Psyllid ID: psy3459

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290------
Protein Sequence
MPLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDKGEKSVNCEVYQEISVEDVFQ
Secondary Structure (PSIPRED)
ccccccccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccccccHHHHHcccHHHHcccccHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHccccccHHHHHHHHHHHHHHHcccccccccccccccHHccHHcccccHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHccccHHHHHHHHHHccccccEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEcHHHHHHHHHHcccHHHHHHHHHHHHHHHcHcccccccccccccccccccccccHHHHHHHccccccEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEcHHHHHHHHHHcccHHHHHHHHHHHHHHHcHHcccHHHHHHHHHHHHHHHHcccccEcHHHHHHHHHHcccHHHHHHHHHHHHHHHccccccccccccEEEEEEEEEccccccccEEEEEEEHHEccc
Coil and Loop (DISEMBL)
mplreqdrflpIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITseasdrchlekrktingEDILFAMSALGFDSYVEPLKIYLQKYREatkgeksvnceVYQEISVedvfqssgtileqqngqneTIAKDARECVQECVSEFISFITseasdrchlekrktingEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKFISFITSEasdrchlekrktingEDILFAMSALGFDSYVEPLKIYLQKYREatkgeksvncEVYQEisvedkgeksvncevyqeisVEDVFQ
Flexible Loop (DISEMBL)
mplreqdrflpiANVAKIMKKAIPESGKIAKDARECVQECVSEFISfitseasdrchlekRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGTILEQQNGQNETIAKDARECVQECVSEFISFitseasdrchlekRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKFISFItseasdrchlekrKTINGEDILFAMSALGFDSYVEPLKIYLQKYReatkgeksvnCEVYQeisvedkgeksvncevyqeisvedvfq
Low Complexity Region (SEG)
MPLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDKGEKSVNCEVYQEISVEDVFQ
Disordered region (IsUnstruct)
********FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGTIL********TIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVED****SVNCEVYQEI*******
Disordered Region (DISOPRED)
*PLREQDRFLPIANVAKIMKKAIPE*GKIAKDARECVQECVSEFISFITSEAS**C**EKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASD****EKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKF*************************LFAMSALGFDSYVEPLKIYL**********************************************
Disordered Region (DISEMBL)
MPLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDKGEKSVNCEVYQEISVEDVFQ
Disordered Region (DISPRO)
MPLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREAT*******************FQSSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKFISFITS**SDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDKGEKSVNCEVYQEISVEDVFQ
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDKGEKSVNCEVYQEISVEDVFQ
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	296	2.2.26 [Sep-21-2011]
P25210	209	Nuclear transcription fac	N/A	N/A	0.341	0.483	0.828	1e-46
Q32KW0	207	Nuclear transcription fac	yes	N/A	0.351	0.502	0.817	4e-46
P25208	207	Nuclear transcription fac	yes	N/A	0.351	0.502	0.817	4e-46
P63140	207	Nuclear transcription fac	yes	N/A	0.351	0.502	0.817	4e-46
P63139	207	Nuclear transcription fac	yes	N/A	0.351	0.502	0.817	4e-46
Q6RG77	207	Nuclear transcription fac	yes	N/A	0.351	0.502	0.817	4e-46
P25207	205	Nuclear transcription fac	yes	N/A	0.351	0.507	0.817	4e-46
P25209	179	Nuclear transcription fac	N/A	N/A	0.297	0.491	0.782	1e-39
Q60EQ4	185	Nuclear transcription fac	yes	N/A	0.351	0.562	0.687	1e-39
Q5QMG3	178	Nuclear transcription fac	no	N/A	0.297	0.494	0.771	8e-39

>sp|P25210|NFYB_PETMA Nuclear transcription factor Y subunit beta OS=Petromyzon marinus GN=NFYB PE=2 SV=1

 Score =  187 bits (474), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 87/105 (82%), Positives = 94/105 (89%)

Query: 2   PLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKR 61
           P REQD +LPIANVA+IMK +IP SGKIAKDA+ECVQECVSEFISFITSEAS+RCH EKR
Sbjct: 52  PYREQDIYLPIANVARIMKTSIPSSGKIAKDAKECVQECVSEFISFITSEASERCHQEKR 111

Query: 62  KTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEV 106
           KTINGEDILFAMS LGFDSYVEPLK YLQKYRE+ KGEK +N  V
Sbjct: 112 KTINGEDILFAMSTLGFDSYVEPLKQYLQKYRESMKGEKGINATV 156

Stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters, for example in type 1 collagen, albumin and beta-actin genes.
Petromyzon marinus (taxid: 7757)

>sp|Q32KW0|NFYB_BOVIN Nuclear transcription factor Y subunit beta OS=Bos taurus GN=NFYB PE=2 SV=1

 Score =  185 bits (469), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 85/104 (81%), Positives = 94/104 (90%)

Query: 3   LREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRK 62
            REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRK
Sbjct: 52  FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRK 111

Query: 63  TINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEV 106
           TINGEDILFAMS LGFDSYVEPLK+YLQK+REA KGEK +   V
Sbjct: 112 TINGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAV 155

Stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters, for example in type 1 collagen, albumin and beta-actin genes.

Bos taurus (taxid: 9913)

>sp|P25208|NFYB_HUMAN Nuclear transcription factor Y subunit beta OS=Homo sapiens GN=NFYB PE=1 SV=2

 Score =  185 bits (469), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 85/104 (81%), Positives = 94/104 (90%)

Query: 3   LREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRK 62
            REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRK
Sbjct: 52  FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRK 111

Query: 63  TINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEV 106
           TINGEDILFAMS LGFDSYVEPLK+YLQK+REA KGEK +   V
Sbjct: 112 TINGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAV 155

Stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters, for example in type 1 collagen, albumin and beta-actin genes.

Homo sapiens (taxid: 9606)

>sp|P63140|NFYB_RAT Nuclear transcription factor Y subunit beta OS=Rattus norvegicus GN=Nfyb PE=1 SV=1

 Score =  185 bits (469), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 85/104 (81%), Positives = 94/104 (90%)

Query: 3   LREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRK 62
            REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRK
Sbjct: 52  FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRK 111

Query: 63  TINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEV 106
           TINGEDILFAMS LGFDSYVEPLK+YLQK+REA KGEK +   V
Sbjct: 112 TINGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAV 155

Stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters, for example in type 1 collagen, albumin and beta-actin genes.

Rattus norvegicus (taxid: 10116)

>sp|P63139|NFYB_MOUSE Nuclear transcription factor Y subunit beta OS=Mus musculus GN=Nfyb PE=1 SV=1

 Score =  185 bits (469), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 85/104 (81%), Positives = 94/104 (90%)

Query: 3   LREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRK 62
            REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRK
Sbjct: 52  FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRK 111

Query: 63  TINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEV 106
           TINGEDILFAMS LGFDSYVEPLK+YLQK+REA KGEK +   V
Sbjct: 112 TINGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAV 155

Stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters, for example in type 1 collagen, albumin and beta-actin genes.

Mus musculus (taxid: 10090)

>sp|Q6RG77|NFYB_HORSE Nuclear transcription factor Y subunit beta OS=Equus caballus GN=NFYB PE=2 SV=1

 Score =  185 bits (469), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 85/104 (81%), Positives = 94/104 (90%)

Query: 3   LREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRK 62
            REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRK
Sbjct: 52  FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRK 111

Query: 63  TINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEV 106
           TINGEDILFAMS LGFDSYVEPLK+YLQK+REA KGEK +   V
Sbjct: 112 TINGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAV 155

Stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters, for example in type 1 collagen, albumin and beta-actin genes.

Equus caballus (taxid: 9796)

>sp|P25207|NFYB_CHICK Nuclear transcription factor Y subunit beta OS=Gallus gallus GN=NFYB PE=2 SV=2

 Score =  185 bits (469), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 85/104 (81%), Positives = 94/104 (90%)

Query: 3   LREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRK 62
            REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRK
Sbjct: 50  FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRK 109

Query: 63  TINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEV 106
           TINGEDILFAMS LGFDSYVEPLK+YLQK+REA KGEK +   V
Sbjct: 110 TINGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGTV 153

Stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters, for example in type 1 collagen, albumin and beta-actin genes.

Gallus gallus (taxid: 9031)

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

 Score =  164 bits (414), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 72/92 (78%), Positives = 86/92 (93%)

Query: 3   LREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRK 62
           +REQDRFLPIAN+++IMKKAIP +GKIAKDA+E VQECVSEFISFITSEASD+C  EKRK
Sbjct: 29  VREQDRFLPIANISRIMKKAIPANGKIAKDAKETVQECVSEFISFITSEASDKCQREKRK 88

Query: 63  TINGEDILFAMSALGFDSYVEPLKIYLQKYRE 94
           TING+D+L+AM+ LGF+ Y+EPLK+YLQKYRE
Sbjct: 89  TINGDDLLWAMATLGFEDYIEPLKVYLQKYRE 120

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 =  163 bits (412), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 77/112 (68%), Positives = 93/112 (83%), Gaps = 8/112 (7%)

Query: 3   LREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRK 62
           +REQDRFLPIAN+++IMKKAIP +GKIAKDA+E VQECVSEFISFITSEASD+C  EKRK
Sbjct: 36  VREQDRFLPIANISRIMKKAIPANGKIAKDAKETVQECVSEFISFITSEASDKCQREKRK 95

Query: 63  TINGEDILFAMSALGFDSYVEPLKIYLQKYRE--------ATKGEKSVNCEV 106
           TING+D+L+AM+ LGF+ Y+EPLK+YLQKYRE        A  G+ SV  +V
Sbjct: 96  TINGDDLLWAMATLGFEDYIEPLKVYLQKYREMEGDSKLTAKAGDGSVKKDV 147

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

 Score =  160 bits (406), Expect = 8e-39,   Method: Compositional matrix adjust.
 Identities = 71/92 (77%), Positives = 84/92 (91%)

Query: 3   LREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRK 62
           +REQDRFLPIAN+++IMKKA+P +GKIAKDA+E +QECVSEFISF+TSEASD+C  EKRK
Sbjct: 32  VREQDRFLPIANISRIMKKAVPANGKIAKDAKETLQECVSEFISFVTSEASDKCQKEKRK 91

Query: 63  TINGEDILFAMSALGFDSYVEPLKIYLQKYRE 94
           TINGED+LFAM  LGF+ YV+PLKIYL KYRE
Sbjct: 92  TINGEDLLFAMGTLGFEEYVDPLKIYLHKYRE 123

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)

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	296
344253588	246	Nuclear transcription factor Y subunit b	0.415	0.5	0.741	5e-52
332022014	216	Nuclear transcription factor Y subunit b	0.331	0.453	0.893	1e-49
242019160	192	Nuclear transcription factor Y subunit b	0.408	0.630	0.785	1e-49
380018296	228	PREDICTED: nuclear transcription factor	0.408	0.530	0.776	1e-49
328790216	228	PREDICTED: nuclear transcription factor	0.408	0.530	0.776	1e-49
328790214	229	PREDICTED: nuclear transcription factor	0.408	0.528	0.776	2e-49
380018294	229	PREDICTED: nuclear transcription factor	0.408	0.528	0.776	2e-49
307190574	216	Nuclear transcription factor Y subunit b	0.334	0.458	0.883	2e-49
307212549	219	Nuclear transcription factor Y subunit b	0.331	0.447	0.91	4e-49
340716166	220	PREDICTED: nuclear transcription factor	0.412	0.554	0.768	4e-49

>gi|344253588|gb|EGW09692.1| Nuclear transcription factor Y subunit beta [Cricetulus griseus]

 Score =  210 bits (535), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 103/139 (74%), Positives = 110/139 (79%), Gaps = 16/139 (11%)

Query: 129 QNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEP 188
           Q   IAKDA+ECVQECVSEFISFITSEAS+RCH EKRKTINGEDILFAMS LGFDSYVEP
Sbjct: 72  QTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMSTLGFDSYVEP 131

Query: 189 LKIYLQKYREATKGEKFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKI 248
           LK+YLQK+RE                 RCH EKRKTINGEDILFAMS LGFDSYVEPLK+
Sbjct: 132 LKLYLQKFREV----------------RCHQEKRKTINGEDILFAMSTLGFDSYVEPLKL 175

Query: 249 YLQKYREATKGEKSVNCEV 267
           YLQK+REA KGEK +   V
Sbjct: 176 YLQKFREAMKGEKGIGGAV 194

Source: Cricetulus griseus

Species: Cricetulus griseus

Genus: Cricetulus

Family: Cricetidae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|332022014|gb|EGI62340.1| Nuclear transcription factor Y subunit beta [Acromyrmex echinatior]

 Score =  202 bits (515), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 92/103 (89%), Positives = 98/103 (95%)

Query: 2   PLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKR 61
           PLREQDRFLPIANVAKIMK+AIPESGKIAKDARECVQECVSEFISFITSEASDRCH+EKR
Sbjct: 64  PLREQDRFLPIANVAKIMKRAIPESGKIAKDARECVQECVSEFISFITSEASDRCHMEKR 123

Query: 62  KTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNC 104
           KTINGEDILFAM+ LGFD+YVEPLK+YLQKYREATKG+   N 
Sbjct: 124 KTINGEDILFAMTTLGFDNYVEPLKVYLQKYREATKGDNPPNA 166

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242019160|ref|XP_002430033.1| Nuclear transcription factor Y subunit beta, putative [Pediculus humanus corporis] gi|212515095|gb|EEB17295.1| Nuclear transcription factor Y subunit beta, putative [Pediculus humanus corporis]

 Score =  202 bits (514), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 99/126 (78%), Positives = 109/126 (86%), Gaps = 5/126 (3%)

Query: 2   PLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKR 61
           PLREQDRFLPIANVAKIMKKA+PE GKIAKDARECVQECVSEFISFITSEASDRCH+EKR
Sbjct: 54  PLREQDRFLPIANVAKIMKKAVPELGKIAKDARECVQECVSEFISFITSEASDRCHMEKR 113

Query: 62  KTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGT 121
           KTINGEDILFAM+ LGFD+YVEPLKIYLQKYREATKG++    E+Y+      VF S+G 
Sbjct: 114 KTINGEDILFAMTTLGFDNYVEPLKIYLQKYREATKGDRPTIEEIYE----NKVF-SAGV 168

Query: 122 ILEQQN 127
           I +  N
Sbjct: 169 IPDNSN 174

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380018296|ref|XP_003693068.1| PREDICTED: nuclear transcription factor Y subunit beta-like isoform 2 [Apis florea]

 Score =  202 bits (514), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 97/125 (77%), Positives = 104/125 (83%), Gaps = 4/125 (3%)

Query: 2   PLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKR 61
           PLREQDRFLPIANVAKIMK+AIPE+GKIAKDARECVQECVSEFISFITSEASDRCH+EKR
Sbjct: 75  PLREQDRFLPIANVAKIMKRAIPEAGKIAKDARECVQECVSEFISFITSEASDRCHMEKR 134

Query: 62  KTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGT 121
           KTINGEDILFAM+ LGFD+YVEPLK+YLQKYREATKG+   N         E      GT
Sbjct: 135 KTINGEDILFAMTTLGFDNYVEPLKVYLQKYREATKGDNPGNVPTTGNGKTE----PQGT 190

Query: 122 ILEQQ 126
           I E Q
Sbjct: 191 IYEDQ 195

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328790216|ref|XP_003251394.1| PREDICTED: nuclear transcription factor Y subunit beta isoform 1 [Apis mellifera]

 Score =  202 bits (514), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 97/125 (77%), Positives = 104/125 (83%), Gaps = 4/125 (3%)

Query: 2   PLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKR 61
           PLREQDRFLPIANVAKIMK+AIPE+GKIAKDARECVQECVSEFISFITSEASDRCH+EKR
Sbjct: 75  PLREQDRFLPIANVAKIMKRAIPEAGKIAKDARECVQECVSEFISFITSEASDRCHMEKR 134

Query: 62  KTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGT 121
           KTINGEDILFAM+ LGFD+YVEPLK+YLQKYREATKG+   N         E      GT
Sbjct: 135 KTINGEDILFAMTTLGFDNYVEPLKVYLQKYREATKGDNPGNVPTTGNGKTE----PQGT 190

Query: 122 ILEQQ 126
           I E Q
Sbjct: 191 IYEDQ 195

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328790214|ref|XP_394667.3| PREDICTED: nuclear transcription factor Y subunit beta isoform 2 [Apis mellifera]

 Score =  202 bits (514), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 97/125 (77%), Positives = 104/125 (83%), Gaps = 4/125 (3%)

Query: 2   PLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKR 61
           PLREQDRFLPIANVAKIMK+AIPE+GKIAKDARECVQECVSEFISFITSEASDRCH+EKR
Sbjct: 76  PLREQDRFLPIANVAKIMKRAIPEAGKIAKDARECVQECVSEFISFITSEASDRCHMEKR 135

Query: 62  KTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGT 121
           KTINGEDILFAM+ LGFD+YVEPLK+YLQKYREATKG+   N         E      GT
Sbjct: 136 KTINGEDILFAMTTLGFDNYVEPLKVYLQKYREATKGDNPGNVPTTGNGKTE----PQGT 191

Query: 122 ILEQQ 126
           I E Q
Sbjct: 192 IYEDQ 196

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380018294|ref|XP_003693067.1| PREDICTED: nuclear transcription factor Y subunit beta-like isoform 1 [Apis florea]

 Score =  202 bits (513), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 97/125 (77%), Positives = 104/125 (83%), Gaps = 4/125 (3%)

Query: 2   PLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKR 61
           PLREQDRFLPIANVAKIMK+AIPE+GKIAKDARECVQECVSEFISFITSEASDRCH+EKR
Sbjct: 76  PLREQDRFLPIANVAKIMKRAIPEAGKIAKDARECVQECVSEFISFITSEASDRCHMEKR 135

Query: 62  KTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGT 121
           KTINGEDILFAM+ LGFD+YVEPLK+YLQKYREATKG+   N         E      GT
Sbjct: 136 KTINGEDILFAMTTLGFDNYVEPLKVYLQKYREATKGDNPGNVPTTGNGKTE----PQGT 191

Query: 122 ILEQQ 126
           I E Q
Sbjct: 192 IYEDQ 196

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307190574|gb|EFN74556.1| Nuclear transcription factor Y subunit beta [Camponotus floridanus]

 Score =  201 bits (512), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 91/103 (88%), Positives = 98/103 (95%)

Query: 2   PLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKR 61
           PLREQDRFLPIANVAKIMK+AIPE+GKIAKDARECVQECVSEFISFITSEASDRCH+EKR
Sbjct: 63  PLREQDRFLPIANVAKIMKRAIPEAGKIAKDARECVQECVSEFISFITSEASDRCHMEKR 122

Query: 62  KTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNC 104
           KTINGEDILFAM+ LGFD+YVEPLK+YLQKYREATKG+   N 
Sbjct: 123 KTINGEDILFAMTTLGFDNYVEPLKMYLQKYREATKGDNPPNT 165

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307212549|gb|EFN88272.1| Nuclear transcription factor Y subunit beta [Harpegnathos saltator]

 Score =  201 bits (511), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 91/100 (91%), Positives = 98/100 (98%)

Query: 1   MPLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEK 60
           +PLREQDRFLPIANVAKIMK+AIPESGKIAKDARECVQECVSEFISFITSEASDRCH+EK
Sbjct: 64  VPLREQDRFLPIANVAKIMKRAIPESGKIAKDARECVQECVSEFISFITSEASDRCHMEK 123

Query: 61  RKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEK 100
           RKTINGEDILFAM+ LGFD+YVEPLK+YLQKYREATKG+ 
Sbjct: 124 RKTINGEDILFAMTTLGFDNYVEPLKMYLQKYREATKGDN 163

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340716166|ref|XP_003396572.1| PREDICTED: nuclear transcription factor Y subunit beta-like [Bombus terrestris]

 Score =  201 bits (510), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 96/125 (76%), Positives = 106/125 (84%), Gaps = 3/125 (2%)

Query: 2   PLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKR 61
           PLREQDRFLPIANVAKIMK+AIPE+GKIAKDARECVQECVSEFISFITSEASDRCH+EKR
Sbjct: 66  PLREQDRFLPIANVAKIMKRAIPEAGKIAKDARECVQECVSEFISFITSEASDRCHMEKR 125

Query: 62  KTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGT 121
           KTINGEDILFAM+ LGFD+YVEPLK+YLQKYREATKG+      +    +     +S GT
Sbjct: 126 KTINGEDILFAMTTLGFDNYVEPLKVYLQKYREATKGDNPPGSGM---TTGNGKTESQGT 182

Query: 122 ILEQQ 126
           I E Q
Sbjct: 183 IYEDQ 187

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	296
UNIPROTKB|H7C5X4	205	Nfyb "Nuclear transcription fa	0.449	0.648	0.652	4e-42
MGI|MGI:97317	207	Nfyb "nuclear transcription fa	0.334	0.478	0.848	1.1e-41
RGD|3172	207	Nfyb "nuclear transcription fa	0.334	0.478	0.848	1.1e-41
UNIPROTKB|F1M6L1	207	Nfyb "Nuclear transcription fa	0.334	0.478	0.848	1.1e-41
UNIPROTKB|E2RDU1	205	NFYB "Uncharacterized protein"	0.334	0.482	0.848	1.1e-41
UNIPROTKB|E1C5G6	152	NFYB "Nuclear transcription fa	0.334	0.651	0.848	1.1e-41
UNIPROTKB|P25207	205	NFYB "Nuclear transcription fa	0.334	0.482	0.848	1.1e-41
UNIPROTKB|Q32KW0	207	NFYB "Nuclear transcription fa	0.334	0.478	0.848	1.1e-41
UNIPROTKB|P25208	207	NFYB "Nuclear transcription fa	0.334	0.478	0.848	1.1e-41
UNIPROTKB|F1SG36	207	NFYB "Uncharacterized protein"	0.334	0.478	0.848	1.1e-41

UNIPROTKB|H7C5X4 Nfyb "Nuclear transcription factor Y subunit beta" [Rattus norvegicus (taxid:10116)]

 Score = 446 (162.1 bits), Expect = 4.0e-42, P = 4.0e-42
 Identities = 94/144 (65%), Positives = 111/144 (77%)

Query:     4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKT 63
             REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRKT
Sbjct:    51 REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 110

Query:    64 INGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEV-----YQEISVEDVFQS 118
             INGEDILFAMS LGFDSYVEPLK+YLQK+REA KGEK +   V       E   E+ F +
Sbjct:   111 INGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVSATDGLSEELTEEAFTN 170

Query:   119 ---SGTIL---EQQNGQNETIAKD 136
                +G I    +QQN  ++ ++ D
Sbjct:   171 QLPAGLITADGQQQNVMHDVLSTD 194

GO:0005634 "nucleus" evidence=IEA

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

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

GO:0046982 "protein heterodimerization activity" evidence=IEA

MGI|MGI:97317 Nfyb "nuclear transcription factor-Y beta" [Mus musculus (taxid:10090)]

 Score = 442 (160.7 bits), Expect = 1.1e-41, P = 1.1e-41
 Identities = 84/99 (84%), Positives = 93/99 (93%)

Query:     4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKT 63
             REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRKT
Sbjct:    53 REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 112

Query:    64 INGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSV 102
             INGEDILFAMS LGFDSYVEPLK+YLQK+REA KGEK +
Sbjct:   113 INGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGI 151

GO:0003677 "DNA binding" evidence=ISO;IDA

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

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005667 "transcription factor complex" evidence=IC

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

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

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

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

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

GO:0046982 "protein heterodimerization activity" evidence=IEA

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

RGD|3172 Nfyb "nuclear transcription factor-Y beta" [Rattus norvegicus (taxid:10116)]

 Score = 442 (160.7 bits), Expect = 1.1e-41, P = 1.1e-41
 Identities = 84/99 (84%), Positives = 93/99 (93%)

Query:     4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKT 63
             REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRKT
Sbjct:    53 REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 112

Query:    64 INGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSV 102
             INGEDILFAMS LGFDSYVEPLK+YLQK+REA KGEK +
Sbjct:   113 INGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGI 151

GO:0003677 "DNA binding" evidence=ISO

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

GO:0005634 "nucleus" evidence=ISO

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

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

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

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

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

GO:0046982 "protein heterodimerization activity" evidence=IEA

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

UNIPROTKB|F1M6L1 Nfyb "Nuclear transcription factor Y subunit beta" [Rattus norvegicus (taxid:10116)]

 Score = 442 (160.7 bits), Expect = 1.1e-41, P = 1.1e-41
 Identities = 84/99 (84%), Positives = 93/99 (93%)

Query:     4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKT 63
             REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRKT
Sbjct:    53 REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 112

Query:    64 INGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSV 102
             INGEDILFAMS LGFDSYVEPLK+YLQK+REA KGEK +
Sbjct:   113 INGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGI 151

GO:0005634 "nucleus" evidence=IEA

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

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

GO:0046982 "protein heterodimerization activity" evidence=IEA

UNIPROTKB|E2RDU1 NFYB "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 442 (160.7 bits), Expect = 1.1e-41, P = 1.1e-41
 Identities = 84/99 (84%), Positives = 93/99 (93%)

Query:     4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKT 63
             REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRKT
Sbjct:    51 REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 110

Query:    64 INGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSV 102
             INGEDILFAMS LGFDSYVEPLK+YLQK+REA KGEK +
Sbjct:   111 INGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGI 149

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:0046982 "protein heterodimerization activity" evidence=IEA

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

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

 Score = 442 (160.7 bits), Expect = 1.1e-41, P = 1.1e-41
 Identities = 84/99 (84%), Positives = 93/99 (93%)

Query:     4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKT 63
             REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRKT
Sbjct:    51 REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 110

Query:    64 INGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSV 102
             INGEDILFAMS LGFDSYVEPLK+YLQK+REA KGEK +
Sbjct:   111 INGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGI 149

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 = 442 (160.7 bits), Expect = 1.1e-41, P = 1.1e-41
 Identities = 84/99 (84%), Positives = 93/99 (93%)

Query:     4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKT 63
             REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRKT
Sbjct:    51 REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 110

Query:    64 INGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSV 102
             INGEDILFAMS LGFDSYVEPLK+YLQK+REA KGEK +
Sbjct:   111 INGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGI 149

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 = 442 (160.7 bits), Expect = 1.1e-41, P = 1.1e-41
 Identities = 84/99 (84%), Positives = 93/99 (93%)

Query:     4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKT 63
             REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRKT
Sbjct:    53 REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 112

Query:    64 INGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSV 102
             INGEDILFAMS LGFDSYVEPLK+YLQK+REA KGEK +
Sbjct:   113 INGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGI 151

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

UNIPROTKB|P25208 NFYB "Nuclear transcription factor Y subunit beta" [Homo sapiens (taxid:9606)]

 Score = 442 (160.7 bits), Expect = 1.1e-41, P = 1.1e-41
 Identities = 84/99 (84%), Positives = 93/99 (93%)

Query:     4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKT 63
             REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRKT
Sbjct:    53 REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 112

Query:    64 INGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSV 102
             INGEDILFAMS LGFDSYVEPLK+YLQK+REA KGEK +
Sbjct:   113 INGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGI 151

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

GO:0003677 "DNA binding" evidence=IDA

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

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

GO:0005634 "nucleus" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

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

UNIPROTKB|F1SG36 NFYB "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 442 (160.7 bits), Expect = 1.1e-41, P = 1.1e-41
 Identities = 84/99 (84%), Positives = 93/99 (93%)

Query:     4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKT 63
             REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRKT
Sbjct:    53 REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 112

Query:    64 INGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSV 102
             INGEDILFAMS LGFDSYVEPLK+YLQK+REA KGEK +
Sbjct:   113 INGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGI 151

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: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	0.6627	0.2905	0.7413	yes	N/A
P63140	NFYB_RAT	No assigned EC number	0.8173	0.3513	0.5024	yes	N/A
P25207	NFYB_CHICK	No assigned EC number	0.8173	0.3513	0.5073	yes	N/A
Q6RG77	NFYB_HORSE	No assigned EC number	0.8173	0.3513	0.5024	yes	N/A
P25208	NFYB_HUMAN	No assigned EC number	0.8173	0.3513	0.5024	yes	N/A
P63139	NFYB_MOUSE	No assigned EC number	0.8173	0.3513	0.5024	yes	N/A
Q32KW0	NFYB_BOVIN	No assigned EC number	0.8173	0.3513	0.5024	yes	N/A
O23310	NFYB3_ARATH	No assigned EC number	0.7227	0.3378	0.6211	yes	N/A
Q60EQ4	NFYB3_ORYSJ	No assigned EC number	0.6875	0.3513	0.5621	yes	N/A
P13434	HAP3_YEAST	No assigned EC number	0.6956	0.3108	0.6388	yes	N/A
P40914	HAP3_KLULA	No assigned EC number	0.6739	0.3108	0.4487	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	296
pfam00808	65	pfam00808, CBFD_NFYB_HMF, Histone-like transcripti	5e-24
COG2036	91	COG2036, HHT1, Histones H3 and H4 [Chromatin struc	8e-20
pfam00808	65	pfam00808, CBFD_NFYB_HMF, Histone-like transcripti	2e-15
COG5150	148	COG5150, COG5150, Class 2 transcription repressor	7e-13
COG2036	91	COG2036, HHT1, Histones H3 and H4 [Chromatin struc	2e-11
COG5150	148	COG5150, COG5150, Class 2 transcription repressor	2e-09
pfam00808	65	pfam00808, CBFD_NFYB_HMF, Histone-like transcripti	5e-07
COG2036	91	COG2036, HHT1, Histones H3 and H4 [Chromatin struc	2e-05
COG5150	148	COG5150, COG5150, Class 2 transcription repressor	3e-04

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

 Score = 92.3 bits (230), Expect = 5e-24
 Identities = 36/66 (54%), Positives = 47/66 (71%), Gaps = 1/66 (1%)

Query: 8  RFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGE 67
            LPIA V +IMK   P++G+I++DA+E + ECV EFI FI SEA++ C  EKRKTIN E
Sbjct: 1  AELPIARVKRIMKSD-PDAGRISQDAKELIAECVEEFIEFIASEAAEICKKEKRKTINAE 59

Query: 68 DILFAM 73
           I  A+
Sbjct: 60 HIKLAV 65

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 = 81.6 bits (202), Expect = 8e-20
 Identities = 29/82 (35%), Positives = 43/82 (52%), Gaps = 2/82 (2%)

Query: 2  PLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKR 61
            R  D  LP A V +I++KA  E  +++  A E +QE + E++  I  +A +     KR
Sbjct: 12 YQRSTDLLLPKAPVRRILRKAGAE--RVSSSAIEELQEALEEYLEEIAEDAVELAEHAKR 69

Query: 62 KTINGEDILFAMSALGFDSYVE 83
          KT+  EDI  A+  LG   Y E
Sbjct: 70 KTVKAEDIKLALKRLGRRIYGE 91

Length = 91

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

 Score = 69.2 bits (170), Expect = 2e-15
 Identities = 26/48 (54%), Positives = 33/48 (68%)

Query: 130 NETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAM 177
              I++DA+E + ECV EFI FI SEA++ C  EKRKTIN E I  A+
Sbjct: 18  AGRISQDAKELIAECVEEFIEFIASEAAEICKKEKRKTINAEHIKLAV 65

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

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

 Score = 64.6 bits (157), Expect = 7e-13
 Identities = 39/130 (30%), Positives = 64/130 (49%), Gaps = 10/130 (7%)

Query: 10  LPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDI 69
           LP A V K++   +P+     K+ARE       EFI+ ++SEA++ C  E +KTI  E +
Sbjct: 12  LPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHV 71

Query: 70  LFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGTILEQQNGQ 129
           + A+  L F+ Y+E      + Y+   K          Q+ S    F+ SG  +E+   Q
Sbjct: 72  IKALENLEFEEYIESCMEEHENYKSYQK----------QKESKISKFKDSGLSMEELLRQ 121

Query: 130 NETIAKDARE 139
            E + ++AR 
Sbjct: 122 QEELFQNARL 131

Length = 148

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

 Score = 58.9 bits (143), Expect = 2e-11
 Identities = 20/57 (35%), Positives = 30/57 (52%)

Query: 131 ETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVE 187
           E ++  A E +QE + E++  I  +A +     KRKT+  EDI  A+  LG   Y E
Sbjct: 35  ERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLGRRIYGE 91

Length = 91

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

 Score = 55.0 bits (132), Expect = 2e-09
 Identities = 23/73 (31%), Positives = 39/73 (53%)

Query: 129 QNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEP 188
           ++    K+ARE       EFI+ ++SEA++ C  E +KTI  E ++ A+  L F+ Y+E 
Sbjct: 27  KDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENLEFEEYIES 86

Query: 189 LKIYLQKYREATK 201
                + Y+   K
Sbjct: 87  CMEEHENYKSYQK 99

Length = 148

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

 Score = 45.7 bits (109), Expect = 5e-07
 Identities = 19/32 (59%), Positives = 23/32 (71%)

Query: 203 EKFISFITSEASDRCHLEKRKTINGEDILFAM 234
           E+FI FI SEA++ C  EKRKTIN E I  A+
Sbjct: 34  EEFIEFIASEAAEICKKEKRKTINAEHIKLAV 65

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 = 41.9 bits (99), Expect = 2e-05
 Identities = 15/42 (35%), Positives = 22/42 (52%)

Query: 203 EKFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVE 244
           E+++  I  +A +     KRKT+  EDI  A+  LG   Y E
Sbjct: 50  EEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLGRRIYGE 91

Length = 91

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

 Score = 39.9 bits (93), Expect = 3e-04
 Identities = 19/58 (32%), Positives = 34/58 (58%)

Query: 205 FISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKS 262
           FI+ ++SEA++ C  E +KTI  E ++ A+  L F+ Y+E      + Y+   K ++S
Sbjct: 46  FINMLSSEANEACEEEAKKTIAYEHVIKALENLEFEEYIESCMEEHENYKSYQKQKES 103

Length = 148

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	296
KOG0869|consensus	168		99.97
KOG0871|consensus	156		99.96
KOG0869|consensus	168		99.95
KOG0871|consensus	156		99.95
COG5150	148	Class 2 transcription repressor NC2, beta subunit	99.9
COG5150	148	Class 2 transcription repressor NC2, beta subunit	99.9
KOG0870|consensus	172		99.9
KOG0870|consensus	172		99.85
PF00808	65	CBFD_NFYB_HMF: Histone-like transcription factor (	99.63
COG2036	91	HHT1 Histones H3 and H4 [Chromatin structure and d	99.55
PF00808	65	CBFD_NFYB_HMF: Histone-like transcription factor (	99.36
cd00076	85	H4 Histone H4, one of the four histones, along wit	99.08
PLN00035	103	histone H4; Provisional	99.04
COG2036	91	HHT1 Histones H3 and H4 [Chromatin structure and d	98.97
PTZ00015	102	histone H4; Provisional	98.95
smart00803	65	TAF TATA box binding protein associated factor. TA	98.83
smart00417	74	H4 Histone H4.	98.79
cd07981	72	TAF12 TATA Binding Protein (TBP) Associated Factor	98.53
PF00125	75	Histone: Core histone H2A/H2B/H3/H4 histone h2a si	98.4
smart00428	105	H3 Histone H3.	98.35
COG5208	286	HAP5 CCAAT-binding factor, subunit C [Transcriptio	98.24
smart00576	77	BTP Bromodomain transcription factors and PHD doma	98.13
cd07979	117	TAF9 TATA Binding Protein (TBP) Associated Factor	97.92
cd00074	115	H2A Histone 2A; H2A is a subunit of the nucleosome	97.85
cd00076	85	H4 Histone H4, one of the four histones, along wit	97.8
PLN00160	97	histone H3; Provisional	97.71
PLN00161	135	histone H3; Provisional	97.66
PLN00121	136	histone H3; Provisional	97.64
cd07981	72	TAF12 TATA Binding Protein (TBP) Associated Factor	97.61
PLN00035	103	histone H4; Provisional	97.6
KOG1657|consensus	236		97.56
PTZ00018	136	histone H3; Provisional	97.53
PTZ00015	102	histone H4; Provisional	97.51
PF00125	75	Histone: Core histone H2A/H2B/H3/H4 histone h2a si	97.46
cd08050	343	TAF6 TATA Binding Protein (TBP) Associated Factor	97.43
PF15630	76	CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C	97.35
smart00803	65	TAF TATA box binding protein associated factor. TA	97.29
PF07524	77	Bromo_TP: Bromodomain associated; InterPro: IPR006	97.18
PF15511	414	CENP-T: Centromere kinetochore component CENP-T; P	97.12
smart00427	89	H2B Histone H2B.	97.08
KOG3467|consensus	103		97.04
smart00576	77	BTP Bromodomain transcription factors and PHD doma	97.0
smart00417	74	H4 Histone H4.	96.9
PF09415	72	CENP-X: CENP-S associating Centromere protein X; I	96.85
PF03847	68	TFIID_20kDa: Transcription initiation factor TFIID	96.8
cd08048	85	TAF11 TATA Binding Protein (TBP) Associated Factor	96.8
PLN00158	116	histone H2B; Provisional	96.73
PTZ00463	117	histone H2B; Provisional	96.67
PF02969	66	TAF: TATA box binding protein associated factor (T	96.58
COG5262	132	HTA1 Histone H2A [Chromatin structure and dynamics	96.28
PF07524	77	Bromo_TP: Bromodomain associated; InterPro: IPR006	96.25
PF04719	90	TAFII28: hTAFII28-like protein conserved region; I	95.98
PF15630	76	CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C	95.96
KOG1745|consensus	137		95.78
PF03847	68	TFIID_20kDa: Transcription initiation factor TFIID	95.74
smart00428	105	H3 Histone H3.	95.54
smart00414	106	H2A Histone 2A.	95.49
KOG1659|consensus	224		95.43
PLN00154	136	histone H2A; Provisional	95.27
cd07979	117	TAF9 TATA Binding Protein (TBP) Associated Factor	95.06
smart00427	89	H2B Histone H2B.	95.03
COG5247	113	BUR6 Class 2 transcription repressor NC2, alpha su	94.94
cd08050	343	TAF6 TATA Binding Protein (TBP) Associated Factor	94.88
KOG1756|consensus	131		94.61
PF02269	93	TFIID-18kDa: Transcription initiation factor IID,	94.52
PTZ00017	134	histone H2A; Provisional	94.29
KOG1744|consensus	127		94.21
PF02291	129	TFIID-31kDa: Transcription initiation factor IID,	94.16
PF15510	102	CENP-W: Centromere kinetochore component W	93.9
KOG3467|consensus	103		93.86
PLN00156	139	histone H2AX; Provisional	93.56
PLN00153	129	histone H2A; Provisional	93.5
PLN00157	132	histone H2A; Provisional	93.47
PTZ00463	117	histone H2B; Provisional	93.43
PLN00158	116	histone H2B; Provisional	93.33
PF02269	93	TFIID-18kDa: Transcription initiation factor IID,	93.29
KOG1142|consensus	258		92.97
KOG1657|consensus	236		92.3
PLN00161	135	histone H3; Provisional	92.18
PLN00160	97	histone H3; Provisional	92.07
KOG1658|consensus	162		91.84
PF15511	414	CENP-T: Centromere kinetochore component CENP-T; P	91.76
cd08048	85	TAF11 TATA Binding Protein (TBP) Associated Factor	91.6
KOG3219|consensus	195		91.56
cd00074	115	H2A Histone 2A; H2A is a subunit of the nucleosome	91.41
KOG1658|consensus	162		91.39
PTZ00018	136	histone H3; Provisional	89.92
PLN00121	136	histone H3; Provisional	89.59
cd07978	92	TAF13 The TATA Binding Protein (TBP) Associated Fa	89.5
PF02969	66	TAF: TATA box binding protein associated factor (T	89.18
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	89.07
PTZ00252	134	histone H2A; Provisional	89.01
KOG1744|consensus	127		88.32
KOG3423|consensus	176		86.35
KOG1142|consensus	258		86.0
CHL00095	821	clpC Clp protease ATP binding subunit	85.19
COG5208	286	HAP5 CCAAT-binding factor, subunit C [Transcriptio	84.02
KOG4336|consensus	323		82.73
cd07978	92	TAF13 The TATA Binding Protein (TBP) Associated Fa	82.72
PF04719	90	TAFII28: hTAFII28-like protein conserved region; I	80.34

>KOG0869|consensus

Probab=99.97  E-value=1e-30  Score=224.93  Aligned_cols=100  Identities=70%  Similarity=1.110  Sum_probs=95.9

Q ss_pred             CCccccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcch
Q psy3459           3 LREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYV   82 (296)
Q Consensus         3 ~~~~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv   82 (296)
                      ++++|+.||+|+|.||||.+||.+++|||||++.+|+|+++||+|||++|++.|..++||||++|||||||..|||++|+
T Consensus        26 ~reqDr~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~tLGFe~Y~  105 (168)
T KOG0869|consen   26 LREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMSTLGFENYA  105 (168)
T ss_pred             cchhhhhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHHcCcHhHH
Confidence            68899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcccccc
Q psy3459          83 EPLKIYLQKYREATKGEKSV  102 (296)
Q Consensus        83 ~~l~~~L~~~re~~k~kk~~  102 (296)
                      ++|+.+|.+||+....+...
T Consensus       106 eplkiyL~kYRe~e~e~~~~  125 (168)
T KOG0869|consen  106 EPLKIYLQKYRELEGERGRS  125 (168)
T ss_pred             HHHHHHHHHHHHHhhhcccc
Confidence            99999999999986655544

>KOG0871|consensus

Probab=99.96  E-value=7.6e-29  Score=211.58  Aligned_cols=119  Identities=31%  Similarity=0.533  Sum_probs=105.4

Q ss_pred             CccccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchH
Q psy3459           4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVE   83 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~   83 (296)
                      ..++++||+|+|++|||+.||.+++|++||+++|..||.+||++||++||++|..+.||||++|||++||+.|||.+|++
T Consensus         7 ~dde~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~LgF~eYie   86 (156)
T KOG0871|consen    7 EDDELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALENLGFGEYIE   86 (156)
T ss_pred             ccccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHHcchHHHHH
Confidence            67899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcccccc-chhhhhhhhh-------hhhccchhhh
Q psy3459          84 PLKIYLQKYREATKGEKSV-NCEVYQEISV-------EDVFQSSGTI  122 (296)
Q Consensus        84 ~l~~~L~~~re~~k~kk~~-~~e~~~~~~~-------e~Lf~~s~ri  122 (296)
                      .+...|++|+..++.++++ .+..-.||++       ++||+.++.+
T Consensus        87 e~~~vl~~~K~~~~~~~~kssk~e~~Gi~eEEL~~qQqeLf~~ARar  133 (156)
T KOG0871|consen   87 EAEEVLENCKEEAKKRRRKSSKFEKSGIPEEELLRQQQELFAKARAR  133 (156)
T ss_pred             HHHHHHHHHHHHHHHhhhhhhhHHhcCCCHHHHHHHHHHHHHHHHHH
Confidence            9999999999988877666 3333344444       4566666543

