Citrus Sinensis ID: 034435

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-----
Protein Sequence
MAAEAPASPGGGSHESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFLFIFVCFFFPSFFCG
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccHHHHccccHHHHHHHHHHccccccEEcHHHHHHHHHHHHHHHHHHHHHHHHEHHHHHHHHHHHccccccc
Coil and Loop (DISEMBL)
maaeapaspgggshesgeqsprsnvreqdrylpiANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFLFIFVCfffpsffcg
Flexible Loop (DISEMBL)
maaeapaspgggshesgeqsprsnvreqdrYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFLFIFVCFFFPSFFCG
Low Complexity Region (SEG)
MaaeapaspgggsHESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDvvvlflfifvcfffpsffcG
Disordered region (IsUnstruct)
******************************YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFLFIFVCFFFPSFFC*
Disordered Region (DISOPRED)
*****************************RYLPIANISRIMKKALPA***IAKDAKETVQECVSEFISFITSEYDVVVLFLFIFVCFFFPSFFCG
Disordered Region (DISEMBL)
**************************EQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFLFIFVCFFFPSFFCG
Disordered Region (DISPRO)
**********************SNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFLFIFVCFFFPSFFCG
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHoooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHi
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAAEAPASPGGGSHESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFLFIFVCFFFPSFFCG
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	95	2.2.26 [Sep-21-2011]
Q8VYK4	173	Nuclear transcription fac	yes	no	0.768	0.421	0.802	1e-25
Q9SLG0	141	Nuclear transcription fac	no	no	0.694	0.468	0.760	3e-23
Q67XJ2	176	Nuclear transcription fac	no	no	0.589	0.318	0.859	7e-22
Q5QMG3	178	Nuclear transcription fac	yes	no	0.736	0.393	0.718	1e-21
P25209	179	Nuclear transcription fac	N/A	no	0.515	0.273	0.959	5e-21
Q60EQ4	185	Nuclear transcription fac	no	no	0.515	0.264	0.959	7e-21
O23310	161	Nuclear transcription fac	no	no	0.694	0.409	0.681	6e-20
Q54WV0	490	Nuclear transcription fac	yes	no	0.505	0.097	0.895	2e-18
Q9FGJ3	190	Nuclear transcription fac	no	no	0.505	0.252	0.854	3e-18
Q9SIT9	215	Nuclear transcription fac	no	no	0.768	0.339	0.585	5e-18

>sp|Q8VYK4|NFYB8_ARATH Nuclear transcription factor Y subunit B-8 OS=Arabidopsis thaliana GN=NFYB8 PE=2 SV=1

 Score =  115 bits (287), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 61/76 (80%), Positives = 66/76 (86%), Gaps = 3/76 (3%)

Query: 1  MAAEAPASPGG-GSHESG-EQSPRS-NVREQDRYLPIANISRIMKKALPANGKIAKDAKE 57
          MA     SPGG GSHESG +QSPRS +VREQDR+LPIANISRIMK+ LPANGKIAKDAKE
Sbjct: 1  MAESQAKSPGGCGSHESGGDQSPRSLHVREQDRFLPIANISRIMKRGLPANGKIAKDAKE 60

Query: 58 TVQECVSEFISFITSE 73
           VQECVSEFISF+TSE
Sbjct: 61 IVQECVSEFISFVTSE 76

Component of the NF-Y/HAP transcription factor complex. The NF-Y complex stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9SLG0|NFYB1_ARATH Nuclear transcription factor Y subunit B-1 OS=Arabidopsis thaliana GN=NFYB1 PE=1 SV=2

 Score =  107 bits (266), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 54/71 (76%), Positives = 58/71 (81%), Gaps = 5/71 (7%)

Query: 3  AEAPASPGGGSHESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQEC 62
          A+ P+SP G   ESG      +VREQDRYLPIANISRIMKKALP NGKI KDAK+TVQEC
Sbjct: 2  ADTPSSPAGDGGESG-----GSVREQDRYLPIANISRIMKKALPPNGKIGKDAKDTVQEC 56

Query: 63 VSEFISFITSE 73
          VSEFISFITSE
Sbjct: 57 VSEFISFITSE 67

Component of the NF-Y/HAP transcription factor complex. The NF-Y complex stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters.

Arabidopsis thaliana (taxid: 3702)

>sp|Q67XJ2|NFYBA_ARATH Nuclear transcription factor Y subunit B-10 OS=Arabidopsis thaliana GN=NFYB10 PE=2 SV=1

 Score =  102 bits (254), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 49/57 (85%), Positives = 54/57 (94%), Gaps = 1/57 (1%)

Query: 18 EQSPRS-NVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          +QSPRS NVREQDR+LPIANISRIMK+ LP NGKIAKDAKET+QECVSEFISF+TSE
Sbjct: 19 DQSPRSLNVREQDRFLPIANISRIMKRGLPLNGKIAKDAKETMQECVSEFISFVTSE 75

Component of the NF-Y/HAP transcription factor complex. The NF-Y complex stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters.

Arabidopsis thaliana (taxid: 3702)

>sp|Q5QMG3|NFYB2_ORYSJ Nuclear transcription factor Y subunit B-2 OS=Oryza sativa subsp. japonica GN=NFYB2 PE=2 SV=1

 Score =  101 bits (251), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 51/71 (71%), Positives = 56/71 (78%), Gaps = 1/71 (1%)

Query: 4  EAPASPGGGSHESGEQSPRSN-VREQDRYLPIANISRIMKKALPANGKIAKDAKETVQEC 62
          E  A      H+     PRS  VREQDR+LPIANISRIMKKA+PANGKIAKDAKET+QEC
Sbjct: 10 EGGAGMADAGHDESGSPPRSGGVREQDRFLPIANISRIMKKAVPANGKIAKDAKETLQEC 69

Query: 63 VSEFISFITSE 73
          VSEFISF+TSE
Sbjct: 70 VSEFISFVTSE 80

Component of the NF-Y/HAP transcription factor complex. The NF-Y complex stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters. May regulate the expression of photosynthetic genes, and may be involved in chloroplast and amyloplast development.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|P25209|NFYB_MAIZE Nuclear transcription factor Y subunit B OS=Zea mays GN=NFY2 PE=2 SV=1

 Score = 99.4 bits (246), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 47/49 (95%), Positives = 49/49 (100%)

Query: 25 VREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          VREQDR+LPIANISRIMKKA+PANGKIAKDAKETVQECVSEFISFITSE
Sbjct: 29 VREQDRFLPIANISRIMKKAIPANGKIAKDAKETVQECVSEFISFITSE 77

Component of the NF-Y/HAP transcription factor complex. The NF-Y complex stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters.

Zea mays (taxid: 4577)

>sp|Q60EQ4|NFYB3_ORYSJ Nuclear transcription factor Y subunit B-3 OS=Oryza sativa subsp. japonica GN=NFYB3 PE=1 SV=2

 Score = 99.0 bits (245), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 47/49 (95%), Positives = 49/49 (100%)

Query: 25 VREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          VREQDR+LPIANISRIMKKA+PANGKIAKDAKETVQECVSEFISFITSE
Sbjct: 36 VREQDRFLPIANISRIMKKAIPANGKIAKDAKETVQECVSEFISFITSE 84

Component of the NF-Y/HAP transcription factor complex. The NF-Y complex stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters. May regulate the expression of photosynthetic genes, and may be involved in chloroplast and amyloplast development.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|O23310|NFYB3_ARATH Nuclear transcription factor Y subunit B-3 OS=Arabidopsis thaliana GN=NFYB3 PE=2 SV=1

 Score = 95.9 bits (237), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 47/69 (68%), Positives = 54/69 (78%), Gaps = 3/69 (4%)

Query: 5  APASPGGGSHESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVS 64
          A +    G H+ G     ++ REQDR+LPIAN+SRIMKKALPAN KI+KDAKETVQECVS
Sbjct: 2  ADSDNDSGGHKDG---GNASTREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVS 58

Query: 65 EFISFITSE 73
          EFISFIT E
Sbjct: 59 EFISFITGE 67

Component of the NF-Y/HAP transcription factor complex. The NF-Y complex stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters.

Arabidopsis thaliana (taxid: 3702)

>sp|Q54WV0|NFYB_DICDI Nuclear transcription factor Y subunit beta OS=Dictyostelium discoideum GN=nfyB PE=3 SV=1

 Score = 91.3 bits (225), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 43/48 (89%), Positives = 45/48 (93%)

Query: 26 REQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          REQDRYLPIANI RIMKKALP N K+AKDAKETVQ+CVSEFISFITSE
Sbjct: 47 REQDRYLPIANIIRIMKKALPNNAKVAKDAKETVQDCVSEFISFITSE 94

Component of the NF-Y/HAP transcription factor complex. The NF-Y complex stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters.

Dictyostelium discoideum (taxid: 44689)

>sp|Q9FGJ3|NFYB2_ARATH Nuclear transcription factor Y subunit B-2 OS=Arabidopsis thaliana GN=NFYB2 PE=2 SV=1

 Score = 90.5 bits (223), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 41/48 (85%), Positives = 46/48 (95%)

Query: 26 REQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          REQDR+LPIAN+SRIMKKALPAN KI+KDAKET+QECVSEFISF+T E
Sbjct: 26 REQDRFLPIANVSRIMKKALPANAKISKDAKETMQECVSEFISFVTGE 73

Component of the NF-Y/HAP transcription factor complex. The NF-Y complex stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SIT9|NFYB7_ARATH Nuclear transcription factor Y subunit B-7 OS=Arabidopsis thaliana GN=NFYB7 PE=2 SV=1

 Score = 89.4 bits (220), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 48/82 (58%), Positives = 55/82 (67%), Gaps = 9/82 (10%)

Query: 1  MAAEAPASPGG--GSHESGEQSPRSNV-------REQDRYLPIANISRIMKKALPANGKI 51
          M  E+P    G  G  E+   SP S         +EQDR+LPIAN+ RIMKK LP NGKI
Sbjct: 1  MTEESPEEDHGSPGVAETNPGSPSSKTNNNNNNNKEQDRFLPIANVGRIMKKVLPGNGKI 60

Query: 52 AKDAKETVQECVSEFISFITSE 73
          +KDAKETVQECVSEFISF+T E
Sbjct: 61 SKDAKETVQECVSEFISFVTGE 82

Component of the NF-Y/HAP transcription factor complex. The NF-Y complex stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	95
357505639	474	Nuclear transcription factor Y subunit B	0.747	0.149	0.929	4e-33
449440059	173	PREDICTED: nuclear transcription factor	0.747	0.410	0.971	8e-33
449524192	121	PREDICTED: nuclear transcription factor	0.747	0.586	0.971	1e-32
224138594	176	predicted protein [Populus trichocarpa]	0.768	0.414	0.946	2e-32
356572407	159	PREDICTED: nuclear transcription factor	0.747	0.446	0.957	2e-32
356572409	171	PREDICTED: nuclear transcription factor	0.747	0.415	0.957	2e-32
356505184	171	PREDICTED: nuclear transcription factor	0.747	0.415	0.943	6e-32
357510573	171	Nuclear transcription factor Y subunit B	0.747	0.415	0.929	1e-31
225449176	178	PREDICTED: nuclear transcription factor	0.747	0.398	0.902	4e-29
296086079	176	unnamed protein product [Vitis vinifera]	0.747	0.403	0.902	4e-29

>gi|357505639|ref|XP_003623108.1| Nuclear transcription factor Y subunit B-3, partial [Medicago truncatula] gi|355498123|gb|AES79326.1| Nuclear transcription factor Y subunit B-3, partial [Medicago truncatula]

 Score =  145 bits (365), Expect = 4e-33,   Method: Composition-based stats.
 Identities = 66/71 (92%), Positives = 69/71 (97%)

Query: 3  AEAPASPGGGSHESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQEC 62
          +E PASPGGGSHESGE SPRSN+REQDR+LPIANISRIMKKALPANGKIAKDAKETVQEC
Sbjct: 2  SETPASPGGGSHESGEHSPRSNIREQDRFLPIANISRIMKKALPANGKIAKDAKETVQEC 61

Query: 63 VSEFISFITSE 73
          VSEFISFITSE
Sbjct: 62 VSEFISFITSE 72

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449440059|ref|XP_004137802.1| PREDICTED: nuclear transcription factor Y subunit B-8-like [Cucumis sativus]

 Score =  144 bits (363), Expect = 8e-33,   Method: Compositional matrix adjust.
 Identities = 69/71 (97%), Positives = 71/71 (100%)

Query: 3  AEAPASPGGGSHESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQEC 62
          A+APASPGGGSHESGEQSPRSNVREQDR+LPIANISRIMKKALPANGKIAKDAKETVQEC
Sbjct: 2  ADAPASPGGGSHESGEQSPRSNVREQDRFLPIANISRIMKKALPANGKIAKDAKETVQEC 61

Query: 63 VSEFISFITSE 73
          VSEFISFITSE
Sbjct: 62 VSEFISFITSE 72

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449524192|ref|XP_004169107.1| PREDICTED: nuclear transcription factor Y subunit B-8-like, partial [Cucumis sativus]

 Score =  144 bits (362), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 69/71 (97%), Positives = 71/71 (100%)

Query: 3  AEAPASPGGGSHESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQEC 62
          A+APASPGGGSHESGEQSPRSNVREQDR+LPIANISRIMKKALPANGKIAKDAKETVQEC
Sbjct: 2  ADAPASPGGGSHESGEQSPRSNVREQDRFLPIANISRIMKKALPANGKIAKDAKETVQEC 61

Query: 63 VSEFISFITSE 73
          VSEFISFITSE
Sbjct: 62 VSEFISFITSE 72

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224138594|ref|XP_002322853.1| predicted protein [Populus trichocarpa] gi|222867483|gb|EEF04614.1| predicted protein [Populus trichocarpa]

 Score =  142 bits (359), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 71/75 (94%), Positives = 73/75 (97%), Gaps = 2/75 (2%)

Query: 1  MAAEAPASPGGGSHESGEQSPRSN--VREQDRYLPIANISRIMKKALPANGKIAKDAKET 58
          MAAEAPASPGGGSHESG+QSPRSN  VREQDR+LPIANISRIMKKALPANGKIAKDAKET
Sbjct: 1  MAAEAPASPGGGSHESGDQSPRSNSNVREQDRFLPIANISRIMKKALPANGKIAKDAKET 60

