Query 035573
Match_columns 95
No_of_seqs 42 out of 44
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 04:10:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035573.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035573hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02349 glycerol-3-phosphate 100.0 2.3E-32 5E-37 226.4 3.1 77 11-87 116-192 (426)
2 PF14829 GPAT_N: Glycerol-3-ph 99.5 1E-14 2.2E-19 98.9 2.8 34 12-45 44-77 (77)
3 cd05502 Bromo_tif1_like Bromod 71.3 2.2 4.7E-05 28.7 1.1 44 22-66 9-52 (109)
4 smart00394 RIIa RIIalpha, Regu 66.1 3.4 7.5E-05 23.4 1.0 18 56-73 18-35 (38)
5 cd05499 Bromo_BDF1_2_II Bromod 57.9 7 0.00015 25.8 1.5 19 46-64 34-52 (102)
6 PF02156 Glyco_hydro_26: Glyco 53.2 12 0.00027 29.9 2.5 47 7-54 113-162 (311)
7 COG2987 HutU Urocanate hydrata 50.9 8.5 0.00019 34.3 1.3 30 56-85 338-367 (561)
8 PF12069 DUF3549: Protein of u 50.0 8.3 0.00018 32.1 1.1 35 36-72 113-159 (340)
9 cd05529 Bromo_WDR9_I_like Brom 45.2 20 0.00044 25.0 2.3 46 18-63 21-74 (128)
10 cd05501 Bromo_SP100C_like Brom 42.5 15 0.00032 25.4 1.3 43 21-65 6-48 (102)
11 cd05508 Bromo_RACK7 Bromodomai 40.0 20 0.00044 24.2 1.6 23 43-65 28-50 (99)
12 cd05517 Bromo_polybromo_II Bro 39.7 37 0.00081 22.8 2.9 26 36-61 25-50 (103)
13 cd05495 Bromo_cbp_like Bromodo 39.0 46 0.00099 22.5 3.2 39 27-65 5-54 (108)
14 PLN02999 photosystem II oxygen 35.8 30 0.00065 27.2 2.1 33 4-37 123-156 (190)
15 cd05528 Bromo_AAA Bromodomain; 34.6 23 0.0005 24.3 1.2 22 42-63 28-49 (112)
16 cd05498 Bromo_Brdt_II_like Bro 32.7 34 0.00073 22.4 1.7 18 47-64 35-52 (102)
17 cd05524 Bromo_polybromo_I Brom 31.6 67 0.0015 21.9 3.1 27 37-63 28-54 (113)
18 cd05518 Bromo_polybromo_IV Bro 31.3 37 0.00079 23.0 1.8 22 42-63 31-52 (103)
19 TIGR02159 PA_CoA_Oxy4 phenylac 28.6 21 0.00045 26.0 0.2 7 55-61 137-143 (146)
20 smart00297 BROMO bromo domain. 28.4 59 0.0013 20.6 2.3 23 43-65 33-55 (107)
21 cd05515 Bromo_polybromo_V Brom 28.2 32 0.0007 23.0 1.1 28 37-64 26-53 (105)
22 cd05511 Bromo_TFIID Bromodomai 28.0 28 0.0006 23.8 0.7 29 37-65 20-48 (112)
23 PF05757 PsbQ: Oxygen evolving 27.1 81 0.0018 24.5 3.2 32 4-36 135-167 (202)
24 cd05505 Bromo_WSTF_like Bromod 25.2 25 0.00054 23.5 0.1 22 43-64 26-47 (97)
25 PF08165 FerA: FerA (NUC095) d 24.8 80 0.0017 20.3 2.4 18 24-45 14-31 (66)
26 cd05496 Bromo_WDR9_II Bromodom 24.7 17 0.00037 25.4 -0.8 24 42-65 30-53 (119)
27 cd05519 Bromo_SNF2 Bromodomain 23.5 57 0.0012 21.6 1.6 26 36-61 25-50 (103)
28 cd05510 Bromo_SPT7_like Bromod 23.5 54 0.0012 22.6 1.5 27 38-64 29-55 (112)
29 cd05507 Bromo_brd8_like Bromod 22.8 73 0.0016 21.3 2.0 27 38-64 24-50 (104)
30 cd05503 Bromo_BAZ2A_B_like Bro 22.8 39 0.00084 22.2 0.7 27 39-65 22-48 (97)
31 PF07914 DUF1679: Protein of u 22.3 1.1E+02 0.0023 25.5 3.2 67 3-72 302-374 (414)
32 PLN02729 PSII-Q subunit 21.3 77 0.0017 25.5 2.1 33 4-37 153-186 (220)
33 cd05516 Bromo_SNF2L2 Bromodoma 21.1 1.1E+02 0.0024 20.5 2.7 27 38-64 28-54 (107)
34 PF14757 NSP2-B_epitope: Immun 20.2 57 0.0012 26.9 1.2 35 8-44 216-256 (272)
No 1
>PLN02349 glycerol-3-phosphate acyltransferase
Probab=99.97 E-value=2.3e-32 Score=226.37 Aligned_cols=77 Identities=58% Similarity=0.946 Sum_probs=73.0
Q ss_pred hhhhhhcCCcchhHHHHHhHHHHHHHHHhccCCCcccCcccccccCCchhhHhhhhhhhhccccCcchheeeeeeec
Q 035573 11 MFQVFQSGNSRADEIVLSNMAVAFDRVLLDIEEPFTFSSYHKSMREPFDYYMFGQNYIRPLVDFRLANDFYAILIHQ 87 (95)
Q Consensus 11 ~~AV~~Sg~p~A~e~vl~nM~~~lDrvlldvedPF~F~pyHkaiRePfDYY~FGq~YIrpLVDf~nS~~~y~~~~~~ 87 (95)
-+||++||+|+|+|++++||+.+||||++|+++||+||||||+||||||||+|||+||||||||+||+|.+.-++.+
T Consensus 116 ~~Av~~sg~~~a~e~~~~~m~~~~d~v~~~~~~Pf~F~~~Hkair~pfDyY~fg~~yirpLiDf~~S~v~~~~~~~~ 192 (426)
T PLN02349 116 KNAVLSSGAPNADEIVVSNMASILDRVLLGVEDPFTFPPYHKALREPFDYYMFGQNYIRPLIDFRNSYLGNRSRFDK 192 (426)
T ss_pred HHHHHhcCCCCchHHHHHHHHHHHHHHHHhccCCccCChHHHhhcCcccHHHHHHHHHHHHhhcccceecCHHHHHH
Confidence 48999999999999999999999999999999999999999999999999999999999999999999988655544
No 2
>PF14829 GPAT_N: Glycerol-3-phosphate acyltransferase N-terminal; PDB: 1IUQ_A 1K30_A.
Probab=99.50 E-value=1e-14 Score=98.95 Aligned_cols=34 Identities=74% Similarity=1.064 Sum_probs=30.8
Q ss_pred hhhhhcCCcchhHHHHHhHHHHHHHHHhccCCCc
Q 035573 12 FQVFQSGNSRADEIVLSNMAVAFDRVLLDIEEPF 45 (95)
Q Consensus 12 ~AV~~Sg~p~A~e~vl~nM~~~lDrvlldvedPF 45 (95)
|||+|||+|+|+|+||+||+++||||++|+|+||
T Consensus 44 ~AVl~Sg~p~A~eivlsnm~~~~Drvlldve~PF 77 (77)
T PF14829_consen 44 NAVLQSGDPNADEIVLSNMAVALDRVLLDVEDPF 77 (77)
T ss_dssp HHHHHTT-TTHHHHHHHHHHHHHHHHHHHHHS--
T ss_pred HHHHhCCCCCccHHHHHHHHHHHHHHHHcccCCC
Confidence 8999999999999999999999999999999998
No 3
>cd05502 Bromo_tif1_like Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of the tripartite motif (TRIM) protein family, which is characterized by a particular domain architecture. It functions by recruiting coactivators and/or corepressors to modulate transcription. Vertebrate Tif1-gamma, also labeled E3 ubiquitin-protein ligase TRIM33, plays a role in the control of hematopoiesis. Its homologue in Xenopus laevis, Ectodermin, has been shown to function in germ-layer specification and control of cell growth during embryogenesis. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=71.32 E-value=2.2 Score=28.68 Aligned_cols=44 Identities=14% Similarity=0.338 Sum_probs=27.7
Q ss_pred hhHHHHHhHHHHHHHHHhccCCCcccCcccccccCCchhhHhhhh
Q 035573 22 ADEIVLSNMAVAFDRVLLDIEEPFTFSSYHKSMREPFDYYMFGQN 66 (95)
Q Consensus 22 A~e~vl~nM~~~lDrvlldvedPF~F~pyHkaiRePfDYY~FGq~ 66 (95)
+.+++.+.|..=....+.+-.+| .+|-|++.|+.|.|+=+..++
T Consensus 9 c~~il~~l~~~~~s~~F~~pv~~-~~p~Y~~iI~~PmdL~tI~~k 52 (109)
T cd05502 9 CERLLLELYCHELSLPFHEPVSP-SVPNYYKIIKTPMDLSLIRKK 52 (109)
T ss_pred HHHHHHHHHhCCCChhhcCCCCC-CCCCHHHHCCCCccHHHHHHH
Confidence 33444443332223556666677 789999999999997655443
No 4
>smart00394 RIIa RIIalpha, Regulatory subunit portion of type II PKA R-subunit. RIIalpha, Regulatory subunit portion of type II PKA R-subunit. Contains dimerisation interface and binding site for A-kinase-anchoring proteins (AKAPs).
Probab=66.09 E-value=3.4 Score=23.38 Aligned_cols=18 Identities=28% Similarity=0.593 Sum_probs=15.8
Q ss_pred CCchhhHhhhhhhhhccc
Q 035573 56 EPFDYYMFGQNYIRPLVD 73 (95)
Q Consensus 56 ePfDYY~FGq~YIrpLVD 73 (95)
.|-|.++|+.+|+.+|-.
T Consensus 18 qP~d~~~f~~~yF~kL~~ 35 (38)
T smart00394 18 QPSDLVQFAADYFEKLEE 35 (38)
T ss_pred CCCcHHHHHHHHHHHHHH
Confidence 699999999999988754
No 5
>cd05499 Bromo_BDF1_2_II Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=57.88 E-value=7 Score=25.79 Aligned_cols=19 Identities=16% Similarity=0.455 Sum_probs=15.8
Q ss_pred ccCcccccccCCchhhHhh
Q 035573 46 TFSSYHKSMREPFDYYMFG 64 (95)
Q Consensus 46 ~F~pyHkaiRePfDYY~FG 64 (95)
.+|-|++.|+.|.|+=+..
T Consensus 34 ~~pdY~~~I~~P~dL~~I~ 52 (102)
T cd05499 34 NIPNYFSIIKKPMDLGTIS 52 (102)
T ss_pred CCCCHHHHhcCCCCHHHHH
Confidence 7888999999999976544
No 6
>PF02156 Glyco_hydro_26: Glycosyl hydrolase family 26; InterPro: IPR022790 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 26 GH26 from CAZY encompasses mainly mannan endo-1,4-beta-mannosidases (3.2.1.78 from EC). Mannan endo-1,4-beta-mannosidase hydrolyses mannan and galactomannan, but displays little activity towards other plant cell wall polysaccharides []. The enzyme randomly hydrolyses 1,4-beta-D-linkages in mannans, galacto-mannans, glucomannans and galactoglucomannans. This entry also incoporates the enzyme Endogluconase H 3.2.1.4 from EC catalyzes the endohydrolysis of 1,4-beta-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans. ; GO: 0008810 cellulase activity, 0016985 mannan endo-1,4-beta-mannosidase activity, 0006080 substituted mannan metabolic process; PDB: 2QHA_A 3CBW_A 2WHK_A 2VI0_A 2BVD_A 2BV9_A 2CIT_A 2V3G_A 2CIP_A 2X2Y_B ....
Probab=53.25 E-value=12 Score=29.94 Aligned_cols=47 Identities=15% Similarity=0.389 Sum_probs=29.3
Q ss_pred chhhhhhhhhcCCcchhHHHHHhHHHHHHHHHhccCC---CcccCcccccc
Q 035573 7 LAYDMFQVFQSGNSRADEIVLSNMAVAFDRVLLDIEE---PFTFSSYHKSM 54 (95)
Q Consensus 7 ~~~~~~AV~~Sg~p~A~e~vl~nM~~~lDrvlldved---PF~F~pyHkai 54 (95)
...|.++++.+|.....+..++.|..+ ...+.++++ |-.|-|+|+.=
T Consensus 113 t~~~~~~~l~~~~t~~~~~~~~~ld~i-A~~l~~l~~~~vPVl~Rp~HE~n 162 (311)
T PF02156_consen 113 TTFDISKILTGGPTAEYEAFKADLDRI-ADFLKQLKDAGVPVLFRPFHEMN 162 (311)
T ss_dssp TCHHHHHHCCTTTSHCHHHHHHHHHHH-HHHHHHHHCTTS-EEEEESTSTT
T ss_pred CHHHHHHHhCCCChHHHHHHHHHHHHH-HHHHHHhhcCCCeEEEeehhhcC
Confidence 346788888877334446666644432 233444554 99999999975
No 7
>COG2987 HutU Urocanate hydratase [Amino acid transport and metabolism]
Probab=50.86 E-value=8.5 Score=34.30 Aligned_cols=30 Identities=30% Similarity=0.390 Sum_probs=21.8
Q ss_pred CCchhhHhhhhhhhhccccCcchheeeeee
Q 035573 56 EPFDYYMFGQNYIRPLVDFRLANDFYAILI 85 (95)
Q Consensus 56 ePfDYY~FGq~YIrpLVDf~nS~~~y~~~~ 85 (95)
++||+=-|--+|||||.+-..--.|++-|-
T Consensus 338 ~aF~fPgfVpayIrPLFc~G~GPFRW~aLS 367 (561)
T COG2987 338 NAFDFPGFVPAYIRPLFCEGIGPFRWVALS 367 (561)
T ss_pred ccccCCcchHHhhhhhhhcCcCCeeEEEec
Confidence 334444478899999999888877877663
No 8
>PF12069 DUF3549: Protein of unknown function (DUF3549); InterPro: IPR021936 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 340 amino acids in length. This protein has a conserved LDE sequence motif.
Probab=49.96 E-value=8.3 Score=32.13 Aligned_cols=35 Identities=31% Similarity=0.680 Sum_probs=26.9
Q ss_pred HHHhccCCCcccCc-------cccccc-----CCchhhHhhhhhhhhcc
Q 035573 36 RVLLDIEEPFTFSS-------YHKSMR-----EPFDYYMFGQNYIRPLV 72 (95)
Q Consensus 36 rvlldvedPF~F~p-------yHkaiR-----ePfDYY~FGq~YIrpLV 72 (95)
.-+.| |||+|-| ||-.+| .|=-||+..+.|+.-=.
T Consensus 113 ~~L~~--NPy~FkP~~~klA~fhA~v~~~L~~p~S~yye~a~~Ylsg~~ 159 (340)
T PF12069_consen 113 QKLAD--NPYTFKPSQEKLAMFHAQVRAQLGQPASQYYEHAQAYLSGQL 159 (340)
T ss_pred HHhcc--CCcccCCChHHHHHHHHHHHHHcCCCcchhHHHHHHHHcCCc
Confidence 44555 9999999 555555 78899999999997543
No 9
>cd05529 Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_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=45.24 E-value=20 Score=25.04 Aligned_cols=46 Identities=11% Similarity=0.075 Sum_probs=28.5
Q ss_pred CCcchhHHHHHhHHHHHHHHH-------hccCCCc-ccCcccccccCCchhhHh
Q 035573 18 GNSRADEIVLSNMAVAFDRVL-------LDIEEPF-TFSSYHKSMREPFDYYMF 63 (95)
Q Consensus 18 g~p~A~e~vl~nM~~~lDrvl-------ldvedPF-~F~pyHkaiRePfDYY~F 63 (95)
+.+.+.+.|++.+..+++..- ....+|- .+|-|.+.|+.|.|+=+.
T Consensus 21 ~~~~~~~~i~~~l~~l~~~~~~~~~~~F~~pv~~~~~~p~Y~~iI~~PmdL~tI 74 (128)
T cd05529 21 IRDEERERLISGLDKLLLSLQLEIAEYFEYPVDLRAWYPDYWNRVPVPMDLETI 74 (128)
T ss_pred CCHHHHHHHHHHHHHHHhcccCcccccccCCCCccccCCcHHHHcCCCCCHHHH
Confidence 455666777775555553211 2222444 678899999999996443
No 10
>cd05501 Bromo_SP100C_like Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin level. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=42.47 E-value=15 Score=25.43 Aligned_cols=43 Identities=14% Similarity=0.361 Sum_probs=28.2
Q ss_pred chhHHHHHhHHHHHHHHHhccCCCcccCcccccccCCchhhHhhh
Q 035573 21 RADEIVLSNMAVAFDRVLLDIEEPFTFSSYHKSMREPFDYYMFGQ 65 (95)
Q Consensus 21 ~A~e~vl~nM~~~lDrvlldvedPF~F~pyHkaiRePfDYY~FGq 65 (95)
+|+++++..+.---...+ ..+|...|-|++.|..|.|+-+.-.
T Consensus 6 ~ce~il~~l~~~~~s~~f--~~~p~~~pdY~~iIk~PMDL~tI~~ 48 (102)
T cd05501 6 KCEFLLLKVYCMSKSGFF--ISKPYYIRDYCQGIKEPMWLNKVKE 48 (102)
T ss_pred HHHHHHHHHHhCcccccc--cCCCCCCCchHHHcCCCCCHHHHHH
Confidence 466777763332222222 3478899999999999999766543
No 11
>cd05508 Bromo_RACK7 Bromodomain, RACK7_like subfamily. RACK7 (also called human protein kinase C-binding protein) was identified as a potential tumor suppressor genes, it shares domain architecture with BS69/ZMYND11; both have been implicated in the regulation of cellular proliferation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=39.99 E-value=20 Score=24.16 Aligned_cols=23 Identities=17% Similarity=0.359 Sum_probs=16.8
Q ss_pred CCcccCcccccccCCchhhHhhh
Q 035573 43 EPFTFSSYHKSMREPFDYYMFGQ 65 (95)
Q Consensus 43 dPF~F~pyHkaiRePfDYY~FGq 65 (95)
+|=.+|-|++.|..|.|+=+.-+
T Consensus 28 ~~~~~pdY~~iIk~PmDL~tI~~ 50 (99)
T cd05508 28 DLEQFPDYAQYVFKPMDLSTLEK 50 (99)
T ss_pred ChhhCCCHHHHcCCCCCHHHHHH
Confidence 44456779999999999765543
No 12
>cd05517 Bromo_polybromo_II Bromodomain, polybromo repeat II. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=39.74 E-value=37 Score=22.84 Aligned_cols=26 Identities=15% Similarity=0.437 Sum_probs=20.5
Q ss_pred HHHhccCCCcccCcccccccCCchhh
Q 035573 36 RVLLDIEEPFTFSSYHKSMREPFDYY 61 (95)
Q Consensus 36 rvlldvedPF~F~pyHkaiRePfDYY 61 (95)
.++..+-++=.+|-|.+.|+.|.|+=
T Consensus 25 ~~F~~lp~~~~~pdYy~vI~~PmdL~ 50 (103)
T cd05517 25 ELFQKLPSKVLYPDYYAVIKEPIDLK 50 (103)
T ss_pred HHHhcCCCCCCCCCHHHHcCCCcCHH
Confidence 34555667778999999999999953
No 13
>cd05495 Bromo_cbp_like Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase acting on histone, which gives a specific tag for transcriptional activation and also acetylates non-histone proteins. CREBBP binds specifically to phosphorylated CREB protein and augments the activity of phosphorylated CREB to activate transcription of cAMP-responsive genes. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=38.96 E-value=46 Score=22.54 Aligned_cols=39 Identities=10% Similarity=0.366 Sum_probs=25.5
Q ss_pred HHhHHHHHHHHHhc------cCCCc-----ccCcccccccCCchhhHhhh
Q 035573 27 LSNMAVAFDRVLLD------IEEPF-----TFSSYHKSMREPFDYYMFGQ 65 (95)
Q Consensus 27 l~nM~~~lDrvlld------vedPF-----~F~pyHkaiRePfDYY~FGq 65 (95)
.+.+..+++.+..+ +.+|- ..|-|++.|+.|.|+=+...
T Consensus 5 ~~~~~~il~~l~~~~~~s~~F~~PV~~~~~~~pdY~~iIk~PmDL~tI~~ 54 (108)
T cd05495 5 RQALMPTLEKLYKQDPESLPFRQPVDPKLLGIPDYFDIVKNPMDLSTIRR 54 (108)
T ss_pred HHHHHHHHHHHHHcCcccchhcCCCCccccCCCcHHHHhCCCCCHHHHHH
Confidence 34455677777766 22222 37889999999999655443
No 14
>PLN02999 photosystem II oxygen-evolving enhancer 3 protein (PsbQ)
Probab=35.77 E-value=30 Score=27.23 Aligned_cols=33 Identities=12% Similarity=0.062 Sum_probs=24.2
Q ss_pred cccchhhhhhhhhcCCcchhHHHHHhHH-HHHHHH
Q 035573 4 QNNLAYDMFQVFQSGNSRADEIVLSNMA-VAFDRV 37 (95)
Q Consensus 4 ~~~~~~~~~AV~~Sg~p~A~e~vl~nM~-~~lDrv 37 (95)
+.+|.||++.|++|- |+.+..=++..+ .++|.|
T Consensus 123 asyLryDL~tiIssk-P~~eK~~L~~LankLFdnv 156 (190)
T PLN02999 123 QAYLSQDLTNAMNIL-PESRRNDYVQAANELVENM 156 (190)
T ss_pred HHHHHHHHHHHHhcC-CHhhhHHHHHHHHHHhhhH
Confidence 457899999988765 888877776553 566655
No 15
>cd05528 Bromo_AAA Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. The structure(2DKW) in this alignment is an uncharacterized protein predicted from analysis of cDNA clones from human fetal liver
Probab=34.57 E-value=23 Score=24.34 Aligned_cols=22 Identities=14% Similarity=0.332 Sum_probs=16.2
Q ss_pred CCCcccCcccccccCCchhhHh
Q 035573 42 EEPFTFSSYHKSMREPFDYYMF 63 (95)
Q Consensus 42 edPF~F~pyHkaiRePfDYY~F 63 (95)
.+|=.+|-|.+.|+.|.|+=+.
T Consensus 28 v~~~~~pdY~~vI~~PmdL~tI 49 (112)
T cd05528 28 VDEEEVPDYYEIIKQPMDLQTI 49 (112)
T ss_pred CCccccCcHHHHHcCCCCHHHH
Confidence 3444567799999999996544
No 16
>cd05498 Bromo_Brdt_II_like Bromodomain, Brdt_like subfamily, repeat II. 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=32.66 E-value=34 Score=22.36 Aligned_cols=18 Identities=22% Similarity=0.587 Sum_probs=13.6
Q ss_pred cCcccccccCCchhhHhh
Q 035573 47 FSSYHKSMREPFDYYMFG 64 (95)
Q Consensus 47 F~pyHkaiRePfDYY~FG 64 (95)
+|-|.+.|+.|.|+=+.-
T Consensus 35 ~p~Y~~~I~~Pmdl~~I~ 52 (102)
T cd05498 35 LHDYHDIIKHPMDLSTIK 52 (102)
T ss_pred CCcHHHHccCCCcHHHHH
Confidence 677888999999965443
No 17
>cd05524 Bromo_polybromo_I Bromodomain, polybromo repeat I. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=31.64 E-value=67 Score=21.95 Aligned_cols=27 Identities=11% Similarity=0.266 Sum_probs=19.3
Q ss_pred HHhccCCCcccCcccccccCCchhhHh
Q 035573 37 VLLDIEEPFTFSSYHKSMREPFDYYMF 63 (95)
Q Consensus 37 vlldvedPF~F~pyHkaiRePfDYY~F 63 (95)
.+..+-+.=..|-|++.|+.|.|+=+.
T Consensus 28 ~F~~~p~~~~~PdYy~iI~~Pmdl~tI 54 (113)
T cd05524 28 SFIRVPKRRNEPEYYEVVSNPIDLLKI 54 (113)
T ss_pred HHhcCCCcccCCCHHHHhCCccCHHHH
Confidence 344444555788999999999996433
No 18
>cd05518 Bromo_polybromo_IV Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=31.32 E-value=37 Score=22.96 Aligned_cols=22 Identities=23% Similarity=0.369 Sum_probs=16.5
Q ss_pred CCCcccCcccccccCCchhhHh
Q 035573 42 EEPFTFSSYHKSMREPFDYYMF 63 (95)
Q Consensus 42 edPF~F~pyHkaiRePfDYY~F 63 (95)
-++=.+|-|.+.|..|.|+=+.
T Consensus 31 p~~~~~pdYy~iIk~Pmdl~tI 52 (103)
T cd05518 31 PSKKDYPDYYKIILEPIDLKTI 52 (103)
T ss_pred CCcccCccHHHHcCCCcCHHHH
Confidence 3444588899999999996543
No 19
>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=28.56 E-value=21 Score=25.98 Aligned_cols=7 Identities=57% Similarity=1.734 Sum_probs=4.4
Q ss_pred cCCchhh
Q 035573 55 REPFDYY 61 (95)
Q Consensus 55 RePfDYY 61 (95)
||||||+
T Consensus 137 ~epf~~f 143 (146)
T TIGR02159 137 KEPFEYF 143 (146)
T ss_pred CCcHhhc
Confidence 4666665
No 20
>smart00297 BROMO bromo domain.
Probab=28.35 E-value=59 Score=20.60 Aligned_cols=23 Identities=13% Similarity=0.299 Sum_probs=16.1
Q ss_pred CCcccCcccccccCCchhhHhhh
Q 035573 43 EPFTFSSYHKSMREPFDYYMFGQ 65 (95)
Q Consensus 43 dPF~F~pyHkaiRePfDYY~FGq 65 (95)
++-..|-|++.|..|.|+=..-+
T Consensus 33 ~~~~~p~Y~~~i~~P~dl~~I~~ 55 (107)
T smart00297 33 DRKEAPDYYDIIKKPMDLSTIKK 55 (107)
T ss_pred ChhhccCHHHHhcCCCCHHHHHH
Confidence 33346668999999999765544
No 21
>cd05515 Bromo_polybromo_V Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=28.19 E-value=32 Score=23.03 Aligned_cols=28 Identities=11% Similarity=0.395 Sum_probs=21.1
Q ss_pred HHhccCCCcccCcccccccCCchhhHhh
Q 035573 37 VLLDIEEPFTFSSYHKSMREPFDYYMFG 64 (95)
Q Consensus 37 vlldvedPF~F~pyHkaiRePfDYY~FG 64 (95)
.+...-++-.+|-|++.|+.|.|+=+.-
T Consensus 26 ~F~~~p~~~~~pdYy~iIk~PmdL~tI~ 53 (105)
T cd05515 26 IFMRLPSKSEYPDYYDVIKKPIDMEKIR 53 (105)
T ss_pred HhccCCCcccCCcHHHHcCCCcCHHHHH
Confidence 4445556678899999999999965443
No 22
>cd05511 Bromo_TFIID Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to acetylated histone H4. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=28.00 E-value=28 Score=23.76 Aligned_cols=29 Identities=14% Similarity=0.204 Sum_probs=21.2
Q ss_pred HHhccCCCcccCcccccccCCchhhHhhh
Q 035573 37 VLLDIEEPFTFSSYHKSMREPFDYYMFGQ 65 (95)
Q Consensus 37 vlldvedPF~F~pyHkaiRePfDYY~FGq 65 (95)
.+....+|-.+|-|++.|+.|.|+=+..+
T Consensus 20 ~F~~pv~~~~~p~Y~~~I~~PmdL~tI~~ 48 (112)
T cd05511 20 PFHTPVNKKKVPDYYKIIKRPMDLQTIRK 48 (112)
T ss_pred hhcCCCChhhcccHHHHhcCCCCHHHHHH
Confidence 44555566677789999999999765543
No 23
>PF05757 PsbQ: Oxygen evolving enhancer protein 3 (PsbQ); InterPro: IPR008797 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. In PSII, the oxygen-evolving complex (OEC) is responsible for catalysing the splitting of water to O(2) and 4H+. The OEC is composed of a cluster of manganese, calcium and chloride ions bound to extrinsic proteins. In cyanobacteria there are five extrinsic proteins in OEC (PsbO, PsbP-like, PsbQ-like, PsbU and PsbV), while in plants there are only three (PsbO, PsbP and PsbQ), PsbU and PsbV having been lost during the evolution of green plants []. This family represents the PSII OEC protein PsbQ. Both PsbQ and PsbP (IPR002683 from INTERPRO) are regulators that are necessary for the biogenesis of optically active PSII. The crystal structure of PsbQ from spinach revealed a 4-helical bundle polypeptide. The distribution of positive and negative charges on the protein surface might explain the ability of PsbQ to increase the binding of chloride and calcium ions and make them available to PSII [].; GO: 0005509 calcium ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0009654 oxygen evolving complex, 0019898 extrinsic to membrane; PDB: 1VYK_A 1NZE_A 3LS1_A 3LS0_A.
Probab=27.14 E-value=81 Score=24.47 Aligned_cols=32 Identities=25% Similarity=0.491 Sum_probs=20.0
Q ss_pred cccchhhhhhhhhcCCcchhHHHHHhHH-HHHHH
Q 035573 4 QNNLAYDMFQVFQSGNSRADEIVLSNMA-VAFDR 36 (95)
Q Consensus 4 ~~~~~~~~~AV~~Sg~p~A~e~vl~nM~-~~lDr 36 (95)
..+|-|||+.|+++ .|+.+..=++..+ .+||.
T Consensus 135 a~~Lr~DL~~liss-~p~~~kk~l~~La~~lf~~ 167 (202)
T PF05757_consen 135 AGYLRYDLNTLISS-KPKDEKKALTDLANKLFDN 167 (202)
T ss_dssp CCCHHHHHHHHHCC-S-HHHHHHHHHHHHHHHHH
T ss_pred HhHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHH
Confidence 35788999999988 5776654444333 34443
No 24
>cd05505 Bromo_WSTF_like Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The Williams-Beuren syndrome deletion transcript 9 is a putative transcriptional regulator. WSTF was found to play a role in vitamin D-mediated transcription as part of two chromatin remodeling complexes, WINAC and WICH. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=25.17 E-value=25 Score=23.53 Aligned_cols=22 Identities=18% Similarity=0.304 Sum_probs=16.4
Q ss_pred CCcccCcccccccCCchhhHhh
Q 035573 43 EPFTFSSYHKSMREPFDYYMFG 64 (95)
Q Consensus 43 dPF~F~pyHkaiRePfDYY~FG 64 (95)
+|=.+|-|++-|+.|.|+=+.-
T Consensus 26 ~~~~~pdY~~iIk~PmDL~tI~ 47 (97)
T cd05505 26 TADEAEDYKKVITNPMDLQTMQ 47 (97)
T ss_pred ChhhcccHHHHcCCcCCHHHHH
Confidence 3334666999999999987654
No 25
>PF08165 FerA: FerA (NUC095) domain; InterPro: IPR012560 The ferlin gene family are characterised by multiple tandem C2 domains and a C-terminal transmembrane domain. They are found in a wide range of species and their function remains unknown, however, mutations in its two most well-characterised members, dysferlin and otoferlin, have been implicated in human disease []. This is central domain A in proteins of the Ferlin family [].; GO: 0016021 integral to membrane
Probab=24.81 E-value=80 Score=20.25 Aligned_cols=18 Identities=28% Similarity=0.580 Sum_probs=14.2
Q ss_pred HHHHHhHHHHHHHHHhccCCCc
Q 035573 24 EIVLSNMAVAFDRVLLDIEEPF 45 (95)
Q Consensus 24 e~vl~nM~~~lDrvlldvedPF 45 (95)
+.+++ .+|.+++|...|-
T Consensus 14 ~~~~~----lLdqlIeD~~~pL 31 (66)
T PF08165_consen 14 ELWLK----LLDQLIEDCSKPL 31 (66)
T ss_pred HHHHH----HHHHHHHHhcCCC
Confidence 55555 9999999988853
No 26
>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=24.65 E-value=17 Score=25.45 Aligned_cols=24 Identities=13% Similarity=0.360 Sum_probs=17.9
Q ss_pred CCCcccCcccccccCCchhhHhhh
Q 035573 42 EEPFTFSSYHKSMREPFDYYMFGQ 65 (95)
Q Consensus 42 edPF~F~pyHkaiRePfDYY~FGq 65 (95)
.+|-.+|-|++-|..|.|+=+.-+
T Consensus 30 Vd~~~~pdY~~iIk~PmDL~tIk~ 53 (119)
T cd05496 30 VDLLKYPDYRDIIDTPMDLGTVKE 53 (119)
T ss_pred CChhhcCcHHHHhCCcccHHHHHH
Confidence 344457789999999999865543
No 27
>cd05519 Bromo_SNF2 Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in transcriptional activation, it is the catalytic component of the SWI/SNF ATP-dependent chromatin remodeling complex. The protein is essential for the regulation of gene expression (both positive and negative) of a large number of genes. The SWI/SNF complex changes chromatin structure by altering DNA-histone contacts within the nucleosome, which results in a re-positioning of the nucleosome and facilitates or represses the binding of gene-specific transcription factors. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=23.50 E-value=57 Score=21.57 Aligned_cols=26 Identities=12% Similarity=0.290 Sum_probs=19.7
Q ss_pred HHHhccCCCcccCcccccccCCchhh
Q 035573 36 RVLLDIEEPFTFSSYHKSMREPFDYY 61 (95)
Q Consensus 36 rvlldvedPF~F~pyHkaiRePfDYY 61 (95)
..+....+.-.+|-|++.|..|.|+=
T Consensus 25 ~~F~~~p~~~~~pdYy~iIk~Pmdl~ 50 (103)
T cd05519 25 ELFLEKPSKKLYPDYYVIIKRPIALD 50 (103)
T ss_pred HHhcCCCCCCCCcCHHHHcCCCcCHH
Confidence 34555566667888999999999954
No 28
>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=23.45 E-value=54 Score=22.56 Aligned_cols=27 Identities=15% Similarity=0.176 Sum_probs=17.9
Q ss_pred HhccCCCcccCcccccccCCchhhHhh
Q 035573 38 LLDIEEPFTFSSYHKSMREPFDYYMFG 64 (95)
Q Consensus 38 lldvedPF~F~pyHkaiRePfDYY~FG 64 (95)
+....+|=..|-|++.|+.|.|+=+.-
T Consensus 29 F~~pv~~~~~pdY~~iIk~PmdL~tI~ 55 (112)
T cd05510 29 FLTKVSKREAPDYYDIIKKPMDLGTML 55 (112)
T ss_pred hhcCCChhhcCCHHHHhcCccCHHHHH
Confidence 333334445666899999999976543
No 29
>cd05507 Bromo_brd8_like Bromodomain, brd8_like subgroup. In mammals, brd8 (bromodomain containing 8) interacts with the thyroid hormone receptor in a ligand-dependent fashion and enhances thyroid hormone-dependent activation from thyroid response elements. Brd8 is thought to be a nuclear receptor coactivator. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=22.84 E-value=73 Score=21.29 Aligned_cols=27 Identities=19% Similarity=0.239 Sum_probs=18.5
Q ss_pred HhccCCCcccCcccccccCCchhhHhh
Q 035573 38 LLDIEEPFTFSSYHKSMREPFDYYMFG 64 (95)
Q Consensus 38 lldvedPF~F~pyHkaiRePfDYY~FG 64 (95)
+..-.+|=..|-|++.|+.|.|+=+.-
T Consensus 24 F~~pV~~~~~p~Y~~iIk~PmDL~tI~ 50 (104)
T cd05507 24 FLKPVTEDIAPGYHSVVYRPMDLSTIK 50 (104)
T ss_pred hcCCCCccccCCHHHHhCCCcCHHHHH
Confidence 333344445777999999999975443
No 30
>cd05503 Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B (BAZ2B) were identified as a novel human bromodomain gene by cDNA library screening. BAZ2A is also known as Tip5 (Transcription termination factor I-interacting protein 5) and hWALp3. The proteins may play roles in transcriptional regulation. Human Tip5 is part of a complex termed NoRC (nucleolar remodeling complex), which induces nucleosome sliding and may play a role in the regulation of the rDNA locus. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=22.78 E-value=39 Score=22.23 Aligned_cols=27 Identities=19% Similarity=0.420 Sum_probs=18.7
Q ss_pred hccCCCcccCcccccccCCchhhHhhh
Q 035573 39 LDIEEPFTFSSYHKSMREPFDYYMFGQ 65 (95)
Q Consensus 39 ldvedPF~F~pyHkaiRePfDYY~FGq 65 (95)
.+..+|=.+|-|++.|+.|.|+=+.-+
T Consensus 22 ~~pv~~~~~p~Y~~iIk~PmdL~tI~~ 48 (97)
T cd05503 22 LEPVNTKLVPGYRKIIKKPMDFSTIRE 48 (97)
T ss_pred cCCCCccccCCHHHHhCCCCCHHHHHH
Confidence 333344456779999999999876543
No 31
>PF07914 DUF1679: Protein of unknown function (DUF1679); InterPro: IPR012877 This region is found in a number of Caenorhabditis elegans and Caenorhabditis briggsae proteins, in one case (Q19034 from SWISSPROT) as a repeat. In many of the family members, this region is associated with the CHK region described by SMART as being found in zinc finger-C4 and HLH domain-containing kinases. In fact, one member of this family (Q9GUC1 from SWISSPROT) is annotated as being a member of the nuclear hormone receptor family, and contains regions typical of such proteins (IPR000536 from INTERPRO, IPR008946 from INTERPRO, and IPR001628 from INTERPRO).
Probab=22.34 E-value=1.1e+02 Score=25.47 Aligned_cols=67 Identities=28% Similarity=0.397 Sum_probs=48.9
Q ss_pred ccccchhhhhhhhhcCCcchh-----HHHHHhHHHHHHHHH-hccCCCcccCcccccccCCchhhHhhhhhhhhcc
Q 035573 3 HQNNLAYDMFQVFQSGNSRAD-----EIVLSNMAVAFDRVL-LDIEEPFTFSSYHKSMREPFDYYMFGQNYIRPLV 72 (95)
Q Consensus 3 ~~~~~~~~~~AV~~Sg~p~A~-----e~vl~nM~~~lDrvl-ldvedPF~F~pyHkaiRePfDYY~FGq~YIrpLV 72 (95)
|-.|-+-|+--++.++.+..+ +.+|.-+-.-|-..+ .+.+.||+|+=.+.+=| -||-++-.++-|++
T Consensus 302 h~G~~~eDl~Rll~~~lS~edRR~~~~~lL~~Yy~~f~~~l~~~~~~PfT~eqL~~sY~---l~fp~~al~~lp~~ 374 (414)
T PF07914_consen 302 HRGSPAEDLARLLVSCLSGEDRREHTEELLEYYYDTFTEALEDGGKAPFTLEQLKDSYR---LYFPFGALFLLPGI 374 (414)
T ss_pred hcCchHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCccHHHHHHHHH---HHHHHHHHHHHHHH
Confidence 667888999999988887765 556776666666677 45699999987776655 26677777665554
No 32
>PLN02729 PSII-Q subunit
Probab=21.29 E-value=77 Score=25.50 Aligned_cols=33 Identities=21% Similarity=0.365 Sum_probs=22.7
Q ss_pred cccchhhhhhhhhcCCcchhHHHHHhHH-HHHHHH
Q 035573 4 QNNLAYDMFQVFQSGNSRADEIVLSNMA-VAFDRV 37 (95)
Q Consensus 4 ~~~~~~~~~AV~~Sg~p~A~e~vl~nM~-~~lDrv 37 (95)
+.+|-||++.|++|- |+.+..=++..+ .+||.+
T Consensus 153 AsyL~yDL~tvIssk-P~~eKk~L~~LankLFdn~ 186 (220)
T PLN02729 153 STFMYYDFDKLISAA-PVDDKQPLTDLANRLFDNF 186 (220)
T ss_pred HHHHHHHHHHHhccC-ChhhhHHHHHHHHHHHhhH
Confidence 346889999988776 777766666443 555544
No 33
>cd05516 Bromo_SNF2L2 Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 2 is a global transcriptional activator, which cooperates with nuclear hormone receptors to boost transcriptional activation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=21.10 E-value=1.1e+02 Score=20.52 Aligned_cols=27 Identities=15% Similarity=0.415 Sum_probs=18.4
Q ss_pred HhccCCCcccCcccccccCCchhhHhh
Q 035573 38 LLDIEEPFTFSSYHKSMREPFDYYMFG 64 (95)
Q Consensus 38 lldvedPF~F~pyHkaiRePfDYY~FG 64 (95)
+....++=..|-|++.|+.|.|+=+.-
T Consensus 28 F~~~p~~~~~pdYy~iI~~Pmdl~tI~ 54 (107)
T cd05516 28 FIQLPSRKELPEYYELIRKPVDFKKIK 54 (107)
T ss_pred hhcCCCcccCCCHHHHcCCCCCHHHHH
Confidence 333344446777999999999965443
No 34
>PF14757 NSP2-B_epitope: Immunogenic region of nsp2 protein of arterivirus polyprotein
Probab=20.15 E-value=57 Score=26.92 Aligned_cols=35 Identities=34% Similarity=0.457 Sum_probs=28.0
Q ss_pred hhhhhhhhhcCCcc------hhHHHHHhHHHHHHHHHhccCCC
Q 035573 8 AYDMFQVFQSGNSR------ADEIVLSNMAVAFDRVLLDIEEP 44 (95)
Q Consensus 8 ~~~~~AV~~Sg~p~------A~e~vl~nM~~~lDrvlldvedP 44 (95)
.|-..|++.||.|- ..|.||+.|..++|---+| ||
T Consensus 216 k~SaQAiIdsGGPcsghlq~~Ke~cl~imreACda~kl~--dP 256 (272)
T PF14757_consen 216 KYSAQAIIDSGGPCSGHLQEEKEACLSIMREACDATKLD--DP 256 (272)
T ss_pred ccchhhhhccCCCchHHHHHHHHHHHHHHHHhcCccccC--Ch
Confidence 36678999999884 4689999999999877666 55
Done!