Query psy1160
Match_columns 121
No_of_seqs 117 out of 185
Neff 4.3
Searched_HMMs 46136
Date Fri Aug 16 22:47:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1160.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1160hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3365|consensus 100.0 1.5E-43 3.3E-48 266.2 10.4 113 2-114 33-145 (145)
2 PF04716 ETC_C1_NDUFA5: ETC co 99.9 1.2E-26 2.6E-31 151.4 7.3 57 16-72 1-57 (57)
3 PF05347 Complex1_LYR: Complex 93.7 0.28 6.1E-06 30.4 5.4 49 22-71 3-51 (59)
4 PF02260 FATC: FATC domain; I 93.0 0.11 2.4E-06 30.4 2.5 27 72-98 6-32 (33)
5 PF13232 Complex1_LYR_1: Compl 92.4 0.84 1.8E-05 28.8 6.3 58 22-89 3-60 (61)
6 KOG3801|consensus 79.4 8.3 0.00018 27.8 5.8 62 19-90 6-67 (94)
7 PRK00082 hrcA heat-inducible t 68.0 4.4 9.5E-05 34.1 2.5 50 35-87 66-117 (339)
8 PF10146 zf-C4H2: Zinc finger- 64.4 14 0.00031 29.9 4.7 63 24-86 15-90 (230)
9 PF05615 THOC7: Tho complex su 56.7 73 0.0016 23.0 7.5 81 14-96 13-114 (139)
10 PF15205 PLAC9: Placenta-speci 56.6 8.9 0.00019 26.4 1.9 23 49-71 22-46 (74)
11 PF05659 RPW8: Arabidopsis bro 53.5 60 0.0013 24.4 6.2 79 21-99 10-92 (147)
12 PF08361 TetR_C_2: MAATS-type 50.5 36 0.00077 23.9 4.3 64 17-84 1-67 (121)
13 PF15112 DUF4559: Domain of un 49.8 32 0.00068 29.5 4.5 73 14-86 160-249 (307)
14 cd00179 SynN Syntaxin N-termin 45.5 51 0.0011 23.4 4.6 59 18-78 89-147 (151)
15 KOG1684|consensus 44.8 48 0.001 29.4 5.0 66 10-80 213-283 (401)
16 cd05497 Bromo_Brdt_I_like Brom 44.5 20 0.00043 25.3 2.2 56 20-75 4-62 (107)
17 COG5032 TEL1 Phosphatidylinosi 43.2 25 0.00054 36.6 3.4 82 15-98 2010-2104(2105)
18 COG1420 HrcA Transcriptional r 37.4 37 0.00079 29.2 3.1 50 35-87 66-117 (346)
19 PRK01194 V-type ATP synthase s 36.0 87 0.0019 24.1 4.8 35 20-54 80-114 (185)
20 TIGR00331 hrcA heat shock gene 35.2 35 0.00077 28.7 2.7 51 35-88 62-114 (337)
21 PHA01735 hypothetical protein 35.1 23 0.00051 24.5 1.3 21 5-25 43-63 (76)
22 PF02064 MAS20: MAS20 protein 32.4 27 0.00058 25.8 1.3 19 11-30 89-107 (121)
23 cd05513 Bromo_brd7_like Bromod 32.0 47 0.001 23.2 2.5 55 22-76 2-57 (98)
24 cd05495 Bromo_cbp_like Bromodo 29.6 43 0.00094 23.6 2.0 69 20-89 2-74 (108)
25 PF07904 Eaf7: Chromatin modif 29.4 37 0.00081 23.6 1.6 15 83-97 1-15 (91)
26 cd05503 Bromo_BAZ2A_B_like Bro 28.9 56 0.0012 22.3 2.4 52 24-75 3-55 (97)
27 cd05506 Bromo_plant1 Bromodoma 28.5 33 0.00071 23.3 1.2 55 22-76 1-58 (99)
28 cd05501 Bromo_SP100C_like Brom 28.5 33 0.00071 24.5 1.2 53 22-76 4-56 (102)
29 PF09516 RE_CfrBI: CfrBI restr 28.3 44 0.00095 28.5 2.1 25 35-59 37-61 (295)
30 KOG0890|consensus 28.1 64 0.0014 34.5 3.5 36 63-98 2334-2381(2382)
31 PF14257 DUF4349: Domain of un 26.6 3.1E+02 0.0066 21.7 6.6 33 61-95 162-194 (262)
32 smart00657 RPOL4c DNA-directed 26.0 1.3E+02 0.0029 21.4 4.1 58 19-81 31-110 (118)
33 TIGR03185 DNA_S_dndD DNA sulfu 25.4 4.4E+02 0.0096 23.8 8.1 53 32-86 413-465 (650)
34 TIGR00985 3a0801s04tom mitocho 24.9 41 0.00088 25.8 1.2 19 11-30 117-135 (148)
35 cd05492 Bromo_ZMYND11 Bromodom 24.0 63 0.0014 23.2 2.0 53 24-76 3-62 (109)
36 smart00297 BROMO bromo domain. 23.1 1.1E+02 0.0025 20.2 3.1 59 17-75 3-62 (107)
37 cd05507 Bromo_brd8_like Bromod 23.1 68 0.0015 22.3 2.0 57 20-76 2-59 (104)
38 PF01991 vATP-synt_E: ATP synt 22.9 3E+02 0.0065 20.2 5.6 39 20-58 72-111 (198)
39 cd05511 Bromo_TFIID Bromodomai 22.9 88 0.0019 22.1 2.6 54 22-75 1-55 (112)
40 PRK03963 V-type ATP synthase s 22.8 2.1E+02 0.0046 21.5 4.8 38 20-58 81-118 (198)
41 PF10498 IFT57: Intra-flagella 22.6 2.6E+02 0.0057 24.0 5.8 63 25-88 199-284 (359)
42 PF10923 DUF2791: P-loop Domai 22.6 2.7E+02 0.0059 24.5 6.0 46 16-61 88-139 (416)
43 PF10750 DUF2536: Protein of u 22.4 52 0.0011 22.5 1.2 16 60-76 17-32 (68)
44 KOG0892|consensus 22.2 42 0.00091 36.3 1.1 26 73-98 2780-2805(2806)
45 COG2882 FliJ Flagellar biosynt 22.1 1.1E+02 0.0024 23.4 3.2 81 21-103 20-116 (148)
46 PRK03922 hypothetical protein; 21.6 1.1E+02 0.0024 22.7 2.9 33 6-38 67-105 (113)
47 PF08336 P4Ha_N: Prolyl 4-Hydr 21.3 82 0.0018 22.6 2.2 62 43-106 21-84 (134)
48 cd05510 Bromo_SPT7_like Bromod 21.0 2E+02 0.0044 20.4 4.1 69 20-89 6-76 (112)
49 PF13422 DUF4110: Domain of un 20.5 84 0.0018 22.3 2.0 69 13-83 9-86 (96)
50 PF14182 YgaB: YgaB-like prote 20.4 1.7E+02 0.0037 20.5 3.5 26 59-85 52-77 (79)
No 1
>KOG3365|consensus
Probab=100.00 E-value=1.5e-43 Score=266.21 Aligned_cols=113 Identities=43% Similarity=0.863 Sum_probs=111.2
Q ss_pred CCcccccccccccCCChHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHhhhccCHHHHHHHhcCchHHHHHHH
Q psy1160 2 TSEQTTGLTGLAVSPDPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKIKSGQIEEVIIQ 81 (121)
Q Consensus 2 ~~K~tTGltGL~V~p~pr~~L~~lY~~~L~~L~~iP~~a~YR~~tE~it~~Rl~iV~~~~di~~iE~~i~~GqIEElI~q 81 (121)
.+|+|||+|||+|+++||.+|..+|.+||+++++||++++||++||+||+.||++|+.++|++.||+++|||||||+|.|
T Consensus 33 ~~k~ttg~Vgl~v~~~~~~rl~~ly~kil~~~eqIpkn~ayRk~Tesit~~kLa~~k~E~d~K~ledql~gGqIEE~i~q 112 (145)
T KOG3365|consen 33 VLKKTTGIVGLAVCENPHERLRDLYTKILDVLEQIPKNAAYRKYTESITNQKLAMLKAEPDVKKLEDQLQGGQIEEVIEQ 112 (145)
T ss_pred hhhhhhhhhhhhccCCHHHHHHHHHHHhHHHHHHcchhhhhhHHHHHHHHHHHHHHHcchHHHHHHHHhcCCchHHHHHH
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhcCCCCcccCCCCCCCCCCCC
Q psy1160 82 AENELLLARKMLNWKPWEPLLKTSPPQQWVWPP 114 (121)
Q Consensus 82 Ae~EL~L~~kM~~wKpWE~L~e~pp~~QW~wp~ 114 (121)
|++||.++++|.+||||+++++.||.+||.||+
T Consensus 113 a~~el~m~~k~~~wk~w~~~~e~~~~~~~~~~v 145 (145)
T KOG3365|consen 113 AEAELNMGRKMFEWKPWEEHVEEPPALQWCWPV 145 (145)
T ss_pred HHHHHHHHhhhhcccccCccccccccccccCCC
Confidence 999999999999999999999999999999985
No 2
>PF04716 ETC_C1_NDUFA5: ETC complex I subunit conserved region; InterPro: IPR006806 This is a family of eukaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC) (1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 29.9 kDa protein. The conserved region is found at the N terminus of the member proteins [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022904 respiratory electron transport chain, 0005743 mitochondrial inner membrane
Probab=99.94 E-value=1.2e-26 Score=151.42 Aligned_cols=57 Identities=44% Similarity=0.860 Sum_probs=56.4
Q ss_pred CChHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHhhhccCHHHHHHHhcC
Q psy1160 16 PDPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKIKS 72 (121)
Q Consensus 16 p~pr~~L~~lY~~~L~~L~~iP~~a~YR~~tE~it~~Rl~iV~~~~di~~iE~~i~~ 72 (121)
||||++|+.||++||++|++||++|+|||+||++|++||+||++++|+++||++|||
T Consensus 1 pnpr~~L~~lY~~~L~~L~~~P~~a~YR~~tE~it~~Rl~iv~~~~d~~~iE~~i~c 57 (57)
T PF04716_consen 1 PNPREALISLYNKTLKALKKIPEDAAYRQYTEAITKHRLKIVEEEEDIEKIEKKIGC 57 (57)
T ss_pred CChHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHccccHHHHHHHhCc
Confidence 799999999999999999999999999999999999999999999999999999998
No 3
>PF05347 Complex1_LYR: Complex 1 protein (LYR family); InterPro: IPR008011 This family of short proteins includes proteins from the NADH-ubiquinone oxidoreductase complex I. The family includes the B14 subunit from bovine NADH-ubiquinone oxidoreductase B14 subunit Q02366 from SWISSPROT, and the B22 subunit from the human enzyme Q9Y6M9 from SWISSPROT. The family has been named LYR after a highly conserved tripeptide motif close to the N terminus of these proteins. Members of this family also found in yeast which do contain this complex. In these organisms they are believed to be be required for iron-sulphur custer biogenesis.