>KOG0869|consensus

Probab=99.95  E-value=6.2e-29  Score=213.99  Aligned_cols=87  Identities=60%  Similarity=0.960  Sum_probs=83.9

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchHHHHHHHHHHH
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYR  197 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~~l~~~L~~~r  197 (296)
                      ++.||||+.||++++||||||+.+|+|+++||+|||++|++.|..++|||||+|||||||..|||++|++||+.||.+||
T Consensus        37 NV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~tLGFe~Y~eplkiyL~kYR  116 (168)
T KOG0869|consen   37 NVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMSTLGFENYAEPLKIYLQKYR  116 (168)
T ss_pred             HHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHHcCcHhHHHHHHHHHHHHH
Confidence            77999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcccc
Q psy3459         198 EATKGEK  204 (296)
Q Consensus       198 e~~k~kk  204 (296)
                      +....+.
T Consensus       117 e~e~e~~  123 (168)
T KOG0869|consen  117 ELEGERG  123 (168)
T ss_pred             HHhhhcc
Confidence            9865553

>KOG0871|consensus

Probab=99.95  E-value=3e-28  Score=207.90  Aligned_cols=121  Identities=26%  Similarity=0.449  Sum_probs=101.4

Q ss_pred             hccch-hhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchHHHHHHH
Q psy3459         115 VFQSS-GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYL  193 (296)
Q Consensus       115 Lf~~s-~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~~l~~~L  193 (296)
                      |++++ ..+|+..+|++++|++|||++|++||++||++|||+||++|.++.||||+|+||++||+.|||++|++.+.+.|
T Consensus        13 LPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~LgF~eYiee~~~vl   92 (156)
T KOG0871|consen   13 LPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALENLGFGEYIEEAEEVL   92 (156)
T ss_pred             CcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHHcchHHHHHHHHHHH
Confidence            56665 45556778889999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcccccccccccchhhhhhHHHhhhhchhhHHHHhhhcCC
Q psy3459         194 QKYREATKGEKFISFITSEASDRCHLEKRKTINGEDILFAMSALGF  239 (296)
Q Consensus       194 ~~~re~~k~kk~~~~~~se~~~r~~~e~~~~~~~qe~lf~~a~~~f  239 (296)
                      ++|+..++.+..+++.-..    .....++++++|++||+.||..|
T Consensus        93 ~~~K~~~~~~~~kssk~e~----~Gi~eEEL~~qQqeLf~~ARar~  134 (156)
T KOG0871|consen   93 ENCKEEAKKRRRKSSKFEK----SGIPEEELLRQQQELFAKARARL  134 (156)
T ss_pred             HHHHHHHHHhhhhhhhHHh----cCCCHHHHHHHHHHHHHHHHHHH
Confidence            9999887654322211111    22334899999999999999653

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

Probab=99.90  E-value=7.3e-24  Score=177.30  Aligned_cols=120  Identities=29%  Similarity=0.460  Sum_probs=109.8

Q ss_pred             CccccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchH
Q psy3459           4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVE   83 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~   83 (296)
                      ..++..||+|+|.+++.+.||.+..+++||++.++.||.+||+.|+++||++|....+|||.++||++||+.|||.+|++
T Consensus         6 ~dDe~sLPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALenLef~eyi~   85 (148)
T COG5150           6 NDDENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENLEFEEYIE   85 (148)
T ss_pred             ccccccCcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHhccHHHHHH
Confidence            67889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcccccc---------chhhhhhhhhhhhccchhhhhh
Q psy3459          84 PLKIYLQKYREATKGEKSV---------NCEVYQEISVEDVFQSSGTILE  124 (296)
Q Consensus        84 ~l~~~L~~~re~~k~kk~~---------~~e~~~~~~~e~Lf~~s~rimk  124 (296)
                      .+.+.+.+|+..+|.|.++         +.|.+..+| |+||..++-++.
T Consensus        86 ~~~e~~~n~k~~qK~ke~k~sKFk~SGls~eELlrQQ-eeLf~~ar~rf~  134 (148)
T COG5150          86 SCMEEHENYKSYQKQKESKISKFKDSGLSMEELLRQQ-EELFQNARLRFE  134 (148)
T ss_pred             HHHHHHHHHHHHHhhchhhhhHHHhcCCCHHHHHHHH-HHHHHHHHHHhc
Confidence            9999999999999999888         444555555 677777766663

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

Probab=99.90  E-value=3.2e-24  Score=179.47  Aligned_cols=121  Identities=25%  Similarity=0.392  Sum_probs=106.0

Q ss_pred             hccc-hhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchHHHHHHH
Q psy3459         115 VFQS-SGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYL  193 (296)
Q Consensus       115 Lf~~-s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~~l~~~L  193 (296)
                      |+.+ +...+...+|.+..++||||+++++||.+||+.||++||++|.++.+|||+++||++||+.|||.+|++.+.+.+
T Consensus        12 LPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALenLef~eyi~~~~e~~   91 (148)
T COG5150          12 LPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENLEFEEYIESCMEEH   91 (148)
T ss_pred             CcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHhccHHHHHHHHHHHH
Confidence            4443 366667889999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccc--ccccccccchhhhhhHHHhhhhchhhHHHHhhhcCCCC
Q psy3459         194 QKYREATKGE--KFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDS  241 (296)
Q Consensus       194 ~~~re~~k~k--k~~~~~~se~~~r~~~e~~~~~~~qe~lf~~a~~~f~~  241 (296)
                      .+|+..+|.|  |...|..|..      .+++++++|++||.+||++|+-
T Consensus        92 ~n~k~~qK~ke~k~sKFk~SGl------s~eELlrQQeeLf~~ar~rf~h  135 (148)
T COG5150          92 ENYKSYQKQKESKISKFKDSGL------SMEELLRQQEELFQNARLRFEH  135 (148)
T ss_pred             HHHHHHHhhchhhhhHHHhcCC------CHHHHHHHHHHHHHHHHHHhcc
Confidence            9999988765  3333444443      3489999999999999999964

>KOG0870|consensus

Probab=99.90  E-value=7.3e-24  Score=184.02  Aligned_cols=102  Identities=35%  Similarity=0.548  Sum_probs=97.8

Q ss_pred             CCCCccccCCchhHHHHHHHhhCCCC-CcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCC
Q psy3459           1 MPLREQDRFLPIANVAKIMKKAIPES-GKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD   79 (296)
Q Consensus         1 m~~~~~d~~LP~A~I~RIiK~~LP~~-~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~   79 (296)
                      |..+++|+.||+|+|+||+|++||.. +.|||||+.+|+++|++||+||++.|+++|+.++||||+++||+.||.++||.
T Consensus         2 e~eri~dl~lP~AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Eiefs   81 (172)
T KOG0870|consen    2 EDERIEDLNLPNAIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEIEFS   81 (172)
T ss_pred             cchhHHHhhccHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHhchH
Confidence            45688999999999999999999987 99999999999999999999999999999999999999999999999999999


Q ss_pred             cchHHHHHHHHHHHHHhcccccc
Q psy3459          80 SYVEPLKIYLQKYREATKGEKSV  102 (296)
Q Consensus        80 ~yv~~l~~~L~~~re~~k~kk~~  102 (296)
                      .|+++|+..|+.|+...++||..
T Consensus        82 ~f~~plk~~Le~yk~~~k~Kk~~  104 (172)
T KOG0870|consen   82 SFVNPLKSALEAYKKAVKQKKLA  104 (172)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999888844

>KOG0870|consensus

Probab=99.85  E-value=1.4e-21  Score=169.81  Aligned_cols=87  Identities=31%  Similarity=0.532  Sum_probs=83.4

Q ss_pred             hhhhhhcCCCc-cccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchHHHHHHHHHHHH
Q psy3459         120 GTILEQQNGQN-ETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYRE  198 (296)
Q Consensus       120 ~rimk~~lp~~-~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~~l~~~L~~~re  198 (296)
                      +|++|+.+|.. +.|||||+.+|+++|++||+|||+.|+++|+..+||||+|+|||+||++|||.+|++||+..|+.|+.
T Consensus        17 ~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Eiefs~f~~plk~~Le~yk~   96 (172)
T KOG0870|consen   17 TRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEIEFSSFVNPLKSALEAYKK   96 (172)
T ss_pred             HHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHhchHHHhhHHHHHHHHHHH
Confidence            88999999987 99999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             Hhcccccc
Q psy3459         199 ATKGEKFI  206 (296)
Q Consensus       199 ~~k~kk~~  206 (296)
                      ..+.||..
T Consensus        97 ~~k~Kk~~  104 (172)
T KOG0870|consen   97 AVKQKKLA  104 (172)
T ss_pred             HHHHHHHh
Confidence            88877644

>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=99.63  E-value=7.7e-16  Score=114.70  Aligned_cols=64  Identities=38%  Similarity=0.610  Sum_probs=59.3

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHh
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAM   73 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL   73 (296)
                      .||++.|.||||.. |+..+||+||..+|.+|+++||.||+.+|++.|..++||||+++||..||
T Consensus         2 ~lP~a~vkri~k~~-~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av   65 (65)
T PF00808_consen    2 SLPLARVKRIMKSD-PDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV   65 (65)
T ss_dssp             SS-HHHHHHHHHHT-STTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred             CCChHHHHHHhccC-CCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence            69999999999999 99899999999999999999999999999999999999999999999986

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=99.55  E-value=5.8e-15  Score=118.20  Aligned_cols=78  Identities=36%  Similarity=0.507  Sum_probs=73.6

Q ss_pred             CCccccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcch
Q psy3459           3 LREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYV   82 (296)
Q Consensus         3 ~~~~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv   82 (296)
                      ++..+..||+++|.||||++.++  +||.+|.+++++++++|+..|+..|++.|.|+|||||+++||..|++.+||..|.
T Consensus        13 ~~~~~~~Lp~apv~Ri~r~~~~~--Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~~~~~~~   90 (91)
T COG2036          13 QRSTDLLLPKAPVRRILRKAGAE--RVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLGRRIYG   90 (91)
T ss_pred             hhhhhhhcCchHHHHHHHHHhHH--HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHhcccccc
Confidence            45678899999999999999776  9999999999999999999999999999999999999999999999999998763

>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=99.36  E-value=9.3e-13  Score=98.08  Aligned_cols=59  Identities=29%  Similarity=0.446  Sum_probs=53.1

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhch
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAM  177 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL  177 (296)
                      .+.++||.. |++.+||+||.++|.+|+.+||+||+.+|++.|..++||||+++||..||
T Consensus         7 ~vkri~k~~-~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av   65 (65)
T PF00808_consen    7 RVKRIMKSD-PDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV   65 (65)
T ss_dssp             HHHHHHHHT-STTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred             HHHHHhccC-CCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence            447777777 99999999999999999999999999999999999999999999999986

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

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

Probab=99.08  E-value=4e-10  Score=89.36  Aligned_cols=72  Identities=15%  Similarity=0.326  Sum_probs=67.3

Q ss_pred             cCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcc
Q psy3459           8 RFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSY   81 (296)
Q Consensus         8 ~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~y   81 (296)
                      -.||+++|.||++..  +..+||.|+.+.+.++..+|+..|...|..+|++++||||+++||..||+..|-.-|
T Consensus        12 ~gi~k~~I~RLarr~--GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~g~~~y   83 (85)
T cd00076          12 KGITKPAIRRLARRG--GVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLY   83 (85)
T ss_pred             ccCCHHHHHHHHHHc--CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHCCCCcc
Confidence            369999999999998  778999999999999999999999999999999999999999999999999985533

>PLN00035 histone H4; Provisional

Probab=99.04  E-value=7.3e-10  Score=90.72  Aligned_cols=70  Identities=14%  Similarity=0.258  Sum_probs=66.3

Q ss_pred             cCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCC
Q psy3459           8 RFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD   79 (296)
Q Consensus         8 ~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~   79 (296)
                      ..||+++|.||++..  +..+||.|+.+.+.+...+|+..|+..|..+|+|++||||+++||..||+..|-.
T Consensus        28 ~~ipk~~IrRLARr~--GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g~~   97 (103)
T PLN00035         28 QGITKPAIRRLARRG--GVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRT   97 (103)
T ss_pred             ccCCHHHHHHHHHHc--CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcCCc
Confidence            359999999999998  7789999999999999999999999999999999999999999999999988764

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

Probab=98.97  E-value=7.7e-10  Score=88.80  Aligned_cols=67  Identities=30%  Similarity=0.435  Sum_probs=63.6

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccch
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYV  186 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv  186 (296)
                      +..|++++..++  +||.+|.+++++|..+|+..|+..|+++|...|||||+++||.-|+..+||..|.
T Consensus        24 pv~Ri~r~~~~~--Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~~~~~~~   90 (91)
T COG2036          24 PVRRILRKAGAE--RVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLGRRIYG   90 (91)
T ss_pred             HHHHHHHHHhHH--HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHhcccccc
Confidence            669999988887  9999999999999999999999999999999999999999999999999998764

>PTZ00015 histone H4; Provisional

Probab=98.95  E-value=2.6e-09  Score=87.39  Aligned_cols=73  Identities=18%  Similarity=0.355  Sum_probs=67.8

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcc
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSY   81 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~y   81 (296)
                      ...||+++|.||++..  +..+||.|+.+.+.+...+|+..|..+|..+|++++||||+++||..||+..|-.-|
T Consensus        28 i~gI~k~~IrRLarr~--GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~g~~~y  100 (102)
T PTZ00015         28 IRGITKGAIRRLARRG--GVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQGRTLY  100 (102)
T ss_pred             ccCCCHHHHHHHHHHc--CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCCCCC
Confidence            3479999999999998  778999999999999999999999999999999999999999999999999886533

>smart00803 TAF TATA box binding protein associated factor

Probab=98.83  E-value=1.1e-08  Score=77.23  Aligned_cols=64  Identities=25%  Similarity=0.292  Sum_probs=60.6

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .||.++|.||++..  |..+||.|+...|.+-.+.|+.-|..+|..++.|.+||||+++||-.||+
T Consensus         2 ~~p~~~i~ria~~~--Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk   65 (65)
T smart00803        2 WLPKETIKDVAESL--GIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR   65 (65)
T ss_pred             CCCHHHHHHHHHHC--CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence            58999999999987  66789999999999999999999999999999999999999999999874

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.

>smart00417 H4 Histone H4

Probab=98.79  E-value=1.1e-08  Score=79.27  Aligned_cols=62  Identities=11%  Similarity=0.280  Sum_probs=58.7

Q ss_pred             cCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHH
Q psy3459           8 RFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILF   71 (296)
Q Consensus         8 ~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~   71 (296)
                      ..||+++|.||++.+  +.-+||.++.+.+.+...+|+..|...|..+|++++||||+++||.-
T Consensus        12 ~gI~k~~IrRLaRr~--GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~   73 (74)
T smart00417       12 QGITKPAIRRLARRG--GVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVY   73 (74)
T ss_pred             cCCCHHHHHHHHHHc--CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhee
Confidence            469999999999998  77799999999999999999999999999999999999999999964

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

Probab=98.53  E-value=3.8e-07  Score=69.89  Aligned_cols=65  Identities=17%  Similarity=0.327  Sum_probs=61.2

Q ss_pred             CchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhh
Q psy3459          10 LPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA   75 (296)
Q Consensus        10 LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~   75 (296)
                      ||+..+..++++.-|+ .+++.||.++|++.+..|+.-++..|...|+|.||+||.++||.-+|+.
T Consensus         2 ~~k~~l~~lv~~id~~-~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r   66 (72)
T cd07981           2 LTKRKLQELLKEIDPR-EQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLER   66 (72)
T ss_pred             CcHHHHHHHHHhhCCC-CCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            6788899999988775 7999999999999999999999999999999999999999999999875

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

>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=98.40  E-value=6e-07  Score=67.96  Aligned_cols=68  Identities=25%  Similarity=0.346  Sum_probs=62.3

Q ss_pred             ccCCchhHHHHHHHhhCCC---CCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPE---SGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~---~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      +..+|+.+|.|+.|+..++   ..+||.+|...|+..++.|+.-|...|...|.+.+|+||++.||..|+.
T Consensus         3 ~~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r   73 (75)
T PF00125_consen    3 RRLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVR   73 (75)
T ss_dssp             SHSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHH
T ss_pred             ccccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHh
Confidence            4578999999999988765   2599999999999999999999999999999999999999999999875

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 ....

>smart00428 H3 Histone H3

Probab=98.35  E-value=1e-06  Score=72.60  Aligned_cols=71  Identities=17%  Similarity=0.205  Sum_probs=64.8

Q ss_pred             CccccCCchhHHHHHHHhhCCC-----CCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           4 REQDRFLPIANVAKIMKKAIPE-----SGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP~-----~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      +..++.+|+.+..|++++...+     +.+++.+|..+||++++.|+--+...|+..|.|++|+||++.|+..|..
T Consensus        24 kst~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~r   99 (105)
T smart00428       24 KSTDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARR   99 (105)
T ss_pred             cCcccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHH
Confidence            4578899999999999988743     6799999999999999999999999999999999999999999987764

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

Probab=98.24  E-value=6.9e-07  Score=81.86  Aligned_cols=75  Identities=27%  Similarity=0.321  Sum_probs=68.1

Q ss_pred             cccCCchhHHHHHHHhhCCCCC-cccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcch
Q psy3459           6 QDRFLPIANVAKIMKKAIPESG-KIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYV   82 (296)
Q Consensus         6 ~d~~LP~A~I~RIiK~~LP~~~-rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv   82 (296)
                      .+.+||+|.|.|+||--  +++ .||.||..++.+.++.||..||-.|+-.++.++|+|+...||-.|++.-++-+|.
T Consensus       106 k~h~LPlARIkkvMKtd--edVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFL  181 (286)
T COG5208         106 KDHNLPLARIKKVMKTD--EDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFL  181 (286)
T ss_pred             HhccCcHHHHHHHHhcc--cchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHH
Confidence            46789999999999965  444 5999999999999999999999999999999999999999999999988877764

>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins

Probab=98.13  E-value=1.1e-05  Score=62.41  Aligned_cols=66  Identities=23%  Similarity=0.321  Sum_probs=60.5

Q ss_pred             hhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCC
Q psy3459          12 IANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD   79 (296)
Q Consensus        12 ~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~   79 (296)
                      +-.|.+|++.+  |--+++.+|.+.|.+....|+..|+..+..+|.+.||++.++.||..||+++|+.
T Consensus         9 ~~~Vaqil~~~--Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~~gi~   74 (77)
T smart00576        9 RIAVAQILESA--GFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALENLGIS   74 (77)
T ss_pred             HHHHHHHHHHc--CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCcc
Confidence            44678888877  6569999999999999999999999999999999999999999999999999984

subdomain of archael histone-like transcription factors

>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

Probab=97.92  E-value=5.5e-05  Score=63.20  Aligned_cols=77  Identities=14%  Similarity=0.182  Sum_probs=65.8

Q ss_pred             HHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHH-HHHHHHHH
Q psy3459          14 NVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEP-LKIYLQKY   92 (296)
Q Consensus        14 ~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~-l~~~L~~~   92 (296)
                      .|.+|+|+.  +..+++.+++..|.+.+..++.-|..+|..+|.|+||+||+++||..|++..+-..|..+ -++.|-..
T Consensus         6 ~v~~iLk~~--Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~~~f~~~p~~~~l~~~   83 (117)
T cd07979           6 VIAAILKSM--GITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVDYSFTSPPPRDFLLEL   83 (117)
T ss_pred             HHHHHHHHC--CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhccCCCCCCcHHHHHHH
Confidence            688999987  667999999999999999999999999999999999999999999999997666555544 55554433

The TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Human TAF9 has a paralogue gene (TAF9L) whi

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

Probab=97.85  E-value=4e-05  Score=64.11  Aligned_cols=67  Identities=13%  Similarity=0.220  Sum_probs=61.3

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.||.+.|.|+||+.- ...|||.+|...|..+.+.+..-|...|...|.+.+|++|+++||..|+.
T Consensus        18 gL~fPV~ri~R~Lk~~~-~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~   84 (115)
T cd00074          18 GLQFPVGRIHRYLKKGR-YAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVR   84 (115)
T ss_pred             CccCcHHHHHHHHHcCc-cccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHh
Confidence            57899999999999843 33699999999999999999999999999999999999999999999975

The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding of specific chromatin-associated proteins.

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

Probab=97.80  E-value=5e-05  Score=60.41  Aligned_cols=67  Identities=16%  Similarity=0.311  Sum_probs=58.0

Q ss_pred             cch-hhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccc
Q psy3459         117 QSS-GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSY  185 (296)
Q Consensus       117 ~~s-~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~y  185 (296)
                      .++ +|+++...  --+||.|+.+.+.++..+|..-|...|..+|+-.+||||+++||.-||+..|-.-|
T Consensus        16 k~~I~RLarr~G--vkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~g~~~y   83 (85)
T cd00076          16 KPAIRRLARRGG--VKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLY   83 (85)
T ss_pred             HHHHHHHHHHcC--cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHCCCCcc
Confidence            444 56655443  46999999999999999999999999999999999999999999999999985543

>PLN00160 histone H3; Provisional

Probab=97.71  E-value=9e-05  Score=60.35  Aligned_cols=70  Identities=17%  Similarity=0.147  Sum_probs=63.5

Q ss_pred             CccccCCchhHHHHHHHhhCC----CCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHh
Q psy3459           4 REQDRFLPIANVAKIMKKAIP----ESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAM   73 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP----~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL   73 (296)
                      +..++.+|+++..|++++...    ++.++..+|..+||++++.|+--+-..|+-.|.|++|.||.+.|+..|.
T Consensus        16 kst~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~   89 (97)
T PLN00160         16 KSTDLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLAR   89 (97)
T ss_pred             cchhhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHH
Confidence            456788999999999998863    4589999999999999999999999999999999999999999997775

>PLN00161 histone H3; Provisional

Probab=97.66  E-value=0.00015  Score=62.25  Aligned_cols=70  Identities=17%  Similarity=0.227  Sum_probs=63.6

Q ss_pred             CccccCCchhHHHHHHHhhC----CCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHh
Q psy3459           4 REQDRFLPIANVAKIMKKAI----PESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAM   73 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~L----P~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL   73 (296)
                      +..++.+|+++..|++++..    +.+.++..+|..+||++++.|+--+-..|+-.|.|++|.||.+.|+..|.
T Consensus        50 kst~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~  123 (135)
T PLN00161         50 KSTELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLAR  123 (135)
T ss_pred             cccccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHH
Confidence            45678899999999999885    34689999999999999999999999999999999999999999997775

>PLN00121 histone H3; Provisional

Probab=97.64  E-value=8.9e-05  Score=63.72  Aligned_cols=70  Identities=14%  Similarity=0.187  Sum_probs=64.2

Q ss_pred             CccccCCchhHHHHHHHhhCCC---CCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHh
Q psy3459           4 REQDRFLPIANVAKIMKKAIPE---SGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAM   73 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP~---~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL   73 (296)
                      +..++.+|+++..|++++...+   +.++..+|..+||++++.|+--+-..++-.+.|++|.||.+.|+..+.
T Consensus        57 kst~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~  129 (136)
T PLN00121         57 KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR  129 (136)
T ss_pred             cccccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHH
Confidence            4568899999999999998754   689999999999999999999999999999999999999999997775

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

Probab=97.61  E-value=0.00013  Score=55.86  Aligned_cols=55  Identities=16%  Similarity=0.296  Sum_probs=50.8

Q ss_pred             hcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         125 QQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       125 ~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      +...|+.+++.||.++|++.+-.|+.-++..|...|+..||+||.++||.-+|+.
T Consensus        12 ~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r   66 (72)
T cd07981          12 KEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLER   66 (72)
T ss_pred             HhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            3445679999999999999999999999999999999999999999999998875

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

>PLN00035 histone H4; Provisional

Probab=97.60  E-value=0.00014  Score=59.83  Aligned_cols=67  Identities=15%  Similarity=0.242  Sum_probs=57.5

Q ss_pred             hccch-hhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCc
Q psy3459         115 VFQSS-GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD  183 (296)
Q Consensus       115 Lf~~s-~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~  183 (296)
                      |..++ +|+++..-  --+||.|+.+.+.+...+|+.-|...|..+|+-.+||||+++||.-||+..|=.
T Consensus        30 ipk~~IrRLARr~G--vkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g~~   97 (103)
T PLN00035         30 ITKPAIRRLARRGG--VKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRT   97 (103)
T ss_pred             CCHHHHHHHHHHcC--cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcCCc
Confidence            33444 66665543  469999999999999999999999999999999999999999999999988754

>KOG1657|consensus

Probab=97.56  E-value=7.8e-05  Score=69.36  Aligned_cols=73  Identities=25%  Similarity=0.312  Sum_probs=64.7

Q ss_pred             cCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcc
Q psy3459           8 RFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSY   81 (296)
Q Consensus         8 ~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~y   81 (296)
                      ..||++.|.+|||.- ++--+|+.||..++.++|+.||..|+..|+..+...+|+|+...|+-.|+..-.-.+|
T Consensus        73 ~~lPlaRiKkimK~d-edv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdF  145 (236)
T KOG1657|consen   73 HILPLARIKKIMKSD-EDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDF  145 (236)
T ss_pred             ccCcHhhcccccccc-ccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCccc
Confidence            469999999999965 3334799999999999999999999999999999999999999999999987554444

>PTZ00018 histone H3; Provisional

Probab=97.53  E-value=0.00019  Score=61.69  Aligned_cols=70  Identities=14%  Similarity=0.174  Sum_probs=63.9

Q ss_pred             CccccCCchhHHHHHHHhhCC---CCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHh
Q psy3459           4 REQDRFLPIANVAKIMKKAIP---ESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAM   73 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP---~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL   73 (296)
                      +..|+.+|+.+..|++++...   .+.++..+|..+||++++.|+--+-..++-.|.|++|.||.+.|+..|.
T Consensus        57 kst~lLI~k~pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~  129 (136)
T PTZ00018         57 KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR  129 (136)
T ss_pred             ccchhccccccHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHH
Confidence            456889999999999999863   4689999999999999999999999999999999999999999997775

>PTZ00015 histone H4; Provisional

Probab=97.51  E-value=0.00023  Score=58.51  Aligned_cols=66  Identities=18%  Similarity=0.342  Sum_probs=57.3

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccc
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSY  185 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~y  185 (296)
                      +.+|+++..-  --+||.|+.+.+.+...+|+.-|...|..+|+-.+||||+++||.-||+..|-.-|
T Consensus        35 ~IrRLarr~G--vkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~g~~~y  100 (102)
T PTZ00015         35 AIRRLARRGG--VKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQGRTLY  100 (102)
T ss_pred             HHHHHHHHcC--CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCCCCC
Confidence            4466665543  36899999999999999999999999999999999999999999999998886543

>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=97.46  E-value=0.00025  Score=53.60  Aligned_cols=54  Identities=26%  Similarity=0.268  Sum_probs=48.9

Q ss_pred             hcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchh
Q psy3459         125 QQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS  178 (296)
Q Consensus       125 ~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~  178 (296)
                      .......+||++|..+|+..+-.|+.-|...|+..|...||+||++.||..|+.
T Consensus        20 ~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r   73 (75)
T PF00125_consen   20 EEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVR   73 (75)
T ss_dssp             HTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHH
T ss_pred             cccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHh
Confidence            333334899999999999999999999999999999999999999999999875

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 ....

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

Probab=97.43  E-value=0.00039  Score=67.48  Aligned_cols=67  Identities=16%  Similarity=0.211  Sum_probs=60.5

Q ss_pred             chhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCC
Q psy3459          11 PIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD   79 (296)
Q Consensus        11 P~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~   79 (296)
                      |..+|.-|++..  +..++|+||..++.+.++.++..|+.+|...+++.+|||++++||-.||+.++.+
T Consensus         1 ~~~~i~~ia~~~--Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~n~e   67 (343)
T cd08050           1 PQESIKLIAESL--GIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLRNVE   67 (343)
T ss_pred             ChhHHHHHHHHc--CCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHhCCC
Confidence            456777777766  5569999999999999999999999999999999999999999999999987765

The TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as

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

Probab=97.35  E-value=0.00063  Score=53.07  Aligned_cols=61  Identities=16%  Similarity=0.208  Sum_probs=51.7

Q ss_pred             HHHHHHHhhC-CCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459          14 NVAKIMKKAI-PESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus        14 ~I~RIiK~~L-P~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      +|.||..+.. +.++.+|+.+..+|.+.+-.++.-++..---.|+|+||+||+++||+....
T Consensus        10 ~v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~R   71 (76)
T PF15630_consen   10 TVGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLAR   71 (76)
T ss_dssp             HHHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTT
T ss_pred             HHHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhh
Confidence            5788888874 667899999999999999999999999999999999999999999987654

>smart00803 TAF TATA box binding protein associated factor

Probab=97.29  E-value=0.00052  Score=51.84  Aligned_cols=57  Identities=26%  Similarity=0.229  Sum_probs=49.3

Q ss_pred             hhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchh
Q psy3459         120 GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS  178 (296)
Q Consensus       120 ~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~  178 (296)
                      +++.+. .+-. +||.|+...+.+-...|+.-|.-.|..+++..+|||++++||-.||+
T Consensus         9 ~ria~~-~Gi~-ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk   65 (65)
T smart00803        9 KDVAES-LGIG-NLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR   65 (65)
T ss_pred             HHHHHH-CCCc-cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence            444443 3322 79999999999999999999999999999999999999999998874

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.

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

Probab=97.18  E-value=0.0022  Score=49.18  Aligned_cols=65  Identities=18%  Similarity=0.265  Sum_probs=57.3

Q ss_pred             hHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCC
Q psy3459          13 ANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD   79 (296)
Q Consensus        13 A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~   79 (296)
                      -.|.+|++.+  +=..++..|.+.|...+..|+..|+..+...|.+.||...++.||..||.++|+.
T Consensus        10 ~~va~il~~~--GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~~gi~   74 (77)
T PF07524_consen   10 RSVAQILKHA--GFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALEEMGIS   74 (77)
T ss_pred             HHHHHHHHHc--CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCCC
Confidence            3456666654  3347999999999999999999999999999999999999999999999999984

The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].

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

Probab=97.12  E-value=0.00068  Score=67.55  Aligned_cols=62  Identities=26%  Similarity=0.281  Sum_probs=47.2

Q ss_pred             ccCCchhHHHHHHHhhCC----CCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCccc
Q psy3459           7 DRFLPIANVAKIMKKAIP----ESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGED   68 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP----~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eD   68 (296)
                      --.||.+.|.|++....-    .+++|++||..+|.+|..-|-..|+..--.+|.|+|||||...|
T Consensus       349 ~P~lP~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD  414 (414)
T PF15511_consen  349 YPSLPPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD  414 (414)
T ss_dssp             ---S-HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred             CCCCCccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence            346999999888877643    46899999999999999999999999999999999999998876

>smart00427 H2B Histone H2B

Probab=97.08  E-value=0.002  Score=51.76  Aligned_cols=63  Identities=22%  Similarity=0.338  Sum_probs=57.6

Q ss_pred             HHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcC
Q psy3459          14 NVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG   77 (296)
Q Consensus        14 ~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lg   77 (296)
                      -|+|++|+.-|+ ..||..|...|.-.+..+..-|+.+|...|...+|+||++.+|..|..-+-
T Consensus         6 Yi~kvLKqVhpd-~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl~L   68 (89)
T smart00427        6 YIYKVLKQVHPD-TGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVRLIL   68 (89)
T ss_pred             HHHHHHHHhCCC-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHHc
Confidence            589999999988 589999999999999999999999999999999999999999999986543

>KOG3467|consensus

Probab=97.04  E-value=0.002  Score=51.74  Aligned_cols=68  Identities=16%  Similarity=0.290  Sum_probs=60.6

Q ss_pred             CchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCC
Q psy3459          10 LPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD   79 (296)
Q Consensus        10 LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~   79 (296)
                      +.+-+|.||.+..  +--+|+--.-+.+...+.+|+.-+-+.|...+++++||||++-||+-+|+..|.-
T Consensus        30 itKpaIRRlARr~--GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LKR~G~~   97 (103)
T KOG3467|consen   30 ITKPAIRRLARRG--GVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRT   97 (103)
T ss_pred             cchHHHHHHHHhc--CcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHHHcCce
Confidence            5567899999886  5557888888889999999999999999999999999999999999999998754

>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins

Probab=97.00  E-value=0.0015  Score=50.45  Aligned_cols=53  Identities=21%  Similarity=0.357  Sum_probs=50.4

Q ss_pred             cccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCc
Q psy3459         131 ETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD  183 (296)
Q Consensus       131 ~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~  183 (296)
                      -+++..|.+.+.+-...|+.-|+..+..+|+..||+++++.||..||.++|..
T Consensus        22 ~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~~gi~   74 (77)
T smart00576       22 DSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALENLGIS   74 (77)
T ss_pred             cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCcc
Confidence            47888999999999999999999999999999999999999999999999974

subdomain of archael histone-like transcription factors

>smart00417 H4 Histone H4

Probab=96.90  E-value=0.0018  Score=50.39  Aligned_cols=57  Identities=14%  Similarity=0.258  Sum_probs=49.3

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhc
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFA  176 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~A  176 (296)
                      +.+|+++...  --+||.++.+.+.+...+|..-|...|..+|+-.+||||+++||..|
T Consensus        18 ~IrRLaRr~G--vkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~a   74 (74)
T smart00417       18 AIRRLARRGG--VKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVYA   74 (74)
T ss_pred             HHHHHHHHcC--cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHheeC
Confidence            4466665542  35899999999999999999999999999999999999999999754

>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=96.85  E-value=0.0016  Score=50.31  Aligned_cols=65  Identities=18%  Similarity=0.286  Sum_probs=54.2

Q ss_pred             chhHHHHHHHhhCC-CCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCc-cCcccHHHHhhh
Q psy3459          11 PIANVAKIMKKAIP-ESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKT-INGEDILFAMSA   75 (296)
Q Consensus        11 P~A~I~RIiK~~LP-~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKT-I~~eDVl~AL~~   75 (296)
                      |..+|.||++.... +.++||+||..++.+....||..-...|.+.+...|..+ |..+|+-+.+-.
T Consensus         1 p~~li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEki~pq   67 (72)
T PF09415_consen    1 PPELIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEKILPQ   67 (72)
T ss_dssp             -CHHHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHHHCHC
T ss_pred             ChHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            88999999997764 568999999999999999999999999999999999888 999999876544

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.

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

Probab=96.80  E-value=0.005  Score=47.04  Aligned_cols=63  Identities=19%  Similarity=0.294  Sum_probs=50.5

Q ss_pred             hhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhh
Q psy3459          12 IANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA   75 (296)
Q Consensus        12 ~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~   75 (296)
                      +..+.-++++.-|. ..+..|+.++|.+.|..||.-+++.|...|++-|-.|+...||.-.|+.
T Consensus         2 K~~l~~Lv~~iDp~-~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler   64 (68)
T PF03847_consen    2 KRKLQELVKQIDPN-EKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLER   64 (68)
T ss_dssp             HHHHHHHHHCC-SS-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHH
T ss_pred             hHHHHHHHHHcCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHh
Confidence            34677889987655 6999999999999999999999999999999999999999999888864

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

>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=96.80  E-value=0.0063  Score=48.41  Aligned_cols=66  Identities=15%  Similarity=0.168  Sum_probs=60.5

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCC---CccCcccHHHHhhhc
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKR---KTINGEDILFAMSAL   76 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~R---KTI~~eDVl~AL~~l   76 (296)
                      .||++.|.|||...++  ..++.+...+|.-.+.+||.-|..+|.++....+.   .-|.|+||-.|...|
T Consensus        16 ~f~k~~iKr~~~~~~~--~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~rrl   84 (85)
T cd08048          16 SFPKAAIKRLIQSVTG--QSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYRRL   84 (85)
T ss_pred             hccHHHHHHHHHHHcC--CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHHHh
Confidence            5999999999999977  58999999999999999999999999999987655   889999999998765

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

>PLN00158 histone H2B; Provisional

Probab=96.73  E-value=0.0055  Score=51.42  Aligned_cols=65  Identities=18%  Similarity=0.299  Sum_probs=58.5

Q ss_pred             hhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcC
Q psy3459          12 IANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG   77 (296)
Q Consensus        12 ~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lg   77 (296)
                      ..-|+|++|+.-|+ ..||..|...|.-....+..-|+.+|...|.-.+|+||++.+|..|..-+-
T Consensus        30 ~~YI~kVLKQVhPd-~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvrLvL   94 (116)
T PLN00158         30 KIYIYKVLKQVHPD-TGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVRLIL   94 (116)
T ss_pred             HHHHHHHHHHhCCC-CCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHhc
Confidence            34699999999988 589999999999999999999999999999999999999999999976543

>PTZ00463 histone H2B; Provisional

Probab=96.67  E-value=0.0065  Score=51.04  Aligned_cols=63  Identities=21%  Similarity=0.372  Sum_probs=57.2

Q ss_pred             HHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcC
Q psy3459          14 NVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG   77 (296)
Q Consensus        14 ~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lg   77 (296)
                      -|+|++|+.-|+ ..||..|...|.-.......-|+++|...|.-.+|+||++.+|..|..-+-
T Consensus        33 YI~KVLKqVhPd-~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvrLlL   95 (117)
T PTZ00463         33 YIFKVLKQVHPD-TGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIRLVL   95 (117)
T ss_pred             HHHHHHHhhCCC-CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHhhcc
Confidence            489999999987 589999999999989998899999999999999999999999999976543

>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex

Probab=96.58  E-value=0.011  Score=45.11  Aligned_cols=64  Identities=20%  Similarity=0.209  Sum_probs=49.9

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      -+|..+|.-+....  |-..+++|+...|..-++--|..|..+|.....+.+|++++++||-.||+
T Consensus         3 ~~~~esvk~iAes~--Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr   66 (66)
T PF02969_consen    3 VFSQESVKDIAESL--GISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR   66 (66)
T ss_dssp             ---HHHHHHHHHHT--T---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred             cCCHHHHHHHHHHc--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence            47888887777655  44579999999999999999999999999999999999999999999984

TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.

>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]

Probab=96.28  E-value=0.0083  Score=50.58  Aligned_cols=67  Identities=18%  Similarity=0.242  Sum_probs=59.2

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.+|...|.|+||.. ...+||+.+|...+.-|.+-.+..|..-|-..|...++|-|+|.|+-.|+.
T Consensus        24 gl~fpvgrvkr~lk~~-~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIr   90 (132)
T COG5262          24 GLIFPVGRVKRLLKKG-NYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIR   90 (132)
T ss_pred             CccccHHHHHHHHHcC-ccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhc
Confidence            4579999999999933 356899999999999998888888888889999999999999999999875

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

Probab=96.25  E-value=0.01  Score=45.49  Aligned_cols=52  Identities=13%  Similarity=0.231  Sum_probs=49.9

Q ss_pred             ccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCc
Q psy3459         132 TIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD  183 (296)
Q Consensus       132 ~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~  183 (296)
                      .++..|.+.+..-+..||.-|...+..+|+..+|...++.||..||.++|+.
T Consensus        23 ~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~~gi~   74 (77)
T PF07524_consen   23 SASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALEEMGIS   74 (77)
T ss_pred             ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCCC
Confidence            6888999999999999999999999999999999999999999999999984

The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].

>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=95.98  E-value=0.023  Score=45.73  Aligned_cols=67  Identities=15%  Similarity=0.159  Sum_probs=51.4

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcC-CCccCcccHHHHhhhc
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEK-RKTINGEDILFAMSAL   76 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~-RKTI~~eDVl~AL~~l   76 (296)
                      .||++.|.|||...++ +..||.....++.-.+..||-.|-.+|.+++...+ -..|.|.|+-.|...|
T Consensus        23 ~~~k~~ikkli~~~~~-~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~rrL   90 (90)
T PF04719_consen   23 SFNKAAIKKLINQVLG-NQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYRRL   90 (90)
T ss_dssp             ---HHHHHHHHHHHHS--S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHcC-CCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHHhC
Confidence            5999999999999985 36899999999999999999999999999998654 3489999999987654

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.

