Citrus Sinensis ID: 044287

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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-------19
Protein Sequence
MESDTKFVVSKMVDNTGAAGAGASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQDKASNSNSNININEEREEPAGSSYGADDEQITRNQALASISFKSNVNERSNSFNSRRY
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccHHHcccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccHHHHcHccHHHHHHHHHHccccccEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEcHHHHHHHHHHcccHHHHHHHHHHHHHHHcHcccccccccccccccccccccccccccccccccccccHcEEccEEEEEcccccccccccccccccc
Coil and Loop (DISEMBL)
MESDTKFVVSKMvdntgaagagassddggikeqerllpianVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERrktvngddiCWALgtlgfddyagpiRRYLHKYRELegeranqqdkasnsnsninineereepagssygaddeqiTRNQALASISFKSnvnersnsfnsrry
Flexible Loop (DISEMBL)
MESDTKFVVSKMvdntgaagagassddggikEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISfitseasekcrkerrktvngddicwalgtlgfddyagPIRRYLHKYRELEGeranqqdkasnsnsninineEREEPAGSSYGADDEQITRNQALAsisfksnvnersnsfnsrry
Low Complexity Region (SEG)
MESDTKFVVSKMVDNTgaagagassddggIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQDKAsnsnsnininEEREEPAGSSYGADDEQITRNQALASISFKSNVNERSNSFNSRRY
Disordered region (IsUnstruct)
***********************************LLPIANVGRIMKQILPANAK********MQECVSEFISFITS***********KTVNGDDICWALGTLGFDDYAGPIRRYLHKYR********************************************************************
Disordered Region (DISOPRED)
**********************************RLLPIANVGRIMKQILP*****SKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLH***********************************************************************
Disordered Region (DISEMBL)
MESDTKFVVSKMVDNTGA**********GIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEAS*********TVNGDDICWALGTLGFDDYAGPIRRYLHKYRELE*************NSNININE***********ADDEQITRNQALASISFKSNV************
Disordered Region (DISPRO)
****************************GIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELE********************************ADDEQITRNQALASISFKSNV************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MESDTKFVVSKMVDNTGAAGAGASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPxxxxxxxxxxxxxxxxxxxxxxxxxxxxININEEREEPAGSSYGADDEQITRNQALASISFKSNVNERSNSFNSRRY
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	188	2.2.26 [Sep-21-2011]
O82248	160	Nuclear transcription fac	yes	no	0.579	0.681	0.733	1e-45
Q9SIT9	215	Nuclear transcription fac	no	no	0.606	0.530	0.622	3e-40
O23310	161	Nuclear transcription fac	no	no	0.622	0.726	0.615	2e-39
O04027	139	Nuclear transcription fac	no	no	0.579	0.784	0.672	2e-39
Q9FGJ3	190	Nuclear transcription fac	no	no	0.515	0.510	0.711	9e-39
Q5QMG3	178	Nuclear transcription fac	no	no	0.558	0.589	0.628	2e-38
Q9SLG0	141	Nuclear transcription fac	no	no	0.654	0.872	0.588	4e-38
P25209	179	Nuclear transcription fac	N/A	no	0.510	0.536	0.677	5e-38
Q60EQ4	185	Nuclear transcription fac	no	no	0.510	0.518	0.677	7e-38
Q67XJ2	176	Nuclear transcription fac	no	no	0.510	0.545	0.666	1e-37

>sp|O82248|NFYB5_ARATH Nuclear transcription factor Y subunit B-5 OS=Arabidopsis thaliana GN=NFYB5 PE=2 SV=1

 Score =  182 bits (462), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 80/109 (73%), Positives = 93/109 (85%)

Query: 30  IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRK 89
           +KEQ+RLLPIANVGRIMK ILPANAK+SKEAKETMQECVSEFISF+T EAS+KC KE+RK
Sbjct: 49  VKEQDRLLPIANVGRIMKNILPANAKVSKEAKETMQECVSEFISFVTGEASDKCHKEKRK 108

Query: 90  TVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQDKASNSNS 138
           TVNGDDICWA+  LGFDDYA  +++YLH+YR LEGE+ N   K    +S
Sbjct: 109 TVNGDDICWAMANLGFDDYAAQLKKYLHRYRVLEGEKPNHHGKGGPKSS 157

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

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

 Score =  164 bits (415), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 71/114 (62%), Positives = 94/114 (82%)

Query: 15  NTGAAGAGASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISF 74
           N G+  +  ++++   KEQ+R LPIANVGRIMK++LP N KISK+AKET+QECVSEFISF
Sbjct: 19  NPGSPSSKTNNNNNNNKEQDRFLPIANVGRIMKKVLPGNGKISKDAKETVQECVSEFISF 78

Query: 75  ITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERAN 128
           +T EAS+KC++E+RKT+NGDDI WA+ TLGF+DY  P++ YL KYR+ EGE+ N
Sbjct: 79  VTGEASDKCQREKRKTINGDDIIWAITTLGFEDYVAPLKVYLCKYRDTEGEKVN 132

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  161 bits (408), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 72/117 (61%), Positives = 92/117 (78%)

Query: 12  MVDNTGAAGAGASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEF 71
           M D+   +G      +   +EQ+R LPIANV RIMK+ LPANAKISK+AKET+QECVSEF
Sbjct: 1   MADSDNDSGGHKDGGNASTREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEF 60

Query: 72  ISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERAN 128
           ISFIT EAS+KC++E+RKT+NGDD+ WA+ TLGF+DY  P++ YL KYRE+EGE+  
Sbjct: 61  ISFITGEASDKCQREKRKTINGDDLLWAMTTLGFEDYVEPLKVYLQKYREVEGEKTT 117

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

Arabidopsis thaliana (taxid: 3702)

>sp|O04027|NFYB4_ARATH Nuclear transcription factor Y subunit B-4 OS=Arabidopsis thaliana GN=NFYB4 PE=1 SV=1

 Score =  161 bits (408), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 74/110 (67%), Positives = 91/110 (82%), Gaps = 1/110 (0%)

Query: 30  IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRK 89
           + +++RLLPIANVGR+MKQILP+NAKISKEAK+T+QEC +EFISF+T EASEKC +E RK
Sbjct: 1   MTDEDRLLPIANVGRLMKQILPSNAKISKEAKQTVQECATEFISFVTCEASEKCHRENRK 60

Query: 90  TVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQDKASNSNSN 139
           TVNGDDI WAL TLG D+YA  + R+LHKYRE E ER  + +K SN + N
Sbjct: 61  TVNGDDIWWALSTLGLDNYADAVGRHLHKYREAERERT-EHNKGSNDSGN 109

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  159 bits (402), Expect = 9e-39,   Method: Compositional matrix adjust.
 Identities = 69/97 (71%), Positives = 86/97 (88%)

Query: 31  KEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKT 90
           +EQ+R LPIANV RIMK+ LPANAKISK+AKETMQECVSEFISF+T EAS+KC+KE+RKT
Sbjct: 26  REQDRFLPIANVSRIMKKALPANAKISKDAKETMQECVSEFISFVTGEASDKCQKEKRKT 85

Query: 91  VNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERA 127
           +NGDD+ WA+ TLGF+DY  P++ YL ++RE+EGER 
Sbjct: 86  INGDDLLWAMTTLGFEDYVEPLKVYLQRFREIEGERT 122

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  158 bits (399), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 66/105 (62%), Positives = 92/105 (87%)

Query: 21  AGASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEAS 80
           +G+    GG++EQ+R LPIAN+ RIMK+ +PAN KI+K+AKET+QECVSEFISF+TSEAS
Sbjct: 23  SGSPPRSGGVREQDRFLPIANISRIMKKAVPANGKIAKDAKETLQECVSEFISFVTSEAS 82

Query: 81  EKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGE 125
           +KC+KE+RKT+NG+D+ +A+GTLGF++Y  P++ YLHKYRE+ G+
Sbjct: 83  DKCQKEKRKTINGEDLLFAMGTLGFEEYVDPLKIYLHKYREVIGD 127

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

 Score =  157 bits (397), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 73/124 (58%), Positives = 95/124 (76%), Gaps = 1/124 (0%)

Query: 15  NTGAAGAGASSDDGG-IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFIS 73
           +T ++ AG   + GG ++EQ+R LPIAN+ RIMK+ LP N KI K+AK+T+QECVSEFIS
Sbjct: 3   DTPSSPAGDGGESGGSVREQDRYLPIANISRIMKKALPPNGKIGKDAKDTVQECVSEFIS 62

Query: 74  FITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQDKA 133
           FITSEAS+KC+KE+RKTVNGDD+ WA+ TLGF+DY  P++ YL +YRELEG+        
Sbjct: 63  FITSEASDKCQKEKRKTVNGDDLLWAMATLGFEDYLEPLKIYLARYRELEGDNKGSGKSG 122

Query: 134 SNSN 137
             SN
Sbjct: 123 DGSN 126

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  157 bits (396), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 65/96 (67%), Positives = 86/96 (89%)

Query: 30  IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRK 89
           ++EQ+R LPIAN+ RIMK+ +PAN KI+K+AKET+QECVSEFISFITSEAS+KC++E+RK
Sbjct: 29  VREQDRFLPIANISRIMKKAIPANGKIAKDAKETVQECVSEFISFITSEASDKCQREKRK 88

Query: 90  TVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGE 125
           T+NGDD+ WA+ TLGF+DY  P++ YL KYRE+EG+
Sbjct: 89  TINGDDLLWAMATLGFEDYIEPLKVYLQKYREMEGD 124

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 =  156 bits (395), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 65/96 (67%), Positives = 86/96 (89%)

Query: 30  IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRK 89
           ++EQ+R LPIAN+ RIMK+ +PAN KI+K+AKET+QECVSEFISFITSEAS+KC++E+RK
Sbjct: 36  VREQDRFLPIANISRIMKKAIPANGKIAKDAKETVQECVSEFISFITSEASDKCQREKRK 95

Query: 90  TVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGE 125
           T+NGDD+ WA+ TLGF+DY  P++ YL KYRE+EG+
Sbjct: 96  TINGDDLLWAMATLGFEDYIEPLKVYLQKYREMEGD 131

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

 Score =  155 bits (392), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 64/96 (66%), Positives = 85/96 (88%)

Query: 30  IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRK 89
           ++EQ+R LPIAN+ RIMK+ LP N KI+K+AKETMQECVSEFISF+TSEAS+KC++E+RK
Sbjct: 27  VREQDRFLPIANISRIMKRGLPLNGKIAKDAKETMQECVSEFISFVTSEASDKCQREKRK 86

Query: 90  TVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGE 125
           T+NGDD+ WA+ TLGF+DY  P++ YL +YRE+EG+
Sbjct: 87  TINGDDLLWAMATLGFEDYIDPLKVYLMRYREMEGD 122

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

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	188
224123212	150	predicted protein [Populus trichocarpa]	0.734	0.92	0.762	3e-57
255551711	158	ccaat-binding transcription factor subun	0.728	0.867	0.763	6e-57
147853040	175	hypothetical protein VITISV_021316 [Viti	0.824	0.885	0.658	1e-53
359477283	325	PREDICTED: uncharacterized protein LOC10	0.664	0.384	0.773	7e-53
297736862	138	unnamed protein product [Vitis vinifera]	0.664	0.905	0.773	1e-52
388523231	208	nuclear transcription factor Y subunit B	0.675	0.610	0.759	4e-52
356521877	121	PREDICTED: nuclear transcription factor	0.632	0.983	0.776	6e-50
356500286	147	PREDICTED: nuclear transcription factor	0.664	0.850	0.752	2e-49
356536735	145	PREDICTED: nuclear transcription factor	0.691	0.896	0.708	3e-49
388497560	129	unknown [Medicago truncatula]	0.617	0.899	0.794	6e-49

>gi|224123212|ref|XP_002330366.1| predicted protein [Populus trichocarpa] gi|222871570|gb|EEF08701.1| predicted protein [Populus trichocarpa]

 Score =  226 bits (577), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 109/143 (76%), Positives = 126/143 (88%), Gaps = 5/143 (3%)

Query: 12  MVDNTGAAGAGASSDDGGIK-EQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSE 70
           MVDN GA   GASSDDGG+K EQ+RLLPIANVGRIMKQILPANAKISKEAKETMQEC SE
Sbjct: 1   MVDNVGA---GASSDDGGVKLEQDRLLPIANVGRIMKQILPANAKISKEAKETMQECASE 57

Query: 71  FISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQ 130
           FISF+T EASEKCRKERRKTVNGDD+CWA+G LGFDDYAGP+RRYL +YRE+EG+RANQ+
Sbjct: 58  FISFVTGEASEKCRKERRKTVNGDDVCWAMGALGFDDYAGPLRRYLQRYREIEGDRANQE 117

Query: 131 DKASNSNSNININEEREEPAGSS 153
             A+ +N++I  ++E+E P  SS
Sbjct: 118 KPANANNTSI-ADQEKEAPPSSS 139

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255551711|ref|XP_002516901.1| ccaat-binding transcription factor subunit A, putative [Ricinus communis] gi|223543989|gb|EEF45515.1| ccaat-binding transcription factor subunit A, putative [Ricinus communis]

 Score =  225 bits (574), Expect = 6e-57,   Method: Compositional matrix adjust.
 Identities = 113/148 (76%), Positives = 127/148 (85%), Gaps = 11/148 (7%)

Query: 7   FVVSKMVDNTGAAGAGASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQE 66
           F+  +M DN GA+G   S+++GG K Q+RLLPIANVGRIMKQILP NAKISKEAKETMQE
Sbjct: 19  FLQQEMDDNVGASG---SNEEGGTKGQDRLLPIANVGRIMKQILPPNAKISKEAKETMQE 75

Query: 67  CVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGER 126
           CVSEFISF+TSEASEKCRKERRKTVNGDD+CWA+G LGFDDYAGP+RRYL +YRELEG+R
Sbjct: 76  CVSEFISFVTSEASEKCRKERRKTVNGDDVCWAMGALGFDDYAGPLRRYLQRYRELEGDR 135

Query: 127 ANQQDKASNSNSNININEEREEPAGSSY 154
           AN QDKA NSN+     EEREEP  SSY
Sbjct: 136 AN-QDKARNSNT-----EEREEP--SSY 155

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147853040|emb|CAN82321.1| hypothetical protein VITISV_021316 [Vitis vinifera]

 Score =  214 bits (546), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 112/170 (65%), Positives = 129/170 (75%), Gaps = 15/170 (8%)

Query: 18  AAGAGASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITS 77
           A G+  S++DG IKEQ+RLLPIANVGRIMKQILP NAKISKEAKETMQECVSEFISF+T 
Sbjct: 20  AGGSSVSAEDGIIKEQDRLLPIANVGRIMKQILPPNAKISKEAKETMQECVSEFISFVTG 79

Query: 78  EASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQDKASNSN 137
           EAS+KC KE+RKTVNGDDICWALGTLGFDDYA P++RYLH+YRELEGE+ANQ  KAS   
Sbjct: 80  EASDKCHKEKRKTVNGDDICWALGTLGFDDYAEPLKRYLHRYRELEGEKANQS-KAS--- 135

Query: 138 SNININEEREEPAGSSYGADDEQITRNQALASISFKSNVNERSNSFNSRR 187
                 EE +EP  S+Y  +         ++    K NV ERSNS  S+R
Sbjct: 136 ------EENDEP--SNYRGEPPM---KHTVSXAPLKFNVLERSNSSLSKR 174

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359477283|ref|XP_002275948.2| PREDICTED: uncharacterized protein LOC100256274 [Vitis vinifera]

 Score =  212 bits (539), Expect = 7e-53,   Method: Compositional matrix adjust.
 Identities = 99/128 (77%), Positives = 110/128 (85%), Gaps = 3/128 (2%)

Query: 12  MVDNTGAAGAGASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEF 71
           MVDN GA+   AS+DDG IKEQ+RLLPIANV RIMKQ LP NAKISKEAKETMQECVSEF
Sbjct: 1   MVDNPGAS---ASTDDGSIKEQDRLLPIANVSRIMKQTLPTNAKISKEAKETMQECVSEF 57

Query: 72  ISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQD 131
           ISF+T EASEKC+KERRKTVNGDDICWAL  LGFDDYAGP++RYL +YRELEG+R   Q+
Sbjct: 58  ISFVTGEASEKCKKERRKTVNGDDICWALAALGFDDYAGPLKRYLQRYRELEGDRVLNQE 117

Query: 132 KASNSNSN 139
           KA N+  N
Sbjct: 118 KAGNTEEN 125

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297736862|emb|CBI26063.3| unnamed protein product [Vitis vinifera]

 Score =  211 bits (536), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 99/128 (77%), Positives = 110/128 (85%), Gaps = 3/128 (2%)

Query: 12  MVDNTGAAGAGASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEF 71
           MVDN GA+   AS+DDG IKEQ+RLLPIANV RIMKQ LP NAKISKEAKETMQECVSEF
Sbjct: 1   MVDNPGAS---ASTDDGSIKEQDRLLPIANVSRIMKQTLPTNAKISKEAKETMQECVSEF 57

Query: 72  ISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQD 131
           ISF+T EASEKC+KERRKTVNGDDICWAL  LGFDDYAGP++RYL +YRELEG+R   Q+
Sbjct: 58  ISFVTGEASEKCKKERRKTVNGDDICWALAALGFDDYAGPLKRYLQRYRELEGDRVLNQE 117

Query: 132 KASNSNSN 139
           KA N+  N
Sbjct: 118 KAGNTEEN 125

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388523231|gb|AFK49668.1| nuclear transcription factor Y subunit B18 [Medicago truncatula]

 Score =  209 bits (533), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 101/133 (75%), Positives = 114/133 (85%), Gaps = 6/133 (4%)

Query: 12  MVDNTGAAGAGASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEF 71
           MVDN G +   +S+D+GGIKEQ+RLLPIANVGRIMKQILP NAK+SKEAKETMQECVSEF
Sbjct: 1   MVDNFGGS---SSNDNGGIKEQDRLLPIANVGRIMKQILPQNAKVSKEAKETMQECVSEF 57

Query: 72  ISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERA---N 128
           ISF+TSEASEKCRKERRKTVNGDDICWAL TLGFDDYA P+RRYLH+YRELE ++    N
Sbjct: 58  ISFVTSEASEKCRKERRKTVNGDDICWALATLGFDDYAEPMRRYLHRYRELEVDKINTNN 117

Query: 129 QQDKASNSNSNIN 141
           Q+ +  NS   IN
Sbjct: 118 QEIRGGNSPQEIN 130

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356521877|ref|XP_003529577.1| PREDICTED: nuclear transcription factor Y subunit B-5-like [Glycine max]

 Score =  202 bits (513), Expect = 6e-50,   Method: Compositional matrix adjust.
 Identities = 94/121 (77%), Positives = 108/121 (89%), Gaps = 2/121 (1%)

Query: 12  MVDNTGAAGAGASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEF 71
           MVDN G  G+ +++++ GI+EQ+RLLPIANVGRIMKQILP NAKISKE+KETMQECVSEF
Sbjct: 1   MVDNVG--GSSSNAENSGIREQDRLLPIANVGRIMKQILPPNAKISKESKETMQECVSEF 58

Query: 72  ISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQD 131
           ISF+TSEASEKCRKERRKTVNGDDICWALG+LGFDDYA P+RRYL +YRELE +R N   
Sbjct: 59  ISFVTSEASEKCRKERRKTVNGDDICWALGSLGFDDYAEPLRRYLQRYRELEVDRGNSPP 118

Query: 132 K 132
           K
Sbjct: 119 K 119

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356500286|ref|XP_003518964.1| PREDICTED: nuclear transcription factor Y subunit B-5-like [Glycine max]

 Score =  201 bits (510), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 94/125 (75%), Positives = 105/125 (84%)

Query: 15  NTGAAGAGASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISF 74
           N  AA +  S+ D  IKEQ+RLLPIANVGRIMKQILP NAKISKEAKETMQECVSEFISF
Sbjct: 18  NFTAAASDTSAQDEVIKEQDRLLPIANVGRIMKQILPPNAKISKEAKETMQECVSEFISF 77

Query: 75  ITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQDKAS 134
           +T EAS+KC KE+RKTVNGDDICWAL TLGFDDY+ P++RYLHKYRE EGERANQ    +
Sbjct: 78  VTGEASDKCHKEKRKTVNGDDICWALATLGFDDYSEPLKRYLHKYREFEGERANQNKGNN 137

Query: 135 NSNSN 139
           N+  N
Sbjct: 138 NTYEN 142

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356536735|ref|XP_003536891.1| PREDICTED: nuclear transcription factor Y subunit B-5-like [Glycine max]

 Score =  200 bits (508), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 97/137 (70%), Positives = 113/137 (82%), Gaps = 7/137 (5%)

Query: 9   VSKMVDNTG------AAGAGASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKE 62
           + K++D  G      A+ +G S+ DG IKEQ+RLLPIANVGRIMKQILP NAKISKEAKE
Sbjct: 5   IGKVLDREGFKYNFTASASGTSAQDGVIKEQDRLLPIANVGRIMKQILPPNAKISKEAKE 64

Query: 63  TMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYREL 122
           TMQE VSEFISF+T EAS+KC KE+RKTVNGDDICWAL TLGFDDY+ P++RYL+KYRE+
Sbjct: 65  TMQESVSEFISFVTGEASDKCHKEKRKTVNGDDICWALATLGFDDYSEPLKRYLYKYREM 124

Query: 123 EGERANQQDKASNSNSN 139
           EGERAN Q+K SN   N
Sbjct: 125 EGERAN-QNKGSNGYEN 140

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388497560|gb|AFK36846.1| unknown [Medicago truncatula]

 Score =  199 bits (505), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 93/117 (79%), Positives = 105/117 (89%), Gaps = 1/117 (0%)

Query: 12  MVDNTGAAGAGASSDDGGI-KEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSE 70
           M+DN     + ++ ++GGI KEQ+RLLPIANVGRIMKQILP NAKISKE+KETMQECVSE
Sbjct: 1   MMDNNVGGSSFSNDENGGIIKEQDRLLPIANVGRIMKQILPQNAKISKESKETMQECVSE 60

Query: 71  FISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERA 127
           FISF+TSEASEKCRKERRKTVNGDDICWALGTLGFDDYA P+RRYLH+YRELE +R 
Sbjct: 61  FISFVTSEASEKCRKERRKTVNGDDICWALGTLGFDDYAEPMRRYLHRYRELEVDRT 117

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	188
TAIR|locus:2043293	160	NF-YB5 ""nuclear factor Y, sub	0.547	0.643	0.766	2.8e-41
TAIR|locus:2054095	215	NF-YB7 ""nuclear factor Y, sub	0.521	0.455	0.704	3.5e-36
TAIR|locus:2168983	190	NF-YB2 ""nuclear factor Y, sub	0.510	0.505	0.718	7.2e-36
TAIR|locus:2129885	161	NF-YB3 ""nuclear factor Y, sub	0.510	0.596	0.718	1.5e-35
TAIR|locus:2036064	139	NF-YB4 ""nuclear factor Y, sub	0.505	0.683	0.736	6.5e-35
TAIR|locus:2083941	176	NF-YB10 ""nuclear factor Y, su	0.510	0.545	0.666	3.6e-34
TAIR|locus:2061789	173	NF-YB8 ""nuclear factor Y, sub	0.510	0.554	0.656	1.5e-33
TAIR|locus:2169028	234	NF-YB6 ""nuclear factor Y, sub	0.515	0.414	0.639	1.8e-32
DICTYBASE|DDB_G0279419	490	nfyB "putative histone-like tr	0.531	0.204	0.61	2.3e-29
UNIPROTKB|E1C5G6	152	NFYB "Nuclear transcription fa	0.510	0.631	0.618	4.4e-29