Probab=93.67 E-value=0.28 Score=30.37 Aligned_cols=49 Identities=20% Similarity=0.455 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHhhhccCHHHHHHHhc
Q psy1160 22 LTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKIK 71 (121)
Q Consensus 22 L~~lY~~~L~~L~~iP~~a~YR~~tE~it~~Rl~iV~~~~di~~iE~~i~ 71 (121)
-+.||..+|+....+|..+ +|.+.-..++....-=+...|..+|+..+.
T Consensus 3 vl~LYR~lLR~~~~~~~~~-~r~~~~~~iR~~Fr~n~~~~d~~~I~~~l~ 51 (59)
T PF05347_consen 3 VLSLYRQLLRAARSFPDDS-EREYIRAEIRQEFRKNRNETDPEKIEELLK 51 (59)
T ss_pred HHHHHHHHHHHHHHcCCcc-hHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence 4689999999999999888 888888888877777666778877765544
No 4
>PF02260 FATC: FATC domain; InterPro: IPR003152 The FATC domain is found at the C-terminal end of the PIK-related kinases. Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding; PDB: 2KIT_A 1W1N_A 2KIO_A.
Probab=93.01 E-value=0.11 Score=30.37 Aligned_cols=27 Identities=37% Similarity=0.772 Sum_probs=24.5
Q ss_pred CchHHHHHHHHHHHHHHHHHHhhcCCC
Q psy1160 72 SGQIEEVIIQAENELLLARKMLNWKPW 98 (121)
Q Consensus 72 ~GqIEElI~qAe~EL~L~~kM~~wKpW 98 (121)
.+||.+||.+|-|--.|++...-|-||
T Consensus 6 ~~qV~~LI~~At~~~nLa~my~GW~pw 32 (33)
T PF02260_consen 6 EQQVDELISEATDPENLARMYIGWMPW 32 (33)
T ss_dssp THHHHHHHHHHHHHHHHHHHCTSS-TT
T ss_pred HHHHHHHHHHHcCHHHHHHHhcchhcc
Confidence 589999999999999999999999888
No 5
>PF13232 Complex1_LYR_1: Complex1_LYR-like
Probab=92.44 E-value=0.84 Score=28.77 Aligned_cols=58 Identities=22% Similarity=0.465 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHhhhccCHHHHHHHhcCchHHHHHHHHHHHHHHH
Q psy1160 22 LTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKIKSGQIEEVIIQAENELLLA 89 (121)
Q Consensus 22 L~~lY~~~L~~L~~iP~~a~YR~~tE~it~~Rl~iV~~~~di~~iE~~i~~GqIEElI~qAe~EL~L~ 89 (121)
...||..+|+.-+.+|. ..||.++-..++.+..--+...|.+ .|+.+|..|+++|+++
T Consensus 3 vL~LYR~lLR~~~~~~~-~~~r~~~~~~ir~~Fr~~~~~td~~---------~i~~~l~~~~~~L~~l 60 (61)
T PF13232_consen 3 VLSLYRQLLREASKFPD-YNFRSYFRRRIRDRFRRNKNVTDPE---------KIAKLLKEGRKELELL 60 (61)
T ss_pred HHHHHHHHHHHhhhcCC-cchHHHHHHHHHHHHHHcCCCCCHH---------HHHHHHHHHHHHHHHc
Confidence 46899999999999874 5678888888888888666666664 4566777888888764
No 6
>KOG3801|consensus
Probab=79.43 E-value=8.3 Score=27.80 Aligned_cols=62 Identities=16% Similarity=0.331 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHhhhccCHHHHHHHhcCchHHHHHHHHHHHHHHHH
Q psy1160 19 KHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKIKSGQIEEVIIQAENELLLAR 90 (121)
Q Consensus 19 r~~L~~lY~~~L~~L~~iP~~a~YR~~tE~it~~Rl~iV~~~~di~~iE~~i~~GqIEElI~qAe~EL~L~~ 90 (121)
+.....||..+|+.-.+|| +.-||.|.-.-|+.-...-+...|..++++.+ ..|+..|.+++
T Consensus 6 r~qvlsLyr~~lr~s~qfp-~YNyReY~~RrtRD~Fr~Nkn~~Dp~e~~~l~---------~eakk~Levik 67 (94)
T KOG3801|consen 6 RRQVLSLYRNLLRESKQFP-QYNYREYFQRRTRDTFRANKNVCDPAEIKKLY---------KEAKKQLEVIK 67 (94)
T ss_pred HHHHHHHHHHHHHHHhhCC-cccHHHHHHHHHHHHHHHhcccCCHHHHHHHH---------HHHHHHHHHHH
Confidence 4556789999999999997 58899999998887777777788888876654 45556665554
No 7
>PRK00082 hrcA heat-inducible transcription repressor; Provisional
Probab=67.95 E-value=4.4 Score=34.11 Aligned_cols=50 Identities=16% Similarity=0.420 Sum_probs=36.5
Q ss_pred cCCCCchHHHHHHHHHHHHHHHhhhccCHHHHHHHhc--CchHHHHHHHHHHHHH
Q psy1160 35 KMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKIK--SGQIEEVIIQAENELL 87 (121)
Q Consensus 35 ~iP~~a~YR~~tE~it~~Rl~iV~~~~di~~iE~~i~--~GqIEElI~qAe~EL~ 87 (121)
.+|.+.+||-||..+.+.+ . . ...+...|++.+. .+.++++|.+|-+-|+
T Consensus 66 rIPT~kGYR~YVd~L~~~~-~-~-~~~~~~~i~~~~~~~~~~~~~~l~~aa~~Ls 117 (339)
T PRK00082 66 RIPTDKGYRYFVDHLLEVK-P-L-SEEERRAIEKFLDERGVSLEDVLQEAAQLLS 117 (339)
T ss_pred CCcCHHHHHHHHHHhCCCC-C-C-CHHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Confidence 6899999999999886532 1 1 2335566777665 4799999999877665
No 8
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=64.36 E-value=14 Score=29.86 Aligned_cols=63 Identities=24% Similarity=0.414 Sum_probs=40.7
Q ss_pred HHHHHHHHHHhcCCCC----chHHHHHHHHHHHHHHHhhh----ccCHHHHHHHh-----cCchHHHHHHHHHHHH
Q psy1160 24 VLYNKILRLLAKMPDD----AAYKKYTKEIVDTRIKVVQQ----AKSIDEMETKI-----KSGQIEEVIIQAENEL 86 (121)
Q Consensus 24 ~lY~~~L~~L~~iP~~----a~YR~~tE~it~~Rl~iV~~----~~di~~iE~~i-----~~GqIEElI~qAe~EL 86 (121)
.+=++++..+..+=.. ..||+-.+.|..+|+..|+. +.||..||+.| ....+++-|.+..+|+
T Consensus 15 k~k~~i~~e~~~~e~ee~~L~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey 90 (230)
T PF10146_consen 15 KLKNEILQEVESLENEEKCLEEYRKEMEELLQERMAHVEELRQINQDINTLENIIKQAESERNKRQEKIQRLYEEY 90 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444433332 46999999999999999988 57888888777 2344455555544443
No 9
>PF05615 THOC7: Tho complex subunit 7; InterPro: IPR008501 The Tho complex (THOC) is involved in transcription elongation and mRNA export from the nucleus []. This entry represents the subunit THOC7, which is found in higher eukaryotes, and the non-homologous subunit Mft1p found in yeast. The funtions of these subunits are unknown, and it is not known if these subunits are functionally equivalent.