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

Probab=95.96  E-value=0.016  Score=45.25  Aligned_cols=64  Identities=16%  Similarity=0.249  Sum_probs=51.7

Q ss_pred             hccchhhhhhhc-CCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchh
Q psy3459         115 VFQSSGTILEQQ-NGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS  178 (296)
Q Consensus       115 Lf~~s~rimk~~-lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~  178 (296)
                      |+-.++++..++ .+.++.+|+.+..+|.+.+-.++.-++..---.|+-.||+||+++||+=..+
T Consensus         7 l~~~v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~R   71 (76)
T PF15630_consen    7 LWYTVGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLAR   71 (76)
T ss_dssp             HHHHHHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhh
Confidence            344567777666 4789999999999999999999999999999999999999999999985543

>KOG1745|consensus

Probab=95.78  E-value=0.0069  Score=52.22  Aligned_cols=73  Identities=15%  Similarity=0.170  Sum_probs=62.7

Q ss_pred             CccccCCchhHHHHHHHhhC---CCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhc
Q psy3459           4 REQDRFLPIANVAKIMKKAI---PESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL   76 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~L---P~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~l   76 (296)
                      +..|+.+++.+-.|++++.-   -.+.++...|..+||++++.|+--|--.+|-.|.|++|-||.+.|+--|..-.
T Consensus        58 kstdLlI~K~PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArrir  133 (137)
T KOG1745|consen   58 KSTDLLIRKLPFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIR  133 (137)
T ss_pred             hhhHHHhhcCcHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhhcc
Confidence            35678888999999998443   34689999999999999999999999999999999999999999998876543

>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=95.74  E-value=0.025  Score=43.23  Aligned_cols=56  Identities=21%  Similarity=0.274  Sum_probs=45.0

Q ss_pred             hhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         124 EQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       124 k~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      -+++.|+.++..|+.+++.+.|-.||.-+++.|-..|+..+-.|+.+.||.-.|+.
T Consensus         9 v~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler   64 (68)
T PF03847_consen    9 VKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLER   64 (68)
T ss_dssp             HHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHh
Confidence            35668999999999999999999999999999999999999999999999887764

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

>smart00428 H3 Histone H3

Probab=95.54  E-value=0.029  Score=46.42  Aligned_cols=48  Identities=21%  Similarity=0.174  Sum_probs=45.7

Q ss_pred             ccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhch
Q psy3459         130 NETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAM  177 (296)
Q Consensus       130 ~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL  177 (296)
                      +.+++.+|..+||+++-.|+--+...||..+.-.||+||.+.|+--|.
T Consensus        51 ~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~   98 (105)
T smart00428       51 DLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLAR   98 (105)
T ss_pred             CceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHH
Confidence            799999999999999999999999999999999999999999996664

>smart00414 H2A Histone 2A

Probab=95.49  E-value=0.041  Score=45.51  Aligned_cols=67  Identities=10%  Similarity=0.237  Sum_probs=57.9

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.||..-|.|+||+.-.. .||+..|...|..+.+-+...|-.-|...|...+++.|++.|+..|+.
T Consensus         7 gL~fPVgRi~r~Lk~~~~~-~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~   73 (106)
T smart00414        7 GLQFPVGRIHRLLRKGTYA-KRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIR   73 (106)
T ss_pred             CccCchHHHHHHHHcCccc-cccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhcc
Confidence            5789999999999986433 599999999999888888777777788889999999999999999975

>KOG1659|consensus

Probab=95.43  E-value=0.033  Score=51.29  Aligned_cols=76  Identities=16%  Similarity=0.242  Sum_probs=66.1

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHH
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPL   85 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l   85 (296)
                      .+|.|.|.|||..- -+-.+|+.-....+.++.+.|+.-|-..+.+++...+-|||+++|+..|+..-.-.+|...+
T Consensus        13 rfp~aRiKKIMQ~d-EdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFLk~~   88 (224)
T KOG1659|consen   13 RFPPARIKKIMQSD-EDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFLKEV   88 (224)
T ss_pred             cCCHHHHHHHHhhh-hhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHHHHH
Confidence            58999999999854 23358999999999999999999999999999999999999999999999876666665553

>PLN00154 histone H2A; Provisional

Probab=95.27  E-value=0.048  Score=47.06  Aligned_cols=68  Identities=13%  Similarity=0.217  Sum_probs=56.0

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.||...|.|++|+...-..||+..|...|.-..+-+...|-.-|-..|...+++-|+|.||..|+.
T Consensus        36 gL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIr  103 (136)
T PLN00154         36 GLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR  103 (136)
T ss_pred             CccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhcc
Confidence            57899999999999975445699999998888777665555555667778889999999999999974

>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

Probab=95.06  E-value=0.077  Score=44.40  Aligned_cols=77  Identities=13%  Similarity=0.162  Sum_probs=62.8

Q ss_pred             hhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchHH-HHHHHHHHHH
Q psy3459         120 GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEP-LKIYLQKYRE  198 (296)
Q Consensus       120 ~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~~-l~~~L~~~re  198 (296)
                      .++++.+  +-..++.++...|.+-+-.++.-|...|..++.-.||+||+++||--|++..+-..|..+ -++.|-..-.
T Consensus         8 ~~iLk~~--Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~~~f~~~p~~~~l~~~a~   85 (117)
T cd07979           8 AAILKSM--GITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVDYSFTSPPPRDFLLELAR   85 (117)
T ss_pred             HHHHHHC--CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhccCCCCCCcHHHHHHHHH
Confidence            4555554  224799999999999999999999999999999999999999999999988776555554 6666655544

The TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Human TAF9 has a paralogue gene (TAF9L) whi

>smart00427 H2B Histone H2B

Probab=95.03  E-value=0.05  Score=43.81  Aligned_cols=60  Identities=22%  Similarity=0.312  Sum_probs=51.4

Q ss_pred             hhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcC
Q psy3459         121 TILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG  181 (296)
Q Consensus       121 rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~Lg  181 (296)
                      +.+|+.. |+..||+.|...+.--...+..-|+++|...|+..+|+||++.+|..|.+-+=
T Consensus         9 kvLKqVh-pd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl~L   68 (89)
T smart00427        9 KVLKQVH-PDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVRLIL   68 (89)
T ss_pred             HHHHHhC-CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHHc
Confidence            4445444 56699999999999888888889999999999999999999999999987653

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

Probab=94.94  E-value=0.047  Score=45.07  Aligned_cols=78  Identities=17%  Similarity=0.224  Sum_probs=65.3

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHH
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKI   87 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~   87 (296)
                      .+|.|.|.|||.-- -+-.+|+.-......++.+.|+..|-..+...++..+-|-|+.+++..|.+.-+=.+|...+..
T Consensus        23 rFP~ar~KkIMQ~d-eDiGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdFL~~~~~  100 (113)
T COG5247          23 RFPIARLKKIMQLD-EDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFLKNMEQ  100 (113)
T ss_pred             cCCHHHHHHHHHhh-hhhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHHHHHHHH
Confidence            58999999999743 2335899999999999999999999999999999999999999999999876555555544433

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

Probab=94.88  E-value=0.044  Score=53.37  Aligned_cols=52  Identities=17%  Similarity=0.228  Sum_probs=50.0

Q ss_pred             ccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCc
Q psy3459         132 TIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD  183 (296)
Q Consensus       132 ~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~  183 (296)
                      ++++||..++.+.+..++.-|..+|...++..+|||++++||-.||+.++.+
T Consensus        16 ~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~n~e   67 (343)
T cd08050          16 SLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLRNVE   67 (343)
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHhCCC
Confidence            8999999999999999999999999999999999999999999999987764

The TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as

>KOG1756|consensus

Probab=94.61  E-value=0.086  Score=45.04  Aligned_cols=67  Identities=12%  Similarity=0.235  Sum_probs=54.0

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.+|...|.|++|+. --..+|+.+|...+.-+.+-....|..-|-..+..+++.-|+|.|+..|+.
T Consensus        25 gl~fPvgri~r~Lr~~-~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~   91 (131)
T KOG1756|consen   25 GLQFPVGRIHRLLRKG-RYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIR   91 (131)
T ss_pred             ccccCHHHHHHHHHcc-chhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHh
Confidence            5679999999999983 234799999999998666555555556666667788999999999999985

>PF02269 TFIID-18kDa: Transcription initiation factor IID, 18kD subunit; InterPro: IPR003195 This family includes the Spt3 yeast transcription factors and the 18 kDa subunit from human transcription initiation factor IID (TFIID-18)

Probab=94.52  E-value=0.048  Score=43.82  Aligned_cols=60  Identities=22%  Similarity=0.335  Sum_probs=30.0

Q ss_pred             HHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhh
Q psy3459          15 VAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA   75 (296)
Q Consensus        15 I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~   75 (296)
                      |..||- +.++...-..|+..+|-+...+||..+...|..+|...|+++|+.+|++-+|..
T Consensus         7 I~~mMy-~fGD~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~   66 (93)
T PF02269_consen    7 IRQMMY-GFGDVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRK   66 (93)
T ss_dssp             CHHHHH-CTTS-SS--HHHHHHHHHHHHHHHHHHHHHHHC---------------------
T ss_pred             HHHHHH-HcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhc
Confidence            345555 345556788999999999999999999999999999999999999999999864

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

>PTZ00017 histone H2A; Provisional

Probab=94.29  E-value=0.095  Score=45.17  Aligned_cols=67  Identities=16%  Similarity=0.223  Sum_probs=57.9

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.||..-|.|+|++.--. .||+..|...|.-+.+-+...|-.-|...|...+++-|+|.||..|+.
T Consensus        25 gL~FPVgRi~R~Lk~g~~a-~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~   91 (134)
T PTZ00017         25 GLQFPVGRVHRYLKKGRYA-KRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIR   91 (134)
T ss_pred             CcccchHHHHHHHhccchh-ccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhcc
Confidence            5789999999999986433 599999999999888888777777788889999999999999999974

>KOG1744|consensus

Probab=94.21  E-value=0.15  Score=43.62  Aligned_cols=61  Identities=30%  Similarity=0.381  Sum_probs=56.1

Q ss_pred             HHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhh
Q psy3459          14 NVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA   75 (296)
Q Consensus        14 ~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~   75 (296)
                      .|.|++|++-|+ ..||..+...+.-....+..-|+++|+..+.-.+|.||+..++..|..-
T Consensus        42 yv~kvlk~Vhpd-~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~rL  102 (127)
T KOG1744|consen   42 YVYKVLKQVHPD-LGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVRL  102 (127)
T ss_pred             ehhhhhhcccCC-CCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHHH
Confidence            478899999998 6799999999999999999999999999999999999999999888643

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

Probab=94.16  E-value=0.18  Score=43.06  Aligned_cols=84  Identities=19%  Similarity=0.230  Sum_probs=49.3

Q ss_pred             cccCCchh--HHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh-hcCCCcch
Q psy3459           6 QDRFLPIA--NVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS-ALGFDSYV   82 (296)
Q Consensus         6 ~d~~LP~A--~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~-~lgF~~yv   82 (296)
                      ..-.+|+.  .|.-|+|+.  +-......+...|.+.+-.|+.-|-..|..++.++||++|+.+||..|++ .+++.-..
T Consensus         7 ~~~~~PrDa~~i~~iL~~~--Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r~~~~f~~   84 (129)
T PF02291_consen    7 QSKSLPRDARVIHLILKSM--GVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSRLDHSFTQ   84 (129)
T ss_dssp             ------HHHHHHHHHHHHT--T---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT-------
T ss_pred             CCccCChHHHHHHHHHHHc--CCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHhhhccC
Confidence            34467775  667777766  44467778888899999999999999999999999999999999999998 56666555


Q ss_pred             HHHHHHHHH
Q psy3459          83 EPLKIYLQK   91 (296)
Q Consensus        83 ~~l~~~L~~   91 (296)
                      ++-+++|..
T Consensus        85 pppre~lle   93 (129)
T PF02291_consen   85 PPPREFLLE   93 (129)
T ss_dssp             ---------
T ss_pred             CCChHHHHH
Confidence            555554443

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

>PF15510 CENP-W: Centromere kinetochore component W

Probab=93.90  E-value=0.089  Score=42.69  Aligned_cols=66  Identities=20%  Similarity=0.212  Sum_probs=53.8

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHH--------------HHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDAREC--------------VQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~a--------------l~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .-|+..+.|++|..-|. .++....-.+              +.--|-.|++-|+-+|..-|-.++-.||.++||+.|.+
T Consensus        16 kaPrgfLkrv~Kr~Kph-lRl~~~~Dllv~~~~f~~~~~~~~vhLncLLFvhrLAEEaRtnA~EnK~~~Ik~~Hv~AaaK   94 (102)
T PF15510_consen   16 KAPRGFLKRVFKRQKPH-LRLETSGDLLVRFCPFSGWQWGGEVHLNCLLFVHRLAEEARTNACENKCGTIKKEHVLAAAK   94 (102)
T ss_pred             hCchHHHHHHHHhcCCc-eeecccccHHHhhcccccccccceeehhHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHHH
Confidence            46999999999977665 4655544333              55668899999999999999999999999999999865


Q ss_pred             h
Q psy3459          75 A   75 (296)
Q Consensus        75 ~   75 (296)
                      .
T Consensus        95 v   95 (102)
T PF15510_consen   95 V   95 (102)
T ss_pred             H
Confidence            3

>KOG3467|consensus

Probab=93.86  E-value=0.098  Score=42.17  Aligned_cols=52  Identities=21%  Similarity=0.289  Sum_probs=45.7

Q ss_pred             ccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCc
Q psy3459         132 TIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD  183 (296)
Q Consensus       132 ~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~  183 (296)
                      +|+--.-+-+.+.+.+||.-+-+-|-.+++..+||||++-||+-+|+..|-.
T Consensus        46 Ri~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LKR~G~~   97 (103)
T KOG3467|consen   46 RISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRT   97 (103)
T ss_pred             hhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHHHcCce
Confidence            4555566677889999999999999999999999999999999999998753

>PLN00156 histone H2AX; Provisional

Probab=93.56  E-value=0.17  Score=43.81  Aligned_cols=67  Identities=13%  Similarity=0.202  Sum_probs=55.8

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.||...|.|++++.--. .||+..|...|.-+.+-....|-.-|-..|...+++-|+|.||..|+.
T Consensus        27 gL~FPVgRi~R~Lk~g~ya-~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIr   93 (139)
T PLN00156         27 GLQFPVGRIARFLKAGKYA-ERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR   93 (139)
T ss_pred             CcccchHHHHHHHhcCChh-hccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhcc
Confidence            5789999999999986433 599999999988887766666666677778889999999999999974

>PLN00153 histone H2A; Provisional

Probab=93.50  E-value=0.17  Score=43.40  Aligned_cols=67  Identities=16%  Similarity=0.219  Sum_probs=57.2

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.+|..-|.|++++.-.. .||+..|...|.-+.+-....|-.-|...|...+++-|+|.||..|+.
T Consensus        22 gL~FpVgRi~R~Lr~g~~a-~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~   88 (129)
T PLN00153         22 GLQFPVGRIARYLKKGKYA-ERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIR   88 (129)
T ss_pred             CcccchHHHHHHHhcCchh-hccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhcc
Confidence            5789999999999986443 599999999998887777777777777888899999999999999974

>PLN00157 histone H2A; Provisional

Probab=93.47  E-value=0.15  Score=43.80  Aligned_cols=67  Identities=13%  Similarity=0.186  Sum_probs=56.6

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.||..-|.|++|+.--. .||+..|...|.-+.+-....|-.-|...|...+++-|++.||..|+.
T Consensus        24 gL~FPVgRi~R~Lk~g~~a-~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~   90 (132)
T PLN00157         24 GLQFPVGRIARYLKAGKYA-TRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVR   90 (132)
T ss_pred             CcccchHHHHHHHhcCchh-hhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhccc
Confidence            5789999999999986433 599999999998887777777767777788899999999999999974

>PTZ00463 histone H2B; Provisional

Probab=93.43  E-value=0.18  Score=42.43  Aligned_cols=60  Identities=20%  Similarity=0.334  Sum_probs=50.8

Q ss_pred             hhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcC
Q psy3459         121 TILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG  181 (296)
Q Consensus       121 rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~Lg  181 (296)
                      +.+|+. -|+..||..|...|.--......-|+++|...|+-.+|+||++.+|..|.+-+=
T Consensus        36 KVLKqV-hPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvrLlL   95 (117)
T PTZ00463         36 KVLKQV-HPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIRLVL   95 (117)
T ss_pred             HHHHhh-CCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHhhcc
Confidence            444444 456789999999999888888889999999999999999999999999977553

>PLN00158 histone H2B; Provisional

Probab=93.33  E-value=0.18  Score=42.46  Aligned_cols=61  Identities=18%  Similarity=0.253  Sum_probs=51.5

Q ss_pred             hhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcC
Q psy3459         120 GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG  181 (296)
Q Consensus       120 ~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~Lg  181 (296)
                      -+.+|+ .-|+..||..+...|.--...+..-|+++|...|+-.+|+||++.+|..|.+-+=
T Consensus        34 ~kVLKQ-VhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvrLvL   94 (116)
T PLN00158         34 YKVLKQ-VHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVRLIL   94 (116)
T ss_pred             HHHHHH-hCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHhc
Confidence            344444 4456789999999999888888889999999999999999999999999977553

>PF02269 TFIID-18kDa: Transcription initiation factor IID, 18kD subunit; InterPro: IPR003195 This family includes the Spt3 yeast transcription factors and the 18 kDa subunit from human transcription initiation factor IID (TFIID-18)

Probab=93.29  E-value=0.12  Score=41.47  Aligned_cols=54  Identities=26%  Similarity=0.335  Sum_probs=27.4

Q ss_pred             cCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         126 QNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       126 ~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      ..++.-.-..|+..+|-+-..+||.-+...|..+|...|+++|+.+|++-+|+.
T Consensus        13 ~fGD~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~   66 (93)
T PF02269_consen   13 GFGDVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRK   66 (93)
T ss_dssp             CTTS-SS--HHHHHHHHHHHHHHHHHHHHHHHC---------------------
T ss_pred             HcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhc
Confidence            456666788999999999999999999999999999999999999999999985

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

>KOG1142|consensus

Probab=92.97  E-value=0.19  Score=47.52  Aligned_cols=66  Identities=17%  Similarity=0.287  Sum_probs=58.3

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhh
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA   75 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~   75 (296)
                      -|=+--+.-+++..- +...|.+|+.++|.+.|..||.-|+..|..+|+|-+..||-+-||...|+.
T Consensus       154 il~k~kl~dLvqqId-~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr  219 (258)
T KOG1142|consen  154 ILSKRKLDDLVQQID-GTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLER  219 (258)
T ss_pred             cccccchhHHHHhhc-CcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeec
Confidence            344556778888774 447999999999999999999999999999999999999999999999984

>KOG1657|consensus

Probab=92.30  E-value=0.18  Score=47.14  Aligned_cols=82  Identities=21%  Similarity=0.214  Sum_probs=61.6

Q ss_pred             hccchhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhc---CCccchHHHHH
Q psy3459         115 VFQSSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL---GFDSYVEPLKI  191 (296)
Q Consensus       115 Lf~~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~L---gF~~yv~~l~~  191 (296)
                      |+....+++.+.-++-=.|+.||--++.+||-.||..||..|...+.+.+|+|+...|+-.|+..-   +|--.+-|-+.
T Consensus        75 lPlaRiKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdFL~DivP~~~  154 (236)
T KOG1657|consen   75 LPLARIKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDFLRDIVPRKI  154 (236)
T ss_pred             CcHhhccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCccceeccccchh
Confidence            334444444444443339999999999999999999999999999999999999999999999873   34333344445


Q ss_pred             HHHHH
Q psy3459         192 YLQKY  196 (296)
Q Consensus       192 ~L~~~  196 (296)
                      ....|
T Consensus       155 ~~~~~  159 (236)
T KOG1657|consen  155 LAEKY  159 (236)
T ss_pred             ccccc
Confidence            55555

>PLN00161 histone H3; Provisional

Probab=92.18  E-value=0.36  Score=41.68  Aligned_cols=51  Identities=20%  Similarity=0.168  Sum_probs=46.8

Q ss_pred             CCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhch
Q psy3459         127 NGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAM  177 (296)
Q Consensus       127 lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL  177 (296)
                      .+.+.+++.+|..|||+++-.|+--+-..||-.|.-.+|-||.+.|+.-|.
T Consensus        73 ~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~  123 (135)
T PLN00161         73 LREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLAR  123 (135)
T ss_pred             CCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHH
Confidence            345799999999999999999999999999999999999999999996654

>PLN00160 histone H3; Provisional

Probab=92.07  E-value=0.38  Score=39.37  Aligned_cols=50  Identities=18%  Similarity=0.078  Sum_probs=46.1

Q ss_pred             CCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhch
Q psy3459         128 GQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAM  177 (296)
Q Consensus       128 p~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL  177 (296)
                      +.+.+++.+|..|+|+++--|+--+-..||-.|.-.||-||.+.|+--|.
T Consensus        40 ~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~   89 (97)
T PLN00160         40 REAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLAR   89 (97)
T ss_pred             CCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHH
Confidence            46699999999999999999999999999999999999999999996554

>KOG1658|consensus

Probab=91.84  E-value=0.13  Score=45.40  Aligned_cols=67  Identities=24%  Similarity=0.313  Sum_probs=56.8

Q ss_pred             cCCchhHHHHHHHhhCCCCCc-ccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhc
Q psy3459           8 RFLPIANVAKIMKKAIPESGK-IAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL   76 (296)
Q Consensus         8 ~~LP~A~I~RIiK~~LP~~~r-ISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~l   76 (296)
                      ..||++.|..++|-  +++.+ ..+++..++.+++..||..|+..+...+...+|||+.--|+-.|++..
T Consensus        58 ~rLpL~rik~vvkl--~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~  125 (162)
T KOG1658|consen   58 SRLPLARIKQVVKL--DPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAV  125 (162)
T ss_pred             hhccHHHHHhhccC--CcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccch
Confidence            57999999999973  45555 566788889999999999999999999999999999998887776543

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

Probab=91.76  E-value=0.21  Score=50.01  Aligned_cols=46  Identities=26%  Similarity=0.367  Sum_probs=36.6

Q ss_pred             CCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchh
Q psy3459         127 NGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGED  172 (296)
Q Consensus       127 lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eD  172 (296)
                      ...+++|+|||.++|.+|.-.|-.-|..-=-.+|.-.|||||..+|
T Consensus       369 ~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD  414 (414)
T PF15511_consen  369 GGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD  414 (414)
T ss_dssp             ----S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred             cccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4578999999999999999999999999999999999999998876

>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=91.60  E-value=0.45  Score=37.85  Aligned_cols=60  Identities=15%  Similarity=0.168  Sum_probs=51.0

Q ss_pred             hhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCC---CcccchhHhhchhhc
Q psy3459         119 SGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKR---KTINGEDILFAMSAL  180 (296)
Q Consensus       119 s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kR---KTI~~eDVl~AL~~L  180 (296)
                      +.+++...++  .+++.+...+|.-.+.+||.=|..+|.++..+.+.   .-|.|+||-.|...|
T Consensus        22 iKr~~~~~~~--~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~rrl   84 (85)
T cd08048          22 IKRLIQSVTG--QSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYRRL   84 (85)
T ss_pred             HHHHHHHHcC--CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHHHh
Confidence            3455443343  78999999999999999999999999999998776   889999999998876

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

>KOG3219|consensus

Probab=91.56  E-value=0.21  Score=45.56  Aligned_cols=69  Identities=16%  Similarity=0.180  Sum_probs=60.7

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcC-CCccCcccHHHHhhhcCCC
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEK-RKTINGEDILFAMSALGFD   79 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~-RKTI~~eDVl~AL~~lgF~   79 (296)
                      .||+|.|.|||....+.  .|+.-+..+++-.+.+||--|--+|.++|..-+ ---|.|.||-.|...|+..
T Consensus       112 ~f~Ka~iKkL~~~itg~--~v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~rrL~~q  181 (195)
T KOG3219|consen  112 AFPKAQIKKLMSSITGQ--SVSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYRRLKLQ  181 (195)
T ss_pred             cCCHHHHHHHHHHHhCC--ccCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHHHHHhc
Confidence            69999999999998765  399999999999999999999999999998755 4569999999998877654

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

Probab=91.41  E-value=0.39  Score=40.31  Aligned_cols=63  Identities=14%  Similarity=0.163  Sum_probs=51.1

Q ss_pred             cc--chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         116 FQ--SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       116 f~--~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      |+  .+.|+|++... ..+|+.+|.-.+..+.-.+..=|...|...|+..+|++|+|+||-.|+..
T Consensus        21 fPV~ri~R~Lk~~~~-a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~n   85 (115)
T cd00074          21 FPVGRIHRYLKKGRY-AERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRN   85 (115)
T ss_pred             CcHHHHHHHHHcCcc-ccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhc
Confidence            55  34677765332 37999999999998887777778888889999999999999999999765

The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding of specific chromatin-associated proteins.

>KOG1658|consensus

Probab=91.39  E-value=0.6  Score=41.27  Aligned_cols=113  Identities=23%  Similarity=0.257  Sum_probs=82.5

Q ss_pred             cCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHH
Q psy3459           8 RFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKI   87 (296)
Q Consensus         8 ~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~   87 (296)
                      .-||.+-+.||-|.. |.-+.=+.+|..+..-+...|+.-++.-+.                 .-               
T Consensus        10 p~~p~ekvkkiak~d-Pey~~te~~a~~etafatE~fvq~lv~~p~-----------------a~---------------   56 (162)
T KOG1658|consen   10 PKLPMEKVKKIAKND-PEYMDTEDDAFVETAFATEQFVQVLVHLPQ-----------------AS---------------   56 (162)
T ss_pred             ccccHHHHHHhhcCC-chhhhcccchHHHHHHHHHHHHhhhhhhhh-----------------hh---------------
Confidence            468999999998865 665667778877777888888777765110                 00               


Q ss_pred             HHHHHHHHhccccccchhhhhhhhhhhhccch-hhhhhhcCCCccccchH-HHHHHHHHHHHHHHHHHHHhhHHhhhcCC
Q psy3459          88 YLQKYREATKGEKSVNCEVYQEISVEDVFQSS-GTILEQQNGQNETIAKD-ARECVQECVSEFISFITSEASDRCHLEKR  165 (296)
Q Consensus        88 ~L~~~re~~k~kk~~~~e~~~~~~~e~Lf~~s-~rimk~~lp~~~~iskd-Akeai~~caseFI~~lts~An~~c~~~kR  165 (296)
                                            ++  .|..++ ..++  -++|++.++.| +..++.+++--||..|+..|...+...+|
T Consensus        57 ----------------------l~--rLpL~rik~vv--kl~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~  110 (162)
T KOG1658|consen   57 ----------------------LS--RLPLARIKQVV--KLDPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKR  110 (162)
T ss_pred             ----------------------hh--hccHHHHHhhc--cCCcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHh
Confidence                                  11  222322 3333  46788888765 88899999999999999999999999999


Q ss_pred             CcccchhHhhchhh
Q psy3459         166 KTINGEDILFAMSA  179 (296)
Q Consensus       166 KTI~~eDVl~AL~~  179 (296)
                      ||+.--|+=.|.+.
T Consensus       111 kt~qr~d~D~ai~~  124 (162)
T KOG1658|consen  111 KTEQRRDYDTAIEA  124 (162)
T ss_pred             hhhhhhcccccccc
Confidence            99988777666544

>PTZ00018 histone H3; Provisional

Probab=89.92  E-value=0.56  Score=40.55  Aligned_cols=51  Identities=20%  Similarity=0.134  Sum_probs=47.0

Q ss_pred             CCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhch
Q psy3459         127 NGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAM  177 (296)
Q Consensus       127 lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL  177 (296)
                      ...+.+++.+|..+||+++-.|+--+-..+|-.+.-.+|-||.+.|+.-|.
T Consensus        79 ~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~  129 (136)
T PTZ00018         79 FKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR  129 (136)
T ss_pred             cCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHH
Confidence            456899999999999999999999999999999999999999999996554

>PLN00121 histone H3; Provisional

Probab=89.59  E-value=0.63  Score=40.25  Aligned_cols=51  Identities=20%  Similarity=0.134  Sum_probs=46.9

Q ss_pred             CCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhch
Q psy3459         127 NGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAM  177 (296)
Q Consensus       127 lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL  177 (296)
                      ...+.+++.+|..+||+++-.|+--+-..+|-.+.-.+|-||.+.|+.-++
T Consensus        79 ~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~  129 (136)
T PLN00121         79 FKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR  129 (136)
T ss_pred             hCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHH
Confidence            346899999999999999999999999999999999999999999996554

>cd07978 TAF13 The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

Probab=89.50  E-value=1.7  Score=35.01  Aligned_cols=83  Identities=16%  Similarity=0.264  Sum_probs=57.1

Q ss_pred             hHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHH
Q psy3459          13 ANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKY   92 (296)
Q Consensus        13 A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~   92 (296)
                      .-|..||-. .++...-..|+..+|-+...+||.-+..+|.++|. .++.-++.||++-+|..=  ...+.-++.+|.--
T Consensus         6 ~ei~~mmy~-~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D--~~Kl~Rl~~lL~~k   81 (92)
T cd07978           6 KEIRQMMYG-FGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKD--PKKLARLRELLSMK   81 (92)
T ss_pred             HHHHHHHHH-cCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcC--HHHHHHHHHHHHHH
Confidence            346666763 34545678899999999999999999999999999 444445999999998531  12333444544433


Q ss_pred             HHHhccc
Q psy3459          93 REATKGE   99 (296)
Q Consensus        93 re~~k~k   99 (296)
                      ....+.+
T Consensus        82 ~~~k~ar   88 (92)
T cd07978          82 DELKKAR   88 (92)
T ss_pred             HHHHHHH
Confidence            3333333

The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Several hy

>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex

Probab=89.18  E-value=0.91  Score=34.58  Aligned_cols=47  Identities=23%  Similarity=0.237  Sum_probs=40.9

Q ss_pred             ccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchh
Q psy3459         132 TIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS  178 (296)
Q Consensus       132 ~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~  178 (296)
                      .++.|+..+|.+=+.--|..|-.+|..+.+..+|++++++||=.||+
T Consensus        20 ~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr   66 (66)
T PF02969_consen   20 NLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR   66 (66)
T ss_dssp             -B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence            69999999999999999999999999999999999999999998874

TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=89.07  E-value=1.4  Score=46.91  Aligned_cols=94  Identities=19%  Similarity=0.139  Sum_probs=56.9

Q ss_pred             HhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHHHHHhccccccchhhhhhhhhhhhccchhhhhhhcC---
Q psy3459          51 EASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGTILEQQN---  127 (296)
Q Consensus        51 ~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~re~~k~kk~~~~e~~~~~~~e~Lf~~s~rimk~~l---  127 (296)
                      .|...|..-+...|+++|++.||  |.-++    ....|..                .+++.+.|-....+.+...+   
T Consensus        11 ~A~~~A~~~~h~~V~~EHLLlaL--L~~~~----~~~iL~~----------------~gid~~~l~~~l~~~l~~~~p~~   68 (731)
T TIGR02639        11 AALEEAKKRRHEFVTLEHILLAL--LFDSD----AIEILEE----------------CGGDVEALRKDLEDYLENNLPSI   68 (731)
T ss_pred             HHHHHHHHhCCCcCcHHHHHHHH--HcCch----HHHHHHH----------------cCCCHHHHHHHHHHHHhhcCCCC
Confidence            47778999999999999999997  32222    1122221                12222233222222221111   


Q ss_pred             ----CCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchh
Q psy3459         128 ----GQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS  178 (296)
Q Consensus       128 ----p~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~  178 (296)
                          +.....|..++.++..+            ...+...+...|+++|+|-||-
T Consensus        69 ~~~~~~~~~~S~~lk~vL~~A------------~~~A~~~g~~~I~teHLLLALl  111 (731)
T TIGR02639        69 TEENEADPEQTVGVQRVLQRA------------LLHVKSAGKKEIGIGDILVALF  111 (731)
T ss_pred             CCCCCCCCCcCHHHHHHHHHH------------HHHHHHcCCCccCHHHHHHHHh
Confidence                12356788888888774            3445666899999999998864

>PTZ00252 histone H2A; Provisional

Probab=89.01  E-value=1.2  Score=38.54  Aligned_cols=67  Identities=9%  Similarity=0.197  Sum_probs=48.3

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHh--cCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHL--EKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~--~~RKTI~~eDVl~AL~   74 (296)
                      .+.||...|.|++++.--. .||+.-|...|.-+.+-....|-.-|...|..  .+++-|+|.||..|+.
T Consensus        23 GL~FPVgRi~R~Lr~g~ya-~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIr   91 (134)
T PTZ00252         23 GLIFPVGRVGSLLRRGQYA-RRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVR   91 (134)
T ss_pred             CccCchHHHHHHHHcCCcc-cccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhcc
Confidence            5789999999999987543 59999998887765443333333334444433  5678899999999974

>KOG1744|consensus

Probab=88.32  E-value=1.1  Score=38.32  Aligned_cols=61  Identities=28%  Similarity=0.320  Sum_probs=52.9

Q ss_pred             hhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhc
Q psy3459         119 SGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL  180 (296)
Q Consensus       119 s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~L  180 (296)
                      +.+.+++..|+ .-|+..+..++.--..++.--|+++|+..++-.+|.||+..++..|..-|
T Consensus        43 v~kvlk~Vhpd-~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~rLl  103 (127)
T KOG1744|consen   43 VYKVLKQVHPD-LGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVRLL  103 (127)
T ss_pred             hhhhhhcccCC-CCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHHHh
Confidence            34566666666 77999999999999999999999999999999999999999999886543

>KOG3423|consensus

Probab=86.35  E-value=3.1  Score=37.30  Aligned_cols=70  Identities=21%  Similarity=0.277  Sum_probs=56.7

Q ss_pred             cCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcC--------------CCccCcccHHHHh
Q psy3459           8 RFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEK--------------RKTINGEDILFAM   73 (296)
Q Consensus         8 ~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~--------------RKTI~~eDVl~AL   73 (296)
                      ..||-+.+.-.++.+  +-.....-.+.++.-++-.||+-|+..|.+.|+-.+              |-|++-+|+-.||
T Consensus        85 P~IPDavt~~yL~~a--Gf~~~D~rv~RLvsLaAQKfvSDIa~DA~Q~~k~r~~~~~~~~k~~~kdkK~tLtmeDL~~AL  162 (176)
T KOG3423|consen   85 PTIPDAVTDHYLKKA--GFQTSDPRVKRLVSLAAQKFVSDIANDALQHSKIRTKTAIGKDKKQAKDKKYTLTMEDLSPAL  162 (176)
T ss_pred             CCCcHHHHHHHHHhc--CCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccccccccceeeeHHHHHHHH
Confidence            369999999999876  422344455668999999999999999999997543              5689999999999


Q ss_pred             hhcCCC
Q psy3459          74 SALGFD   79 (296)
Q Consensus        74 ~~lgF~   79 (296)
                      .+.|+.
T Consensus       163 ~EyGin  168 (176)
T KOG3423|consen  163 AEYGIN  168 (176)
T ss_pred             HHhCcc
Confidence            999985

>KOG1142|consensus

Probab=86.00  E-value=1.2  Score=42.18  Aligned_cols=55  Identities=20%  Similarity=0.290  Sum_probs=51.5

Q ss_pred             hcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         125 QQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       125 ~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      +.+..+.+|-.|+.++|.+-|-.||.-|+..|-..|+..+..||-+-||.-.|+.
T Consensus       165 qqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr  219 (258)
T KOG1142|consen  165 QQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLER  219 (258)
T ss_pred             HhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeec
Confidence            4557889999999999999999999999999999999999999999999998875

>CHL00095 clpC Clp protease ATP binding subunit

Probab=85.19  E-value=2.9  Score=45.18  Aligned_cols=96  Identities=13%  Similarity=0.139  Sum_probs=56.2

Q ss_pred             HhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHHHHHhccccccchhhhhhhhhhhhccchhhhhhh--c-C
Q psy3459          51 EASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGTILEQ--Q-N  127 (296)
Q Consensus        51 ~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~re~~k~kk~~~~e~~~~~~~e~Lf~~s~rimk~--~-l  127 (296)
                      .|.+.|..-+...|+++|++.||=.-+-+    .....|..                .+++.+.|.....+.+..  . .
T Consensus        15 ~A~~~A~~~~h~~V~~EHLLLaLL~~~~~----~a~~iL~~----------------~gid~~~l~~~l~~~l~~~~~~~   74 (821)
T CHL00095         15 LSQEEARRLGHNFVGTEQILLGLIGEGTG----IAARALKS----------------MGVTLKDARIEVEKIIGRGTGFV   74 (821)
T ss_pred             HHHHHHHHhCCCcCcHHHHHHHHHhCCCc----hHHHHHHH----------------cCCCHHHHHHHHHHHHhcCCCCC
Confidence            47788999999999999999998322211    11222222                112222222211111110  0 1


Q ss_pred             CCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchh
Q psy3459         128 GQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS  178 (296)
Q Consensus       128 p~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~  178 (296)
                      +....+|..+..++..|            ...|...+...|+++|+|.||=
T Consensus        75 ~~~~~~S~~~~~vL~~A------------~~~A~~~~~~~I~~eHLLlALL  113 (821)
T CHL00095         75 AVEIPFTPRAKRVLEMS------------LEEARDLGHNYIGTEHLLLALL  113 (821)
T ss_pred             ccccccCHHHHHHHHHH------------HHHHHHhCCCcccHHHHHHHHH
Confidence            12356788888888764            4556666888999999999873

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

Probab=84.02  E-value=0.69  Score=43.10  Aligned_cols=66  Identities=18%  Similarity=0.214  Sum_probs=54.9

Q ss_pred             hhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccch
Q psy3459         120 GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYV  186 (296)
Q Consensus       120 ~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv  186 (296)
                      ++.||..-.-. -||.||--++.+.|-.||.-||-.|--.+++.+|+|+.-.||-.|++.-+.-+|.
T Consensus       116 kkvMKtdedVk-MisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFL  181 (286)
T COG5208         116 KKVMKTDEDVK-MISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFL  181 (286)
T ss_pred             HHHHhcccchh-heecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHH
Confidence            55555432222 4899999999999999999999999999999999999999999999987765543

>KOG4336|consensus

Probab=82.73  E-value=5.7  Score=38.70  Aligned_cols=77  Identities=22%  Similarity=0.325  Sum_probs=63.2

Q ss_pred             HHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHHH
Q psy3459          14 NVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYR   93 (296)
Q Consensus        14 ~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~r   93 (296)
                      +|.-|.+..  +--.|++-|.+.|.+....+|.-+..++..+|.++||.-.|.-||-.+|-.+|+.  ++.|..+++.+-
T Consensus        10 VV~~Ll~~~--gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~mnI~--v~sL~~~~q~~~   85 (323)
T KOG4336|consen   10 VVSNLLKTK--GFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIEMNIK--VSSLYAYFQKQE   85 (323)
T ss_pred             HHHHHHHHh--CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHhCCC--hhhhHHHHHhcc
Confidence            445555554  2236999999999999999999999999999999999999999999999999998  456666665544


Q ss_pred             H
Q psy3459          94 E   94 (296)
Q Consensus        94 e   94 (296)
                      .
T Consensus        86 ~   86 (323)
T KOG4336|consen   86 F   86 (323)
T ss_pred             c
Confidence            3

>cd07978 TAF13 The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

Probab=82.72  E-value=3.4  Score=33.25  Aligned_cols=65  Identities=17%  Similarity=0.298  Sum_probs=48.6

Q ss_pred             CCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchHHHHHHHH
Q psy3459         127 NGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQ  194 (296)
Q Consensus       127 lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~~l~~~L~  194 (296)
                      .++.-.-..|+..+|-+...+||.-+..+|.++|. .++.-|+++|++-+|..=  .-.+.-++.+|.
T Consensus        15 ~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D--~~Kl~Rl~~lL~   79 (92)
T cd07978          15 FGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKD--PKKLARLRELLS   79 (92)
T ss_pred             cCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcC--HHHHHHHHHHHH
Confidence            44555667899999999999999999999999999 444445999999998641  223334444444

The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Several hy

>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=80.34  E-value=2.6  Score=34.01  Aligned_cols=66  Identities=17%  Similarity=0.096  Sum_probs=46.2

Q ss_pred             hccchhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCC-cccchhHhhchhhc
Q psy3459         115 VFQSSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRK-TINGEDILFAMSAL  180 (296)
Q Consensus       115 Lf~~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRK-TI~~eDVl~AL~~L  180 (296)
                      |-++..+++.++...|..++.-...+|.-.|.+||.=|-.+|.+++.+.+.. .|.|.|+-.|...|
T Consensus        24 ~~k~~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~rrL   90 (90)
T PF04719_consen   24 FNKAAIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYRRL   90 (90)
T ss_dssp             --HHHHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHHhC
Confidence            3345555555555567899999999999999999999999999999865544 79999998887654

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	296
4awl_B	94	The Nf-y Transcription Factor Is Structurally And F		3e-43
4awl_B	94	The Nf-y Transcription Factor Is Structurally And F		9e-31
4awl_B	94	The Nf-y Transcription Factor Is Structurally And F		9e-22
1n1j_A	93	Crystal Structure Of The Nf-YbNF-Yc Histone Pair Le		1e-42
1n1j_A	93	Crystal Structure Of The Nf-YbNF-Yc Histone Pair Le		1e-30
1n1j_A	93	Crystal Structure Of The Nf-YbNF-Yc Histone Pair Le		9e-22
4g91_B	92	Ccaat-Binding Complex From Aspergillus Nidulans Len		8e-38
4g91_B	92	Ccaat-Binding Complex From Aspergillus Nidulans Len		4e-26
4g91_B	92	Ccaat-Binding Complex From Aspergillus Nidulans Len		7e-18
1jfi_B	179	Crystal Structure Of The Nc2-Tbp-Dna Ternary Comple		4e-12
1jfi_B	179	Crystal Structure Of The Nc2-Tbp-Dna Ternary Comple		1e-09
1jfi_B	179	Crystal Structure Of The Nc2-Tbp-Dna Ternary Comple		1e-04
2byk_B	128	Histone Fold Heterodimer Of The Chromatin Accessibi		1e-09
2byk_B	128	Histone Fold Heterodimer Of The Chromatin Accessibi		3e-04

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

Iteration: 1
 Score =  172 bits (435), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 80/94 (85%), Positives = 88/94 (93%)
Query: 1  MPLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEK 60
          M  REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EK
Sbjct: 1  MSFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEK 60
Query: 61 RKTINGEDILFAMSALGFDSYVEPLKIYLQKYRE 94
          RKTINGEDILFAMS LGFDSYVEPLK+YLQK+RE
Sbjct: 61 RKTINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 94

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

Iteration: 1
 Score =  130 bits (327), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 62/77 (80%), Positives = 68/77 (88%)
Query: 122 ILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG 181
           I++    Q   IAKDA+ECVQECVSEFISFITSEAS+RCH EKRKTINGEDILFAMS LG
Sbjct: 18  IMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMSTLG 77
Query: 182 FDSYVEPLKIYLQKYRE 198
           FDSYVEPLK+YLQK+RE
Sbjct: 78  FDSYVEPLKLYLQKFRE 94

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

Iteration: 1
 Score =  100 bits (249), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 46/51 (90%), Positives = 49/51 (96%)
Query: 205 FISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYRE 255
           FISFITSEAS+RCH EKRKTINGEDILFAMS LGFDSYVEPLK+YLQK+RE
Sbjct: 44  FISFITSEASERCHQEKRKTINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 94

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

Iteration: 1
 Score =  169 bits (429), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 79/92 (85%), Positives = 87/92 (94%)
Query: 3  LREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRK 62
           REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRK
Sbjct: 2  FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRK 61
Query: 63 TINGEDILFAMSALGFDSYVEPLKIYLQKYRE 94
          TINGEDILFAMS LGFDSYVEPLK+YLQK+RE
Sbjct: 62 TINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 93

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

Iteration: 1
 Score =  130 bits (326), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 62/77 (80%), Positives = 68/77 (88%)
Query: 122 ILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG 181
           I++    Q   IAKDA+ECVQECVSEFISFITSEAS+RCH EKRKTINGEDILFAMS LG
Sbjct: 17  IMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMSTLG 76
Query: 182 FDSYVEPLKIYLQKYRE 198
           FDSYVEPLK+YLQK+RE
Sbjct: 77  FDSYVEPLKLYLQKFRE 93

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

Iteration: 1
 Score =  100 bits (249), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 46/51 (90%), Positives = 49/51 (96%)
Query: 205 FISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYRE 255
           FISFITSEAS+RCH EKRKTINGEDILFAMS LGFDSYVEPLK+YLQK+RE
Sbjct: 43  FISFITSEASERCHQEKRKTINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 93

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

Iteration: 1
 Score =  154 bits (388), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 69/92 (75%), Positives = 85/92 (92%)
Query: 3  LREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRK 62
          ++EQDR+LPIANVA+IMK A+PE+ KIAK+A+EC+QECVSEFISFITSEAS++C  EKRK
Sbjct: 1  MKEQDRWLPIANVARIMKLALPENAKIAKEAKECMQECVSEFISFITSEASEKCQQEKRK 60
Query: 63 TINGEDILFAMSALGFDSYVEPLKIYLQKYRE 94
          T+NGEDILFAM++LGF++Y E LKIYL KYRE
Sbjct: 61 TVNGEDILFAMTSLGFENYAEALKIYLSKYRE 92

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

Iteration: 1
 Score =  114 bits (286), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 52/70 (74%), Positives = 63/70 (90%)
Query: 129 QNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEP 188
           +N  IAK+A+EC+QECVSEFISFITSEAS++C  EKRKT+NGEDILFAM++LGF++Y E 
Sbjct: 23  ENAKIAKEAKECMQECVSEFISFITSEASEKCQQEKRKTVNGEDILFAMTSLGFENYAEA 82
Query: 189 LKIYLQKYRE 198
           LKIYL KYRE
Sbjct: 83  LKIYLSKYRE 92

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

Iteration: 1
 Score = 87.8 bits (216), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 39/51 (76%), Positives = 46/51 (90%)
Query: 205 FISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYRE 255
           FISFITSEAS++C  EKRKT+NGEDILFAM++LGF++Y E LKIYL KYRE
Sbjct: 42  FISFITSEASEKCQQEKRKTVNGEDILFAMTSLGFENYAEALKIYLSKYRE 92

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

Iteration: 1
 Score = 68.6 bits (166), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 34/86 (39%), Positives = 58/86 (67%), Gaps = 1/86 (1%)
Query: 5  EQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTI 64
          + D  +P A + K++K+ +P + ++A DARE V  C +EFI  I+SEA++ C+  ++KTI
Sbjct: 11 DDDLTIPRAAINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTI 69
Query: 65 NGEDILFAMSALGFDSYVEPLKIYLQ 90
          + E ++ A+ +LGF SY+  +K  LQ
Sbjct: 70 SPEHVIQALESLGFGSYISEVKEVLQ 95

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

Iteration: 1
 Score = 60.1 bits (144), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 29/65 (44%), Positives = 44/65 (67%)
Query: 130 NETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPL 189
           N  +A DARE V  C +EFI  I+SEA++ C+  ++KTI+ E ++ A+ +LGF SY+  +
Sbjct: 31  NVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALESLGFGSYISEV 90
Query: 190 KIYLQ 194
           K  LQ
Sbjct: 91  KEVLQ 95

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 20/47 (42%), Positives = 33/47 (70%)
Query: 205 FISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQ 251
           FI  I+SEA++ C+  ++KTI+ E ++ A+ +LGF SY+  +K  LQ
Sbjct: 49  FIHLISSEANEICNKSEKKTISPEHVIQALESLGFGSYISEVKEVLQ 95

>pdb|2BYK|B Chain B, Histone Fold Heterodimer Of The Chromatin Accessibility Complex Length = 128

Iteration: 1
 Score = 60.5 bits (145), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 33/90 (36%), Positives = 54/90 (60%)
Query: 4  REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKT 63
          R +D  LP A + +++K+A+PES  ++K+AR  +    S F  F+TS ++   H +  KT
Sbjct: 4  RIEDLNLPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKT 63
Query: 64 INGEDILFAMSALGFDSYVEPLKIYLQKYR 93
          I  +DIL  ++ L F+S+V  L   L+ YR
Sbjct: 64 ITAKDILQTLTELDFESFVPSLTQDLEVYR 93

>pdb|2BYK|B Chain B, Histone Fold Heterodimer Of The Chromatin Accessibility Complex Length = 128

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/78 (30%), Positives = 45/78 (57%)
Query: 120 GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA 179
           G ++++   ++ +++K+AR  +    S F  F+TS ++   H +  KTI  +DIL  ++ 
Sbjct: 16  GRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLTE 75
Query: 180 LGFDSYVEPLKIYLQKYR 197
           L F+S+V  L   L+ YR
Sbjct: 76  LDFESFVPSLTQDLEVYR 93

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	296
2byk_B	128	Chrac-14; nucleosome sliding, histone fold, DNA-bi	3e-44
2byk_B	128	Chrac-14; nucleosome sliding, histone fold, DNA-bi	6e-29
2byk_B	128	Chrac-14; nucleosome sliding, histone fold, DNA-bi	4e-21
1n1j_A	93	NF-YB; histone-like PAIR, DNA binding protein; 1.6	3e-43
1n1j_A	93	NF-YB; histone-like PAIR, DNA binding protein; 1.6	5e-29
1n1j_A	93	NF-YB; histone-like PAIR, DNA binding protein; 1.6	3e-21
1jfi_B	179	DR1 protein, transcription regulator NC2 beta chai	2e-39
1jfi_B	179	DR1 protein, transcription regulator NC2 beta chai	2e-28
1jfi_B	179	DR1 protein, transcription regulator NC2 beta chai	6e-21
1b67_A	68	Protein (histone HMFA); DNA binding protein; 1.48A	7e-22
1b67_A	68	Protein (histone HMFA); DNA binding protein; 1.48A	6e-15
1b67_A	68	Protein (histone HMFA); DNA binding protein; 1.48A	1e-08
1ku5_A	70	HPHA, archaeal histon; histone fold, DNA binding p	3e-20
1ku5_A	70	HPHA, archaeal histon; histone fold, DNA binding p	1e-13
1ku5_A	70	HPHA, archaeal histon; histone fold, DNA binding p	1e-07
1n1j_B	97	NF-YC; histone-like PAIR, DNA binding protein; 1.6	2e-11
1n1j_B	97	NF-YC; histone-like PAIR, DNA binding protein; 1.6	5e-05
2byk_A	140	Chrac-16; nucleosome sliding, histone fold, DNA-bi	8e-11
2byk_A	140	Chrac-16; nucleosome sliding, histone fold, DNA-bi	4e-04
3b0c_T	111	CENP-T, centromere protein T; histone fold, DNA bi	2e-06
3b0c_T	111	CENP-T, centromere protein T; histone fold, DNA bi	9e-05
1jfi_A	98	Transcription regulator NC2 alpha chain; histone,	8e-06

>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 =  145 bits (368), Expect = 3e-44
 Identities = 39/126 (30%), Positives = 66/126 (52%)

Query: 1   MPLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEK 60
           M  R +D  LP A + +++K+A+PES  ++K+AR  +    S F  F+TS ++   H + 
Sbjct: 1   MVERIEDLNLPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQN 60

Query: 61  RKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSG 120
            KTI  +DIL  ++ L F+S+V  L   L+ YR+  K +K          + E+   S+ 
Sbjct: 61  HKTITAKDILQTLTELDFESFVPSLTQDLEVYRKVVKEKKESKASKKDSNTAENANASAT 120

Query: 121 TILEQQ 126
              E+ 
Sbjct: 121 ATAEEA 126

>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 =  106 bits (265), Expect = 6e-29
 Identities = 25/76 (32%), Positives = 44/76 (57%)

Query: 129 QNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEP 188
           ++ +++K+AR  +    S F  F+TS ++   H +  KTI  +DIL  ++ L F+S+V  
Sbjct: 25  ESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLTELDFESFVPS 84

Query: 189 LKIYLQKYREATKGEK 204
           L   L+ YR+  K +K
Sbjct: 85  LTQDLEVYRKVVKEKK 100

>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 = 85.8 bits (212), Expect = 4e-21
 Identities = 21/58 (36%), Positives = 33/58 (56%)

Query: 205 FISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKS 262
           F  F+TS ++   H +  KTI  +DIL  ++ L F+S+V  L   L+ YR+  K +K 
Sbjct: 44  FAIFVTSSSTALAHKQNHKTITAKDILQTLTELDFESFVPSLTQDLEVYRKVVKEKKE 101

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

 Score =  142 bits (359), Expect = 3e-43
 Identities = 79/92 (85%), Positives = 87/92 (94%)

Query: 3  LREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRK 62
           REQD +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRK
Sbjct: 2  FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRK 61

Query: 63 TINGEDILFAMSALGFDSYVEPLKIYLQKYRE 94
          TINGEDILFAMS LGFDSYVEPLK+YLQK+RE
Sbjct: 62 TINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 93

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

 Score =  105 bits (264), Expect = 5e-29
 Identities = 61/70 (87%), Positives = 65/70 (92%)

Query: 129 QNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEP 188
           Q   IAKDA+ECVQECVSEFISFITSEAS+RCH EKRKTINGEDILFAMS LGFDSYVEP
Sbjct: 24  QTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMSTLGFDSYVEP 83

Query: 189 LKIYLQKYRE 198
           LK+YLQK+RE
Sbjct: 84  LKLYLQKFRE 93

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

 Score = 85.3 bits (211), Expect = 3e-21
 Identities = 46/53 (86%), Positives = 50/53 (94%)

Query: 203 EKFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYRE 255
            +FISFITSEAS+RCH EKRKTINGEDILFAMS LGFDSYVEPLK+YLQK+RE
Sbjct: 41  SEFISFITSEASERCHQEKRKTINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 93

>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 =  135 bits (341), Expect = 2e-39
 Identities = 40/136 (29%), Positives = 71/136 (52%), Gaps = 10/136 (7%)

Query: 4   REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKT 63
            + D  +P A + K++K+ +P   ++A DARE V  C +EFI  I+SEA++ C+  ++KT
Sbjct: 10  NDDDLTIPRAAINKMIKETLPN-VRVANDARELVVNCCTEFIHLISSEANEICNKSEKKT 68

Query: 64  INGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGTIL 123
           I+ E ++ A+ +LGF SY+  +K  LQ+ +      +  +  +      E+         
Sbjct: 69  ISPEHVIQALESLGFGSYISEVKEVLQECKTVALKRRKASSRLENLGIPEE--------- 119

Query: 124 EQQNGQNETIAKDARE 139
           E    Q E  AK  ++
Sbjct: 120 ELLRQQQELFAKARQQ 135

>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 =  106 bits (266), Expect = 2e-28
 Identities = 30/78 (38%), Positives = 48/78 (61%)

Query: 130 NETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPL 189
           N  +A DARE V  C +EFI  I+SEA++ C+  ++KTI+ E ++ A+ +LGF SY+  +
Sbjct: 31  NVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALESLGFGSYISEV 90

Query: 190 KIYLQKYREATKGEKFIS 207
           K  LQ+ +      +  S
Sbjct: 91  KEVLQECKTVALKRRKAS 108

>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 = 86.8 bits (214), Expect = 6e-21
 Identities = 20/58 (34%), Positives = 36/58 (62%)

Query: 205 FISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKS 262
           FI  I+SEA++ C+  ++KTI+ E ++ A+ +LGF SY+  +K  LQ+ +      + 
Sbjct: 49  FIHLISSEANEICNKSEKKTISPEHVIQALESLGFGSYISEVKEVLQECKTVALKRRK 106

>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 = 85.8 bits (213), Expect = 7e-22
 Identities = 24/67 (35%), Positives = 33/67 (49%), Gaps = 2/67 (2%)

Query: 10 LPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDI 69
          LPIA + +I+K A  E  +++ DAR  + + + E    I SEA        RKTI  EDI
Sbjct: 3  LPIAPIGRIIKNAGAE--RVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDI 60

Query: 70 LFAMSAL 76
            A    
Sbjct: 61 ELARKMF 67

>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 = 67.3 bits (165), Expect = 6e-15
 Identities = 17/50 (34%), Positives = 22/50 (44%)

Query: 131 ETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL 180
           E ++ DAR  + + + E    I SEA        RKTI  EDI  A    
Sbjct: 18  ERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARKMF 67

>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 = 50.0 bits (120), Expect = 1e-08
 Identities = 13/35 (37%), Positives = 14/35 (40%)

Query: 203 EKFISFITSEASDRCHLEKRKTINGEDILFAMSAL 237
           E+    I SEA        RKTI  EDI  A    
Sbjct: 33  EEMGEEIASEAVKLAKHAGRKTIKAEDIELARKMF 67

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

 Score = 81.7 bits (202), Expect = 3e-20
 Identities = 20/66 (30%), Positives = 37/66 (56%), Gaps = 2/66 (3%)

Query: 10 LPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDI 69
          LPIA V ++++KA  E  ++++ A + + E + E+   I  +A +      RKT+  EDI
Sbjct: 7  LPIAPVDRLIRKAGAE--RVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDI 64

Query: 70 LFAMSA 75
            A+ +
Sbjct: 65 KLAIKS 70

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

 Score = 63.6 bits (155), Expect = 1e-13
 Identities = 13/49 (26%), Positives = 25/49 (51%)

Query: 131 ETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA 179
           E +++ A + + E + E+   I  +A +      RKT+  EDI  A+ +
Sbjct: 22  ERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIKS 70

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

 Score = 47.4 bits (113), Expect = 1e-07
 Identities = 10/34 (29%), Positives = 17/34 (50%)

Query: 203 EKFISFITSEASDRCHLEKRKTINGEDILFAMSA 236
           E++   I  +A +      RKT+  EDI  A+ +
Sbjct: 37  EEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIKS 70

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

 Score = 58.4 bits (141), Expect = 2e-11
 Identities = 19/65 (29%), Positives = 31/65 (47%), Gaps = 1/65 (1%)

Query: 10 LPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDI 69
          LP+A + KIMK    +   I+ +A     +    FI+ +T  A       KR+T+   DI
Sbjct: 20 LPLARIKKIMK-LDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDI 78

Query: 70 LFAMS 74
            A++
Sbjct: 79 AMAIT 83

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

 Score = 40.3 bits (94), Expect = 5e-05
 Identities = 12/54 (22%), Positives = 24/54 (44%)

Query: 125 QQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS 178
           + +   + I+ +A     +    FI+ +T  A       KR+T+   DI  A++
Sbjct: 30  KLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAIT 83

>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 = 58.2 bits (140), Expect = 8e-11
 Identities = 23/124 (18%), Positives = 52/124 (41%), Gaps = 5/124 (4%)

Query: 5   EQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLE-KRKT 63
             + FLP++ V  IMK +  ++G I  +    + +C   F+  +   A      +   + 
Sbjct: 15  TAETFLPLSRVRTIMKSS-MDTGLITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPGEA 73

Query: 64  INGEDILFAMSA---LGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSG 120
           +  E +   ++    L F   + P KI + +++E  +  +S   +   +   +D  + S 
Sbjct: 74  LKYEHLSQVVNKNKNLEFLLQIVPQKIRVHQFQEMLRLNRSAGSDDDDDDDDDDDEEESE 133

Query: 121 TILE 124
           +  E
Sbjct: 134 SESE 137

>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 = 38.9 bits (90), Expect = 4e-04
 Identities = 11/84 (13%), Positives = 31/84 (36%), Gaps = 4/84 (4%)

Query: 125 QQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLE-KRKTINGEDILFAMSA---L 180
           + +     I  +    + +C   F+  +   A      +   + +  E +   ++    L
Sbjct: 30  KSSMDTGLITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPGEALKYEHLSQVVNKNKNL 89

Query: 181 GFDSYVEPLKIYLQKYREATKGEK 204
            F   + P KI + +++E  +  +
Sbjct: 90  EFLLQIVPQKIRVHQFQEMLRLNR 113

>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 Length = 111

 Score = 45.0 bits (106), Expect = 2e-06
 Identities = 15/83 (18%), Positives = 36/83 (43%), Gaps = 2/83 (2%)

Query: 10 LPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDI 69
          +  + + +I    +     + +DA + V++C   +   I+S+         RKT+   D+
Sbjct: 8  IASSLIKQIFSHYVKT--PVTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADV 65

Query: 70 LFAMSALGFDSYVEPLKIYLQKY 92
             M   G  +   PL + ++++
Sbjct: 66 ELLMRRQGLVTDKMPLHVLVERH 88

>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 Length = 111

 Score = 40.4 bits (94), Expect = 9e-05
 Identities = 14/71 (19%), Positives = 31/71 (43%)

Query: 126 QNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSY 185
            +     + +DA + V++C   +   I+S+         RKT+   D+   M   G  + 
Sbjct: 18  SHYVKTPVTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADVELLMRRQGLVTD 77

Query: 186 VEPLKIYLQKY 196
             PL + ++++
Sbjct: 78  KMPLHVLVERH 88

>1jfi_A Transcription regulator NC2 alpha chain; histone, H2A/H2B, tata-DNA, transcription initiation, NC2, negative cofactor, structural genomics, PSI; 2.62A {Homo sapiens} SCOP: a.22.1.3 Length = 98

 Score = 43.0 bits (101), Expect = 8e-06
 Identities = 15/71 (21%), Positives = 28/71 (39%), Gaps = 3/71 (4%)

Query: 1  MPLREQDRF--LPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHL 58
          MP +++      P A + KIM+    E GK+A      +   +  F+  +  +A      
Sbjct: 1  MPSKKKKYNARFPPARIKKIMQTD-EEIGKVAAAVPVIISRALELFLESLLKKACQVTQS 59

Query: 59 EKRKTINGEDI 69
             KT+    +
Sbjct: 60 RNAKTMTTSHL 70

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	296
1f1e_A	154	Histone fold protein; archaeal histone protein, DN	100.0
1jfi_B	179	DR1 protein, transcription regulator NC2 beta chai	99.96
1jfi_B	179	DR1 protein, transcription regulator NC2 beta chai	99.94
2byk_B	128	Chrac-14; nucleosome sliding, histone fold, DNA-bi	99.94
1n1j_A	93	NF-YB; histone-like PAIR, DNA binding protein; 1.6	99.92
2byk_B	128	Chrac-14; nucleosome sliding, histone fold, DNA-bi	99.86
1n1j_A	93	NF-YB; histone-like PAIR, DNA binding protein; 1.6	99.84
3b0c_W	76	CENP-W, centromere protein W; histone fold, DNA bi	99.79
1b67_A	68	Protein (histone HMFA); DNA binding protein; 1.48A	99.66
3b0c_T	111	CENP-T, centromere protein T; histone fold, DNA bi	99.65
3b0c_W	76	CENP-W, centromere protein W; histone fold, DNA bi	99.61
1f1e_A	154	Histone fold protein; archaeal histone protein, DN	99.6
2byk_A	140	Chrac-16; nucleosome sliding, histone fold, DNA-bi	99.47
2hue_C	84	Histone H4; mini beta sheet, elongated beta sandwh	99.47
1id3_B	102	Histone H4; nucleosome core particle, chromatin, p	99.45
1ku5_A	70	HPHA, archaeal histon; histone fold, DNA binding p	99.45
1n1j_B	97	NF-YC; histone-like PAIR, DNA binding protein; 1.6	99.43
4g92_C	119	HAPE; transcription factor, nucleosome, minor groo	99.42
1b67_A	68	Protein (histone HMFA); DNA binding protein; 1.48A	99.36
1tzy_D	103	Histone H4-VI; histone-fold, tetramer-dimer-dimer,	99.35
2yfw_B	103	Histone H4, H4; cell cycle, kinetochore, centromer	99.33
3b0c_T	111	CENP-T, centromere protein T; histone fold, DNA bi	99.28
2byk_A	140	Chrac-16; nucleosome sliding, histone fold, DNA-bi	99.07
1jfi_A	98	Transcription regulator NC2 alpha chain; histone,	99.06
2jss_A	192	Chimera of histone H2B.1 and histone H2A.Z; histon	99.01
2l5a_A	235	Histone H3-like centromeric protein CSE4, protein	98.96
2hue_C	84	Histone H4; mini beta sheet, elongated beta sandwh	98.95
1id3_B	102	Histone H4; nucleosome core particle, chromatin, p	98.93
4g92_C	119	HAPE; transcription factor, nucleosome, minor groo	98.93
1n1j_B	97	NF-YC; histone-like PAIR, DNA binding protein; 1.6	98.89
1tzy_D	103	Histone H4-VI; histone-fold, tetramer-dimer-dimer,	98.81
1ku5_A	70	HPHA, archaeal histon; histone fold, DNA binding p	98.8
2yfw_B	103	Histone H4, H4; cell cycle, kinetochore, centromer	98.77
2hue_B	77	Histone H3; mini beta sheet, elongated beta sandwh	98.73
1taf_B	70	TFIID TBP associated factor 62; transcription init	98.71
2yfv_A	100	Histone H3-like centromeric protein CSE4; cell cyc	98.48
4dra_A	113	Centromere protein S; DNA binding complex, DNA dam	98.46
3nqj_A	82	Histone H3-like centromeric protein A; alpha helix	98.44
3v9r_A	90	MHF1, uncharacterized protein YOL086W-A; histone f	98.42
3vh5_A	140	CENP-S; histone fold, chromosome segregation, DNA	98.41
1taf_A	68	TFIID TBP associated factor 42; transcription init	98.4
2ly8_A	121	Budding yeast chaperone SCM3; centromere protein,	98.36
3b0b_B	107	CENP-S, centromere protein S; histone fold, DNA bi	98.35
1tzy_C	136	Histone H3; histone-fold, tetramer-dimer-dimer, DN	98.34
3r45_A	156	Histone H3-like centromeric protein A; histone fol	98.3
3nqu_A	140	Histone H3-like centromeric protein A; alpha helix	98.27
1jfi_A	98	Transcription regulator NC2 alpha chain; histone,	98.08
2nqb_C	123	Histone H2A; nucleosome, NCP, chromatin, structura	98.05
2ly8_A	121	Budding yeast chaperone SCM3; centromere protein,	98.04
1tzy_A	129	Histone H2A-IV; histone-fold, tetramer-dimer-dimer	98.02
2f8n_G	120	Core histone macro-H2A.1; nucleosome, NCP, macroh2	97.99
1f66_C	128	Histone H2A.Z; nucleosome, chromatin, histone vari	97.99
1id3_C	131	Histone H2A.1; nucleosome core particle, chromatin	97.98
2f8n_K	149	Histone H2A type 1; nucleosome, NCP, macroh2A, his	97.88
2l5a_A	235	Histone H3-like centromeric protein CSE4, protein	97.84
2jss_A	192	Chimera of histone H2B.1 and histone H2A.Z; histon	97.79
2nqb_D	123	Histone H2B; nucleosome, NCP, chromatin, structura	97.75
1tzy_B	126	Histone H2B; histone-fold, tetramer-dimer-dimer, D	97.7
4dra_A	113	Centromere protein S; DNA binding complex, DNA dam	97.61
4dra_E	84	Centromere protein X; DNA binding complex, DNA dam	97.58
3vh5_A	140	CENP-S; histone fold, chromosome segregation, DNA	97.53
3v9r_A	90	MHF1, uncharacterized protein YOL086W-A; histone f	97.48
3b0b_B	107	CENP-S, centromere protein S; histone fold, DNA bi	97.4
3b0b_C	81	CENP-X, centromere protein X; histone fold, DNA bi	97.39
1h3o_B	76	Transcription initiation factor TFIID 20/15 kDa su	97.0
2yfv_A	100	Histone H3-like centromeric protein CSE4; cell cyc	96.49
1bh9_B	89	TAFII28; histone fold, tata binding protein, trans	96.49
2hue_B	77	Histone H3; mini beta sheet, elongated beta sandwh	96.27
2nqb_D	123	Histone H2B; nucleosome, NCP, chromatin, structura	96.27
1tzy_B	126	Histone H2B; histone-fold, tetramer-dimer-dimer, D	96.2
1taf_B	70	TFIID TBP associated factor 62; transcription init	96.16
1taf_A	68	TFIID TBP associated factor 42; transcription init	96.09
3r45_A	156	Histone H3-like centromeric protein A; histone fol	96.07
3nqu_A	140	Histone H3-like centromeric protein A; alpha helix	96.03
3fes_A	145	ATP-dependent CLP endopeptidase; alpha-helical bun	95.94
1tzy_C	136	Histone H3; histone-fold, tetramer-dimer-dimer, DN	95.88
3fh2_A	146	Probable ATP-dependent protease (heat shock prote;	95.84
3nqj_A	82	Histone H3-like centromeric protein A; alpha helix	95.76
1khy_A	148	CLPB protein; alpha helix, chaperone; 1.95A {Esche	95.17
2y1q_A	150	CLPC N-domain, negative regulator of genetic compe	95.14
1h3o_B	76	Transcription initiation factor TFIID 20/15 kDa su	94.61
2nqb_C	123	Histone H2A; nucleosome, NCP, chromatin, structura	94.34
3v9r_B	88	MHF2, uncharacterized protein YDL160C-A; histone f	94.12
1tzy_A	129	Histone H2A-IV; histone-fold, tetramer-dimer-dimer	94.11
1k6k_A	143	ATP-dependent CLP protease ATP-binding subunit CLP	94.1
1id3_C	131	Histone H2A.1; nucleosome core particle, chromatin	93.77
1f66_C	128	Histone H2A.Z; nucleosome, chromatin, histone vari	93.72
3zri_A	171	CLPB protein, CLPV; chaperone, HSP100 proteins, AA	93.68
2f8n_G	120	Core histone macro-H2A.1; nucleosome, NCP, macroh2	93.52
2f8n_K	149	Histone H2A type 1; nucleosome, NCP, macroh2A, his	93.15
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	92.03
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	90.63
4dra_E	84	Centromere protein X; DNA binding complex, DNA dam	87.44
1bh9_B	89	TAFII28; histone fold, tata binding protein, trans	87.08
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	84.7
3b0b_C	81	CENP-X, centromere protein X; histone fold, DNA bi	83.44
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	80.2

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

Probab=100.00  E-value=5.5e-33  Score=239.46  Aligned_cols=140  Identities=19%  Similarity=0.290  Sum_probs=130.2

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHH
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIY   88 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~   88 (296)
                      +||+|+|.||||++||. .+||+||++++++|+++|+++|+++|++.|.++|||||+++||++||..|||++|++.    
T Consensus         4 ~LP~a~V~Riik~~lg~-~rVS~dA~~~l~~~l~~f~~~i~~~A~~~a~ha~RKTv~a~DV~~a~~~lg~~~v~d~----   78 (154)
T 1f1e_A            4 ELPKAAIERIFRQGIGE-RRLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHLKALADVLMVEGVEDY----   78 (154)
T ss_dssp             CCCHHHHHHHHHTTSTT-CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHHHHTCTTSTTC----
T ss_pred             cCCccHHHHHHHhcCCc-cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHhcccccCCcc----
Confidence            89999999999999988 8999999999999999999999999999999999999999999999999999987431    


Q ss_pred             HHHHHHHhccccccchhhhhhhhhhhh--cc-chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCC
Q psy3459          89 LQKYREATKGEKSVNCEVYQEISVEDV--FQ-SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKR  165 (296)
Q Consensus        89 L~~~re~~k~kk~~~~e~~~~~~~e~L--f~-~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kR  165 (296)
                                              ++|  +. ++.|++++.  +..+||+||++.+++|..+|+.+|+++|+++|+..+|
T Consensus        79 ------------------------~~l~lP~a~V~Ri~k~~--g~~RVS~~A~~~l~~~le~f~~~I~~~A~~~a~ha~R  132 (154)
T 1f1e_A           79 ------------------------DGELFGRATVRRILKRA--GIERASSDAVDLYNKLICRATEELGEKAAEYADEDGR  132 (154)
T ss_dssp             ------------------------CSCCCCHHHHHHHHHHT--TCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             ------------------------ccccCCccHHHHHHHHc--CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence                                    233  22 558899887  7789999999999999999999999999999999999


Q ss_pred             CcccchhHhhchhh
Q psy3459         166 KTINGEDILFAMSA  179 (296)
Q Consensus       166 KTI~~eDVl~AL~~  179 (296)
                      |||+++||++||+.
T Consensus       133 KTIt~eDV~~Al~~  146 (154)
T 1f1e_A          133 KTVQGEDVEKAITY  146 (154)
T ss_dssp             SEECHHHHHHHHHH
T ss_pred             CccCHHHHHHHHHh
Confidence            99999999999975

>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=99.96  E-value=2.3e-29  Score=221.39  Aligned_cols=130  Identities=28%  Similarity=0.498  Sum_probs=109.9

Q ss_pred             CccccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchH
Q psy3459           4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVE   83 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~   83 (296)
                      .++|+.||+|+|.||||++|| +++||+||+++|++||++||+|||++|+++|.+++||||+++||++||++|||++|++
T Consensus        10 ~~eD~~LP~A~V~RImK~alp-~~rISkDA~~al~ec~~eFI~~LtseA~e~a~~~~RKTI~~eDVl~Al~~LgF~~fv~   88 (179)
T 1jfi_B           10 NDDDLTIPRAAINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALESLGFGSYIS   88 (179)
T ss_dssp             --CCCCCCHHHHHHHHHHHST-TCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHTTGGGHH
T ss_pred             chhhhhcCHHHHHHHHHHhCC-ccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHhcChHHHHH
Confidence            468999999999999999999 8999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcccccc---------chhhhhhhhhhhhccchhhh-hhhcCCCccccch
Q psy3459          84 PLKIYLQKYREATKGEKSV---------NCEVYQEISVEDVFQSSGTI-LEQQNGQNETIAK  135 (296)
Q Consensus        84 ~l~~~L~~~re~~k~kk~~---------~~e~~~~~~~e~Lf~~s~ri-mk~~lp~~~~isk  135 (296)
                      +|+.+|..||+..+.|+++         +.|.+..++ ++||+.++.. +..+.++...+..
T Consensus        89 ~lk~~L~~yre~~~~kkr~~~K~~~sg~~~Eel~~~Q-qelf~~Ar~~~~~~~~~~~~~~~~  149 (179)
T 1jfi_B           89 EVKEVLQECKTVALKRRKASSRLENLGIPEEELLRQQ-QELFAKARQQQAELAQQEWLQMQQ  149 (179)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSSSCHHHHHHHH-HHHHHHHHHHHHHHHHHHTTC---
T ss_pred             HHHHHHHHHHHHHHhCccccchhhccCCCHHHHHHHH-HHHHHHHHHHHHHHHhhHHHHHHH
Confidence            9999999999998887764         445555555 7888877444 4444555555544

>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=99.94  E-value=1.1e-27  Score=210.72  Aligned_cols=116  Identities=29%  Similarity=0.460  Sum_probs=101.7

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchHHHHHHHHHHH
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYR  197 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~~l~~~L~~~r  197 (296)
                      .+.|+||..+| +++||+||+++|++||++||+|||++||++|..++||||+++||++||++|||++|+++|+.+|+.||
T Consensus        20 ~V~RImK~alp-~~rISkDA~~al~ec~~eFI~~LtseA~e~a~~~~RKTI~~eDVl~Al~~LgF~~fv~~lk~~L~~yr   98 (179)
T 1jfi_B           20 AINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALESLGFGSYISEVKEVLQECK   98 (179)
T ss_dssp             HHHHHHHHHST-TCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHTTGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCC-ccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHhcChHHHHHHHHHHHHHHH
Confidence            55999999999 99999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcccccccccccchhhhhhHHHhhhhchhhHHHHhhhcC
Q psy3459         198 EATKGEKFISFITSEASDRCHLEKRKTINGEDILFAMSALG  238 (296)
Q Consensus       198 e~~k~kk~~~~~~se~~~r~~~e~~~~~~~qe~lf~~a~~~  238 (296)
                      +..+.|+..+.. .+   ...+..++++++|++||++||..
T Consensus        99 e~~~~kkr~~~K-~~---~sg~~~Eel~~~Qqelf~~Ar~~  135 (179)
T 1jfi_B           99 TVALKRRKASSR-LE---NLGIPEEELLRQQQELFAKARQQ  135 (179)
T ss_dssp             HHHHHHHHHHHH-HH---HSSSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhCccccch-hh---ccCCCHHHHHHHHHHHHHHHHHH
Confidence            988765433211 00   02234589999999999999975

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

Probab=99.94  E-value=4.5e-27  Score=197.05  Aligned_cols=102  Identities=35%  Similarity=0.558  Sum_probs=88.2

Q ss_pred             CCCCccccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCc
Q psy3459           1 MPLREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDS   80 (296)
Q Consensus         1 m~~~~~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~   80 (296)
                      |+.+++|+.||+|+|.||||+++|++.+||+||+.+|++||++||+|||++|+++|.+++||||+++||++||+.+||.+
T Consensus         1 m~e~~~d~~LP~A~I~rImK~~~pd~~~iS~dA~~~l~ka~e~FI~~lt~~A~~~a~~~kRKTI~~~Dv~~Al~~l~f~~   80 (128)
T 2byk_B            1 MVERIEDLNLPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLTELDFES   80 (128)
T ss_dssp             ----------CCSHHHHHHHHHSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHTTCTT
T ss_pred             CCCccccccCCHHHHHHHHHHhCcccceECHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHHcCcHH
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHHHhcccccc
Q psy3459          81 YVEPLKIYLQKYREATKGEKSV  102 (296)
Q Consensus        81 yv~~l~~~L~~~re~~k~kk~~  102 (296)
                      |+++|+.+|..||+..+.|+..
T Consensus        81 fl~~lk~~l~~yr~~~~~kk~~  102 (128)
T 2byk_B           81 FVPSLTQDLEVYRKVVKEKKES  102 (128)
T ss_dssp             THHHHHHHHHHHHHHHTTC---
T ss_pred             HHHHHHHHHHHHHHHHHhhhhh
Confidence            9999999999999999988865

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

Probab=99.92  E-value=1.9e-25  Score=176.94  Aligned_cols=92  Identities=86%  Similarity=1.330  Sum_probs=85.8

Q ss_pred             CCccccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcch
Q psy3459           3 LREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYV   82 (296)
Q Consensus         3 ~~~~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv   82 (296)
                      ++++|+.||+|+|.||||+.+|++.+||+||+.++++|+++||++|+++|++.|.+++||||+++||..|++.+||.+|+
T Consensus         2 ~~~~d~~LP~a~i~ri~K~~~~~~~~is~dA~~~l~~a~e~Fi~~l~~~A~~~a~~~kRkTI~~~Dv~~Al~~l~F~~~i   81 (93)
T 1n1j_A            2 FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMSTLGFDSYV   81 (93)
T ss_dssp             -----CCCCHHHHHHHHHHTSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHTTCGGGH
T ss_pred             CCcccccCChhHHHHHHHHhCCccceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHHcCcHhhH
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy3459          83 EPLKIYLQKYRE   94 (296)
Q Consensus        83 ~~l~~~L~~~re   94 (296)
                      ++++.+|++||+
T Consensus        82 ~~~~~~l~~~r~   93 (93)
T 1n1j_A           82 EPLKLYLQKFRE   93 (93)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhC
Confidence            999999999984

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

Probab=99.86  E-value=4.1e-22  Score=166.94  Aligned_cols=89  Identities=29%  Similarity=0.487  Sum_probs=83.5

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchHHHHHHHHHHH
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYR  197 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~~l~~~L~~~r  197 (296)
                      .+.|+||..+|++.+||+||+.+|++||++||+|||++|+++|..++||||+++||++||+.+||.+|+++|+.+|..||
T Consensus        14 ~I~rImK~~~pd~~~iS~dA~~~l~ka~e~FI~~lt~~A~~~a~~~kRKTI~~~Dv~~Al~~l~f~~fl~~lk~~l~~yr   93 (128)
T 2byk_B           14 VIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLTELDFESFVPSLTQDLEVYR   93 (128)
T ss_dssp             HHHHHHHHHSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHTTCTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcccceECHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHHcCcHHHHHHHHHHHHHHH
Confidence            45889998999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcccccc
Q psy3459         198 EATKGEKFI  206 (296)
Q Consensus       198 e~~k~kk~~  206 (296)
                      +..+.||..
T Consensus        94 ~~~~~kk~~  102 (128)
T 2byk_B           94 KVVKEKKES  102 (128)
T ss_dssp             HHHTTC---
T ss_pred             HHHHhhhhh
Confidence            999887654

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

Probab=99.84  E-value=3.2e-21  Score=152.63  Aligned_cols=81  Identities=77%  Similarity=1.169  Sum_probs=78.6

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchHHHHHHHHHHH
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYR  197 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~~l~~~L~~~r  197 (296)
                      .+.|+||..+|++.+||+||+.++++||.+||+||+++|++.|..++||||+++||++||+.|||.+|++|++.+|++||
T Consensus        13 ~i~ri~K~~~~~~~~is~dA~~~l~~a~e~Fi~~l~~~A~~~a~~~kRkTI~~~Dv~~Al~~l~F~~~i~~~~~~l~~~r   92 (93)
T 1n1j_A           13 NVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMSTLGFDSYVEPLKLYLQKFR   92 (93)
T ss_dssp             HHHHHHHHTSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHTTCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCccceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHHcCcHhhHHHHHHHHHHHh
Confidence            55999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             H
Q psy3459         198 E  198 (296)
Q Consensus       198 e  198 (296)
                      +
T Consensus        93 ~   93 (93)
T 1n1j_A           93 E   93 (93)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.79  E-value=1.1e-19  Score=139.20  Aligned_cols=68  Identities=25%  Similarity=0.294  Sum_probs=63.7

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA   75 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~   75 (296)
                      ...||+|+|.||||+++| +++||+||+++|++|+++||++||++|++.|.+++||||+++||+.|++.
T Consensus         2 ~~~LP~A~V~rI~K~~~p-~~~is~~A~~~i~~~~~~Fi~~la~eA~~~a~~~~rKTI~~~dI~~A~~~   69 (76)
T 3b0c_W            2 RRTVPRGTLRKIIKKHKP-HLRLAANTDLLVHLSFLLFLHRLAEEARTNAFENKSKIIKPEHTIAAAKV   69 (76)
T ss_dssp             --CCCHHHHHHHHHHHCT-TCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHHH
T ss_pred             CCcccccHHHHHHHHhCC-CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            468999999999999999 58999999999999999999999999999999999999999999999854

>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=99.66  E-value=1.6e-16  Score=118.49  Aligned_cols=66  Identities=35%  Similarity=0.447  Sum_probs=63.6

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhc
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL   76 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~l   76 (296)
                      .||+++|.||||+.  ++.+||+||..+|++|++.|+.+|+.+|+..|.+++||||+++||..|++.|
T Consensus         2 ~lP~a~v~Ri~k~~--~~~ris~~A~~~l~~a~e~fi~~l~~~A~~~a~~~kRkTI~~~Di~~A~~~l   67 (68)
T 1b67_A            2 ELPIAPIGRIIKNA--GAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARKMF   67 (68)
T ss_dssp             CSCHHHHHHHHHHT--TCSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHGGGG
T ss_pred             CCCccHHHHHHhcC--CcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHhc
Confidence            69999999999999  6689999999999999999999999999999999999999999999999876

>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=99.65  E-value=2.1e-16  Score=129.39  Aligned_cols=89  Identities=18%  Similarity=0.300  Sum_probs=79.0

Q ss_pred             ccccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHH
Q psy3459           5 EQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEP   84 (296)
Q Consensus         5 ~~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~   84 (296)
                      .+|..||+++|.||+|..  +..+||+|+.+++.+++.+|+..|+..|..+|+|+|||||+++||..||+..|+..|..+
T Consensus         3 ~~d~~lP~a~I~Ri~r~~--g~~rIS~~a~~~l~e~l~~f~~~v~~da~~~A~HA~RKTV~~eDV~lalrr~g~~~~~~~   80 (111)
T 3b0c_T            3 TREPEIASSLIKQIFSHY--VKTPVTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADVELLMRRQGLVTDKMP   80 (111)
T ss_dssp             -------CHHHHHHHHHH--HCSCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHTTSSBTTBC
T ss_pred             CCCCCCCHHHHHHHHHHC--CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHHCCCcccccc
Confidence            578899999999999999  778999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHH--HHH
Q psy3459          85 LKIYLQKY--REA   95 (296)
Q Consensus        85 l~~~L~~~--re~   95 (296)
                      +...+++|  ++.
T Consensus        81 l~~l~~~~lp~E~   93 (111)
T 3b0c_T           81 LHVLVERHLPLEY   93 (111)
T ss_dssp             HHHHHHHHSCHHH
T ss_pred             HHHHHHHhCcHHH
Confidence            99999998  553

>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=99.61  E-value=3.1e-16  Score=119.92  Aligned_cols=62  Identities=18%  Similarity=0.210  Sum_probs=58.2

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhc
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL  180 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~L  180 (296)
                      .+.|+||+.+| +++||+||+++|++|+.+||++|+++|++.|..++||||+++||++|++.|
T Consensus         9 ~V~rI~K~~~p-~~~is~~A~~~i~~~~~~Fi~~la~eA~~~a~~~~rKTI~~~dI~~A~~~l   70 (76)
T 3b0c_W            9 TLRKIIKKHKP-HLRLAANTDLLVHLSFLLFLHRLAEEARTNAFENKSKIIKPEHTIAAAKVI   70 (76)
T ss_dssp             HHHHHHHHHCT-TCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCC-CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            45888888888 799999999999999999999999999999999999999999999998764

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

Probab=99.60  E-value=5.3e-16  Score=133.66  Aligned_cols=72  Identities=15%  Similarity=0.244  Sum_probs=67.7

Q ss_pred             hccchhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchH
Q psy3459         115 VFQSSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVE  187 (296)
Q Consensus       115 Lf~~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~  187 (296)
                      ..+++.|+||+.+|. .+||+||++++++|+++|+++|+++|+++|+..|||||+++||++||..|||++|++
T Consensus         6 P~a~V~Riik~~lg~-~rVS~dA~~~l~~~l~~f~~~i~~~A~~~a~ha~RKTv~a~DV~~a~~~lg~~~v~d   77 (154)
T 1f1e_A            6 PKAAIERIFRQGIGE-RRLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHLKALADVLMVEGVED   77 (154)
T ss_dssp             CHHHHHHHHHTTSTT-CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHHHHTCTTSTT
T ss_pred             CccHHHHHHHhcCCc-cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHhcccccCCc
Confidence            344679999999887 999999999999999999999999999999999999999999999999999999876

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

Probab=99.47  E-value=1.3e-14  Score=123.28  Aligned_cols=97  Identities=19%  Similarity=0.323  Sum_probs=61.7

Q ss_pred             ccccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHH-HhcCCCccCcccHHHHhhhcCCCcchH
Q psy3459           5 EQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRC-HLEKRKTINGEDILFAMSALGFDSYVE   83 (296)
Q Consensus         5 ~~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a-~~~~RKTI~~eDVl~AL~~lgF~~yv~   83 (296)
                      ..++.||.|.|.||||.. |+..+||++|..++.+|++.||.+|+..|+..| ...+||||++.||..|+...+.-+|..
T Consensus        15 ~~~~~LPlaRIKrIMK~d-pdv~~Is~eA~vliakA~ElFI~~Lt~~A~~~a~~~~kRKtI~~~Dl~~AV~~~e~~dFL~   93 (140)
T 2byk_A           15 TAETFLPLSRVRTIMKSS-MDTGLITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPGEALKYEHLSQVVNKNKNLEFLL   93 (140)
T ss_dssp             --------------CCSS-SSCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCEECHHHHHHHHHTCSTTGGGT
T ss_pred             ccCCCCCHHHHHHHHhcC-cccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccCHHHHHHHHhcCchhhhHh
Confidence            356789999999999987 888899999999999999999999999999999 999999999999999998655544444


Q ss_pred             ---HHHHHHHHHHHHhcccccc
Q psy3459          84 ---PLKIYLQKYREATKGEKSV  102 (296)
Q Consensus        84 ---~l~~~L~~~re~~k~kk~~  102 (296)
                         |.+..+..|++..+.+++.
T Consensus        94 divP~ki~l~~~~~~~~~~~~~  115 (140)
T 2byk_A           94 QIVPQKIRVHQFQEMLRLNRSA  115 (140)
T ss_dssp             TTSCSCC---------------
T ss_pred             ccccchhhHHHHHHHHHhcccc
Confidence               8899999999988876655

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

Probab=99.47  E-value=5.4e-14  Score=109.52  Aligned_cols=76  Identities=17%  Similarity=0.288  Sum_probs=70.7

Q ss_pred             CccccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcc
Q psy3459           4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSY   81 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~y   81 (296)
                      ++....||+++|.||++..  +..+||+|+.+.++++++.|+..|+.+|...|+|++||||+++||..||+.+|++-|
T Consensus         5 r~~~~~ip~~~I~Riar~~--Gv~rIs~da~~~l~~~l~~~~~~I~~dA~~~a~ha~RKTvt~~DV~~Alk~~g~~lY   80 (84)
T 2hue_C            5 RDNIQGITKPAIRRLARRG--GVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLY   80 (84)
T ss_dssp             GGGCCSSCHHHHHHHHHHT--TCCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTTCEEEE
T ss_pred             cccCCCCCHHHHHHHHHHc--CchhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHcCCCCC
Confidence            5566789999999999988  447999999999999999999999999999999999999999999999999998755

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

Probab=99.45  E-value=1.2e-13  Score=111.34  Aligned_cols=76  Identities=17%  Similarity=0.307  Sum_probs=70.2

Q ss_pred             CccccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcc
Q psy3459           4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSY   81 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~y   81 (296)
                      ++....||+++|.||++..  +..+||.|+.+.+++++++|+..|+.+|..+|+|++||||+++||..||+.+|+.-|
T Consensus        23 r~~i~~ip~~~I~Rlar~~--Gv~rIS~da~~~l~~~le~fi~~I~~dA~~~a~HakRKTVt~~DV~~ALkr~g~~lY   98 (102)
T 1id3_B           23 RDNIQGITKPAIRRLARRG--GVKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALKRQGRTLY   98 (102)
T ss_dssp             -CCGGGSCHHHHHHHHHHT--TCCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHTTCCEE
T ss_pred             HhccCCCCHHHHHHHHHHc--CchhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHcCCCCC
Confidence            4556689999999999998  447999999999999999999999999999999999999999999999999998765

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

Probab=99.45  E-value=1.6e-13  Score=103.09  Aligned_cols=64  Identities=30%  Similarity=0.449  Sum_probs=61.7

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .||+++|.||+|+.  +..+||+++..++++++..|+..|+..|+..|.|+|||||+++||..|++
T Consensus         6 ~lp~a~v~Rl~r~~--g~~ris~~a~~~l~e~~~~~~~~v~~dA~~~a~hakRkTI~~~DV~lA~~   69 (70)
T 1ku5_A            6 ELPIAPVDRLIRKA--GAERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIK   69 (70)
T ss_dssp             CSCHHHHHHHHHHT--TCSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHT
T ss_pred             cCChHHHHHHHHHc--CcceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence            79999999999997  67899999999999999999999999999999999999999999999985

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

Probab=99.43  E-value=1.8e-13  Score=109.16  Aligned_cols=79  Identities=24%  Similarity=0.270  Sum_probs=68.8

Q ss_pred             CccccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchH
Q psy3459           4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVE   83 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~   83 (296)
                      ...+..||.|.|.||||.. |+..+||.||..++.+|++.||.+|+..|+..|.+++||||+++||..|++..++.+|..
T Consensus        14 ~~~~~~lP~arIkrImK~~-~~~~~is~eA~~~laka~E~Fi~~l~~~A~~~a~~~krktI~~~di~~Av~~~e~~~FL~   92 (97)
T 1n1j_B           14 DFRVQELPLARIKKIMKLD-EDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAITKFDQFDFLI   92 (97)
T ss_dssp             ------CCHHHHHHHHTTS-TTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTCGGGGGGT
T ss_pred             CcCCCcCCHHHHHHHHccC-ccccccChHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCHHHHHHHHhcCcHHHHHH
Confidence            4456789999999999987 776799999999999999999999999999999999999999999999999888877754

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

Probab=99.42  E-value=2.4e-13  Score=112.26  Aligned_cols=76  Identities=28%  Similarity=0.334  Sum_probs=68.7

Q ss_pred             cccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcch
Q psy3459           6 QDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYV   82 (296)
Q Consensus         6 ~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv   82 (296)
                      .+..||.|.|.||||.. |+..+||+||..++.+|++.||.+|+..|+..|..++||||+++||..|++..+.-+|.
T Consensus        38 k~~~lPvaRIkrImK~d-~~~~~is~eA~v~la~a~E~Fi~~L~~~A~~~a~~~krktI~~~di~~Av~~~e~~dFL  113 (119)
T 4g92_C           38 KIHQLPLARIKKVMKAD-PEVKMISAEAPILFAKGCDVFITELTMRAWIHAEDNKRRTLQRSDIAAALSKSDMFDFL  113 (119)
T ss_dssp             SCCSSCHHHHHHHHHTS-TTCCEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTCGGGGGG
T ss_pred             ccCCCCHHHHHHHHhhC-CccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccCHHHHHHHHhcCchhhHH
Confidence            34579999999999965 88899999999999999999999999999999999999999999999999876644443

>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=5.9e-13  Score=99.14  Aligned_cols=61  Identities=31%  Similarity=0.379  Sum_probs=57.5

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhc
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL  180 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~L  180 (296)
                      ...|+|++.  ++.+||+||..++++|+.+||.+|+++||..|...+||||+++||..|++.|
T Consensus         7 ~v~Ri~k~~--~~~ris~~A~~~l~~a~e~fi~~l~~~A~~~a~~~kRkTI~~~Di~~A~~~l   67 (68)
T 1b67_A            7 PIGRIIKNA--GAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARKMF   67 (68)
T ss_dssp             HHHHHHHHT--TCSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHGGGG
T ss_pred             HHHHHHhcC--CcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHhc
Confidence            457888877  7899999999999999999999999999999999999999999999999987

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

Probab=99.35  E-value=1.4e-12  Score=105.11  Aligned_cols=76  Identities=17%  Similarity=0.268  Sum_probs=70.1

Q ss_pred             CccccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcc
Q psy3459           4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSY   81 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~y   81 (296)
                      ++.+..||.++|.||++..-.  .+||.|+.+.++.+++.|+..|+.+|...|++++||||+++||..||+.+|++-|
T Consensus        24 r~~~~gip~~~I~Rlar~~G~--~rIs~~a~~~l~~vle~~~~~V~~dA~~~a~hakRktIt~~DV~~Alr~~g~~lY   99 (103)
T 1tzy_D           24 RDNIQGITKPAIRRLARRGGV--KRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLY   99 (103)
T ss_dssp             CCGGGGSCHHHHHHHHHHTTC--CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHTTCEEE
T ss_pred             hhhcccCCHHHHHHHHHHcCc--cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHHcCCCCc
Confidence            455667999999999999843  6999999999999999999999999999999999999999999999999998755

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

Probab=99.33  E-value=1.6e-12  Score=104.85  Aligned_cols=76  Identities=18%  Similarity=0.299  Sum_probs=63.8

Q ss_pred             CccccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcc
Q psy3459           4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSY   81 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~y   81 (296)
                      ++....||+++|.||++..-  ..+||.|+.+.+..+++.|+..|+.+|...|++++||||+++||..||+.+|++-|
T Consensus        24 r~~~~gip~~~I~Rlar~~G--~~rIs~~a~~~l~~vle~~~~~V~~dA~~~a~hakRktvt~~DV~~Alr~~g~~lY   99 (103)
T 2yfw_B           24 RDNIQGITKPAIRRLARRGG--VKRISGLIYEEVRNVLKTFLESVIRDAVTYTEHAKRKTVTSLDVVYALKRQGRTLY   99 (103)
T ss_dssp             ------CCHHHHHHHHHHTT--CCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHC----
T ss_pred             hhhhccCCHHHHHHHHHHcC--ccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHcCCCCc
Confidence            44556799999999999984  36999999999999999999999999999999999999999999999999998755

>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=99.28  E-value=4.5e-12  Score=103.65  Aligned_cols=79  Identities=20%  Similarity=0.339  Sum_probs=73.5

Q ss_pred             hhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchHHHHHHHHHH--H
Q psy3459         120 GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKY--R  197 (296)
Q Consensus       120 ~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~~l~~~L~~~--r  197 (296)
                      +|+++..  ...+||+|+.+++.+|+.+|+..|+..|..+|+..|||||+++||+.||+..|+..|..++..++++|  +
T Consensus        14 ~Ri~r~~--g~~rIS~~a~~~l~e~l~~f~~~v~~da~~~A~HA~RKTV~~eDV~lalrr~g~~~~~~~l~~l~~~~lp~   91 (111)
T 3b0c_T           14 KQIFSHY--VKTPVTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADVELLMRRQGLVTDKMPLHVLVERHLPL   91 (111)
T ss_dssp             HHHHHHH--HCSCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHTTSSBTTBCHHHHHHHHSCH
T ss_pred             HHHHHHC--CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHHCCCccccccHHHHHHHhCcH
Confidence            6677665  67999999999999999999999999999999999999999999999999999999999999999999  5


Q ss_pred             HHh
Q psy3459         198 EAT  200 (296)
Q Consensus       198 e~~  200 (296)
                      |..
T Consensus        92 E~~   94 (111)
T 3b0c_T           92 EYR   94 (111)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

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

Probab=99.07  E-value=4.7e-11  Score=101.29  Aligned_cols=87  Identities=15%  Similarity=0.219  Sum_probs=61.3

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHh-hhcCCCcccchhHhhchhh---cCCccchHHHHHHH
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRC-HLEKRKTINGEDILFAMSA---LGFDSYVEPLKIYL  193 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c-~~~kRKTI~~eDVl~AL~~---LgF~~yv~~l~~~L  193 (296)
                      .+.+|||.. |+..+||++|..+|++|+..||.+|+..|...| ...+||||+++||.+|+..   |+|-.++-|.+..+
T Consensus        24 RIKrIMK~d-pdv~~Is~eA~vliakA~ElFI~~Lt~~A~~~a~~~~kRKtI~~~Dl~~AV~~~e~~dFL~divP~ki~l  102 (140)
T 2byk_A           24 RVRTIMKSS-MDTGLITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPGEALKYEHLSQVVNKNKNLEFLLQIVPQKIRV  102 (140)
T ss_dssp             -----CCSS-SSCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCEECHHHHHHHHHTCSTTGGGTTTSCSCC--
T ss_pred             HHHHHHhcC-cccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccCHHHHHHHHhcCchhhhHhccccchhhH
Confidence            346777654 888999999999999999999999999999999 9999999999999999985   55555555889999


Q ss_pred             HHHHHHhccccc
Q psy3459         194 QKYREATKGEKF  205 (296)
Q Consensus       194 ~~~re~~k~kk~  205 (296)
                      ..|++..+.++.
T Consensus       103 ~~~~~~~~~~~~  114 (140)
T 2byk_A          103 HQFQEMLRLNRS  114 (140)
T ss_dssp             ------------
T ss_pred             HHHHHHHHhccc
Confidence            999988776543

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

Probab=99.06  E-value=1.5e-10  Score=92.49  Aligned_cols=76  Identities=18%  Similarity=0.225  Sum_probs=59.7

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchH
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVE   83 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~   83 (296)
                      ...||.+.|.||||. -|+..+||.+|..++.++++.|+.+|+..|...|.+.+||||+++||..|++.-+.-+|..
T Consensus         9 ~~~fPvaRIkrimK~-~~~~~~vs~~A~v~la~a~E~Fi~el~~~A~~~a~~~krktI~~~di~~av~~~e~l~FL~   84 (98)
T 1jfi_A            9 NARFPPARIKKIMQT-DEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQCIELEGDPAANK   84 (98)
T ss_dssp             -CCCCHHHHHHHHTT-STTCCCBCTTHHHHHHHHHHHHHHHHHHHHHHHHHTC---CBCHHHHHTTCC---------
T ss_pred             CCCCChHHHHHHHHc-CccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHhcCchhhHHH
Confidence            467999999999996 4666799999999999999999999999999999999999999999999998765555544

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

Probab=99.01  E-value=7.1e-09  Score=91.78  Aligned_cols=159  Identities=15%  Similarity=0.183  Sum_probs=121.2

Q ss_pred             hHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHH----HHHH
Q psy3459          13 ANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEP----LKIY   88 (296)
Q Consensus        13 A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~----l~~~   88 (296)
                      .-|+|++|+.-|+ ..||.+|...|...+..+..-|+.+|...+...+|+||++.||..|++-+==++....    ....
T Consensus         7 ~yi~kvLkqv~p~-~~iS~~Am~~m~s~v~di~~rIa~eA~~L~~~~~r~Tit~~eIq~Avrl~lpgeLak~Av~eG~kA   85 (192)
T 2jss_A            7 SYIYKVLKQTHPD-TGISQKSMSILNSFVNDIFERIATEASKLAAYNKKSTISAREIQTAVRLILPGELAKHAVSEGTRA   85 (192)
T ss_dssp             HHHHHHHHHHCSS-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCSCCHHHHHHHHHHHSCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHcccCCC-CCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            4689999999886 6899999999999999999999999999999999999999999999875433333222    2222


Q ss_pred             HHHHHHHhccccccchhhhhhhhhhhhcc--chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCC
Q psy3459          89 LQKYREATKGEKSVNCEVYQEISVEDVFQ--SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRK  166 (296)
Q Consensus        89 L~~~re~~k~kk~~~~e~~~~~~~e~Lf~--~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRK  166 (296)
                      +..|...   ++.+..-.-.+    -.|+  ...|+|+.......+|+.+|...+..+.-.++.-|...|...|...+|+
T Consensus        86 v~k~~~s---k~~~s~s~rag----l~fPv~ri~R~lk~~~~a~~Rv~~~A~vyLaavLEyl~~eIlelA~n~a~~~~~~  158 (192)
T 2jss_A           86 VTKYSSS---TQAQSSSARAG----LQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNAAKDLKVK  158 (192)
T ss_dssp             HHHHHHH---CSSSCHHHHSS----CCSCHHHHHHHHHHTTCSSCCCCTTTHHHHHHHHHHHHHHHHHHHHHHHHHHTCS
T ss_pred             HHhhccc---cccccccccCC----CcCCHHHHHHHHHhcCccccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            3333322   11111111112    2255  3477887754444699999999999999999999999999999999999


Q ss_pred             cccchhHhhchhh
Q psy3459         167 TINGEDILFAMSA  179 (296)
Q Consensus       167 TI~~eDVl~AL~~  179 (296)
                      +|+|+||-.|+..
T Consensus       159 ~I~p~~i~lAi~n  171 (192)
T 2jss_A          159 RITPRHLQLAIRG  171 (192)
T ss_dssp             SCCHHHHHHHHHT
T ss_pred             ccCHHHHHHHHhc
Confidence            9999999998763

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

Probab=98.96  E-value=4.3e-09  Score=95.81  Aligned_cols=173  Identities=17%  Similarity=0.186  Sum_probs=121.9

Q ss_pred             ccCCchhHHHHHHHhhCCC------CCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCc
Q psy3459           7 DRFLPIANVAKIMKKAIPE------SGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDS   80 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~------~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~   80 (296)
                      -+.+|+.+..|++++...+      +.+++..|..+||++++.|+--|-..+|-.|.+++|-||.+.|+-.|..--|-..
T Consensus         9 ~~lI~KlPFqRLVREIaq~~~~~~~~lRfqs~Al~ALQEAaEayLV~LFEd~nLcaiHAkRVTim~kDiqLarrirg~~~   88 (235)
T 2l5a_A            9 KLLISKIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKRITIMKKDMQLARRIRGQFL   88 (235)
T ss_dssp             --CCSCCHHHHHHHHHHHTSCGGGTTCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHSTTTSGGGTTHHHHHHTSSCSCC
T ss_pred             cccccCccHHHHHHHHHHHhccCCccceecHHHHHHHHHHHHHHHHHHHhhhHHHHhcccccccchhhHHHHHHHhhccC
Confidence            4678999999999987642      5799999999999999999999999999999999999999999988876554221


Q ss_pred             ---------------chHHHHHHHHHHHHHhc-ccccc--------chhhhhhhh---------------hhhhccch-h
Q psy3459          81 ---------------YVEPLKIYLQKYREATK-GEKSV--------NCEVYQEIS---------------VEDVFQSS-G  120 (296)
Q Consensus        81 ---------------yv~~l~~~L~~~re~~k-~kk~~--------~~e~~~~~~---------------~e~Lf~~s-~  120 (296)
                                     |....+..+++|-.... +..-.        .+.-..+++               -.|++.-+ .
T Consensus        89 ~p~evme~~~~~~~~~k~~~~~i~~ky~~~~~~gd~idl~tG~iv~dnGh~~~l~~~~~~~~~~~r~~~vLrD~i~i~~~  168 (235)
T 2l5a_A           89 VPRGSMERHKLADENMRKVWSNIISKYESIEEQGDLVDLKTGEIVEDNGHIKTLTANNSTKDKRTKYTSVLRDIIDISDE  168 (235)
T ss_dssp             CCSSSCHHHHHHHHHHHHHHHHHHHHHTTCCCCSCCCSSSSCCCCCCCCCCCSCCCCCGGGCCSSTHHHHHHHHHHHTCC
T ss_pred             CchhHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCcccCCCCceeeeCcHHHHhhcCCCCCccchhHHHHHHHhhcccHH
Confidence                           11112222223321100 00000        011111111               13444322 2


Q ss_pred             hhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcC
Q psy3459         121 TILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG  181 (296)
Q Consensus       121 rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~Lg  181 (296)
                      |++++.  .--+||.++.+.+.....+|+.-|...|..+|+-.+||||+++||.-||+.+|
T Consensus       169 RlaRrg--GVkRIS~~iyeelr~vLe~fle~IirdAv~yaeHA~RKTVta~DV~~ALKr~g  227 (235)
T 2l5a_A          169 EDGDKG--GVKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALKRQG  227 (235)
T ss_dssp             TTSCCT--TCCTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHH
T ss_pred             HHhhcC--CchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHhcC
Confidence            333322  22589999999999999999999999999999999999999999999999765

>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=98.95  E-value=5.9e-10  Score=86.65  Aligned_cols=66  Identities=18%  Similarity=0.252  Sum_probs=59.7

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccc
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSY  185 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~y  185 (296)
                      ++.|+++....  .+||+|+.+.+.+|..+|+..|+..|..+|+..+||||+++||..||+.+||+-|
T Consensus        15 ~I~Riar~~Gv--~rIs~da~~~l~~~l~~~~~~I~~dA~~~a~ha~RKTvt~~DV~~Alk~~g~~lY   80 (84)
T 2hue_C           15 AIRRLARRGGV--KRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLY   80 (84)
T ss_dssp             HHHHHHHHTTC--CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTTCEEEE
T ss_pred             HHHHHHHHcCc--hhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHcCCCCC
Confidence            44677766533  7899999999999999999999999999999999999999999999999998766

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

Probab=98.93  E-value=8.8e-10  Score=88.80  Aligned_cols=66  Identities=18%  Similarity=0.274  Sum_probs=60.0

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccc
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSY  185 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~y  185 (296)
                      ++.|+++....  .+||.|+.+.+.+|..+|+..|+.+|..+|+..+||||+++||..||+.+||+-|
T Consensus        33 ~I~Rlar~~Gv--~rIS~da~~~l~~~le~fi~~I~~dA~~~a~HakRKTVt~~DV~~ALkr~g~~lY   98 (102)
T 1id3_B           33 AIRRLARRGGV--KRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALKRQGRTLY   98 (102)
T ss_dssp             HHHHHHHHTTC--CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHTTCCEE
T ss_pred             HHHHHHHHcCc--hhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHcCCCCC
Confidence            45777766533  7899999999999999999999999999999999999999999999999999866

>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=98.93  E-value=9.3e-10  Score=90.77  Aligned_cols=67  Identities=19%  Similarity=0.212  Sum_probs=59.1

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccc
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSY  185 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~y  185 (296)
                      .+.|+||. .|+..+||+||..++++|+..||.+|++.|++.|...+||||+++||..|++..+.-+|
T Consensus        46 RIkrImK~-d~~~~~is~eA~v~la~a~E~Fi~~L~~~A~~~a~~~krktI~~~di~~Av~~~e~~dF  112 (119)
T 4g92_C           46 RIKKVMKA-DPEVKMISAEAPILFAKGCDVFITELTMRAWIHAEDNKRRTLQRSDIAAALSKSDMFDF  112 (119)
T ss_dssp             HHHHHHHT-STTCCEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTCGGGGG
T ss_pred             HHHHHHhh-CCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccCHHHHHHHHhcCchhhH
Confidence            34677764 59999999999999999999999999999999999999999999999999987553333

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

Probab=98.89  E-value=1.7e-09  Score=86.02  Aligned_cols=69  Identities=19%  Similarity=0.213  Sum_probs=61.8

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchH
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVE  187 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~  187 (296)
                      .+.|+||.. |+..+||+||..++.+|+..||.+|+..|.+.|...+||||+++||..|++..++-+|..
T Consensus        24 rIkrImK~~-~~~~~is~eA~~~laka~E~Fi~~l~~~A~~~a~~~krktI~~~di~~Av~~~e~~~FL~   92 (97)
T 1n1j_B           24 RIKKIMKLD-EDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAITKFDQFDFLI   92 (97)
T ss_dssp             HHHHHHTTS-TTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTCGGGGGGT
T ss_pred             HHHHHHccC-ccccccChHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCHHHHHHHHhcCcHHHHHH
Confidence            346777665 777799999999999999999999999999999999999999999999999988877753

>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=98.81  E-value=3.7e-09  Score=84.99  Aligned_cols=66  Identities=18%  Similarity=0.252  Sum_probs=60.1

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccc
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSY  185 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~y  185 (296)
                      ++.|+++....  .+||.|+.+.+..+...|+..|+..|..+|+..+||||+++||..||+.+||+-|
T Consensus        34 ~I~Rlar~~G~--~rIs~~a~~~l~~vle~~~~~V~~dA~~~a~hakRktIt~~DV~~Alr~~g~~lY   99 (103)
T 1tzy_D           34 AIRRLARRGGV--KRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLY   99 (103)
T ss_dssp             HHHHHHHHTTC--CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHTTCEEE
T ss_pred             HHHHHHHHcCc--cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHHcCCCCc
Confidence            45777776544  6999999999999999999999999999999999999999999999999999765

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

Probab=98.80  E-value=4.9e-09  Score=78.47  Aligned_cols=59  Identities=22%  Similarity=0.340  Sum_probs=54.7

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchh
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS  178 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~  178 (296)
                      +..|++++.  +..++|+++..++++++..|+..|+..|+.+|...|||||+++||..|++
T Consensus        11 ~v~Rl~r~~--g~~ris~~a~~~l~e~~~~~~~~v~~dA~~~a~hakRkTI~~~DV~lA~~   69 (70)
T 1ku5_A           11 PVDRLIRKA--GAERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIK   69 (70)
T ss_dssp             HHHHHHHHT--TCSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHT
T ss_pred             HHHHHHHHc--CcceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence            558888875  56899999999999999999999999999999999999999999999986

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

Probab=98.77  E-value=5.4e-09  Score=84.13  Aligned_cols=66  Identities=20%  Similarity=0.283  Sum_probs=57.0

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccc
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSY  185 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~y  185 (296)
                      ++.++++....  .+||.|+.+.+..+...|+..|+..|..+|+..+||||+++||..||+.+||+.|
T Consensus        34 ~I~Rlar~~G~--~rIs~~a~~~l~~vle~~~~~V~~dA~~~a~hakRktvt~~DV~~Alr~~g~~lY   99 (103)
T 2yfw_B           34 AIRRLARRGGV--KRISGLIYEEVRNVLKTFLESVIRDAVTYTEHAKRKTVTSLDVVYALKRQGRTLY   99 (103)
T ss_dssp             HHHHHHHHTTC--CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHC----
T ss_pred             HHHHHHHHcCc--cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHcCCCCc
Confidence            45777766544  5999999999999999999999999999999999999999999999999998765

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

Probab=98.73  E-value=3.3e-08  Score=76.09  Aligned_cols=71  Identities=15%  Similarity=0.167  Sum_probs=64.2

Q ss_pred             ccCCchhHHHHHHHhhCC---CCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcC
Q psy3459           7 DRFLPIANVAKIMKKAIP---ESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG   77 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP---~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lg   77 (296)
                      ++.||+++..|++++...   ++.|++.+|..+||++++.|+--|...||..|.|+||+||.+.|+-.|..--|
T Consensus         1 ~lli~k~PF~RLVRei~~~~~~~~R~q~~Al~aLQea~Eaylv~lfeda~l~A~HAkRvTi~~kDiqLa~rirg   74 (77)
T 2hue_B            1 MALIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKRVTIMPKDIQLARRIRG   74 (77)
T ss_dssp             -CCSCHHHHHHHHHHHHHTTCSSCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHTT
T ss_pred             CCccccchHHHHHHHHHHHcCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcHhhHHHHHHHhC
Confidence            468999999999999843   56899999999999999999999999999999999999999999998876544

>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=98.71  E-value=4e-08  Score=74.30  Aligned_cols=65  Identities=20%  Similarity=0.236  Sum_probs=61.6

Q ss_pred             cCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           8 RFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         8 ~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      -.||.++|.+|+++.  |..++|+|+...|.+-++..+..|+.+|...+.|.||||++++||-.||+
T Consensus         5 s~lp~~~v~~iaes~--Gi~~lsddaa~~LA~dvEyr~~eI~qeA~kfmrHakRk~Lt~~DI~~Alk   69 (70)
T 1taf_B            5 SSISAESMKVIAESI--GVGSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLK   69 (70)
T ss_dssp             CCCCHHHHHHHHHHT--TCCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred             ccCCHHHHHHHHHHC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHc
Confidence            379999999999988  66799999999999999999999999999999999999999999999985

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

Probab=98.48  E-value=1.9e-07  Score=75.07  Aligned_cols=70  Identities=20%  Similarity=0.190  Sum_probs=59.1

Q ss_pred             CccccCCchhHHHHHHHhhCC------CCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHh
Q psy3459           4 REQDRFLPIANVAKIMKKAIP------ESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAM   73 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP------~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL   73 (296)
                      +..++.||+++..|++++...      .+.+++.+|..+||++++.|+--|...||..|.|+||+||.+.|+-.|.
T Consensus        22 kst~llIpk~PF~RLVREI~~~~~~~~~~~R~q~~Al~ALQeaaEayLv~Lfeda~l~A~HAkRvTi~~kDiqLa~   97 (100)
T 2yfv_A           22 RSTDLLISRMPFARLVKEVTDQFTTESEPLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKRITIMRKDMQLAR   97 (100)
T ss_dssp             ------CCHHHHHHHHHHHHHTTC-----CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHH
T ss_pred             ccchhhhccccHHHHHHHHHHHhccccchhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCHHHHHHHH
Confidence            456889999999999999873      2689999999999999999999999999999999999999999998775

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

Probab=98.46  E-value=3.3e-07  Score=75.14  Aligned_cols=76  Identities=17%  Similarity=0.177  Sum_probs=66.3

Q ss_pred             HHHHHHHhhCCC-CCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHH
Q psy3459          14 NVAKIMKKAIPE-SGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKY   92 (296)
Q Consensus        14 ~I~RIiK~~LP~-~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~   92 (296)
                      +|.||+++.... ++.||+++..+|.+.+..|+.-|+..+...|+++|||||+++||..+++.      -+.|..+|..|
T Consensus        32 ~V~rIvke~gaer~~~vS~~ai~aL~El~~~~~~~ia~Dl~~fAkHAgRkTI~~eDV~La~Rr------~~~L~~~l~~~  105 (113)
T 4dra_A           32 TVGCLCEEVALDKEMQFSKQTIAAISELTFRQCENFAKDLEMFARHAKRTTINTEDVKLLARR------SNSLLKYITDK  105 (113)
T ss_dssp             HHHHHHHHHHHHHTCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTT------CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHHh------CHHHHHHHHHH
Confidence            689999988543 57799999999999999999999999999999999999999999999987      35667777766


Q ss_pred             HHH
Q psy3459          93 REA   95 (296)
Q Consensus        93 re~   95 (296)
                      .+.
T Consensus       106 ~~e  108 (113)
T 4dra_A          106 SEE  108 (113)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

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

Probab=98.44  E-value=5.6e-07  Score=69.99  Aligned_cols=70  Identities=14%  Similarity=0.104  Sum_probs=62.8

Q ss_pred             cCCchhHHHHHHHhhCC-----CCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcC
Q psy3459           8 RFLPIANVAKIMKKAIP-----ESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG   77 (296)
Q Consensus         8 ~~LP~A~I~RIiK~~LP-----~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lg   77 (296)
                      +.+|+++..|++|+...     .+.+++.+|..+||++++.|+--|...||..|.|+||+||.+.|+-.|..--|
T Consensus         2 lLI~klPF~RLVREI~~~~~~~~~~R~q~~Al~aLQea~E~ylv~Lfeda~lcAiHAkRvTi~~kDiqLa~rirg   76 (82)
T 3nqj_A            2 LLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARRIRG   76 (82)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHSSCCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHC
T ss_pred             CCcccccHHHHHHHHHHHhccCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcHHHHHHHHHHcc
Confidence            46899999999999862     35799999999999999999999999999999999999999999988865433

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

Probab=98.42  E-value=5e-07  Score=71.34  Aligned_cols=62  Identities=11%  Similarity=0.121  Sum_probs=58.4

Q ss_pred             HHHHHHHhhCCCC-CcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhh
Q psy3459          14 NVAKIMKKAIPES-GKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA   75 (296)
Q Consensus        14 ~I~RIiK~~LP~~-~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~   75 (296)
                      +|.+|..+.++.+ +.||+++..+|.+.+..++.-++..+...|+|+|||||+++||..+++.
T Consensus        17 ~V~ki~~e~~~~~g~~vs~~~i~aL~e~~~~~~~~ia~Dl~~fA~HAgRkTI~~eDV~L~~Rr   79 (90)
T 3v9r_A           17 RVEERLQQVLSSEDIKYTPRFINSLLELAYLQLGEMGSDLQAFARHAGRGVVNKSDLMLYLRK   79 (90)
T ss_dssp             HHHHHHHHHSCSSCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTT
T ss_pred             HHHHHHHHHHHhcCceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHh
Confidence            6889999998865 8999999999999999999999999999999999999999999999865

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

Probab=98.41  E-value=1.6e-07  Score=79.51  Aligned_cols=74  Identities=14%  Similarity=0.142  Sum_probs=62.9

Q ss_pred             HHHHHHHhhCC-CCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHH
Q psy3459          14 NVAKIMKKAIP-ESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKY   92 (296)
Q Consensus        14 ~I~RIiK~~LP-~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~   92 (296)
                      +|.||+++... .++.||.++..+|.+.+..|+.-|+..+..+|.|+|||||+++||..+++.-      +.|..+|..|
T Consensus        24 ~VgkIvee~~~~~~~~vS~~ai~aL~El~~~~~e~ia~DLe~FAkHAGRKTI~~eDVkLa~Rrn------~~L~~~L~~~   97 (140)
T 3vh5_A           24 TTGALAQDVAEDKGVLFSKQTVAAISEITFRQAENFARDLEMFARHAKRSTITSEDVKLLARRS------NSLLKYITQK   97 (140)
T ss_dssp             HHHHHHHHHHHHHTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTS------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHhC------HHHHHHHHHH
Confidence            57889988754 3689999999999999999999999999999999999999999999999873      3444444444


Q ss_pred             H
Q psy3459          93 R   93 (296)
Q Consensus        93 r   93 (296)
                      .
T Consensus        98 ~   98 (140)
T 3vh5_A           98 S   98 (140)
T ss_dssp             H
T ss_pred             H
Confidence            4

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

Probab=98.40  E-value=8.2e-07  Score=66.73  Aligned_cols=60  Identities=17%  Similarity=0.233  Sum_probs=56.9

Q ss_pred             HHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhh
Q psy3459          14 NVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA   75 (296)
Q Consensus        14 ~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~   75 (296)
                      .|.||+|+.  |..+++.++...|.+.+..++.-|..+|..+|.|+|||||+++||..|++.
T Consensus         6 ~i~~iLk~~--G~~~~~~~v~~~L~e~~~ry~~~il~dA~~~a~HAgrktv~~eDVkLAi~~   65 (68)
T 1taf_A            6 VIMSILKEL--NVQEYEPRVVNQLLEFTFRYVTSILDDAKVYANHARKKTIDLDDVRLATEV   65 (68)
T ss_dssp             HHHHHHHHT--TCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             HHHHHHHHC--CCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHh
Confidence            789999998  767999999999999999999999999999999999999999999999864

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

Probab=98.36  E-value=3.6e-06  Score=69.74  Aligned_cols=110  Identities=15%  Similarity=0.185  Sum_probs=92.9

Q ss_pred             CchhHHHHHHHhhC----C--CCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchH
Q psy3459          10 LPIANVAKIMKKAI----P--ESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVE   83 (296)
Q Consensus        10 LP~A~I~RIiK~~L----P--~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~   83 (296)
                      +|+.+..|++++..    +  .+.+.+.+|..+||++++.|+--|-..+|-.|.|+.|                      
T Consensus         2 I~klPF~RLVREI~~~~~~~~~~lRfq~~Al~ALQeAsEayLV~lFEd~nlcaiHA~~----------------------   59 (121)
T 2ly8_A            2 ISKIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQEASEAYLVGLLEHTNLLALHLVP----------------------   59 (121)
T ss_dssp             CSCCHHHHHHHHHHHHHTTCCSSCCBCHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCC----------------------
T ss_pred             CCccchHHHHHHHHHHhcCCCCCccccHHHHHHHHHHHHHHHHHHHHHHhHHHHcCCc----------------------
Confidence            68888888888653    2  2579999999999999999999998888887777711                      


Q ss_pred             HHHHHHHHHHHHhccccccchhhhhhhhhhhhccchhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhc
Q psy3459          84 PLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLE  163 (296)
Q Consensus        84 ~l~~~L~~~re~~k~kk~~~~e~~~~~~~e~Lf~~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~  163 (296)
                                                                  .+--+||.|+.+.+.....+|+.-|.-.|..+++-.
T Consensus        60 --------------------------------------------gGvkRIS~~iy~e~r~vl~~~l~~i~rdav~yaehA   95 (121)
T 2ly8_A           60 --------------------------------------------RGSKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHA   95 (121)
T ss_dssp             --------------------------------------------CCSSCCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             --------------------------------------------cCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence                                                        112478889999999999999999999999999999


Q ss_pred             CCCcccchhHhhchhhcCCccc
Q psy3459         164 KRKTINGEDILFAMSALGFDSY  185 (296)
Q Consensus       164 kRKTI~~eDVl~AL~~LgF~~y  185 (296)
                      +||||+++||.-||+..|-.-|
T Consensus        96 ~RKTVta~DV~~Alkr~G~~ly  117 (121)
T 2ly8_A           96 KRKTVTSLDVVYALKRQGRTLY  117 (121)
T ss_dssp             TCCCBCHHHHHHHHHHTTCGGG
T ss_pred             CCCcCcHHHHHHHHHhCCCcCC
Confidence            9999999999999999886433

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

Probab=98.35  E-value=9.9e-07  Score=71.68  Aligned_cols=76  Identities=13%  Similarity=0.137  Sum_probs=64.5

Q ss_pred             HHHHHHHhhCC-CCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHH
Q psy3459          14 NVAKIMKKAIP-ESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKY   92 (296)
Q Consensus        14 ~I~RIiK~~LP-~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~   92 (296)
                      +|.||+++... .+.++|+++..+|.+.+..|+.-|+..|..+|.|+|||||+++||..|++..      +.+...|..|
T Consensus        24 ~V~rI~~~~g~~~~~~vs~~~i~aL~E~~~~~~~~ia~Da~~fA~HAgRkTI~~eDV~La~Rrn------~~l~~~l~~~   97 (107)
T 3b0b_B           24 TTGCLCQDVAEDKGVLFSKQTVAAISEITFRQCENFARDLEMFARHAKRSTITSEDVKLLARRS------NSLLKYITQK   97 (107)
T ss_dssp             HHHHHHHHHHHHHTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTC------HHHHHHHHHH
T ss_pred             HHHHHHHHHhhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcCcCCHHHHHHHHHhC------HHHHHHHHHH
Confidence            58899998743 2479999999999999999999999999999999999999999999999873      4555555555


Q ss_pred             HHH
Q psy3459          93 REA   95 (296)
Q Consensus        93 re~   95 (296)
                      .+.
T Consensus        98 ~~e  100 (107)
T 3b0b_B           98 SDE  100 (107)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

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

Probab=98.34  E-value=6.8e-07  Score=75.46  Aligned_cols=74  Identities=15%  Similarity=0.177  Sum_probs=66.6

Q ss_pred             CccccCCchhHHHHHHHhhC---CCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcC
Q psy3459           4 REQDRFLPIANVAKIMKKAI---PESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG   77 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~L---P~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lg   77 (296)
                      +..++.||++++.||+++..   .++.+++.+|..+||++++.|+--|...||..|.|++|+||.+.||-.|..--|
T Consensus        57 kst~lLIpk~PF~RLVREI~~~~~~~~R~q~~Al~aLQeaaEayLv~Lfeda~l~A~HAkRvTi~~kDiqLa~rirg  133 (136)
T 1tzy_C           57 KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRG  133 (136)
T ss_dssp             HCCSCCSCHHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHT
T ss_pred             cchhhhhccchHHHHHHHHHHHhhhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcHHhHHHHHHHhC
Confidence            35688999999999999984   356899999999999999999999999999999999999999999988875443

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

Probab=98.30  E-value=8.2e-07  Score=76.37  Aligned_cols=71  Identities=13%  Similarity=0.101  Sum_probs=63.1

Q ss_pred             CccccCCchhHHHHHHHhhCC-----CCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           4 REQDRFLPIANVAKIMKKAIP-----ESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP-----~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      +..++.||++++.||+++...     .+.+++.+|..+||++++.|+--|...||..|.+++|+||.+.||-.|..
T Consensus        72 kSteLLIpKlPF~RLVREIa~~~~~~~~lRfqs~Al~ALQEAaEayLV~LFEdanLcAiHAkRVTIm~kDIqLArr  147 (156)
T 3r45_A           72 KSTHLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARR  147 (156)
T ss_dssp             ---CCCSCHHHHHHHHHHHHHTTTTTCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSEECHHHHHHHHH
T ss_pred             cccccccccccHHHHHHHHHHHhccCccceecHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccccHHHHHHHHH
Confidence            456889999999999999862     25799999999999999999999999999999999999999999988864

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

Probab=98.27  E-value=1.5e-06  Score=73.62  Aligned_cols=75  Identities=13%  Similarity=0.121  Sum_probs=65.0

Q ss_pred             CccccCCchhHHHHHHHhhCC-----CCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCC
Q psy3459           4 REQDRFLPIANVAKIMKKAIP-----ESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGF   78 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP-----~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF   78 (296)
                      +..++.||++++.||+++...     .+.+++.+|..+||++++.|+--|...||..|.|++|+||.+.||-.|..--|.
T Consensus        56 kst~LLIpKlPF~RLVREI~~~~~~~~~~Rfq~~Al~ALQEAaEayLv~LFEdanlcAiHAkRVTIm~kDiqLArrirg~  135 (140)
T 3nqu_A           56 KSTHLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARRIRGL  135 (140)
T ss_dssp             ---CCCSCTTHHHHHHHHHHHHHHTTCCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHC-
T ss_pred             cccccccccccHHHHHHHHHHHhcccccceecHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccccHHHHHHHHHhccc
Confidence            457889999999999999862     257999999999999999999999999999999999999999999888765443

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

Probab=98.08  E-value=3.1e-06  Score=67.35  Aligned_cols=68  Identities=10%  Similarity=0.125  Sum_probs=51.0

Q ss_pred             hhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchH
Q psy3459         119 SGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVE  187 (296)
Q Consensus       119 s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~  187 (296)
                      +.++|+. .|+..+||.+|.-++.+++-.|+.+|+..|...+...+||||+++||-.|++.-+.-+|..
T Consensus        17 IkrimK~-~~~~~~vs~~A~v~la~a~E~Fi~el~~~A~~~a~~~krktI~~~di~~av~~~e~l~FL~   84 (98)
T 1jfi_A           17 IKKIMQT-DEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQCIELEGDPAANK   84 (98)
T ss_dssp             HHHHHTT-STTCCCBCTTHHHHHHHHHHHHHHHHHHHHHHHHHTC---CBCHHHHHTTCC---------
T ss_pred             HHHHHHc-CccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHhcCchhhHHH
Confidence            3666654 6666799999999999999999999999999999999999999999999998765555543

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

Probab=98.05  E-value=9.7e-06  Score=67.22  Aligned_cols=67  Identities=10%  Similarity=0.196  Sum_probs=61.9

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.||.+.|.|+||+.-.. .||+.+|...|..+.+.|+..|...|...|.+.+|++|+++||..|+.
T Consensus        21 gL~fPV~ri~R~Lk~~~~a-~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp~hi~lAI~   87 (123)
T 2nqb_C           21 GLQFPVGRIHRLLRKGNYA-ERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR   87 (123)
T ss_dssp             TCSSCHHHHHHHHHHTTSC-SEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             CeeccHHHHHHHHHccccc-cccchhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHHHHHh
Confidence            5789999999999997433 499999999999999999999999999999999999999999999975

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

Probab=98.04  E-value=6.4e-06  Score=68.26  Aligned_cols=54  Identities=22%  Similarity=0.330  Sum_probs=51.3

Q ss_pred             CCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCC
Q psy3459          26 SGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD   79 (296)
Q Consensus        26 ~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~   79 (296)
                      .-|||.|+.+.+.....+|+.-|...|..++++++||||+++||.-||+..|-.
T Consensus        62 vkRIS~~iy~e~r~vl~~~l~~i~rdav~yaehA~RKTVta~DV~~Alkr~G~~  115 (121)
T 2ly8_A           62 SKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALKRQGRT  115 (121)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCBCHHHHHHHHHHTTCG
T ss_pred             ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHhCCCc
Confidence            358999999999999999999999999999999999999999999999998864

>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=98.02  E-value=1.2e-05  Score=67.22  Aligned_cols=67  Identities=13%  Similarity=0.204  Sum_probs=61.9

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.||.+.|.|+||+.-.. .||+.+|...|..+.+.|...|...|...|.+.+|++|+++||..|+.
T Consensus        23 gLqfPV~rI~R~Lk~~~~a-~RVs~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp~hi~lAI~   89 (129)
T 1tzy_A           23 GLQFPVGRVHRLLRKGNYA-ERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIR   89 (129)
T ss_dssp             TCSSCHHHHHHHHHHTTSS-SEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             ceeccHHHHHHHHHccccc-cccchhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEcHHHHHHHHh
Confidence            5789999999999997433 499999999999999999999999999999999999999999999975

>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=97.99  E-value=1.4e-05  Score=65.97  Aligned_cols=67  Identities=18%  Similarity=0.268  Sum_probs=61.8

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.||.+.|.|+||+.-. ..||+.+|...|..+.+.|...|...|...|.+.+|++|+++||..|+.
T Consensus        20 gLqfPV~ri~R~Lk~~~~-a~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~~rItp~hi~lAI~   86 (120)
T 2f8n_G           20 GVIFPVGRMLRYIKKGHP-KYRIGVGAPVYMAAVLEYLTAEILELAVNAARDNKKGRVTPRHILLAVA   86 (120)
T ss_dssp             TCSSCHHHHHHHHHHHSS-SCEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             CccCChHHHHHHHHcCcc-ccccccchHHHHHHHHHHHHHHHHHHHHHHHhhcCCceEcHHHHHHHHh
Confidence            478999999999999832 3599999999999999999999999999999999999999999999975

>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=97.99  E-value=1.4e-05  Score=66.70  Aligned_cols=68  Identities=13%  Similarity=0.185  Sum_probs=62.1

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.||.+.|.|+||+.-....||+.+|...|..+.+.|...|...|...|.+.+|++|+++||..|+.
T Consensus        25 gLqfPV~ri~R~Lk~~~~a~~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItprhi~lAI~   92 (128)
T 1f66_C           25 GLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR   92 (128)
T ss_dssp             TCSSCHHHHHHHHHHTSCSSCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHH
T ss_pred             CccCChHHHHHHHHHcccchhhccccHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEcHHHHHHHHh
Confidence            57899999999999974333599999999999999999999999999999999999999999999975

>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=97.98  E-value=1.2e-05  Score=67.33  Aligned_cols=67  Identities=13%  Similarity=0.209  Sum_probs=61.9

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.||.+.|.|+||+.-.. .||+.+|...|..+.+.|+..|...|...|.+.+|++|+++||..|+.
T Consensus        23 gLqfPV~rI~R~Lk~~~~a-~RVs~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp~hI~lAI~   89 (131)
T 1id3_C           23 GLTFPVGRVHRLLRRGNYA-QRIGSGAPVYLTAVLEYLAAEILELAGNAARDNKKTRIIPRHLQLAIR   89 (131)
T ss_dssp             TCSSCHHHHHHHHHTTCSC-SEECSSHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             CeecCHHHHHHHHHccccc-cccchhhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceEcHHHHHHHHh
Confidence            5789999999999987433 499999999999999999999999999999999999999999999975

>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=97.88  E-value=2.7e-05  Score=66.60  Aligned_cols=67  Identities=13%  Similarity=0.205  Sum_probs=61.8

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.||.+.|.|+||+.-.. .||+.+|...|..+.+.++..|...|...|.+.+|++|+++||..|+.
T Consensus        42 gLqFPVgrI~R~LK~~~~a-~RVs~~A~VyLAAVLEYL~aEILelAgn~A~~~krkrItprhI~lAI~  108 (149)
T 2f8n_K           42 GLQFPVGRVHRLLRKGNYS-ERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIR  108 (149)
T ss_dssp             TCSSCHHHHHHHHHHTTSC-SEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             CeeccHHHHHHHHHccccc-cccCcCcHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHh
Confidence            5789999999999997433 499999999999999999999999999999999999999999999975

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

Probab=97.84  E-value=9.7e-06  Score=73.83  Aligned_cols=59  Identities=20%  Similarity=0.287  Sum_probs=54.1

Q ss_pred             HHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcC
Q psy3459          17 KIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG   77 (296)
Q Consensus        17 RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lg   77 (296)
                      ||++.+  +.-|||.++.+.+......|+.-|...|..+|++++||||+++||.-||+.+|
T Consensus       169 RlaRrg--GVkRIS~~iyeelr~vLe~fle~IirdAv~yaeHA~RKTVta~DV~~ALKr~g  227 (235)
T 2l5a_A          169 EDGDKG--GVKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALKRQG  227 (235)
T ss_dssp             TTSCCT--TCCTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHH
T ss_pred             HHhhcC--CchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHhcC
Confidence            666655  55799999999999999999999999999999999999999999999999765

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

Probab=97.79  E-value=4.4e-05  Score=67.42  Aligned_cols=68  Identities=12%  Similarity=0.186  Sum_probs=62.3

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.||.+.|.|+||+.-....||+.+|...|..+.+.++..|...|...|.+.+|++|+|+||..|+.
T Consensus       103 gl~fPv~ri~R~lk~~~~a~~Rv~~~A~vyLaavLEyl~~eIlelA~n~a~~~~~~~I~p~~i~lAi~  170 (192)
T 2jss_A          103 GLQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNAAKDLKVKRITPRHLQLAIR  170 (192)
T ss_dssp             SCCSCHHHHHHHHHHTTCSSCCCCTTTHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHhcCccccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHh
Confidence            57899999999999973323599999999999999999999999999999999999999999999975

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

Probab=97.75  E-value=5.1e-05  Score=62.95  Aligned_cols=65  Identities=26%  Similarity=0.332  Sum_probs=59.4

Q ss_pred             hHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCC
Q psy3459          13 ANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGF   78 (296)
Q Consensus        13 A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF   78 (296)
                      ..|+|++|++-|+ +.||.+|...|...+..+..-|+.+|..+|..++|+||++.||..|..-|-=
T Consensus        37 ~YIyKVLKQVhpd-~gISskAm~ImnSfvnDiferIA~EAs~La~~nkr~TitsreIqtAvrLlLp  101 (123)
T 2nqb_D           37 IYIYTVLKQVHPD-TGISSKAMSIMNSFVNDIFERIAAEASRLAHYNKRSTITSREIQTAVRLLLP  101 (123)
T ss_dssp             HHHHHHHHHHCTT-CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHhCCC-CCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHHHhCc
Confidence            4689999999877 6899999999999999999999999999999999999999999999865433

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

Probab=97.70  E-value=6.5e-05  Score=62.56  Aligned_cols=66  Identities=29%  Similarity=0.336  Sum_probs=59.8

Q ss_pred             hHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCC
Q psy3459          13 ANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD   79 (296)
Q Consensus        13 A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~   79 (296)
                      ..|+|++|++-|+ +.||.+|...|...+..+..-|+.+|..++..++|+||++.||..|..-|-=+
T Consensus        40 ~YIyKVLKQVhpd-~gISskAm~ImnSfvnDiferIA~EAs~La~~nkr~TitsreIqtAvrLlLpG  105 (126)
T 1tzy_B           40 IYVYKVLKQVHPD-TGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPG  105 (126)
T ss_dssp             HHHHHHHHHHCTT-CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHSCH
T ss_pred             HHHHHHHHHhCCC-CCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCcH
Confidence            3699999999877 68999999999999999999999999999999999999999999998655433

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

Probab=97.61  E-value=8.1e-05  Score=60.97  Aligned_cols=80  Identities=19%  Similarity=0.182  Sum_probs=69.0

Q ss_pred             hccchhhhhhhcCC-CccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchHHHHHHH
Q psy3459         115 VFQSSGTILEQQNG-QNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYL  193 (296)
Q Consensus       115 Lf~~s~rimk~~lp-~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~~l~~~L  193 (296)
                      |+-.+.+++++... .++.+|+++..+|.+.+-.|+.-|+..+..+|.-.|||||+++||.-+++.-      +.|..+|
T Consensus        29 l~y~V~rIvke~gaer~~~vS~~ai~aL~El~~~~~~~ia~Dl~~fAkHAgRkTI~~eDV~La~Rr~------~~L~~~l  102 (113)
T 4dra_A           29 VHYTVGCLCEEVALDKEMQFSKQTIAAISELTFRQCENFAKDLEMFARHAKRTTINTEDVKLLARRS------NSLLKYI  102 (113)
T ss_dssp             HHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTC------HHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHHhC------HHHHHHH
Confidence            34467888887754 4799999999999999999999999999999999999999999999999873      6777777


Q ss_pred             HHHHHHh
Q psy3459         194 QKYREAT  200 (296)
Q Consensus       194 ~~~re~~  200 (296)
                      ..|.+..
T Consensus       103 ~~~~~el  109 (113)
T 4dra_A          103 TDKSEEI  109 (113)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7776543

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

Probab=97.58  E-value=0.00024  Score=55.41  Aligned_cols=73  Identities=11%  Similarity=0.146  Sum_probs=63.0

Q ss_pred             CccccCCchhHHHHHHHhhCC-CCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhc
Q psy3459           4 REQDRFLPIANVAKIMKKAIP-ESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL   76 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP-~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~l   76 (296)
                      ...+..+|..+|.||++.... +.++||+||..++.+....|+..-...|...+...+-.+|..+|+-+.+-.|
T Consensus         7 ~~~~~~i~~~li~ril~~~F~~~kTkIs~dAl~l~aeyl~iFV~EAv~RA~~~a~~e~~~~le~e~LEki~pQL   80 (84)
T 4dra_E            7 AGAGSGFRKELVSRLLHLHFKDDKTKVSGDALQLMVELLKVFVVEAAVRGVRQAQAEDALRVDVDQLEKVLPQL   80 (84)
T ss_dssp             ----CCCCHHHHHHHHHTTCSSTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHhcCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHH
Confidence            345678999999999998886 5799999999999999999999999999999999999999999998876543

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

Probab=97.53  E-value=4.6e-05  Score=64.51  Aligned_cols=79  Identities=15%  Similarity=0.196  Sum_probs=66.7

Q ss_pred             hccchhhhhhhcCC-CccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchHHHHHHH
Q psy3459         115 VFQSSGTILEQQNG-QNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYL  193 (296)
Q Consensus       115 Lf~~s~rimk~~lp-~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~~l~~~L  193 (296)
                      |+-.+++|...... .++.+|+++..+|.+.+-.|+.-|+..+..+|.-.|||||+++||.-+++.-      +.|..+|
T Consensus        21 l~y~VgkIvee~~~~~~~~vS~~ai~aL~El~~~~~e~ia~DLe~FAkHAGRKTI~~eDVkLa~Rrn------~~L~~~L   94 (140)
T 3vh5_A           21 VHYTTGALAQDVAEDKGVLFSKQTVAAISEITFRQAENFARDLEMFARHAKRSTITSEDVKLLARRS------NSLLKYI   94 (140)
T ss_dssp             HHHHHHHHHHHHHHHHTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTS------HHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHhC------HHHHHHH
Confidence            44567888876644 5899999999999999999999999999999999999999999999999974      5566666


Q ss_pred             HHHHHH
Q psy3459         194 QKYREA  199 (296)
Q Consensus       194 ~~~re~  199 (296)
                      ..|.+.
T Consensus        95 ~~~~~e  100 (140)
T 3vh5_A           95 TQKSDE  100 (140)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            666553

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

Probab=97.48  E-value=0.00014  Score=57.29  Aligned_cols=65  Identities=11%  Similarity=0.071  Sum_probs=58.8

Q ss_pred             hccchhhhhhhcCCCc-cccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         115 VFQSSGTILEQQNGQN-ETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       115 Lf~~s~rimk~~lp~~-~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      |+-.++++..+.++.+ +.+|+++..+|.+.+-.++.-++..+..+|+-.|||||+++||.-+++.
T Consensus        14 l~~~V~ki~~e~~~~~g~~vs~~~i~aL~e~~~~~~~~ia~Dl~~fA~HAgRkTI~~eDV~L~~Rr   79 (90)
T 3v9r_A           14 LWIRVEERLQQVLSSEDIKYTPRFINSLLELAYLQLGEMGSDLQAFARHAGRGVVNKSDLMLYLRK   79 (90)
T ss_dssp             HHHHHHHHHHHHSCSSCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHhcCceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHh
Confidence            4456788888887754 9999999999999999999999999999999999999999999998876

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

Probab=97.40  E-value=0.00023  Score=57.78  Aligned_cols=80  Identities=15%  Similarity=0.182  Sum_probs=66.5

Q ss_pred             hccchhhhhhhcCC-CccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchHHHHHHH
Q psy3459         115 VFQSSGTILEQQNG-QNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYL  193 (296)
Q Consensus       115 Lf~~s~rimk~~lp-~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~~l~~~L  193 (296)
                      |+-.+.+++++... .+.++|+++..+|.+.+-.|+.-|+..|..+|.-.|||||+++||.-|++..      +.|...|
T Consensus        21 l~~~V~rI~~~~g~~~~~~vs~~~i~aL~E~~~~~~~~ia~Da~~fA~HAgRkTI~~eDV~La~Rrn------~~l~~~l   94 (107)
T 3b0b_B           21 VHYTTGCLCQDVAEDKGVLFSKQTVAAISEITFRQCENFARDLEMFARHAKRSTITSEDVKLLARRS------NSLLKYI   94 (107)
T ss_dssp             HHHHHHHHHHHHHHHHTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTC------HHHHHHH
T ss_pred             HHHHHHHHHHHHhhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcCcCCHHHHHHHHHhC------HHHHHHH
Confidence            33456788776533 4689999999999999999999999999999999999999999999999984      5666666


Q ss_pred             HHHHHHh
Q psy3459         194 QKYREAT  200 (296)
Q Consensus       194 ~~~re~~  200 (296)
                      ..|.+..
T Consensus        95 ~~~~~el  101 (107)
T 3b0b_B           95 TQKSDEL  101 (107)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6665543

>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=97.39  E-value=0.00052  Score=53.07  Aligned_cols=72  Identities=14%  Similarity=0.204  Sum_probs=63.1

Q ss_pred             ccccCCchhHHHHHHHhhCC-CCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhc
Q psy3459           5 EQDRFLPIANVAKIMKKAIP-ESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL   76 (296)
Q Consensus         5 ~~d~~LP~A~I~RIiK~~LP-~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~l   76 (296)
                      +++..+|..+|.||++.... +.+||++||..++.+....||.--...|...++.++-..|..+|+-+.+-.|
T Consensus         4 ~~~~~~~~~lI~ril~~~f~~~ktrI~~dAl~l~aeyl~iFV~EAv~RA~~~a~~e~~~~le~~~LEki~pqL   76 (81)
T 3b0b_C            4 EREGGFRKETVERLLRLHFRDGRTRVNGDALLLMAELLKVFVREAAARAARQAQAEDLEKVDIEHVEKVLPQL   76 (81)
T ss_dssp             ---CCCCHHHHHHHHHHHCCSTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHH
T ss_pred             ccCCCCCHHHHHHHHHHHhccCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCeecHHHHHHHHHHH
Confidence            45678999999999999987 4689999999999999999999999999999999999999999998866543

>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=97.00  E-value=0.0025  Score=48.69  Aligned_cols=66  Identities=15%  Similarity=0.329  Sum_probs=61.0

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhh
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA   75 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~   75 (296)
                      -|++..+.-++++.-|+ ..+..|+.++|.+.|..||.-+++.|...|++-+-.||...||.-.|+.
T Consensus         5 vl~k~~L~~Lv~~idp~-~~ld~~vee~ll~lADdFV~~V~~~ac~lAKhR~s~~le~kDvql~Ler   70 (76)
T 1h3o_B            5 VLTKKKLQDLVREVDPN-EQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQLHLER   70 (76)
T ss_dssp             SSCHHHHHHHHHHHCSS-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHHH
T ss_pred             cccHHHHHHHHHhcCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHh
Confidence            47899999999988665 6999999999999999999999999999999999999999999888764

>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=96.49  E-value=0.0026  Score=50.92  Aligned_cols=71  Identities=15%  Similarity=0.141  Sum_probs=51.0

Q ss_pred             hhhhhhhhhhccch--hhhhhhcCC------CccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhch
Q psy3459         106 VYQEISVEDVFQSS--GTILEQQNG------QNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAM  177 (296)
Q Consensus       106 ~~~~~~~e~Lf~~s--~rimk~~lp------~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL  177 (296)
                      .||.-+ +-|++..  .|++++...      .+.+++.+|..+||+++-.|+--|...||-.|.-.||+||.+.|+--|.
T Consensus        19 ~yQkst-~llIpk~PF~RLVREI~~~~~~~~~~~R~q~~Al~ALQeaaEayLv~Lfeda~l~A~HAkRvTi~~kDiqLa~   97 (100)
T 2yfv_A           19 KYQRST-DLLISRMPFARLVKEVTDQFTTESEPLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKRITIMRKDMQLAR   97 (100)
T ss_dssp             ----------CCHHHHHHHHHHHHHTTC-----CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHH
T ss_pred             hhcccc-hhhhccccHHHHHHHHHHHhccccchhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCHHHHHHHH
Confidence            344444 4555533  666654431      3799999999999999999999999999999999999999999997664

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

Probab=96.49  E-value=0.0084  Score=46.96  Aligned_cols=67  Identities=13%  Similarity=0.207  Sum_probs=59.9

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcC-CCccCcccHHHHhhhcC
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEK-RKTINGEDILFAMSALG   77 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~-RKTI~~eDVl~AL~~lg   77 (296)
                      .||++.|.|||...++  ..+|.+...+|.=.+.+||.-|..+|.++....+ ..-|.|.||-.|...|.
T Consensus        16 ~f~k~~vKrl~~~~~~--~~v~~~v~i~v~glaKvfVgelVE~A~~V~~~~~~~~Pl~P~HireA~rrl~   83 (89)
T 1bh9_B           16 AFPKAAIKRLIQSITG--TSVSQNVVIAMSGISKVFVGEVVEEALDVCEKWGEMPPLQPKHMREAVRRLK   83 (89)
T ss_dssp             CCCHHHHHHHHHHHHS--SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSSCCHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHcC--CCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHHHHH
Confidence            6999999999999973  5899999999999999999999999999998765 56899999999977654

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

Probab=96.27  E-value=0.0076  Score=46.11  Aligned_cols=55  Identities=20%  Similarity=0.161  Sum_probs=49.4

Q ss_pred             CCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcC
Q psy3459         127 NGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG  181 (296)
Q Consensus       127 lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~Lg  181 (296)
                      ..++.+++.+|..++|+++-.|+--|...||..|.-.||+||.+.|+--|..--|
T Consensus        20 ~~~~~R~q~~Al~aLQea~Eaylv~lfeda~l~A~HAkRvTi~~kDiqLa~rirg   74 (77)
T 2hue_B           20 FKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKRVTIMPKDIQLARRIRG   74 (77)
T ss_dssp             TCSSCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHTT
T ss_pred             cCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcHhhHHHHHHHhC
Confidence            3357999999999999999999999999999999999999999999987765433

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

Probab=96.27  E-value=0.0044  Score=51.34  Aligned_cols=63  Identities=29%  Similarity=0.301  Sum_probs=54.5

Q ss_pred             hhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCc
Q psy3459         120 GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD  183 (296)
Q Consensus       120 ~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~  183 (296)
                      -+++|+. .|+..||.+|...|......+..-|+.+|...+.-.+|+||++.||..|.+-|==+
T Consensus        40 yKVLKQV-hpd~gISskAm~ImnSfvnDiferIA~EAs~La~~nkr~TitsreIqtAvrLlLpG  102 (123)
T 2nqb_D           40 YTVLKQV-HPDTGISSKAMSIMNSFVNDIFERIAAEASRLAHYNKRSTITSREIQTAVRLLLPG  102 (123)
T ss_dssp             HHHHHHH-CTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHHHHSCH
T ss_pred             HHHHHHh-CCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHHHhCcH
Confidence            4555555 45678999999999999999999999999999999999999999999998765433

>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=96.20  E-value=0.005  Score=51.19  Aligned_cols=63  Identities=27%  Similarity=0.279  Sum_probs=54.6

Q ss_pred             hhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCc
Q psy3459         120 GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD  183 (296)
Q Consensus       120 ~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~  183 (296)
                      -+++|+. .|+..||.+|...|......+..-|+.+|...++-.+|+||++.||..|.+-|==+
T Consensus        43 yKVLKQV-hpd~gISskAm~ImnSfvnDiferIA~EAs~La~~nkr~TitsreIqtAvrLlLpG  105 (126)
T 1tzy_B           43 YKVLKQV-HPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPG  105 (126)
T ss_dssp             HHHHHHH-CTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHSCH
T ss_pred             HHHHHHh-CCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCcH
Confidence            4555555 45678999999999999999999999999999999999999999999998765433

>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=96.16  E-value=0.0082  Score=45.12  Aligned_cols=62  Identities=24%  Similarity=0.260  Sum_probs=51.4

Q ss_pred             hccch-hhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchh
Q psy3459         115 VFQSS-GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS  178 (296)
Q Consensus       115 Lf~~s-~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~  178 (296)
                      |...+ .++.+ ..+- -++|.|+...|.+-+..-+.-|.-+|...++..||||++++||=.||+
T Consensus         7 lp~~~v~~iae-s~Gi-~~lsddaa~~LA~dvEyr~~eI~qeA~kfmrHakRk~Lt~~DI~~Alk   69 (70)
T 1taf_B            7 ISAESMKVIAE-SIGV-GSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLK   69 (70)
T ss_dssp             CCHHHHHHHHH-HTTC-CCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred             CCHHHHHHHHH-HCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHc
Confidence            43433 44443 3332 389999999999999999999999999999999999999999998875

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

Probab=96.09  E-value=0.011  Score=44.19  Aligned_cols=59  Identities=19%  Similarity=0.222  Sum_probs=51.4

Q ss_pred             hhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         119 SGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       119 s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      ..++++.+.-  -+++.++...|.+.+-.++.-|...|..+|.-.|||||+++||--|++.
T Consensus         7 i~~iLk~~G~--~~~~~~v~~~L~e~~~ry~~~il~dA~~~a~HAgrktv~~eDVkLAi~~   65 (68)
T 1taf_A            7 IMSILKELNV--QEYEPRVVNQLLEFTFRYVTSILDDAKVYANHARKKTIDLDDVRLATEV   65 (68)
T ss_dssp             HHHHHHHTTC--CCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             HHHHHHHCCC--cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHh
Confidence            3566666433  3899999999999999999999999999999999999999999888763

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

Probab=96.07  E-value=0.0048  Score=53.04  Aligned_cols=66  Identities=14%  Similarity=0.067  Sum_probs=54.2

Q ss_pred             hhhccch--hhhhhhcCC-----CccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchh
Q psy3459         113 EDVFQSS--GTILEQQNG-----QNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS  178 (296)
Q Consensus       113 e~Lf~~s--~rimk~~lp-----~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~  178 (296)
                      |-|++..  .|++++...     .+.+++.+|..+||+++-.|+--|...||..|.-.+|+||.+.||--|+.
T Consensus        75 eLLIpKlPF~RLVREIa~~~~~~~~lRfqs~Al~ALQEAaEayLV~LFEdanLcAiHAkRVTIm~kDIqLArr  147 (156)
T 3r45_A           75 HLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARR  147 (156)
T ss_dssp             CCCSCHHHHHHHHHHHHHTTTTTCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSEECHHHHHHHHH
T ss_pred             ccccccccHHHHHHHHHHHhccCccceecHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccccHHHHHHHHH
Confidence            4555533  666654331     36899999999999999999999999999999999999999999977754

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

Probab=96.03  E-value=0.005  Score=52.10  Aligned_cols=69  Identities=14%  Similarity=0.082  Sum_probs=56.0

Q ss_pred             hhhccch--hhhhhhcCC-----CccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcC
Q psy3459         113 EDVFQSS--GTILEQQNG-----QNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG  181 (296)
Q Consensus       113 e~Lf~~s--~rimk~~lp-----~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~Lg  181 (296)
                      |-|++..  .|++++...     .+.+++.+|..+||+++-.|+--|...||..|.-.+|+||.+.||--|+.--|
T Consensus        59 ~LLIpKlPF~RLVREI~~~~~~~~~~Rfq~~Al~ALQEAaEayLv~LFEdanlcAiHAkRVTIm~kDiqLArrirg  134 (140)
T 3nqu_A           59 HLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARRIRG  134 (140)
T ss_dssp             CCCSCTTHHHHHHHHHHHHHHTTCCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHC
T ss_pred             ccccccccHHHHHHHHHHHhcccccceecHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccccHHHHHHHHHhcc
Confidence            4555533  666654431     37899999999999999999999999999999999999999999987765444

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

Probab=95.94  E-value=0.025  Score=46.31  Aligned_cols=111  Identities=13%  Similarity=0.110  Sum_probs=72.0

Q ss_pred             CcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHHHHHhccccccchhh
Q psy3459          27 GKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEV  106 (296)
Q Consensus        27 ~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~re~~k~kk~~~~e~  106 (296)
                      -++|..++.+|..            |.+.|...+...|.++|++.||=.-+=+.    ....|+.+              
T Consensus         6 ~~~T~~a~~~l~~------------A~~~A~~~~~~~i~~eHLLlaLl~~~~~~----~~~iL~~~--------------   55 (145)
T 3fes_A            6 NRFTQRAKKAIDL------------AFESAKSLGHNIVGSEHILLGLLREEEGI----AAKVLSKV--------------   55 (145)
T ss_dssp             CCBCHHHHHHHHH------------HHHHHHHTTCSEECHHHHHHHHHHHCSSH----HHHHHHHH--------------
T ss_pred             cccCHHHHHHHHH------------HHHHHHHcCCCCccHHHHHHHHHhCCCCh----HHHHHHHc--------------
Confidence            3688888888865            77889999999999999999985433211    12222221              


Q ss_pred             hhhhhhhhhccchhhhhhhc--CCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcC
Q psy3459         107 YQEISVEDVFQSSGTILEQQ--NGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG  181 (296)
Q Consensus       107 ~~~~~~e~Lf~~s~rimk~~--lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~Lg  181 (296)
                        +++.+.|-....+.+...  .+.+..+|..++.++.+            |...|..-+...|+++|+|-||=+-+
T Consensus        56 --gvd~~~l~~~l~~~l~~~~~~~~~~~~s~~~~~vl~~------------A~~~A~~~~~~~v~~eHlLlAll~~~  118 (145)
T 3fes_A           56 --GFTEAYLEGKIVDMEGKGEEISEDIVLSPRSKQILEL------------SGMFANKLKTNYIGTEHILLAIIQEG  118 (145)
T ss_dssp             --TCCHHHHHHHHHHHHCCCSCCCSCCEECHHHHHHHHH------------HHHHHHHTTCSSBCHHHHHHHHHHHC
T ss_pred             --CCCHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHH------------HHHHHHHcCCCcccHHHHHHHHHhCC
Confidence              111111111111111100  13457799999999987            66778888999999999999986554

>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=95.88  E-value=0.0071  Score=50.91  Aligned_cols=68  Identities=16%  Similarity=0.111  Sum_probs=55.6

Q ss_pred             hhhccch--hhhhhhc---CCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhc
Q psy3459         113 EDVFQSS--GTILEQQ---NGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL  180 (296)
Q Consensus       113 e~Lf~~s--~rimk~~---lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~L  180 (296)
                      |-|++..  .|++++.   ...+.+++.+|..+||+++-.|+--|...||..+.-.+|+||.+.||--|..--
T Consensus        60 ~lLIpk~PF~RLVREI~~~~~~~~R~q~~Al~aLQeaaEayLv~Lfeda~l~A~HAkRvTi~~kDiqLa~rir  132 (136)
T 1tzy_C           60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIR  132 (136)
T ss_dssp             SCCSCHHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHH
T ss_pred             hhhhccchHHHHHHHHHHHhhhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcHHhHHHHHHHh
Confidence            4455532  5655544   335799999999999999999999999999999999999999999998776543

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

Probab=95.84  E-value=0.036  Score=45.31  Aligned_cols=110  Identities=19%  Similarity=0.205  Sum_probs=70.4

Q ss_pred             cccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHHHHHhccccccchhhh
Q psy3459          28 KIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVY  107 (296)
Q Consensus        28 rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~re~~k~kk~~~~e~~  107 (296)
                      ++|..++.+|..            |.+.|...+...|+++|++.||=.-+=+.    ....|..+               
T Consensus         6 ~~t~~~~~~l~~------------A~~~A~~~~~~~i~~eHLLlaLl~~~~~~----~~~iL~~~---------------   54 (146)
T 3fh2_A            6 RFTDRARRVIVL------------AQEEARMLNHNYIGTEHILLGLIHEGEGV----AAKALESM---------------   54 (146)
T ss_dssp             GBCHHHHHHHHH------------HHHHHHHTTCSSBCHHHHHHHHHHHCCSH----HHHHHHHT---------------
T ss_pred             hcCHHHHHHHHH------------HHHHHHHcCCCCchHHHHHHHHHhCCCCh----HHHHHHHc---------------
Confidence            577888887755            77889999999999999999985432111    11222111               


Q ss_pred             hhhhhhhhccchhhhhhh---cCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcC
Q psy3459         108 QEISVEDVFQSSGTILEQ---QNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG  181 (296)
Q Consensus       108 ~~~~~e~Lf~~s~rimk~---~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~Lg  181 (296)
                       +++.+.|-....+.+..   ..+....+|..++.++.+            |...|..-+...|+++|+|-||=+-+
T Consensus        55 -gv~~~~l~~~l~~~l~~~~~~~~~~~~~s~~~~~vL~~------------A~~~a~~~~~~~i~~eHlLlall~~~  118 (146)
T 3fh2_A           55 -GISLDAVRQEVEEIIGQGSQPTTGHIPFTPRAKKVLEL------------SLREGLQMGHKYIGTEFLLLGLIREG  118 (146)
T ss_dssp             -TCCHHHHHHHHHHHHCCCSCCCCSCCCBCHHHHHHHHH------------HHHHHHHTTCSSBCHHHHHHHHHHHC
T ss_pred             -CCCHHHHHHHHHHHhccCCCCCcCCCcCCHHHHHHHHH------------HHHHHHHcCCCcCcHHHHHHHHHhCC
Confidence             11111111111111110   112356789999999987            66678888999999999999986543

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

Probab=95.76  E-value=0.014  Score=45.11  Aligned_cols=51  Identities=18%  Similarity=0.109  Sum_probs=47.1

Q ss_pred             CccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         129 QNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       129 ~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      .+.+++.+|..++|+++-.|+--|...||-.|.-.||+||.+.|+--|..-
T Consensus        24 ~~~R~q~~Al~aLQea~E~ylv~Lfeda~lcAiHAkRvTi~~kDiqLa~ri   74 (82)
T 3nqj_A           24 VDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARRI   74 (82)
T ss_dssp             CCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             ccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcHHHHHHHHHH
Confidence            478999999999999999999999999999999999999999999777543

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

Probab=95.17  E-value=0.1  Score=42.06  Aligned_cols=107  Identities=11%  Similarity=0.073  Sum_probs=64.2

Q ss_pred             cccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHHHHHhccccccchhhh
Q psy3459          28 KIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVY  107 (296)
Q Consensus        28 rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~re~~k~kk~~~~e~~  107 (296)
                      ++|..++.+|..            |...|...+...|.++|++.||=.-+=+.....|+    .+               
T Consensus         5 ~~t~~~~~~l~~------------A~~~A~~~~~~~i~~eHlLlaLl~~~~~~~~~iL~----~~---------------   53 (148)
T 1khy_A            5 RLTNKFQLALAD------------AQSLALGHDNQFIEPLHLMSALLNQEGGSVSPLLT----SA---------------   53 (148)
T ss_dssp             CBCHHHHHHHHH------------HHHHHHHTTCSSBCHHHHHHHHHTCTTCSHHHHHH----HH---------------
T ss_pred             hhhHHHHHHHHH------------HHHHHHHcCCCccCHHHHHHHHHcCCCchHHHHHH----Hc---------------
Confidence            678888887755            77899999999999999999985433222122121    11               


Q ss_pred             hhhhhhhhccchhhhhhh---cC--CCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchh
Q psy3459         108 QEISVEDVFQSSGTILEQ---QN--GQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS  178 (296)
Q Consensus       108 ~~~~~e~Lf~~s~rimk~---~l--p~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~  178 (296)
                       +++.+.|-....+.+..   ..  +....+|..+..++.+            |...+..-+...|+++|+|-||=
T Consensus        54 -g~~~~~l~~~l~~~l~~~p~~~~~~~~~~~s~~~~~vl~~------------A~~~a~~~~~~~i~~ehlLlall  116 (148)
T 1khy_A           54 -GINAGQLRTDINQALNRLPQVEGTGGDVQPSQDLVRVLNL------------CDKLAQKRGDNFISSELFVLAAL  116 (148)
T ss_dssp             -TCCHHHHHHHHHHHHTTSCCC-------CBCHHHHHHHHH------------HHHHHHHHTCSSBCHHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHhCCCCCCCCCCcCcCHHHHHHHHH------------HHHHHHHcCCCeecHHHHHHHHH
Confidence             11111111111111100   00  1235678888888876            55666666889999999999987

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

Probab=95.14  E-value=0.064  Score=43.47  Aligned_cols=108  Identities=15%  Similarity=0.192  Sum_probs=65.9

Q ss_pred             cccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHHHHHhccccccchhhh
Q psy3459          28 KIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVY  107 (296)
Q Consensus        28 rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~re~~k~kk~~~~e~~  107 (296)
                      +++..++.+|..            |.+.|...+...|.++|++.||=.-+-+...    ..|+.+               
T Consensus         5 ~~t~~~~~al~~------------A~~~A~~~~h~~i~~eHlLlaLl~~~~~~~~----~iL~~~---------------   53 (150)
T 2y1q_A            5 RFTERAQKVLAL------------AQEEALRLGHNNIGTEHILLGLVREGEGIAA----KALQAL---------------   53 (150)
T ss_dssp             CBCHHHHHHHHH------------HHHHHHHTTCSEECHHHHHHHHHHHCSSHHH----HHHHHT---------------
T ss_pred             hhCHHHHHHHHH------------HHHHHHHcCCCCccHHHHHHHHHhCCCCHHH----HHHHHc---------------
Confidence            678888888755            7789999999999999999998443322111    111111               


Q ss_pred             hhhhhhhhccchhhhhhhc--CCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         108 QEISVEDVFQSSGTILEQQ--NGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       108 ~~~~~e~Lf~~s~rimk~~--lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                       +++.+.|-....+.+...  .+....+|..++.++..            |...+..-+...|+++|+|-||=.
T Consensus        54 -g~~~~~l~~~l~~~l~~~~~~~~~~~~s~~~~~vL~~------------A~~~A~~~~~~~i~~ehlLlall~  114 (150)
T 2y1q_A           54 -GLGSEKIQKEVESLIGRAQEMSQTIHYTPRAKKVIEL------------SMDEARKLGHSYVGTEHILLGLIR  114 (150)
T ss_dssp             -TCCHHHHHHHHHHHHCCC-----CCEECHHHHHHHHH------------HHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHhccCCcccccCCCCHHHHHHHHH------------HHHHHHHcCCCeecHHHHHHHHHh
Confidence             011111111111111000  01245688888888876            666677778999999999999854

>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=94.61  E-value=0.049  Score=41.49  Aligned_cols=56  Identities=18%  Similarity=0.316  Sum_probs=51.0

Q ss_pred             hhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         124 EQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       124 k~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      -+++.|+..+..|+.+++.+.|-+||.-+++.|-..|+.-+-.|+.+.||.-.|+.
T Consensus        15 v~~idp~~~ld~~vee~ll~lADdFV~~V~~~ac~lAKhR~s~~le~kDvql~Ler   70 (76)
T 1h3o_B           15 VREVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQLHLER   70 (76)
T ss_dssp             HHHHCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHHH
T ss_pred             HHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHh
Confidence            35567889999999999999999999999999999999999999999999877764

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

Probab=94.34  E-value=0.069  Score=43.98  Aligned_cols=63  Identities=13%  Similarity=0.151  Sum_probs=54.5

Q ss_pred             cc--chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         116 FQ--SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       116 f~--~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      |+  .+.|+|+...... +|+.+|...|..+.-.|+..|...|...|...+|++|+|+||-.|+..
T Consensus        24 fPV~ri~R~Lk~~~~a~-RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp~hi~lAI~n   88 (123)
T 2nqb_C           24 FPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   88 (123)
T ss_dssp             SCHHHHHHHHHHTTSCS-EECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHT
T ss_pred             ccHHHHHHHHHcccccc-ccchhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHHHHHhc
Confidence            55  4478887764544 999999999999999999999999999999999999999999998873

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

Probab=94.12  E-value=0.086  Score=41.22  Aligned_cols=49  Identities=18%  Similarity=0.163  Sum_probs=41.9

Q ss_pred             CchhHHHHHHHhhCC-CCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHh
Q psy3459          10 LPIANVAKIMKKAIP-ESGKIAKDARECVQECVSEFISFITSEASDRCHL   58 (296)
Q Consensus        10 LP~A~I~RIiK~~LP-~~~rISkDA~~al~~~a~eFI~~las~An~~a~~   58 (296)
                      ||..+|.||++.... +++|||+||..++++....||..-...|.+-.+.
T Consensus         2 ip~~llaRIL~~~F~~~kTrIt~da~~lv~kY~diFVrEAv~Rs~e~ke~   51 (88)
T 3v9r_B            2 LSKEALIKILSQNEGGNDMKIADEVVPMIQKYLDIFIDEAVLRSLQSHKD   51 (88)
T ss_dssp             CCSHHHHHHHTTTSCSSCCEECTTTHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHhCCCCceecHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            799999999997765 4689999999999999999999888777655443

>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=94.11  E-value=0.081  Score=43.92  Aligned_cols=63  Identities=14%  Similarity=0.162  Sum_probs=54.6

Q ss_pred             cc--chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         116 FQ--SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       116 f~--~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      |+  .+.|+|+...... +|+.+|-..|..+.-.|...|...|...|...+|++|+|+||-.|+..
T Consensus        26 fPV~rI~R~Lk~~~~a~-RVs~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp~hi~lAI~n   90 (129)
T 1tzy_A           26 FPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRN   90 (129)
T ss_dssp             SCHHHHHHHHHHTTSSS-EECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHT
T ss_pred             ccHHHHHHHHHcccccc-ccchhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEcHHHHHHHHhc
Confidence            55  3478887764544 999999999999999999999999999999999999999999999874

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

Probab=94.10  E-value=0.11  Score=41.63  Aligned_cols=106  Identities=15%  Similarity=0.194  Sum_probs=65.7

Q ss_pred             ccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHHHHHhccccccchhhhh
Q psy3459          29 IAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQ  108 (296)
Q Consensus        29 ISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~re~~k~kk~~~~e~~~  108 (296)
                      +|..++.+|..            |.+.|...+...|.++|++.||=.-+  +    ....|+.+                
T Consensus         2 ~t~~~~~~l~~------------A~~~A~~~~~~~i~~eHlLlaLl~~~--~----~~~iL~~~----------------   47 (143)
T 1k6k_A            2 LNQELELSLNM------------AFARAREHRHEFMTVEHLLLALLSNP--S----AREALEAC----------------   47 (143)
T ss_dssp             BCHHHHHHHHH------------HHHHHHHHTBSEECHHHHHHHHTTCH--H----HHHHHHHT----------------
T ss_pred             CCHHHHHHHHH------------HHHHHHHcCCCCcCHHHHHHHHHcCc--h----HHHHHHHc----------------
Confidence            56666666644            77889999999999999999983221  1    22222221                


Q ss_pred             hhhhhhhccchhhhhhhc----C----CCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhc
Q psy3459         109 EISVEDVFQSSGTILEQQ----N----GQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL  180 (296)
Q Consensus       109 ~~~~e~Lf~~s~rimk~~----l----p~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~L  180 (296)
                      +++.+.|-....+.+...    .    +.+..+|..++.++.+            |...+..-+...|+++|+|-||=.-
T Consensus        48 g~~~~~l~~~l~~~l~~~~p~~~~~~~~~~~~~s~~~~~~l~~------------A~~~A~~~~~~~i~~ehLLlall~~  115 (143)
T 1k6k_A           48 SVDLVALRQELEAFIEQTTPVLPASEEERDTQPTLSFQRVLQR------------AVFHVQSSGRNEVTGANVLVAIFSE  115 (143)
T ss_dssp             TCCHHHHHHHHHHHHHHHSCBCCSSCSCCSCEECHHHHHHHHH------------HHHHHHSSSCSCBCHHHHHHHHTTC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCHHHHHHHHH------------HHHHHHHcCCCccCHHHHHHHHHhC
Confidence            111111111111111111    1    1245789998888877            6677777799999999999998653

>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=93.77  E-value=0.085  Score=43.92  Aligned_cols=61  Identities=15%  Similarity=0.137  Sum_probs=53.4

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      .+.|+|+...... +|+.+|-..|..+.-.|+.-|...|-..|...+|++|+|+||-.|+..
T Consensus        30 rI~R~Lk~~~~a~-RVs~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp~hI~lAI~n   90 (131)
T 1id3_C           30 RVHRLLRRGNYAQ-RIGSGAPVYLTAVLEYLAAEILELAGNAARDNKKTRIIPRHLQLAIRN   90 (131)
T ss_dssp             HHHHHHHTTCSCS-EECSSHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHT
T ss_pred             HHHHHHHcccccc-ccchhhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceEcHHHHHHHHhc
Confidence            3477887764444 999999999999999999999999999999999999999999999874

>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=93.72  E-value=0.1  Score=43.32  Aligned_cols=64  Identities=13%  Similarity=0.105  Sum_probs=54.1

Q ss_pred             cc--chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         116 FQ--SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       116 f~--~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      |+  .+.|+|+....-..+|+.+|.-.+..+.-.|...|...|...|...++++|+|+||..|+..
T Consensus        28 fPV~ri~R~Lk~~~~a~~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItprhi~lAI~n   93 (128)
T 1f66_C           28 FPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG   93 (128)
T ss_dssp             SCHHHHHHHHHHTSCSSCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHHH
T ss_pred             CChHHHHHHHHHcccchhhccccHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEcHHHHHHHHhc
Confidence            55  33677876554445999999999999999999999999999999999999999999998764

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

Probab=93.68  E-value=0.19  Score=42.95  Aligned_cols=108  Identities=16%  Similarity=0.144  Sum_probs=69.0

Q ss_pred             cccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHHHHHhccccccchhhh
Q psy3459          28 KIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVY  107 (296)
Q Consensus        28 rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~re~~k~kk~~~~e~~  107 (296)
                      ++|..++.+|..            |.+.|...+...|.++|++.||=+-+=+.    ....|+.+               
T Consensus        24 kfT~~a~~aL~~------------A~~~A~~~~h~~I~~EHLLlaLL~~~~~~----a~~iL~~~---------------   72 (171)
T 3zri_A           24 KLNAQSKLALEQ------------AASLCIERQHPEVTLEHYLDVLLDNPLSD----VRLVLKQA---------------   72 (171)
T ss_dssp             HBCHHHHHHHHH------------HHHHHHHHTCSEECHHHHHHHHTTCTTSH----HHHHHHHT---------------
T ss_pred             HcCHHHHHHHHH------------HHHHHHHcCCCcccHHHHHHHHHHccCcH----HHHHHHHc---------------
Confidence            567777777754            77889999999999999999985433111    12222211               


Q ss_pred             hhhhhhhhccchh--hhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhh-hcCCCcccchhHhhchhh
Q psy3459         108 QEISVEDVFQSSG--TILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCH-LEKRKTINGEDILFAMSA  179 (296)
Q Consensus       108 ~~~~~e~Lf~~s~--rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~-~~kRKTI~~eDVl~AL~~  179 (296)
                       +++.+.|-....  ..+....+.+..+|..++.+|.+            |...+. +-+...|+.+|+|-||=.
T Consensus        73 -gvd~~~l~~~l~~l~~~p~~~~~~~~~S~~l~~vL~~------------A~~~A~l~~gd~~I~teHLLLALl~  134 (171)
T 3zri_A           73 -GLEVDQVKQAIASTYSREQVLDTYPAFSPLLVELLQE------------AWLLSSTELEQAELRSGAIFLAALT  134 (171)
T ss_dssp             -TCCHHHHHHHHHHHSCCCCCCSSCCEECHHHHHHHHH------------HHHHHHTTTCCSSBCHHHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHhcCCCCCCCCCCcCHHHHHHHHH------------HHHHHHHHcCCCEEcHHHHHHHHHh
Confidence             111111111111  01111123457799999999988            777788 889999999999999854

>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=93.52  E-value=0.12  Score=42.45  Aligned_cols=61  Identities=13%  Similarity=0.114  Sum_probs=52.3

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      .+.|+|+..... -+|+.+|...+..+.-.|..-|...|...|...+|++|+|+||..|+..
T Consensus        27 ri~R~Lk~~~~a-~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~~rItp~hi~lAI~n   87 (120)
T 2f8n_G           27 RMLRYIKKGHPK-YRIGVGAPVYMAAVLEYLTAEILELAVNAARDNKKGRVTPRHILLAVAN   87 (120)
T ss_dssp             HHHHHHHHHSSS-CEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHT
T ss_pred             HHHHHHHcCccc-cccccchHHHHHHHHHHHHHHHHHHHHHHHhhcCCceEcHHHHHHHHhc
Confidence            347778765433 4999999999999999999999999999999999999999999998873

>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=93.15  E-value=0.13  Score=43.75  Aligned_cols=63  Identities=14%  Similarity=0.164  Sum_probs=54.2

Q ss_pred             cc--chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         116 FQ--SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       116 f~--~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      |+  .+.|+|+...... +|+.+|...|..+.-.|+..|...|...|...+|++|+|+||-.|+..
T Consensus        45 FPVgrI~R~LK~~~~a~-RVs~~A~VyLAAVLEYL~aEILelAgn~A~~~krkrItprhI~lAI~n  109 (149)
T 2f8n_K           45 FPVGRVHRLLRKGNYSE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRN  109 (149)
T ss_dssp             SCHHHHHHHHHHTTSCS-EECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             ccHHHHHHHHHcccccc-ccCcCcHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHhc
Confidence            55  4478887764444 999999999999999999999999999999999999999999998774

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=92.03  E-value=0.39  Score=46.53  Aligned_cols=110  Identities=15%  Similarity=0.196  Sum_probs=70.8

Q ss_pred             cccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHHHHHhccccccchhhh
Q psy3459          28 KIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVY  107 (296)
Q Consensus        28 rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~re~~k~kk~~~~e~~  107 (296)
                      ++|..++.+|..            |.+.|...+...|+++|++.||=.-+=+..    ...|..+               
T Consensus         5 ~ft~~a~~al~~------------A~~~A~~~~h~~v~~eHLLlaLl~~~~~~~----~~iL~~~---------------   53 (468)
T 3pxg_A            5 RFTERAQKVLAL------------AQEEALRLGHNNIGTEHILLGLVREGEGIA----AKALQAL---------------   53 (468)
T ss_dssp             CBCHHHHHHHHH------------HHHHHHHTTCSEECHHHHHHHHHHSCCSHH----HHHHHHH---------------
T ss_pred             hhCHHHHHHHHH------------HHHHHHHcCCCcccHHHHHHHHHhccCcHH----HHHHHHc---------------
Confidence            678888888755            778899999999999999999865543222    2222222               


Q ss_pred             hhhhhhhhccchhhhhhhc--CCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcC
Q psy3459         108 QEISVEDVFQSSGTILEQQ--NGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG  181 (296)
Q Consensus       108 ~~~~~e~Lf~~s~rimk~~--lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~Lg  181 (296)
                       +++.+.|-....+.+...  .++...+|..++.+|..            |...+..-+...|+++|+|-||=.-+
T Consensus        54 -gvd~~~l~~~l~~~l~~~~~~~~~~~~S~~~~~vL~~------------A~~~A~~~g~~~I~teHLLlaLl~~~  116 (468)
T 3pxg_A           54 -GLGSEKIQKEVESLIGRGQEMSQTIHYTPRAKKVIEL------------SMDEARKLGHSYVGTEHILLGLIREG  116 (468)
T ss_dssp             -TCCHHHHHHHHHTTSCCCCTTCSSCEECHHHHHHHHH------------HHHHHHTTTCSSBCHHHHHHHHHHTC
T ss_pred             -CCCHHHHHHHHHHHhcccCCCCCCCCCCHHHHHHHHH------------HHHHHHHcCCCeecHHHHHHHHHhcc
Confidence             111111111111111000  12346789999999987            56667788999999999999986543

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=90.63  E-value=0.58  Score=47.76  Aligned_cols=110  Identities=15%  Similarity=0.206  Sum_probs=70.3

Q ss_pred             cccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHHHHHhccccccchhhh
Q psy3459          28 KIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVY  107 (296)
Q Consensus        28 rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~re~~k~kk~~~~e~~  107 (296)
                      ++|..++.+|..            |.+.|...+...|+++|++.||=.-+=+...    ..|..+               
T Consensus         5 ~~t~~a~~~l~~------------A~~~A~~~~h~~i~~eHlLlaLl~~~~~~~~----~iL~~~---------------   53 (758)
T 3pxi_A            5 RFTERAQKVLAL------------AQEEALRLGHNNIGTEHILLGLVREGEGIAA----KALQAL---------------   53 (758)
T ss_dssp             CBCHHHHHHHHH------------HHHHHHHTTCSEECHHHHHHHHHHSCCSHHH----HHHHHH---------------
T ss_pred             hhCHHHHHHHHH------------HHHHHHHcCCCcccHHHHHHHHHhccCcHHH----HHHHHc---------------
Confidence            678888888755            7788999999999999999998554322222    222211               


Q ss_pred             hhhhhhhhccchhhhhhh--cCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcC
Q psy3459         108 QEISVEDVFQSSGTILEQ--QNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG  181 (296)
Q Consensus       108 ~~~~~e~Lf~~s~rimk~--~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~Lg  181 (296)
                       +++.+.|-....+.+..  ..++...+|..++.+|..            |...|..-+...|+++|+|-||=.-+
T Consensus        54 -gvd~~~l~~~l~~~l~~~~~~~~~~~~s~~~~~vl~~------------A~~~A~~~~~~~I~~ehlLlall~~~  116 (758)
T 3pxi_A           54 -GLGSEKIQKEVESLIGRGQEMSQTIHYTPRAKKVIEL------------SMDEARKLGHSYVGTEHILLGLIREG  116 (758)
T ss_dssp             -TCCHHHHHHHHHTTSCCCCTTCSSCEECHHHHHHHHH------------HHHHHHTTTCSSBCHHHHHHHHHHTC
T ss_pred             -CCCHHHHHHHHHHHhccCCCCCCCCCCCHHHHHHHHH------------HHHHHHHcCCCcccHHHHHHHHHhcC
Confidence             11111111111111100  012356799999999987            66667788999999999999986543

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

Probab=87.44  E-value=1.2  Score=34.35  Aligned_cols=61  Identities=10%  Similarity=0.145  Sum_probs=52.4

Q ss_pred             hhhhhhhcCC-CccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         119 SGTILEQQNG-QNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       119 s~rimk~~lp-~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      ..++++...- ++.+|++||..++.+-...||.=....|...+..++-.+|..+|+-+-+-.
T Consensus        18 i~ril~~~F~~~kTkIs~dAl~l~aeyl~iFV~EAv~RA~~~a~~e~~~~le~e~LEki~pQ   79 (84)
T 4dra_E           18 VSRLLHLHFKDDKTKVSGDALQLMVELLKVFVVEAAVRGVRQAQAEDALRVDVDQLEKVLPQ   79 (84)
T ss_dssp             HHHHHHTTCSSTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHH
Confidence            3677775544 799999999999999999999999999999999999999999998776543

>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=87.08  E-value=0.8  Score=35.62  Aligned_cols=60  Identities=12%  Similarity=0.181  Sum_probs=49.1

Q ss_pred             hhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcC-CCcccchhHhhchhhcC
Q psy3459         120 GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEK-RKTINGEDILFAMSALG  181 (296)
Q Consensus       120 ~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~k-RKTI~~eDVl~AL~~Lg  181 (296)
                      ++++...+  +.+++.+...+|.-.+.+||.-|..+|.+++...+ ..-|.|.||-.|...|.
T Consensus        23 Krl~~~~~--~~~v~~~v~i~v~glaKvfVgelVE~A~~V~~~~~~~~Pl~P~HireA~rrl~   83 (89)
T 1bh9_B           23 KRLIQSIT--GTSVSQNVVIAMSGISKVFVGEVVEEALDVCEKWGEMPPLQPKHMREAVRRLK   83 (89)
T ss_dssp             HHHHHHHH--SSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHc--CCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHHHHH
Confidence            44443333  56899999999999999999999999999998765 45799999999887664

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=84.70  E-value=1.7  Score=44.04  Aligned_cols=107  Identities=14%  Similarity=0.203  Sum_probs=65.1

Q ss_pred             ccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHHHHHhccccccchhhhh
Q psy3459          29 IAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQ  108 (296)
Q Consensus        29 ISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~re~~k~kk~~~~e~~~  108 (296)
                      +|..++.+|.            .|...|...+...|+++|++.||=.    +  +.....|..+                
T Consensus         2 ~t~~a~~~l~------------~A~~~A~~~~h~~i~~eHLLlaLl~----~--~~~~~iL~~~----------------   47 (758)
T 1r6b_X            2 LNQELELSLN------------MAFARAREHRHEFMTVEHLLLALLS----N--PSAREALEAC----------------   47 (758)
T ss_dssp             BCHHHHHHHH------------HHHHHHHHTTBSEECHHHHHHHHTT----S--HHHHHHHHHT----------------
T ss_pred             CCHHHHHHHH------------HHHHHHHHcCCCCccHHHHHHHHHc----C--cHHHHHHHHc----------------
Confidence            4556666664            4778899999999999999999843    1  1222222221                


Q ss_pred             hhhhhhhccchhhhhhhcC--------CCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhc
Q psy3459         109 EISVEDVFQSSGTILEQQN--------GQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL  180 (296)
Q Consensus       109 ~~~~e~Lf~~s~rimk~~l--------p~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~L  180 (296)
                      +++.+.|-......+...+        +....+|..++.+|.+            |...+...+...|+++|+|-||=.-
T Consensus        48 gvd~~~l~~~l~~~l~~~~p~~~~~~~~~~~~~s~~~~~vl~~------------A~~~a~~~~~~~I~~ehlLlall~~  115 (758)
T 1r6b_X           48 SVDLVALRQELEAFIEQTTPVLPASEEERDTQPTLSFQRVLQR------------AVFHVQSSGRNEVTGANVLVAIFSE  115 (758)
T ss_dssp             TCCHHHHHHHHHHHHHHHSCBCCCSSSCCCCEECHHHHHHHHH------------HHHHHHHHTCSSBCHHHHHHHHTTC
T ss_pred             CCCHHHHHHHHHHHHhccCCCCCCccccCCCCcCHHHHHHHHH------------HHHHHHHcCCCEeeHHHHHHHHhcc
Confidence            1111122111111111111        1346789999998887            4555666688899999999988654


Q ss_pred             C
Q psy3459         181 G  181 (296)
Q Consensus       181 g  181 (296)
                      +
T Consensus       116 ~  116 (758)
T 1r6b_X          116 Q  116 (758)
T ss_dssp             T
T ss_pred             c
Confidence            3

>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=83.44  E-value=2.1  Score=32.76  Aligned_cols=61  Identities=13%  Similarity=0.145  Sum_probs=51.5

Q ss_pred             hhhhhhhcCC-CccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         119 SGTILEQQNG-QNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       119 s~rimk~~lp-~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      ..++++..-. ++.+|++||..++.+--..||.=....|...+..++-..|.++|+-+.+-.
T Consensus        14 I~ril~~~f~~~ktrI~~dAl~l~aeyl~iFV~EAv~RA~~~a~~e~~~~le~~~LEki~pq   75 (81)
T 3b0b_C           14 VERLLRLHFRDGRTRVNGDALLLMAELLKVFVREAAARAARQAQAEDLEKVDIEHVEKVLPQ   75 (81)
T ss_dssp             HHHHHHHHCCSTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             HHHHHHHHhccCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCeecHHHHHHHHHH
Confidence            3667766544 789999999999999999999999999999998899999999998775433

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=80.20  E-value=3.3  Score=42.99  Aligned_cols=108  Identities=11%  Similarity=0.070  Sum_probs=64.4

Q ss_pred             cccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHHHHHhccccccchhhh
Q psy3459          28 KIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVY  107 (296)
Q Consensus        28 rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~re~~k~kk~~~~e~~  107 (296)
                      ++|..++.+|..            |...|...+...|+++|++.||=.-+-+.    +...|..+               
T Consensus         5 ~~t~~a~~al~~------------A~~~A~~~~h~~i~~eHLLlaLl~~~~~~----~~~iL~~~---------------   53 (854)
T 1qvr_A            5 RWTQAAREALAQ------------AQVLAQRMKHQAIDLPHLWAVLLKDERSL----AWRLLEKA---------------   53 (854)
T ss_dssp             CSCHHHHHHHHH------------HHHHHHHTTCSEECHHHHHHHHCCSSSSH----HHHHHHTT---------------
T ss_pred             hhCHHHHHHHHH------------HHHHHHHcCCCCccHHHHHHHHHhCCCcH----HHHHHHHc---------------
Confidence            678888888755            77889999999999999999983322211    11111111               


Q ss_pred             hhhhhhhhccchhhhhhh---c--CCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         108 QEISVEDVFQSSGTILEQ---Q--NGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       108 ~~~~~e~Lf~~s~rimk~---~--lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                       +++.+.|-....+.+..   .  .+....+|..++.+|.+            |...+..-+...|+.+|+|-||=.
T Consensus        54 -gvd~~~l~~~l~~~l~~~p~~~~~~~~~~~S~~~~~vL~~------------A~~~a~~~g~~~I~~ehlLlall~  117 (854)
T 1qvr_A           54 -GADPKALKELQERELARLPKVEGAEVGQYLTSRLSGALNR------------AEGLMEELKDRYVAVDTLVLALAE  117 (854)
T ss_dssp             -SSCHHHHHHHHHHHHHTSCCCCGGGTTCEECHHHHHHHHH------------HHHHHHTTTCSSCCHHHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHhhCCCCCCCCCCCCCCHHHHHHHHH------------HHHHHHHcCCcEeeHHHHHHHHHh
Confidence             01111111111111100   0  01235688888888877            555666678888999999988864

---

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	296
d2bykb1	89	a.22.1.3 (B:11-99) Chrac-14 {Fruit fly (Drosophila	5e-32
d2bykb1	89	a.22.1.3 (B:11-99) Chrac-14 {Fruit fly (Drosophila	7e-23
d2bykb1	89	a.22.1.3 (B:11-99) Chrac-14 {Fruit fly (Drosophila	2e-16
d1n1ja_	87	a.22.1.3 (A:) Nuclear transcription factor Y subun	4e-30
d1n1ja_	87	a.22.1.3 (A:) Nuclear transcription factor Y subun	3e-20
d1n1ja_	87	a.22.1.3 (A:) Nuclear transcription factor Y subun	7e-14
d1jfib_	135	a.22.1.3 (B:) Negative cofactor 2, NC2, beta chain	1e-29
d1jfib_	135	a.22.1.3 (B:) Negative cofactor 2, NC2, beta chain	8e-21
d1jfib_	135	a.22.1.3 (B:) Negative cofactor 2, NC2, beta chain	1e-14
d1f1ea_	151	a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy	4e-29
d1f1ea_	151	a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy	1e-17
d1f1ea_	151	a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy	4e-04
d1ku5a_	66	a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococc	3e-17
d1ku5a_	66	a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococc	4e-11
d1ku5a_	66	a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococc	3e-06
d1htaa_	68	a.22.1.2 (A:) Archaeal histone {Archaeon Methanoth	4e-17
d1htaa_	68	a.22.1.2 (A:) Archaeal histone {Archaeon Methanoth	4e-11
d1htaa_	68	a.22.1.2 (A:) Archaeal histone {Archaeon Methanoth	1e-05
d1jfia_	66	a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chai	4e-16
d1jfia_	66	a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chai	9e-10
d1jfia_	66	a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chai	8e-04
d1n1jb_	78	a.22.1.3 (B:) Nuclear transcription factor Y subun	1e-14
d1n1jb_	78	a.22.1.3 (B:) Nuclear transcription factor Y subun	2e-08
d1n1jb_	78	a.22.1.3 (B:) Nuclear transcription factor Y subun	4e-04
d2huec1	82	a.22.1.1 (C:20-101) Histone H4 {African clawed fro	4e-07
d2huec1	82	a.22.1.1 (C:20-101) Histone H4 {African clawed fro	4e-06
d2huec1	82	a.22.1.1 (C:20-101) Histone H4 {African clawed fro	0.002

>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 =  111 bits (280), Expect = 5e-32
 Identities = 31/89 (34%), Positives = 53/89 (59%)

Query: 11 PIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDIL 70
          P A + +++K+A+PES  ++K+AR  +    S F  F+TS ++   H +  KTI  +DIL
Sbjct: 1  PNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDIL 60

Query: 71 FAMSALGFDSYVEPLKIYLQKYREATKGE 99
            ++ L F+S+V  L   L+ YR+  K +
Sbjct: 61 QTLTELDFESFVPSLTQDLEVYRKVVKEK 89

>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 = 88.0 bits (218), Expect = 7e-23
 Identities = 24/71 (33%), Positives = 40/71 (56%)

Query: 133 IAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIY 192
           ++K+AR  +    S F  F+TS ++   H +  KTI  +DIL  ++ L F+S+V  L   
Sbjct: 19  VSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLTELDFESFVPSLTQD 78

Query: 193 LQKYREATKGE 203
           L+ YR+  K +
Sbjct: 79  LEVYRKVVKEK 89

>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 = 71.0 bits (174), Expect = 2e-16
 Identities = 20/58 (34%), Positives = 32/58 (55%)

Query: 203 EKFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGE 260
             F  F+TS ++   H +  KTI  +DIL  ++ L F+S+V  L   L+ YR+  K +
Sbjct: 32  SVFAIFVTSSSTALAHKQNHKTITAKDILQTLTELDFESFVPSLTQDLEVYRKVVKEK 89

>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 =  107 bits (268), Expect = 4e-30
 Identities = 75/86 (87%), Positives = 83/86 (96%)

Query: 9  FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGED 68
          +LPIANVA+IMK AIP++GKIAKDA+ECVQECVSEFISFITSEAS+RCH EKRKTINGED
Sbjct: 2  YLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGED 61

Query: 69 ILFAMSALGFDSYVEPLKIYLQKYRE 94
          ILFAMS LGFDSYVEPLK+YLQK+RE
Sbjct: 62 ILFAMSTLGFDSYVEPLKLYLQKFRE 87

>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 = 81.0 bits (200), Expect = 3e-20
 Identities = 62/77 (80%), Positives = 68/77 (88%)

Query: 122 ILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG 181
           I++    Q   IAKDA+ECVQECVSEFISFITSEAS+RCH EKRKTINGEDILFAMS LG
Sbjct: 11  IMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMSTLG 70

Query: 182 FDSYVEPLKIYLQKYRE 198
           FDSYVEPLK+YLQK+RE
Sbjct: 71  FDSYVEPLKLYLQKFRE 87

>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 = 63.7 bits (155), Expect = 7e-14
 Identities = 46/53 (86%), Positives = 50/53 (94%)

Query: 203 EKFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYRE 255
            +FISFITSEAS+RCH EKRKTINGEDILFAMS LGFDSYVEPLK+YLQK+RE
Sbjct: 35  SEFISFITSEASERCHQEKRKTINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 87

>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 =  107 bits (268), Expect = 1e-29
 Identities = 39/133 (29%), Positives = 71/133 (53%), Gaps = 11/133 (8%)

Query: 7   DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTING 66
           D  +P A + K++K+ +P   ++A DARE V  C +EFI  I+SEA++ C+  ++KTI+ 
Sbjct: 2   DLTIPRAAINKMIKETLPN-VRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISP 60

Query: 67  EDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGTILEQQ 126
           E ++ A+ +LGF SY+  +K  LQ+ +      +  +             ++ G   E+ 
Sbjct: 61  EHVIQALESLGFGSYISEVKEVLQECKTVALKRRKAS----------SRLENLGIPEEEL 110

Query: 127 NGQNETIAKDARE 139
             Q + +   AR+
Sbjct: 111 LRQQQELFAKARQ 123

>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 = 84.2 bits (208), Expect = 8e-21
 Identities = 29/75 (38%), Positives = 47/75 (62%)

Query: 130 NETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPL 189
           N  +A DARE V  C +EFI  I+SEA++ C+  ++KTI+ E ++ A+ +LGF SY+  +
Sbjct: 20  NVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALESLGFGSYISEV 79

Query: 190 KIYLQKYREATKGEK 204
           K  LQ+ +      +
Sbjct: 80  KEVLQECKTVALKRR 94

>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 = 67.6 bits (165), Expect = 1e-14
 Identities = 20/62 (32%), Positives = 38/62 (61%)

Query: 203 EKFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKS 262
            +FI  I+SEA++ C+  ++KTI+ E ++ A+ +LGF SY+  +K  LQ+ +      + 
Sbjct: 36  TEFIHLISSEANEICNKSEKKTISPEHVIQALESLGFGSYISEVKEVLQECKTVALKRRK 95

Query: 263 VN 264
            +
Sbjct: 96  AS 97

>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 =  106 bits (266), Expect = 4e-29
 Identities = 27/169 (15%), Positives = 63/169 (37%), Gaps = 28/169 (16%)

Query: 10  LPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDI 69
           LP A + +I ++ I E   +++DA++ + + V     ++ + A        +KT+  E +
Sbjct: 2   LPKAAIERIFRQGIGERR-LSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHL 60

Query: 70  LFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVYQEISVEDVFQSSGTILEQQNGQ 129
                 L  +   +       +                    V  + + +G         
Sbjct: 61  KALADVLMVEGVEDYDGELFGRAT------------------VRRILKRAG--------- 93

Query: 130 NETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS 178
            E  + DA +   + +      +  +A++    + RKT+ GED+  A++
Sbjct: 94  IERASSDAVDLYNKLICRATEELGEKAAEYADEDGRKTVQGEDVEKAIT 142

>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 = 76.0 bits (187), Expect = 1e-17
 Identities = 18/131 (13%), Positives = 46/131 (35%), Gaps = 20/131 (15%)

Query: 125 QQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDS 184
           +Q      +++DA++ + + V     ++ + A        +KT+  E +      L  + 
Sbjct: 12  RQGIGERRLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHLKALADVLMVEG 71

Query: 185 YVEPLKIYLQK---YREATKG-----------------EKFISFITSEASDRCHLEKRKT 224
             +       +    R   +                   +    +  +A++    + RKT
Sbjct: 72  VEDYDGELFGRATVRRILKRAGIERASSDAVDLYNKLICRATEELGEKAAEYADEDGRKT 131

Query: 225 INGEDILFAMS 235
           + GED+  A++
Sbjct: 132 VQGEDVEKAIT 142

>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 = 37.5 bits (87), Expect = 4e-04
 Identities = 5/36 (13%), Positives = 11/36 (30%)

Query: 203 EKFISFITSEASDRCHLEKRKTINGEDILFAMSALG 238
                ++ + A        +KT+  E +      L 
Sbjct: 33  PTMAEYVANAAKSVLDASGKKTLMEEHLKALADVLM 68

>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 = 72.5 bits (178), Expect = 3e-17
 Identities = 20/66 (30%), Positives = 37/66 (56%), Gaps = 2/66 (3%)

Query: 10 LPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDI 69
          LPIA V ++++KA  E  ++++ A + + E + E+   I  +A +      RKT+  EDI
Sbjct: 3  LPIAPVDRLIRKAGAE--RVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDI 60

Query: 70 LFAMSA 75
            A+ +
Sbjct: 61 KLAIKS 66

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

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

 Score = 55.5 bits (134), Expect = 4e-11
 Identities = 13/54 (24%), Positives = 26/54 (48%)

Query: 126 QNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA 179
           +    E +++ A + + E + E+   I  +A +      RKT+  EDI  A+ +
Sbjct: 13  RKAGAERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIKS 66

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

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

 Score = 41.7 bits (98), Expect = 3e-06
 Identities = 10/34 (29%), Positives = 17/34 (50%)

Query: 203 EKFISFITSEASDRCHLEKRKTINGEDILFAMSA 236
           E++   I  +A +      RKT+  EDI  A+ +
Sbjct: 33  EEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIKS 66

>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 = 72.1 bits (177), Expect = 4e-17
 Identities = 24/67 (35%), Positives = 33/67 (49%), Gaps = 2/67 (2%)

Query: 10 LPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDI 69
          LPIA + +I+K A  E  +++ DAR  + + + E    I SEA        RKTI  EDI
Sbjct: 4  LPIAPIGRIIKNAGAE--RVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDI 61

Query: 70 LFAMSAL 76
            A    
Sbjct: 62 ELARKMF 68

>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 = 55.5 bits (134), Expect = 4e-11
 Identities = 18/55 (32%), Positives = 24/55 (43%)

Query: 126 QNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL 180
           +N   E ++ DAR  + + + E    I SEA        RKTI  EDI  A    
Sbjct: 14  KNAGAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARKMF 68

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

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

 Score = 40.1 bits (94), Expect = 1e-05
 Identities = 13/35 (37%), Positives = 14/35 (40%)

Query: 203 EKFISFITSEASDRCHLEKRKTINGEDILFAMSAL 237
           E+    I SEA        RKTI  EDI  A    
Sbjct: 34  EEMGEEIASEAVKLAKHAGRKTIKAEDIELARKMF 68

>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 = 69.4 bits (170), Expect = 4e-16
 Identities = 13/64 (20%), Positives = 24/64 (37%), Gaps = 1/64 (1%)

Query: 10 LPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDI 69
           P A + KIM+    E GK+A      +   +  F+  +  +A         KT+    +
Sbjct: 3  FPPARIKKIMQTD-EEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHL 61

Query: 70 LFAM 73
             +
Sbjct: 62 KQCI 65

>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 = 51.7 bits (124), Expect = 9e-10
 Identities = 6/53 (11%), Positives = 17/53 (32%)

Query: 125 QQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAM 177
           Q + +   +A      +   +  F+  +  +A         KT+    +   +
Sbjct: 13  QTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQCI 65

>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 = 35.1 bits (81), Expect = 8e-04
 Identities = 4/30 (13%), Positives = 10/30 (33%)

Query: 205 FISFITSEASDRCHLEKRKTINGEDILFAM 234
           F+  +  +A         KT+    +   +
Sbjct: 36  FLESLLKKACQVTQSRNAKTMTTSHLKQCI 65

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

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

 Score = 65.6 bits (160), Expect = 1e-14
 Identities = 19/65 (29%), Positives = 31/65 (47%), Gaps = 1/65 (1%)

Query: 10 LPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDI 69
          LP+A + KIMK    +   I+ +A     +    FI+ +T  A       KR+T+   DI
Sbjct: 1  LPLARIKKIMK-LDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDI 59

Query: 70 LFAMS 74
            A++
Sbjct: 60 AMAIT 64

>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 = 48.7 bits (116), Expect = 2e-08
 Identities = 12/54 (22%), Positives = 24/54 (44%)

Query: 125 QQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS 178
           + +   + I+ +A     +    FI+ +T  A       KR+T+   DI  A++
Sbjct: 11  KLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAIT 64

>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 = 36.0 bits (83), Expect = 4e-04
 Identities = 10/33 (30%), Positives = 17/33 (51%)

Query: 203 EKFISFITSEASDRCHLEKRKTINGEDILFAMS 235
           + FI+ +T  A       KR+T+   DI  A++
Sbjct: 32  QIFITELTLRAWIHTEDNKRRTLQRNDIAMAIT 64

>d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]} Length = 82

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]

 Score = 44.8 bits (106), Expect = 4e-07
 Identities = 13/75 (17%), Positives = 33/75 (44%), Gaps = 2/75 (2%)

Query: 3  LREQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRK 62
          LR+  + +    + ++ ++      +I+    E  +  +  F+  +  +A       KRK
Sbjct: 3  LRDNIQGITKPAIRRLARRG--GVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRK 60

Query: 63 TINGEDILFAMSALG 77
          T+   D+++A+   G
Sbjct: 61 TVTAMDVVYALKRQG 75

>d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]} Length = 82

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]

 Score = 42.1 bits (99), Expect = 4e-06
 Identities = 12/56 (21%), Positives = 25/56 (44%)

Query: 126 QNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG 181
           + G  + I+    E  +  +  F+  +  +A       KRKT+   D+++A+   G
Sbjct: 20  RRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQG 75

>d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]} Length = 82

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]

 Score = 34.7 bits (80), Expect = 0.002
 Identities = 9/36 (25%), Positives = 18/36 (50%)

Query: 203 EKFISFITSEASDRCHLEKRKTINGEDILFAMSALG 238
           + F+  +  +A       KRKT+   D+++A+   G
Sbjct: 40  KVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQG 75

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	296
d1f1ea_	151	Archaeal histone {Archaeon Methanopyrus kandleri [	99.92
d1jfib_	135	Negative cofactor 2, NC2, beta chain {Human (Homo	99.92
d2bykb1	89	Chrac-14 {Fruit fly (Drosophila melanogaster) [Tax	99.91
d1n1ja_	87	Nuclear transcription factor Y subunit beta (Nf-Yb	99.9
d2bykb1	89	Chrac-14 {Fruit fly (Drosophila melanogaster) [Tax	99.88
d1jfib_	135	Negative cofactor 2, NC2, beta chain {Human (Homo	99.88
d1n1ja_	87	Nuclear transcription factor Y subunit beta (Nf-Yb	99.84
d1htaa_	68	Archaeal histone {Archaeon Methanothermus fervidus	99.66
d1ku5a_	66	Archaeal histone {Archaeon (Pyrococcus horikoshii)	99.62
d1n1jb_	78	Nuclear transcription factor Y subunit gamma (Nf-Y	99.58
d1jfia_	66	Negative cofactor 2, NC2, alpha chain {Human (Homo	99.41
d1htaa_	68	Archaeal histone {Archaeon Methanothermus fervidus	99.37
d1ku5a_	66	Archaeal histone {Archaeon (Pyrococcus horikoshii)	99.35
d1n1jb_	78	Nuclear transcription factor Y subunit gamma (Nf-Y	99.3
d1f1ea_	151	Archaeal histone {Archaeon Methanopyrus kandleri [	99.22
d1jfia_	66	Negative cofactor 2, NC2, alpha chain {Human (Homo	99.05
d2huec1	82	Histone H4 {African clawed frog (Xenopus laevis) [	99.02
d2huec1	82	Histone H4 {African clawed frog (Xenopus laevis) [	98.14
d1tzyc_	95	Histone H3 {Chicken (Gallus gallus), erythrocytes	98.12
d2byka1	72	Chrac-16 {Fruit fly (Drosophila melanogaster) [Tax	97.97
d1q9ca_	172	Histone domain of Son of sevenless protein {Human	97.96
d1q9ca_	172	Histone domain of Son of sevenless protein {Human	97.74
d1tzyb_	92	Histone H2B {Chicken (Gallus gallus), erythrocytes	97.3
d2byka1	72	Chrac-16 {Fruit fly (Drosophila melanogaster) [Tax	97.2
d1h3ob_	74	TAF(II)-20, (TAF(II)-15, hTAF12), histone fold dom	96.53
d1bh9b_	89	TAF(II)28 {Human (Homo sapiens) [TaxId: 9606]}	96.46
d1tafb_	70	TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta	96.32
d1f66c_	103	Histone H2A {Human (Homo sapiens), variant H2A.Z [	96.1
d1qvra1	145	N-terminal domain of ClpB (heat shock protein F84.	95.91
d1k6ka_	142	N-terminal, ClpS-binding domain of ClpA, an Hsp100	95.56
d1u35c1	106	macro-H2A.1, histone domain {Human (Homo sapiens)	95.42
d1khya_	139	N-terminal domain of ClpB (heat shock protein F84.	95.3
d1tzyb_	92	Histone H2B {Chicken (Gallus gallus), erythrocytes	95.28
d1tzyc_	95	Histone H3 {Chicken (Gallus gallus), erythrocytes	94.83
d1tzya_	106	Histone H2A {Chicken (Gallus gallus), erythrocytes	94.46
d1h3ob_	74	TAF(II)-20, (TAF(II)-15, hTAF12), histone fold dom	93.93
d1tafa_	68	TAF(II)42 {Fruit fly (Drosophila melanogaster) [Ta	93.67
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	90.64
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	90.2
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	85.87
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	85.18
d1tafb_	70	TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta	83.64

>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=99.92  E-value=1.7e-25  Score=189.73  Aligned_cols=141  Identities=21%  Similarity=0.343  Sum_probs=124.4

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHH
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIY   88 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~   88 (296)
                      +||+|+|.||||+.+|+ .+||+||++.|+.|+.+|+.+|+++|+.+|.+++||||+++||..|+..+|-+.-..     
T Consensus         1 ~lP~a~I~rilk~~~~~-~ris~da~~~l~~~~~~~~~~Ia~eA~~l~~~~~rKTi~~edi~~a~~~~~~~~~~~-----   74 (151)
T d1f1ea_           1 ELPKAAIERIFRQGIGE-RRLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHLKALADVLMVEGVED-----   74 (151)
T ss_dssp             CCCHHHHHHHHHTTSTT-CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHHHHTCTTSTT-----
T ss_pred             CCCccHHHHHHHHhCCc-cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHhcccccccc-----
Confidence            59999999999999987 599999999999999999999999999999999999999999999998777543210     


Q ss_pred             HHHHHHHhccccccchhhhhhhhhhhhccc--hhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCC
Q psy3459          89 LQKYREATKGEKSVNCEVYQEISVEDVFQS--SGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRK  166 (296)
Q Consensus        89 L~~~re~~k~kk~~~~e~~~~~~~e~Lf~~--s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRK  166 (296)
                                        +.    +-+|+.  ++|+++.  .+..+||+||..+|++|+..||..|+..|+.+|...|||
T Consensus        75 ------------------~~----~~~fp~a~IkRi~k~--~g~~ris~dA~~~l~~~~E~fi~~l~~~A~~~a~~~kRk  130 (151)
T d1f1ea_          75 ------------------YD----GELFGRATVRRILKR--AGIERASSDAVDLYNKLICRATEELGEKAAEYADEDGRK  130 (151)
T ss_dssp             ------------------CC----SCCCCHHHHHHHHHH--TTCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCS
T ss_pred             ------------------cc----cCccCHHHHHHHHHc--CCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence                              01    346774  3777775  356799999999999999999999999999999999999


Q ss_pred             cccchhHhhchhh
Q psy3459         167 TINGEDILFAMSA  179 (296)
Q Consensus       167 TI~~eDVl~AL~~  179 (296)
                      ||+++||..||..
T Consensus       131 TI~~~DI~~Av~~  143 (151)
T d1f1ea_         131 TVQGEDVEKAITY  143 (151)
T ss_dssp             EECHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHH
Confidence            9999999999875

>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=99.92  E-value=9.3e-26  Score=188.30  Aligned_cols=96  Identities=35%  Similarity=0.644  Sum_probs=92.5

Q ss_pred             cccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHH
Q psy3459           6 QDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPL   85 (296)
Q Consensus         6 ~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l   85 (296)
                      +|+.||+|+|.||||..+| +++||+||+.+|++||++||+|||++|+++|...+||||+++||++||+.+||.+|+++|
T Consensus         1 ddl~LP~a~I~kI~K~~~~-~~~is~dA~~~i~~a~~~Fi~~lt~~A~~~a~~~~RkTi~~~Dv~~Al~~~~f~~f~~~l   79 (135)
T d1jfib_           1 DDLTIPRAAINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALESLGFGSYISEV   79 (135)
T ss_dssp             CCCCCCHHHHHHHHHHHST-TCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHTTGGGHHHH
T ss_pred             CcccccHHHHHHHHhhCCc-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCcHHHHHHH
Confidence            6899999999999999998 589999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcccccc
Q psy3459          86 KIYLQKYREATKGEKSV  102 (296)
Q Consensus        86 ~~~L~~~re~~k~kk~~  102 (296)
                      ..++..|++..+.++..
T Consensus        80 ~~~l~~~ke~~~~kk~~   96 (135)
T d1jfib_          80 KEVLQECKTVALKRRKA   96 (135)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhh
Confidence            99999999998877665

>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=99.91  E-value=7.8e-25  Score=170.50  Aligned_cols=89  Identities=35%  Similarity=0.604  Sum_probs=87.2

Q ss_pred             chhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHH
Q psy3459          11 PIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQ   90 (296)
Q Consensus        11 P~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~   90 (296)
                      |+|+|.||||+.+|++++||+||+.++++|+++||+|||++|++.|..++||||+++||+.||+.+||++|+++|+.+|.
T Consensus         1 P~a~i~ri~K~~~p~~~~iskeA~~~i~~aae~FI~~lt~~A~~~a~~~~rKtI~~~dv~~Al~~~~f~~~~~~l~~~l~   80 (89)
T d2bykb1           1 PNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLTELDFESFVPSLTQDLE   80 (89)
T ss_dssp             CCSHHHHHHHHHSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHTTCTTTHHHHHHHHH
T ss_pred             CccHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHHCCcHHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccc
Q psy3459          91 KYREATKGE   99 (296)
Q Consensus        91 ~~re~~k~k   99 (296)
                      .||+.++.|
T Consensus        81 ~~~e~~~~k   89 (89)
T d2bykb1          81 VYRKVVKEK   89 (89)
T ss_dssp             HHHHHHTTC
T ss_pred             HHHHHHccC
Confidence            999998764

>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=99.90  E-value=3.7e-24  Score=165.88  Aligned_cols=87  Identities=86%  Similarity=1.339  Sum_probs=85.0

Q ss_pred             cCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHH
Q psy3459           8 RFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKI   87 (296)
Q Consensus         8 ~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~   87 (296)
                      +.||+|+|.||||+.+|++++||+||+.++++||++||+|||++|++.|..++||||+++||+.|++.+||.+|+++|+.
T Consensus         1 l~LP~a~v~ri~K~~~p~~~~is~ea~~~i~~a~e~Fi~~lt~~A~~~a~~~~rKTI~~~dv~~Al~~~~~~~fl~~l~~   80 (87)
T d1n1ja_           1 IYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMSTLGFDSYVEPLKL   80 (87)
T ss_dssp             CCCCHHHHHHHHHHTSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             CCCcHhHHHHHHHHhCCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCcHhHHHHHHH
Confidence            46999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHH
Q psy3459          88 YLQKYRE   94 (296)
Q Consensus        88 ~L~~~re   94 (296)
                      ++++||+
T Consensus        81 ~~~~~ke   87 (87)
T d1n1ja_          81 YLQKFRE   87 (87)
T ss_dssp             HHHHHHC
T ss_pred             HHHHhcC
Confidence            9999985

>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=99.88  E-value=2.9e-23  Score=161.54  Aligned_cols=86  Identities=29%  Similarity=0.514  Sum_probs=82.7

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchHHHHHHHHHHH
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYR  197 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~~l~~~L~~~r  197 (296)
                      .+.++||..+|++++||+||+.+|++||.+||+|||++|++.|..++||||+++||++||+++||++|+++|+.+|+.||
T Consensus         4 ~i~ri~K~~~p~~~~iskeA~~~i~~aae~FI~~lt~~A~~~a~~~~rKtI~~~dv~~Al~~~~f~~~~~~l~~~l~~~~   83 (89)
T d2bykb1           4 VIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLTELDFESFVPSLTQDLEVYR   83 (89)
T ss_dssp             HHHHHHHHHSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHTTCTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHHCCcHHHHHHHHHHHHHHH
Confidence            45889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhccc
Q psy3459         198 EATKGE  203 (296)
Q Consensus       198 e~~k~k  203 (296)
                      +.++.|
T Consensus        84 e~~~~k   89 (89)
T d2bykb1          84 KVVKEK   89 (89)
T ss_dssp             HHHTTC
T ss_pred             HHHccC
Confidence            988764

>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=99.88  E-value=1.2e-23  Score=175.40  Aligned_cols=116  Identities=28%  Similarity=0.454  Sum_probs=99.6

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchHHHHHHHHHHH
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYR  197 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~~l~~~L~~~r  197 (296)
                      .+.+|||..+| +++||+||+.+|++||.+||+|||++|+++|..++||||+++||++||+.|||++|+++|..+|..|+
T Consensus         9 ~I~kI~K~~~~-~~~is~dA~~~i~~a~~~Fi~~lt~~A~~~a~~~~RkTi~~~Dv~~Al~~~~f~~f~~~l~~~l~~~k   87 (135)
T d1jfib_           9 AINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALESLGFGSYISEVKEVLQECK   87 (135)
T ss_dssp             HHHHHHHHHST-TCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHTTGGGHHHHHHHHHHHH
T ss_pred             HHHHHHhhCCc-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCcHHHHHHHHHHHHHHH
Confidence            34777777775 89999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcccccccccccchhhhhhHHHhhhhchhhHHHHhhhcC
Q psy3459         198 EATKGEKFISFITSEASDRCHLEKRKTINGEDILFAMSALG  238 (296)
Q Consensus       198 e~~k~kk~~~~~~se~~~r~~~e~~~~~~~qe~lf~~a~~~  238 (296)
                      +..+.||........    .....+++...|+++|++|+..
T Consensus        88 e~~~~kk~~~~~~~~----~~~~~e~~~~~q~el~~~a~~~  124 (135)
T d1jfib_          88 TVALKRRKASSRLEN----LGIPEEELLRQQQELFAKARQQ  124 (135)
T ss_dssp             HHHHHHHHHHHHHHH----SSSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhcccccc----CCCChhhHHHHHHHHHHHHHHh
Confidence            998877544322111    2223478899999999999865

>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=99.84  E-value=1.5e-21  Score=150.94  Aligned_cols=81  Identities=77%  Similarity=1.169  Sum_probs=78.1

Q ss_pred             chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccchHHHHHHHHHHH
Q psy3459         118 SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYR  197 (296)
Q Consensus       118 ~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv~~l~~~L~~~r  197 (296)
                      .+.++||..+|++.+||+||+.+|++||.+||+|||++|++.|..++||||+++||++|++++||.+|+++|+.++++||
T Consensus         7 ~v~ri~K~~~p~~~~is~ea~~~i~~a~e~Fi~~lt~~A~~~a~~~~rKTI~~~dv~~Al~~~~~~~fl~~l~~~~~~~k   86 (87)
T d1n1ja_           7 NVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMSTLGFDSYVEPLKLYLQKFR   86 (87)
T ss_dssp             HHHHHHHHTSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHTTCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCcHhHHHHHHHHHHHhc
Confidence            44888888999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             H
Q psy3459         198 E  198 (296)
Q Consensus       198 e  198 (296)
                      +
T Consensus        87 e   87 (87)
T d1n1ja_          87 E   87 (87)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=99.66  E-value=1.3e-16  Score=117.44  Aligned_cols=66  Identities=35%  Similarity=0.424  Sum_probs=62.6

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhc
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL   76 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~l   76 (296)
                      .||+|+|.||||...+  .+||+||.+++++|+++||.+|+.+|+++|.++|||||+++||..||+.+
T Consensus         3 eLP~a~I~ri~k~~~~--~ris~ea~~~l~~~~e~fi~~l~~~a~~~a~~~kRkTi~~~DV~~Alk~~   68 (68)
T d1htaa_           3 ELPIAPIGRIIKNAGA--ERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARKMF   68 (68)
T ss_dssp             CSCHHHHHHHHHHTTC--SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHTC
T ss_pred             cCcHHHHHHHHHHCCc--chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHhC
Confidence            6999999999999854  58999999999999999999999999999999999999999999999864

>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=99.62  E-value=2.9e-16  Score=115.06  Aligned_cols=64  Identities=30%  Similarity=0.426  Sum_probs=61.4

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .||+|+|.||||..+|  .+||+||..++.+|+++||.+|+.+|+.+|.++|||||+++||..||+
T Consensus         2 ~LP~a~I~rI~k~~~~--~ris~ea~~~l~~a~e~Fi~~l~~~a~~~a~~~~RKTI~~~Dv~~Al~   65 (66)
T d1ku5a_           2 ELPIAPVDRLIRKAGA--ERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIK   65 (66)
T ss_dssp             CSCHHHHHHHHHHTTC--SEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHT
T ss_pred             CCCHHHHHHHHHhCcc--cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHh
Confidence            6999999999999865  599999999999999999999999999999999999999999999986

>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=99.58  E-value=8.7e-16  Score=115.66  Aligned_cols=73  Identities=26%  Similarity=0.313  Sum_probs=68.7

Q ss_pred             CchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchH
Q psy3459          10 LPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVE   83 (296)
Q Consensus        10 LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~   83 (296)
                      ||.|.|.||||. .|+..+||+||..++.+|++.||.||+.+|++.|..++||||+++||..|++..+..+|..
T Consensus         1 LP~srVkrImK~-~~~~~~is~ea~~~i~~a~E~Fi~~l~~~A~~~a~~~~rkti~~~dl~~av~~~~~~~FL~   73 (78)
T d1n1jb_           1 LPLARIKKIMKL-DEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAITKFDQFDFLI   73 (78)
T ss_dssp             CCHHHHHHHHTT-STTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTCGGGGGGT
T ss_pred             CCHHHHHHHHhc-CCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHhcCChhHHHH
Confidence            899999999994 7899999999999999999999999999999999999999999999999999988767653

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

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

Probab=99.41  E-value=9.1e-14  Score=101.67  Aligned_cols=65  Identities=20%  Similarity=0.297  Sum_probs=58.7

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .||.|.|.||||.. |+..+||+||..++.++++.||.+|+..|++.|..++||||+++||..|++
T Consensus         2 ~fP~srVkkimk~~-~~~~~is~~A~~~~~~a~E~Fi~~l~~~A~~~a~~~krktI~~~dl~~ai~   66 (66)
T d1jfia_           2 RFPPARIKKIMQTD-EEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQCIE   66 (66)
T ss_dssp             CCCHHHHHHHHTTS-TTCCCBCTTHHHHHHHHHHHHHHHHHHHHHHHHHTC---CBCHHHHHTTCC
T ss_pred             CCChHHHHHHHhcC-CccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHhC
Confidence            58999999999977 788899999999999999999999999999999999999999999998863

>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=99.37  E-value=2.3e-13  Score=99.66  Aligned_cols=65  Identities=29%  Similarity=0.376  Sum_probs=57.5

Q ss_pred             hhccch-hhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhc
Q psy3459         114 DVFQSS-GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL  180 (296)
Q Consensus       114 ~Lf~~s-~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~L  180 (296)
                      +|+.++ .++++...+  .+||+||.++|.+|+.+||.+|+.+|+++|..+|||||+++||..||+.|
T Consensus         3 eLP~a~I~ri~k~~~~--~ris~ea~~~l~~~~e~fi~~l~~~a~~~a~~~kRkTi~~~DV~~Alk~~   68 (68)
T d1htaa_           3 ELPIAPIGRIIKNAGA--ERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARKMF   68 (68)
T ss_dssp             CSCHHHHHHHHHHTTC--SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHTC
T ss_pred             cCcHHHHHHHHHHCCc--chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHhC
Confidence            466644 777777644  57999999999999999999999999999999999999999999999865

>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=99.35  E-value=3.4e-13  Score=98.36  Aligned_cols=63  Identities=21%  Similarity=0.328  Sum_probs=56.1

Q ss_pred             hhccc-hhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchh
Q psy3459         114 DVFQS-SGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS  178 (296)
Q Consensus       114 ~Lf~~-s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~  178 (296)
                      +|+.+ ++|+|+...+  .+||+||.+++.+|+.+||.+|+.+|+++|...|||||+++||..||+
T Consensus         2 ~LP~a~I~rI~k~~~~--~ris~ea~~~l~~a~e~Fi~~l~~~a~~~a~~~~RKTI~~~Dv~~Al~   65 (66)
T d1ku5a_           2 ELPIAPVDRLIRKAGA--ERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIK   65 (66)
T ss_dssp             CSCHHHHHHHHHHTTC--SEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHT
T ss_pred             CCCHHHHHHHHHhCcc--cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHh
Confidence            45554 4777777654  589999999999999999999999999999999999999999999986

>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=99.30  E-value=1e-12  Score=98.59  Aligned_cols=67  Identities=19%  Similarity=0.240  Sum_probs=61.6

Q ss_pred             hhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCccch
Q psy3459         119 SGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYV  186 (296)
Q Consensus       119 s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~~yv  186 (296)
                      +.++|| ..|+..+||+||..++++|+..||.||+.+|++.|..++||||+++||..|++..++-+|.
T Consensus         6 VkrImK-~~~~~~~is~ea~~~i~~a~E~Fi~~l~~~A~~~a~~~~rkti~~~dl~~av~~~~~~~FL   72 (78)
T d1n1jb_           6 IKKIMK-LDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAITKFDQFDFL   72 (78)
T ss_dssp             HHHHHT-TSTTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTCGGGGGG
T ss_pred             HHHHHh-cCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHhcCChhHHH
Confidence            466666 5899999999999999999999999999999999999999999999999999998866664

>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=99.22  E-value=9e-12  Score=104.43  Aligned_cols=70  Identities=21%  Similarity=0.295  Sum_probs=65.4

Q ss_pred             CccccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhh
Q psy3459           4 REQDRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA   75 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~   75 (296)
                      +.+++.||+|+|.||||+.  +..+||+||..+|+++++.|+..|+.+|+.+|.+++||||+++||..||..
T Consensus        74 ~~~~~~fp~a~IkRi~k~~--g~~ris~dA~~~l~~~~E~fi~~l~~~A~~~a~~~kRkTI~~~DI~~Av~~  143 (151)
T d1f1ea_          74 DYDGELFGRATVRRILKRA--GIERASSDAVDLYNKLICRATEELGEKAAEYADEDGRKTVQGEDVEKAITY  143 (151)
T ss_dssp             TCCSCCCCHHHHHHHHHHT--TCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             ccccCccCHHHHHHHHHcC--CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHH
Confidence            4567789999999999986  667999999999999999999999999999999999999999999999864

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

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

Probab=99.05  E-value=7e-11  Score=86.01  Aligned_cols=58  Identities=10%  Similarity=0.184  Sum_probs=50.6

Q ss_pred             hhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchh
Q psy3459         120 GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS  178 (296)
Q Consensus       120 ~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~  178 (296)
                      .++||. .|+..+||+||..++.+|+..||++|+..|++.|..++||||+++||..|++
T Consensus         9 kkimk~-~~~~~~is~~A~~~~~~a~E~Fi~~l~~~A~~~a~~~krktI~~~dl~~ai~   66 (66)
T d1jfia_           9 KKIMQT-DEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQCIE   66 (66)
T ss_dssp             HHHHTT-STTCCCBCTTHHHHHHHHHHHHHHHHHHHHHHHHHTC---CBCHHHHHTTCC
T ss_pred             HHHHhc-CCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHhC
Confidence            666665 4889999999999999999999999999999999999999999999999864

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

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

Probab=99.02  E-value=2.2e-10  Score=87.11  Aligned_cols=68  Identities=16%  Similarity=0.288  Sum_probs=64.9

Q ss_pred             cCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcC
Q psy3459           8 RFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALG   77 (296)
Q Consensus         8 ~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lg   77 (296)
                      ..+|++.|.||++.+  +..+||+|+.+.+..+.+.|+..|..+|...|.+++||||+++||..||+..|
T Consensus         8 ~gI~k~~i~Riar~~--Gv~ris~d~~~~l~~~l~~~l~~i~~~a~~~~~hakRKTvt~~DV~~Alkr~g   75 (82)
T d2huec1           8 QGITKPAIRRLARRG--GVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQG   75 (82)
T ss_dssp             CSSCHHHHHHHHHHT--TCCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTTC
T ss_pred             cCcCHHHHHHHHHHc--CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHhcC
Confidence            469999999999998  77799999999999999999999999999999999999999999999999876

>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=98.14  E-value=1.1e-06  Score=66.22  Aligned_cols=64  Identities=17%  Similarity=0.248  Sum_probs=55.3

Q ss_pred             cch-hhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCC
Q psy3459         117 QSS-GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGF  182 (296)
Q Consensus       117 ~~s-~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF  182 (296)
                      .++ .|+++..  .-.+||+|+.+.+..+...|+.-|..+|..+|...+||||+++||..||+.+|=
T Consensus        12 k~~i~Riar~~--Gv~ris~d~~~~l~~~l~~~l~~i~~~a~~~~~hakRKTvt~~DV~~Alkr~g~   76 (82)
T d2huec1          12 KPAIRRLARRG--GVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGR   76 (82)
T ss_dssp             HHHHHHHHHHT--TCCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTTCE
T ss_pred             HHHHHHHHHHc--CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHhcCC
Confidence            545 4555443  335799999999999999999999999999999999999999999999998863

>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=98.12  E-value=2.3e-06  Score=66.32  Aligned_cols=72  Identities=14%  Similarity=0.163  Sum_probs=65.0

Q ss_pred             CccccCCchhHHHHHHHhhCC---CCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhh
Q psy3459           4 REQDRFLPIANVAKIMKKAIP---ESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA   75 (296)
Q Consensus         4 ~~~d~~LP~A~I~RIiK~~LP---~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~   75 (296)
                      +..++.+|+++..|++++...   .+.+++.+|..+||++++.|+--+-..||-.|.|.+|.||++.|+.-|..-
T Consensus        16 kst~lLIpk~pF~RLVRei~~~~~~~~r~~~~Al~aLQea~E~yLv~lfeda~~~a~HakRvTl~~kD~~Larri   90 (95)
T d1tzyc_          16 KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRI   90 (95)
T ss_dssp             HCCSCCSCHHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             CCcccccccccHHHHHHHHHHhcCCCCEeeHHHHHHHHHHHHHHHHHHHHHhHHHHHhcCCCcCCHHHHHHHHHH
Confidence            346789999999999999863   468999999999999999999999999999999999999999999887643

>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=97.97  E-value=5.6e-06  Score=60.68  Aligned_cols=60  Identities=10%  Similarity=0.131  Sum_probs=51.9

Q ss_pred             CCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHh-cCCCccCcccHHHHhhhcCCCcchH
Q psy3459          24 PESGKIAKDARECVQECVSEFISFITSEASDRCHL-EKRKTINGEDILFAMSALGFDSYVE   83 (296)
Q Consensus        24 P~~~rISkDA~~al~~~a~eFI~~las~An~~a~~-~~RKTI~~eDVl~AL~~lgF~~yv~   83 (296)
                      |+-.+||.||.-++.++++.||.+|+.+|...+.. .+||||+.+||-.|...-+--+|..
T Consensus         5 ~dv~~is~ea~~lvskAtElFi~~L~~~a~~~a~~~~~~ktl~~~dl~~aV~~~~~f~FL~   65 (72)
T d2byka1           5 MDTGLITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPGEALKYEHLSQVVNKNKNLEFLL   65 (72)
T ss_dssp             SSCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCEECHHHHHHHHHTCSTTGGGT
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCccccHHHHHHHHccCchhhHHH
Confidence            56678999999999999999999999999888864 5569999999999998777656654

>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=97.96  E-value=6.7e-06  Score=69.77  Aligned_cols=66  Identities=18%  Similarity=0.182  Sum_probs=61.0

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.||.+.|.|++|+.  ...|||.+|...|....+.+...|...|...|.+.+|+||+++||..|+.
T Consensus        97 gL~fPV~rv~rlLk~~--~a~RVs~~A~vyLaavLEyl~aeILelAgn~a~~~krkrItp~dI~lAi~  162 (172)
T d1q9ca_          97 PLSLPVEKIHPLLKEV--LGYKIDHQVSVYIVAVLEYISADILKLAGNYVRNIRHYEITKQDIKVAMC  162 (172)
T ss_dssp             --CCCHHHHHHHHHHH--HSSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSBCCHHHHHHHHH
T ss_pred             CceecHHHHHHHHHhc--cccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCceecHHHHHHHHh
Confidence            4789999999999998  45699999999999999999999999999999999999999999999985

>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=97.74  E-value=0.00031  Score=59.25  Aligned_cols=145  Identities=16%  Similarity=0.153  Sum_probs=104.2

Q ss_pred             CchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHH
Q psy3459          10 LPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYL   89 (296)
Q Consensus        10 LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L   89 (296)
                      +=...|.|+.+++-|+- .|+.+|.+.|...+-.....|       |   ...+.|..||-.++..+.=+..   .+-.+
T Consensus        17 ~f~~~i~KVl~qvhP~l-~i~~~Al~~i~~~i~~ll~~L-------~---~~~p~sv~dVe~~v~~~fp~~i---~~~ai   82 (172)
T d1q9ca_          17 LLVPALKKVQGQVHPTL-ESNDDALQYVEELILQLLNML-------C---QAQPRSASDVEERVQKSFPHPI---DKWAI   82 (172)
T ss_dssp             SSHHHHHHHHHHHCSSS-BCCHHHHHHHHHHHHHHHHHH-------H---TTCCCSTTHHHHHHHHSSCTTH---HHHHH
T ss_pred             HHHHHHHHHHHHhCCCC-CcCHHHHHHHHHHHHHHHHHH-------H---ccCCccHHHHHHHHHHhCCchH---HHHHH
Confidence            33567999999999985 699999999887664443333       3   3668899999999876644332   33334


Q ss_pred             HHHHHHhccccccchhhhhhhhhhhhcc--chhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCc
Q psy3459          90 QKYREATKGEKSVNCEVYQEISVEDVFQ--SSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKT  167 (296)
Q Consensus        90 ~~~re~~k~kk~~~~e~~~~~~~e~Lf~--~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKT  167 (296)
                      .+-+.....+++|.         .-.|+  .+.|++|+..  .-+||.+|...+....-.+..-|.-.|-..|...+|+|
T Consensus        83 ~~a~~~~~srs~ra---------gL~fPV~rv~rlLk~~~--a~RVs~~A~vyLaavLEyl~aeILelAgn~a~~~krkr  151 (172)
T d1q9ca_          83 ADAQSAIEKRKRRN---------PLSLPVEKIHPLLKEVL--GYKIDHQVSVYIVAVLEYISADILKLAGNYVRNIRHYE  151 (172)
T ss_dssp             HHHHHHHC-----------------CCCHHHHHHHHHHHH--SSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSB
T ss_pred             HHHHHHHhcccccc---------CceecHHHHHHHHHhcc--ccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCce
Confidence            44444333333221         12355  3477787763  56999999999999999999999999999999999999


Q ss_pred             ccchhHhhchhh
Q psy3459         168 INGEDILFAMSA  179 (296)
Q Consensus       168 I~~eDVl~AL~~  179 (296)
                      |+++||-.|+..
T Consensus       152 Itp~dI~lAi~n  163 (172)
T d1q9ca_         152 ITKQDIKVAMCA  163 (172)
T ss_dssp             CCHHHHHHHHHT
T ss_pred             ecHHHHHHHHhC
Confidence            999999999864

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

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

Probab=97.30  E-value=0.00024  Score=54.33  Aligned_cols=62  Identities=31%  Similarity=0.406  Sum_probs=58.0

Q ss_pred             HHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhc
Q psy3459          14 NVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL   76 (296)
Q Consensus        14 ~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~l   76 (296)
                      -|+|++|+.-|+ ..||..|...|...+.....-|+.+|...|...+|+||+..+|..|+.-+
T Consensus         8 Yi~kVLKqVhp~-~giS~kam~imnsfvndiferIa~EA~~La~~~kr~TitsreIqtAvrL~   69 (92)
T d1tzyb_           8 YVYKVLKQVHPD-TGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLL   69 (92)
T ss_dssp             HHHHHHHHHCTT-CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHH
T ss_pred             HHHHHHHhhCCC-CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHH
Confidence            589999999988 69999999999999999999999999999999999999999999998644

>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=97.20  E-value=0.00022  Score=51.82  Aligned_cols=60  Identities=8%  Similarity=0.101  Sum_probs=50.0

Q ss_pred             CCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhc-CCCcccchhHhhchhhcCCccch
Q psy3459         127 NGQNETIAKDARECVQECVSEFISFITSEASDRCHLE-KRKTINGEDILFAMSALGFDSYV  186 (296)
Q Consensus       127 lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~-kRKTI~~eDVl~AL~~LgF~~yv  186 (296)
                      -|+--.||.||--++.+|+-.||.+|+.+|...+... ++|||+.+||-.|...-+==+|.
T Consensus         4 d~dv~~is~ea~~lvskAtElFi~~L~~~a~~~a~~~~~~ktl~~~dl~~aV~~~~~f~FL   64 (72)
T d2byka1           4 SMDTGLITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPGEALKYEHLSQVVNKNKNLEFL   64 (72)
T ss_dssp             SSSCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCEECHHHHHHHHHTCSTTGGG
T ss_pred             CHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCccccHHHHHHHHccCchhhHH
Confidence            4556689999999999999999999999998888654 55999999999998876544443

>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=96.53  E-value=0.0044  Score=45.32  Aligned_cols=65  Identities=15%  Similarity=0.334  Sum_probs=59.3

Q ss_pred             CchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhh
Q psy3459          10 LPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA   75 (296)
Q Consensus        10 LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~   75 (296)
                      |-+..+.-++++.-|+ ..+..|+-+++.+.|..||.-++..|...|++.+-.||...||.-.|++
T Consensus         4 l~K~~L~eLv~~idp~-~~ld~~vee~ll~iADdFV~~V~~~ac~lAKhR~s~~le~kDvql~LeR   68 (74)
T d1h3ob_           4 LTKKKLQDLVREVDPN-EQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQLHLER   68 (74)
T ss_dssp             SCHHHHHHHHHHHCSS-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHhCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcHHHHHHHHHh
Confidence            5567889999988765 5999999999999999999999999999999999999999999888764

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

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

Probab=96.46  E-value=0.0043  Score=46.89  Aligned_cols=68  Identities=13%  Similarity=0.190  Sum_probs=60.1

Q ss_pred             CCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcC-CCccCcccHHHHhhhcCC
Q psy3459           9 FLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEK-RKTINGEDILFAMSALGF   78 (296)
Q Consensus         9 ~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~-RKTI~~eDVl~AL~~lgF   78 (296)
                      .||++.|.|||...++  ..||.....++.-.+.+||--|-.+|.+++...+ ..-|.|+||-.|...|.-
T Consensus        16 ~~~K~~vkrl~~~~~g--~sv~~~v~i~v~giaKvFvGEiVE~A~~V~~~~~e~~PL~P~HireA~rrl~~   84 (89)
T d1bh9b_          16 AFPKAAIKRLIQSITG--TSVSQNVVIAMSGISKVFVGEVVEEALDVCEKWGEMPPLQPKHMREAVRRLKS   84 (89)
T ss_dssp             CCCHHHHHHHHHHHHS--SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSSCCHHHHHHHHHHHHH
T ss_pred             hCCHHHHHHHHHHHcC--CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCcHHHHHHHHHHHH
Confidence            5999999999999974  5899999999999999999999999999998644 558999999999876643

>d1tafb_ a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)62
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.32  E-value=0.0071  Score=43.75  Aligned_cols=65  Identities=20%  Similarity=0.236  Sum_probs=58.2

Q ss_pred             cCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           8 RFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         8 ~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      -.+|..+|.-|....  |-..+++|+...|..=++-=|..|..+|.....|.+|++++.+||-.||+
T Consensus         5 S~~~~esik~iAeS~--Gi~~l~de~a~~LA~DveYRl~eiiQeA~KFMrhskR~~Ltt~Did~ALk   69 (70)
T d1tafb_           5 SSISAESMKVIAESI--GVGSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLK   69 (70)
T ss_dssp             CCCCHHHHHHHHHHT--TCCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred             ccCCHHHHHHHHHHc--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcCcHHHHHHHHc
Confidence            358899998777765  44579999999999999999999999999999999999999999999985

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

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H2A
species: Human (Homo sapiens), variant H2A.Z [TaxId: 9606]

Probab=96.10  E-value=0.008  Score=46.38  Aligned_cols=68  Identities=13%  Similarity=0.185  Sum_probs=56.3

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.||.+.|.|++++.--...+|+..|...|.-+.+-+..-|---|...|...+++.|+++||..|+.
T Consensus         9 gL~FpVgrv~r~L~~~~~~~~rv~~~A~VyLaAvLEYL~aEILelagn~a~~~~~~rItpr~l~lai~   76 (103)
T d1f66c_           9 GLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR   76 (103)
T ss_dssp             TCSSCHHHHHHHHHHTSCSSCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHH
T ss_pred             CcccChHHHHHHHhccCccceecCCCceeeHHHHHHHHHHHHHHHhhhhhccCCCCeeechhhhcccc
Confidence            57899999999999875444579999999888876666666666677778899999999999999975

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

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

Probab=95.91  E-value=0.009  Score=47.43  Aligned_cols=109  Identities=11%  Similarity=0.084  Sum_probs=70.5

Q ss_pred             cccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHHHHHhccccccchhhh
Q psy3459          28 KIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVY  107 (296)
Q Consensus        28 rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~re~~k~kk~~~~e~~  107 (296)
                      +.|..++.+|..            |.+.|...+...|+++||+.||=.  .++  ..+..+|+.+               
T Consensus         2 kfT~~a~~~l~~------------A~~~A~~~~~~~i~~~HlL~all~--~~~--~~~~~iL~~~---------------   50 (145)
T d1qvra1           2 RWTQAAREALAQ------------AQVLAQRMKHQAIDLPHLWAVLLK--DER--SLAWRLLEKA---------------   50 (145)
T ss_dssp             CSCHHHHHHHHH------------HHHHHHHTTCSEECHHHHHHHHCC--SSS--SHHHHHHHTT---------------
T ss_pred             ccCHHHHHHHHH------------HHHHHHHcCCCcccHHHHHHHHHc--CCc--chHHHHHHHc---------------
Confidence            456677777754            888999999999999999999832  221  1122222211               


Q ss_pred             hhhhhhhhccchhhhhh-----hcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhc
Q psy3459         108 QEISVEDVFQSSGTILE-----QQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL  180 (296)
Q Consensus       108 ~~~~~e~Lf~~s~rimk-----~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~L  180 (296)
                       ++..++|-......+.     ...+.+..+|.+...+|.+            |..++.+-|...|+++|+|-||-+-
T Consensus        51 -gvd~~~l~~~l~~~l~~~p~~~~~~~~~~~s~~l~~il~~------------A~~~a~~~gd~~Is~ehLllal~~~  115 (145)
T d1qvra1          51 -GADPKALKELQERELARLPKVEGAEVGQYLTSRLSGALNR------------AEGLMEELKDRYVAVDTLVLALAEA  115 (145)
T ss_dssp             -SSCHHHHHHHHHHHHHTSCCCCGGGTTCEECHHHHHHHHH------------HHHHHHTTTCSSCCHHHHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHhhcccccCCCcccCCCCHHHHHHHHH------------HHHHHHHcCCccccHHHHHHHHHhc
Confidence             1111122111111111     1123467799999999987            8889999999999999999998654

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

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

Probab=95.56  E-value=0.0057  Score=47.43  Aligned_cols=113  Identities=14%  Similarity=0.204  Sum_probs=68.9

Q ss_pred             cccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHHHHHhccccccchhhh
Q psy3459          28 KIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVY  107 (296)
Q Consensus        28 rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~re~~k~kk~~~~e~~  107 (296)
                      ++|++...+|+            .|...|...+..-|+++|++.||  +.=++    ....+..+    ...   .....
T Consensus         1 m~s~~l~~~l~------------~A~~~A~~~~h~~i~~EHLL~aL--l~~~~----~~~~l~~~----~~~---~~~l~   55 (142)
T d1k6ka_           1 MLNQELELSLN------------MAFARAREHRHEFMTVEHLLLAL--LSNPS----AREALEAC----SVD---LVALR   55 (142)
T ss_dssp             CBCHHHHHHHH------------HHHHHHHHHTBSEECHHHHHHHH--TTCHH----HHHHHHHT----TCC---HHHHH
T ss_pred             CCCHHHHHHHH------------HHHHHHHHcCCCcccHHHHHHHH--Hhchh----HHHHHHHc----CCc---hhhhH
Confidence            35666666664            58899999999999999999998  32111    11111111    000   00111


Q ss_pred             hhhhhhhhccch-hhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         108 QEISVEDVFQSS-GTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       108 ~~~~~e~Lf~~s-~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      ..+.  +..... ...-....+.+..+|.++..++.+            |-..|...+..-|+++|+|-||=.
T Consensus        56 ~~~~--~~~~~~~~~~~~~~~~~~~~~s~~l~~il~~------------A~~~a~~~~~~~i~~ehlLlall~  114 (142)
T d1k6ka_          56 QELE--AFIEQTTPVLPASEEERDTQPTLSFQRVLQR------------AVFHVQSSGRNEVTGANVLVAIFS  114 (142)
T ss_dssp             HHHH--HHHHHHSCBCCSSCSCCSCEECHHHHHHHHH------------HHHHHHSSSCSCBCHHHHHHHHTT
T ss_pred             HHHH--HHHHhcCCCCCccccccccccCHHHHHHHHH------------HHHHHHHcCCCcchHHHHHHHHHH
Confidence            1111  111110 111112344678899999999988            778899999999999999999744

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

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: macro-H2A.1, histone domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.42  E-value=0.021  Score=44.20  Aligned_cols=67  Identities=18%  Similarity=0.268  Sum_probs=55.2

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.||.+.|.|++|+.-. ..||+..|...+.-+.+-....|---|...|...+++.|++.||..|+.
T Consensus         9 gL~FpV~ri~r~Lk~~~~-~~rv~~~apVylaAVLEYL~aEILELAgn~a~~~k~~rItprhi~lair   75 (106)
T d1u35c1           9 GVIFPVGRMLRYIKKGHP-KYRIGVGAPVYMAAVLEYLTAEILELAVNAARDNKKGRVTPRHILLAVA   75 (106)
T ss_dssp             TCSSCHHHHHHHHHHHST-TSEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             CcccCHHHHHHHHhCCCC-ccccCCCCchhHHHHHHHHHHHHHHHHHHHHHHcCCCeeecchhhhccc
Confidence            578999999999998643 4699999998887766666666666677778889999999999999974

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

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

Probab=95.30  E-value=0.043  Score=42.02  Aligned_cols=113  Identities=9%  Similarity=0.070  Sum_probs=65.2

Q ss_pred             cccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCCcchHHHHHHHHHHHHHhccccccchhhh
Q psy3459          28 KIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFDSYVEPLKIYLQKYREATKGEKSVNCEVY  107 (296)
Q Consensus        28 rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~~yv~~l~~~L~~~re~~k~kk~~~~e~~  107 (296)
                      +.+..++.+|..            |...|...+...|+++||+.||=.-+= ..   +...|+.+.-    ..   ....
T Consensus         2 kfT~~~~~~l~~------------A~~~A~~~~h~~v~~eHlL~all~~~~-~~---~~~iL~~~g~----d~---~~~~   58 (139)
T d1khya_           2 RLTNKFQLALAD------------AQSLALGHDNQFIEPLHLMSALLNQEG-GS---VSPLLTSAGI----NA---GQLR   58 (139)
T ss_dssp             CBCHHHHHHHHH------------HHHHHHHTTCSSBCHHHHHHHHHTCTT-CS---HHHHHHHHTC----CH---HHHH
T ss_pred             ccCHHHHHHHHH------------HHHHHHHcCCCcccHHHHHHHHHhCcc-cH---HHHHHHHcCC----cH---HHHH
Confidence            567777777754            888999999999999999999843111 11   1222222210    00   0000


Q ss_pred             hhhhhhhhccchhhhhhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         108 QEISVEDVFQSSGTILEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       108 ~~~~~e~Lf~~s~rimk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      ..+.  ..+..... . ...++...+|.++..++.+            |...+...+...|+++|+|-||=+
T Consensus        59 ~~~~--~~l~~~p~-~-~~~~~~~~~s~~~~~vl~~------------A~~~a~~~~d~~I~~ehlLlall~  114 (139)
T d1khya_          59 TDIN--QALNRLPQ-V-EGTGGDVQPSQDLVRVLNL------------CDKLAQKRGDNFISSELFVLAALE  114 (139)
T ss_dssp             HHHH--HHHTTSCC-C--------CBCHHHHHHHHH------------HHHHHHHHTCSSBCHHHHHHHHHT
T ss_pred             HHHH--HHhhcccc-c-cCccccccccHHHHHHHHH------------HHHHHHHcCCCeecHHHHHHHHHc
Confidence            0110  00110000 0 0123456788888888776            778888899999999999999853

>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=95.28  E-value=0.011  Score=44.85  Aligned_cols=58  Identities=28%  Similarity=0.323  Sum_probs=51.7

Q ss_pred             hhhcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhc
Q psy3459         123 LEQQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSAL  180 (296)
Q Consensus       123 mk~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~L  180 (296)
                      +-++.-|+..||+.|...|..-......-|+.+|...|.-.+|+||+..+|..|..-+
T Consensus        12 VLKqVhp~~giS~kam~imnsfvndiferIa~EA~~La~~~kr~TitsreIqtAvrL~   69 (92)
T d1tzyb_          12 VLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLL   69 (92)
T ss_dssp             HHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHH
T ss_pred             HHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHH
Confidence            3345556789999999999999999999999999999999999999999999998754

>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=94.83  E-value=0.016  Score=44.04  Aligned_cols=52  Identities=19%  Similarity=0.128  Sum_probs=47.7

Q ss_pred             CCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchh
Q psy3459         127 NGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS  178 (296)
Q Consensus       127 lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~  178 (296)
                      ..++.+++.+|.++||+++-.|+--+-..||-.|...||.||++.|+--|..
T Consensus        38 ~~~~~r~~~~Al~aLQea~E~yLv~lfeda~~~a~HakRvTl~~kD~~Larr   89 (95)
T d1tzyc_          38 FKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR   89 (95)
T ss_dssp             HCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             cCCCCEeeHHHHHHHHHHHHHHHHHHHHHhHHHHHhcCCCcCCHHHHHHHHH
Confidence            4568999999999999999999999999999999999999999999976654

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

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

Probab=94.46  E-value=0.059  Score=41.60  Aligned_cols=67  Identities=13%  Similarity=0.209  Sum_probs=51.3

Q ss_pred             ccCCchhHHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459           7 DRFLPIANVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus         7 d~~LP~A~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .+.+|.+.|.|++|+.-- .-||+..|...+.-..+-....|---|...|...+++-|++.|+..|+.
T Consensus        10 gL~FpV~rv~r~Lk~~~~-~~rv~~~apVylaAVLEYLtaEiLELAgn~a~~~k~~rItPrhi~lAir   76 (106)
T d1tzya_          10 GLQFPVGRVHRLLRKGNY-AERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIR   76 (106)
T ss_dssp             TCSSCHHHHHHHHHHTTS-SSEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             CccCChHHHHHHHHcCcc-ccccCCCchHHHHHHHHHHHHHHHHHhhHHHHhcCCceecchhhhhccc
Confidence            468999999999999643 3599999988776644433344444466677889999999999999974

>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=93.93  E-value=0.04  Score=40.04  Aligned_cols=55  Identities=18%  Similarity=0.334  Sum_probs=50.1

Q ss_pred             hcCCCccccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         125 QQNGQNETIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       125 ~~lp~~~~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      ++..|+..+..|+.+++.+.|-.||.-+++.|-..|+-.+-+||.+.||.-.|+.
T Consensus        14 ~~idp~~~ld~~vee~ll~iADdFV~~V~~~ac~lAKhR~s~~le~kDvql~LeR   68 (74)
T d1h3ob_          14 REVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQLHLER   68 (74)
T ss_dssp             HHHCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHHH
T ss_pred             HHhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcHHHHHHHHHh
Confidence            4456888999999999999999999999999999999999999999999877764

>d1tafa_ a.22.1.3 (A:) TAF(II)42 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)42
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=93.67  E-value=0.14  Score=36.50  Aligned_cols=59  Identities=17%  Similarity=0.237  Sum_probs=49.9

Q ss_pred             HHHHHHHhhCCCCCcccHHHHHHHHHHHHHHHHHHHHHhhHHHHhcCCCccCcccHHHHhh
Q psy3459          14 NVAKIMKKAIPESGKIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS   74 (296)
Q Consensus        14 ~I~RIiK~~LP~~~rISkDA~~al~~~a~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~   74 (296)
                      .|.-|+|+.  +-.....-..-.|.+.+-.++.-|-..|.-++.|+||++|+++||-.|++
T Consensus         6 ~i~~iL~~~--GV~~yeprV~~qlLef~yRYtt~VL~DA~vys~HA~k~~id~dDVkLAi~   64 (68)
T d1tafa_           6 VIMSILKEL--NVQEYEPRVVNQLLEFTFRYVTSILDDAKVYANHARKKTIDLDDVRLATE   64 (68)
T ss_dssp             HHHHHHHHT--TCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHc--CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Confidence            566677765  44556777777888999999999999999999999999999999999986

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=90.64  E-value=0.41  Score=38.51  Aligned_cols=61  Identities=18%  Similarity=0.211  Sum_probs=43.1

Q ss_pred             HHHHhhCCCCCcccHHHHHHHHHHH-------------HHHHHHHHHHhhHHHHhcCCCccCcccHHHHhhhcCCC
Q psy3459          17 KIMKKAIPESGKIAKDARECVQECV-------------SEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD   79 (296)
Q Consensus        17 RIiK~~LP~~~rISkDA~~al~~~a-------------~eFI~~las~An~~a~~~~RKTI~~eDVl~AL~~lgF~   79 (296)
                      +.++.... ...++.++.+.+.+.+             ...++ +...|...|..+++++|+.+||..|++++-|+
T Consensus       203 ~r~~~~~~-~~~~~~~~l~~ia~~~~~~~~~~~~~G~~R~a~~-ll~~a~~~A~~~~~~~I~~edv~~A~~~~~~g  276 (276)
T d1fnna2         203 DRAKAGLA-EGSYSEDILQMIADITGAQTPLDTNRGDARLAID-ILYRSAYAAQQNGRKHIAPEDVRKSSKEVLFG  276 (276)
T ss_dssp             HHHHHHBC-TTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHH-HHHHHHHHHHHTTCSSCCHHHHHHHHHHHSCC
T ss_pred             HHHHHhcc-cccccHHHHHHHHHHhhhhhhhhhcCCCHHHHHH-HHHHHHHHHHHcCCCCcCHHHHHHHHHHHhCC
Confidence            33444433 3468888888776643             12222 33567888999999999999999999998774

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

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

Probab=90.20  E-value=0.45  Score=38.48  Aligned_cols=61  Identities=10%  Similarity=0.039  Sum_probs=42.6

Q ss_pred             HHHHHHHhhCCCCCcccHHHHHHHHHHHHH---------HHHHHHHHhhHHHHhcCCCccCcccHHHHhhh
Q psy3459          14 NVAKIMKKAIPESGKIAKDARECVQECVSE---------FISFITSEASDRCHLEKRKTINGEDILFAMSA   75 (296)
Q Consensus        14 ~I~RIiK~~LP~~~rISkDA~~al~~~a~e---------FI~~las~An~~a~~~~RKTI~~eDVl~AL~~   75 (296)
                      .+.+.++..+.+ ..+++++.+.+.+-+..         -+..+...|...|..+++.+|+.+||.+|+++
T Consensus       217 Il~~r~~~~~~~-~~~~~~al~~ia~~~~~~~~~~gd~R~ai~~l~~a~~~A~~~~~~~It~~~V~~A~~e  286 (287)
T d1w5sa2         217 ILEQRAELGLRD-TVWEPRHLELISDVYGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSE  286 (287)
T ss_dssp             HHHHHHHHHBCT-TSCCHHHHHHHHHHHCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHH
T ss_pred             HHhhhHHHhhcc-CCCCHHHHHHHHHHHhccccCCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHhc
Confidence            334444444444 36889888887765421         23345567888999999999999999999864

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

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

Probab=85.87  E-value=0.49  Score=38.24  Aligned_cols=69  Identities=10%  Similarity=0.030  Sum_probs=46.0

Q ss_pred             hhhhhhccchhhhhhhcCCCccccchHHHHHHHHHHHH---------HHHHHHHHhhHHhhhcCCCcccchhHhhchhh
Q psy3459         110 ISVEDVFQSSGTILEQQNGQNETIAKDARECVQECVSE---------FISFITSEASDRCHLEKRKTINGEDILFAMSA  179 (296)
Q Consensus       110 ~~~e~Lf~~s~rimk~~lp~~~~iskdAkeai~~case---------FI~~lts~An~~c~~~kRKTI~~eDVl~AL~~  179 (296)
                      .+.+++..-...+++....+ ..++.++.+.+.+-+..         -+.-+-..|...|..+++.+|+.+||-+|+.+
T Consensus       209 y~~~el~~Il~~r~~~~~~~-~~~~~~al~~ia~~~~~~~~~~gd~R~ai~~l~~a~~~A~~~~~~~It~~~V~~A~~e  286 (287)
T d1w5sa2         209 YKSRELYTILEQRAELGLRD-TVWEPRHLELISDVYGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSE  286 (287)
T ss_dssp             CCHHHHHHHHHHHHHHHBCT-TSCCHHHHHHHHHHHCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHH
T ss_pred             CcHHHHHHHHhhhHHHhhcc-CCCCHHHHHHHHHHHhccccCCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHhc
Confidence            44455555444555444433 35788888887764421         22334456888999999999999999999864

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=85.18  E-value=0.66  Score=37.20  Aligned_cols=54  Identities=15%  Similarity=0.188  Sum_probs=40.9

Q ss_pred             CccccchHHHHHHHHHH-------------HHHHHHHHHHhhHHhhhcCCCcccchhHhhchhhcCCc
Q psy3459         129 QNETIAKDARECVQECV-------------SEFISFITSEASDRCHLEKRKTINGEDILFAMSALGFD  183 (296)
Q Consensus       129 ~~~~iskdAkeai~~ca-------------seFI~~lts~An~~c~~~kRKTI~~eDVl~AL~~LgF~  183 (296)
                      .+..++.++.+.|.+-+             ...++.+ ..|...|..+++.+|+.+||-.|++++-||
T Consensus       210 ~~~~~~~~~l~~ia~~~~~~~~~~~~~G~~R~a~~ll-~~a~~~A~~~~~~~I~~edv~~A~~~~~~g  276 (276)
T d1fnna2         210 AEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDIL-YRSAYAAQQNGRKHIAPEDVRKSSKEVLFG  276 (276)
T ss_dssp             CTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHH-HHHHHHHHHTTCSSCCHHHHHHHHHHHSCC
T ss_pred             ccccccHHHHHHHHHHhhhhhhhhhcCCCHHHHHHHH-HHHHHHHHHcCCCCcCHHHHHHHHHHHhCC
Confidence            44567888888776543             2333444 467788999999999999999999999885

>d1tafb_ a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)62
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=83.64  E-value=0.85  Score=32.40  Aligned_cols=47  Identities=23%  Similarity=0.275  Sum_probs=44.6

Q ss_pred             ccchHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcccchhHhhchh
Q psy3459         132 TIAKDARECVQECVSEFISFITSEASDRCHLEKRKTINGEDILFAMS  178 (296)
Q Consensus       132 ~iskdAkeai~~caseFI~~lts~An~~c~~~kRKTI~~eDVl~AL~  178 (296)
                      .++.|+...|..=+.-=|.-|.-+|....+..+|++++++||=.||+
T Consensus        23 ~l~de~a~~LA~DveYRl~eiiQeA~KFMrhskR~~Ltt~Did~ALk   69 (70)
T d1tafb_          23 SLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLK   69 (70)
T ss_dssp             CBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcCcHHHHHHHHc
Confidence            68999999999999999999999999999999999999999999885