TAIR|locus:2043293 NF-YB5 ""nuclear factor Y, subunit B5"" [Arabidopsis thaliana (taxid:3702)]

 Score = 438 (159.2 bits), Expect = 2.8e-41, P = 2.8e-41
 Identities = 79/103 (76%), Positives = 91/103 (88%)

Query:    30 IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRK 89
             +KEQ+RLLPIANVGRIMK ILPANAK+SKEAKETMQECVSEFISF+T EAS+KC KE+RK
Sbjct:    49 VKEQDRLLPIANVGRIMKNILPANAKVSKEAKETMQECVSEFISFVTGEASDKCHKEKRK 108

Query:    90 TVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQDK 132
             TVNGDDICWA+  LGFDDYA  +++YLH+YR LEGE+ N   K
Sbjct:   109 TVNGDDICWAMANLGFDDYAAQLKKYLHRYRVLEGEKPNHHGK 151

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

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

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

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

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

 Score = 390 (142.3 bits), Expect = 3.5e-36, P = 3.5e-36
 Identities = 69/98 (70%), Positives = 86/98 (87%)

Query:    31 KEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKT 90
             KEQ+R LPIANVGRIMK++LP N KISK+AKET+QECVSEFISF+T EAS+KC++E+RKT
Sbjct:    35 KEQDRFLPIANVGRIMKKVLPGNGKISKDAKETVQECVSEFISFVTGEASDKCQREKRKT 94

Query:    91 VNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERAN 128
             +NGDDI WA+ TLGF+DY  P++ YL KYR+ EGE+ N
Sbjct:    95 INGDDIIWAITTLGFEDYVAPLKVYLCKYRDTEGEKVN 132

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

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

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

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

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

 Score = 387 (141.3 bits), Expect = 7.2e-36, P = 7.2e-36
 Identities = 69/96 (71%), Positives = 86/96 (89%)

Query:    31 KEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKT 90
             +EQ+R LPIANV RIMK+ LPANAKISK+AKETMQECVSEFISF+T EAS+KC+KE+RKT
Sbjct:    26 REQDRFLPIANVSRIMKKALPANAKISKDAKETMQECVSEFISFVTGEASDKCQKEKRKT 85

Query:    91 VNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGER 126
             +NGDD+ WA+ TLGF+DY  P++ YL ++RE+EGER
Sbjct:    86 INGDDLLWAMTTLGFEDYVEPLKVYLQRFREIEGER 121

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

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

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

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

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

 Score = 384 (140.2 bits), Expect = 1.5e-35, P = 1.5e-35
 Identities = 69/96 (71%), Positives = 86/96 (89%)

Query:    31 KEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKT 90
             +EQ+R LPIANV RIMK+ LPANAKISK+AKET+QECVSEFISFIT EAS+KC++E+RKT
Sbjct:    20 REQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFITGEASDKCQREKRKT 79

Query:    91 VNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGER 126
             +NGDD+ WA+ TLGF+DY  P++ YL KYRE+EGE+
Sbjct:    80 INGDDLLWAMTTLGFEDYVEPLKVYLQKYREVEGEK 115

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

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

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

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

TAIR|locus:2036064 NF-YB4 ""nuclear factor Y, subunit B4"" [Arabidopsis thaliana (taxid:3702)]

 Score = 378 (138.1 bits), Expect = 6.5e-35, P = 6.5e-35
 Identities = 70/95 (73%), Positives = 83/95 (87%)

Query:    32 EQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTV 91
             +++RLLPIANVGR+MKQILP+NAKISKEAK+T+QEC +EFISF+T EASEKC +E RKTV
Sbjct:     3 DEDRLLPIANVGRLMKQILPSNAKISKEAKQTVQECATEFISFVTCEASEKCHRENRKTV 62

Query:    92 NGDDICWALGTLGFDDYAGPIRRYLHKYRELEGER 126
             NGDDI WAL TLG D+YA  + R+LHKYRE E ER
Sbjct:    63 NGDDIWWALSTLGLDNYADAVGRHLHKYREAERER 97

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

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

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

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

GO:0005515 "protein binding" evidence=IPI

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

 Score = 371 (135.7 bits), Expect = 3.6e-34, P = 3.6e-34
 Identities = 64/96 (66%), Positives = 85/96 (88%)

Query:    30 IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRK 89
             ++EQ+R LPIAN+ RIMK+ LP N KI+K+AKETMQECVSEFISF+TSEAS+KC++E+RK
Sbjct:    27 VREQDRFLPIANISRIMKRGLPLNGKIAKDAKETMQECVSEFISFVTSEASDKCQREKRK 86

Query:    90 TVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGE 125
             T+NGDD+ WA+ TLGF+DY  P++ YL +YRE+EG+
Sbjct:    87 TINGDDLLWAMATLGFEDYIDPLKVYLMRYREMEGD 122

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

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

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

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

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

 Score = 365 (133.5 bits), Expect = 1.5e-33, P = 1.5e-33
 Identities = 63/96 (65%), Positives = 85/96 (88%)

Query:    30 IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRK 89
             ++EQ+R LPIAN+ RIMK+ LPAN KI+K+AKE +QECVSEFISF+TSEAS+KC++E+RK
Sbjct:    28 VREQDRFLPIANISRIMKRGLPANGKIAKDAKEIVQECVSEFISFVTSEASDKCQREKRK 87

Query:    90 TVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGE 125
             T+NGDD+ WA+ TLGF+DY  P++ YL +YRE+EG+
Sbjct:    88 TINGDDLLWAMATLGFEDYMEPLKVYLMRYREMEGD 123

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

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

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

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

TAIR|locus:2169028 NF-YB6 ""nuclear factor Y, subunit B6"" [Arabidopsis thaliana (taxid:3702)]

 Score = 355 (130.0 bits), Expect = 1.8e-32, P = 1.8e-32
 Identities = 62/97 (63%), Positives = 84/97 (86%)

Query:    30 IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRK 89
             ++EQ+R +PIANV RIM++ILPA+AKIS ++KET+QECVSE+ISFIT EA+E+C++E+RK
Sbjct:    56 VREQDRFMPIANVIRIMRRILPAHAKISDDSKETIQECVSEYISFITGEANERCQREQRK 115

Query:    90 TVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGER 126
             T+  +D+ WA+  LGFDDY  P+  YLH+YRELEGER
Sbjct:   116 TITAEDVLWAMSKLGFDDYIEPLTLYLHRYRELEGER 152

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

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

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

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

GO:0005515 "protein binding" evidence=IPI

GO:0009738 "abscisic acid mediated signaling pathway" evidence=IMP

GO:0033613 "activating transcription factor binding" evidence=IPI

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

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

 Score = 327 (120.2 bits), Expect = 2.3e-29, P = 2.3e-29
 Identities = 61/100 (61%), Positives = 84/100 (84%)

Query:    31 KEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKT 90
             +EQ+R LPIAN+ RIMK+ LP NAK++K+AKET+Q+CVSEFISFITSEAS+KC++E+RKT
Sbjct:    47 REQDRYLPIANIIRIMKKALPNNAKVAKDAKETVQDCVSEFISFITSEASDKCQQEKRKT 106

Query:    91 VNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQ 130
             +NG+DI  A+ +LGF++Y  P++ YL KYRE E    N++
Sbjct:   107 INGEDIIAAMVSLGFENYVEPLKVYLLKYRETEKNSNNKR 146

GO:0046982 "protein heterodimerization activity" evidence=IEA

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

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

GO:0005634 "nucleus" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

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

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

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

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

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

 Score = 323 (118.8 bits), Expect = 4.4e-29, P = 4.4e-29
 Identities = 60/97 (61%), Positives = 79/97 (81%)

Query:    31 KEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKT 90
             +EQ+  LPIANV RIMK  +P   KI+K+AKE +QECVSEFISFITSEASE+C +E+RKT
Sbjct:    51 REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 110

Query:    91 VNGDDICWALGTLGFDDYAGPIRRYLHKYRE-LEGER 126
             +NG+DI +A+ TLGFD Y  P++ YL K+RE ++GE+
Sbjct:   111 INGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEK 147

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

---

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)
O82248	NFYB5_ARATH	No assigned EC number	0.7339	0.5797	0.6812	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	188
pfam00808	65	pfam00808, CBFD_NFYB_HMF, Histone-like transcripti	1e-26
COG2036	91	COG2036, HHT1, Histones H3 and H4 [Chromatin struc	4e-19
COG5150	148	COG5150, COG5150, Class 2 transcription repressor	7e-14
pfam00125	75	pfam00125, Histone, Core histone H2A/H2B/H3/H4	2e-04

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

 Score = 95.8 bits (239), Expect = 1e-26
 Identities = 36/66 (54%), Positives = 46/66 (69%), Gaps = 1/66 (1%)

Query: 35  RLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGD 94
             LPIA V RIMK   P   +IS++AKE + ECV EFI FI SEA+E C+KE+RKT+N +
Sbjct: 1   AELPIARVKRIMKSD-PDAGRISQDAKELIAECVEEFIEFIASEAAEICKKEKRKTINAE 59

Query: 95  DICWAL 100
            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 = 77.4 bits (191), Expect = 4e-19
 Identities = 28/92 (30%), Positives = 42/92 (45%), Gaps = 2/92 (2%)

Query: 18  AAGAGASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITS 77
               G        +  + LLP A V RI+++      ++S  A E +QE + E++  I  
Sbjct: 1   PGAVGLKEIRRYQRSTDLLLPKAPVRRILRKAGAE--RVSSSAIEELQEALEEYLEEIAE 58

Query: 78  EASEKCRKERRKTVNGDDICWALGTLGFDDYA 109
           +A E     +RKTV  +DI  AL  LG   Y 
Sbjct: 59  DAVELAEHAKRKTVKAEDIKLALKRLGRRIYG 90

Length = 91

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

 Score = 65.4 bits (159), Expect = 7e-14
 Identities = 31/110 (28%), Positives = 57/110 (51%)

Query: 27  DGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKE 86
           +    + E  LP A V +++  ILP +   +KEA+E       EFI+ ++SEA+E C +E
Sbjct: 2   NMEKNDDENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEE 61

Query: 87  RRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQDKASNS 136
            +KT+  + +  AL  L F++Y          Y+  + ++ ++  K  +S
Sbjct: 62  AKKTIAYEHVIKALENLEFEEYIESCMEEHENYKSYQKQKESKISKFKDS 111

Length = 148

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

 Score = 37.9 bits (89), Expect = 2e-04
 Identities = 20/64 (31%), Positives = 33/64 (51%)

Query: 37  LPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDI 96
           LP + V R +K+   A  +IS +A   +QE + + +  I  +A    R  +RKT+   DI
Sbjct: 9   LPFSRVVRELKEGFYAELRISSKAPVALQEALEDLLEEILEDAGLLARHAKRKTITPRDI 68

Query: 97  CWAL 100
             A+
Sbjct: 69  QLAV 72

Length = 75

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	188
KOG0869	168	consensus CCAAT-binding factor, subunit A (HAP3) [	100.0
KOG0871	156	consensus Class 2 transcription repressor NC2, bet	99.98
COG5150	148	Class 2 transcription repressor NC2, beta subunit	99.95
KOG0870	172	consensus DNA polymerase epsilon, subunit D [Trans	99.91
PF00808	65	CBFD_NFYB_HMF: Histone-like transcription factor (	99.72
COG2036	91	HHT1 Histones H3 and H4 [Chromatin structure and d	99.69
cd00076	85	H4 Histone H4, one of the four histones, along wit	99.33
PLN00035	103	histone H4; Provisional	99.28
PTZ00015	102	histone H4; Provisional	99.25
smart00417	74	H4 Histone H4.	99.09
smart00803	65	TAF TATA box binding protein associated factor. TA	99.06
smart00428	105	H3 Histone H3.	98.87
PF00125	75	Histone: Core histone H2A/H2B/H3/H4 histone h2a si	98.81
cd07981	72	TAF12 TATA Binding Protein (TBP) Associated Factor	98.81
PLN00160	97	histone H3; Provisional	98.49
PLN00121	136	histone H3; Provisional	98.48
PLN00161	135	histone H3; Provisional	98.47
KOG3467	103	consensus Histone H4 [Chromatin structure and dyna	98.45
PTZ00018	136	histone H3; Provisional	98.45
smart00576	77	BTP Bromodomain transcription factors and PHD doma	98.41
COG5208	286	HAP5 CCAAT-binding factor, subunit C [Transcriptio	98.39
cd00074	115	H2A Histone 2A; H2A is a subunit of the nucleosome	98.24
cd07979	117	TAF9 TATA Binding Protein (TBP) Associated Factor	98.13
KOG1657	236	consensus CCAAT-binding factor, subunit C (HAP5) [	98.11
cd08050	343	TAF6 TATA Binding Protein (TBP) Associated Factor	97.88
cd08048	85	TAF11 TATA Binding Protein (TBP) Associated Factor	97.76
PF15511	414	CENP-T: Centromere kinetochore component CENP-T; P	97.73
PF07524	77	Bromo_TP: Bromodomain associated; InterPro: IPR006	97.7
KOG1745	137	consensus Histones H3 and H4 [Chromatin structure	97.69
PF15630	76	CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C	97.6
smart00427	89	H2B Histone H2B.	97.58
PF03847	68	TFIID_20kDa: Transcription initiation factor TFIID	97.52
PF09415	72	CENP-X: CENP-S associating Centromere protein X; I	97.38
PLN00158	116	histone H2B; Provisional	97.33
PF02969	66	TAF: TATA box binding protein associated factor (T	97.3
PTZ00463	117	histone H2B; Provisional	97.29
PF04719	90	TAFII28: hTAFII28-like protein conserved region; I	97.27
KOG1659	224	consensus Class 2 transcription repressor NC2, alp	97.16
COG5262	132	HTA1 Histone H2A [Chromatin structure and dynamics	96.93
smart00414	106	H2A Histone 2A.	96.77
PLN00154	136	histone H2A; Provisional	96.57
COG5247	113	BUR6 Class 2 transcription repressor NC2, alpha su	96.51
PLN00157	132	histone H2A; Provisional	96.33
PLN00153	129	histone H2A; Provisional	96.29
KOG1142	258	consensus Transcription initiation factor TFIID, s	96.27
PTZ00017	134	histone H2A; Provisional	96.25
KOG1744	127	consensus Histone H2B [Chromatin structure and dyn	96.14
KOG1756	131	consensus Histone 2A [Chromatin structure and dyna	96.11
KOG3219	195	consensus Transcription initiation factor TFIID, s	96.09
PF15510	102	CENP-W: Centromere kinetochore component W	96.07
PF02269	93	TFIID-18kDa: Transcription initiation factor IID,	95.86
PF02291	129	TFIID-31kDa: Transcription initiation factor IID,	95.78
PLN00156	139	histone H2AX; Provisional	95.74
KOG1658	162	consensus DNA polymerase epsilon, subunit C [Repli	95.37
PTZ00252	134	histone H2A; Provisional	93.79
cd07978	92	TAF13 The TATA Binding Protein (TBP) Associated Fa	93.29
KOG3423	176	consensus Transcription initiation factor TFIID, s	92.99
KOG4336	323	consensus TBP-associated transcription factor Prod	92.64
KOG2549	576	consensus Transcription initiation factor TFIID, s	90.56
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	88.77
KOG3334	148	consensus Transcription initiation factor TFIID, s	85.53
KOG2389	353	consensus Predicted bromodomain transcription fact	85.45
PRK00411	394	cdc6 cell division control protein 6; Reviewed	83.91

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

Probab=100.00  E-value=1.8e-34  Score=234.90  Aligned_cols=105  Identities=68%  Similarity=1.126  Sum_probs=99.6

Q ss_pred             CCCCCCccccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcC
Q 044287           25 SDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLG  104 (188)
Q Consensus        25 ~~~~~~~~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LG  104 (188)
                      +....++++|..||+|+|.||||.+||++.+|||||++.||+|++|||+|||++|+++|..++|||||+|||+|||..||
T Consensus        21 ~~~~~~reqDr~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~tLG  100 (168)
T KOG0869|consen   21 QSSLSLREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMSTLG  100 (168)
T ss_pred             ccccccchhhhhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHHcC
Confidence            34457899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcchHHHHHHHHHHHHHHHhhhhh
Q 044287          105 FDDYAGPIRRYLHKYRELEGERANQ  129 (188)
Q Consensus       105 F~dyi~~lk~~L~~~re~~~~K~~~  129 (188)
                      |++|+++|+.||..||+++..|...
T Consensus       101 Fe~Y~eplkiyL~kYRe~e~e~~~~  125 (168)
T KOG0869|consen  101 FENYAEPLKIYLQKYRELEGERGRS  125 (168)
T ss_pred             cHhHHHHHHHHHHHHHHHhhhcccc
Confidence            9999999999999999998877543

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

Probab=99.98  E-value=9e-33  Score=222.98  Aligned_cols=121  Identities=32%  Similarity=0.513  Sum_probs=116.6

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchHHH
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPI  112 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~~l  112 (188)
                      +++.||+|+|.+|||+.||.+++|.+||+++|.+||.+||++|+++||++|.++.||||.+|||++||+.|||.+|++.+
T Consensus         9 de~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~LgF~eYiee~   88 (156)
T KOG0871|consen    9 DELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALENLGFGEYIEEA   88 (156)
T ss_pred             ccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHHcchHHHHHHH
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhhhhccccCCcch----hhhhhhcCCCCCC
Q 044287          113 RRYLHKYRELEGERANQQDKASNSNSNI----NINEEREEPAGSS  153 (188)
Q Consensus       113 k~~L~~~re~~~~K~~~~~K~~~sg~~~----~~~~~~~~~~~~~  153 (188)
                      ...|++|+...+.|+++++|++++|+++    ++|++.|..+|..
T Consensus        89 ~~vl~~~K~~~~~~~~kssk~e~~Gi~eEEL~~qQqeLf~~ARar  133 (156)
T KOG0871|consen   89 EEVLENCKEEAKKRRRKSSKFEKSGIPEEELLRQQQELFAKARAR  133 (156)
T ss_pred             HHHHHHHHHHHHHhhhhhhhHHhcCCCHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999997    5688999988854

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

Probab=99.95  E-value=1.1e-28  Score=195.83  Aligned_cols=123  Identities=28%  Similarity=0.458  Sum_probs=117.9

Q ss_pred             cccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchHH
Q 044287           32 EQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGP  111 (188)
Q Consensus        32 ~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~~  111 (188)
                      .+++.||+|+|.+++.+.||.+..+.+||++.+++||.+||+.|+++||++|.++.+|||.++||++||+.|||.+|++.
T Consensus         7 dDe~sLPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALenLef~eyi~~   86 (148)
T COG5150           7 DDENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENLEFEEYIES   86 (148)
T ss_pred             cccccCcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHhccHHHHHHH
Confidence            36789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhhhhccccCCcch----hhhhhhcCCCCCCC
Q 044287          112 IRRYLHKYRELEGERANQQDKASNSNSNI----NINEEREEPAGSSY  154 (188)
Q Consensus       112 lk~~L~~~re~~~~K~~~~~K~~~sg~~~----~~~~~~~~~~~~~~  154 (188)
                      +.+.+.+|+..++.|.++.+||+++|+++    ++|+++|..++..+
T Consensus        87 ~~e~~~n~k~~qK~ke~k~sKFk~SGls~eELlrQQeeLf~~ar~rf  133 (148)
T COG5150          87 CMEEHENYKSYQKQKESKISKFKDSGLSMEELLRQQEELFQNARLRF  133 (148)
T ss_pred             HHHHHHHHHHHHhhchhhhhHHHhcCCCHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999996    66889998888766

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

Probab=99.91  E-value=2.6e-24  Score=176.61  Aligned_cols=100  Identities=28%  Similarity=0.519  Sum_probs=95.5

Q ss_pred             CccccccCchhHHHHHHhhhCCCC-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcc
Q 044287           30 IKEQERLLPIANVGRIMKQILPAN-AKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDY  108 (188)
Q Consensus        30 ~~~~d~~LPkA~I~RImK~~LP~~-~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dy  108 (188)
                      .+.+++.||+|+|.||+|+.||.. +.|||||+.+|+++|++||+||++.|+++|..++||||+++||+.||.+|+|..|
T Consensus         4 eri~dl~lP~AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Eiefs~f   83 (172)
T KOG0870|consen    4 ERIEDLNLPNAIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEIEFSSF   83 (172)
T ss_pred             hhHHHhhccHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHhchHHH
Confidence            467899999999999999999977 9999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHhhhhh
Q 044287          109 AGPIRRYLHKYRELEGERANQ  129 (188)
Q Consensus       109 i~~lk~~L~~~re~~~~K~~~  129 (188)
                      ..+|+..|+.|+...+.|+..
T Consensus        84 ~~plk~~Le~yk~~~k~Kk~~  104 (172)
T KOG0870|consen   84 VNPLKSALEAYKKAVKQKKLA  104 (172)
T ss_pred             hhHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999887653

>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=99.72  E-value=1e-17  Score=116.87  Aligned_cols=64  Identities=39%  Similarity=0.635  Sum_probs=59.3

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHh
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWAL  100 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL  100 (188)
                      .||.+.|.||||.. |+..+||+||..+|++|+++||.||+.+|++.|..++||||+++||..||
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            59999999999999 88899999999999999999999999999999999999999999999986

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=99.69  E-value=3.3e-17  Score=123.47  Aligned_cols=82  Identities=33%  Similarity=0.434  Sum_probs=76.2

Q ss_pred             CCCCCccccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCC
Q 044287           26 DDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGF  105 (188)
Q Consensus        26 ~~~~~~~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF  105 (188)
                      ..+..+..+..||+++|.||||++++.  |||.+|+++|++|+++|+..|+..|+++|.|+|||||+++||..|++.+||
T Consensus         9 ~r~~~~~~~~~Lp~apv~Ri~r~~~~~--Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~~~   86 (91)
T COG2036           9 IRRYQRSTDLLLPKAPVRRILRKAGAE--RVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLGR   86 (91)
T ss_pred             HHhhhhhhhhhcCchHHHHHHHHHhHH--HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHhcc
Confidence            445567788999999999999999964  999999999999999999999999999999999999999999999999999


Q ss_pred             Ccch
Q 044287          106 DDYA  109 (188)
Q Consensus       106 ~dyi  109 (188)
                      ..|.
T Consensus        87 ~~~~   90 (91)
T COG2036          87 RIYG   90 (91)
T ss_pred             cccc
Confidence            8764

>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=99.33  E-value=4.8e-12  Score=94.40  Aligned_cols=72  Identities=18%  Similarity=0.278  Sum_probs=67.7

Q ss_pred             ccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcc
Q 044287           35 RLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDY  108 (188)
Q Consensus        35 ~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dy  108 (188)
                      ..||+++|.||++...  ..+||.|+.+.+.++..+|+..|...|..+|++++||||+++||..||+..|-.-|
T Consensus        12 ~gi~k~~I~RLarr~G--vkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~g~~~y   83 (85)
T cd00076          12 KGITKPAIRRLARRGG--VKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLY   83 (85)
T ss_pred             ccCCHHHHHHHHHHcC--cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHCCCCcc
Confidence            3599999999999997  78999999999999999999999999999999999999999999999999986544

>PLN00035 histone H4; Provisional

Probab=99.28  E-value=7e-12  Score=96.56  Aligned_cols=80  Identities=19%  Similarity=0.223  Sum_probs=72.2

Q ss_pred             CCCCCCccccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcC
Q 044287           25 SDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLG  104 (188)
Q Consensus        25 ~~~~~~~~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LG  104 (188)
                      .+...+......||+++|.||++...  ..|||.++.++|.+..++|+..|+..|..+|++++||||+++||..||+.+|
T Consensus        18 r~~k~~~d~i~~ipk~~IrRLARr~G--vkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g   95 (103)
T PLN00035         18 RHRKVLRDNIQGITKPAIRRLARRGG--VKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQG   95 (103)
T ss_pred             HHHHHHHhhhccCCHHHHHHHHHHcC--cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcC
Confidence            45555555666799999999999997  7899999999999999999999999999999999999999999999999876


Q ss_pred             CC
Q 044287          105 FD  106 (188)
Q Consensus       105 F~  106 (188)
                      =.
T Consensus        96 ~~   97 (103)
T PLN00035         96 RT   97 (103)
T ss_pred             Cc
Confidence            54

>PTZ00015 histone H4; Provisional

Probab=99.25  E-value=1.8e-11  Score=94.16  Aligned_cols=81  Identities=20%  Similarity=0.295  Sum_probs=72.4

Q ss_pred             CCCCCccccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCC
Q 044287           26 DDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGF  105 (188)
Q Consensus        26 ~~~~~~~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF  105 (188)
                      +.+.++.....||+++|.||++...  ..|||.|+.+.+.++.++|+..|...|..+|++++||||+++||..||+..|-
T Consensus        20 ~rk~~r~~i~gI~k~~IrRLarr~G--vkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~g~   97 (102)
T PTZ00015         20 QKKVLRDNIRGITKGAIRRLARRGG--VKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQGR   97 (102)
T ss_pred             HHHHHhhcccCCCHHHHHHHHHHcC--CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCC
Confidence            3444555566899999999999997  78999999999999999999999999999999999999999999999999886


Q ss_pred             Ccc
Q 044287          106 DDY  108 (188)
Q Consensus       106 ~dy  108 (188)
                      .-|
T Consensus        98 ~~y  100 (102)
T PTZ00015         98 TLY  100 (102)
T ss_pred             CCC
Confidence            543

>smart00417 H4 Histone H4

Probab=99.09  E-value=1.3e-10  Score=84.72  Aligned_cols=64  Identities=19%  Similarity=0.254  Sum_probs=60.0

Q ss_pred             cccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHH
Q 044287           34 ERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWA   99 (188)
Q Consensus        34 d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~A   99 (188)
                      -..||+++|.||++..+  ..+||.++.+.+.+..++|+..|...|..+|++++||||+++||..|
T Consensus        11 i~gI~k~~IrRLaRr~G--vkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~a   74 (74)
T smart00417       11 IQGITKPAIRRLARRGG--VKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVYA   74 (74)
T ss_pred             hcCCCHHHHHHHHHHcC--cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHheeC
Confidence            34699999999999997  68999999999999999999999999999999999999999999754

>smart00803 TAF TATA box binding protein associated factor

Probab=99.06  E-value=4.7e-10  Score=79.54  Aligned_cols=64  Identities=28%  Similarity=0.280  Sum_probs=61.0

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      .||+++|.||++..+  ..+||.|+..+|.+-++.|+.-|..+|..++++.+||||+++||-.||+
T Consensus         2 ~~p~~~i~ria~~~G--i~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk   65 (65)
T smart00803        2 WLPKETIKDVAESLG--IGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR   65 (65)
T ss_pred             CCCHHHHHHHHHHCC--CccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence            589999999999987  5689999999999999999999999999999999999999999999985

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.

>smart00428 H3 Histone H3

Probab=98.87  E-value=4.8e-09  Score=81.11  Aligned_cols=73  Identities=18%  Similarity=0.223  Sum_probs=66.4

Q ss_pred             ccccccCchhHHHHHHhhhCCC-----CccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhc
Q 044287           31 KEQERLLPIANVGRIMKQILPA-----NAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTL  103 (188)
Q Consensus        31 ~~~d~~LPkA~I~RImK~~LP~-----~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~L  103 (188)
                      +..++.+|+.+..|+++++...     +.+++.+|..+||++++.|+.-+...|+..|.+.+|+||+++|+.-|..--
T Consensus        24 kst~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~rir  101 (105)
T smart00428       24 KSTDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARRIR  101 (105)
T ss_pred             cCcccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHHHh
Confidence            4477899999999999998863     789999999999999999999999999999999999999999998776533

>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=98.81  E-value=8.2e-09  Score=72.96  Aligned_cols=68  Identities=29%  Similarity=0.399  Sum_probs=62.9

Q ss_pred             cccCchhHHHHHHhhhCCC---CccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           34 ERLLPIANVGRIMKQILPA---NAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        34 d~~LPkA~I~RImK~~LP~---~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      ...+|+..|.|+.|+..++   ..+||.+|...|+..++.|+.-|...|..+|.+.+|+||++.||..|++
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            4578999999999998863   2699999999999999999999999999999999999999999999985

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 ....

>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=98.81  E-value=2e-08  Score=72.11  Aligned_cols=65  Identities=17%  Similarity=0.354  Sum_probs=61.7

Q ss_pred             CchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           37 LPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        37 LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      |++..+..++++.-| ..+++.||.++|++.+..|+.-|+..|..+|.+.||+||.++||.-+|+.
T Consensus         2 ~~k~~l~~lv~~id~-~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r   66 (72)
T cd07981           2 LTKRKLQELLKEIDP-REQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLER   66 (72)
T ss_pred             CcHHHHHHHHHhhCC-CCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            678899999999976 69999999999999999999999999999999999999999999999975

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

>PLN00160 histone H3; Provisional

Probab=98.49  E-value=3.4e-07  Score=70.04  Aligned_cols=71  Identities=15%  Similarity=0.146  Sum_probs=64.9

Q ss_pred             ccccccCchhHHHHHHhhhCC----CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           31 KEQERLLPIANVGRIMKQILP----ANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        31 ~~~d~~LPkA~I~RImK~~LP----~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      +..++.+|+++..|+++++..    .+.++..+|..+||++++.|+.-+...|+-.|.+.+|.||.+.|+.-|..
T Consensus        16 kst~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~r   90 (97)
T PLN00160         16 KSTDLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARR   90 (97)
T ss_pred             cchhhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHH
Confidence            346789999999999999874    35899999999999999999999999999999999999999999987764

>PLN00121 histone H3; Provisional

Probab=98.48  E-value=2.5e-07  Score=74.60  Aligned_cols=71  Identities=18%  Similarity=0.225  Sum_probs=65.3

Q ss_pred             ccccccCchhHHHHHHhhhCCC---CccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           31 KEQERLLPIANVGRIMKQILPA---NAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        31 ~~~d~~LPkA~I~RImK~~LP~---~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      +..++.||+....|+++++...   ++++..+|..+||++++.|+.-|...++-.|.+.+|.||.+.|+.-|+.
T Consensus        57 kst~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~r  130 (136)
T PLN00121         57 KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR  130 (136)
T ss_pred             cccccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHHH
Confidence            4468899999999999998863   7899999999999999999999999999999999999999999987764

>PLN00161 histone H3; Provisional

Probab=98.47  E-value=5e-07  Score=72.74  Aligned_cols=71  Identities=20%  Similarity=0.249  Sum_probs=65.2

Q ss_pred             ccccccCchhHHHHHHhhhCC----CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           31 KEQERLLPIANVGRIMKQILP----ANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        31 ~~~d~~LPkA~I~RImK~~LP----~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      +..++.||+....|+++++..    .++++..+|..+||++++.|+.-|...|+-.|.+.+|.||.+.|+.-|..
T Consensus        50 kst~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~r  124 (135)
T PLN00161         50 KSTELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARR  124 (135)
T ss_pred             cccccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHH
Confidence            557889999999999999863    46899999999999999999999999999999999999999999987764

>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]

Probab=98.45  E-value=2e-07  Score=70.57  Aligned_cols=80  Identities=18%  Similarity=0.218  Sum_probs=71.1

Q ss_pred             CCCCCCccccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcC
Q 044287           25 SDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLG  104 (188)
Q Consensus        25 ~~~~~~~~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LG  104 (188)
                      .+.++++..-..+.+.+|+||.+...  .-+|+.-..+.+...+.+|+..+.+.|..++++++||||++.||+.+|+.+|
T Consensus        18 rHRK~LsDnIqgitKpaIRRlARr~G--VkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LKR~G   95 (103)
T KOG3467|consen   18 RHRKVLRDNIQGITKPAIRRLARRGG--VKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQG   95 (103)
T ss_pred             HHHHHHHhhccccchHHHHHHHHhcC--cchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHHHcC
Confidence            45555555555688999999999987  6789999999999999999999999999999999999999999999999987


Q ss_pred             CC
Q 044287          105 FD  106 (188)
Q Consensus       105 F~  106 (188)
                      --
T Consensus        96 ~~   97 (103)
T KOG3467|consen   96 RT   97 (103)
T ss_pred             ce
Confidence            54

>PTZ00018 histone H3; Provisional

Probab=98.45  E-value=3.6e-07  Score=73.68  Aligned_cols=71  Identities=18%  Similarity=0.230  Sum_probs=65.1

Q ss_pred             ccccccCchhHHHHHHhhhCC---CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           31 KEQERLLPIANVGRIMKQILP---ANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        31 ~~~d~~LPkA~I~RImK~~LP---~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      +..++.||+....|+++++..   .++++..+|.++||++++.|+..|...++-.|.|.+|.||.+.|+.-|..
T Consensus        57 kst~lLI~k~pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~r  130 (136)
T PTZ00018         57 KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR  130 (136)
T ss_pred             ccchhccccccHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHHH
Confidence            345889999999999999874   47899999999999999999999999999999999999999999987764

>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins

Probab=98.41  E-value=1.3e-06  Score=63.19  Aligned_cols=68  Identities=22%  Similarity=0.254  Sum_probs=61.4

Q ss_pred             CchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCC
Q 044287           37 LPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFD  106 (188)
Q Consensus        37 LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~  106 (188)
                      |=+-.|.+|++.++  --+++..|.+.|.+....|+..|+..+..+|++.||+++++.||..||+.+|+.
T Consensus         7 ll~~~Vaqil~~~G--f~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~~gi~   74 (77)
T smart00576        7 LLRIAVAQILESAG--FDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALENLGIS   74 (77)
T ss_pred             HHHHHHHHHHHHcC--ccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCcc
Confidence            33556788888875  458999999999999999999999999999999999999999999999999974

subdomain of archael histone-like transcription factors

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

Probab=98.39  E-value=2e-07  Score=80.76  Aligned_cols=81  Identities=25%  Similarity=0.256  Sum_probs=71.1

Q ss_pred             ccccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchH
Q 044287           31 KEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAG  110 (188)
Q Consensus        31 ~~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~  110 (188)
                      ...+..||.|.|.|+||---. .-.||.||-.++.+.|+.||..||..|+-.|++++|+|+.-.||..|+++-++-||+-
T Consensus       104 ~~k~h~LPlARIkkvMKtded-VkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFLi  182 (286)
T COG5208         104 LLKDHNLPLARIKKVMKTDED-VKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFLI  182 (286)
T ss_pred             HHHhccCcHHHHHHHHhcccc-hhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHHh
Confidence            345678999999999997642 3369999999999999999999999999999999999999999999999988777764


Q ss_pred             HH
Q 044287          111 PI  112 (188)
Q Consensus       111 ~l  112 (188)
                      .+
T Consensus       183 di  184 (286)
T COG5208         183 DI  184 (286)
T ss_pred             hh
Confidence            33

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

Probab=98.24  E-value=2.5e-06  Score=66.93  Aligned_cols=68  Identities=12%  Similarity=0.191  Sum_probs=62.7

Q ss_pred             cccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           34 ERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        34 d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      .+.||.+.|.|+||+... ..|||.+|...|..+.+-+...|...|...|.+.+|++|+++||..|+..
T Consensus        18 gL~fPV~ri~R~Lk~~~~-a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~n   85 (115)
T cd00074          18 GLQFPVGRIHRYLKKGRY-AERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRN   85 (115)
T ss_pred             CccCcHHHHHHHHHcCcc-ccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhc
Confidence            489999999999998432 58999999999999999999999999999999999999999999999974

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.

>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=98.13  E-value=9.9e-06  Score=63.35  Aligned_cols=77  Identities=13%  Similarity=0.213  Sum_probs=65.2

Q ss_pred             HHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchHH-HHHHHHHH
Q 044287           41 NVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGP-IRRYLHKY  119 (188)
Q Consensus        41 ~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~~-lk~~L~~~  119 (188)
                      .|.+|+|+..  ..+++.++...|.+.+..++.-|..+|..+|.++||+||+++||.-|++..+-..|..+ -++.|-+.
T Consensus         6 ~v~~iLk~~G--v~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~~~f~~~p~~~~l~~~   83 (117)
T cd07979           6 VIAAILKSMG--ITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVDYSFTSPPPRDFLLEL   83 (117)
T ss_pred             HHHHHHHHCC--CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhccCCCCCCcHHHHHHH
Confidence            5888888875  56899999999999999999999999999999999999999999999997665555443 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

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

Probab=98.11  E-value=3.1e-06  Score=73.55  Aligned_cols=89  Identities=24%  Similarity=0.318  Sum_probs=74.6

Q ss_pred             CccccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh---cCCC
Q 044287           30 IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT---LGFD  106 (188)
Q Consensus        30 ~~~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~---LGF~  106 (188)
                      .+.-...||++.|.+|||..- +.-.|+.||..++.+||+.||..|+..|+..+...+|+|+...|+..|+..   ++|.
T Consensus        68 ~d~~~~~lPlaRiKkimK~de-dv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdFL  146 (236)
T KOG1657|consen   68 LDFKNHILPLARIKKIMKSDE-DVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDFL  146 (236)
T ss_pred             cchhhccCcHhhccccccccc-cccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCccce
Confidence            334456799999999999875 233799999999999999999999999999999999999999999999986   5555


Q ss_pred             cchHHHHHHHHHH
Q 044287          107 DYAGPIRRYLHKY  119 (188)
Q Consensus       107 dyi~~lk~~L~~~  119 (188)
                      -.+-+.+..++.|
T Consensus       147 ~DivP~~~~~~~~  159 (236)
T KOG1657|consen  147 RDIVPRKILAEKY  159 (236)
T ss_pred             eccccchhccccc
Confidence            5555666666666

>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=97.88  E-value=3.8e-05  Score=69.28  Aligned_cols=67  Identities=21%  Similarity=0.253  Sum_probs=59.8

Q ss_pred             chhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCC
Q 044287           38 PIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFD  106 (188)
Q Consensus        38 PkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~  106 (188)
                      |..+|.-|++..+  ..++++||..+|.+.++.++..|+.+|...+++.+||||+++||-.||+.++.+
T Consensus         1 ~~~~i~~ia~~~G--i~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~n~e   67 (343)
T cd08050           1 PQESIKLIAESLG--IDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLRNVE   67 (343)
T ss_pred             ChhHHHHHHHHcC--CCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHhCCC
Confidence            4567777888775  459999999999999999999999999999999999999999999999975544

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

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

Probab=97.76  E-value=0.00012  Score=54.56  Aligned_cols=66  Identities=15%  Similarity=0.196  Sum_probs=61.7

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC---CccCccCHHHHhhhc
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERR---KTVNGDDICWALGTL  103 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kR---KTIt~eDVl~AL~~L  103 (188)
                      .||++.|.|||...+  +..++.+...+|.-.+.+||..|..+|.++..+.+.   ..|.|+||-.|.+.|
T Consensus        16 ~f~k~~iKr~~~~~~--~~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~rrl   84 (85)
T cd08048          16 SFPKAAIKRLIQSVT--GQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYRRL   84 (85)
T ss_pred             hccHHHHHHHHHHHc--CCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHHHh
Confidence            599999999999999  489999999999999999999999999999998776   789999999999876

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

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

Probab=97.73  E-value=4.2e-05  Score=70.88  Aligned_cols=63  Identities=22%  Similarity=0.338  Sum_probs=47.5

Q ss_pred             ccccCchhHHHHHHhhhCC----CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccC
Q 044287           33 QERLLPIANVGRIMKQILP----ANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDD   95 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP----~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eD   95 (188)
                      .--.||.+.|+|++.....    ..++|++||..+|.+|...|-..|+..--.+|.|+|||||..+|
T Consensus       348 ~~P~lP~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD  414 (414)
T PF15511_consen  348 PYPSLPPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD  414 (414)
T ss_dssp             ----S-HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred             CCCCCCccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence            3446999999998877643    57899999999999999999999999999999999999998765

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

Probab=97.70  E-value=0.00021  Score=51.16  Aligned_cols=66  Identities=20%  Similarity=0.244  Sum_probs=57.7

Q ss_pred             hhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCC
Q 044287           39 IANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFD  106 (188)
Q Consensus        39 kA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~  106 (188)
                      +-.|..|++.++  =-.++..|.+.|...+..||..|+..+..+|++.+|...+..||..||.++|+.
T Consensus         9 ~~~va~il~~~G--F~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~~gi~   74 (77)
T PF07524_consen    9 RRSVAQILKHAG--FDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALEEMGIS   74 (77)
T ss_pred             HHHHHHHHHHcC--ccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCCC
Confidence            345566666653  237999999999999999999999999999999999999999999999999984

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 [, ].

>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]

Probab=97.69  E-value=3e-05  Score=62.65  Aligned_cols=74  Identities=18%  Similarity=0.244  Sum_probs=66.3

Q ss_pred             ccccccCchhHHHHHHhhhCC---CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcC
Q 044287           31 KEQERLLPIANVGRIMKQILP---ANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLG  104 (188)
Q Consensus        31 ~~~d~~LPkA~I~RImK~~LP---~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LG  104 (188)
                      +..|+.+++....|++++..+   .+.++...|..+||++++.|+.-|...+|-+|.+.+|.||.+.||--|..--|
T Consensus        58 kstdLlI~K~PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArrirg  134 (137)
T KOG1745|consen   58 KSTDLLIRKLPFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRG  134 (137)
T ss_pred             hhhHHHhhcCcHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhhccc
Confidence            467889999999999995554   58899999999999999999999999999999999999999999998876544

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

Probab=97.60  E-value=0.0002  Score=52.42  Aligned_cols=62  Identities=18%  Similarity=0.254  Sum_probs=52.4

Q ss_pred             HHHHHHhhhC-CCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           41 NVGRIMKQIL-PANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        41 ~I~RImK~~L-P~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      +|.+|+.+.. +.++.+|+.+..+|.+.+-.++..++..--..|+|+||+||+.+||+-..++
T Consensus        10 ~v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~Rr   72 (76)
T PF15630_consen   10 TVGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLARR   72 (76)
T ss_dssp             HHHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTTT
T ss_pred             HHHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhhc
Confidence            5788888875 5678999999999999999999999999999999999999999999976653

>smart00427 H2B Histone H2B

Probab=97.58  E-value=0.00025  Score=53.67  Aligned_cols=62  Identities=26%  Similarity=0.402  Sum_probs=58.0

Q ss_pred             HHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhc
Q 044287           41 NVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTL  103 (188)
Q Consensus        41 ~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~L  103 (188)
                      -|.|++|++-| +..||..|...|.-.+..+..-|+.+|...|...+|+||++.+|..|.+-+
T Consensus         6 Yi~kvLKqVhp-d~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl~   67 (89)
T smart00427        6 YIYKVLKQVHP-DTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVRLI   67 (89)
T ss_pred             HHHHHHHHhCC-CccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHH
Confidence            58999999998 689999999999999999999999999999999999999999999998754

>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=97.52  E-value=0.00033  Score=50.24  Aligned_cols=63  Identities=22%  Similarity=0.341  Sum_probs=51.5

Q ss_pred             hhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           39 IANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        39 kA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      +..+..+|+++-| +..+..++.++|.+.|.+||.-++..|...|++-+-.||...||.-.|++
T Consensus         2 K~~l~~Lv~~iDp-~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler   64 (68)
T PF03847_consen    2 KRKLQELVKQIDP-NEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLER   64 (68)
T ss_dssp             HHHHHHHHHCC-S-S----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHH
T ss_pred             hHHHHHHHHHcCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHh
Confidence            4567889999865 89999999999999999999999999999999999999999999988874

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

>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=97.38  E-value=0.00021  Score=51.81  Aligned_cols=65  Identities=20%  Similarity=0.273  Sum_probs=54.7

Q ss_pred             chhHHHHHHhhhCC-CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCc-cCccCHHHHhhh
Q 044287           38 PIANVGRIMKQILP-ANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKT-VNGDDICWALGT  102 (188)
Q Consensus        38 PkA~I~RImK~~LP-~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKT-It~eDVl~AL~~  102 (188)
                      |+.+|.||++.... +..+|++||..++.+....||..-..-|...+..++..+ |..+|+-+.+-.
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            88999999998774 578999999999999999999999999999999999999 999999887654

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.

>PLN00158 histone H2B; Provisional

Probab=97.33  E-value=0.00072  Score=53.40  Aligned_cols=67  Identities=22%  Similarity=0.315  Sum_probs=60.7

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhc
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTL  103 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~L  103 (188)
                      .--..-|.|++|++-| +..||..|...|.-....+..-|+.+|...|...+|.||++.+|..|.+-+
T Consensus        27 esy~~YI~kVLKQVhP-d~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvrLv   93 (116)
T PLN00158         27 ETYKIYIYKVLKQVHP-DTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVRLI   93 (116)
T ss_pred             ccHHHHHHHHHHHhCC-CCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHh
Confidence            3445679999999998 689999999999999999999999999999999999999999999998754

>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=97.30  E-value=0.0011  Score=47.46  Aligned_cols=64  Identities=27%  Similarity=0.273  Sum_probs=50.1

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      .+|..+|.-+....+  -..++.|+...|.+-++--|..|..+|...+.+.+|++++++||-.||+
T Consensus         3 ~~~~esvk~iAes~G--i~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr   66 (66)
T PF02969_consen    3 VFSQESVKDIAESLG--ISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR   66 (66)
T ss_dssp             ---HHHHHHHHHHTT-----B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred             cCCHHHHHHHHHHcC--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence            467788877776654  3489999999999999999999999999999999999999999999985

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.