Probab=56.66 E-value=73 Score=22.99 Aligned_cols=81 Identities=20% Similarity=0.252 Sum_probs=54.9
Q ss_pred cCCChHHHHHHHHHHHHHHHhcCCC-------CchHHHHHHHHHHHHHHHhhhc--------------cCHHHHHHHhcC
Q psy1160 14 VSPDPKHSLTVLYNKILRLLAKMPD-------DAAYKKYTKEIVDTRIKVVQQA--------------KSIDEMETKIKS 72 (121)
Q Consensus 14 V~p~pr~~L~~lY~~~L~~L~~iP~-------~a~YR~~tE~it~~Rl~iV~~~--------------~di~~iE~~i~~ 72 (121)
+...|...|...|.+..+.....+. ...|-.-...+....+++.+.. ..-..||+.|.
T Consensus 13 ~~dr~l~~l~k~~~~~~~~~~~~~~~~~~e~~~~~~e~~l~~l~~~e~~~~k~q~~~~~n~~e~e~Y~~~~~~i~~~i~- 91 (139)
T PF05615_consen 13 GDDRPLKRLLKRFLKWCNLSDSILSGQPSEESQFLYERLLKELAQFEFSILKSQLILEMNKRERENYEQLNEEIEQEIE- 91 (139)
T ss_pred cCchhHHHHHHHHHHHHhhhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence 7788888888888888777765432 2345555555666666655542 24455666553
Q ss_pred chHHHHHHHHHHHHHHHHHHhhcC
Q psy1160 73 GQIEEVIIQAENELLLARKMLNWK 96 (121)
Q Consensus 73 GqIEElI~qAe~EL~L~~kM~~wK 96 (121)
++..=|..++.+|.-++.+...|
T Consensus 92 -~~k~~ie~lk~~L~~ak~~r~~k 114 (139)
T PF05615_consen 92 -QAKKEIEELKEELEEAKRVRQNK 114 (139)
T ss_pred -HHHHHHHHHHHHHHHHHHHHHHH
Confidence 66777888999999888887655
No 10
>PF15205 PLAC9: Placenta-specific protein 9
Probab=56.59 E-value=8.9 Score=26.43 Aligned_cols=23 Identities=26% Similarity=0.693 Sum_probs=15.6
Q ss_pred HHHHHHHHhhh--ccCHHHHHHHhc
Q psy1160 49 IVDTRIKVVQQ--AKSIDEMETKIK 71 (121)
Q Consensus 49 it~~Rl~iV~~--~~di~~iE~~i~ 71 (121)
-+..||+|+++ +.-++.||.++.
T Consensus 22 av~~RLdviEe~veKTVEhLeaEvk 46 (74)
T PF15205_consen 22 AVHSRLDVIEETVEKTVEHLEAEVK 46 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45789999877 356666666554
No 11
>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots. Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].
Probab=53.46 E-value=60 Score=24.38 Aligned_cols=79 Identities=18% Similarity=0.321 Sum_probs=54.9
Q ss_pred HHHHHHHHHHHHHh-cCCCCchHHHHHHHHHHHHHHHhhhccCHHHHHHHhcC---chHHHHHHHHHHHHHHHHHHhhcC
Q psy1160 21 SLTVLYNKILRLLA-KMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKIKS---GQIEEVIIQAENELLLARKMLNWK 96 (121)
Q Consensus 21 ~L~~lY~~~L~~L~-~iP~~a~YR~~tE~it~~Rl~iV~~~~di~~iE~~i~~---GqIEElI~qAe~EL~L~~kM~~wK 96 (121)
+|....+.+|+.+. ..-....||-..+.+...--.|.-...+|+.+-+.++. .++|.++..-++=-+|+.+..+-+
T Consensus 10 alG~~~~eLlk~v~~~~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e~L~~~L~~g~~LV~k~sk~~ 89 (147)
T PF05659_consen 10 ALGAVFGELLKAVIDASKKSLSFKSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIERLKELLEKGKELVEKCSKVR 89 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHHHHHHHHHHHHHHHHHhcccc
Confidence 45566666666663 34455677777776665555555445556666667764 479999999999999999999877
Q ss_pred CCC
Q psy1160 97 PWE 99 (121)
Q Consensus 97 pWE 99 (121)
-|.
T Consensus 90 r~n 92 (147)
T PF05659_consen 90 RWN 92 (147)
T ss_pred HHH
Confidence 665
No 12
>PF08361 TetR_C_2: MAATS-type transcriptional repressor, C-terminal region; InterPro: IPR013572 This entry is named after the various transcriptional regulatory proteins that it contains, including MtrR (Q6RV06 from SWISSPROT), AcrR (P34000 from SWISSPROT), ArpR (Q9KJC4 from SWISSPROT), TtgR (Q9AIU0 from SWISSPROT) and SmeT (Q8KLP4 from SWISSPROT). These are members of the TetR (tetracycline resistance) family of transcriptional repressors, that are involved in the control of expression of multidrug resistance proteins [, , ]. ; GO: 0003677 DNA binding; PDB: 3BCG_B 2QOP_A 2UXP_B 2XDN_C 2UXH_A 2UXI_B 2UXO_A 2UXU_B 2WUI_A 2W53_A ....
Probab=50.47 E-value=36 Score=23.92 Aligned_cols=64 Identities=22% Similarity=0.329 Sum_probs=40.0
Q ss_pred ChHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHhhhccCHHHHHHHhcC---chHHHHHHHHHH
Q psy1160 17 DPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKIKS---GQIEEVIIQAEN 84 (121)
Q Consensus 17 ~pr~~L~~lY~~~L~~L~~iP~~a~YR~~tE~it~~Rl~iV~~~~di~~iE~~i~~---GqIEElI~qAe~ 84 (121)
||...|.......|..|. .+..+|+.-| |.-+|-..|++...+.+....... ..||.++..|..
T Consensus 1 dPL~~Lr~~~~~~l~~l~---~d~~~Rrv~~-I~~~kcE~~~e~~~~~~r~~~~~~~~~~~i~~~l~~A~~ 67 (121)
T PF08361_consen 1 DPLERLREALIEALRRLA---EDERQRRVFE-ILFHKCEYVEEMAPVRERRREAQREALARIERLLRRAQA 67 (121)
T ss_dssp -HHHHHHHHHHHHHHHHH---HSHHHHHHHH-HHHHS--SSTTTHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHh---hCHHHHHHHH-HHHHhcccCCcccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 677777777777776665 5667787776 888888777776655444333221 457777776654
No 13
>PF15112 DUF4559: Domain of unknown function (DUF4559)
Probab=49.84 E-value=32 Score=29.47 Aligned_cols=73 Identities=18% Similarity=0.251 Sum_probs=53.7
Q ss_pred cCCChHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHhhhc-----------------cCHHHHHHHhcCchHH
Q psy1160 14 VSPDPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQA-----------------KSIDEMETKIKSGQIE 76 (121)
Q Consensus 14 V~p~pr~~L~~lY~~~L~~L~~iP~~a~YR~~tE~it~~Rl~iV~~~-----------------~di~~iE~~i~~GqIE 76 (121)
|.............+.|+.+..+|+-..-.+.+|++-+.=.+|.... ..|-++|.++-..++.
T Consensus 160 vs~~wm~~~~~~i~nll~~f~~ipe~~~a~~~Ie~ll~~d~~v~~~~~d~~Dg~~~~~~~~~~~~~i~e~e~e~Lke~lq 239 (307)
T PF15112_consen 160 VSSQWMRDFQMKIQNLLNEFRNIPEIVAAGSRIEQLLTSDWAVHIPEEDQRDGCESETDVYLSESQILEIEMELLKEKLQ 239 (307)
T ss_pred cCHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHhhhhhhcCchhhccchhhhccchhhhHHHHHHHHHHHHHHHHH
Confidence 34444444555556667777899999999999999987777766442 2466788888888889
Q ss_pred HHHHHHHHHH
Q psy1160 77 EVIIQAENEL 86 (121)
Q Consensus 77 ElI~qAe~EL 86 (121)
|++.||++..
