF(II)-20, (TAF(II)-15, hTAF12), histone fold domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wwia1 a.22.1.4 (A:1-148) Hypothetical protein TTHA1479 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure