Query 039373
Match_columns 300
No_of_seqs 140 out of 231
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 09:02:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039373.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039373hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05890 Ebp2: Eukaryotic rRNA 100.0 1.4E-79 3E-84 572.8 23.2 225 44-291 24-251 (271)
2 KOG3080 Nucleolar protein-like 100.0 2.3E-73 5E-78 532.8 21.9 253 14-295 36-314 (328)
3 KOG2002 TPR-containing nuclear 54.4 1.1E+02 0.0025 34.6 10.7 25 95-119 777-801 (1018)
4 PHA02585 16 small terminase pr 48.0 68 0.0015 28.9 6.5 65 84-153 40-108 (161)
5 cd05496 Bromo_WDR9_II Bromodom 34.4 69 0.0015 27.0 4.3 50 95-146 3-57 (119)
6 TIGR03665 arCOG04150 arCOG0415 33.5 40 0.00086 29.8 2.9 44 104-147 50-106 (172)
7 cd05522 Bromo_Rsc1_2_II Bromod 30.0 56 0.0012 26.5 3.0 46 99-145 2-58 (104)
8 cd05510 Bromo_SPT7_like Bromod 29.6 60 0.0013 27.0 3.1 48 96-145 6-59 (112)
9 PRK15327 type III secretion sy 28.2 63 0.0014 32.9 3.6 97 46-143 219-344 (393)
10 cd05497 Bromo_Brdt_I_like Brom 28.2 78 0.0017 25.9 3.6 32 114-146 20-59 (107)
11 KOG4008 rRNA processing protei 24.7 2.3E+02 0.0049 27.5 6.3 27 123-151 147-173 (261)
12 PF02946 GTF2I: GTF2I-like rep 20.5 47 0.001 26.5 0.8 13 116-128 44-56 (76)
No 1
>PF05890 Ebp2: Eukaryotic rRNA processing protein EBP2; InterPro: IPR008610 This family consists of several eukaryotic rRNA processing protein EBP2 sequences. Ebp2p is required for the maturation of 25S rRNA and 60S subunit assembly. Ebp2p may be one of the target proteins of Rrs1p for executing the signal to regulate ribosome biogenesis [].
Probab=100.00 E-value=1.4e-79 Score=572.83 Aligned_cols=225 Identities=46% Similarity=0.796 Sum_probs=194.5
Q ss_pred hcCCcccccCHHHHHHHHHccccccCCCcceeeecccCCCcc---CCCcchHHHHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 039373 44 AEPSKQAVYNRDGLEEKLQDISWLENAGWIHKLTIDIDQEQE---VDVNDDLKREASFYTQALEGTRQAFEKLQSMGLPF 120 (300)
Q Consensus 44 a~~~k~~inN~~~L~~kL~~i~~~~~lpWiE~l~vt~~~~~~---vdv~DDl~RE~aFY~QAl~av~~a~~~L~~~gipf 120 (300)
+.+++++|||+++|+++|++|.|+.++||||||+||++.+.. +||+|||+||++||+|||+||++|+++|+++||||
T Consensus 24 ~~~~k~~inn~~~L~~kl~ei~~~~~~pWiE~L~vts~~~~~~~~~d~~dD~~RE~aFy~qAl~av~~a~~~L~~~gip~ 103 (271)
T PF05890_consen 24 APEQKKAINNKEALKQKLKEIKLPKKLPWIETLDVTSPEPTDEQIKDVNDDLKRELAFYKQALEAVKEARPRLKKLGIPF 103 (271)
T ss_pred cccccccccCHHHHHHHHHHhcccCCCCCeeEEeeecCccchhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHcCCCc
Confidence 678999999999999999999998899999999999876554 49999999999999999999999999999999999
Q ss_pred CCCCcchhhccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 039373 121 LRPADYYAEMVKSDAHMEKVKRRLLSEQKEIEEAAERKKAREAKKLAKEIQVQKTKERAKQKKEEIESVKKWRKQRQQSG 200 (300)
Q Consensus 121 ~RP~DYfAEMvKSD~HM~KVr~kLl~eq~~ie~~E~~rk~Re~KKfgKqVQ~ek~~eR~keKk~~le~Ik~~kK~R~~~G 200 (300)
+||+||||||||||+||++||++||.++++|+++|++|++|++||||||||++++++|++||+++|++|++|||+|+..+
T Consensus 104 ~RP~DYfAEMvKSD~HM~KVr~kLl~~~~~ie~~E~~rk~Re~KKfgKqvQ~ek~~eR~keKk~~le~Ik~~kK~~~~~~ 183 (271)
T PF05890_consen 104 KRPDDYFAEMVKSDEHMEKVRQKLLKEQKRIEASEEARKQRELKKFGKQVQVEKLQERAKEKKEMLEKIKKWKKKRKEGN 183 (271)
T ss_pred cCCCcchHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999886211
Q ss_pred CCCCCCcccccccccCCccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcchhhhcccCCCCCCCCCCCCCchhh
Q 039373 201 FAGEVDKGELDLAFEGGKSFERSNKKRPGVSPGDRSGGKARKSGGGDSGKGKKKKNRDFRNSKFGFGGKKSMKKQNTSDT 280 (300)
Q Consensus 201 ~~~~~~~~~fdl~~~~~~~~~~~~~kr~~~~~g~r~gg~~~~~~~g~~~~~~~~~KR~~Kd~KfGFGGkKr~~K~Nta~S 280 (300)
+++||+.+++.. .... +.+. + .+..+.++++.+|++||+||||||+||++|+||++|
T Consensus 184 ------~~~~d~~~~~~~--~~~~--------~~k~-~------~~~~~~~~~~~kR~~kd~KfGfGGkKr~~K~Nt~~S 240 (271)
T PF05890_consen 184 ------EDEFDFLDDDAK--NKKS--------KKKG-G------KGKKGRGKKNKKRKAKDAKFGFGGKKRGSKRNTAES 240 (271)
T ss_pred ------ccchhhhhcccc--cccc--------cccc-c------cccccccccccchhhhccccCCCCCCCCCCCCcccc
Confidence 123555554431 1110 0000 0 011122357899999999999999999999999999
Q ss_pred ccCCCCCCCCC
Q 039373 281 TDDLRGFSKGD 291 (300)
Q Consensus 281 s~D~sgf~~~~ 291 (300)
++||+||+.++
T Consensus 241 ~~d~~~f~~~~ 251 (271)
T PF05890_consen 241 SNDFSGFSSKR 251 (271)
T ss_pred cccccccCcCC
Confidence 99999999654
No 2
>KOG3080 consensus Nucleolar protein-like/EBNA1-binding protein [RNA processing and modification]
Probab=100.00 E-value=2.3e-73 Score=532.78 Aligned_cols=253 Identities=39% Similarity=0.669 Sum_probs=208.6
Q ss_pred CCCCchhhhcccccccCcCCCccchhhhhhh--------------cCCcccccCHHHHHHHHHccccccCCCcceeeecc
Q 039373 14 DGFEDEDVSELNEEVSESESDSEGEEDVKLA--------------EPSKQAVYNRDGLEEKLQDISWLENAGWIHKLTID 79 (300)
Q Consensus 14 ~~~~d~e~~~~~~~~~~~~~~~~~d~el~~a--------------~~~k~~inN~~~L~~kL~~i~~~~~lpWiE~l~vt 79 (300)
+.|++.+|++.+++++.++ .+.+|.|++.+ ++.+..||+..+|+++|.+|. ..+||+|+|+++
T Consensus 36 ~alee~~m~~~D~~~~~d~-~d~~d~E~e~a~~r~~Lk~~~ni~~e~~~d~in~~~~l~~kl~~ik--~~lew~E~ld~~ 112 (328)
T KOG3080|consen 36 EALEEKEMSNTDEEEIIDD-GDTTDRELESAFDRGDLKDGLNIELEGDKDAINKRDGLLDKLVAIK--NDLEWVERLDVI 112 (328)
T ss_pred hhhcccccccccccccccc-ccchhHHHHHhhccccccccccccccCccchhhhhHHHHHHHHHHH--hccccccchhhh
Confidence 4555555553222222222 33566666643 578999999999999999996 689999999998
Q ss_pred cCC---------CccCC---CcchHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCcchhhccCChHHHHHHHHHHHHH
Q 039373 80 IDQ---------EQEVD---VNDDLKREASFYTQALEGTRQAFEKLQSMGLPFLRPADYYAEMVKSDAHMEKVKRRLLSE 147 (300)
Q Consensus 80 ~~~---------~~~vd---v~DDl~RE~aFY~QAl~av~~a~~~L~~~gipf~RP~DYfAEMvKSD~HM~KVr~kLl~e 147 (300)
+.- ...|. |+|||+|||+||+|||.||++|+++|+.|||||.||+||||||||||+||+|||++||.+
T Consensus 113 ~~~~~l~~ei~~~~~v~~~~~eDDf~RElaFYkQa~~aVl~A~~rL~elgV~~~RP~DYfAEMaKSD~HMqKVr~~Li~e 192 (328)
T KOG3080|consen 113 SFVEPLTVEIDTDEAVIPNNPEDDFARELAFYKQALSAVLEAFPRLHELGVPFLRPTDYFAEMAKSDEHMQKVRQRLIKE 192 (328)
T ss_pred hccCccccccccCcccCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCchHHHHHHhhhHHHHHHHHHHHHHH
Confidence 421 11233 449999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCcccccccccCCccccccCCCC
Q 039373 148 QKEIEEAAERKKAREAKKLAKEIQVQKTKERAKQKKEEIESVKKWRKQRQQSGFAGEVDKGELDLAFEGGKSFERSNKKR 227 (300)
Q Consensus 148 q~~ie~~E~~rk~Re~KKfgKqVQ~ek~~eR~keKk~~le~Ik~~kK~R~~~G~~~~~~~~~fdl~~~~~~~~~~~~~kr 227 (300)
|++++++|++|++|++||||||||.+++++|+.||++||++||+|||+|+ .+ +|||+.+.
T Consensus 193 q~~ke~sE~ark~RelKKfgKqVQ~~~l~~Rq~EKk~~lekiKk~kk~~~----~~-------~lDf~e~~--------- 252 (328)
T KOG3080|consen 193 QTAKERSEEARKQRELKKFGKQVQKAKLQERQREKKETLEKIKKLKKGRT----ED-------ELDFLEGN--------- 252 (328)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc----cc-------cchhhhcC---------
Confidence 99999999999999999999999999999999999999999999999653 12 67777652
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCcchhhhcccCCCCCCCCCCCCCchhhccCCCCCCCCCCCCc
Q 039373 228 PGVSPGDRSGGKARKSGGGDSGKGKKKKNRDFRNSKFGFGGKKSMKKQNTSDTTDDLRGFSKGDGAGN 295 (300)
Q Consensus 228 ~~~~~g~r~gg~~~~~~~g~~~~~~~~~KR~~Kd~KfGFGGkKr~~K~Nta~Ss~D~sgf~~~~~~g~ 295 (300)
++++++.+.|+++...+ +.+|.||++||+||||||+|+++|+||++|++||+||+.|++.||
T Consensus 253 ~~~a~~~k~G~rg~~~R------~~pn~KR~~Kn~KfGfGGkKk~sK~Nt~eS~ad~~g~~~g~~~~G 314 (328)
T KOG3080|consen 253 PAGADGDKKGGRGTKMR------KQPNPKRQKKNEKFGFGGKKKGSKRNTAESSADVSGGRRGGKNGG 314 (328)
T ss_pred ccccccccccccccccc------CCCchhhhhhhcccCCCcccccccccchhhhhccccccccccccC
Confidence 13445666666544322 246899999999999999999999999999999999998887754
No 3
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=54.40 E-value=1.1e+02 Score=34.58 Aligned_cols=25 Identities=28% Similarity=0.290 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCCCC
Q 039373 95 EASFYTQALEGTRQAFEKLQSMGLP 119 (300)
Q Consensus 95 E~aFY~QAl~av~~a~~~L~~~gip 119 (300)
|+.+--+-++.+..-+..|...+=+
T Consensus 777 ev~~a~~~le~a~r~F~~ls~~~d~ 801 (1018)
T KOG2002|consen 777 EVLEAVKELEEARRLFTELSKNGDK 801 (1018)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 4445555566666666666666544
No 4
>PHA02585 16 small terminase protein; Provisional
Probab=47.97 E-value=68 Score=28.93 Aligned_cols=65 Identities=23% Similarity=0.500 Sum_probs=49.9
Q ss_pred ccCCCcchH---HHHHHHHHH-HHHHHHHHHHHHHhCCCCCCCCCcchhhccCChHHHHHHHHHHHHHHHHHHH
Q 039373 84 QEVDVNDDL---KREASFYTQ-ALEGTRQAFEKLQSMGLPFLRPADYYAEMVKSDAHMEKVKRRLLSEQKEIEE 153 (300)
Q Consensus 84 ~~vdv~DDl---~RE~aFY~Q-Al~av~~a~~~L~~~gipf~RP~DYfAEMvKSD~HM~KVr~kLl~eq~~ie~ 153 (300)
..+|+.+|. -+.+.|..| .+.||..|+...+..+-| |-..-|+.+.+ +|.-+-.+||+-|+.++.
T Consensus 40 R~~Dle~DY~~vR~~~h~q~Qm~mda~~iaLE~AknSesP--R~~EVf~~Lm~---qm~~~nk~Ll~lhK~MK~ 108 (161)
T PHA02585 40 RKPDLEDDYSLVRRNMHFQQQMLMDAAKIALENAKNSESP--RHVEVFATLMG---QMTNTNKEILKIHKEMKD 108 (161)
T ss_pred cCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCc--hHHHHHHHHHH---HHHhhHHHHHHHHHHHHH
Confidence 345777776 467888766 358999999998888876 67778888875 788888888888777654
No 5
>cd05496 Bromo_WDR9_II Bromodomain; WDR9 repeat II_like subfamily. WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=34.36 E-value=69 Score=26.97 Aligned_cols=50 Identities=22% Similarity=0.375 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCCCCCCCCCcc-----hhhccCChHHHHHHHHHHHH
Q 039373 95 EASFYTQALEGTRQAFEKLQSMGLPFLRPADY-----YAEMVKSDAHMEKVKRRLLS 146 (300)
Q Consensus 95 E~aFY~QAl~av~~a~~~L~~~gipf~RP~DY-----fAEMvKSD~HM~KVr~kLl~ 146 (300)
|-.+++++.. ++..+-. +....||..|.|. |.+.|+..--+..|+.+|-.
T Consensus 3 ~~~w~~~c~~-il~~l~~-~~~s~~F~~PVd~~~~pdY~~iIk~PmDL~tIk~kL~~ 57 (119)
T cd05496 3 ESDWKKQCKE-LVNLMWD-CEDSEPFRQPVDLLKYPDYRDIIDTPMDLGTVKETLFG 57 (119)
T ss_pred HHHHHHHHHH-HHHHHHh-CCccccccCCCChhhcCcHHHHhCCcccHHHHHHHHhC
Confidence 4456666654 3333333 3567899999862 34899999999999999954
No 6
>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein. This family of proteins is universal among the 41 archaeal genomes analyzed in and is not observed outside of the archaea. The proteins contain a single KH domain (pfam00013) which is likely to confer the ability to bind RNA.
Probab=33.48 E-value=40 Score=29.83 Aligned_cols=44 Identities=27% Similarity=0.396 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHhCCCCCC-------CCCcchhhc------cCChHHHHHHHHHHHHH
Q 039373 104 EGTRQAFEKLQSMGLPFL-------RPADYYAEM------VKSDAHMEKVKRRLLSE 147 (300)
Q Consensus 104 ~av~~a~~~L~~~gipf~-------RP~DYfAEM------vKSD~HM~KVr~kLl~e 147 (300)
.++..|+..+..+...|. =.++||.+. .++..||.+++.+|+-.
T Consensus 50 ~~i~kA~~~I~~i~~gf~~e~A~~l~gd~y~~~Vi~I~~~~~~~~~~~~~~griIG~ 106 (172)
T TIGR03665 50 LAVMKAREVVKAIGRGFSPEKALKLLDDDYMLEVIDLKEYGKSPNALRRIKGRIIGE 106 (172)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHhcCCcceEEEEEhhhccCCHHHHHHHHhhhcCC
Confidence 344555555554444333 237899987 78999999999999843
No 7
>cd05522 Bromo_Rsc1_2_II Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=30.03 E-value=56 Score=26.55 Aligned_cols=46 Identities=17% Similarity=0.469 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHHHHh-----CCCCCCCCCc------chhhccCChHHHHHHHHHHH
Q 039373 99 YTQALEGTRQAFEKLQS-----MGLPFLRPAD------YYAEMVKSDAHMEKVKRRLL 145 (300)
Q Consensus 99 Y~QAl~av~~a~~~L~~-----~gipf~RP~D------YfAEMvKSD~HM~KVr~kLl 145 (300)
|.|=+.+|..++..+.. +-.||.+|++ || ++|+..-=+..|+.+|.
T Consensus 2 ~~~~~~~i~~~v~~~~d~~g~~l~~~F~~~p~~~~~pdYy-~~I~~Pmdl~tI~~kl~ 58 (104)
T cd05522 2 YEARIKNILKGLRKERDENGRLLTLHFEKLPDKAREPEYY-QEISNPISLDDIKKKVK 58 (104)
T ss_pred HHHHHHHHHHHHHHHhCcCCCcccHHHhcCCCccccCcHH-HHhCCCcCHHHHHHHHc
Confidence 55778899999999866 5567877774 66 89999999999999885
No 8
>cd05510 Bromo_SPT7_like Bromodomain; SPT7_like subfamily. SPT7 is a yeast protein that functions as a component of the transcription regulatory histone acetylation (HAT) complexes SAGA, SALSA, and SLIK. SAGA is involved in the RNA polymerase II-dependent transcriptional regulation of about 10% of all yeast genes. The SPT7 bromodomain has been shown to weakly interact with acetylated histone H3, but not H4. The human representative of this subfamily is cat eye syndrome critical region protein 2 (CECR2). Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=29.55 E-value=60 Score=26.97 Aligned_cols=48 Identities=21% Similarity=0.515 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCCCCCc------chhhccCChHHHHHHHHHHH
Q 039373 96 ASFYTQALEGTRQAFEKLQSMGLPFLRPAD------YYAEMVKSDAHMEKVKRRLL 145 (300)
Q Consensus 96 ~aFY~QAl~av~~a~~~L~~~gipf~RP~D------YfAEMvKSD~HM~KVr~kLl 145 (300)
..||.+ +..++..+........||..|.| || ++||..--...|+.+|-
T Consensus 6 ~~~~~~-~~~il~~l~~~~~~s~~F~~pv~~~~~pdY~-~iIk~PmdL~tI~~kl~ 59 (112)
T cd05510 6 EEFYES-LDKVLNELKTYTEHSTPFLTKVSKREAPDYY-DIIKKPMDLGTMLKKLK 59 (112)
T ss_pred HHHHHH-HHHHHHHHHhcCccccchhcCCChhhcCCHH-HHhcCccCHHHHHHHHh
Confidence 346654 44455555554456889999986 55 99999999999999984
No 9
>PRK15327 type III secretion system needle complex protein PrgH; Provisional
Probab=28.21 E-value=63 Score=32.86 Aligned_cols=97 Identities=13% Similarity=0.199 Sum_probs=63.7
Q ss_pred CCcccccCHHHHHHHHHccccccCCCcc--eeeecccCCCccC------CCcch---------HHHHHHHHHH-------
Q 039373 46 PSKQAVYNRDGLEEKLQDISWLENAGWI--HKLTIDIDQEQEV------DVNDD---------LKREASFYTQ------- 101 (300)
Q Consensus 46 ~~k~~inN~~~L~~kL~~i~~~~~lpWi--E~l~vt~~~~~~v------dv~DD---------l~RE~aFY~Q------- 101 (300)
..+..|-+...+...++.- |...+||+ .+++++.+....+ ++... +.+.+-||++
T Consensus 219 ~~~v~v~~~~~~~~~ie~~-L~~~~P~l~~lkv~l~~P~~Pvl~ls~~r~~l~~~~~~~l~~~l~~~~pya~~v~I~~~s 297 (393)
T PRK15327 219 DKNARVINENEENKRVSTW-LDTYYPQLAYYRLHFDEPRKPVLWLSRQRNVLSKKELEVLSQKLRALMPYADSVNITLMD 297 (393)
T ss_pred cCceEEechHHHHHHHHHH-HHhcCCCceEEEEECCCCCCCEEEEEcccccCCHHHHHHHHHHHHHhCCccceeEEEEcC
Confidence 4577777888888877774 45689999 7777776544333 11222 3444555553
Q ss_pred HHHHHHHHHHHHHhCCCCCCCCCc-----chhhccCChHHHHHHHHH
Q 039373 102 ALEGTRQAFEKLQSMGLPFLRPAD-----YYAEMVKSDAHMEKVKRR 143 (300)
Q Consensus 102 Al~av~~a~~~L~~~gipf~RP~D-----YfAEMvKSD~HM~KVr~k 143 (300)
..+.+.+|+.-|.+++|||.|=+. |+--=.=+|.++..++.=
T Consensus 298 ~~~l~~~Ae~GL~~~nv~yr~i~~~~~vtFiI~~sL~D~~l~~l~~f 344 (393)
T PRK15327 298 DVTAAGQAEAGLKQQALPYSRRDHKGSVTFVIQGALDDGEIQRARQF 344 (393)
T ss_pred HHHHHHHHHhhHHhcCCceEEEecCCcEEEEEcCCCCHHHHHHHHHH
Confidence 356788999999999999987432 333334478887777653
No 10
>cd05497 Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=28.16 E-value=78 Score=25.91 Aligned_cols=32 Identities=28% Similarity=0.665 Sum_probs=26.4
Q ss_pred HhCCCCCCCC--------CcchhhccCChHHHHHHHHHHHH
Q 039373 114 QSMGLPFLRP--------ADYYAEMVKSDAHMEKVKRRLLS 146 (300)
Q Consensus 114 ~~~gipf~RP--------~DYfAEMvKSD~HM~KVr~kLl~ 146 (300)
+....||..| +||| +.||..--...|+.+|..
T Consensus 20 ~~~s~~F~~PVd~~~~~~pdY~-~iIk~PmDL~tI~~kL~~ 59 (107)
T cd05497 20 HKFAWPFQQPVDAVKLNLPDYH-KIIKTPMDLGTIKKRLEN 59 (107)
T ss_pred CCcCccccCCCCcccccCCcHH-HHHcCcccHHHHHHHHcC
Confidence 5678899998 4566 999999999999999853
No 11
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=24.71 E-value=2.3e+02 Score=27.50 Aligned_cols=27 Identities=26% Similarity=0.402 Sum_probs=22.8
Q ss_pred CCcchhhccCChHHHHHHHHHHHHHHHHH
Q 039373 123 PADYYAEMVKSDAHMEKVKRRLLSEQKEI 151 (300)
Q Consensus 123 P~DYfAEMvKSD~HM~KVr~kLl~eq~~i 151 (300)
-++|.+||| |.||+.+=++..++++..
T Consensus 147 dpe~L~e~v--DTyme~ydqk~aee~~~a 173 (261)
T KOG4008|consen 147 DPEYLKEDV--DTYMERYDQKEAEEEAKA 173 (261)
T ss_pred CHHHHHHHH--HHHHHHHHHHHHHHHHHh
Confidence 468999999 889999999988877763
No 12
>PF02946 GTF2I: GTF2I-like repeat; InterPro: IPR004212 This region of sequence similarity is found up to six times in a variety of proteins including general transcription factor II-I (GTF2I). It has been suggested that this may be a DNA binding domain [, ].; PDB: 2E3L_A 2D99_A 2DN4_A 2D9B_A 2EJE_A 1Q60_A 2DZR_A 2DN5_A 2DZQ_A 2ED2_A.
Probab=20.53 E-value=47 Score=26.52 Aligned_cols=13 Identities=46% Similarity=0.984 Sum_probs=7.7
Q ss_pred CCCCCCCCCcchh
Q 039373 116 MGLPFLRPADYYA 128 (300)
Q Consensus 116 ~gipf~RP~DYfA 128 (300)
.||||.||+.|=.
T Consensus 44 egi~fr~P~~Y~i 56 (76)
T PF02946_consen 44 EGIPFRRPSNYGI 56 (76)
T ss_dssp TT--SS-TTTS-H
T ss_pred CCCcCCCCCcCCH
Confidence 5999999999954
Done!