T Consensus 240 el~~~~e~~~ 249 (307)
T PF15112_consen 240 ELYLQAEEQE 249 (307)
T ss_pred HHHHHHhhcc
Confidence 9999988765
No 14
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=45.49 E-value=51 Score=23.40 Aligned_cols=59 Identities=17% Similarity=0.326 Sum_probs=42.7
Q ss_pred hHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHhhhccCHHHHHHHhcCchHHHH
Q psy1160 18 PKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKIKSGQIEEV 78 (121)
Q Consensus 18 pr~~L~~lY~~~L~~L~~iP~~a~YR~~tE~it~~Rl~iV~~~~di~~iE~~i~~GqIEEl 78 (121)
=+.+|..-+..++..-+.+ -..||....+.+..++.||..+-..+++++.+..|+=+.+
T Consensus 89 q~~~L~~~f~~~m~~fq~~--Q~~~~~~~k~~i~Rq~~i~~~~~tdeei~~~~~~~~~~~~ 147 (151)
T cd00179 89 QHSGLSKKFVEVMTEFNKA--QRKYRERYKERIQRQLEITGGEATDEELEDMLESGNSEIF 147 (151)
T ss_pred HHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHcCCCCChHHHHHHHHcCChhhh
Confidence 3445666666666655543 4578888888889999999888888999999888854433
No 15
>KOG1684|consensus
Probab=44.75 E-value=48 Score=29.35 Aligned_cols=66 Identities=21% Similarity=0.345 Sum_probs=46.3
Q ss_pred cccccCCChHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHhhh-----ccCHHHHHHHhcCchHHHHHH
Q psy1160 10 TGLAVSPDPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQ-----AKSIDEMETKIKSGQIEEVII 80 (121)
Q Consensus 10 tGL~V~p~pr~~L~~lY~~~L~~L~~iP~~a~YR~~tE~it~~Rl~iV~~-----~~di~~iE~~i~~GqIEElI~ 80 (121)
+||+.|--|-+.|-.|=.+++..|..-|++. +++....=-...+. ..-++.|++-+...-|||+|.
T Consensus 213 ~GlATHyv~S~~l~~Lee~L~~~l~~dp~~~-----I~~~l~~y~~~~~~~~~~~~~~~~~i~~~Fs~~tVeeIie 283 (401)
T KOG1684|consen 213 CGLATHYVPSEKLPSLEERLLKNLNDDPQSV-----INETLEKYASPAKDESFSLSLKLDVINKCFSANTVEEIIE 283 (401)
T ss_pred hcchhhccchhhhhHHHHHHhhhcCCCcHHH-----HHHHHHHhcccCCCccccchhhHHHHHHhhccccHHHHHH
Confidence 5999999999999999999997666666543 33333222222211 125677888888889999998
No 16
>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=44.54 E-value=20 Score=25.29 Aligned_cols=56 Identities=11% Similarity=0.227 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHhcCCCCchHHHHHHHH---HHHHHHHhhhccCHHHHHHHhcCchH
Q psy1160 20 HSLTVLYNKILRLLAKMPDDAAYKKYTKEI---VDTRIKVVQQAKSIDEMETKIKSGQI 75 (121)
Q Consensus 20 ~~L~~lY~~~L~~L~~iP~~a~YR~~tE~i---t~~Rl~iV~~~~di~~iE~~i~~GqI 75 (121)
..|..+...+|+.|.+-|-+..+|.-|... ...=.+||+.--|...|+++|..|+-
T Consensus 4 ~q~~~~~~~il~~l~~~~~s~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y 62 (107)
T cd05497 4 NQLQYLLKVVLKALWKHKFAWPFQQPVDAVKLNLPDYHKIIKTPMDLGTIKKRLENNYY 62 (107)
T ss_pred HHHHHHHHHHHHHHHhCCcCccccCCCCcccccCCcHHHHHcCcccHHHHHHHHcCCCC
Confidence 357788899999999999999999987643 33346888888899999999998863
No 17
>COG5032 TEL1 Phosphatidylinositol kinase and protein kinases of the PI-3 kinase family [Signal transduction mechanisms / Cell division and chromosome partitioning / Chromatin structure and dynamics / DNA replication, recombination, and repair / Intracellular trafficking and secretion]
Probab=43.21 E-value=25 Score=36.63 Aligned_cols=82 Identities=18% Similarity=0.290 Sum_probs=54.9
Q ss_pred CCChHHHHHHHHHHHHHHHhcCCCC-----------chHHHHHHHHHHHH--HHHhhhccCHHHHHHHhcCchHHHHHHH
Q psy1160 15 SPDPKHSLTVLYNKILRLLAKMPDD-----------AAYKKYTKEIVDTR--IKVVQQAKSIDEMETKIKSGQIEEVIIQ 81 (121)
Q Consensus 15 ~p~pr~~L~~lY~~~L~~L~~iP~~-----------a~YR~~tE~it~~R--l~iV~~~~di~~iE~~i~~GqIEElI~q 81 (121)
|-....+|+.=.+.++..|+.|.-+ ..+...+-.-++.| +++. +.|.+..++..-+++++.+|.|
T Consensus 2010 c~~~~~~LRk~~~~L~~~le~f~~d~l~~W~~~p~~~~~~~~~~~~v~~rf~~kl~--~~~~~~~~~l~I~~sv~~li~~ 2087 (2105)
T COG5032 2010 CETAFRALRKNADSLMNVLELFVRDPLIEWRRLPCFREIQNNEIVNVLERFRLKLS--EKDAEKFVDLLINKSVESLITQ 2087 (2105)
T ss_pred HHHHHHHHhccHHHHHHHHHHHhcCcchhhhcCccccchHHHHHHHHHHHHHHHhh--hhhhhhhcCCcHHHHHHHHHHH
Confidence 3344455566566666666544433 32323333333344 3443 4566667888888999999999
Q ss_pred HHHHHHHHHHHhhcCCC
Q psy1160 82 AENELLLARKMLNWKPW 98 (121)
Q Consensus 82 Ae~EL~L~~kM~~wKpW 98 (121)
|-|...|+...+-|-||
T Consensus 2088 a~d~~~L~~~yi~w~~f 2104 (2105)
T COG5032 2088 ATDPFQLATMYIGWMPF 2104 (2105)
T ss_pred HcCHHHHHhhccccccC
Confidence 99999999999999998
No 18
>COG1420 HrcA Transcriptional regulator of heat shock gene [Transcription]
Probab=37.37 E-value=37 Score=29.15 Aligned_cols=50 Identities=18% Similarity=0.399 Sum_probs=35.7
Q ss_pred cCCCCchHHHHHHHHHHHHHHHhhhccCHHHHHHHhcCch--HHHHHHHHHHHHH
Q psy1160 35 KMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKIKSGQ--IEEVIIQAENELL 87 (121)
Q Consensus 35 ~iP~~a~YR~~tE~it~~Rl~iV~~~~di~~iE~~i~~Gq--IEElI~qAe~EL~ 87 (121)
.+|...+||-||..+.+.-- .+..+...++..+..+- +|++|..|-.-|+
T Consensus 66 RvPT~~Gyr~YVd~ll~~~~---~~~~e~~~i~~~l~~~~~~~e~~l~~a~~~Ls 117 (346)
T COG1420 66 RVPTDKGYRYYVDHLLEVED---LSEEERRRIESFLESEGYDLEDLLQKAAQLLS 117 (346)
T ss_pred cCCcHhHHHHHHHHhcccCC---CChHHHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence 68999999999998754210 01234467778887766 9999999876654
No 19
>PRK01194 V-type ATP synthase subunit E; Provisional
Probab=36.00 E-value=87 Score=24.07 Aligned_cols=35 Identities=11% Similarity=0.240 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHH
Q psy1160 20 HSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRI 54 (121)
Q Consensus 20 ~~L~~lY~~~L~~L~~iP~~a~YR~~tE~it~~Rl 54 (121)
..|..+|+...+.|..||.+..|+..+..++..=+
T Consensus 80 e~I~~v~~~a~e~L~~l~~~~~Y~~~L~~LI~~a~ 114 (185)
T PRK01194 80 EILKDYLDIAYEHLMNITKSKEYDSILNKMIEVAI 114 (185)
T ss_pred HHHHHHHHHHHHHHHcccCCchHHHHHHHHHHHHH
Confidence 56778999999999999987799999999998733
No 20
>TIGR00331 hrcA heat shock gene repressor HrcA. In Bacillus subtilis, hrcA is the first gene of the dnaK operon and so is itself a heat shock gene.
Probab=35.21 E-value=35 Score=28.68 Aligned_cols=51 Identities=16% Similarity=0.287 Sum_probs=34.8
Q ss_pred cCCCCchHHHHHHHHHHHHHHHhhhccCHHHHHHHhcC--chHHHHHHHHHHHHHH
Q psy1160 35 KMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKIKS--GQIEEVIIQAENELLL 88 (121)
Q Consensus 35 ~iP~~a~YR~~tE~it~~Rl~iV~~~~di~~iE~~i~~--GqIEElI~qAe~EL~L 88 (121)
.+|.+.+||.|+..+.. |... ..++.+.|.+.+.. +-++++|.+|-.-|+=
T Consensus 62 ript~kGYR~yv~~~~~-~~~~--~~~~k~~i~~~~~~~~~~~~~~l~~aa~~Ls~ 114 (337)
T TIGR00331 62 RIPTDKGYRYYVDHLLK-VDSL--TEEEKRRIQNQFLQRRFYLEKVLQLAASLLSE 114 (337)
T ss_pred cCcChhHHHHHHHHhcc-cCCC--CHHHHHHHHHHHhhccCCHHHHHHHHHHHHHH
Confidence 58999999999998875 3221 22344556555543 5789999988776653
No 21
>PHA01735 hypothetical protein
Probab=35.05 E-value=23 Score=24.52 Aligned_cols=21 Identities=33% Similarity=0.518 Sum_probs=18.1
Q ss_pred ccccccccccCCChHHHHHHH
Q psy1160 5 QTTGLTGLAVSPDPKHSLTVL 25 (121)
Q Consensus 5 ~tTGltGL~V~p~pr~~L~~l 25 (121)
|+.||||.++..+|..+|..+
T Consensus 43 k~NdItgv~~~gspl~~La~~ 63 (76)
T PHA01735 43 KSNDITGVAVDGSPLAKLAGL 63 (76)
T ss_pred HHCCCceeeCCCCHHHHHHhc
Confidence 468999999999999888764
No 22
>PF02064 MAS20: MAS20 protein import receptor; InterPro: IPR002056 Virtually all mitochondrial precursors are imported via the same mechanism []: precursors first bind to receptors on the mitochondrial surface, then insert into the translocation channel in the outer membrane. Many outer-membrane proteins participate in the early stages of import, four of which (MAS20, MAS22, MAS37 and MAS70) are components of the receptor. MAS20, which forms a subcomplex with MAS22, seems to interact with most or all mitochondrial precursors, suggesting that the protein binds directly to mitochondrial targeting sequences. The MAS37 and MAS70 components also form a subcomplex, the two subcomplexes possibly binding via their trans- membrane (TM) regions - the TM region of MAS70 promotes oligomerisation of attatched protein domains and shares sequence similarity with the TM region of MAS20 []. MAS20 is also known as TOM20.; GO: 0006605 protein targeting, 0006886 intracellular protein transport, 0005742 mitochondrial outer membrane translocase complex; PDB: 3AX3_A 3AWR_B 2V1S_A 3AX5_C 3AX2_C 1OM2_A 2V1T_B.
Probab=32.44 E-value=27 Score=25.80 Aligned_cols=19 Identities=42% Similarity=0.751 Sum_probs=13.9
Q ss_pred ccccCCChHHHHHHHHHHHH
Q psy1160 11 GLAVSPDPKHSLTVLYNKIL 30 (121)
Q Consensus 11 GL~V~p~pr~~L~~lY~~~L 30 (121)
.|.|||+|.. |+.+|++||
T Consensus 89 Al~V~~qP~~-LL~i~q~tl 107 (121)
T PF02064_consen 89 ALKVCPQPAE-LLQIYQKTL 107 (121)
T ss_dssp HHHTSSSHHH-HHHHHHHHS
T ss_pred HHHhCCCHHH-HHHHHHhhC
Confidence 4789999984 556677665
No 23
>cd05513 Bromo_brd7_like Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene involved in nasopharyngeal carcinoma. The protein interacts with acetylated histone H3 via its bromodomain. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=31.97 E-value=47 Score=23.16 Aligned_cols=55 Identities=15% Similarity=0.263 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHhcCCCCchHHHHHHH-HHHHHHHHhhhccCHHHHHHHhcCchHH
Q psy1160 22 LTVLYNKILRLLAKMPDDAAYKKYTKE-IVDTRIKVVQQAKSIDEMETKIKSGQIE 76 (121)
Q Consensus 22 L~~lY~~~L~~L~~iP~~a~YR~~tE~-it~~Rl~iV~~~~di~~iE~~i~~GqIE 76 (121)
|..+...+|+.|...|.++.++.-|.. ..-.=.++|+.--|...|.++|..|.-.
T Consensus 2 l~~~l~~il~~l~~~~~~~~F~~PV~~~~~pdY~~vIk~PmDL~tI~~kl~~~~Y~ 57 (98)
T cd05513 2 LQKALEQLIRQLQRKDPHGFFAFPVTDFIAPGYSSIIKHPMDFSTMKEKIKNNDYQ 57 (98)
T ss_pred HHHHHHHHHHHHHcCCccccccCcCCccccccHHHHHcCccCHHHHHHHHhCCCCC
Confidence 566788999999999999999987643 2333357777777999999999988743
No 24
>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=29.57 E-value=43 Score=23.56 Aligned_cols=69 Identities=16% Similarity=0.288 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHHHHhcC-CCCchHHHHHHHH---HHHHHHHhhhccCHHHHHHHhcCchHHHHHHHHHHHHHHH
Q psy1160 20 HSLTVLYNKILRLLAKM-PDDAAYKKYTKEI---VDTRIKVVQQAKSIDEMETKIKSGQIEEVIIQAENELLLA 89 (121)
Q Consensus 20 ~~L~~lY~~~L~~L~~i-P~~a~YR~~tE~i---t~~Rl~iV~~~~di~~iE~~i~~GqIEElI~qAe~EL~L~ 89 (121)
+.|...+-.+|+.|.+. |.+..+|.-|... ...=.++|+.-=|...|.++|..|+-.- +.+-.+.+.|+
T Consensus 2 ~~l~~~~~~il~~l~~~~~~s~~F~~PV~~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s-~~ef~~D~~li 74 (108)
T cd05495 2 EELRQALMPTLEKLYKQDPESLPFRQPVDPKLLGIPDYFDIVKNPMDLSTIRRKLDTGQYQD-PWQYVDDVWLM 74 (108)
T ss_pred HHHHHHHHHHHHHHHHcCcccchhcCCCCccccCCCcHHHHhCCCCCHHHHHHHHhcCCCCC-HHHHHHHHHHH
Confidence 46788888999999888 9999999866432 1122477777779999999999887554 23334444443
No 25
>PF07904 Eaf7: Chromatin modification-related protein EAF7; InterPro: IPR012423 The Saccharomyces cerevisiae (Baker's yeast) member of this family P53911 from SWISSPROT is part of NuA4, the only essential histone acetyltransferase complex in S. cerevisiae involved in global histone acetylation []. ; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus, 0043189 H4/H2A histone acetyltransferase complex
Probab=29.39 E-value=37 Score=23.60 Aligned_cols=15 Identities=47% Similarity=0.755 Sum_probs=13.6
Q ss_pred HHHHHHHHHHhhcCC
Q psy1160 83 ENELLLARKMLNWKP 97 (121)
Q Consensus 83 e~EL~L~~kM~~wKp 97 (121)
++|++|.+-|..|||
T Consensus 1 e~Ei~Lf~a~~~~KP 15 (91)
T PF07904_consen 1 EDEIRLFRAMCRYKP 15 (91)
T ss_pred ChHHHHHHHHHhcCC
Confidence 579999999999998
No 26
>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=28.94 E-value=56 Score=22.34 Aligned_cols=52 Identities=19% Similarity=0.312 Sum_probs=39.8
Q ss_pred HHHHHHHHHHhcCCCCchHHHHHH-HHHHHHHHHhhhccCHHHHHHHhcCchH
Q psy1160 24 VLYNKILRLLAKMPDDAAYKKYTK-EIVDTRIKVVQQAKSIDEMETKIKSGQI 75 (121)
Q Consensus 24 ~lY~~~L~~L~~iP~~a~YR~~tE-~it~~Rl~iV~~~~di~~iE~~i~~GqI 75 (121)
..+.++|+.|.+.|.+..++.-+- .....=..+|+.--|...|.++|..|.-
T Consensus 3 ~~c~~il~~l~~~~~~~~F~~pv~~~~~p~Y~~iIk~PmdL~tI~~kl~~~~Y 55 (97)
T cd05503 3 ALCETILDEMEAHEDAWPFLEPVNTKLVPGYRKIIKKPMDFSTIREKLESGQY 55 (97)
T ss_pred HHHHHHHHHHHcCCCchhhcCCCCccccCCHHHHhCCCCCHHHHHHHHccCCC
Confidence 457889999999999998987552 1223335788777899999999998864
No 27
>cd05506 Bromo_plant1 Bromodomain, uncharacterized subfamily specific to plants. Might function as a global transcription factor. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=28.49 E-value=33 Score=23.27 Aligned_cols=55 Identities=11% Similarity=0.230 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHhcCCCCchHHHHHHHH---HHHHHHHhhhccCHHHHHHHhcCchHH
Q psy1160 22 LTVLYNKILRLLAKMPDDAAYKKYTKEI---VDTRIKVVQQAKSIDEMETKIKSGQIE 76 (121)
Q Consensus 22 L~~lY~~~L~~L~~iP~~a~YR~~tE~i---t~~Rl~iV~~~~di~~iE~~i~~GqIE 76 (121)
|+..+.++|+.|.+-|.+..++.-+..- ...=..+|..--|...|+++|..|+-.
T Consensus 1 ~~~~c~~il~~l~~~~~~~~F~~pv~~~~~~~p~Y~~~I~~P~dl~tI~~kL~~~~Y~ 58 (99)
T cd05506 1 VMKQCGTLLRKLMKHKWGWVFNAPVDVVALGLPDYFDIIKKPMDLGTVKKKLEKGEYS 58 (99)
T ss_pred CHHHHHHHHHHHHhCCCCccccCCCCccccCCCCHHHHHcCCCCHHHHHHHHhcCCCC
Confidence 3567889999999999999888776321 111246777777999999999988743
No 28
>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=28.47 E-value=33 Score=24.50 Aligned_cols=53 Identities=9% Similarity=0.090 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHhhhccCHHHHHHHhcCchHH
Q psy1160 22 LTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKIKSGQIE 76 (121)
Q Consensus 22 L~~lY~~~L~~L~~iP~~a~YR~~tE~it~~Rl~iV~~~~di~~iE~~i~~GqIE 76 (121)
|.. +.++|..|-.+|.+..+......+-.| .++|+.-=|...|+++|..|+-.
T Consensus 4 l~~-ce~il~~l~~~~~s~~f~~~p~~~pdY-~~iIk~PMDL~tI~~kL~~~~Y~ 56 (102)
T cd05501 4 LLK-CEFLLLKVYCMSKSGFFISKPYYIRDY-CQGIKEPMWLNKVKERLNERVYH 56 (102)
T ss_pred HHH-HHHHHHHHHhCcccccccCCCCCCCch-HHHcCCCCCHHHHHHHHcCCCCC
Confidence 444 899999998888887775544333333 55777667999999999999844
No 29
>PF09516 RE_CfrBI: CfrBI restriction endonuclease; InterPro: IPR019042 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry includes the CfrBI restriction endonuclease which recognises and cleaves C^CWWGG.
Probab=28.26 E-value=44 Score=28.50 Aligned_cols=25 Identities=16% Similarity=0.546 Sum_probs=20.7
Q ss_pred cCCCCchHHHHHHHHHHHHHHHhhh
Q psy1160 35 KMPDDAAYKKYTKEIVDTRIKVVQQ 59 (121)
Q Consensus 35 ~iP~~a~YR~~tE~it~~Rl~iV~~ 59 (121)
.+=..-.||..||.+|+.|++..-.
T Consensus 37 ~vL~GkdyR~~te~ltr~rl~~~N~ 61 (295)
T PF09516_consen 37 RVLQGKDYREFTEPLTRTRLNIINL 61 (295)
T ss_pred HHHcCccHHHHHhhhhHhHHHHHHH
Confidence 3446778999999999999998754
No 30
>KOG0890|consensus
Probab=28.10 E-value=64 Score=34.52 Aligned_cols=36 Identities=25% Similarity=0.552 Sum_probs=31.0
Q ss_pred HHHHHHHhcC------------chHHHHHHHHHHHHHHHHHHhhcCCC
Q psy1160 63 IDEMETKIKS------------GQIEEVIIQAENELLLARKMLNWKPW 98 (121)
Q Consensus 63 i~~iE~~i~~------------GqIEElI~qAe~EL~L~~kM~~wKpW 98 (121)
+..||++|.+ ||+..||+.|-+|=.|+..++-|=||
T Consensus 2334 i~~i~~rlqG~~~~~glPLSveGq~~~LI~eATseenL~~MYIGW~p~ 2381 (2382)
T KOG0890|consen 2334 IGRIRGRLQGAMKVDGLPLSVEGQASSLIEEATSEENLSEMYIGWMPF 2381 (2382)
T ss_pred HhHHHHHHhccCcCCCCccchhhHHHHHHHHhcCHHHHHHHHhhhhcc
Confidence 4556666665 99999999999999999999999887
No 31
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=26.61 E-value=3.1e+02 Score=21.68 Aligned_cols=33 Identities=18% Similarity=0.340 Sum_probs=28.2
Q ss_pred cCHHHHHHHhcCchHHHHHHHHHHHHHHHHHHhhc
Q psy1160 61 KSIDEMETKIKSGQIEEVIIQAENELLLARKMLNW 95 (121)
Q Consensus 61 ~di~~iE~~i~~GqIEElI~qAe~EL~L~~kM~~w 95 (121)
+|+-+||++| .+|+.=|++++.++.-.+....+
T Consensus 162 ~d~l~ie~~L--~~v~~eIe~~~~~~~~l~~~v~~ 194 (262)
T PF14257_consen 162 EDLLEIEREL--SRVRSEIEQLEGQLKYLDDRVDY 194 (262)
T ss_pred HHHHHHHHHH--HHHHHHHHHHHHHHHHHHHhhce
Confidence 4677999999 59999999999999988887764
No 32
>smart00657 RPOL4c DNA-directed RNA-polymerase II subunit.
Probab=25.99 E-value=1.3e+02 Score=21.36 Aligned_cols=58 Identities=21% Similarity=0.322 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHhhhc----------------------cCHHHHHHHhcCchHH
Q psy1160 19 KHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQA----------------------KSIDEMETKIKSGQIE 76 (121)
Q Consensus 19 r~~L~~lY~~~L~~L~~iP~~a~YR~~tE~it~~Rl~iV~~~----------------------~di~~iE~~i~~GqIE 76 (121)
...+..++.+||+-|..+|.. +.-|. +...+..+... .=|..+++++...+++
T Consensus 31 ~~~l~~v~~~tl~Yl~~~~~~----~~~e~-i~~~~~~L~~~~L~k~E~~~i~Nl~P~s~~E~~~lI~sl~~r~~ee~l~ 105 (118)
T smart00657 31 QQPLSTVMKKTLKYLSKFARF----KNREI-VRAVRTLLKSKKLHKFEIAQLGNLRPETAEEAQLLIPSLEERIDEEELE 105 (118)
T ss_pred cchHHHHHHHHHHHHHHcCCC----CCHHH-HHHHHHHHHhcCCCHHHHHHHhCCCCCCHHHHHHHhhhhhccCCHHHHH
Confidence 456888999999999988831 12222 22222222221 2467778888888888
Q ss_pred HHHHH
Q psy1160 77 EVIIQ 81 (121)
Q Consensus 77 ElI~q 81 (121)
+++..
T Consensus 106 ~iL~~ 110 (118)
T smart00657 106 ELLDD 110 (118)
T ss_pred HHHHH
Confidence 87764
No 33
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=25.45 E-value=4.4e+02 Score=23.84 Aligned_cols=53 Identities=13% Similarity=0.324 Sum_probs=36.0
Q ss_pred HHhcCCCCchHHHHHHHHHHHHHHHhhhccCHHHHHHHhcCchHHHHHHHHHHHH
Q psy1160 32 LLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKIKSGQIEEVIIQAENEL 86 (121)
Q Consensus 32 ~L~~iP~~a~YR~~tE~it~~Rl~iV~~~~di~~iE~~i~~GqIEElI~qAe~EL 86 (121)
.|...|....|.+.-+.+-+..-++-+...++..++.+| +..++-|...+.++
T Consensus 413 ~l~~~~~~e~i~~l~e~l~~l~~~l~~~~~~~~~~~~~~--~~~~~~i~~~~~~~ 465 (650)
T TIGR03185 413 KISTIPSEEQIAQLLEELGEAQNELFRSEAEIEELLRQL--ETLKEAIEALRKTL 465 (650)
T ss_pred HHhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHH
Confidence 344567777888888888777777777777777777766 35555555555554
No 34
>TIGR00985 3a0801s04tom mitochondrial import receptor subunit translocase of outer membrane 20 kDa subunit.
Probab=24.88 E-value=41 Score=25.78 Aligned_cols=19 Identities=37% Similarity=0.742 Sum_probs=13.6
Q ss_pred ccccCCChHHHHHHHHHHHH
Q psy1160 11 GLAVSPDPKHSLTVLYNKIL 30 (121)
Q Consensus 11 GL~V~p~pr~~L~~lY~~~L 30 (121)
.|.|||+|.. |+.+|++||
T Consensus 117 Al~Vc~qP~~-LL~iyq~tl 135 (148)
T TIGR00985 117 ALKVYPQPQQ-LLSIYQQTL 135 (148)
T ss_pred HHHhCCCHHH-HHHHHHhhC
Confidence 4789999975 555677665
No 35
>cd05492 Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family. ZMYND11 or BS69 is a ubiquitously expressed nuclear protein that has been shown to associate with chromatin. It interacts with chromatin remodeling factors and might play a role in chromatin remodeling and gene expression. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=23.97 E-value=63 Score=23.21 Aligned_cols=53 Identities=15% Similarity=0.323 Sum_probs=38.8
Q ss_pred HHHHHHHHHHhc-CCCCchHHHHHH----HH--HHHHHHHhhhccCHHHHHHHhcCchHH
Q psy1160 24 VLYNKILRLLAK-MPDDAAYKKYTK----EI--VDTRIKVVQQAKSIDEMETKIKSGQIE 76 (121)
Q Consensus 24 ~lY~~~L~~L~~-iP~~a~YR~~tE----~i--t~~Rl~iV~~~~di~~iE~~i~~GqIE 76 (121)
.+-.-++..++. +|.++-|+.-|- .. +..-..+|+.-=|...|+++|..|+-.
T Consensus 3 ~~L~f~~~~~k~~lp~~~~~~~~v~~~~~~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~ 62 (109)
T cd05492 3 CLLKFIVSRMKSWLPPDTTNRAIVLNKRGKATKLPKRRRLIHTHLDVADIQEKINSEKYT 62 (109)
T ss_pred hhHHHHHHHHHhcCcccccccccccccCchhccCCCHHHHhCCCCcHHHHHHHHHcCCCC
Confidence 344556677877 999999997763 22 334467787778999999999998743
No 36
>smart00297 BROMO bromo domain.
Probab=23.14 E-value=1.1e+02 Score=20.25 Aligned_cols=59 Identities=12% Similarity=0.215 Sum_probs=42.5
Q ss_pred ChHHHHHHHHHHHHHHHhcCCCCchHHHHHHHH-HHHHHHHhhhccCHHHHHHHhcCchH
Q psy1160 17 DPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEI-VDTRIKVVQQAKSIDEMETKIKSGQI 75 (121)
Q Consensus 17 ~pr~~L~~lY~~~L~~L~~iP~~a~YR~~tE~i-t~~Rl~iV~~~~di~~iE~~i~~GqI 75 (121)
.....|..++..+++.+.+-|-+..+++-+..- ...=.++|..-=|...|+++|..|.-
T Consensus 3 ~~~~~~~~~~~~i~~~~~~~~~~~~F~~~~~~~~~p~Y~~~i~~P~dl~~I~~kl~~~~Y 62 (107)
T smart00297 3 KLQKKLQSLLKAVLDKLDSHRLSWPFLKPVDRKEAPDYYDIIKKPMDLSTIKKKLENGKY 62 (107)
T ss_pred hhHHHHHHHHHHHHHHHHhCccchhhccCCChhhccCHHHHhcCCCCHHHHHHHHhcCCC
Confidence 345678899999999998778888888754322 11123556666699999999988864
No 37
>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=23.08 E-value=68 Score=22.31 Aligned_cols=57 Identities=19% Similarity=0.220 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHhcCCCCchHHHHHHH-HHHHHHHHhhhccCHHHHHHHhcCchHH
Q psy1160 20 HSLTVLYNKILRLLAKMPDDAAYKKYTKE-IVDTRIKVVQQAKSIDEMETKIKSGQIE 76 (121)
Q Consensus 20 ~~L~~lY~~~L~~L~~iP~~a~YR~~tE~-it~~Rl~iV~~~~di~~iE~~i~~GqIE 76 (121)
.++....-++|+.|...|-++.+++-|.. ....=..+|+.--|...|+++|..|...
T Consensus 2 ~~~~~~~~~il~~l~~~~~a~~F~~pV~~~~~p~Y~~iIk~PmDL~tI~~kl~~~~Y~ 59 (104)
T cd05507 2 RAWKKAILLVYRTLASHRYASVFLKPVTEDIAPGYHSVVYRPMDLSTIKKNIENGTIR 59 (104)
T ss_pred hHHHHHHHHHHHHHHcCCCCHhhcCCCCccccCCHHHHhCCCcCHHHHHHHHhcCCCC
Confidence 35666777888899999999999987753 1112247777777999999999998754
No 38
>PF01991 vATP-synt_E: ATP synthase (E/31 kDa) subunit; InterPro: IPR002842 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit E from the V1 and A1 complexes of V- and A-ATPases, respectively. Subunit E appears to form a tight interaction with subunit G in the F0 complex, which together may act as stators to prevent certain subunits from rotating with the central rotary element, much in the same way as the F0 complex subunit B does in F-ATPases []. In addition to its key role in stator structure, subunit E appears to have a role in mediating interactions with putative regulatory subunits []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 3LG8_A 2KK7_A 4DT0_A 2DM9_A 2DMA_A 3V6I_A 3K5B_A 3J0J_L 2KZ9_A.
Probab=22.89 E-value=3e+02 Score=20.16 Aligned_cols=39 Identities=15% Similarity=0.416 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHhcCCCCc-hHHHHHHHHHHHHHHHhh
Q psy1160 20 HSLTVLYNKILRLLAKMPDDA-AYKKYTKEIVDTRIKVVQ 58 (121)
Q Consensus 20 ~~L~~lY~~~L~~L~~iP~~a-~YR~~tE~it~~Rl~iV~ 58 (121)
..+..++..+...|..++.+. .|......+...-+..+.
T Consensus 72 ~~i~~v~~~~~~~L~~~~~~~~~Y~~~L~~li~~~~~~~~ 111 (198)
T PF01991_consen 72 EIIDEVFEEVKEKLKSFSKDPDDYKKFLKKLIEEAAEKLG 111 (198)
T ss_dssp HHHHHHHHHHHHHHHCTTCCC-THHHHHHHHHHHHHHCCT
T ss_pred HHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhc
Confidence 346678888888999999997 999999999988776554
No 39
>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=22.87 E-value=88 Score=22.10 Aligned_cols=54 Identities=17% Similarity=0.370 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHhcCCCCchHHHHHHH-HHHHHHHHhhhccCHHHHHHHhcCchH
Q psy1160 22 LTVLYNKILRLLAKMPDDAAYKKYTKE-IVDTRIKVVQQAKSIDEMETKIKSGQI 75 (121)
Q Consensus 22 L~~lY~~~L~~L~~iP~~a~YR~~tE~-it~~Rl~iV~~~~di~~iE~~i~~GqI 75 (121)
|..+..++++.|.+.|.+..++.-+.. ....=..+|+.--|...|++++..|.-
T Consensus 1 ~~~~l~~ii~~l~~~~~s~~F~~pv~~~~~p~Y~~~I~~PmdL~tI~~kl~~~~Y 55 (112)
T cd05511 1 LSFILDEIVNELKNLPDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKY 55 (112)
T ss_pred CHHHHHHHHHHHHhCCCchhhcCCCChhhcccHHHHhcCCCCHHHHHHHHhcCCC
Confidence 456778899999999999999887742 122224667666688888888887764
No 40
>PRK03963 V-type ATP synthase subunit E; Provisional
Probab=22.83 E-value=2.1e+02 Score=21.46 Aligned_cols=38 Identities=16% Similarity=0.343 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHhh
Q psy1160 20 HSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQ 58 (121)
Q Consensus 20 ~~L~~lY~~~L~~L~~iP~~a~YR~~tE~it~~Rl~iV~ 58 (121)
..+..+|....+.|..+|.+ .|+..+..++..=+..+.
T Consensus 81 el~~~v~~~a~~~l~~~~~~-~Y~~~l~~li~~a~~~l~ 118 (198)
T PRK03963 81 ELISEVLEAVRERLAELPED-EYFETLKALTKEAVEELG 118 (198)
T ss_pred HHHHHHHHHHHHHHHhhhhh-hHHHHHHHHHHHHHHHhC
Confidence 45667899999999999988 999999999887666554
No 41
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=22.57 E-value=2.6e+02 Score=24.05 Aligned_cols=63 Identities=19% Similarity=0.294 Sum_probs=46.0
Q ss_pred HHHHHHHHHh-c-CCCCchHHHHHHHHHHHHHHHhhhc------------------cCHHHHHHHhcCchHHHHHHH---
Q psy1160 25 LYNKILRLLA-K-MPDDAAYKKYTKEIVDTRIKVVQQA------------------KSIDEMETKIKSGQIEEVIIQ--- 81 (121)
Q Consensus 25 lY~~~L~~L~-~-iP~~a~YR~~tE~it~~Rl~iV~~~------------------~di~~iE~~i~~GqIEElI~q--- 81 (121)
=+.|++-.|+ . =+..-.||.+.|++-+++-+|...- +.|..=|+.|+ .|+|.++.+
T Consensus 199 EvERV~PqLKv~~~~d~kDWR~hleqm~~~~~~I~~~~~~~~~~L~kl~~~i~~~lekI~sREk~iN-~qle~l~~eYr~ 277 (359)
T PF10498_consen 199 EVERVLPQLKVTIRADAKDWRSHLEQMKQHKKSIESALPETKSQLDKLQQDISKTLEKIESREKYIN-NQLEPLIQEYRS 277 (359)
T ss_pred HHHHHhhhheeeccCCcchHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHhHHHHHHHHH
Confidence 3566777775 2 3455689999999999999988764 35667788888 799998876
Q ss_pred HHHHHHH
Q psy1160 82 AENELLL 88 (121)
Q Consensus 82 Ae~EL~L 88 (121)
+.++|+=
T Consensus 278 ~~~~ls~ 284 (359)
T PF10498_consen 278 AQDELSE 284 (359)
T ss_pred HHHHHHH
Confidence 4445443
No 42
>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria. Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.