Query: 59 VQECVSEFISFITSE 73
          VQECVSEFISFITSE
Sbjct: 61 VQECVSEFISFITSE 75

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356572407|ref|XP_003554360.1| PREDICTED: nuclear transcription factor Y subunit B-8-like isoform 1 [Glycine max]

 Score =  142 bits (359), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 68/71 (95%), Positives = 69/71 (97%)

Query: 3  AEAPASPGGGSHESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQEC 62
          A+ PASPGGGSHESGE SPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQEC
Sbjct: 2  ADGPASPGGGSHESGEHSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQEC 61

Query: 63 VSEFISFITSE 73
          VSEFISFITSE
Sbjct: 62 VSEFISFITSE 72

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356572409|ref|XP_003554361.1| PREDICTED: nuclear transcription factor Y subunit B-8-like isoform 2 [Glycine max]

 Score =  142 bits (359), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 68/71 (95%), Positives = 69/71 (97%)

Query: 3  AEAPASPGGGSHESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQEC 62
          A+ PASPGGGSHESGE SPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQEC
Sbjct: 2  ADGPASPGGGSHESGEHSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQEC 61

Query: 63 VSEFISFITSE 73
          VSEFISFITSE
Sbjct: 62 VSEFISFITSE 72

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356505184|ref|XP_003521372.1| PREDICTED: nuclear transcription factor Y subunit B-8-like [Glycine max]

 Score =  141 bits (355), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 67/71 (94%), Positives = 69/71 (97%)

Query: 3  AEAPASPGGGSHESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQEC 62
          A+ PASPGGGSHESG+ SPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQEC
Sbjct: 2  ADGPASPGGGSHESGDHSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQEC 61

Query: 63 VSEFISFITSE 73
          VSEFISFITSE
Sbjct: 62 VSEFISFITSE 72

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357510573|ref|XP_003625575.1| Nuclear transcription factor Y subunit B-3 [Medicago truncatula] gi|355500590|gb|AES81793.1| Nuclear transcription factor Y subunit B-3 [Medicago truncatula] gi|388523199|gb|AFK49652.1| nuclear transcription factor Y subunit B2 [Medicago truncatula]

 Score =  139 bits (351), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 66/71 (92%), Positives = 69/71 (97%)

Query: 3  AEAPASPGGGSHESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQEC 62
          +E PASPGGGSHESGE SPRSN+REQDR+LPIANISRIMKKALPANGKIAKDAKETVQEC
Sbjct: 2  SETPASPGGGSHESGEHSPRSNIREQDRFLPIANISRIMKKALPANGKIAKDAKETVQEC 61

Query: 63 VSEFISFITSE 73
          VSEFISFITSE
Sbjct: 62 VSEFISFITSE 72

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225449176|ref|XP_002278716.1| PREDICTED: nuclear transcription factor Y subunit B-8-like isoform 1 [Vitis vinifera] gi|359486707|ref|XP_003633465.1| PREDICTED: nuclear transcription factor Y subunit B-8-like [Vitis vinifera]

 Score =  132 bits (331), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 65/72 (90%), Positives = 68/72 (94%), Gaps = 1/72 (1%)

Query: 3  AEAPASPGGGSHESG-EQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQE 61
          A+ PASP GGSHESG +QSPR NVREQDRYLPIANISRIMKKALPANGKIAKDAK+TVQE
Sbjct: 2  ADGPASPPGGSHESGGDQSPRHNVREQDRYLPIANISRIMKKALPANGKIAKDAKDTVQE 61

Query: 62 CVSEFISFITSE 73
          CVSEFISFITSE
Sbjct: 62 CVSEFISFITSE 73

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296086079|emb|CBI31520.3| unnamed protein product [Vitis vinifera]

 Score =  131 bits (330), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 65/72 (90%), Positives = 68/72 (94%), Gaps = 1/72 (1%)

Query: 3  AEAPASPGGGSHESG-EQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQE 61
          A+ PASP GGSHESG +QSPR NVREQDRYLPIANISRIMKKALPANGKIAKDAK+TVQE
Sbjct: 2  ADGPASPPGGSHESGGDQSPRHNVREQDRYLPIANISRIMKKALPANGKIAKDAKDTVQE 61

Query: 62 CVSEFISFITSE 73
          CVSEFISFITSE
Sbjct: 62 CVSEFISFITSE 73

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

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	95
TAIR|locus:2083941	176	NF-YB10 ""nuclear factor Y, su	0.631	0.340	0.854	2.1e-22
TAIR|locus:2061789	173	NF-YB8 ""nuclear factor Y, sub	0.631	0.346	0.854	4.3e-22
TAIR|locus:2129885	161	NF-YB3 ""nuclear factor Y, sub	0.631	0.372	0.741	1.7e-18
ZFIN|ZDB-GENE-050306-25	205	nfybb "nuclear transcription f	0.621	0.287	0.75	1.7e-18
TAIR|locus:2168983	190	NF-YB2 ""nuclear factor Y, sub	0.610	0.305	0.716	5.8e-18
TAIR|locus:2054095	215	NF-YB7 ""nuclear factor Y, sub	0.536	0.237	0.784	1.6e-17
DICTYBASE|DDB_G0279419	490	nfyB "putative histone-like tr	0.505	0.097	0.895	5.6e-17
UNIPROTKB|E1C5G6	152	NFYB "Nuclear transcription fa	0.621	0.388	0.733	6.7e-17
UNIPROTKB|P25207	205	NFYB "Nuclear transcription fa	0.621	0.287	0.733	6.7e-17
UNIPROTKB|Q32KW0	207	NFYB "Nuclear transcription fa	0.621	0.285	0.733	6.7e-17

TAIR|locus:2083941 NF-YB10 ""nuclear factor Y, subunit B10"" [Arabidopsis thaliana (taxid:3702)]

 Score = 260 (96.6 bits), Expect = 2.1e-22, P = 2.1e-22
 Identities = 53/62 (85%), Positives = 58/62 (93%)

Query:    14 HESG-EQSPRS-NVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFIT 71
             HESG +QSPRS NVREQDR+LPIANISRIMK+ LP NGKIAKDAKET+QECVSEFISF+T
Sbjct:    14 HESGGDQSPRSLNVREQDRFLPIANISRIMKRGLPLNGKIAKDAKETMQECVSEFISFVT 73

Query:    72 SE 73
             SE
Sbjct:    74 SE 75

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

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

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

TAIR|locus:2061789 NF-YB8 ""nuclear factor Y, subunit B8"" [Arabidopsis thaliana (taxid:3702)]

 Score = 257 (95.5 bits), Expect = 4.3e-22, P = 4.3e-22
 Identities = 53/62 (85%), Positives = 58/62 (93%)

Query:    14 HESG-EQSPRS-NVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFIT 71
             HESG +QSPRS +VREQDR+LPIANISRIMK+ LPANGKIAKDAKE VQECVSEFISF+T
Sbjct:    15 HESGGDQSPRSLHVREQDRFLPIANISRIMKRGLPANGKIAKDAKEIVQECVSEFISFVT 74

Query:    72 SE 73
             SE
Sbjct:    75 SE 76

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

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

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

TAIR|locus:2129885 NF-YB3 ""nuclear factor Y, subunit B3"" [Arabidopsis thaliana (taxid:3702)]

 Score = 223 (83.6 bits), Expect = 1.7e-18, P = 1.7e-18
 Identities = 46/62 (74%), Positives = 51/62 (82%)

Query:    14 HESGEQSPRSNV--REQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFIT 71
             ++SG      N   REQDR+LPIAN+SRIMKKALPAN KI+KDAKETVQECVSEFISFIT
Sbjct:     6 NDSGGHKDGGNASTREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFIT 65

Query:    72 SE 73
              E
Sbjct:    66 GE 67

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

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

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

ZFIN|ZDB-GENE-050306-25 nfybb "nuclear transcription factor Y, beta b" [Danio rerio (taxid:7955)]

 Score = 223 (83.6 bits), Expect = 1.7e-18, P = 1.7e-18
 Identities = 45/60 (75%), Positives = 50/60 (83%)

Query:    14 HESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
             HE G  S + N+REQD YLPIAN++RIMK A+P  GKIAKDAKE VQECVSEFISFITSE
Sbjct:    41 HEDGNGS-KDNLREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSE 99

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

GO:0003677 "DNA binding" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

TAIR|locus:2168983 NF-YB2 ""nuclear factor Y, subunit B2"" [Arabidopsis thaliana (taxid:3702)]

 Score = 218 (81.8 bits), Expect = 5.8e-18, P = 5.8e-18
 Identities = 43/60 (71%), Positives = 53/60 (88%)

Query:    14 HESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
             +++G+ S   + REQDR+LPIAN+SRIMKKALPAN KI+KDAKET+QECVSEFISF+T E
Sbjct:    16 NQNGQSS--LSPREQDRFLPIANVSRIMKKALPANAKISKDAKETMQECVSEFISFVTGE 73

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

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

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

TAIR|locus:2054095 NF-YB7 ""nuclear factor Y, subunit B7"" [Arabidopsis thaliana (taxid:3702)]

 Score = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 40/51 (78%), Positives = 46/51 (90%)

Query:    23 SNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
             +N +EQDR+LPIAN+ RIMKK LP NGKI+KDAKETVQECVSEFISF+T E
Sbjct:    32 NNNKEQDRFLPIANVGRIMKKVLPGNGKISKDAKETVQECVSEFISFVTGE 82

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

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

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

DICTYBASE|DDB_G0279419 nfyB "putative histone-like transcription factor" [Dictyostelium discoideum (taxid:44689)]

 Score = 216 (81.1 bits), Expect = 5.6e-17, P = 5.6e-17
 Identities = 43/48 (89%), Positives = 45/48 (93%)

Query:    26 REQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
             REQDRYLPIANI RIMKKALP N K+AKDAKETVQ+CVSEFISFITSE
Sbjct:    47 REQDRYLPIANIIRIMKKALPNNAKVAKDAKETVQDCVSEFISFITSE 94

GO:0046982 "protein heterodimerization activity" evidence=IEA

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

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0016602 "CCAAT-binding factor complex" evidence=ISS

GO:0006366 "transcription from RNA polymerase II promoter" evidence=ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0006351 "transcription, DNA-dependent" evidence=IEA

UNIPROTKB|E1C5G6 NFYB "Nuclear transcription factor Y subunit beta" [Gallus gallus (taxid:9031)]

 Score = 208 (78.3 bits), Expect = 6.7e-17, P = 6.7e-17
 Identities = 44/60 (73%), Positives = 47/60 (78%)

Query:    14 HESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
             HE    S  S  REQD YLPIAN++RIMK A+P  GKIAKDAKE VQECVSEFISFITSE
Sbjct:    40 HEDTNGSKES-FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSE 98

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

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA

GO:0016602 "CCAAT-binding factor complex" evidence=IEA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IEA

GO:0070491 "repressing transcription factor binding" evidence=IEA

UNIPROTKB|P25207 NFYB "Nuclear transcription factor Y subunit beta" [Gallus gallus (taxid:9031)]

 Score = 208 (78.3 bits), Expect = 6.7e-17, P = 6.7e-17
 Identities = 44/60 (73%), Positives = 47/60 (78%)

Query:    14 HESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
             HE    S  S  REQD YLPIAN++RIMK A+P  GKIAKDAKE VQECVSEFISFITSE
Sbjct:    40 HEDTNGSKES-FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSE 98

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

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA

GO:0016602 "CCAAT-binding factor complex" evidence=IEA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IEA

GO:0070491 "repressing transcription factor binding" evidence=IEA

UNIPROTKB|Q32KW0 NFYB "Nuclear transcription factor Y subunit beta" [Bos taurus (taxid:9913)]

 Score = 208 (78.3 bits), Expect = 6.7e-17, P = 6.7e-17
 Identities = 44/60 (73%), Positives = 47/60 (78%)

Query:    14 HESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
             HE    S  S  REQD YLPIAN++RIMK A+P  GKIAKDAKE VQECVSEFISFITSE
Sbjct:    42 HEDTNGSKES-FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSE 100

GO:0070491 "repressing transcription factor binding" evidence=IEA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IEA

GO:0016602 "CCAAT-binding factor complex" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0043565 "sequence-specific DNA binding" 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)
P36611	HAP3_SCHPO	No assigned EC number	0.7142	0.4421	0.3620	yes	no
Q8VYK4	NFYB8_ARATH	No assigned EC number	0.8026	0.7684	0.4219	yes	no
Q54WV0	NFYB_DICDI	No assigned EC number	0.8958	0.5052	0.0979	yes	no
P40914	HAP3_KLULA	No assigned EC number	0.7021	0.4947	0.2292	yes	no
P25207	NFYB_CHICK	No assigned EC number	0.7333	0.6210	0.2878	yes	no
Q6RG77	NFYB_HORSE	No assigned EC number	0.7333	0.6210	0.2850	yes	no
P25209	NFYB_MAIZE	No assigned EC number	0.9591	0.5157	0.2737	N/A	no
P25208	NFYB_HUMAN	No assigned EC number	0.7333	0.6210	0.2850	yes	no
P63139	NFYB_MOUSE	No assigned EC number	0.7333	0.6210	0.2850	yes	no
Q32KW0	NFYB_BOVIN	No assigned EC number	0.7333	0.6210	0.2850	yes	no
Q5QMG3	NFYB2_ORYSJ	No assigned EC number	0.7183	0.7368	0.3932	yes	no
P63140	NFYB_RAT	No assigned EC number	0.7333	0.6210	0.2850	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.00160779 hypothetical protein (176 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	95
pfam00808	65	pfam00808, CBFD_NFYB_HMF, Histone-like transcripti	2e-16
COG2036	91	COG2036, HHT1, Histones H3 and H4 [Chromatin struc	2e-11
COG5150	148	COG5150, COG5150, Class 2 transcription repressor	5e-04

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

 Score = 66.5 bits (163), Expect = 2e-16
 Identities = 25/44 (56%), Positives = 30/44 (68%), Gaps = 1/44 (2%)

Query: 30 RYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
            LPIA + RIMK   P  G+I++DAKE + ECV EFI FI SE
Sbjct: 1  AELPIARVKRIMKSD-PDAGRISQDAKELIAECVEEFIEFIASE 43

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

>gnl|CDD|224947 COG2036, HHT1, Histones H3 and H4 [Chromatin structure and dynamics]

 Score = 55.0 bits (133), Expect = 2e-11
 Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 2/52 (3%)

Query: 22 RSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          R   R  D  LP A + RI++KA     +++  A E +QE + E++  I  +
Sbjct: 10 RRYQRSTDLLLPKAPVRRILRKAGA--ERVSSSAIEELQEALEEYLEEIAED 59

Length = 91

>gnl|CDD|227479 COG5150, COG5150, Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]

 Score = 36.5 bits (84), Expect = 5e-04
 Identities = 13/42 (30%), Positives = 23/42 (54%)

Query: 32 LPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          LP A + +++   LP +    K+A+E       EFI+ ++SE
Sbjct: 12 LPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSE 53

Length = 148

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	95
KOG0869	168	consensus CCAAT-binding factor, subunit A (HAP3) [	99.95
KOG0871	156	consensus Class 2 transcription repressor NC2, bet	99.85
COG5150	148	Class 2 transcription repressor NC2, beta subunit	99.69
KOG0870	172	consensus DNA polymerase epsilon, subunit D [Trans	99.46
PF00808	65	CBFD_NFYB_HMF: Histone-like transcription factor (	99.41
COG2036	91	HHT1 Histones H3 and H4 [Chromatin structure and d	98.83
cd07981	72	TAF12 TATA Binding Protein (TBP) Associated Factor	96.87
smart00428	105	H3 Histone H3.	96.06
PF09415	72	CENP-X: CENP-S associating Centromere protein X; I	96.0
PF00125	75	Histone: Core histone H2A/H2B/H3/H4 histone h2a si	95.55
cd00076	85	H4 Histone H4, one of the four histones, along wit	95.39
PF03847	68	TFIID_20kDa: Transcription initiation factor TFIID	95.21
PLN00035	103	histone H4; Provisional	94.97
smart00803	65	TAF TATA box binding protein associated factor. TA	94.76
PTZ00015	102	histone H4; Provisional	94.48
smart00417	74	H4 Histone H4.	94.47
cd08048	85	TAF11 TATA Binding Protein (TBP) Associated Factor	94.26
PLN00121	136	histone H3; Provisional	92.15
KOG1142	258	consensus Transcription initiation factor TFIID, s	91.97
PLN00161	135	histone H3; Provisional	91.69
PF04719	90	TAFII28: hTAFII28-like protein conserved region; I	91.12
smart00427	89	H2B Histone H2B.	90.98
PTZ00018	136	histone H3; Provisional	90.06
PLN00160	97	histone H3; Provisional	89.64
PLN00158	116	histone H2B; Provisional	88.77
PTZ00463	117	histone H2B; Provisional	88.55
KOG1657	236	consensus CCAAT-binding factor, subunit C (HAP5) [	88.32
KOG1744	127	consensus Histone H2B [Chromatin structure and dyn	81.92
PF15511	414	CENP-T: Centromere kinetochore component CENP-T; P	80.6
KOG3219	195	consensus Transcription initiation factor TFIID, s	80.4

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

Probab=99.95  E-value=1.2e-27  Score=177.97  Aligned_cols=78  Identities=64%  Similarity=0.904  Sum_probs=65.5

Q ss_pred             CCCCCCCCCCCCCCCCCC-CC--CCCCCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHH
Q 034435            2 AAEAPASPGGGSHESGEQ-SP--RSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVV   78 (95)
Q Consensus         2 ~~~~~~~~~~~~~~~g~~-~~--~~~~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic   78 (95)
                      |++++..+ .+.|+.|+. .+  ...++++|++||+|||.||||++||+++||+|||||+|||||+|||+|||+||+|+|
T Consensus         1 m~~s~~~~-~~~~e~~g~~~~~~~~~~reqDr~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC   79 (168)
T KOG0869|consen    1 MAESDHDS-GGGDENGGNSSPQSSLSLREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKC   79 (168)
T ss_pred             CCCCcCCC-CccccCCcccCCccccccchhhhhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            45556544 444444442 22  247999999999999999999999999999999999999999999999999999999


Q ss_pred             HH
Q 034435           79 LF   80 (95)
Q Consensus        79 ~~   80 (95)
                      ..
T Consensus        80 ~~   81 (168)
T KOG0869|consen   80 QR   81 (168)
T ss_pred             HH
Confidence            86

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

Probab=99.85  E-value=1.3e-21  Score=144.36  Aligned_cols=57  Identities=30%  Similarity=0.568  Sum_probs=54.4

Q ss_pred             CCCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           24 NVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        24 ~~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      +..+||++||+|||+||||++||++++|+|||||+|++||+|||++||||||++|++
T Consensus         5 ~~~dde~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~   61 (156)
T KOG0871|consen    5 GKEDDELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNK   61 (156)
T ss_pred             ccccccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            346899999999999999999999999999999999999999999999999999986

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

Probab=99.69  E-value=4.6e-17  Score=118.85  Aligned_cols=56  Identities=23%  Similarity=0.386  Sum_probs=53.8

Q ss_pred             CCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           25 VREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        25 ~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      ..+|+++||+|||+||+.++||.+..++|||||++++||.|||+++||+||++|+.
T Consensus         5 ~~dDe~sLPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~~lsseAne~ce~   60 (148)
T COG5150           5 KNDDENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEE   60 (148)
T ss_pred             cccccccCcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46788999999999999999999999999999999999999999999999999985

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

Probab=99.46  E-value=8.1e-14  Score=104.56  Aligned_cols=58  Identities=29%  Similarity=0.393  Sum_probs=54.9

Q ss_pred             CCcccccChhHHHHHHHHhhCCCC-ccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 034435           25 VREQDRYLPIANISRIMKKALPAN-GKIAKDAKETVQECVSEFISFITSEYDVVVLFLF   82 (95)
Q Consensus        25 ~~edD~~LP~A~V~RImKe~LP~~-~kIskdAkeli~eC~sEFI~~vTSeANeic~~~~   82 (95)
                      .+.+|+.||+|+|.|++|++||.. +.|+|||+.+|++.++.||+|+|+.||++|..|.
T Consensus         4 eri~dl~lP~AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~   62 (172)
T KOG0870|consen    4 ERIEDLNLPNAIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQK   62 (172)
T ss_pred             hhHHHhhccHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            467899999999999999999987 9999999999999999999999999999999874

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

Probab=99.41  E-value=8.4e-13  Score=82.37  Aligned_cols=50  Identities=30%  Similarity=0.521  Sum_probs=45.7

Q ss_pred             cChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        31 ~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      .||++.|.||||.. |+..+||+||.++|++|+.+||.+|+.+|+++|...
T Consensus         2 ~lP~a~vkri~k~~-~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~   51 (65)
T PF00808_consen    2 SLPLARVKRIMKSD-PDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRD   51 (65)
T ss_dssp             SS-HHHHHHHHHHT-STTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCChHHHHHHhccC-CCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            69999999999999 999999999999999999999999999999999853

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

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

Probab=98.83  E-value=5.3e-09  Score=71.58  Aligned_cols=56  Identities=27%  Similarity=0.377  Sum_probs=52.6

Q ss_pred             CCCCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           23 SNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        23 ~~~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      ...+..|+.||+++|.||||++.+.  +||.+|++.+|+++.||+..|+.+|++.|..
T Consensus        11 ~~~~~~~~~Lp~apv~Ri~r~~~~~--Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~h   66 (91)
T COG2036          11 RYQRSTDLLLPKAPVRRILRKAGAE--RVSSSAIEELQEALEEYLEEIAEDAVELAEH   66 (91)
T ss_pred             hhhhhhhhhcCchHHHHHHHHHhHH--HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567889999999999999999998  9999999999999999999999999999875

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

Probab=96.87  E-value=0.0058  Score=39.28  Aligned_cols=47  Identities=15%  Similarity=0.280  Sum_probs=43.6

Q ss_pred             ChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           32 LPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        32 LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      |++.++..++|+.=|. .+++.||.+++++.+.+|+.-++..|...|.
T Consensus         2 ~~k~~l~~lv~~id~~-~~~~~da~~~l~~~~e~fv~~v~~~a~~lAk   48 (72)
T cd07981           2 LTKRKLQELLKEIDPR-EQLDPDVEELLLEIADDFVDDVVEDACRLAK   48 (72)
T ss_pred             CcHHHHHHHHHhhCCC-CCcCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6788999999999775 8999999999999999999999999999886

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

>smart00428 H3 Histone H3

Probab=96.06  E-value=0.016  Score=40.62  Aligned_cols=55  Identities=11%  Similarity=0.235  Sum_probs=47.2

Q ss_pred             CCcccccChhHHHHHHHHhhCCC-----CccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           25 VREQDRYLPIANISRIMKKALPA-----NGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        25 ~~edD~~LP~A~V~RImKe~LP~-----~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      .+..|+.+|+..-+|+++|+...     +.+++.+|.+++|+++-.|+-=+...||..+.
T Consensus        23 Qkst~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~   82 (105)
T smart00428       23 QKSTDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAI   82 (105)
T ss_pred             ccCcccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35678889999999999998754     68999999999999999999988888887553

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

Probab=96.00  E-value=0.015  Score=38.10  Aligned_cols=49  Identities=20%  Similarity=0.202  Sum_probs=38.9

Q ss_pred             hhHHHHHHHHhhCC-CCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           33 PIANISRIMKKALP-ANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        33 P~A~V~RImKe~LP-~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      |..+|.||++...- +++||++||..++.+....||.=....|.+.++..
T Consensus         1 p~~li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e   50 (72)
T PF09415_consen    1 PPELIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAE   50 (72)
T ss_dssp             -CHHHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            88999999997773 67999999999999999999987777777766654

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

>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=95.55  E-value=0.058  Score=33.60  Aligned_cols=51  Identities=18%  Similarity=0.221  Sum_probs=43.9

Q ss_pred             ccChhHHHHHHHHhhCCC---CccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           30 RYLPIANISRIMKKALPA---NGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        30 ~~LP~A~V~RImKe~LP~---~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      ...|+.-|.|+.|+..+.   ..+|+++|.++++..+-.|+.=+..+|+..+..
T Consensus         4 ~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~   57 (75)
T PF00125_consen    4 RLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARH   57 (75)
T ss_dssp             HSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhh
Confidence            457888888888888764   269999999999999999999999999988864

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 ....

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

Probab=95.39  E-value=0.075  Score=35.90  Aligned_cols=47  Identities=9%  Similarity=0.182  Sum_probs=42.7

Q ss_pred             cChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        31 ~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      .||++.|.||.+..  .--+||.|+.+.+.+...+|+.-|..+|...++
T Consensus        13 gi~k~~I~RLarr~--GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~   59 (85)
T cd00076          13 GITKPAIRRLARRG--GVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTE   59 (85)
T ss_pred             cCCHHHHHHHHHHc--CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            49999999999998  346999999999999999999999999988776

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

Probab=95.21  E-value=0.092  Score=33.94  Aligned_cols=46  Identities=20%  Similarity=0.257  Sum_probs=35.8

Q ss_pred             hHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           34 IANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        34 ~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      +..++.+++++=| +.++..|+.+++.+.+.+||.=+++.|-.+|.-
T Consensus         2 K~~l~~Lv~~iDp-~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKh   47 (68)
T PF03847_consen    2 KRKLQELVKQIDP-NEKLDPDVEELLLELADDFVDDVVSFACRLAKH   47 (68)
T ss_dssp             HHHHHHHHHCC-S-S----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHcCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4567889999865 589999999999999999999999999888864

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

>PLN00035 histone H4; Provisional

Probab=94.97  E-value=0.051  Score=38.10  Aligned_cols=54  Identities=11%  Similarity=0.138  Sum_probs=46.7

Q ss_pred             CCCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           24 NVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        24 ~~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      ..++.-..||++.|.||.+..  .--+||.|+.+.+.+...+|+.-|..+|...++
T Consensus        22 ~~~d~i~~ipk~~IrRLARr~--GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~   75 (103)
T PLN00035         22 VLRDNIQGITKPAIRRLARRG--GVKRISGLIYEETRGVLKIFLENVIRDAVTYTE   75 (103)
T ss_pred             HHHhhhccCCHHHHHHHHHHc--CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555569999999999998  345999999999999999999999999988776

>smart00803 TAF TATA box binding protein associated factor

Probab=94.76  E-value=0.2  Score=31.89  Aligned_cols=47  Identities=21%  Similarity=0.241  Sum_probs=41.4

Q ss_pred             cChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        31 ~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      .||+++|.||.+..  .--+|+.|+.+.+.+-+.+++.=|..+|...++
T Consensus         2 ~~p~~~i~ria~~~--Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~   48 (65)
T smart00803        2 WLPKETIKDVAESL--GIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMR   48 (65)
T ss_pred             CCCHHHHHHHHHHC--CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            58999999999987  223699999999999999999999999988765

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

>PTZ00015 histone H4; Provisional

Probab=94.48  E-value=0.17  Score=35.36  Aligned_cols=54  Identities=17%  Similarity=0.274  Sum_probs=46.9

Q ss_pred             CCCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           24 NVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        24 ~~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      .+++....||++.|.||.+..  .--+||.|+.+.+.+...+|+.-|..+|...++
T Consensus        23 ~~r~~i~gI~k~~IrRLarr~--GvkRIS~d~y~e~r~vle~~l~~I~rdav~~ae   76 (102)
T PTZ00015         23 VLRDNIRGITKGAIRRLARRG--GVKRISGDIYEEVRGVLKAFLENVVRDSTAYTE   76 (102)
T ss_pred             HHhhcccCCCHHHHHHHHHHc--CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345666679999999999998  345999999999999999999999999988775

>smart00417 H4 Histone H4

Probab=94.47  E-value=0.2  Score=33.14  Aligned_cols=51  Identities=8%  Similarity=0.146  Sum_probs=44.3

Q ss_pred             cccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           27 EQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        27 edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      +.-..||++.|.||.+..  .--+||.++.+-+.+...+|+.-|..+|...++
T Consensus         9 d~i~gI~k~~IrRLaRr~--GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~   59 (74)
T smart00417        9 DNIQGITKPAIRRLARRG--GVKRISGLIYDETRNVLKSFLENVVRDAVTYTE   59 (74)
T ss_pred             hhhcCCCHHHHHHHHHHc--CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334469999999999998  335899999999999999999999999988876

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

Probab=94.26  E-value=0.24  Score=33.24  Aligned_cols=50  Identities=18%  Similarity=0.147  Sum_probs=45.8

Q ss_pred             cChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 034435           31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFLF   82 (95)
Q Consensus        31 ~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~~   82 (95)
                      .||++.|-|+|...+.  .+++.+...+|.--+.+||.=|..+|.++-+...
T Consensus        16 ~f~k~~iKr~~~~~~~--~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~   65 (85)
T cd08048          16 SFPKAAIKRLIQSVTG--QSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWG   65 (85)
T ss_pred             hccHHHHHHHHHHHcC--CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4999999999999997  5999999999999999999999999999987643

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

>PLN00121 histone H3; Provisional

Probab=92.15  E-value=0.29  Score=35.86  Aligned_cols=51  Identities=8%  Similarity=0.194  Sum_probs=43.0

Q ss_pred             CcccccChhHHHHHHHHhhCCC---CccccHhHHHHHHHHHHHHHHHHHhHHHH
Q 034435           26 REQDRYLPIANISRIMKKALPA---NGKIAKDAKETVQECVSEFISFITSEYDV   76 (95)
Q Consensus        26 ~edD~~LP~A~V~RImKe~LP~---~~kIskdAkeli~eC~sEFI~~vTSeANe   76 (95)
                      +..|+.+|+.--+|+++|+...   +.+++.+|.+++|+++-.|+--+-..+|-
T Consensus        57 kst~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~l  110 (136)
T PLN00121         57 KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNL  110 (136)
T ss_pred             cccccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            3458889999999999998854   78999999999999999998777666654

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

Probab=91.97  E-value=1.4  Score=35.47  Aligned_cols=52  Identities=13%  Similarity=0.208  Sum_probs=43.6

Q ss_pred             cccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           27 EQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        27 edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      +.+..|=+-.+..+++++-+ +.++.+|++|++.+-|-.||.-|+.-|-.+|.
T Consensus       150 ~~~~il~k~kl~dLvqqId~-~~~LD~dVedlLleiADdFV~sii~~sC~LAK  201 (258)
T KOG1142|consen  150 GNNPILSKRKLDDLVQQIDG-TTKLDDDVEDLLLEIADDFVSSIIHRSCKLAK  201 (258)
T ss_pred             CCCccccccchhHHHHhhcC-cccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34456777888899999954 58999999999999999999999988877664

>PLN00161 histone H3; Provisional

Probab=91.69  E-value=0.69  Score=33.95  Aligned_cols=51  Identities=10%  Similarity=0.233  Sum_probs=42.7

Q ss_pred             CcccccChhHHHHHHHHhhC----CCCccccHhHHHHHHHHHHHHHHHHHhHHHH
Q 034435           26 REQDRYLPIANISRIMKKAL----PANGKIAKDAKETVQECVSEFISFITSEYDV   76 (95)
Q Consensus        26 ~edD~~LP~A~V~RImKe~L----P~~~kIskdAkeli~eC~sEFI~~vTSeANe   76 (95)
                      +..|+.+|++--+|+++|+.    +.+.+++.+|.+++||++-.|+--+-..||-
T Consensus        50 kst~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~l  104 (135)
T PLN00161         50 KSTELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNL  104 (135)
T ss_pred             cccccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45677899999999999985    3469999999999999999998777667664

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

Probab=91.12  E-value=0.96  Score=30.86  Aligned_cols=49  Identities=18%  Similarity=0.186  Sum_probs=39.2

Q ss_pred             cChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        31 ~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      .||+++|-|+|+..+. +..|+....-+|.-.+..||.=|-.+|-++...
T Consensus        23 ~~~k~~ikkli~~~~~-~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~   71 (90)
T PF04719_consen   23 SFNKAAIKKLINQVLG-NQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEE   71 (90)
T ss_dssp             ---HHHHHHHHHHHHS--S---HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHcC-CCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4999999999999995 479999999999999999999999999999874

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

>smart00427 H2B Histone H2B

Probab=90.98  E-value=1  Score=30.94  Aligned_cols=44  Identities=18%  Similarity=0.320  Sum_probs=39.0

Q ss_pred             HHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           36 NISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        36 ~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      -|+|+.|++-|+ ..||+.|...|.--+.....=|++||...+..
T Consensus         6 Yi~kvLKqVhpd-~giS~kam~imnSfvnDiferIa~EAs~L~~~   49 (89)
T smart00427        6 YIYKVLKQVHPD-TGISSKAMSIMNSFVNDIFERIAAEASKLARY   49 (89)
T ss_pred             HHHHHHHHhCCC-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            489999999986 79999999999988888888899999988763

>PTZ00018 histone H3; Provisional

Probab=90.06  E-value=0.99  Score=33.06  Aligned_cols=51  Identities=8%  Similarity=0.200  Sum_probs=42.8

Q ss_pred             CcccccChhHHHHHHHHhhCC---CCccccHhHHHHHHHHHHHHHHHHHhHHHH
Q 034435           26 REQDRYLPIANISRIMKKALP---ANGKIAKDAKETVQECVSEFISFITSEYDV   76 (95)
Q Consensus        26 ~edD~~LP~A~V~RImKe~LP---~~~kIskdAkeli~eC~sEFI~~vTSeANe   76 (95)
                      +..|+.+|+.--+|+++|+..   .+.+++.+|.+++|+++-.|+--+-..+|-
T Consensus        57 kst~lLI~k~pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~l  110 (136)
T PTZ00018         57 KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNL  110 (136)
T ss_pred             ccchhccccccHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHH
Confidence            345888999999999999864   478999999999999999999777766654

>PLN00160 histone H3; Provisional

Probab=89.64  E-value=1  Score=31.29  Aligned_cols=51  Identities=10%  Similarity=0.120  Sum_probs=42.2

Q ss_pred             CcccccChhHHHHHHHHhhCC----CCccccHhHHHHHHHHHHHHHHHHHhHHHH
Q 034435           26 REQDRYLPIANISRIMKKALP----ANGKIAKDAKETVQECVSEFISFITSEYDV   76 (95)
Q Consensus        26 ~edD~~LP~A~V~RImKe~LP----~~~kIskdAkeli~eC~sEFI~~vTSeANe   76 (95)
                      +..|+.+|++--+|+++|+..    .+.++..+|.+++|+++--|+--+-..+|-
T Consensus        16 kst~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~l   70 (97)
T PLN00160         16 KSTDLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNL   70 (97)
T ss_pred             cchhhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            456788999999999999864    458999999999999999988766666653

>PLN00158 histone H2B; Provisional

Probab=88.77  E-value=1.7  Score=31.21  Aligned_cols=47  Identities=15%  Similarity=0.254  Sum_probs=40.5

Q ss_pred             hhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           33 PIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        33 P~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      -..-|+|+.|++-|+ ..||..|..+|.-.+.....=|++||..++..
T Consensus        29 y~~YI~kVLKQVhPd-~gIS~kaM~ImnSfvnDiferIA~EAs~La~~   75 (116)
T PLN00158         29 YKIYIYKVLKQVHPD-TGISSKAMSIMNSFINDIFEKIATEAGKLARY   75 (116)
T ss_pred             HHHHHHHHHHHhCCC-CCccHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            345599999999986 78999999999988888888899999998763

>PTZ00463 histone H2B; Provisional

Probab=88.55  E-value=1.8  Score=31.16  Aligned_cols=44  Identities=14%  Similarity=0.277  Sum_probs=38.4

Q ss_pred             HHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           36 NISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        36 ~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      -|+|++|++-|+ .-||+.|..+|.-.+.-...=|++||..++..
T Consensus        33 YI~KVLKqVhPd-~gIS~kaM~ImnSfvnDifErIA~EAs~La~~   76 (117)
T PTZ00463         33 YIFKVLKQVHPD-TGISRKSMNIMNSFLVDTFEKIATEASRLCKY   76 (117)
T ss_pred             HHHHHHHhhCCC-CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            499999999986 78999999999988888788889999988763

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

Probab=88.32  E-value=0.57  Score=36.71  Aligned_cols=52  Identities=25%  Similarity=0.238  Sum_probs=42.2

Q ss_pred             cccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           27 EQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        27 edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      .-...||++-|-||||.-= .--+|+-||--++.++|-.||.-+|..|....+
T Consensus        70 ~~~~~lPlaRiKkimK~de-dv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Te  121 (236)
T KOG1657|consen   70 FKNHILPLARIKKIMKSDE-DVSMITAEAPVLFAKACELFITELTLRSWVHTE  121 (236)
T ss_pred             hhhccCcHhhccccccccc-cccccchhHHHHHHHHHHHHHHHHHHHhhhhhc
Confidence            3345799999999999652 223899999999999999999999998766544

>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]

Probab=81.92  E-value=4  Score=29.75  Aligned_cols=54  Identities=17%  Similarity=0.209  Sum_probs=44.6

Q ss_pred             CCCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           24 NVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        24 ~~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      ..+.+.+..+   |+|++|++-|. .-|+.++..++.--..++.--|.+||+..+...
T Consensus        33 ~~~~e~~s~y---v~kvlk~Vhpd-~gis~~a~~vmnsf~ndife~iA~ea~rla~y~   86 (127)
T KOG1744|consen   33 TRRKESYSEY---VYKVLKQVHPD-LGISSKAMGVMNSFVNDIFERIASEAGRLAHYN   86 (127)
T ss_pred             ccccCceeee---hhhhhhcccCC-CCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhc
Confidence            4444555444   78899999997 789999999999999999999999999988654

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

Probab=80.60  E-value=3.2  Score=34.47  Aligned_cols=49  Identities=20%  Similarity=0.220  Sum_probs=30.0

Q ss_pred             CCCCcccccChhHHHHHHHHhhCC----CCccccHhHHHHHHHHHHHHHHHHH
Q 034435           23 SNVREQDRYLPIANISRIMKKALP----ANGKIAKDAKETVQECVSEFISFIT   71 (95)
Q Consensus        23 ~~~~edD~~LP~A~V~RImKe~LP----~~~kIskdAkeli~eC~sEFI~~vT   71 (95)
                      +..+..--.||.+.|-|+......    .+.||+|||.++|.+|--.|-.-|.
T Consensus       343 Skhgi~~P~lP~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~  395 (414)
T PF15511_consen  343 SKHGIPYPSLPPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLG  395 (414)
T ss_dssp             ---------S-HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCCccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHH
Confidence            455666667999999999888865    5789999999999999999876554

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

Probab=80.40  E-value=2  Score=33.31  Aligned_cols=50  Identities=14%  Similarity=0.107  Sum_probs=43.1

Q ss_pred             cChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 034435           31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFLF   82 (95)
Q Consensus        31 ~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~~   82 (95)
                      .||+++|-|+|.++.-..  |+.-+.-+|+--+..||-=|--+|-++|+...
T Consensus       112 ~f~Ka~iKkL~~~itg~~--v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~  161 (195)
T KOG3219|consen  112 AFPKAQIKKLMSSITGQS--VSENVAIAMAGIAKVFVGEVVEEALDVREEWG  161 (195)
T ss_pred             cCCHHHHHHHHHHHhCCc--cCcceeeeecchhhHhHHHHHHHHHHHHHHhc
Confidence            499999999999998653  77777778888899999999999999998764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	95
4awl_B	94	The Nf-y Transcription Factor Is Structurally And F		7e-18
1n1j_A	93	Crystal Structure Of The Nf-YbNF-Yc Histone Pair Le		8e-18
4g91_B	92	Ccaat-Binding Complex From Aspergillus Nidulans Len		1e-17
1jfi_B	179	Crystal Structure Of The Nc2-Tbp-Dna Ternary Comple		5e-05

>pdb|4AWL|B Chain B, The Nf-y Transcription Factor Is Structurally And Functionally A Sequence Specific Histone Length = 94

Iteration: 1
 Score = 85.5 bits (210), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 40/50 (80%), Positives = 44/50 (88%)
Query: 24 NVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          + REQD YLPIAN++RIMK A+P  GKIAKDAKE VQECVSEFISFITSE
Sbjct: 2  SFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSE 51

>pdb|1N1J|A Chain A, Crystal Structure Of The Nf-YbNF-Yc Histone Pair Length = 93

Iteration: 1
 Score = 85.5 bits (210), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 40/50 (80%), Positives = 44/50 (88%)
Query: 24 NVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          + REQD YLPIAN++RIMK A+P  GKIAKDAKE VQECVSEFISFITSE
Sbjct: 1  SFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSE 50

>pdb|4G91|B Chain B, Ccaat-Binding Complex From Aspergillus Nidulans Length = 92

Iteration: 1
 Score = 84.3 bits (207), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 38/49 (77%), Positives = 45/49 (91%)
Query: 25 VREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          ++EQDR+LPIAN++RIMK ALP N KIAK+AKE +QECVSEFISFITSE
Sbjct: 1  MKEQDRWLPIANVARIMKLALPENAKIAKEAKECMQECVSEFISFITSE 49

>pdb|1JFI|B Chain B, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex Length = 179

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 36/59 (61%), Gaps = 1/59 (1%)
Query: 17 GEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYD 75
          G     S+  + D  +P A I++++K+ LP N ++A DA+E V  C +EFI  I+SE +
Sbjct: 1  GPHMASSSGNDDDLTIPRAAINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSEAN 58

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	95
1jfi_B	179	DR1 protein, transcription regulator NC2 beta chai	1e-22
1n1j_A	93	NF-YB; histone-like PAIR, DNA binding protein; 1.6	1e-22
2byk_B	128	Chrac-14; nucleosome sliding, histone fold, DNA-bi	3e-22
1b67_A	68	Protein (histone HMFA); DNA binding protein; 1.48A	2e-13
1ku5_A	70	HPHA, archaeal histon; histone fold, DNA binding p	2e-12
2byk_A	140	Chrac-16; nucleosome sliding, histone fold, DNA-bi	1e-07
1n1j_B	97	NF-YC; histone-like PAIR, DNA binding protein; 1.6	4e-06

>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 Length = 179

 Score = 85.2 bits (210), Expect = 1e-22
 Identities = 22/57 (38%), Positives = 35/57 (61%), Gaps = 1/57 (1%)

Query: 17 GEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          G     S+  + D  +P A I++++K+ LP N ++A DA+E V  C +EFI  I+SE
Sbjct: 1  GPHMASSSGNDDDLTIPRAAINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSE 56

>1n1j_A NF-YB; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens} SCOP: a.22.1.3 Length = 93

 Score = 82.6 bits (204), Expect = 1e-22
 Identities = 40/50 (80%), Positives = 44/50 (88%)

Query: 24 NVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          + REQD YLPIAN++RIMK A+P  GKIAKDAKE VQECVSEFISFITSE
Sbjct: 1  SFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSE 50

>2byk_B Chrac-14; nucleosome sliding, histone fold, DNA-binding protein; 2.4A {Drosophila melanogaster} SCOP: a.22.1.3 PDB: 2bym_B Length = 128

 Score = 82.7 bits (204), Expect = 3e-22
 Identities = 18/48 (37%), Positives = 29/48 (60%)

Query: 26 REQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          R +D  LP A I R++K+ALP +  ++K+A+  +    S F  F+TS 
Sbjct: 4  RIEDLNLPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSS 51

>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 Length = 68

 Score = 58.9 bits (143), Expect = 2e-13
 Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 2/42 (4%)

Query: 32 LPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          LPIA I RI+K A     +++ DA+  + + + E    I SE
Sbjct: 3  LPIAPIGRIIKNAGAE--RVSDDARIALAKVLEEMGEEIASE 42

>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A {Pyrococcus horikoshii} SCOP: a.22.1.2 Length = 70

 Score = 56.2 bits (136), Expect = 2e-12
 Identities = 11/42 (26%), Positives = 24/42 (57%), Gaps = 2/42 (4%)

Query: 32 LPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          LPIA + R+++KA     ++++ A + + E + E+   I  +
Sbjct: 7  LPIAPVDRLIRKAGAE--RVSEQAAKVLAEYLEEYAIEIAKK 46

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

 Score = 45.5 bits (107), Expect = 1e-07
 Identities = 12/59 (20%), Positives = 23/59 (38%), Gaps = 1/59 (1%)

Query: 15 ESGEQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          E   Q P       + +LP++ +  IMK +    G I  +    + +C   F+  +   
Sbjct: 3  EPRSQPPVERPPTAETFLPLSRVRTIMKSS-MDTGLITNEVLFLMTKCTELFVRHLAGA 60

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

 Score = 40.7 bits (95), Expect = 4e-06
 Identities = 13/56 (23%), Positives = 23/56 (41%), Gaps = 1/56 (1%)

Query: 18 EQSPRSNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          E    +    + + LP+A I +IMK        I+ +A     +    FI+ +T  
Sbjct: 6  EIRNLTVKDFRVQELPLARIKKIMK-LDEDVKMISAEAPVLFAKAAQIFITELTLR 60

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	95
1jfi_B	179	DR1 protein, transcription regulator NC2 beta chai	99.77
3b0c_W	76	CENP-W, centromere protein W; histone fold, DNA bi	99.73
2byk_B	128	Chrac-14; nucleosome sliding, histone fold, DNA-bi	99.71
1n1j_A	93	NF-YB; histone-like PAIR, DNA binding protein; 1.6	99.71
1b67_A	68	Protein (histone HMFA); DNA binding protein; 1.48A	99.36
1f1e_A	154	Histone fold protein; archaeal histone protein, DN	99.31
1f1e_A	154	Histone fold protein; archaeal histone protein, DN	99.17
4g92_C	119	HAPE; transcription factor, nucleosome, minor groo	98.98
2byk_A	140	Chrac-16; nucleosome sliding, histone fold, DNA-bi	98.87
1n1j_B	97	NF-YC; histone-like PAIR, DNA binding protein; 1.6	98.81
3b0c_T	111	CENP-T, centromere protein T; histone fold, DNA bi	98.74
1ku5_A	70	HPHA, archaeal histon; histone fold, DNA binding p	98.69
1id3_B	102	Histone H4; nucleosome core particle, chromatin, p	98.57
2hue_C	84	Histone H4; mini beta sheet, elongated beta sandwh	98.51
1tzy_D	103	Histone H4-VI; histone-fold, tetramer-dimer-dimer,	98.23
2yfw_B	103	Histone H4, H4; cell cycle, kinetochore, centromer	98.14
1jfi_A	98	Transcription regulator NC2 alpha chain; histone,	97.71
4dra_E	84	Centromere protein X; DNA binding complex, DNA dam	97.06
2hue_B	77	Histone H3; mini beta sheet, elongated beta sandwh	96.95
3b0b_C	81	CENP-X, centromere protein X; histone fold, DNA bi	96.75
2yfv_A	100	Histone H3-like centromeric protein CSE4; cell cyc	96.15
1tzy_C	136	Histone H3; histone-fold, tetramer-dimer-dimer, DN	96.14
1h3o_B	76	Transcription initiation factor TFIID 20/15 kDa su	96.12
3r45_A	156	Histone H3-like centromeric protein A; histone fol	96.01
3v9r_B	88	MHF2, uncharacterized protein YDL160C-A; histone f	95.98
3nqj_A	82	Histone H3-like centromeric protein A; alpha helix	95.68
3nqu_A	140	Histone H3-like centromeric protein A; alpha helix	95.61
1taf_B	70	TFIID TBP associated factor 62; transcription init	94.72
1bh9_B	89	TAFII28; histone fold, tata binding protein, trans	94.59
2nqb_D	123	Histone H2B; nucleosome, NCP, chromatin, structura	94.52
1tzy_B	126	Histone H2B; histone-fold, tetramer-dimer-dimer, D	94.28
2jss_A	192	Chimera of histone H2B.1 and histone H2A.Z; histon	92.56
3v9r_A	90	MHF1, uncharacterized protein YOL086W-A; histone f	92.37
2nqb_C	123	Histone H2A; nucleosome, NCP, chromatin, structura	91.29
1tzy_A	129	Histone H2A-IV; histone-fold, tetramer-dimer-dimer	90.74
1f66_C	128	Histone H2A.Z; nucleosome, chromatin, histone vari	90.7
1id3_C	131	Histone H2A.1; nucleosome core particle, chromatin	89.68
2f8n_K	149	Histone H2A type 1; nucleosome, NCP, macroh2A, his	89.02
2f8n_G	120	Core histone macro-H2A.1; nucleosome, NCP, macroh2	88.7
4dra_A	113	Centromere protein S; DNA binding complex, DNA dam	87.55
2jss_A	192	Chimera of histone H2B.1 and histone H2A.Z; histon	85.12
3b0b_B	107	CENP-S, centromere protein S; histone fold, DNA bi	84.11

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

Probab=99.77  E-value=4.3e-19  Score=131.96  Aligned_cols=57  Identities=35%  Similarity=0.581  Sum_probs=51.4

Q ss_pred             CCCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           24 NVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        24 ~~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      ...++|+.||+|+|.||||++|| +++|+|||+++|++||+|||+|||++||++|...
T Consensus         8 ~~~~eD~~LP~A~V~RImK~alp-~~rISkDA~~al~ec~~eFI~~LtseA~e~a~~~   64 (179)
T 1jfi_B            8 SGNDDDLTIPRAAINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSEANEICNKS   64 (179)
T ss_dssp             ----CCCCCCHHHHHHHHHHHST-TCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCchhhhhcCHHHHHHHHHHhCC-ccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            36789999999999999999999 8999999999999999999999999999999764

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

Probab=99.73  E-value=4.8e-18  Score=109.46  Aligned_cols=52  Identities=19%  Similarity=0.246  Sum_probs=48.0

Q ss_pred             cccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           29 DRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        29 D~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      ...||+|+|.||||+++| +.+||+||+++|++||+|||++|++|||++|...
T Consensus         2 ~~~LP~A~V~rI~K~~~p-~~~is~~A~~~i~~~~~~Fi~~la~eA~~~a~~~   53 (76)
T 3b0c_W            2 RRTVPRGTLRKIIKKHKP-HLRLAANTDLLVHLSFLLFLHRLAEEARTNAFEN   53 (76)
T ss_dssp             --CCCHHHHHHHHHHHCT-TCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcccccHHHHHHHHhCC-CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            468999999999999999 6999999999999999999999999999999864

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

Probab=99.71  E-value=9.1e-18  Score=118.18  Aligned_cols=56  Identities=32%  Similarity=0.482  Sum_probs=47.6

Q ss_pred             CcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           26 REQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        26 ~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      +++|+.||+|+|.||||+++|++.+||+||+++|++||++||+|||++|+++|...
T Consensus         4 ~~~d~~LP~A~I~rImK~~~pd~~~iS~dA~~~l~ka~e~FI~~lt~~A~~~a~~~   59 (128)
T 2byk_B            4 RIEDLNLPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQ   59 (128)
T ss_dssp             -------CCSHHHHHHHHHSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             ccccccCCHHHHHHHHHHhCcccceECHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            57899999999999999999999999999999999999999999999999999864

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

Probab=99.71  E-value=2.2e-17  Score=109.28  Aligned_cols=56  Identities=71%  Similarity=0.969  Sum_probs=49.9

Q ss_pred             CCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           25 VREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        25 ~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      .+++|+.||+|+|.||||+.+|++.+||+||++++++||.+||.+|+++||+.|..
T Consensus         2 ~~~~d~~LP~a~i~ri~K~~~~~~~~is~dA~~~l~~a~e~Fi~~l~~~A~~~a~~   57 (93)
T 1n1j_A            2 FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQ   57 (93)
T ss_dssp             -----CCCCHHHHHHHHHHTSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcccccCChhHHHHHHHHhCCccceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            57899999999999999999999999999999999999999999999999999975

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

Probab=99.36  E-value=1.6e-12  Score=81.08  Aligned_cols=49  Identities=31%  Similarity=0.374  Sum_probs=46.1

Q ss_pred             cChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        31 ~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      .||+++|.||||+.  ++.+||+||++++++|+.+||.+|+++||+.|...
T Consensus         2 ~lP~a~v~Ri~k~~--~~~ris~~A~~~l~~a~e~fi~~l~~~A~~~a~~~   50 (68)
T 1b67_A            2 ELPIAPIGRIIKNA--GAERVSDDARIALAKVLEEMGEEIASEAVKLAKHA   50 (68)
T ss_dssp             CSCHHHHHHHHHHT--TCSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCCccHHHHHHhcC--CcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            69999999999999  67999999999999999999999999999998753

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

Probab=99.31  E-value=3.5e-12  Score=92.68  Aligned_cols=50  Identities=24%  Similarity=0.426  Sum_probs=47.9

Q ss_pred             cChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        31 ~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      .||+|+|.||||+.||. .+||+||++.+++|+++|+.+|+++|++.|+..
T Consensus         4 ~LP~a~V~Riik~~lg~-~rVS~dA~~~l~~~l~~f~~~i~~~A~~~a~ha   53 (154)
T 1f1e_A            4 ELPKAAIERIFRQGIGE-RRLSQDAKDTIYDFVPTMAEYVANAAKSVLDAS   53 (154)
T ss_dssp             CCCHHHHHHHHHTTSTT-CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             cCCccHHHHHHHhcCCc-cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            69999999999999998 999999999999999999999999999999753

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

Probab=99.17  E-value=7.9e-11  Score=85.53  Aligned_cols=57  Identities=12%  Similarity=0.044  Sum_probs=52.3

Q ss_pred             CCCCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           23 SNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        23 ~~~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      +..+.+|+.||+++|.||||+.  ...+||+||++.+++|+.+|+.+|+++|++.|+..
T Consensus        74 ~v~d~~~l~lP~a~V~Ri~k~~--g~~RVS~~A~~~l~~~le~f~~~I~~~A~~~a~ha  130 (154)
T 1f1e_A           74 GVEDYDGELFGRATVRRILKRA--GIERASSDAVDLYNKLICRATEELGEKAAEYADED  130 (154)
T ss_dssp             TSTTCCSCCCCHHHHHHHHHHT--TCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             cCCccccccCCccHHHHHHHHc--CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            3467789999999999999999  66899999999999999999999999999999764

>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=98.98  E-value=1.5e-09  Score=75.05  Aligned_cols=53  Identities=23%  Similarity=0.207  Sum_probs=48.4

Q ss_pred             ccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           28 QDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        28 dD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      .+..||++.|.||||.- |...+||+||..++.+|+.+||.+|+++|++.|+..
T Consensus        38 k~~~lPvaRIkrImK~d-~~~~~is~eA~v~la~a~E~Fi~~L~~~A~~~a~~~   90 (119)
T 4g92_C           38 KIHQLPLARIKKVMKAD-PEVKMISAEAPILFAKGCDVFITELTMRAWIHAEDN   90 (119)
T ss_dssp             SCCSSCHHHHHHHHHTS-TTCCEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             ccCCCCHHHHHHHHhhC-CccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            35579999999999965 889999999999999999999999999999999754

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

Probab=98.87  E-value=1.4e-09  Score=77.65  Aligned_cols=55  Identities=16%  Similarity=0.341  Sum_probs=36.0

Q ss_pred             CCCCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHH
Q 034435           23 SNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVV   78 (95)
Q Consensus        23 ~~~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic   78 (95)
                      +.....++.||+|.|.||||.- |...+|+++|..+|.+|+..||.+|+.+|.+.|
T Consensus        11 s~~~~~~~~LPlaRIKrIMK~d-pdv~~Is~eA~vliakA~ElFI~~Lt~~A~~~a   65 (140)
T 2byk_A           11 ERPPTAETFLPLSRVRTIMKSS-MDTGLITNEVLFLMTKCTELFVRHLAGAAYTEE   65 (140)
T ss_dssp             ------------------CCSS-SSCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCcccCCCCCHHHHHHHHhcC-cccccccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3345577899999999999998 888999999999999999999999999999999

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

Probab=98.81  E-value=8.6e-09  Score=68.73  Aligned_cols=56  Identities=21%  Similarity=0.120  Sum_probs=46.0

Q ss_pred             CCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           25 VREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        25 ~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      ....+..||.+.|.||||.. |...+||+||..++.+|+.+||.+|+.+|.+.|+..
T Consensus        13 ~~~~~~~lP~arIkrImK~~-~~~~~is~eA~~~laka~E~Fi~~l~~~A~~~a~~~   68 (97)
T 1n1j_B           13 KDFRVQELPLARIKKIMKLD-EDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDN   68 (97)
T ss_dssp             -------CCHHHHHHHHTTS-TTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCcCCCcCCHHHHHHHHccC-ccccccChHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            34566789999999999998 777899999999999999999999999999998753

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

Probab=98.74  E-value=1.4e-08  Score=69.74  Aligned_cols=52  Identities=15%  Similarity=0.330  Sum_probs=43.0

Q ss_pred             cccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           27 EQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        27 edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      .+|+.||+++|.||+|+.  ...+||+|+++.+++|+.+|+..|+.+|+..|+.
T Consensus         3 ~~d~~lP~a~I~Ri~r~~--g~~rIS~~a~~~l~e~l~~f~~~v~~da~~~A~H   54 (111)
T 3b0c_T            3 TREPEIASSLIKQIFSHY--VKTPVTRDAYKIVEKCSERYFKQISSDLEAYSQH   54 (111)
T ss_dssp             -------CHHHHHHHHHH--HCSCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHC--CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            468899999999999999  6789999999999999999999999999999875

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

Probab=98.69  E-value=5.2e-08  Score=61.10  Aligned_cols=48  Identities=23%  Similarity=0.373  Sum_probs=45.0

Q ss_pred             cChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        31 ~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      .||+++|.||+|+.  ...+||+++.+.+++++.+|+..|+.+|+..|+.
T Consensus         6 ~lp~a~v~Rl~r~~--g~~ris~~a~~~l~e~~~~~~~~v~~dA~~~a~h   53 (70)
T 1ku5_A            6 ELPIAPVDRLIRKA--GAERVSEQAAKVLAEYLEEYAIEIAKKAVEFARH   53 (70)
T ss_dssp             CSCHHHHHHHHHHT--TCSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             cCChHHHHHHHHHc--CcceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            69999999999997  5689999999999999999999999999998864

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

Probab=98.57  E-value=1.4e-07  Score=63.86  Aligned_cols=56  Identities=13%  Similarity=0.148  Sum_probs=48.4

Q ss_pred             CCCCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           23 SNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        23 ~~~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      ...++....||+++|.||++..-.  .+||+|+.+.+++|+.+|+..|+.+|.+.|+.
T Consensus        20 k~~r~~i~~ip~~~I~Rlar~~Gv--~rIS~da~~~l~~~le~fi~~I~~dA~~~a~H   75 (102)
T 1id3_B           20 KILRDNIQGITKPAIRRLARRGGV--KRISGLIYEEVRAVLKSFLESVIRDSVTYTEH   75 (102)
T ss_dssp             ----CCGGGSCHHHHHHHHHHTTC--CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccCCCCHHHHHHHHHHcCc--hhccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            466888899999999999999854  58999999999999999999999999998874

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

Probab=98.51  E-value=3e-07  Score=59.89  Aligned_cols=55  Identities=11%  Similarity=0.112  Sum_probs=49.6

Q ss_pred             CCCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           24 NVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        24 ~~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      .+++....||+++|.||++..-.  .+||+|+.+.+++|+.+|+..|+.+|...|+.
T Consensus         3 ~~r~~~~~ip~~~I~Riar~~Gv--~rIs~da~~~l~~~l~~~~~~I~~dA~~~a~h   57 (84)
T 2hue_C            3 VLRDNIQGITKPAIRRLARRGGV--KRISGLIYEETRGVLKVFLENVIRDAVTYTEH   57 (84)
T ss_dssp             CGGGGCCSSCHHHHHHHHHHTTC--CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccCCCCCHHHHHHHHHHcCc--hhccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35677888999999999999854  58999999999999999999999999998874

>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=98.23  E-value=3.5e-06  Score=56.61  Aligned_cols=56  Identities=11%  Similarity=0.111  Sum_probs=50.9

Q ss_pred             CCCCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           23 SNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        23 ~~~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      ...++.+..||+++|.||++..-.  .+|+.|+.+.+++++.+|+..|..+|.+.|+.
T Consensus        21 k~~r~~~~gip~~~I~Rlar~~G~--~rIs~~a~~~l~~vle~~~~~V~~dA~~~a~h   76 (103)
T 1tzy_D           21 KVLRDNIQGITKPAIRRLARRGGV--KRISGLIYEETRGVLKVFLENVIRDAVTYTEH   76 (103)
T ss_dssp             CCCCCGGGGSCHHHHHHHHHHTTC--CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhcccCCHHHHHHHHHHcCc--cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            457888888999999999999965  59999999999999999999999999998874

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

Probab=98.14  E-value=5.2e-06  Score=55.86  Aligned_cols=56  Identities=13%  Similarity=0.150  Sum_probs=44.0

Q ss_pred             CCCCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           23 SNVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        23 ~~~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      ...++....||+++|.||++..-.  .+|+.|+.+.+++++.+|+..|..+|.+.|+-
T Consensus        21 ~~~r~~~~gip~~~I~Rlar~~G~--~rIs~~a~~~l~~vle~~~~~V~~dA~~~a~h   76 (103)
T 2yfw_B           21 KILRDNIQGITKPAIRRLARRGGV--KRISGLIYEEVRNVLKTFLESVIRDAVTYTEH   76 (103)
T ss_dssp             ---------CCHHHHHHHHHHTTC--CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhccCCHHHHHHHHHHcCc--cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345788888999999999999865  59999999999999999999999999998874

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

Probab=97.71  E-value=9.5e-05  Score=49.24  Aligned_cols=52  Identities=19%  Similarity=0.222  Sum_probs=45.9

Q ss_pred             ccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           28 QDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        28 dD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      -...||.+-|.||||. -|...+||.||.-++..++-.|+..|+.+|.+.++.
T Consensus         8 ~~~~fPvaRIkrimK~-~~~~~~vs~~A~v~la~a~E~Fi~el~~~A~~~a~~   59 (98)
T 1jfi_A            8 YNARFPPARIKKIMQT-DEEIGKVAAAVPVIISRALELFLESLLKKACQVTQS   59 (98)
T ss_dssp             --CCCCHHHHHHHHTT-STTCCCBCTTHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             cCCCCChHHHHHHHHc-CccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3468999999999997 566679999999999999999999999999998864

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

Probab=97.06  E-value=0.0023  Score=42.34  Aligned_cols=52  Identities=13%  Similarity=0.067  Sum_probs=44.4

Q ss_pred             cccChhHHHHHHHHhhCC-CCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           29 DRYLPIANISRIMKKALP-ANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        29 D~~LP~A~V~RImKe~LP-~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      +..+|..+|.||++...- +++||++||..++.+....|+.=....|.+.++.
T Consensus        10 ~~~i~~~li~ril~~~F~~~kTkIs~dAl~l~aeyl~iFV~EAv~RA~~~a~~   62 (84)
T 4dra_E           10 GSGFRKELVSRLLHLHFKDDKTKVSGDALQLMVELLKVFVVEAAVRGVRQAQA   62 (84)
T ss_dssp             -CCCCHHHHHHHHHTTCSSTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHhcCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            567999999999998886 6799999999999999999998777777776664

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

Probab=96.95  E-value=0.0036  Score=40.73  Aligned_cols=51  Identities=8%  Similarity=0.190  Sum_probs=44.2

Q ss_pred             cccChhHHHHHHHHhhCC---CCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           29 DRYLPIANISRIMKKALP---ANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        29 D~~LP~A~V~RImKe~LP---~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      ++.+|++-.+|++||+..   .+.+++.+|.+++||.+-.|+--+...||..+.
T Consensus         1 ~lli~k~PF~RLVRei~~~~~~~~R~q~~Al~aLQea~Eaylv~lfeda~l~A~   54 (77)
T 2hue_B            1 MALIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAI   54 (77)
T ss_dssp             -CCSCHHHHHHHHHHHHHTTCSSCEECHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCccccchHHHHHHHHHHHcCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            478999999999999943   578999999999999999999888888887653

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

Probab=96.75  E-value=0.0068  Score=39.68  Aligned_cols=54  Identities=11%  Similarity=0.159  Sum_probs=42.6

Q ss_pred             CcccccChhHHHHHHHHhhCC-CCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           26 REQDRYLPIANISRIMKKALP-ANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        26 ~edD~~LP~A~V~RImKe~LP-~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      .+++..+|..+|.||++.... ..+||++||..++.+....||.=....|.+.++
T Consensus         3 ~~~~~~~~~~lI~ril~~~f~~~ktrI~~dAl~l~aeyl~iFV~EAv~RA~~~a~   57 (81)
T 3b0b_C            3 EEREGGFRKETVERLLRLHFRDGRTRVNGDALLLMAELLKVFVREAAARAARQAQ   57 (81)
T ss_dssp             ----CCCCHHHHHHHHHHHCCSTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CccCCCCCHHHHHHHHHHHhccCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345778999999999999997 579999999999999888888766666666554

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

Probab=96.15  E-value=0.01  Score=40.18  Aligned_cols=55  Identities=15%  Similarity=0.183  Sum_probs=41.7

Q ss_pred             CCcccccChhHHHHHHHHhhCC------CCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           25 VREQDRYLPIANISRIMKKALP------ANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        25 ~~edD~~LP~A~V~RImKe~LP------~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      .+..++.+|++-..|+++|+..      .+.+++.+|.+++||.+-.|+--+-..||..+.
T Consensus        21 Qkst~llIpk~PF~RLVREI~~~~~~~~~~~R~q~~Al~ALQeaaEayLv~Lfeda~l~A~   81 (100)
T 2yfv_A           21 QRSTDLLISRMPFARLVKEVTDQFTTESEPLRWQSMAIMALQEASEAYLVGLLEHTNLLAL   81 (100)
T ss_dssp             -------CCHHHHHHHHHHHHHTTC-----CEECHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccchhhhccccHHHHHHHHHHHhccccchhhccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3567889999999999999983      268999999999999999999888888887653

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

Probab=96.14  E-value=0.016  Score=41.21  Aligned_cols=54  Identities=7%  Similarity=0.205  Sum_probs=47.0

Q ss_pred             CcccccChhHHHHHHHHhhCC---CCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           26 REQDRYLPIANISRIMKKALP---ANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        26 ~edD~~LP~A~V~RImKe~LP---~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      +..|+.+|++-.+|+++|+..   .+.+++.+|.+++||.+-.|+--+-..||..+.
T Consensus        57 kst~lLIpk~PF~RLVREI~~~~~~~~R~q~~Al~aLQeaaEayLv~Lfeda~l~A~  113 (136)
T 1tzy_C           57 KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAI  113 (136)
T ss_dssp             HCCSCCSCHHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhhccchHHHHHHHHHHHhhhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456888999999999999943   578999999999999999999888888887653

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

Probab=96.12  E-value=0.022  Score=36.88  Aligned_cols=48  Identities=15%  Similarity=0.301  Sum_probs=43.9

Q ss_pred             cChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        31 ~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      -|++.+++.+++++=| +..+..|+.|++.+.|.+||.=+++.|-..|.
T Consensus         5 vl~k~~L~~Lv~~idp-~~~ld~~vee~ll~lADdFV~~V~~~ac~lAK   52 (76)
T 1h3o_B            5 VLTKKKLQDLVREVDP-NEQLDEDVEEMLLQIADDFIESVVTAACQLAR   52 (76)
T ss_dssp             SSCHHHHHHHHHHHCS-SCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHhcCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5789999999999966 58999999999999999999999999988875

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

Probab=96.01  E-value=0.013  Score=42.72  Aligned_cols=54  Identities=13%  Similarity=0.167  Sum_probs=45.1

Q ss_pred             CcccccChhHHHHHHHHhhCC-----CCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           26 REQDRYLPIANISRIMKKALP-----ANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        26 ~edD~~LP~A~V~RImKe~LP-----~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      +..++.||++-.+|+++|+.-     .+.+++.+|.+++||.+-.|+--+-..||..+.
T Consensus        72 kSteLLIpKlPF~RLVREIa~~~~~~~~lRfqs~Al~ALQEAaEayLV~LFEdanLcAi  130 (156)
T 3r45_A           72 KSTHLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTL  130 (156)
T ss_dssp             ---CCCSCHHHHHHHHHHHHHTTTTTCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccccccHHHHHHHHHHHhccCccceecHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            467888999999999999973     257999999999999999999988888887654

>3v9r_B MHF2, uncharacterized protein YDL160C-A; histone fold, fanconi anemia, DNA repair, DNA BI protein; 2.40A {Saccharomyces cerevisiae}

Probab=95.98  E-value=0.011  Score=39.77  Aligned_cols=48  Identities=17%  Similarity=0.117  Sum_probs=40.0

Q ss_pred             ChhHHHHHHHHhhCC-CCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           32 LPIANISRIMKKALP-ANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        32 LP~A~V~RImKe~LP-~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      ||+.+|+||++...- +++||++||..++++..-.||.=.-..|.+--+
T Consensus         2 ip~~llaRIL~~~F~~~kTrIt~da~~lv~kY~diFVrEAv~Rs~e~ke   50 (88)
T 3v9r_B            2 LSKEALIKILSQNEGGNDMKIADEVVPMIQKYLDIFIDEAVLRSLQSHK   50 (88)
T ss_dssp             CCSHHHHHHHTTTSCSSCCEECTTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhCCCCceecHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            799999999997775 579999999999999999999766666655443

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

Probab=95.68  E-value=0.028  Score=36.85  Aligned_cols=50  Identities=14%  Similarity=0.159  Sum_probs=43.2

Q ss_pred             ccChhHHHHHHHHhhCC-----CCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           30 RYLPIANISRIMKKALP-----ANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        30 ~~LP~A~V~RImKe~LP-----~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      +.+|++-.+|++||+-.     .+.+++.+|.+++||.+-.|+--+-..||..+.
T Consensus         2 lLI~klPF~RLVREI~~~~~~~~~~R~q~~Al~aLQea~E~ylv~Lfeda~lcAi   56 (82)
T 3nqj_A            2 LLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTL   56 (82)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHSSCCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcccccHHHHHHHHHHHhccCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46899999999999972     367999999999999999999888888887553

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

Probab=95.61  E-value=0.016  Score=41.49  Aligned_cols=54  Identities=13%  Similarity=0.167  Sum_probs=45.1

Q ss_pred             CcccccChhHHHHHHHHhhCC-----CCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           26 REQDRYLPIANISRIMKKALP-----ANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        26 ~edD~~LP~A~V~RImKe~LP-----~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      +..++.+|++-.+|+++|+--     .+.+++.+|.+++||.+-.|+--+-..||..+.
T Consensus        56 kst~LLIpKlPF~RLVREI~~~~~~~~~~Rfq~~Al~ALQEAaEayLv~LFEdanlcAi  114 (140)
T 3nqu_A           56 KSTHLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTL  114 (140)
T ss_dssp             ---CCCSCTTHHHHHHHHHHHHHHTTCCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccccccHHHHHHHHHHHhcccccceecHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            467889999999999999972     368999999999999999999988888887554

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

Probab=94.72  E-value=0.13  Score=32.70  Aligned_cols=47  Identities=17%  Similarity=0.184  Sum_probs=41.6

Q ss_pred             cChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        31 ~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      .||+++|.+|.+.+  .-.+++.|+...+.+-+..-+.-|..+|.....
T Consensus         6 ~lp~~~v~~iaes~--Gi~~lsddaa~~LA~dvEyr~~eI~qeA~kfmr   52 (70)
T 1taf_B            6 SISAESMKVIAESI--GVGSLSDDAAKELAEDVSIKLKRIVQDAAKFMN   52 (70)
T ss_dssp             CCCHHHHHHHHHHT--TCCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            69999999999987  223899999999999999999999999988764

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

Probab=94.59  E-value=0.11  Score=34.19  Aligned_cols=49  Identities=14%  Similarity=0.156  Sum_probs=44.9

Q ss_pred             cChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        31 ~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      .||+++|-|+|+..+  +.+++.+...+|.-.+.+||.=|..+|-++.+..
T Consensus        16 ~f~k~~vKrl~~~~~--~~~v~~~v~i~v~glaKvfVgelVE~A~~V~~~~   64 (89)
T 1bh9_B           16 AFPKAAIKRLIQSIT--GTSVSQNVVIAMSGISKVFVGEVVEEALDVCEKW   64 (89)
T ss_dssp             CCCHHHHHHHHHHHH--SSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHHHc--CCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            699999999999998  4689999999999999999999999999998754

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

Probab=94.52  E-value=0.1  Score=36.73  Aligned_cols=45  Identities=18%  Similarity=0.285  Sum_probs=40.6

Q ss_pred             HHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           35 ANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        35 A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      .-|+|++|++=|+ ..||.+|...|...+..+..=|+.||.+++..
T Consensus        37 ~YIyKVLKQVhpd-~gISskAm~ImnSfvnDiferIA~EAs~La~~   81 (123)
T 2nqb_D           37 IYIYTVLKQVHPD-TGISSKAMSIMNSFVNDIFERIAAEASRLAHY   81 (123)
T ss_dssp             HHHHHHHHHHCTT-CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-CCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4589999999775 89999999999999999999999999998863

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

Probab=94.28  E-value=0.12  Score=36.44  Aligned_cols=44  Identities=16%  Similarity=0.300  Sum_probs=40.4

Q ss_pred             HHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           36 NISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        36 ~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      -|+|++|++=|+ ..||.+|...|...+..+..=|+.||.+++..
T Consensus        41 YIyKVLKQVhpd-~gISskAm~ImnSfvnDiferIA~EAs~La~~   84 (126)
T 1tzy_B           41 YVYKVLKQVHPD-TGISSKAMGIMNSFVNDIFERIAGEASRLAHY   84 (126)
T ss_dssp             HHHHHHHHHCTT-CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCC-CCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            599999999775 88999999999999999999999999998864

>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=92.56  E-value=0.31  Score=35.46  Aligned_cols=45  Identities=16%  Similarity=0.337  Sum_probs=40.5

Q ss_pred             HHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           35 ANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        35 A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      .-|+|++|++-|. ..||++|.+.|...+..+..-|+.||.+++..
T Consensus         7 ~yi~kvLkqv~p~-~~iS~~Am~~m~s~v~di~~rIa~eA~~L~~~   51 (192)
T 2jss_A            7 SYIYKVLKQTHPD-TGISQKSMSILNSFVNDIFERIATEASKLAAY   51 (192)
T ss_dssp             HHHHHHHHHHCSS-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcccCCC-CCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4599999999874 88999999999999999999999999988753

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

Probab=92.37  E-value=0.51  Score=31.17  Aligned_cols=44  Identities=9%  Similarity=0.073  Sum_probs=39.2

Q ss_pred             HHHHHHHhhCCCC-ccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           36 NISRIMKKALPAN-GKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        36 ~V~RImKe~LP~~-~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      +|.||..+.++.. +.+|+++...+.+.+-+++.-++.++...++
T Consensus        17 ~V~ki~~e~~~~~g~~vs~~~i~aL~e~~~~~~~~ia~Dl~~fA~   61 (90)
T 3v9r_A           17 RVEERLQQVLSSEDIKYTPRFINSLLELAYLQLGEMGSDLQAFAR   61 (90)
T ss_dssp             HHHHHHHHHSCSSCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCceeCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6889999999876 9999999999999999999888888877665

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

Probab=91.29  E-value=0.78  Score=31.55  Aligned_cols=52  Identities=12%  Similarity=0.153  Sum_probs=41.9

Q ss_pred             cccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           27 EQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        27 edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      --.+.||.+-|.|+||+.--.. +|+.+|-..+..+.-.+..-|...|-+.|.
T Consensus        19 ragL~fPV~ri~R~Lk~~~~a~-RV~~~A~VyLaAvLEyL~aEIlelAgn~A~   70 (123)
T 2nqb_C           19 RAGLQFPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVMEYLAAEVLELAGNAAR   70 (123)
T ss_dssp             HHTCSSCHHHHHHHHHHTTSCS-EECTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCeeccHHHHHHHHHcccccc-ccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3568899999999999984443 999999999988887777777777766654

>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=90.74  E-value=0.91  Score=31.50  Aligned_cols=52  Identities=12%  Similarity=0.156  Sum_probs=42.2

Q ss_pred             cccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           27 EQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        27 edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      --.+.||.+-|.|+||+.--.. +|+.+|-..+..+.-.+..-|...|-+.|.
T Consensus        21 ragLqfPV~rI~R~Lk~~~~a~-RVs~~A~VyLaAvLEyL~aEIlelAgn~A~   72 (129)
T 1tzy_A           21 RAGLQFPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNAAR   72 (129)
T ss_dssp             HHTCSSCHHHHHHHHHHTTSSS-EECTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCceeccHHHHHHHHHcccccc-ccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3578899999999999974443 999999999988887777777777766654

>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=90.70  E-value=0.93  Score=31.41  Aligned_cols=53  Identities=11%  Similarity=0.134  Sum_probs=41.8

Q ss_pred             cccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           27 EQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        27 edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      --.+.||.+-|.|+||+.-....+|+.+|-..+..+.-.+..-|...|-+.+.
T Consensus        23 ragLqfPV~ri~R~Lk~~~~a~~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~   75 (128)
T 1f66_C           23 RAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASK   75 (128)
T ss_dssp             HHTCSSCHHHHHHHHHHTSCSSCEECTTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCccCChHHHHHHHHHcccchhhccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35688999999999999865445999999999888877776777666665554

>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=89.68  E-value=0.99  Score=31.38  Aligned_cols=53  Identities=11%  Similarity=0.157  Sum_probs=42.7

Q ss_pred             CcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           26 REQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        26 ~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      .--.+.||.+-|.|+||+.--.. +|+.+|-..+..+.-.+..-|...|-+.|.
T Consensus        20 ~ragLqfPV~rI~R~Lk~~~~a~-RVs~~A~VyLaAvLEyL~aEIlelAgn~A~   72 (131)
T 1id3_C           20 AKAGLTFPVGRVHRLLRRGNYAQ-RIGSGAPVYLTAVLEYLAAEILELAGNAAR   72 (131)
T ss_dssp             GGGTCSSCHHHHHHHHHTTCSCS-EECSSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccCCeecCHHHHHHHHHcccccc-ccchhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45578999999999999974443 999999999988887777777777766654

>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=89.02  E-value=1.3  Score=31.58  Aligned_cols=52  Identities=10%  Similarity=0.148  Sum_probs=41.5

Q ss_pred             cccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           27 EQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        27 edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      --.+.||.+-|.|+||+.--.. +|+.+|-..+..+.-.+..-|...|-+.|.
T Consensus        40 ragLqFPVgrI~R~LK~~~~a~-RVs~~A~VyLAAVLEYL~aEILelAgn~A~   91 (149)
T 2f8n_K           40 RAGLQFPVGRVHRLLRKGNYSE-RVGAGAPVYLAAVLEYLTAEILELAGNAAR   91 (149)
T ss_dssp             HHTCSSCHHHHHHHHHHTTSCS-EECTTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCeeccHHHHHHHHHcccccc-ccCcCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3467899999999999985553 999999999888877777777776666554

>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=88.70  E-value=1.8  Score=29.65  Aligned_cols=52  Identities=15%  Similarity=0.135  Sum_probs=41.3

Q ss_pred             cccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           27 EQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        27 edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      --.+.||.+-|.|+||+.=-. -+|+.+|-..+..+.-.+..-|...|-+.+.
T Consensus        18 ragLqfPV~ri~R~Lk~~~~a-~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~   69 (120)
T 2f8n_G           18 KAGVIFPVGRMLRYIKKGHPK-YRIGVGAPVYMAAVLEYLTAEILELAVNAAR   69 (120)
T ss_dssp             HHTCSSCHHHHHHHHHHHSSS-CEECTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccCccCChHHHHHHHHcCccc-cccccchHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            456889999999999998544 4999999999888877777777766665554

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

Probab=87.55  E-value=0.85  Score=31.45  Aligned_cols=44  Identities=5%  Similarity=0.076  Sum_probs=37.7

Q ss_pred             HHHHHHHhhCCC-CccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           36 NISRIMKKALPA-NGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        36 ~V~RImKe~LP~-~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      +|.||+++.... ++.||+++...+.+.+-+++.-++.++...+.
T Consensus        32 ~V~rIvke~gaer~~~vS~~ai~aL~El~~~~~~~ia~Dl~~fAk   76 (113)
T 4dra_A           32 TVGCLCEEVALDKEMQFSKQTIAAISELTFRQCENFAKDLEMFAR   76 (113)
T ss_dssp             HHHHHHHHHHHHHTCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            689999998643 68899999999999999999888888877664

>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=85.12  E-value=2.5  Score=30.64  Aligned_cols=53  Identities=9%  Similarity=0.137  Sum_probs=41.7

Q ss_pred             cccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           27 EQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        27 edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      ...+.+|.+-|.|+||+.--...+|+.+|...+..+.-.+..-|...|.+.+.
T Consensus       101 ragl~fPv~ri~R~lk~~~~a~~Rv~~~A~vyLaavLEyl~~eIlelA~n~a~  153 (192)
T 2jss_A          101 RAGLQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNAAK  153 (192)
T ss_dssp             HSSCCSCHHHHHHHHHHTTCSSCCCCTTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCCcCCHHHHHHHHHhcCccccccccChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34688999999999999843335899999999888877777777777766554

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

Probab=84.11  E-value=1.6  Score=29.64  Aligned_cols=44  Identities=5%  Similarity=0.032  Sum_probs=37.8

Q ss_pred             HHHHHHHhhCC-CCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           36 NISRIMKKALP-ANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        36 ~V~RImKe~LP-~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      +|.||+++..- .+.++++++...+.+.+-+|+.-|+.+|...+.
T Consensus        24 ~V~rI~~~~g~~~~~~vs~~~i~aL~E~~~~~~~~ia~Da~~fA~   68 (107)
T 3b0b_B           24 TTGCLCQDVAEDKGVLFSKQTVAAISEITFRQCENFARDLEMFAR   68 (107)
T ss_dssp             HHHHHHHHHHHHHTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            58899998853 357999999999999999999999988887765

---

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	95
d2bykb1	89	a.22.1.3 (B:11-99) Chrac-14 {Fruit fly (Drosophila	1e-15
d1n1ja_	87	a.22.1.3 (A:) Nuclear transcription factor Y subun	2e-15
d1jfib_	135	a.22.1.3 (B:) Negative cofactor 2, NC2, beta chain	4e-14
d1f1ea_	151	a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy	1e-12
d1f1ea_	151	a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy	1e-05
d1htaa_	68	a.22.1.2 (A:) Archaeal histone {Archaeon Methanoth	3e-11
d1ku5a_	66	a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococc	1e-10
d1jfia_	66	a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chai	3e-10
d1n1jb_	78	a.22.1.3 (B:) Nuclear transcription factor Y subun	9e-09

>d2bykb1 a.22.1.3 (B:11-99) Chrac-14 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 89

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

 Score = 63.3 bits (154), Expect = 1e-15
 Identities = 15/42 (35%), Positives = 25/42 (59%)

Query: 33 PIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEY 74
          P A I R++K+ALP +  ++K+A+  +    S F  F+TS  
Sbjct: 1  PNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSS 42

>d1n1ja_ a.22.1.3 (A:) Nuclear transcription factor Y subunit beta (Nf-Yb3) {Human (Homo sapiens) [TaxId: 9606]} Length = 87

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

 Score = 62.9 bits (153), Expect = 2e-15
 Identities = 36/44 (81%), Positives = 39/44 (88%)

Query: 31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEY 74
          YLPIAN++RIMK A+P  GKIAKDAKE VQECVSEFISFITSE 
Sbjct: 2  YLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEA 45

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

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

 Score = 61.1 bits (148), Expect = 4e-14
 Identities = 20/45 (44%), Positives = 31/45 (68%), Gaps = 1/45 (2%)

Query: 29 DRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          D  +P A I++++K+ LP N ++A DA+E V  C +EFI  I+SE
Sbjct: 2  DLTIPRAAINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSE 45

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

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

 Score = 57.5 bits (139), Expect = 1e-12
 Identities = 11/42 (26%), Positives = 23/42 (54%), Gaps = 1/42 (2%)

Query: 32 LPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          LP A I RI ++ +     +++DAK+T+ + V     ++ + 
Sbjct: 2  LPKAAIERIFRQGIGERR-LSQDAKDTIYDFVPTMAEYVANA 42

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

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

 Score = 39.0 bits (91), Expect = 1e-05
 Identities = 7/49 (14%), Positives = 17/49 (34%), Gaps = 2/49 (4%)

Query: 25  VREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
                     A + RI+K+A     + + DA +   + +      +  +
Sbjct: 73  EDYDGELFGRATVRRILKRAGIE--RASSDAVDLYNKLICRATEELGEK 119

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

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

 Score = 52.1 bits (125), Expect = 3e-11
 Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 2/43 (4%)

Query: 32 LPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEY 74
          LPIA I RI+K A     +++ DA+  + + + E    I SE 
Sbjct: 4  LPIAPIGRIIKNAGAE--RVSDDARIALAKVLEEMGEEIASEA 44

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

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

 Score = 50.5 bits (121), Expect = 1e-10
 Identities = 11/43 (25%), Positives = 24/43 (55%), Gaps = 2/43 (4%)

Query: 32 LPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEY 74
          LPIA + R+++KA     ++++ A + + E + E+   I  + 
Sbjct: 3  LPIAPVDRLIRKAGAE--RVSEQAAKVLAEYLEEYAIEIAKKA 43

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

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

 Score = 49.4 bits (118), Expect = 3e-10
 Identities = 9/42 (21%), Positives = 17/42 (40%), Gaps = 1/42 (2%)

Query: 32 LPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
           P A I +IM+      GK+A      +   +  F+  +  +
Sbjct: 3  FPPARIKKIMQTD-EEIGKVAAAVPVIISRALELFLESLLKK 43

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

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

 Score = 46.0 bits (109), Expect = 9e-09
 Identities = 12/42 (28%), Positives = 19/42 (45%), Gaps = 1/42 (2%)

Query: 32 LPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSE 73
          LP+A I +IM K       I+ +A     +    FI+ +T  
Sbjct: 1  LPLARIKKIM-KLDEDVKMISAEAPVLFAKAAQIFITELTLR 41

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	95
d1jfib_	135	Negative cofactor 2, NC2, beta chain {Human (Homo	99.67
d1n1ja_	87	Nuclear transcription factor Y subunit beta (Nf-Yb	99.67
d2bykb1	89	Chrac-14 {Fruit fly (Drosophila melanogaster) [Tax	99.59
d1ku5a_	66	Archaeal histone {Archaeon (Pyrococcus horikoshii)	99.31
d1f1ea_	151	Archaeal histone {Archaeon Methanopyrus kandleri [	99.28
d1n1jb_	78	Nuclear transcription factor Y subunit gamma (Nf-Y	99.27
d1htaa_	68	Archaeal histone {Archaeon Methanothermus fervidus	99.22
d1jfia_	66	Negative cofactor 2, NC2, alpha chain {Human (Homo	98.93
d1f1ea_	151	Archaeal histone {Archaeon Methanopyrus kandleri [	98.55
d2huec1	82	Histone H4 {African clawed frog (Xenopus laevis) [	96.51
d1tzyc_	95	Histone H3 {Chicken (Gallus gallus), erythrocytes	95.92
d1h3ob_	74	TAF(II)-20, (TAF(II)-15, hTAF12), histone fold dom	94.57
d1tzyb_	92	Histone H2B {Chicken (Gallus gallus), erythrocytes	94.16
d1bh9b_	89	TAF(II)28 {Human (Homo sapiens) [TaxId: 9606]}	93.4
d2byka1	72	Chrac-16 {Fruit fly (Drosophila melanogaster) [Tax	87.77
d1q9ca_	172	Histone domain of Son of sevenless protein {Human	82.19

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

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

Probab=99.67  E-value=5.9e-17  Score=112.48  Aligned_cols=53  Identities=38%  Similarity=0.621  Sum_probs=50.8

Q ss_pred             ccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           28 QDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        28 dD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      ||++||+|+|.||||..|| +.+||+||+.+|++||++||+|||++||++|...
T Consensus         1 ddl~LP~a~I~kI~K~~~~-~~~is~dA~~~i~~a~~~Fi~~lt~~A~~~a~~~   53 (135)
T d1jfib_           1 DDLTIPRAAINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSEANEICNKS   53 (135)
T ss_dssp             CCCCCCHHHHHHHHHHHST-TCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CcccccHHHHHHHHhhCCc-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            6999999999999999998 7999999999999999999999999999999864

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

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

Probab=99.67  E-value=7.1e-17  Score=104.33  Aligned_cols=52  Identities=69%  Similarity=0.924  Sum_probs=49.8

Q ss_pred             ccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           30 RYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        30 ~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      +.||+|+|.||||+.+|++.+||+||+.+|++||.+||+|+|++|+++|...
T Consensus         1 l~LP~a~v~ri~K~~~p~~~~is~ea~~~i~~a~e~Fi~~lt~~A~~~a~~~   52 (87)
T d1n1ja_           1 IYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQE   52 (87)
T ss_dssp             CCCCHHHHHHHHHHTSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCCcHhHHHHHHHHhCCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5799999999999999999999999999999999999999999999999764

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

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

Probab=99.59  E-value=8.4e-16  Score=99.71  Aligned_cols=49  Identities=31%  Similarity=0.491  Sum_probs=47.3

Q ss_pred             hhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           33 PIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        33 P~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      |+|+|.||||+.||++++||+||+.+|++|+++||+|||++|+++|...
T Consensus         1 P~a~i~ri~K~~~p~~~~iskeA~~~i~~aae~FI~~lt~~A~~~a~~~   49 (89)
T d2bykb1           1 PNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQ   49 (89)
T ss_dssp             CCSHHHHHHHHHSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CccHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            8999999999999999999999999999999999999999999999764

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

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

Probab=99.31  E-value=2.2e-12  Score=79.04  Aligned_cols=48  Identities=23%  Similarity=0.349  Sum_probs=45.2

Q ss_pred             cChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        31 ~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      .||+++|.||||+.+|.  +||+||++++++|+.+||.+++.+|+++|+.
T Consensus         2 ~LP~a~I~rI~k~~~~~--ris~ea~~~l~~a~e~Fi~~l~~~a~~~a~~   49 (66)
T d1ku5a_           2 ELPIAPVDRLIRKAGAE--RVSEQAAKVLAEYLEEYAIEIAKKAVEFARH   49 (66)
T ss_dssp             CSCHHHHHHHHHHTTCS--EECHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHhCccc--ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            49999999999999774  8999999999999999999999999999975

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

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

Probab=99.28  E-value=2.6e-12  Score=89.83  Aligned_cols=50  Identities=24%  Similarity=0.426  Sum_probs=47.0

Q ss_pred             cChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        31 ~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      .||+|+|+||||+.+|. .+||+||++++++|+.+|+.+|++||+++|+..
T Consensus         1 ~lP~a~I~rilk~~~~~-~ris~da~~~l~~~~~~~~~~Ia~eA~~l~~~~   50 (151)
T d1f1ea_           1 ELPKAAIERIFRQGIGE-RRLSQDAKDTIYDFVPTMAEYVANAAKSVLDAS   50 (151)
T ss_dssp             CCCHHHHHHHHHTTSTT-CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             CCCccHHHHHHHHhCCc-cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            38999999999999986 699999999999999999999999999999864

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

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

Probab=99.27  E-value=5e-12  Score=79.30  Aligned_cols=49  Identities=24%  Similarity=0.169  Sum_probs=46.6

Q ss_pred             ChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           32 LPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        32 LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      ||++.|.||||. .|+..+|++||..++++|+.+||++++.+|+++|+..
T Consensus         1 LP~srVkrImK~-~~~~~~is~ea~~~i~~a~E~Fi~~l~~~A~~~a~~~   49 (78)
T d1n1jb_           1 LPLARIKKIMKL-DEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDN   49 (78)
T ss_dssp             CCHHHHHHHHTT-STTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHhc-CCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            899999999995 7999999999999999999999999999999999864

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

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

Probab=99.22  E-value=1.4e-11  Score=75.40  Aligned_cols=48  Identities=31%  Similarity=0.376  Sum_probs=44.9

Q ss_pred             ChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           32 LPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        32 LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      ||+++|.||||+..+.  +|++||.+++++|+.+||.+|+.+|+++|+..
T Consensus         4 LP~a~I~ri~k~~~~~--ris~ea~~~l~~~~e~fi~~l~~~a~~~a~~~   51 (68)
T d1htaa_           4 LPIAPIGRIIKNAGAE--RVSDDARIALAKVLEEMGEEIASEAVKLAKHA   51 (68)
T ss_dssp             SCHHHHHHHHHHTTCS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHCCcc--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999764  79999999999999999999999999999853

>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=98.93  E-value=9.2e-10  Score=67.26  Aligned_cols=49  Identities=20%  Similarity=0.261  Sum_probs=46.2

Q ss_pred             cChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        31 ~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      .||.+.|.||||.. |+..+||+||..++.+++.+||++++.+|++.|..
T Consensus         2 ~fP~srVkkimk~~-~~~~~is~~A~~~~~~a~E~Fi~~l~~~A~~~a~~   50 (66)
T d1jfia_           2 RFPPARIKKIMQTD-EEIGKVAAAVPVIISRALELFLESLLKKACQVTQS   50 (66)
T ss_dssp             CCCHHHHHHHHTTS-TTCCCBCTTHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCChHHHHHHHhcC-CccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            48999999999988 88899999999999999999999999999999864

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

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

Probab=98.55  E-value=1.4e-07  Score=65.34  Aligned_cols=55  Identities=13%  Similarity=0.068  Sum_probs=49.6

Q ss_pred             CCCcccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           24 NVREQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        24 ~~~edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      ..+.++..+|++.|.||||+.  ...+||+||.+++++++.+||..|+.+|++.|..
T Consensus        72 ~~~~~~~~fp~a~IkRi~k~~--g~~ris~dA~~~l~~~~E~fi~~l~~~A~~~a~~  126 (151)
T d1f1ea_          72 VEDYDGELFGRATVRRILKRA--GIERASSDAVDLYNKLICRATEELGEKAAEYADE  126 (151)
T ss_dssp             STTCCSCCCCHHHHHHHHHHT--TCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccCccCHHHHHHHHHcC--CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            446678899999999999986  4569999999999999999999999999999875

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

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

Probab=96.51  E-value=0.0043  Score=38.61  Aligned_cols=48  Identities=10%  Similarity=0.133  Sum_probs=43.4

Q ss_pred             ccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           30 RYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        30 ~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      ..+|++.|.||++..  .-.+||+|+.+.+.++..+|+.-|..+|...++
T Consensus         8 ~gI~k~~i~Riar~~--Gv~ris~d~~~~l~~~l~~~l~~i~~~a~~~~~   55 (82)
T d2huec1           8 QGITKPAIRRLARRG--GVKRISGLIYEETRGVLKVFLENVIRDAVTYTE   55 (82)
T ss_dssp             CSSCHHHHHHHHHHT--TCCEECTTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCcCHHHHHHHHHHc--CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            469999999999997  445799999999999999999999999998875

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

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

Probab=95.92  E-value=0.012  Score=37.91  Aligned_cols=53  Identities=8%  Similarity=0.192  Sum_probs=45.8

Q ss_pred             cccccChhHHHHHHHHhhCC---CCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           27 EQDRYLPIANISRIMKKALP---ANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        27 edD~~LP~A~V~RImKe~LP---~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      ..++.+|++-.+|+++|+..   ++.+++++|.+++|+++-.|+--+-..||-.+.
T Consensus        17 st~lLIpk~pF~RLVRei~~~~~~~~r~~~~Al~aLQea~E~yLv~lfeda~~~a~   72 (95)
T d1tzyc_          17 STELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAI   72 (95)
T ss_dssp             CCSCCSCHHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcccccccccHHHHHHHHHHhcCCCCEeeHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence            45788999999999999864   579999999999999999999877778887653

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

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

Probab=94.57  E-value=0.071  Score=32.87  Aligned_cols=47  Identities=15%  Similarity=0.315  Sum_probs=42.2

Q ss_pred             ChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           32 LPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        32 LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      |-+..++.+++++=| +..+..|+.|++.+.|-+||.-+++.|-.+|.
T Consensus         4 l~K~~L~eLv~~idp-~~~ld~~vee~ll~iADdFV~~V~~~ac~lAK   50 (74)
T d1h3ob_           4 LTKKKLQDLVREVDP-NEQLDEDVEEMLLQIADDFIESVVTAACQLAR   50 (74)
T ss_dssp             SCHHHHHHHHHHHCS-SCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHhCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            567889999999966 58999999999999999999999999988875

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

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

Probab=94.16  E-value=0.072  Score=34.03  Aligned_cols=44  Identities=16%  Similarity=0.300  Sum_probs=40.5

Q ss_pred             HHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034435           36 NISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLF   80 (95)
Q Consensus        36 ~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~   80 (95)
                      .|+|++|++-|. ..||+.|...|..-+.....-|+.||..++..
T Consensus         8 Yi~kVLKqVhp~-~giS~kam~imnsfvndiferIa~EA~~La~~   51 (92)
T d1tzyb_           8 YVYKVLKQVHPD-TGISSKAMGIMNSFVNDIFERIAGEASRLAHY   51 (92)
T ss_dssp             HHHHHHHHHCTT-CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhCCC-CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            589999999986 89999999999999999999999999998864

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

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

Probab=93.40  E-value=0.12  Score=32.75  Aligned_cols=49  Identities=14%  Similarity=0.143  Sum_probs=44.6

Q ss_pred             cChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 034435           31 YLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVVLFL   81 (95)
Q Consensus        31 ~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic~~~   81 (95)
                      .||+++|-|||+.++.  ..|+....-+|.--+..||.=|-.+|-++++..
T Consensus        16 ~~~K~~vkrl~~~~~g--~sv~~~v~i~v~giaKvFvGEiVE~A~~V~~~~   64 (89)
T d1bh9b_          16 AFPKAAIKRLIQSITG--TSVSQNVVIAMSGISKVFVGEVVEEALDVCEKW   64 (89)
T ss_dssp             CCCHHHHHHHHHHHHS--SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             hCCHHHHHHHHHHHcC--CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4999999999999984  589999999999999999999999999998753

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

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

Probab=87.77  E-value=0.51  Score=27.92  Aligned_cols=34  Identities=12%  Similarity=0.214  Sum_probs=29.4

Q ss_pred             CCCccccHhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034435           46 PANGKIAKDAKETVQECVSEFISFITSEYDVVVL   79 (95)
Q Consensus        46 P~~~kIskdAkeli~eC~sEFI~~vTSeANeic~   79 (95)
                      |+-.+||.||--++.+++--||.+++.+|-..+.
T Consensus         5 ~dv~~is~ea~~lvskAtElFi~~L~~~a~~~a~   38 (72)
T d2byka1           5 MDTGLITNEVLFLMTKCTELFVRHLAGAAYTEEF   38 (72)
T ss_dssp             SSCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456899999999999999999999999966553

>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=82.19  E-value=1.7  Score=29.94  Aligned_cols=50  Identities=18%  Similarity=0.167  Sum_probs=35.1

Q ss_pred             cccccChhHHHHHHHHhhCCCCccccHhHHHHHHHHHHHHHHHHHhHHHHHH
Q 034435           27 EQDRYLPIANISRIMKKALPANGKIAKDAKETVQECVSEFISFITSEYDVVV   78 (95)
Q Consensus        27 edD~~LP~A~V~RImKe~LP~~~kIskdAkeli~eC~sEFI~~vTSeANeic   78 (95)
                      -..+.||.+-|.|++|+.+  .-+|+.+|...+....-.+..-|.-.|-..+
T Consensus        95 ragL~fPV~rv~rlLk~~~--a~RVs~~A~vyLaavLEyl~aeILelAgn~a  144 (172)
T d1q9ca_          95 RNPLSLPVEKIHPLLKEVL--GYKIDHQVSVYIVAVLEYISADILKLAGNYV  144 (172)
T ss_dssp             ----CCCHHHHHHHHHHHH--SSCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccCceecHHHHHHHHHhcc--ccccccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3457899999999999996  4599999998887765555555555554444