>PTZ00463 histone H2B; Provisional

Probab=97.29  E-value=0.00089  Score=52.94  Aligned_cols=64  Identities=25%  Similarity=0.391  Sum_probs=58.6

Q ss_pred             hHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcC
Q 044287           40 ANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLG  104 (188)
Q Consensus        40 A~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LG  104 (188)
                      .-|.|++|++-| +..||..|...|.-.......-|+.+|...|...+|.||++.+|..|++-+=
T Consensus        32 ~YI~KVLKqVhP-d~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvrLlL   95 (117)
T PTZ00463         32 LYIFKVLKQVHP-DTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIRLVL   95 (117)
T ss_pred             HHHHHHHHhhCC-CCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHhhcc
Confidence            359999999998 6899999999999999999999999999999999999999999999987543

>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=97.27  E-value=0.0008  Score=50.85  Aligned_cols=67  Identities=18%  Similarity=0.216  Sum_probs=51.6

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC-ccCccCHHHHhhhc
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRK-TVNGDDICWALGTL  103 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRK-TIt~eDVl~AL~~L  103 (188)
                      .||++.|.|||...+. +..|+.....+|.-.+..||-.|-.+|.+++.+.+.. .|.+.|+-.|.++|
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            5999999999999994 4899999999999999999999999999999865544 79999999998765

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.

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

Probab=97.16  E-value=0.00096  Score=57.64  Aligned_cols=86  Identities=15%  Similarity=0.168  Sum_probs=74.0

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchHHHHHH
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRY  115 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~~lk~~  115 (188)
                      -||.+.|.|||...- +--+|..-+-..+.++.+.|+.-|...+.++++..+-|||+++|+..|+..-.-.||+..+...
T Consensus        13 rfp~aRiKKIMQ~dE-dIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFLk~~v~~   91 (224)
T KOG1659|consen   13 RFPPARIKKIMQSDE-DIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFLKEVVEK   91 (224)
T ss_pred             cCCHHHHHHHHhhhh-hhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHHHHHHHh
Confidence            599999999998754 2348999999999999999999999999999999999999999999999988888888776665


Q ss_pred             HHHHHHH
Q 044287          116 LHKYREL  122 (188)
Q Consensus       116 L~~~re~  122 (188)
                      +..+...
T Consensus        92 vpd~~~~   98 (224)
T KOG1659|consen   92 VPDRQQA   98 (224)
T ss_pred             cCCCccc
Confidence            5554443

>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]

Probab=96.93  E-value=0.0024  Score=50.89  Aligned_cols=69  Identities=16%  Similarity=0.235  Sum_probs=60.4

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ..+.+|...|.||||.. .-.+||+++|...+.-|.+=.+..|+.-|-..|...++|.|+|.|+-.|+..
T Consensus        23 agl~fpvgrvkr~lk~~-~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIrn   91 (132)
T COG5262          23 AGLIFPVGRVKRLLKKG-NYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIRN   91 (132)
T ss_pred             cCccccHHHHHHHHHcC-ccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhcC
Confidence            45789999999999933 3478999999999999998888888888888899999999999999999873

>smart00414 H2A Histone 2A

Probab=96.77  E-value=0.0038  Score=48.35  Aligned_cols=68  Identities=9%  Similarity=0.210  Sum_probs=59.9

Q ss_pred             cccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           34 ERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        34 d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      .+.||-+.|.|+||+.-- ..||+..|...|..+.+-+...|..-|...|...+++.|+++||..|+..
T Consensus         7 gL~fPVgRi~r~Lk~~~~-~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~n   74 (106)
T smart00414        7 GLQFPVGRIHRLLRKGTY-AKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRN   74 (106)
T ss_pred             CccCchHHHHHHHHcCcc-ccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccC
Confidence            478999999999998743 46999999999999888888888888888899999999999999999974

>PLN00154 histone H2A; Provisional

Probab=96.57  E-value=0.012  Score=47.64  Aligned_cols=70  Identities=13%  Similarity=0.180  Sum_probs=59.0

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ..+.||-+.|.|++|+...-..||+..|...|.-+.+=+...|..-|-..|...+++-|++.||..|+..
T Consensus        35 AgL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrn  104 (136)
T PLN00154         35 AGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG  104 (136)
T ss_pred             cCccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccC
Confidence            4678999999999999764357999999999988877666666667777889999999999999999863

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

Probab=96.51  E-value=0.0047  Score=48.16  Aligned_cols=78  Identities=17%  Similarity=0.189  Sum_probs=66.3

Q ss_pred             ccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchHHHH
Q 044287           35 RLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIR  113 (188)
Q Consensus        35 ~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~~lk  113 (188)
                      ..+|.|.|.|||.-.- +--+|+.-.-..+.++.+.|+..|-......|+..+-|-|+++++..|...-+=.||+..+.
T Consensus        22 trFP~ar~KkIMQ~de-DiGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdFL~~~~   99 (113)
T COG5247          22 TRFPIARLKKIMQLDE-DIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFLKNME   99 (113)
T ss_pred             hcCCHHHHHHHHHhhh-hhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHHHHHHH
Confidence            3599999999998654 23489999999999999999999999999999999999999999999998765555554443

>PLN00157 histone H2A; Provisional

Probab=96.33  E-value=0.015  Score=46.84  Aligned_cols=69  Identities=12%  Similarity=0.168  Sum_probs=59.5

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ..+.||...|.|++|+.-- ..||+..|...|.-+.+-.+..|..-|...|...+++-|+++||..|+..
T Consensus        23 agL~FPVgRi~R~Lk~g~~-a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~n   91 (132)
T PLN00157         23 AGLQFPVGRIARYLKAGKY-ATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVRN   91 (132)
T ss_pred             cCcccchHHHHHHHhcCch-hhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhcccC
Confidence            4589999999999999643 46999999999998888777777777888899999999999999999963

>PLN00153 histone H2A; Provisional

Probab=96.29  E-value=0.015  Score=46.75  Aligned_cols=69  Identities=13%  Similarity=0.187  Sum_probs=59.8

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ..+.||...|.|++|+.-. ..||+..|...|.-+.+-.+..|..-|-..|...+++-|+++||..|+..
T Consensus        21 agL~FpVgRi~R~Lr~g~~-a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~n   89 (129)
T PLN00153         21 AGLQFPVGRIARYLKKGKY-AERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRN   89 (129)
T ss_pred             cCcccchHHHHHHHhcCch-hhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhccC
Confidence            4589999999999998654 46999999999998888777777777888889999999999999999963

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

Probab=96.27  E-value=0.013  Score=51.81  Aligned_cols=69  Identities=19%  Similarity=0.334  Sum_probs=63.6

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ....|-+-.|.-+++.+- .+..|-.|+.++|.+.|..||..|+..|...|++.+..||-+.||.-.|++
T Consensus       151 ~~~il~k~kl~dLvqqId-~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr  219 (258)
T KOG1142|consen  151 NNPILSKRKLDDLVQQID-GTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLER  219 (258)
T ss_pred             CCccccccchhHHHHhhc-CcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeec
Confidence            445688889999999985 478999999999999999999999999999999999999999999999995

>PTZ00017 histone H2A; Provisional

Probab=96.25  E-value=0.0087  Score=48.36  Aligned_cols=69  Identities=13%  Similarity=0.187  Sum_probs=60.7

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ..+.||-+.|.|+|++.-- ..||+..|...|.-+.+-+...|..-|...|...+++-|+++||..|+..
T Consensus        24 agL~FPVgRi~R~Lk~g~~-a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~n   92 (134)
T PTZ00017         24 AGLQFPVGRVHRYLKKGRY-AKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRN   92 (134)
T ss_pred             CCcccchHHHHHHHhccch-hccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccC
Confidence            4588999999999998642 46999999999999988888888888888999999999999999999963

>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]

Probab=96.14  E-value=0.017  Score=46.41  Aligned_cols=62  Identities=29%  Similarity=0.372  Sum_probs=57.0

Q ss_pred             HHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhc
Q 044287           41 NVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTL  103 (188)
Q Consensus        41 ~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~L  103 (188)
                      .|.|++|++-|+ ..|+.++...|.-..-.++..|+.+|+..+...+|.||+..+|..|.+-|
T Consensus        42 yv~kvlk~Vhpd-~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~rLl  103 (127)
T KOG1744|consen   42 YVYKVLKQVHPD-LGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVRLL  103 (127)
T ss_pred             ehhhhhhcccCC-CCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHHHh
Confidence            477899999985 88999999999999999999999999999999999999999999987643

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

Probab=96.11  E-value=0.012  Score=47.27  Aligned_cols=68  Identities=10%  Similarity=0.206  Sum_probs=55.3

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      ..+.+|...|.|++|+ ..-..+|+.+|...|.-|.+=.+..|+..|-..+..+++.-|++.||..|+.
T Consensus        24 agl~fPvgri~r~Lr~-~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~   91 (131)
T KOG1756|consen   24 AGLQFPVGRIHRLLRK-GRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIR   91 (131)
T ss_pred             cccccCHHHHHHHHHc-cchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHh
Confidence            4578999999999999 3336799999999999776655555555666677788888999999999996

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

Probab=96.09  E-value=0.0055  Score=52.26  Aligned_cols=69  Identities=17%  Similarity=0.214  Sum_probs=61.3

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC-ccCccCHHHHhhhcCCC
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRK-TVNGDDICWALGTLGFD  106 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRK-TIt~eDVl~AL~~LGF~  106 (188)
                      .||+++|.|||..+..  -.|+.-+..+|.-.+.+||-.|--+|.++|..-+.. .|.+.||-.|...|+..
T Consensus       112 ~f~Ka~iKkL~~~itg--~~v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~rrL~~q  181 (195)
T KOG3219|consen  112 AFPKAQIKKLMSSITG--QSVSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYRRLKLQ  181 (195)
T ss_pred             cCCHHHHHHHHHHHhC--CccCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHHHHHhc
Confidence            5999999999999995  339999999999999999999999999999977663 49999999998887654

>PF15510 CENP-W: Centromere kinetochore component W

Probab=96.07  E-value=0.0081  Score=46.06  Aligned_cols=67  Identities=15%  Similarity=0.209  Sum_probs=55.1

Q ss_pred             ccCchhHHHHHHhhhCCCCccccHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHh
Q 044287           35 RLLPIANVGRIMKQILPANAKISKEAKET--------------MQECVSEFISFITSEASEKCRKERRKTVNGDDICWAL  100 (188)
Q Consensus        35 ~~LPkA~I~RImK~~LP~~~rISkDA~~a--------------l~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL  100 (188)
                      ..-|++.+.|++|..-| ..++...+-.+              +.-.|-.|++-|+.+|...|=+++=.||..+||+.|-
T Consensus        15 rkaPrgfLkrv~Kr~Kp-hlRl~~~~Dllv~~~~f~~~~~~~~vhLncLLFvhrLAEEaRtnA~EnK~~~Ik~~Hv~Aaa   93 (102)
T PF15510_consen   15 RKAPRGFLKRVFKRQKP-HLRLETSGDLLVRFCPFSGWQWGGEVHLNCLLFVHRLAEEARTNACENKCGTIKKEHVLAAA   93 (102)
T ss_pred             HhCchHHHHHHHHhcCC-ceeecccccHHHhhcccccccccceeehhHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHH
Confidence            35799999999998887 56665544444              5566889999999999999999999999999999887


Q ss_pred             hh
Q 044287          101 GT  102 (188)
Q Consensus       101 ~~  102 (188)
                      +.
T Consensus        94 Kv   95 (102)
T PF15510_consen   94 KV   95 (102)
T ss_pred             HH
Confidence            53

>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=95.86  E-value=0.011  Score=44.40  Aligned_cols=60  Identities=18%  Similarity=0.264  Sum_probs=30.0

Q ss_pred             HHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           42 VGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        42 I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      |..+|-.-+ +...-..|...+|-+.+.+||..|...|..+|...|+++|+.+|++-+|+.
T Consensus         7 I~~mMy~fG-D~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~   66 (93)
T PF02269_consen    7 IRQMMYGFG-DVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRK   66 (93)
T ss_dssp             CHHHHHCTT-S-SS--HHHHHHHHHHHHHHHHHHHHHHHC---------------------
T ss_pred             HHHHHHHcC-CCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhc
Confidence            445555544 456788999999999999999999999999999999999999999999985

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

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

Probab=95.78  E-value=0.033  Score=44.55  Aligned_cols=85  Identities=20%  Similarity=0.259  Sum_probs=49.7

Q ss_pred             ccccCchh--HHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh-hcCCCcch
Q 044287           33 QERLLPIA--NVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG-TLGFDDYA  109 (188)
Q Consensus        33 ~d~~LPkA--~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~-~LGF~dyi  109 (188)
                      ..-.+|+.  .|.-|+|+.+  .......+...|.+.+-.|+.-|...|..++.+.+|++|+.+||.-|++ .+++.-..
T Consensus         7 ~~~~~PrDa~~i~~iL~~~G--v~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r~~~~f~~   84 (129)
T PF02291_consen    7 QSKSLPRDARVIHLILKSMG--VTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSRLDHSFTQ   84 (129)
T ss_dssp             ------HHHHHHHHHHHHTT-----B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT-------
T ss_pred             CCccCChHHHHHHHHHHHcC--CcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHhhhccC
Confidence            33467774  5666667664  3457888999999999999999999999999999999999999999999 57777666


Q ss_pred             HHHHHHHHHH
Q 044287          110 GPIRRYLHKY  119 (188)
Q Consensus       110 ~~lk~~L~~~  119 (188)
                      ++-+++|-+.
T Consensus        85 pppre~llel   94 (129)
T PF02291_consen   85 PPPREFLLEL   94 (129)
T ss_dssp             ----------
T ss_pred             CCChHHHHHH
Confidence            6666655443

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

>PLN00156 histone H2AX; Provisional

Probab=95.74  E-value=0.022  Score=46.39  Aligned_cols=69  Identities=12%  Similarity=0.179  Sum_probs=58.2

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ..+.||...|.|++++.-- ..||+..|...|.-+.+=.+..|..-|-..|...+++-|+++||..|+..
T Consensus        26 AgL~FPVgRi~R~Lk~g~y-a~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIrn   94 (139)
T PLN00156         26 AGLQFPVGRIARFLKAGKY-AERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRN   94 (139)
T ss_pred             cCcccchHHHHHHHhcCCh-hhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhccC
Confidence            3578999999999999643 46999999999998877666667777777888899999999999999963

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

Probab=95.37  E-value=0.013  Score=48.62  Aligned_cols=66  Identities=21%  Similarity=0.306  Sum_probs=58.1

Q ss_pred             ccCchhHHHHHHhhhCCCCcc-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           35 RLLPIANVGRIMKQILPANAK-ISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        35 ~~LPkA~I~RImK~~LP~~~r-ISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ..||.+.|..+||.  +++.+ ...+++.+|.+++..||..|+..|+..+...+|||+.-.|+-.|++.
T Consensus        58 ~rLpL~rik~vvkl--~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~  124 (162)
T KOG1658|consen   58 SRLPLARIKQVVKL--DPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEA  124 (162)
T ss_pred             hhccHHHHHhhccC--CcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccc
Confidence            57999999999985  45665 56778899999999999999999999999999999999988887765

>PTZ00252 histone H2A; Provisional

Probab=93.79  E-value=0.16  Score=41.15  Aligned_cols=69  Identities=10%  Similarity=0.196  Sum_probs=50.2

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRK--ERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~--~kRKTIt~eDVl~AL~~  102 (188)
                      ..+.||-+.|.|++++.-- ..||+.-|...|.-+.+=....|..-|...|..  .+++-|+++||..|+..
T Consensus        22 AGL~FPVgRi~R~Lr~g~y-a~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrN   92 (134)
T PTZ00252         22 AGLIFPVGRVGSLLRRGQY-ARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRH   92 (134)
T ss_pred             cCccCchHHHHHHHHcCCc-ccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccC
Confidence            3489999999999998764 469999999888876553333333334444432  46678999999999863

>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=93.29  E-value=0.41  Score=36.10  Aligned_cols=61  Identities=20%  Similarity=0.284  Sum_probs=50.1

Q ss_pred             hHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           40 ANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        40 A~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      .-|..+|-..+ +...-..|...+|-+...+||..|+..|..+|. .++.-|+.||++-+|+.
T Consensus         6 ~ei~~mmy~~G-D~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~   66 (92)
T cd07978           6 KEIRQMMYGFG-DVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRK   66 (92)
T ss_pred             HHHHHHHHHcC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhc
Confidence            34667777665 345678899999999999999999999999999 44445699999999974

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

>KOG3423 consensus Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]

Probab=92.99  E-value=0.41  Score=40.30  Aligned_cols=69  Identities=19%  Similarity=0.242  Sum_probs=56.7

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--------------CCccCccCHHHHhh
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKER--------------RKTVNGDDICWALG  101 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~k--------------RKTIt~eDVl~AL~  101 (188)
                      .||-+.+.-.++.++  -.....-.+-+|.=++-.||.-|+..|.++|+-..              |-|++-+|+..||+
T Consensus        86 ~IPDavt~~yL~~aG--f~~~D~rv~RLvsLaAQKfvSDIa~DA~Q~~k~r~~~~~~~~k~~~kdkK~tLtmeDL~~AL~  163 (176)
T KOG3423|consen   86 TIPDAVTDHYLKKAG--FQTSDPRVKRLVSLAAQKFVSDIANDALQHSKIRTKTAIGKDKKQAKDKKYTLTMEDLSPALA  163 (176)
T ss_pred             CCcHHHHHHHHHhcC--CCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccccccccceeeeHHHHHHHHH
Confidence            688888888888876  22344556788899999999999999999998443              55899999999999


Q ss_pred             hcCCC
Q 044287          102 TLGFD  106 (188)
Q Consensus       102 ~LGF~  106 (188)
                      +.|..
T Consensus       164 EyGin  168 (176)
T KOG3423|consen  164 EYGIN  168 (176)
T ss_pred             HhCcc
Confidence            98874

>KOG4336 consensus TBP-associated transcription factor Prodos [Transcription]

Probab=92.64  E-value=0.53  Score=42.93  Aligned_cols=77  Identities=21%  Similarity=0.248  Sum_probs=64.3

Q ss_pred             HHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchHHHHHHHHHHH
Q 044287           41 NVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYR  120 (188)
Q Consensus        41 ~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~~lk~~L~~~r  120 (188)
                      .|.-|.+..+  =-.|++-|++.|.+....+|.-+...+.-+|+.+||-..+.-||.-+|-.+|+.  +..|..+++.+.
T Consensus        10 VV~~Ll~~~g--fd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~mnI~--v~sL~~~~q~~~   85 (323)
T KOG4336|consen   10 VVSNLLKTKG--FDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIEMNIK--VSSLYAYFQKQE   85 (323)
T ss_pred             HHHHHHHHhC--chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHhCCC--hhhhHHHHHhcc
Confidence            4444555544  224999999999999999999999999999999999999999999999999998  677777765554


Q ss_pred             H
Q 044287          121 E  121 (188)
Q Consensus       121 e  121 (188)
                      .
T Consensus        86 ~   86 (323)
T KOG4336|consen   86 F   86 (323)
T ss_pred             c
Confidence            4

>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]

Probab=90.56  E-value=0.83  Score=44.62  Aligned_cols=65  Identities=23%  Similarity=0.266  Sum_probs=55.3

Q ss_pred             chhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcC
Q 044287           38 PIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLG  104 (188)
Q Consensus        38 PkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LG  104 (188)
                      |+-.+.-+++..+  -..|+.||..+|.+-.+.=|..|+.+|.+.-.+.+|.+++.+||..||+.+.
T Consensus        13 ~~Es~k~vAEslG--i~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~n   77 (576)
T KOG2549|consen   13 PKESVKVVAESLG--ITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSLN   77 (576)
T ss_pred             cHHHHHHHHHHhC--ccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhcc
Confidence            3555555555543  4569999999999999999999999999999999999999999999999643

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=88.77  E-value=1.1  Score=37.40  Aligned_cols=69  Identities=12%  Similarity=0.227  Sum_probs=54.4

Q ss_pred             CchhHHHHHHhhhCC-----CCccccHHHHHHHHHHHHH---HHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCC
Q 044287           37 LPIANVGRIMKQILP-----ANAKISKEAKETMQECVSE---FISFITSEASEKCRKERRKTVNGDDICWALGTLGF  105 (188)
Q Consensus        37 LPkA~I~RImK~~LP-----~~~rISkDA~~al~eca~e---FI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF  105 (188)
                      |...-+..++...+.     ....++.++.+.|.+.+.=   .|+.++..|...+-..+.++|+.++|..++..+.|
T Consensus       192 l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~~~~  268 (269)
T TIGR03015       192 LDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAEIDF  268 (269)
T ss_pred             CCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhhc
Confidence            444555555544331     2346999999999998864   79999999999988899999999999999998865

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]

Probab=85.53  E-value=3.7  Score=33.83  Aligned_cols=79  Identities=14%  Similarity=0.256  Sum_probs=58.7

Q ss_pred             Cchh--HHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchH-HHH
Q 044287           37 LPIA--NVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAG-PIR  113 (188)
Q Consensus        37 LPkA--~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~-~lk  113 (188)
                      -|+.  .|.-|+|+..  ---...-....|.+.+=.++.-|...|.-++.++++.||.++||..|+.-.+=-+|.+ +=+
T Consensus        12 ~pkDa~~i~~iL~s~G--I~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~~~~~sf~~pPpR   89 (148)
T KOG3334|consen   12 VPKDARVIASILKSLG--IQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQMRVDHSFTPPPPR   89 (148)
T ss_pred             CcHHHHHHHHHHHHcC--ccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHhccccCCCCch
Confidence            4554  2444445443  2235666777888899999999999999999999999999999999999777666666 444


Q ss_pred             HHHH
Q 044287          114 RYLH  117 (188)
Q Consensus       114 ~~L~  117 (188)
                      ++|-
T Consensus        90 e~lL   93 (148)
T KOG3334|consen   90 EFLL   93 (148)
T ss_pred             HHHH
Confidence            4443

>KOG2389 consensus Predicted bromodomain transcription factor [Transcription]

Probab=85.45  E-value=1.6  Score=40.45  Aligned_cols=69  Identities=20%  Similarity=0.207  Sum_probs=58.3

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCC
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFD  106 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~  106 (188)
                      .|-+..|..|.....-.  ....-|.+.|+..+..||+-|+..|..++...||--.+.-||+.||+.|+..
T Consensus        29 sla~~avaQIcqslg~~--~~~~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~epnl~Div~Al~dls~s   97 (353)
T KOG2389|consen   29 SLARVAVAQICQSLGYS--STQNSALETLTDVLQQYVQNLGKTAHRYSNLANRTEPNLFDIVLALQDLSAS   97 (353)
T ss_pred             HHHHHHHHHHHHhcCCc--ccccHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCccHHHHHHHHHHhhhh
Confidence            46667888888776532  3334499999999999999999999999999999999999999999987654

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=83.91  E-value=3.7  Score=36.49  Aligned_cols=70  Identities=11%  Similarity=0.116  Sum_probs=51.7

Q ss_pred             hhHHHHHHhhhCCC---CccccHHHHHHHHHHH------HHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcc
Q 044287           39 IANVGRIMKQILPA---NAKISKEAKETMQECV------SEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDY  108 (188)
Q Consensus        39 kA~I~RImK~~LP~---~~rISkDA~~al~eca------~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dy  108 (188)
                      ...+..|++..+..   ...++.++.+.+.+.+      ...+..+...|...|...++.+|+.+||..|+..+....+
T Consensus       209 ~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~~~~~~  287 (394)
T PRK00411        209 ADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKSEIVHL  287 (394)
T ss_pred             HHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHHHHHH
Confidence            45566666655421   2358999999988877      3455566788888999999999999999999998844333

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	188
4g91_B	92	Ccaat-Binding Complex From Aspergillus Nidulans Len		3e-34
4awl_B	94	The Nf-y Transcription Factor Is Structurally And F		2e-31
1n1j_A	93	Crystal Structure Of The Nf-YbNF-Yc Histone Pair Le		3e-31
1jfi_B	179	Crystal Structure Of The Nc2-Tbp-Dna Ternary Comple		4e-11
2byk_B	128	Histone Fold Heterodimer Of The Chromatin Accessibi		3e-09

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

Iteration: 1
 Score =  140 bits (354), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 66/92 (71%), Positives = 80/92 (86%)
Query: 30  IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRK 89
           +KEQ+R LPIANV RIMK  LP NAKI+KEAKE MQECVSEFISFITSEASEKC++E+RK
Sbjct: 1   MKEQDRWLPIANVARIMKLALPENAKIAKEAKECMQECVSEFISFITSEASEKCQQEKRK 60
Query: 90  TVNGDDICWALGTLGFDDYAGPIRRYLHKYRE 121
           TVNG+DI +A+ +LGF++YA  ++ YL KYRE
Sbjct: 61  TVNGEDILFAMTSLGFENYAEALKIYLSKYRE 92

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

Iteration: 1
 Score =  131 bits (329), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 58/92 (63%), Positives = 74/92 (80%)
Query: 30  IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRK 89
            +EQ+  LPIANV RIMK  +P   KI+K+AKE +QECVSEFISFITSEASE+C +E+RK
Sbjct: 3   FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRK 62
Query: 90  TVNGDDICWALGTLGFDDYAGPIRRYLHKYRE 121
           T+NG+DI +A+ TLGFD Y  P++ YL K+RE
Sbjct: 63  TINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 94

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

Iteration: 1
 Score =  131 bits (329), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 58/92 (63%), Positives = 74/92 (80%)
Query: 30  IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRK 89
            +EQ+  LPIANV RIMK  +P   KI+K+AKE +QECVSEFISFITSEASE+C +E+RK
Sbjct: 2   FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRK 61
Query: 90  TVNGDDICWALGTLGFDDYAGPIRRYLHKYRE 121
           T+NG+DI +A+ TLGFD Y  P++ YL K+RE
Sbjct: 62  TINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 93

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

Iteration: 1
 Score = 64.3 bits (155), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 29/90 (32%), Positives = 56/90 (62%), Gaps = 1/90 (1%)
Query: 37  LPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDI 96
           +P A + +++K+ LP N +++ +A+E +  C +EFI  I+SEA+E C K  +KT++ + +
Sbjct: 16  IPRAAINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHV 74
Query: 97  CWALGTLGFDDYAGPIRRYLHKYRELEGER 126
             AL +LGF  Y   ++  L + + +  +R
Sbjct: 75  IQALESLGFGSYISEVKEVLQECKTVALKR 104

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

Iteration: 1
 Score = 57.8 bits (138), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 29/84 (34%), Positives = 46/84 (54%)
Query: 37  LPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDI 96
           LP A +GR++K+ LP +A +SKEA+  +    S F  F+TS ++    K+  KT+   DI
Sbjct: 10  LPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDI 69
Query: 97  CWALGTLGFDDYAGPIRRYLHKYR 120
              L  L F+ +   + + L  YR
Sbjct: 70  LQTLTELDFESFVPSLTQDLEVYR 93

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	188
2byk_B	128	Chrac-14; nucleosome sliding, histone fold, DNA-bi	3e-43
1n1j_A	93	NF-YB; histone-like PAIR, DNA binding protein; 1.6	9e-43
1jfi_B	179	DR1 protein, transcription regulator NC2 beta chai	1e-39
1b67_A	68	Protein (histone HMFA); DNA binding protein; 1.48A	3e-22
1ku5_A	70	HPHA, archaeal histon; histone fold, DNA binding p	5e-21
1n1j_B	97	NF-YC; histone-like PAIR, DNA binding protein; 1.6	2e-11
2byk_A	140	Chrac-16; nucleosome sliding, histone fold, DNA-bi	2e-09
3b0c_T	111	CENP-T, centromere protein T; histone fold, DNA bi	8e-06
1jfi_A	98	Transcription regulator NC2 alpha chain; histone,	1e-04

>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 =  139 bits (352), Expect = 3e-43
 Identities = 35/123 (28%), Positives = 62/123 (50%)

Query: 31  KEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKT 90
           + ++  LP A +GR++K+ LP +A +SKEA+  +    S F  F+TS ++    K+  KT
Sbjct: 4   RIEDLNLPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKT 63

Query: 91  VNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQDKASNSNSNININEEREEPA 150
           +   DI   L  L F+ +   + + L  YR++  E+   +    +SN+  N N      A
Sbjct: 64  ITAKDILQTLTELDFESFVPSLTQDLEVYRKVVKEKKESKASKKDSNTAENANASATATA 123

Query: 151 GSS 153
             +
Sbjct: 124 EEA 126

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

 Score =  137 bits (346), Expect = 9e-43
 Identities = 58/91 (63%), Positives = 74/91 (81%)

Query: 31  KEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKT 90
           +EQ+  LPIANV RIMK  +P   KI+K+AKE +QECVSEFISFITSEASE+C +E+RKT
Sbjct: 3   REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 62

Query: 91  VNGDDICWALGTLGFDDYAGPIRRYLHKYRE 121
           +NG+DI +A+ TLGFD Y  P++ YL K+RE
Sbjct: 63  INGEDILFAMSTLGFDSYVEPLKLYLQKFRE 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 =  132 bits (332), Expect = 1e-39
 Identities = 31/117 (26%), Positives = 61/117 (52%), Gaps = 1/117 (0%)

Query: 22  GASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASE 81
           G         + +  +P A + +++K+ LP N +++ +A+E +  C +EFI  I+SEA+E
Sbjct: 1   GPHMASSSGNDDDLTIPRAAINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSEANE 59

Query: 82  KCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQDKASNSNS 138
            C K  +KT++ + +  AL +LGF  Y   ++  L + + +  +R     +  N   
Sbjct: 60  ICNKSEKKTISPEHVIQALESLGFGSYISEVKEVLQECKTVALKRRKASSRLENLGI 116

>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 = 84.3 bits (209), Expect = 3e-22
 Identities = 21/67 (31%), Positives = 34/67 (50%), Gaps = 2/67 (2%)

Query: 37  LPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDI 96
           LPIA +GRI+K       ++S +A+  + + + E    I SEA +  +   RKT+  +DI
Sbjct: 3   LPIAPIGRIIKNAGAE--RVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDI 60

Query: 97  CWALGTL 103
             A    
Sbjct: 61  ELARKMF 67

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

 Score = 81.3 bits (201), Expect = 5e-21
 Identities = 21/66 (31%), Positives = 37/66 (56%), Gaps = 2/66 (3%)

Query: 37  LPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDI 96
           LPIA V R++++      ++S++A + + E + E+   I  +A E  R   RKTV  +DI
Sbjct: 7   LPIAPVDRLIRKAGAE--RVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDI 64

Query: 97  CWALGT 102
             A+ +
Sbjct: 65  KLAIKS 70

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

 Score = 56.9 bits (137), Expect = 2e-11
 Identities = 19/69 (27%), Positives = 32/69 (46%), Gaps = 1/69 (1%)

Query: 32  EQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTV 91
            + + LP+A + +IMK        IS EA     +    FI+ +T  A       +R+T+
Sbjct: 15  FRVQELPLARIKKIMKLD-EDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTL 73

Query: 92  NGDDICWAL 100
             +DI  A+
Sbjct: 74  QRNDIAMAI 82

>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 = 52.8 bits (126), Expect = 2e-09
 Identities = 23/132 (17%), Positives = 52/132 (39%), Gaps = 9/132 (6%)

Query: 31  KEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEA-SEKCRKERRK 89
              E  LP++ V  IMK        I+ E    M +C   F+  +   A +E+  +   +
Sbjct: 14  PTAETFLPLSRVRTIMKS-SMDTGLITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPGE 72

Query: 90  TVNGDDICWAL---GTLGFDDYAGPIRRYLHKYRELEGERANQQDKASNSNSNININEER 146
            +  + +   +     L F     P +  +H+++E+     +      + +     +++ 
Sbjct: 73  ALKYEHLSQVVNKNKNLEFLLQIVPQKIRVHQFQEMLRLNRSAGSDDDDDDD----DDDD 128

Query: 147 EEPAGSSYGADD 158
           EE + S   +D+
Sbjct: 129 EEESESESESDE 140

>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 = 42.3 bits (99), Expect = 8e-06
 Identities = 14/87 (16%), Positives = 36/87 (41%), Gaps = 2/87 (2%)

Query: 37  LPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDI 96
           +  + + +I          ++++A + +++C   +   I+S+     +   RKTV   D+
Sbjct: 8   IASSLIKQIFSHY--VKTPVTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADV 65

Query: 97  CWALGTLGFDDYAGPIRRYLHKYRELE 123
              +   G      P+   + ++  LE
Sbjct: 66  ELLMRRQGLVTDKMPLHVLVERHLPLE 92

>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 = 38.7 bits (90), Expect = 1e-04
 Identities = 10/70 (14%), Positives = 26/70 (37%), Gaps = 1/70 (1%)

Query: 31  KEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKT 90
           K+     P A + +IM+       K++      +   +  F+  +  +A +  +    KT
Sbjct: 6   KKYNARFPPARIKKIMQTD-EEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKT 64

Query: 91  VNGDDICWAL 100
           +    +   +
Sbjct: 65  MTTSHLKQCI 74

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	188
1jfi_B	179	DR1 protein, transcription regulator NC2 beta chai	100.0
2byk_B	128	Chrac-14; nucleosome sliding, histone fold, DNA-bi	99.95
1n1j_A	93	NF-YB; histone-like PAIR, DNA binding protein; 1.6	99.95
3b0c_W	76	CENP-W, centromere protein W; histone fold, DNA bi	99.84
1f1e_A	154	Histone fold protein; archaeal histone protein, DN	99.82
3b0c_T	111	CENP-T, centromere protein T; histone fold, DNA bi	99.76
1b67_A	68	Protein (histone HMFA); DNA binding protein; 1.48A	99.76
1f1e_A	154	Histone fold protein; archaeal histone protein, DN	99.69
2byk_A	140	Chrac-16; nucleosome sliding, histone fold, DNA-bi	99.68
1id3_B	102	Histone H4; nucleosome core particle, chromatin, p	99.67
2hue_C	84	Histone H4; mini beta sheet, elongated beta sandwh	99.66
4g92_C	119	HAPE; transcription factor, nucleosome, minor groo	99.59
1tzy_D	103	Histone H4-VI; histone-fold, tetramer-dimer-dimer,	99.59
1n1j_B	97	NF-YC; histone-like PAIR, DNA binding protein; 1.6	99.58
2yfw_B	103	Histone H4, H4; cell cycle, kinetochore, centromer	99.57
1ku5_A	70	HPHA, archaeal histon; histone fold, DNA binding p	99.57
1jfi_A	98	Transcription regulator NC2 alpha chain; histone,	99.27
2hue_B	77	Histone H3; mini beta sheet, elongated beta sandwh	99.09
2yfv_A	100	Histone H3-like centromeric protein CSE4; cell cyc	98.97
3nqj_A	82	Histone H3-like centromeric protein A; alpha helix	98.95
3nqu_A	140	Histone H3-like centromeric protein A; alpha helix	98.88
3r45_A	156	Histone H3-like centromeric protein A; histone fol	98.88
1tzy_C	136	Histone H3; histone-fold, tetramer-dimer-dimer, DN	98.88
1taf_B	70	TFIID TBP associated factor 62; transcription init	98.83
4dra_A	113	Centromere protein S; DNA binding complex, DNA dam	98.65
3v9r_A	90	MHF1, uncharacterized protein YOL086W-A; histone f	98.6
3b0b_B	107	CENP-S, centromere protein S; histone fold, DNA bi	98.6
3vh5_A	140	CENP-S; histone fold, chromosome segregation, DNA	98.59
1taf_A	68	TFIID TBP associated factor 42; transcription init	98.53
2ly8_A	121	Budding yeast chaperone SCM3; centromere protein,	98.48
1f66_C	128	Histone H2A.Z; nucleosome, chromatin, histone vari	98.37
2nqb_C	123	Histone H2A; nucleosome, NCP, chromatin, structura	98.34
2l5a_A	235	Histone H3-like centromeric protein CSE4, protein	98.33
1tzy_A	129	Histone H2A-IV; histone-fold, tetramer-dimer-dimer	98.31
2f8n_G	120	Core histone macro-H2A.1; nucleosome, NCP, macroh2	98.28
1id3_C	131	Histone H2A.1; nucleosome core particle, chromatin	98.28
2f8n_K	149	Histone H2A type 1; nucleosome, NCP, macroh2A, his	98.19
2l5a_A	235	Histone H3-like centromeric protein CSE4, protein	98.16
2nqb_D	123	Histone H2B; nucleosome, NCP, chromatin, structura	98.13
1tzy_B	126	Histone H2B; histone-fold, tetramer-dimer-dimer, D	98.09
2jss_A	192	Chimera of histone H2B.1 and histone H2A.Z; histon	98.08
4dra_E	84	Centromere protein X; DNA binding complex, DNA dam	97.87
2jss_A	192	Chimera of histone H2B.1 and histone H2A.Z; histon	97.78
3b0b_C	81	CENP-X, centromere protein X; histone fold, DNA bi	97.78
1bh9_B	89	TAFII28; histone fold, tata binding protein, trans	97.67
1h3o_B	76	Transcription initiation factor TFIID 20/15 kDa su	97.63
2ly8_A	121	Budding yeast chaperone SCM3; centromere protein,	95.95
3v9r_B	88	MHF2, uncharacterized protein YDL160C-A; histone f	95.89
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	87.67
3ksy_A	1049	SOS-1, SON of sevenless homolog 1; RAS, RAS activa	85.35
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	82.05

>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=100.00  E-value=2e-34  Score=238.09  Aligned_cols=124  Identities=26%  Similarity=0.483  Sum_probs=115.5

Q ss_pred             CccccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcch
Q 044287           30 IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYA  109 (188)
Q Consensus        30 ~~~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi  109 (188)
                      ...+|+.||+|+|.||||++|| +++||+||+++|++||++||+|||++|+++|.+++||||+++||++||+.|||++|+
T Consensus         9 ~~~eD~~LP~A~V~RImK~alp-~~rISkDA~~al~ec~~eFI~~LtseA~e~a~~~~RKTI~~eDVl~Al~~LgF~~fv   87 (179)
T 1jfi_B            9 GNDDDLTIPRAAINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALESLGFGSYI   87 (179)
T ss_dssp             ---CCCCCCHHHHHHHHHHHST-TCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHTTGGGH
T ss_pred             CchhhhhcCHHHHHHHHHHhCC-ccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHhcChHHHH
Confidence            4458899999999999999999 999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhccccCCcch----hhhhhhcCCCCCCC
Q 044287          110 GPIRRYLHKYRELEGERANQQDKASNSNSNI----NINEEREEPAGSSY  154 (188)
Q Consensus       110 ~~lk~~L~~~re~~~~K~~~~~K~~~sg~~~----~~~~~~~~~~~~~~  154 (188)
                      ++|+.+|+.||++++.|+++++|++++|+++    +.|+++|+.++..+
T Consensus        88 ~~lk~~L~~yre~~~~kkr~~~K~~~sg~~~Eel~~~Qqelf~~Ar~~~  136 (179)
T 1jfi_B           88 SEVKEVLQECKTVALKRRKASSRLENLGIPEEELLRQQQELFAKARQQQ  136 (179)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCccccchhhccCCCHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999986    55889998777643

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

Probab=99.95  E-value=7.5e-29  Score=194.85  Aligned_cols=98  Identities=31%  Similarity=0.519  Sum_probs=88.1

Q ss_pred             cccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchHH
Q 044287           32 EQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGP  111 (188)
Q Consensus        32 ~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~~  111 (188)
                      .+++.||+|+|.||||+++|++.+||+||+.+|++||++||+|||++|+++|.+++||||+++||++||+.+||.+|+++
T Consensus         5 ~~d~~LP~A~I~rImK~~~pd~~~iS~dA~~~l~ka~e~FI~~lt~~A~~~a~~~kRKTI~~~Dv~~Al~~l~f~~fl~~   84 (128)
T 2byk_B            5 IEDLNLPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLTELDFESFVPS   84 (128)
T ss_dssp             ------CCSHHHHHHHHHSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHTTCTTTHHH
T ss_pred             cccccCCHHHHHHHHHHhCcccceECHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHHcCcHHHHHH
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhh
Q 044287          112 IRRYLHKYRELEGERANQ  129 (188)
Q Consensus       112 lk~~L~~~re~~~~K~~~  129 (188)
                      |+.+|+.|++.++.|+..
T Consensus        85 lk~~l~~yr~~~~~kk~~  102 (128)
T 2byk_B           85 LTQDLEVYRKVVKEKKES  102 (128)
T ss_dssp             HHHHHHHHHHHHTTC---
T ss_pred             HHHHHHHHHHHHHhhhhh
Confidence            999999999999887654

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

Probab=99.95  E-value=1.8e-28  Score=181.85  Aligned_cols=92  Identities=63%  Similarity=1.064  Sum_probs=85.8

Q ss_pred             CccccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcch
Q 044287           30 IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYA  109 (188)
Q Consensus        30 ~~~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi  109 (188)
                      ++++|+.||+|+|.||||+.+|++.+||+||+.+|++||++||.||+++|+++|.+++||||+++||.+||+.|||.+|+
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            46788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHH
Q 044287          110 GPIRRYLHKYRE  121 (188)
Q Consensus       110 ~~lk~~L~~~re  121 (188)
                      ++++.+|++||+
T Consensus        82 ~~~~~~l~~~r~   93 (93)
T 1n1j_A           82 EPLKLYLQKFRE   93 (93)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhC
Confidence            999999999984

>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=99.84  E-value=1.6e-21  Score=140.04  Aligned_cols=68  Identities=15%  Similarity=0.260  Sum_probs=64.8

Q ss_pred             ccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhc
Q 044287           35 RLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTL  103 (188)
Q Consensus        35 ~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~L  103 (188)
                      ..||+|+|.||||+++| +++||+||+++|++|+++||++|+++|+++|.+++||||+++||.+|++.+
T Consensus         3 ~~LP~A~V~rI~K~~~p-~~~is~~A~~~i~~~~~~Fi~~la~eA~~~a~~~~rKTI~~~dI~~A~~~l   70 (76)
T 3b0c_W            3 RTVPRGTLRKIIKKHKP-HLRLAANTDLLVHLSFLLFLHRLAEEARTNAFENKSKIIKPEHTIAAAKVI   70 (76)
T ss_dssp             -CCCHHHHHHHHHHHCT-TCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHHHH
T ss_pred             CcccccHHHHHHHHhCC-CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            47999999999999998 799999999999999999999999999999999999999999999999764

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

Probab=99.82  E-value=1.3e-20  Score=152.34  Aligned_cols=75  Identities=20%  Similarity=0.293  Sum_probs=71.8

Q ss_pred             ccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchH
Q 044287           35 RLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAG  110 (188)
Q Consensus        35 ~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~  110 (188)
                      ..||+++|.||||++||. .|||+||+++|++|+++|+.+|+++|+++|.++|||||+++||++||..|||++|++
T Consensus         3 ~~LP~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            3 VELPKAAIERIFRQGIGE-RRLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHLKALADVLMVEGVED   77 (154)
T ss_dssp             -CCCHHHHHHHHHTTSTT-CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHHHHTCTTSTT
T ss_pred             ccCCccHHHHHHHhcCCc-cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHhcccccCCc
Confidence            369999999999999985 999999999999999999999999999999999999999999999999999999865

>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=99.76  E-value=1.1e-18  Score=134.05  Aligned_cols=90  Identities=16%  Similarity=0.286  Sum_probs=80.0

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchHHH
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPI  112 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~~l  112 (188)
                      +|..||+++|.||||...  ..+||+++.++|.+|+.+|+..|+.+|..+|+|+|||||+++||+.||+.+|+..|..++
T Consensus         4 ~d~~lP~a~I~Ri~r~~g--~~rIS~~a~~~l~e~l~~f~~~v~~da~~~A~HA~RKTV~~eDV~lalrr~g~~~~~~~l   81 (111)
T 3b0c_T            4 REPEIASSLIKQIFSHYV--KTPVTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADVELLMRRQGLVTDKMPL   81 (111)
T ss_dssp             ------CHHHHHHHHHHH--CSCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHTTSSBTTBCH
T ss_pred             CCCCCCHHHHHHHHHHCC--CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHHCCCccccccH
Confidence            678999999999999995  799999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHH--HHHHH
Q 044287          113 RRYLHKY--RELEG  124 (188)
Q Consensus       113 k~~L~~~--re~~~  124 (188)
                      ..+++.|  +|..+
T Consensus        82 ~~l~~~~lp~E~~~   95 (111)
T 3b0c_T           82 HVLVERHLPLEYRK   95 (111)
T ss_dssp             HHHHHHHSCHHHHH
T ss_pred             HHHHHHhCcHHHHH
Confidence            9999999  55333

>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=99.76  E-value=8.7e-19  Score=122.53  Aligned_cols=66  Identities=32%  Similarity=0.467  Sum_probs=63.8

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhc
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTL  103 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~L  103 (188)
                      .||+++|.||||+.  ++.+||+||+.+|++|+++||.+|+.+|+.+|.+++||||+++||..|++.|
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            59999999999999  4799999999999999999999999999999999999999999999999886

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

Probab=99.69  E-value=3.8e-17  Score=132.09  Aligned_cols=75  Identities=24%  Similarity=0.285  Sum_probs=70.4

Q ss_pred             CCCCCccccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           26 DDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        26 ~~~~~~~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      .+++.+.+++.||+++|.||||+.  +..|||.||+++|++|+++|+.+|+++|+++|.+++||||+++||.+||+.
T Consensus        72 ~~~v~d~~~l~lP~a~V~Ri~k~~--g~~RVS~~A~~~l~~~le~f~~~I~~~A~~~a~ha~RKTIt~eDV~~Al~~  146 (154)
T 1f1e_A           72 VEGVEDYDGELFGRATVRRILKRA--GIERASSDAVDLYNKLICRATEELGEKAAEYADEDGRKTVQGEDVEKAITY  146 (154)
T ss_dssp             CTTSTTCCSCCCCHHHHHHHHHHT--TCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             cccCCccccccCCccHHHHHHHHc--CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHh
Confidence            456677789999999999999999  378999999999999999999999999999999999999999999999985

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

Probab=99.68  E-value=1.2e-17  Score=133.08  Aligned_cols=95  Identities=19%  Similarity=0.284  Sum_probs=62.8

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHH-HhcCCCccCccCHHHHhhh---cCCCcc
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKC-RKERRKTVNGDDICWALGT---LGFDDY  108 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a-~~~kRKTIt~eDVl~AL~~---LGF~dy  108 (188)
                      ..+.||.+.|.||||.. |+..+||++|..+|++|++.||.+|+..|+.+| ...+||||++.||.+|+..   |+|..+
T Consensus        16 ~~~~LPlaRIKrIMK~d-pdv~~Is~eA~vliakA~ElFI~~Lt~~A~~~a~~~~kRKtI~~~Dl~~AV~~~e~~dFL~d   94 (140)
T 2byk_A           16 AETFLPLSRVRTIMKSS-MDTGLITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPGEALKYEHLSQVVNKNKNLEFLLQ   94 (140)
T ss_dssp             -------------CCSS-SSCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCEECHHHHHHHHHTCSTTGGGTT
T ss_pred             cCCCCCHHHHHHHHhcC-cccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccCHHHHHHHHhcCchhhhHhc
Confidence            45789999999999997 778899999999999999999999999999999 9999999999999999985   566666


Q ss_pred             hHHHHHHHHHHHHHHHhhhh
Q 044287          109 AGPIRRYLHKYRELEGERAN  128 (188)
Q Consensus       109 i~~lk~~L~~~re~~~~K~~  128 (188)
                      +-|.+.++..|+++.+.+++
T Consensus        95 ivP~ki~l~~~~~~~~~~~~  114 (140)
T 2byk_A           95 IVPQKIRVHQFQEMLRLNRS  114 (140)
T ss_dssp             TSCSCC--------------
T ss_pred             cccchhhHHHHHHHHHhccc
Confidence            66999999999998776543

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

Probab=99.67  E-value=7.5e-17  Score=122.12  Aligned_cols=86  Identities=19%  Similarity=0.261  Sum_probs=72.2

Q ss_pred             CCCCCCCCCCccccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHh
Q 044287           21 AGASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWAL  100 (188)
Q Consensus        21 ~~~~~~~~~~~~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL  100 (188)
                      .++-.+...++.....||+++|.||++...  ..+||.|+.++|++|+++|+..|+.+|..+|++++||||+++||.+||
T Consensus        13 ~g~kr~~k~~r~~i~~ip~~~I~Rlar~~G--v~rIS~da~~~l~~~le~fi~~I~~dA~~~a~HakRKTVt~~DV~~AL   90 (102)
T 1id3_B           13 GGAKRHRKILRDNIQGITKPAIRRLARRGG--VKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYAL   90 (102)
T ss_dssp             -----------CCGGGSCHHHHHHHHHHTT--CCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHH
T ss_pred             CccchHHHHHHhccCCCCHHHHHHHHHHcC--chhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHHH
Confidence            455677778888899999999999999986  589999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCcc
Q 044287          101 GTLGFDDY  108 (188)
Q Consensus       101 ~~LGF~dy  108 (188)
                      +.+||.-|
T Consensus        91 kr~g~~lY   98 (102)
T 1id3_B           91 KRQGRTLY   98 (102)
T ss_dssp             HHTTCCEE
T ss_pred             HHcCCCCC
Confidence            99999866

>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=99.66  E-value=9.4e-17  Score=117.33  Aligned_cols=78  Identities=19%  Similarity=0.244  Sum_probs=72.6

Q ss_pred             CCccccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcc
Q 044287           29 GIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDY  108 (188)
Q Consensus        29 ~~~~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dy  108 (188)
                      .++.....||+++|.||++..+  ..+||.|+.++|.+|+++|+..|+.+|..+|++++||||+++||.+||+.+||.-|
T Consensus         3 ~~r~~~~~ip~~~I~Riar~~G--v~rIs~da~~~l~~~l~~~~~~I~~dA~~~a~ha~RKTvt~~DV~~Alk~~g~~lY   80 (84)
T 2hue_C            3 VLRDNIQGITKPAIRRLARRGG--VKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLY   80 (84)
T ss_dssp             CGGGGCCSSCHHHHHHHHHHTT--CCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTTCEEEE
T ss_pred             cccccCCCCCHHHHHHHHHHcC--chhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHcCCCCC
Confidence            4556677899999999999986  58999999999999999999999999999999999999999999999999998766

>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=99.59  E-value=1.5e-15  Score=117.51  Aligned_cols=76  Identities=28%  Similarity=0.349  Sum_probs=69.1

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcch
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYA  109 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi  109 (188)
                      ....||.|.|.||||.. |+..+||+||..+|.+|++.||.+|+..|+..|...+||||+++||..|++..+..+|+
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            35679999999999975 78889999999999999999999999999999999999999999999999876654554

>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=99.59  E-value=2e-15  Score=114.01  Aligned_cols=84  Identities=19%  Similarity=0.234  Sum_probs=74.5

Q ss_pred             CCCCCCCCccccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           23 ASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        23 ~~~~~~~~~~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      +..+...++.....||+++|.||++....  .+||.+|.+.|.+|++.|+..|+.+|..+|++++||||+++||.+||+.
T Consensus        16 ~kr~~k~~r~~~~gip~~~I~Rlar~~G~--~rIs~~a~~~l~~vle~~~~~V~~dA~~~a~hakRktIt~~DV~~Alr~   93 (103)
T 1tzy_D           16 AKRHRKVLRDNIQGITKPAIRRLARRGGV--KRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKR   93 (103)
T ss_dssp             -----CCCCCGGGGSCHHHHHHHHHHTTC--CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             ccccccchhhhcccCCHHHHHHHHHHcCc--cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHH
Confidence            33556667888889999999999999873  7999999999999999999999999999999999999999999999999


Q ss_pred             cCCCcc
Q 044287          103 LGFDDY  108 (188)
Q Consensus       103 LGF~dy  108 (188)
                      +||+.|
T Consensus        94 ~g~~lY   99 (103)
T 1tzy_D           94 QGRTLY   99 (103)
T ss_dssp             TTCEEE
T ss_pred             cCCCCc
Confidence            998765

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

Probab=99.58  E-value=2.6e-15  Score=112.19  Aligned_cols=77  Identities=26%  Similarity=0.298  Sum_probs=69.1

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchH
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAG  110 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~  110 (188)
                      ....||.|.|.||||.. |+..+||+||..+|.+|++.||.+|+..|+..|.+.+||||+++||..|++..++.+|+.
T Consensus        16 ~~~~lP~arIkrImK~~-~~~~~is~eA~~~laka~E~Fi~~l~~~A~~~a~~~krktI~~~di~~Av~~~e~~~FL~   92 (97)
T 1n1j_B           16 RVQELPLARIKKIMKLD-EDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAITKFDQFDFLI   92 (97)
T ss_dssp             ----CCHHHHHHHHTTS-TTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHTTCGGGGGGT
T ss_pred             CCCcCCHHHHHHHHccC-ccccccChHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCHHHHHHHHhcCcHHHHHH
Confidence            45689999999999998 666799999999999999999999999999999999999999999999999988887764

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

Probab=99.57  E-value=2.1e-15  Score=114.01  Aligned_cols=85  Identities=20%  Similarity=0.271  Sum_probs=64.4

Q ss_pred             CCCCCCCCCccccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           22 GASSDDGGIKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        22 ~~~~~~~~~~~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      ++..+...++.....||+++|.||++....  .+||.+|.+.|.++++.|+..|+.+|..+|++++||||+++||.+||+
T Consensus        15 ~~kr~~~~~r~~~~gip~~~I~Rlar~~G~--~rIs~~a~~~l~~vle~~~~~V~~dA~~~a~hakRktvt~~DV~~Alr   92 (103)
T 2yfw_B           15 GAKRHRKILRDNIQGITKPAIRRLARRGGV--KRISGLIYEEVRNVLKTFLESVIRDAVTYTEHAKRKTVTSLDVVYALK   92 (103)
T ss_dssp             ---------------CCHHHHHHHHHHTTC--CEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             CccchhhhhhhhhccCCHHHHHHHHHHcCc--cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHH
Confidence            344556667788888999999999999873  799999999999999999999999999999999999999999999999


Q ss_pred             hcCCCcc
Q 044287          102 TLGFDDY  108 (188)
Q Consensus       102 ~LGF~dy  108 (188)
                      .+||..|
T Consensus        93 ~~g~~lY   99 (103)
T 2yfw_B           93 RQGRTLY   99 (103)
T ss_dssp             HHC----
T ss_pred             HcCCCCc
Confidence            9998765

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

Probab=99.57  E-value=4.5e-15  Score=104.51  Aligned_cols=64  Identities=33%  Similarity=0.450  Sum_probs=61.7

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      .||+++|.||+|+..  ..+||++|..+|++|+..|+..|+..|+.+|.++|||||+++||..|++
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 ELPIAPVDRLIRKAG--AERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIK   69 (70)
T ss_dssp             CSCHHHHHHHHHHTT--CSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHT
T ss_pred             cCChHHHHHHHHHcC--cceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence            699999999999974  7899999999999999999999999999999999999999999999986

>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=99.27  E-value=4.2e-12  Score=95.09  Aligned_cols=76  Identities=13%  Similarity=0.164  Sum_probs=59.7

Q ss_pred             cccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchH
Q 044287           34 ERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAG  110 (188)
Q Consensus        34 d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~  110 (188)
                      ...||.+.|.||||.. |+..+||.+|..+|.++++.|+.+|+..|+..|.+.+||||+++||..|++.-+..+|+.
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 NARFPPARIKKIMQTD-EEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQCIELEGDPAANK   84 (98)
T ss_dssp             -CCCCHHHHHHHHTTS-TTCCCBCTTHHHHHHHHHHHHHHHHHHHHHHHHHTC---CBCHHHHHTTCC---------
T ss_pred             CCCCChHHHHHHHHcC-ccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHhcCchhhHHH
Confidence            4689999999999974 556799999999999999999999999999999999999999999999999766555554

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

Probab=99.09  E-value=1.6e-10  Score=83.84  Aligned_cols=71  Identities=17%  Similarity=0.225  Sum_probs=65.0

Q ss_pred             cccCchhHHHHHHhhhCC---CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcC
Q 044287           34 ERLLPIANVGRIMKQILP---ANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLG  104 (188)
Q Consensus        34 d~~LPkA~I~RImK~~LP---~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LG  104 (188)
                      ++.||++++.||+|++..   .+.|++.+|..+||++++.|+.-|...||..|.|.||+||.++||--|.+--|
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            468999999999999943   47899999999999999999999999999999999999999999999987655

>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=98.97  E-value=6.6e-10  Score=84.09  Aligned_cols=72  Identities=14%  Similarity=0.168  Sum_probs=60.6

Q ss_pred             CccccccCchhHHHHHHhhhCCC------CccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           30 IKEQERLLPIANVGRIMKQILPA------NAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        30 ~~~~d~~LPkA~I~RImK~~LP~------~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      .+..++.||++++.||++++..+      +.+++.+|..+||++++.|+.-|...||..|.+.||+||.+.||--|.+
T Consensus        21 Qkst~llIpk~PF~RLVREI~~~~~~~~~~~R~q~~Al~ALQeaaEayLv~Lfeda~l~A~HAkRvTi~~kDiqLa~r   98 (100)
T 2yfv_A           21 QRSTDLLISRMPFARLVKEVTDQFTTESEPLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKRITIMRKDMQLARR   98 (100)
T ss_dssp             -------CCHHHHHHHHHHHHHTTC-----CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             cccchhhhccccHHHHHHHHHHHhccccchhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCHHHHHHHHH
Confidence            34578999999999999999842      6899999999999999999999999999999999999999999988764

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

Probab=98.95  E-value=9.7e-10  Score=80.55  Aligned_cols=70  Identities=19%  Similarity=0.173  Sum_probs=64.3

Q ss_pred             ccCchhHHHHHHhhhCC-----CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcC
Q 044287           35 RLLPIANVGRIMKQILP-----ANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLG  104 (188)
Q Consensus        35 ~~LPkA~I~RImK~~LP-----~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LG  104 (188)
                      +.||++++.||+|++..     .+.|++.+|..+||++++.|+.-|...||..|.|.||+||.++||--|..--|
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            46999999999999983     26899999999999999999999999999999999999999999998886544

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

Probab=98.88  E-value=1.8e-09  Score=86.14  Aligned_cols=75  Identities=19%  Similarity=0.187  Sum_probs=66.5

Q ss_pred             ccccccCchhHHHHHHhhhCC-----CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCC
Q 044287           31 KEQERLLPIANVGRIMKQILP-----ANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGF  105 (188)
Q Consensus        31 ~~~d~~LPkA~I~RImK~~LP-----~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF  105 (188)
                      +..++.||++.+.||++++..     .+.+++.+|+.+||++++.|+..|...||..|.|.+|+||.++||--|+.--|.
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            568899999999999999983     268999999999999999999999999999999999999999999999876554

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

Probab=98.88  E-value=2e-09  Score=87.19  Aligned_cols=73  Identities=18%  Similarity=0.151  Sum_probs=65.0

Q ss_pred             ccccccCchhHHHHHHhhhCCC-----CccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhc
Q 044287           31 KEQERLLPIANVGRIMKQILPA-----NAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTL  103 (188)
Q Consensus        31 ~~~d~~LPkA~I~RImK~~LP~-----~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~L  103 (188)
                      +..++.||++.+.|||+++..+     +.+++.+|+.+||++++.|+.-|...||..|.+.+|+||.++||--|+.--
T Consensus        72 kSteLLIpKlPF~RLVREIa~~~~~~~~lRfqs~Al~ALQEAaEayLV~LFEdanLcAiHAkRVTIm~kDIqLArrIr  149 (156)
T 3r45_A           72 KSTHLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARRIR  149 (156)
T ss_dssp             ---CCCSCHHHHHHHHHHHHHTTTTTCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSEECHHHHHHHHHHH
T ss_pred             cccccccccccHHHHHHHHHHHhccCccceecHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccccHHHHHHHHHHc
Confidence            5688999999999999999842     679999999999999999999999999999999999999999999887643

>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=98.88  E-value=2.3e-09  Score=85.11  Aligned_cols=74  Identities=19%  Similarity=0.236  Sum_probs=67.6

Q ss_pred             ccccccCchhHHHHHHhhhCC---CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcC
Q 044287           31 KEQERLLPIANVGRIMKQILP---ANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLG  104 (188)
Q Consensus        31 ~~~d~~LPkA~I~RImK~~LP---~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LG  104 (188)
                      +..++.||++.+.||++++..   .+.+++.+|..+||++++.|+..|...||..|.+.+|+||.+.||--|..--|
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            457889999999999999943   47999999999999999999999999999999999999999999999887554

>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=98.83  E-value=1e-08  Score=73.04  Aligned_cols=65  Identities=20%  Similarity=0.211  Sum_probs=61.7

Q ss_pred             ccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           35 RLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        35 ~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      ..||.++|.+|++..+  -.++|.||...|.+-++..+..|+.+|...++|.||||++++||-.||+
T Consensus         5 s~lp~~~v~~iaes~G--i~~lsddaa~~LA~dvEyr~~eI~qeA~kfmrHakRk~Lt~~DI~~Alk   69 (70)
T 1taf_B            5 SSISAESMKVIAESIG--VGSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLK   69 (70)
T ss_dssp             CCCCHHHHHHHHHHTT--CCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred             ccCCHHHHHHHHHHCC--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHc
Confidence            3699999999999997  4599999999999999999999999999999999999999999999985

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

Probab=98.65  E-value=6.1e-08  Score=74.83  Aligned_cols=76  Identities=16%  Similarity=0.227  Sum_probs=66.7

Q ss_pred             HHHHHHhhhCC-CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchHHHHHHHHHH
Q 044287           41 NVGRIMKQILP-ANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKY  119 (188)
Q Consensus        41 ~I~RImK~~LP-~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~~lk~~L~~~  119 (188)
                      +|.||+++.+. .++.||.++..+|.+.+..|+..|+..+...|.++|||||+++||.-+++..      +.|..+|..|
T Consensus        32 ~V~rIvke~gaer~~~vS~~ai~aL~El~~~~~~~ia~Dl~~fAkHAgRkTI~~eDV~La~Rr~------~~L~~~l~~~  105 (113)
T 4dra_A           32 TVGCLCEEVALDKEMQFSKQTIAAISELTFRQCENFAKDLEMFARHAKRTTINTEDVKLLARRS------NSLLKYITDK  105 (113)
T ss_dssp             HHHHHHHHHHHHHTCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTC------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHHhC------HHHHHHHHHH
Confidence            68999999874 2567999999999999999999999999999999999999999999999984      5666676666


Q ss_pred             HHH
Q 044287          120 REL  122 (188)
Q Consensus       120 re~  122 (188)
                      .+.
T Consensus       106 ~~e  108 (113)
T 4dra_A          106 SEE  108 (113)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

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

Probab=98.60  E-value=9.1e-08  Score=71.09  Aligned_cols=62  Identities=19%  Similarity=0.204  Sum_probs=58.5

Q ss_pred             HHHHHHhhhCCCC-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           41 NVGRIMKQILPAN-AKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        41 ~I~RImK~~LP~~-~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      +|.+|+.+.++.. +.||.++..+|.+.+..|+..|+..+...|.|+|||||+++||.-+++.
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            6889999998754 8899999999999999999999999999999999999999999999886

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

Probab=98.60  E-value=1.1e-07  Score=72.56  Aligned_cols=76  Identities=12%  Similarity=0.198  Sum_probs=65.2

Q ss_pred             HHHHHHhhhCC-CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchHHHHHHHHHH
Q 044287           41 NVGRIMKQILP-ANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKY  119 (188)
Q Consensus        41 ~I~RImK~~LP-~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~~lk~~L~~~  119 (188)
                      +|.||+++.+- .+.++|.++..+|.+.+..|+..|+..|...|.|+|||||+.+||.-|++..      +.|...+..|
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            58999998863 2479999999999999999999999999999999999999999999999984      4555555555


Q ss_pred             HHH
Q 044287          120 REL  122 (188)
Q Consensus       120 re~  122 (188)
                      .+.
T Consensus        98 ~~e  100 (107)
T 3b0b_B           98 SDE  100 (107)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            553

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

Probab=98.59  E-value=6.2e-08  Score=77.22  Aligned_cols=77  Identities=12%  Similarity=0.193  Sum_probs=65.6

Q ss_pred             HHHHHHhhhCC-CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchHHHHHHHHHH
Q 044287           41 NVGRIMKQILP-ANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLHKY  119 (188)
Q Consensus        41 ~I~RImK~~LP-~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~~lk~~L~~~  119 (188)
                      +|.||+++... .++.||.++..+|.+.+..|+..|+..+...|.|+|||||+++||.-+++..      +.|..+|..|
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            67889988754 3688999999999999999999999999999999999999999999999984      4555555555


Q ss_pred             HHHH
Q 044287          120 RELE  123 (188)
Q Consensus       120 re~~  123 (188)
                      .+..
T Consensus        98 ~~el  101 (140)
T 3vh5_A           98 SDEL  101 (140)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5543

>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=98.53  E-value=2.2e-07  Score=65.78  Aligned_cols=60  Identities=18%  Similarity=0.248  Sum_probs=56.7

Q ss_pred             HHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           41 NVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        41 ~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      .|.||+|+.+  .-+++.++...|.+.+..|+.-|+.+|..+|.|.|||||+++||.-|++.
T Consensus         6 ~i~~iLk~~G--~~~~~~~v~~~L~e~~~ry~~~il~dA~~~a~HAgrktv~~eDVkLAi~~   65 (68)
T 1taf_A            6 VIMSILKELN--VQEYEPRVVNQLLEFTFRYVTSILDDAKVYANHARKKTIDLDDVRLATEV   65 (68)
T ss_dssp             HHHHHHHHTT--CCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             HHHHHHHHCC--CcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHh
Confidence            6899999987  56999999999999999999999999999999999999999999999874

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

Probab=98.48  E-value=1.5e-07  Score=73.33  Aligned_cols=55  Identities=22%  Similarity=0.305  Sum_probs=48.7

Q ss_pred             CccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCc
Q 044287           53 NAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDD  107 (188)
Q Consensus        53 ~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~d  107 (188)
                      ..|||.++.+.+.+...+|+..|...|..+|++.+||||+++||..||+..|-.-
T Consensus        62 vkRIS~~iy~e~r~vl~~~l~~i~rdav~yaehA~RKTVta~DV~~Alkr~G~~l  116 (121)
T 2ly8_A           62 SKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALKRQGRTL  116 (121)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCBCHHHHHHHHHHTTCGG
T ss_pred             ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHhCCCcC
Confidence            3478888888888888999999999999999999999999999999999987543

>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=98.37  E-value=6.4e-07  Score=70.17  Aligned_cols=70  Identities=10%  Similarity=0.140  Sum_probs=64.3

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ..+.||.+.|.|+||+......||+.+|...|..+.+-|+..|...|...|.+.+|++|+++||..|+..
T Consensus        24 agLqfPV~ri~R~Lk~~~~a~~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItprhi~lAI~n   93 (128)
T 1f66_C           24 AGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG   93 (128)
T ss_dssp             HTCSSCHHHHHHHHHHTSCSSCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHHH
T ss_pred             CCccCChHHHHHHHHHcccchhhccccHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEcHHHHHHHHhc
Confidence            5688999999999999864345999999999999999999999999999999999999999999999873

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

Probab=98.34  E-value=9.7e-07  Score=68.65  Aligned_cols=69  Identities=9%  Similarity=0.170  Sum_probs=63.6

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ..+.||.+.|.|+||+.-. ..||+.+|...|..+.+.|+..|...|...|.+.+|++|+++||..|++.
T Consensus        20 agL~fPV~ri~R~Lk~~~~-a~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp~hi~lAI~n   88 (123)
T 2nqb_C           20 AGLQFPVGRIHRLLRKGNY-AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN   88 (123)
T ss_dssp             HTCSSCHHHHHHHHHHTTS-CSEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHT
T ss_pred             CCeeccHHHHHHHHHcccc-ccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHHHHHhc
Confidence            4678999999999999743 45999999999999999999999999999999999999999999999873

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

Probab=98.33  E-value=2.5e-07  Score=79.16  Aligned_cols=61  Identities=20%  Similarity=0.202  Sum_probs=55.4

Q ss_pred             HHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcC
Q 044287           42 VGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLG  104 (188)
Q Consensus        42 I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LG  104 (188)
                      +.||++...  ..|||.++.+.+......|+.-|+..|..+|++++||||+++||..||+.+|
T Consensus       167 ~~RlaRrgG--VkRIS~~iyeelr~vLe~fle~IirdAv~yaeHA~RKTVta~DV~~ALKr~g  227 (235)
T 2l5a_A          167 DEEDGDKGG--VKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALKRQG  227 (235)
T ss_dssp             CCTTSCCTT--CCTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHH
T ss_pred             HHHHhhcCC--chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHhcC
Confidence            346777765  6799999999999999999999999999999999999999999999999754

>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=98.31  E-value=1.2e-06  Score=68.58  Aligned_cols=69  Identities=12%  Similarity=0.177  Sum_probs=63.7

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ..+.||.+.|.|+||+.-. ..||+.+|...|..+.+.|+..|...|...|.+.+|++|+++||..|+..
T Consensus        22 agLqfPV~rI~R~Lk~~~~-a~RVs~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp~hi~lAI~n   90 (129)
T 1tzy_A           22 AGLQFPVGRVHRLLRKGNY-AERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRN   90 (129)
T ss_dssp             HTCSSCHHHHHHHHHHTTS-SSEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHT
T ss_pred             CceeccHHHHHHHHHcccc-ccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEcHHHHHHHHhc
Confidence            5688999999999999743 45999999999999999999999999999999999999999999999873

>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=98.28  E-value=1.5e-06  Score=67.26  Aligned_cols=69  Identities=19%  Similarity=0.235  Sum_probs=63.9

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ..+.||.+.|.|+||+.-. ..||+.+|...|..+.+.|+..|...|...|.+.+|++|+++||..|++.
T Consensus        19 agLqfPV~ri~R~Lk~~~~-a~RV~~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~~rItp~hi~lAI~n   87 (120)
T 2f8n_G           19 AGVIFPVGRMLRYIKKGHP-KYRIGVGAPVYMAAVLEYLTAEILELAVNAARDNKKGRVTPRHILLAVAN   87 (120)
T ss_dssp             HTCSSCHHHHHHHHHHHSS-SCEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHT
T ss_pred             cCccCChHHHHHHHHcCcc-ccccccchHHHHHHHHHHHHHHHHHHHHHHHhhcCCceEcHHHHHHHHhc
Confidence            5678999999999999853 45999999999999999999999999999999999999999999999873

>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=98.28  E-value=1.2e-06  Score=68.85  Aligned_cols=69  Identities=13%  Similarity=0.185  Sum_probs=63.7

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ..+.||.+.|.|+||+.-. ..||+.+|...|..+.+-|+..|...|...|.+.+|++|+++||..|++.
T Consensus        22 agLqfPV~rI~R~Lk~~~~-a~RVs~~A~VyLaAvLEyL~aEIlelAgn~A~~~k~krItp~hI~lAI~n   90 (131)
T 1id3_C           22 AGLTFPVGRVHRLLRRGNY-AQRIGSGAPVYLTAVLEYLAAEILELAGNAARDNKKTRIIPRHLQLAIRN   90 (131)
T ss_dssp             GTCSSCHHHHHHHHHTTCS-CSEECSSHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHT
T ss_pred             CCeecCHHHHHHHHHcccc-ccccchhhHHHHHHHHHHHHHHHHHHHHHHHhhcCCceEcHHHHHHHHhc
Confidence            5689999999999999743 45999999999999999999999999999999999999999999999873

>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=98.19  E-value=2.6e-06  Score=68.40  Aligned_cols=69  Identities=12%  Similarity=0.183  Sum_probs=63.7

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ..+.||.+.|.|+||+.-. ..||+.+|...|..+.+.|+..|...|...|...+|++|+++||..|++.
T Consensus        41 agLqFPVgrI~R~LK~~~~-a~RVs~~A~VyLAAVLEYL~aEILelAgn~A~~~krkrItprhI~lAI~n  109 (149)
T 2f8n_K           41 AGLQFPVGRVHRLLRKGNY-SERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRN  109 (149)
T ss_dssp             HTCSSCHHHHHHHHHHTTS-CSEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             CCeeccHHHHHHHHHcccc-ccccCcCcHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHhc
Confidence            5678999999999999743 45999999999999999999999999999999999999999999999873

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

Probab=98.16  E-value=1.3e-05  Score=68.58  Aligned_cols=107  Identities=11%  Similarity=0.079  Sum_probs=78.8

Q ss_pred             cccCchhHHHHHHhhhCCC------CccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCc
Q 044287           34 ERLLPIANVGRIMKQILPA------NAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDD  107 (188)
Q Consensus        34 d~~LPkA~I~RImK~~LP~------~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~d  107 (188)
                      .+.+|+.+..|+++++..+      +.+++..|..+||++++.|+.-|...+|-.|.+.+|.||.+.|+.-|..--|-..
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            4689999999999998753      6899999999999999999999999999999999999999999999988665321


Q ss_pred             ----chHHHHHHHHHHHHHHHhhhhhhhccccCCcch
Q 044287          108 ----YAGPIRRYLHKYRELEGERANQQDKASNSNSNI  140 (188)
Q Consensus       108 ----yi~~lk~~L~~~re~~~~K~~~~~K~~~sg~~~  140 (188)
                          -.+.-+.....++..-..=-.+..++.+.|+++
T Consensus        89 ~p~evme~~~~~~~~~k~~~~~i~~ky~~~~~~gd~i  125 (235)
T 2l5a_A           89 VPRGSMERHKLADENMRKVWSNIISKYESIEEQGDLV  125 (235)
T ss_dssp             CCSSSCHHHHHHHHHHHHHHHHHHHHHTTCCCCSCCC
T ss_pred             CchhHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCcc
Confidence                111222222333332222223445677777765

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

Probab=98.13  E-value=4.3e-06  Score=65.36  Aligned_cols=63  Identities=27%  Similarity=0.372  Sum_probs=59.6

Q ss_pred             hHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhc
Q 044287           40 ANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTL  103 (188)
Q Consensus        40 A~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~L  103 (188)
                      ..|+|++|++-| +..||.+|...|...+..+..-|+.+|...|...+|+||++.||..|++-|
T Consensus        37 ~YIyKVLKQVhp-d~gISskAm~ImnSfvnDiferIA~EAs~La~~nkr~TitsreIqtAvrLl   99 (123)
T 2nqb_D           37 IYIYTVLKQVHP-DTGISSKAMSIMNSFVNDIFERIAAEASRLAHYNKRSTITSREIQTAVRLL   99 (123)
T ss_dssp             HHHHHHHHHHCT-TCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCC-CCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHHHh
Confidence            579999999987 689999999999999999999999999999999999999999999999764

>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=98.09  E-value=5.5e-06  Score=64.97  Aligned_cols=64  Identities=28%  Similarity=0.364  Sum_probs=59.9

Q ss_pred             hhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhc
Q 044287           39 IANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTL  103 (188)
Q Consensus        39 kA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~L  103 (188)
                      ...|+|++|++-| +..||.+|...|...+..+..-|+.+|...|...+|+||+..||..|++-|
T Consensus        39 ~~YIyKVLKQVhp-d~gISskAm~ImnSfvnDiferIA~EAs~La~~nkr~TitsreIqtAvrLl  102 (126)
T 1tzy_B           39 SIYVYKVLKQVHP-DTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLL  102 (126)
T ss_dssp             HHHHHHHHHHHCT-TCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCC-CCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence            3479999999987 689999999999999999999999999999999999999999999999765

>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=98.08  E-value=5.7e-06  Score=68.22  Aligned_cols=70  Identities=10%  Similarity=0.182  Sum_probs=63.6

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ..+.||.+.|.|+||+.-....||+.+|...|..+.+-++..|...|...|.+.+|++|+++||..|++.
T Consensus       102 agl~fPv~ri~R~lk~~~~a~~Rv~~~A~vyLaavLEyl~~eIlelA~n~a~~~~~~~I~p~~i~lAi~n  171 (192)
T 2jss_A          102 AGLQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNAAKDLKVKRITPRHLQLAIRG  171 (192)
T ss_dssp             SSCCSCHHHHHHHHHHTTCSSCCCCTTTHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHHHHT
T ss_pred             CCCcCCHHHHHHHHHhcCccccccccChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHhc
Confidence            3589999999999999743236999999999999999999999999999999999999999999999873

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

Probab=97.87  E-value=4.6e-05  Score=55.90  Aligned_cols=69  Identities=17%  Similarity=0.167  Sum_probs=62.4

Q ss_pred             cccCchhHHHHHHhhhCC-CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           34 ERLLPIANVGRIMKQILP-ANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        34 d~~LPkA~I~RImK~~LP-~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      +..+|..+|.||++.... +..+||+||..++.+....||..-..-|...+..++-.+|..+|+.+.+-.
T Consensus        10 ~~~i~~~li~ril~~~F~~~kTkIs~dAl~l~aeyl~iFV~EAv~RA~~~a~~e~~~~le~e~LEki~pQ   79 (84)
T 4dra_E           10 GSGFRKELVSRLLHLHFKDDKTKVSGDALQLMVELLKVFVVEAAVRGVRQAQAEDALRVDVDQLEKVLPQ   79 (84)
T ss_dssp             -CCCCHHHHHHHHHTTCSSTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHhcCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHH
Confidence            357999999999998886 578999999999999999999999999999999999999999999887654

>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=97.78  E-value=4.6e-05  Score=62.81  Aligned_cols=63  Identities=21%  Similarity=0.356  Sum_probs=59.3

Q ss_pred             hHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhc
Q 044287           40 ANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTL  103 (188)
Q Consensus        40 A~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~L  103 (188)
                      .-|+|++|++-| +..||.+|...|...+..+..-|+.+|...+...+|+||+..||..|++-+
T Consensus         7 ~yi~kvLkqv~p-~~~iS~~Am~~m~s~v~di~~rIa~eA~~L~~~~~r~Tit~~eIq~Avrl~   69 (192)
T 2jss_A            7 SYIYKVLKQTHP-DTGISQKSMSILNSFVNDIFERIATEASKLAAYNKKSTISAREIQTAVRLI   69 (192)
T ss_dssp             HHHHHHHHHHCS-SCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCSCCHHHHHHHHHHH
T ss_pred             HHHHHHHcccCC-CCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHh
Confidence            469999999987 688999999999999999999999999999999999999999999999853

>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=97.78  E-value=6.9e-05  Score=54.54  Aligned_cols=70  Identities=16%  Similarity=0.212  Sum_probs=62.4

Q ss_pred             ccccCchhHHHHHHhhhCC-CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILP-ANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP-~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      .+..+|...|.||++.... +..||++||..++.+....||..-..-|...+..++-..|..+|+-+.+-.
T Consensus         5 ~~~~~~~~lI~ril~~~f~~~ktrI~~dAl~l~aeyl~iFV~EAv~RA~~~a~~e~~~~le~~~LEki~pq   75 (81)
T 3b0b_C            5 REGGFRKETVERLLRLHFRDGRTRVNGDALLLMAELLKVFVREAAARAARQAQAEDLEKVDIEHVEKVLPQ   75 (81)
T ss_dssp             --CCCCHHHHHHHHHHHCCSTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHhccCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCeecHHHHHHHHHH
Confidence            4568999999999999987 578999999999999999999999999999999899999999999887654

>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=97.67  E-value=0.00012  Score=53.96  Aligned_cols=67  Identities=19%  Similarity=0.290  Sum_probs=60.8

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-CccCccCHHHHhhhcC
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERR-KTVNGDDICWALGTLG  104 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kR-KTIt~eDVl~AL~~LG  104 (188)
                      .||++.|.|||...+  +..++.+...+|.-.+.+||..|..+|.+++.+.+. ..|.|.||-.|.+.|.
T Consensus        16 ~f~k~~vKrl~~~~~--~~~v~~~v~i~v~glaKvfVgelVE~A~~V~~~~~~~~Pl~P~HireA~rrl~   83 (89)
T 1bh9_B           16 AFPKAAIKRLIQSIT--GTSVSQNVVIAMSGISKVFVGEVVEEALDVCEKWGEMPPLQPKHMREAVRRLK   83 (89)
T ss_dssp             CCCHHHHHHHHHHHH--SSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSSCCHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHc--CCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHHHHH
Confidence            699999999999998  679999999999999999999999999999997764 4799999999987653

>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=97.63  E-value=0.00019  Score=51.64  Aligned_cols=66  Identities=17%  Similarity=0.382  Sum_probs=62.3

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      -|++..+..+++++-| +..+..|+.++|.+.|.+||.-+++.|...|++-+-.||...||.-.|++
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 VLTKKKLQDLVREVDP-NEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQLHLER   70 (76)
T ss_dssp             SSCHHHHHHHHHHHCS-SCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHHH
T ss_pred             cccHHHHHHHHHhcCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHh
Confidence            4899999999999976 78999999999999999999999999999999999999999999988874

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

Probab=95.95  E-value=0.01  Score=46.08  Aligned_cols=64  Identities=14%  Similarity=0.168  Sum_probs=50.9

Q ss_pred             cCchhHHHHHHhhhCC---C---CccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC---CccCccCHHHHh
Q 044287           36 LLPIANVGRIMKQILP---A---NAKISKEAKETMQECVSEFISFITSEASEKCRKERR---KTVNGDDICWAL  100 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP---~---~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kR---KTIt~eDVl~AL  100 (188)
                      .+|+.+..|+++++..   .   +.|++.+|..+||++++.|+.-|...+|-.|.|..|   |-|+++ +...+
T Consensus         1 LI~klPF~RLVREI~~~~~~~~~~lRfq~~Al~ALQeAsEayLV~lFEd~nlcaiHA~~gGvkRIS~~-iy~e~   73 (121)
T 2ly8_A            1 LISKIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQEASEAYLVGLLEHTNLLALHLVPRGSKRISGL-IYEEV   73 (121)
T ss_dssp             CCSCCHHHHHHHHHHHHHTTCCSSCCBCHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCSSCCSSC-HHHHH
T ss_pred             CCCccchHHHHHHHHHHhcCCCCCccccHHHHHHHHHHHHHHHHHHHHHHhHHHHcCCccCccchhHH-HHHHH
Confidence            4789999999988653   2   689999999999999999999999999999888733   345443 44444

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

Probab=95.89  E-value=0.012  Score=43.49  Aligned_cols=49  Identities=18%  Similarity=0.196  Sum_probs=41.1

Q ss_pred             CchhHHHHHHhhhCC-CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044287           37 LPIANVGRIMKQILP-ANAKISKEAKETMQECVSEFISFITSEASEKCRK   85 (188)
Q Consensus        37 LPkA~I~RImK~~LP-~~~rISkDA~~al~eca~eFI~~LtseAne~a~~   85 (188)
                      ||+.+|.||++.... ++.||++||..++++....||..-..-|.+..+.
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            899999999997775 5789999999999999999998777666654443

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=87.67  E-value=0.89  Score=37.98  Aligned_cols=66  Identities=18%  Similarity=0.238  Sum_probs=51.0

Q ss_pred             CchhHHHHHHhhhCC-CCccccHHHHHHHHHHHH----HHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           37 LPIANVGRIMKQILP-ANAKISKEAKETMQECVS----EFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        37 LPkA~I~RImK~~LP-~~~rISkDA~~al~eca~----eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ++...+..|++..+. .+..++.++...|.+.+.    ..+..+...|...|...++.+|+.+||..|++.
T Consensus       259 ~~~~e~~~il~~~~~~~~~~~~~~~l~~l~~~~~~G~~r~~~~ll~~a~~~A~~~~~~~It~~~v~~a~~~  329 (368)
T 3uk6_A          259 YSEKDTKQILRIRCEEEDVEMSEDAYTVLTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYSL  329 (368)
T ss_dssp             CCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Confidence            455667777775553 246799999999988775    355566667788888889999999999999985

>3ksy_A SOS-1, SON of sevenless homolog 1; RAS, RAS activator, disease mutation, guanine-nucleotide releasing factor, signaling protein; 3.18A {Homo sapiens} PDB: 1xd4_A 1xdv_A 1q9c_A

Probab=85.35  E-value=1.7  Score=43.18  Aligned_cols=67  Identities=18%  Similarity=0.228  Sum_probs=54.4

Q ss_pred             cccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           34 ERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        34 d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      .+.+|.+.|.|++|...  ..||+..|..-|.-..+=....|..-|...|...+++.|++.||..|+..
T Consensus       102 ~l~~pv~~~~~~l~~~~--~~r~~~~~~~y~~avleyl~~~~l~la~~~~~~~~~~~i~p~~~~~ai~~  168 (1049)
T 3ksy_A          102 PLSLPVEKIHPLLKEVL--GYKIDHQVSVYIVAVLEYISADILKLVGNYVRNIRHYEITKQDIKVAMCA  168 (1049)
T ss_dssp             SCSSCHHHHHHHHHHHH--CSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCBCCHHHHHHHHHH
T ss_pred             CccccHHHHHHHhhccc--ccccCCCCcchhHHHHHHHHHHHHHHHHHHHHHcCCceecCccccccccC
Confidence            38899999999997766  46999999888877666555566666777888889999999999998863

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=82.05  E-value=4.8  Score=33.28  Aligned_cols=77  Identities=10%  Similarity=0.075  Sum_probs=56.2

Q ss_pred             CchhHHHHHHhhhCCC---CccccHHHHHHHHHHH------------HHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           37 LPIANVGRIMKQILPA---NAKISKEAKETMQECV------------SEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        37 LPkA~I~RImK~~LP~---~~rISkDA~~al~eca------------~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      |+...+..+++..+..   ...++.++...|.+.+            --++..+...|...|..+++.+|+.+||..|+.
T Consensus       193 l~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~~~a~~~~~~~i~~~~v~~~~~  272 (389)
T 1fnn_A          193 YTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSK  272 (389)
T ss_dssp             CBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHHH
Confidence            3446677777665532   3478999999998887            344566667788888888999999999999999


Q ss_pred             hcCCCcchHHHH
Q 044287          102 TLGFDDYAGPIR  113 (188)
Q Consensus       102 ~LGF~dyi~~lk  113 (188)
                      .+....+...+.
T Consensus       273 ~~~~~~~~~~l~  284 (389)
T 1fnn_A          273 EVLFGISEEVLI  284 (389)
T ss_dssp             HHSCCCCHHHHH
T ss_pred             HHhhhhHHHHHH
Confidence            876665544443

---

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	188
d2bykb1	89	a.22.1.3 (B:11-99) Chrac-14 {Fruit fly (Drosophila	9e-36
d1n1ja_	87	a.22.1.3 (A:) Nuclear transcription factor Y subun	1e-33
d1jfib_	135	a.22.1.3 (B:) Negative cofactor 2, NC2, beta chain	2e-32
d1f1ea_	151	a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy	7e-20
d1f1ea_	151	a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy	7e-13
d1htaa_	68	a.22.1.2 (A:) Archaeal histone {Archaeon Methanoth	9e-19
d1ku5a_	66	a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococc	4e-18
d1jfia_	66	a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chai	5e-17
d1n1jb_	78	a.22.1.3 (B:) Nuclear transcription factor Y subun	1e-16
d2huec1	82	a.22.1.1 (C:20-101) Histone H4 {African clawed fro	6e-09

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

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

 Score =  118 bits (297), Expect = 9e-36
 Identities = 29/89 (32%), Positives = 49/89 (55%)

Query: 38  PIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDIC 97
           P A +GR++K+ LP +A +SKEA+  +    S F  F+TS ++    K+  KT+   DI 
Sbjct: 1   PNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDIL 60

Query: 98  WALGTLGFDDYAGPIRRYLHKYRELEGER 126
             L  L F+ +   + + L  YR++  E+
Sbjct: 61  QTLTELDFESFVPSLTQDLEVYRKVVKEK 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 =  113 bits (283), Expect = 1e-33
 Identities = 56/86 (65%), Positives = 70/86 (81%)

Query: 36  LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDD 95
            LPIANV RIMK  +P   KI+K+AKE +QECVSEFISFITSEASE+C +E+RKT+NG+D
Sbjct: 2   YLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGED 61

Query: 96  ICWALGTLGFDDYAGPIRRYLHKYRE 121
           I +A+ TLGFD Y  P++ YL K+RE
Sbjct: 62  ILFAMSTLGFDSYVEPLKLYLQKFRE 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 =  111 bits (278), Expect = 2e-32
 Identities = 30/104 (28%), Positives = 59/104 (56%), Gaps = 1/104 (0%)

Query: 34  ERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNG 93
           +  +P A + +++K+ LP N +++ +A+E +  C +EFI  I+SEA+E C K  +KT++ 
Sbjct: 2   DLTIPRAAINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISP 60

Query: 94  DDICWALGTLGFDDYAGPIRRYLHKYRELEGERANQQDKASNSN 137
           + +  AL +LGF  Y   ++  L + + +  +R     +  N  
Sbjct: 61  EHVIQALESLGFGSYISEVKEVLQECKTVALKRRKASSRLENLG 104

>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 = 79.4 bits (196), Expect = 7e-20
 Identities = 15/68 (22%), Positives = 32/68 (47%), Gaps = 1/68 (1%)

Query: 37  LPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDI 96
           LP A + RI +Q +    ++S++AK+T+ + V     ++ + A        +KT+  + +
Sbjct: 2   LPKAAIERIFRQGIGER-RLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHL 60

Query: 97  CWALGTLG 104
                 L 
Sbjct: 61  KALADVLM 68

>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 = 61.0 bits (148), Expect = 7e-13
 Identities = 20/82 (24%), Positives = 38/82 (46%), Gaps = 6/82 (7%)

Query: 23  ASSDDGGIKEQER----LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSE 78
           A +D   ++  E     L   A V RI+K+      + S +A +   + +      +  +
Sbjct: 62  ALADVLMVEGVEDYDGELFGRATVRRILKRAGIE--RASSDAVDLYNKLICRATEELGEK 119

Query: 79  ASEKCRKERRKTVNGDDICWAL 100
           A+E   ++ RKTV G+D+  A+
Sbjct: 120 AAEYADEDGRKTVQGEDVEKAI 141

>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 = 74.0 bits (182), Expect = 9e-19
 Identities = 21/64 (32%), Positives = 34/64 (53%), Gaps = 2/64 (3%)

Query: 37  LPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDI 96
           LPIA +GRI+K       ++S +A+  + + + E    I SEA +  +   RKT+  +DI
Sbjct: 4   LPIAPIGRIIKNAGAE--RVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDI 61

Query: 97  CWAL 100
             A 
Sbjct: 62  ELAR 65

>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 = 4e-18
 Identities = 21/64 (32%), Positives = 36/64 (56%), Gaps = 2/64 (3%)

Query: 37  LPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDI 96
           LPIA V R++++      ++S++A + + E + E+   I  +A E  R   RKTV  +DI
Sbjct: 3   LPIAPVDRLIRKAGAE--RVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDI 60

Query: 97  CWAL 100
             A+
Sbjct: 61  KLAI 64

>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 = 5e-17
 Identities = 9/64 (14%), Positives = 24/64 (37%), Gaps = 1/64 (1%)

Query: 37  LPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDI 96
            P A + +IM+       K++      +   +  F+  +  +A +  +    KT+    +
Sbjct: 3   FPPARIKKIMQT-DEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHL 61

Query: 97  CWAL 100
              +
Sbjct: 62  KQCI 65

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

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

 Score = 69.1 bits (169), Expect = 1e-16
 Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 1/64 (1%)

Query: 37  LPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDI 96
           LP+A + +IMK        IS EA     +    FI+ +T  A       +R+T+  +DI
Sbjct: 1   LPLARIKKIMKL-DEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDI 59

Query: 97  CWAL 100
             A+
Sbjct: 60  AMAI 63

>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 = 48.6 bits (116), Expect = 6e-09
 Identities = 14/68 (20%), Positives = 28/68 (41%), Gaps = 2/68 (2%)

Query: 37  LPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDI 96
           +    + R+ ++      +IS    E  +  +  F+  +  +A       +RKTV   D+
Sbjct: 10  ITKPAIRRLARRG--GVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDV 67

Query: 97  CWALGTLG 104
            +AL   G
Sbjct: 68  VYALKRQG 75

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	188
d1jfib_	135	Negative cofactor 2, NC2, beta chain {Human (Homo	99.96
d2bykb1	89	Chrac-14 {Fruit fly (Drosophila melanogaster) [Tax	99.94
d1n1ja_	87	Nuclear transcription factor Y subunit beta (Nf-Yb	99.93
d1htaa_	68	Archaeal histone {Archaeon Methanothermus fervidus	99.74
d1ku5a_	66	Archaeal histone {Archaeon (Pyrococcus horikoshii)	99.73
d1n1jb_	78	Nuclear transcription factor Y subunit gamma (Nf-Y	99.71
d1f1ea_	151	Archaeal histone {Archaeon Methanopyrus kandleri [	99.58
d1jfia_	66	Negative cofactor 2, NC2, alpha chain {Human (Homo	99.56
d1f1ea_	151	Archaeal histone {Archaeon Methanopyrus kandleri [	99.42
d2huec1	82	Histone H4 {African clawed frog (Xenopus laevis) [	99.33
d1tzyc_	95	Histone H3 {Chicken (Gallus gallus), erythrocytes	98.78
d2byka1	72	Chrac-16 {Fruit fly (Drosophila melanogaster) [Tax	98.47
d1q9ca_	172	Histone domain of Son of sevenless protein {Human	98.28
d1tzyb_	92	Histone H2B {Chicken (Gallus gallus), erythrocytes	97.73
d1bh9b_	89	TAF(II)28 {Human (Homo sapiens) [TaxId: 9606]}	97.61
d1h3ob_	74	TAF(II)-20, (TAF(II)-15, hTAF12), histone fold dom	97.33
d1tafb_	70	TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta	97.11
d1f66c_	103	Histone H2A {Human (Homo sapiens), variant H2A.Z [	96.87
d1u35c1	106	macro-H2A.1, histone domain {Human (Homo sapiens)	96.49
d1tzya_	106	Histone H2A {Chicken (Gallus gallus), erythrocytes	95.99
d1tafa_	68	TAF(II)42 {Fruit fly (Drosophila melanogaster) [Ta	95.71
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	94.7
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	93.89
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	86.26

>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=99.96  E-value=5.8e-30  Score=200.23  Aligned_cols=119  Identities=27%  Similarity=0.510  Sum_probs=110.1

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchHHH
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPI  112 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~~l  112 (188)
                      +|+.||+|+|.||||..+| +++||+||+.+|++||++||+||+++|+++|..++||||+++||++||+.+||.+|+++|
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            5789999999999999998 899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhhhhccccCCcch----hhhhhhcCCCCC
Q 044287          113 RRYLHKYRELEGERANQQDKASNSNSNI----NINEEREEPAGS  152 (188)
Q Consensus       113 k~~L~~~re~~~~K~~~~~K~~~sg~~~----~~~~~~~~~~~~  152 (188)
                      ..+++.|++..+.|+...++++..|.++    ..|++.|.+++.
T Consensus        80 ~~~l~~~ke~~~~kk~~~~~~~~~~~~~e~~~~~q~el~~~a~~  123 (135)
T d1jfib_          80 KEVLQECKTVALKRRKASSRLENLGIPEEELLRQQQELFAKARQ  123 (135)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhhccccccCCCChhhHHHHHHHHHHHHHH
Confidence            9999999999999988888999999875    336677765543

>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=99.94  E-value=1.4e-27  Score=174.34  Aligned_cols=89  Identities=33%  Similarity=0.567  Sum_probs=86.8

Q ss_pred             chhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchHHHHHHHH
Q 044287           38 PIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRRYLH  117 (188)
Q Consensus        38 PkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~~lk~~L~  117 (188)
                      |+|+|.||||+.+|++.+||+||+.+|++||++||+||+++|+++|..++||||+++||++||+.+||++|+++|+.+|+
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             HHHHHHHhh
Q 044287          118 KYRELEGER  126 (188)
Q Consensus       118 ~~re~~~~K  126 (188)
                      .|++.++.|
T Consensus        81 ~~~e~~~~k   89 (89)
T d2bykb1          81 VYRKVVKEK   89 (89)
T ss_dssp             HHHHHHTTC
T ss_pred             HHHHHHccC
Confidence            999988754

>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=99.93  E-value=8.2e-27  Score=169.47  Aligned_cols=87  Identities=64%  Similarity=1.077  Sum_probs=85.0

Q ss_pred             ccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchHHHHH
Q 044287           35 RLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAGPIRR  114 (188)
Q Consensus        35 ~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~~lk~  114 (188)
                      +.||+|+|.||||+.+|++.+||+||+.+|++||++||+||+++|+++|..++||||+++||+.||+.+||.+|+++|+.
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 044287          115 YLHKYRE  121 (188)
Q Consensus       115 ~L~~~re  121 (188)
                      ++++||+
T Consensus        81 ~~~~~ke   87 (87)
T d1n1ja_          81 YLQKFRE   87 (87)
T ss_dssp             HHHHHHC
T ss_pred             HHHHhcC
Confidence            9999985

>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=99.74  E-value=1.7e-18  Score=119.53  Aligned_cols=66  Identities=32%  Similarity=0.445  Sum_probs=62.9

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhc
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTL  103 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~L  103 (188)
                      .||+++|.||||..++  .+||+||.++|++|+++||.+|+.+|+++|.++|||||+++||..||+.|
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            4999999999999874  68999999999999999999999999999999999999999999999875

>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=99.73  E-value=1.9e-18  Score=118.97  Aligned_cols=64  Identities=33%  Similarity=0.453  Sum_probs=61.7

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      .||+++|.||||..++  .+||+||.++|.+|+++||.+|+..|+++|.+++||||+++||..||+
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            5999999999999875  699999999999999999999999999999999999999999999997

>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=99.71  E-value=5e-18  Score=119.96  Aligned_cols=73  Identities=27%  Similarity=0.321  Sum_probs=69.0

Q ss_pred             CchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCcchH
Q 044287           37 LPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDDYAG  110 (188)
Q Consensus        37 LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~dyi~  110 (188)
                      ||.+.|.||||. .|+..+||+||..+|++|+++||.||+.+|+++|..++||||+++||..|++..++.+|..
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            899999999995 6888999999999999999999999999999999999999999999999999988777754

>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=99.58  E-value=9.2e-16  Score=120.70  Aligned_cols=68  Identities=22%  Similarity=0.327  Sum_probs=65.7

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcC
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLG  104 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LG  104 (188)
                      .||+|+|.||||+.+| +.+||+||+++|+.|+.+|+.+|+++|+.+|.+++||||+++||..|++.+|
T Consensus         1 ~lP~a~I~rilk~~~~-~~ris~da~~~l~~~~~~~~~~Ia~eA~~l~~~~~rKTi~~edi~~a~~~~~   68 (151)
T d1f1ea_           1 ELPKAAIERIFRQGIG-ERRLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHLKALADVLM   68 (151)
T ss_dssp             CCCHHHHHHHHHTTST-TCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHHHHT
T ss_pred             CCCccHHHHHHHHhCC-ccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHhcc
Confidence            4999999999999997 5799999999999999999999999999999999999999999999999888

>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=99.56  E-value=1.3e-15  Score=104.75  Aligned_cols=65  Identities=14%  Similarity=0.224  Sum_probs=58.7

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      .||.+.|.||||.. |+..+||+||..+|.++++.||.+|+..|++.|..++||||+++||..|++
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            48999999999987 778899999999999999999999999999999999999999999998864

>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=99.42  E-value=1.3e-13  Score=108.17  Aligned_cols=71  Identities=24%  Similarity=0.264  Sum_probs=65.9

Q ss_pred             CccccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           30 IKEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        30 ~~~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      .+.++..||+++|.||||...  ..+||+||..+|++|++.|+..|+..|+.+|.+.+||||+++||..||..
T Consensus        73 ~~~~~~~fp~a~IkRi~k~~g--~~ris~dA~~~l~~~~E~fi~~l~~~A~~~a~~~kRkTI~~~DI~~Av~~  143 (151)
T d1f1ea_          73 EDYDGELFGRATVRRILKRAG--IERASSDAVDLYNKLICRATEELGEKAAEYADEDGRKTVQGEDVEKAITY  143 (151)
T ss_dssp             TTCCSCCCCHHHHHHHHHHTT--CCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             cccccCccCHHHHHHHHHcCC--cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHH
Confidence            344678999999999999865  68999999999999999999999999999999999999999999999974

>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=99.33  E-value=1.1e-12  Score=94.04  Aligned_cols=72  Identities=19%  Similarity=0.264  Sum_probs=66.8

Q ss_pred             ccccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcC
Q 044287           31 KEQERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLG  104 (188)
Q Consensus        31 ~~~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LG  104 (188)
                      ++.-..+|++.|.||++.+.  ..+||+|+.++|.++.+.|+..|+.+|...|.+++||||+++||..||+.+|
T Consensus         4 ~d~i~gI~k~~i~Riar~~G--v~ris~d~~~~l~~~l~~~l~~i~~~a~~~~~hakRKTvt~~DV~~Alkr~g   75 (82)
T d2huec1           4 RDNIQGITKPAIRRLARRGG--VKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQG   75 (82)
T ss_dssp             GGGCCSSCHHHHHHHHHHTT--CCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTTC
T ss_pred             hhhhcCcCHHHHHHHHHHcC--cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHhcC
Confidence            33445799999999999986  6799999999999999999999999999999999999999999999999876

>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=98.78  E-value=4e-09  Score=77.32  Aligned_cols=73  Identities=18%  Similarity=0.225  Sum_probs=66.4

Q ss_pred             cccccCchhHHHHHHhhhCC---CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcC
Q 044287           32 EQERLLPIANVGRIMKQILP---ANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTLG  104 (188)
Q Consensus        32 ~~d~~LPkA~I~RImK~~LP---~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LG  104 (188)
                      ..++.||++...|+++++..   .+++++.+|..+||++++.|+.-|...|+..|.+.+|.||++.|+.-|..--|
T Consensus        17 st~lLIpk~pF~RLVRei~~~~~~~~r~~~~Al~aLQea~E~yLv~lfeda~~~a~HakRvTl~~kD~~LarrirG   92 (95)
T d1tzyc_          17 STELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRG   92 (95)
T ss_dssp             CCSCCSCHHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHT
T ss_pred             CcccccccccHHHHHHHHHHhcCCCCEeeHHHHHHHHHHHHHHHHHHHHHhHHHHHhcCCCcCCHHHHHHHHHHhc
Confidence            36789999999999999874   47899999999999999999999999999999999999999999998875433

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

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

Probab=98.47  E-value=1.1e-07  Score=65.75  Aligned_cols=60  Identities=10%  Similarity=0.096  Sum_probs=51.4

Q ss_pred             CCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCCCccCccCHHHHhhhcCCCcchH
Q 044287           51 PANAKISKEAKETMQECVSEFISFITSEASEKCRK-ERRKTVNGDDICWALGTLGFDDYAG  110 (188)
Q Consensus        51 P~~~rISkDA~~al~eca~eFI~~LtseAne~a~~-~kRKTIt~eDVl~AL~~LGF~dyi~  110 (188)
                      |+...||.||.-++.++++.||.+|+.+|+..+.. .+||||++.||-.|+..-+=-+|..
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            44568999999999999999999999999998865 4569999999999999766555554

>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=98.28  E-value=6.3e-07  Score=71.51  Aligned_cols=67  Identities=19%  Similarity=0.240  Sum_probs=62.4

Q ss_pred             cccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           34 ERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        34 d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      .+.||.+.|.|+||+.+  ..|||.+|...|....+.+...|...|...|.+.+|+||+++||..|+..
T Consensus        97 gL~fPV~rv~rlLk~~~--a~RVs~~A~vyLaavLEyl~aeILelAgn~a~~~krkrItp~dI~lAi~n  163 (172)
T d1q9ca_          97 PLSLPVEKIHPLLKEVL--GYKIDHQVSVYIVAVLEYISADILKLAGNYVRNIRHYEITKQDIKVAMCA  163 (172)
T ss_dssp             --CCCHHHHHHHHHHHH--SSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSBCCHHHHHHHHHT
T ss_pred             CceecHHHHHHHHHhcc--ccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCceecHHHHHHHHhC
Confidence            47899999999999986  67999999999999999999999999999999999999999999999864

>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=97.73  E-value=3e-05  Score=56.00  Aligned_cols=62  Identities=29%  Similarity=0.390  Sum_probs=58.7

Q ss_pred             HHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhc
Q 044287           41 NVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGTL  103 (188)
Q Consensus        41 ~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~L  103 (188)
                      -|.|++|++-| +..||..|...|.-.+.....-|+.+|...|.-.+|+||+..+|..|+.-+
T Consensus         8 Yi~kVLKqVhp-~~giS~kam~imnsfvndiferIa~EA~~La~~~kr~TitsreIqtAvrL~   69 (92)
T d1tzyb_           8 YVYKVLKQVHP-DTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLL   69 (92)
T ss_dssp             HHHHHHHHHCT-TCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHH
T ss_pred             HHHHHHHhhCC-CCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHH
Confidence            58999999998 799999999999999999999999999999999999999999999999754

>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=97.61  E-value=7.7e-05  Score=53.50  Aligned_cols=67  Identities=19%  Similarity=0.286  Sum_probs=60.3

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC-ccCccCHHHHhhhcC
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRK-TVNGDDICWALGTLG  104 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRK-TIt~eDVl~AL~~LG  104 (188)
                      .||+++|.|||...+  +-.||.....+|.-.|..||-.|-.+|.+++.+.+-. .|.|+||-.|+..|.
T Consensus        16 ~~~K~~vkrl~~~~~--g~sv~~~v~i~v~giaKvFvGEiVE~A~~V~~~~~e~~PL~P~HireA~rrl~   83 (89)
T d1bh9b_          16 AFPKAAIKRLIQSIT--GTSVSQNVVIAMSGISKVFVGEVVEEALDVCEKWGEMPPLQPKHMREAVRRLK   83 (89)
T ss_dssp             CCCHHHHHHHHHHHH--SSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSSCCHHHHHHHHHHHH
T ss_pred             hCCHHHHHHHHHHHc--CCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCcHHHHHHHHHHH
Confidence            499999999999999  5789999999999999999999999999999866544 699999999987764

>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=97.33  E-value=0.00038  Score=48.22  Aligned_cols=65  Identities=17%  Similarity=0.378  Sum_probs=60.6

Q ss_pred             CchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           37 LPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        37 LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      |-+..+..++++.-| ...+..++-++|.+.|-.||.-++..|...|++.+-.||...||.-.|++
T Consensus         4 l~K~~L~eLv~~idp-~~~ld~~vee~ll~iADdFV~~V~~~ac~lAKhR~s~~le~kDvql~LeR   68 (74)
T d1h3ob_           4 LTKKKLQDLVREVDP-NEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQLHLER   68 (74)
T ss_dssp             SCHHHHHHHHHHHCS-SCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHhCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcHHHHHHHHHh
Confidence            667889999999976 78999999999999999999999999999999999999999999988874

>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=97.11  E-value=0.0009  Score=45.90  Aligned_cols=64  Identities=20%  Similarity=0.215  Sum_probs=58.1

Q ss_pred             cCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           36 LLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        36 ~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      .+|..+|.-|.-..+  -..++.|+...|.+=++==|..|..+|....++.+|++++.+||-.||+
T Consensus         6 ~~~~esik~iAeS~G--i~~l~de~a~~LA~DveYRl~eiiQeA~KFMrhskR~~Ltt~Did~ALk   69 (70)
T d1tafb_           6 SISAESMKVIAESIG--VGSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLK   69 (70)
T ss_dssp             CCCHHHHHHHHHHTT--CCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHcC--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcCcHHHHHHHHc
Confidence            588999987777664  3479999999999999999999999999999999999999999999986

>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=96.87  E-value=0.0012  Score=48.00  Aligned_cols=69  Identities=10%  Similarity=0.143  Sum_probs=58.6

Q ss_pred             cccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           34 ERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        34 d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      .+.||-+.|.|+||+.--...+|+..|...|.-+.+-....|..-|...|...+++.|+++||..|+..
T Consensus         9 gL~FpVgrv~r~L~~~~~~~~rv~~~A~VyLaAvLEYL~aEILelagn~a~~~~~~rItpr~l~lai~n   77 (103)
T d1f66c_           9 GLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG   77 (103)
T ss_dssp             TCSSCHHHHHHHHHHTSCSSCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHHH
T ss_pred             CcccChHHHHHHHhccCccceecCCCceeeHHHHHHHHHHHHHHHhhhhhccCCCCeeechhhhccccC
Confidence            478999999999998764345799999999998877666777777778889999999999999999874

>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=96.49  E-value=0.0031  Score=46.06  Aligned_cols=68  Identities=19%  Similarity=0.236  Sum_probs=57.5

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      ..+.||-+.|.|++|+.-- ..||+..|...|.-+.+=....|..-|-..|...+++.|+++||..|+.
T Consensus         8 agL~FpV~ri~r~Lk~~~~-~~rv~~~apVylaAVLEYL~aEILELAgn~a~~~k~~rItprhi~lair   75 (106)
T d1u35c1           8 AGVIFPVGRMLRYIKKGHP-KYRIGVGAPVYMAAVLEYLTAEILELAVNAARDNKKGRVTPRHILLAVA   75 (106)
T ss_dssp             HTCSSCHHHHHHHHHHHST-TSEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             CCcccCHHHHHHHHhCCCC-ccccCCCCchhHHHHHHHHHHHHHHHHHHHHHHcCCCeeecchhhhccc
Confidence            3478999999999998643 5799999999998877766666777777788899999999999999985

>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=95.99  E-value=0.0094  Score=43.44  Aligned_cols=69  Identities=12%  Similarity=0.177  Sum_probs=54.1

Q ss_pred             ccccCchhHHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           33 QERLLPIANVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        33 ~d~~LPkA~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ..+.||-+.|.|++|+.-- ..||+..|...|.-..+=....|..-|-..|...+++.|++.||..|+..
T Consensus         9 AgL~FpV~rv~r~Lk~~~~-~~rv~~~apVylaAVLEYLtaEiLELAgn~a~~~k~~rItPrhi~lAirn   77 (106)
T d1tzya_           9 AGLQFPVGRVHRLLRKGNY-AERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRN   77 (106)
T ss_dssp             HTCSSCHHHHHHHHHHTTS-SSEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHT
T ss_pred             CCccCChHHHHHHHHcCcc-ccccCCCchHHHHHHHHHHHHHHHHHhhHHHHhcCCceecchhhhhcccC
Confidence            3478999999999999543 56999999988876555444445555666888999999999999999863

>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=95.71  E-value=0.018  Score=38.95  Aligned_cols=59  Identities=19%  Similarity=0.252  Sum_probs=51.0

Q ss_pred             HHHHHHhhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccCHHHHhh
Q 044287           41 NVGRIMKQILPANAKISKEAKETMQECVSEFISFITSEASEKCRKERRKTVNGDDICWALG  101 (188)
Q Consensus        41 ~I~RImK~~LP~~~rISkDA~~al~eca~eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~  101 (188)
                      .|.-|+|+..  ......-....|.+.+-.|+.-|...|.-++.+.||++|+++||--|++
T Consensus         6 ~i~~iL~~~G--V~~yeprV~~qlLef~yRYtt~VL~DA~vys~HA~k~~id~dDVkLAi~   64 (68)
T d1tafa_           6 VIMSILKELN--VQEYEPRVVNQLLEFTFRYVTSILDDAKVYANHARKKTIDLDDVRLATE   64 (68)
T ss_dssp             HHHHHHHHTT--CCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHcC--CccccHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Confidence            4566667664  4567788889999999999999999999999999999999999999886

>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=94.70  E-value=0.051  Score=40.73  Aligned_cols=54  Identities=11%  Similarity=0.152  Sum_probs=41.7

Q ss_pred             CccccHHHHHHHHHHHH------------HHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCC
Q 044287           53 NAKISKEAKETMQECVS------------EFISFITSEASEKCRKERRKTVNGDDICWALGTLGFD  106 (188)
Q Consensus        53 ~~rISkDA~~al~eca~------------eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~  106 (188)
                      ...++.++.+.|.+.+.            .-+..+...|...|..+++.+|+.+||..|++++-|+
T Consensus       211 ~~~~~~~~l~~ia~~~~~~~~~~~~~G~~R~a~~ll~~a~~~A~~~~~~~I~~edv~~A~~~~~~g  276 (276)
T d1fnna2         211 EGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSKEVLFG  276 (276)
T ss_dssp             TTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHSCC
T ss_pred             cccccHHHHHHHHHHhhhhhhhhhcCCCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHhCC
Confidence            45689999888876541            1233344678889999999999999999999998774

>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=93.89  E-value=0.091  Score=39.48  Aligned_cols=50  Identities=14%  Similarity=0.074  Sum_probs=39.4

Q ss_pred             CccccHHHHHHHHHHHHH---------HHHHHHHHHHHHHHhcCCCccCccCHHHHhhh
Q 044287           53 NAKISKEAKETMQECVSE---------FISFITSEASEKCRKERRKTVNGDDICWALGT  102 (188)
Q Consensus        53 ~~rISkDA~~al~eca~e---------FI~~LtseAne~a~~~kRKTIt~eDVl~AL~~  102 (188)
                      ...++.++.+.|.+-+..         -+..+...|...|..+++.+|+.+||.+|+++
T Consensus       228 ~~~~~~~al~~ia~~~~~~~~~~gd~R~ai~~l~~a~~~A~~~~~~~It~~~V~~A~~e  286 (287)
T d1w5sa2         228 DTVWEPRHLELISDVYGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSE  286 (287)
T ss_dssp             TTSCCHHHHHHHHHHHCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHhccccCCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHhc
Confidence            346899998888765521         34456677889999999999999999999864

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

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: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=86.26  E-value=0.61  Score=34.97  Aligned_cols=71  Identities=11%  Similarity=0.128  Sum_probs=52.6

Q ss_pred             CchhHHHHHHhhhCC-CCccccHHHHHHHHHHHH---HHHHHHHHHHHHHHHhcCCCccCccCHHHHhhhcCCCc
Q 044287           37 LPIANVGRIMKQILP-ANAKISKEAKETMQECVS---EFISFITSEASEKCRKERRKTVNGDDICWALGTLGFDD  107 (188)
Q Consensus        37 LPkA~I~RImK~~LP-~~~rISkDA~~al~eca~---eFI~~LtseAne~a~~~kRKTIt~eDVl~AL~~LGF~d  107 (188)
                      .+...+.+|++..+. .++.++.++.+.|.+.+.   .....+...+..+|...+...|+.+++.++|..|+.++
T Consensus       165 ~~~~~~~~i~~~~~~~~~i~~~~~~l~~ia~~s~gd~R~a~~~l~~~~~~a~~~~~~~It~~~~~~~l~~l~~De  239 (239)
T d1ixsb2         165 YTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAGEEVITRERALEALAALGLDE  239 (239)
T ss_dssp             CCHHHHHHHHHHHHGGGCCCBCHHHHHHHHHHTTSSHHHHHHHHHHHHHHHTTSCCSCBCHHHHHHHHHHHTCCT
T ss_pred             cChhhhhHHHHHHHHHhCCccchHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHHhhhCcCC
Confidence            334556666665543 367899999999988775   34444455566788888888999999999999998774