Probab=22.56 E-value=2.7e+02 Score=24.53 Aligned_cols=46 Identities=22% Similarity=0.361 Sum_probs=37.4
Q ss_pred CChHH----HHHHHHHHHHHHHh--cCCCCchHHHHHHHHHHHHHHHhhhcc
Q psy1160 16 PDPKH----SLTVLYNKILRLLA--KMPDDAAYKKYTKEIVDTRIKVVQQAK 61 (121)
Q Consensus 16 p~pr~----~L~~lY~~~L~~L~--~iP~~a~YR~~tE~it~~Rl~iV~~~~ 61 (121)
..|.+ .+..+|.++.+-|. ..|+..+.|.-++..+..-..-+.+..
T Consensus 88 e~~lh~~~g~~~~~Yr~l~~nL~t~~~p~G~al~~ild~wi~~~~~~~~~~~ 139 (416)
T PF10923_consen 88 ERPLHGTGGQLEALYRELMRNLSTKTKPEGGALRSILDRWIYNLEEEVAAEG 139 (416)
T ss_pred CcccccccccHHHHHHHHHHhcCCCCCCCchHHHHHHHHHHHHHHHHHHhcc
Confidence 45777 89999999999995 788888999999998877666565554
No 43
>PF10750 DUF2536: Protein of unknown function (DUF2536); InterPro: IPR019686 This entry represents proteins with unknown function appears to be restricted to Bacillus spp.
Probab=22.43 E-value=52 Score=22.47 Aligned_cols=16 Identities=44% Similarity=0.653 Sum_probs=13.2
Q ss_pred ccCHHHHHHHhcCchHH
Q psy1160 60 AKSIDEMETKIKSGQIE 76 (121)
Q Consensus 60 ~~di~~iE~~i~~GqIE 76 (121)
..|..+||.+|+ .|||
T Consensus 17 A~~l~~LEkkIn-eqIe 32 (68)
T PF10750_consen 17 ANDLQTLEKKIN-EQIE 32 (68)
T ss_pred cchHHHHHHHHH-HHHh
Confidence 368999999998 6776
No 44
>KOG0892|consensus
Probab=22.22 E-value=42 Score=36.27 Aligned_cols=26 Identities=27% Similarity=0.469 Sum_probs=25.3
Q ss_pred chHHHHHHHHHHHHHHHHHHhhcCCC
Q psy1160 73 GQIEEVIIQAENELLLARKMLNWKPW 98 (121)
Q Consensus 73 GqIEElI~qAe~EL~L~~kM~~wKpW 98 (121)
|||++||+||-|==.|....--|+||
T Consensus 2780 ~qv~~LIqqA~dpsnLs~~fpGW~a~ 2805 (2806)
T KOG0892|consen 2780 AQVQELIQQATDPSNLSLMFPGWSAF 2805 (2806)
T ss_pred HHHHHHHHHhcCchhhhhhcCCCcCc
Confidence 89999999999999999999999999
No 45
>COG2882 FliJ Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]
Probab=22.13 E-value=1.1e+02 Score=23.37 Aligned_cols=81 Identities=19% Similarity=0.196 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHH----hcCCCCchHHHHHHHHHHHHHHHhhhccCHHHHHHHhcCchHHHHHHHHHHHHH---------
Q psy1160 21 SLTVLYNKILRLL----AKMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKIKSGQIEEVIIQAENELL--------- 87 (121)
Q Consensus 21 ~L~~lY~~~L~~L----~~iP~~a~YR~~tE~it~~Rl~iV~~~~di~~iE~~i~~GqIEElI~qAe~EL~--------- 87 (121)
.+..-|+++.+.. .++=.-+.||.--++-.+.++...=+.......+.-|. +.|..|.+..+.++
T Consensus 20 ~a~~el~k~~~~~~~~~~qL~~l~~y~~ey~q~~~~k~~~G~s~~q~~nyq~fI~--~Le~~I~q~~~~~~~~~~~ve~~ 97 (148)
T COG2882 20 EAAIELSKIRSEKENAEEQLKMLSGYRNEYEQNLNEKLKSGVSAAQWQNYQQFIS--QLEVAIDQQQSQLSKLRKQVEQK 97 (148)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444 24555577777666555555544434444456666663 66777777776666
Q ss_pred ---HHHHHhhcCCCCcccC
Q psy1160 88 ---LARKMLNWKPWEPLLK 103 (121)
Q Consensus 88 ---L~~kM~~wKpWE~L~e 103 (121)
+..++.+-|.|+-|.+
T Consensus 98 r~~w~ek~~~~k~~e~L~e 116 (148)
T COG2882 98 REIWQEKQIELKALEKLKE 116 (148)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5566666677776543
No 46
>PRK03922 hypothetical protein; Provisional
Probab=21.60 E-value=1.1e+02 Score=22.72 Aligned_cols=33 Identities=24% Similarity=0.383 Sum_probs=27.5
Q ss_pred ccccccccc------CCChHHHHHHHHHHHHHHHhcCCC
Q psy1160 6 TTGLTGLAV------SPDPKHSLTVLYNKILRLLAKMPD 38 (121)
Q Consensus 6 tTGltGL~V------~p~pr~~L~~lY~~~L~~L~~iP~ 38 (121)
.|+|+||-. ..++-++-++.=..+=+.|+.+|=
T Consensus 67 ~taLVgL~lemkVFnAes~EHA~RIAK~eIG~aL~dvPL 105 (113)
T PRK03922 67 DTALVGLLLEMKVFNAESEEHASRIAKSEIGKALRDIPL 105 (113)
T ss_pred ccceEEEEEEEEEeecCCHHHHHHHHHHHHhhHHhcCCc
Confidence 589999987 788888888888888888888883
No 47
>PF08336 P4Ha_N: Prolyl 4-Hydroxylase alpha-subunit, N-terminal region; InterPro: IPR013547 The members found in this entry are eukaryotic proteins, and include all three isoforms of the prolyl 4-hydroxylase alpha subunit. This enzyme (1.14.11.2 from EC) is important in the post-translational modification of collagen, as it catalyses the formation of 4-hydroxyproline. In vertebrates, the complete enzyme is an alpha2-beta2 tetramer; the beta-subunit is identical to protein disulphide isomerase [, , , ]. The function of the N-terminal region featured in this family does not seem to be known. ; GO: 0004656 procollagen-proline 4-dioxygenase activity, 0016702 oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen, 0055114 oxidation-reduction process, 0005783 endoplasmic reticulum
Probab=21.34 E-value=82 Score=22.62 Aligned_cols=62 Identities=19% Similarity=0.469 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHhhhcc-CHHHHHHHhcCchHHHHHHHHHHHHHHHHHHhh-cCCCCcccCCCC
Q psy1160 43 KKYTKEIVDTRIKVVQQAK-SIDEMETKIKSGQIEEVIIQAENELLLARKMLN-WKPWEPLLKTSP 106 (121)
Q Consensus 43 R~~tE~it~~Rl~iV~~~~-di~~iE~~i~~GqIEElI~qAe~EL~L~~kM~~-wKpWE~L~e~pp 106 (121)
+.|++++ +.|++.++.-- .++..-++ ..+..|+.+.--=+-.+|++-|.. |.-|+.+.+.++
T Consensus 21 ~~Yi~~~-~~kl~~l~~~~~~~~~~~~~-~~~d~e~yl~nPlnaF~LIrRl~~dW~~~~~~~~~~~ 84 (134)
T PF08336_consen 21 RNYIEEL-QEKLDTLKRFLDEMKREHEK-AKSDPEEYLSNPLNAFSLIRRLHQDWPKWEKLMEQPV 84 (134)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHHH-hhcchhhhhhcHHHHHHHHHHHHHhhhhHHHHHHHhh
Confidence 4455544 34455444432 22222222 335778888888888999998876 999998888773
No 48
>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=20.96 E-value=2e+02 Score=20.42 Aligned_cols=69 Identities=13% Similarity=0.168 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHhcC-CCCchHHHHHHH-HHHHHHHHhhhccCHHHHHHHhcCchHHHHHHHHHHHHHHH
Q psy1160 20 HSLTVLYNKILRLLAKM-PDDAAYKKYTKE-IVDTRIKVVQQAKSIDEMETKIKSGQIEEVIIQAENELLLA 89 (121)
Q Consensus 20 ~~L~~lY~~~L~~L~~i-P~~a~YR~~tE~-it~~Rl~iV~~~~di~~iE~~i~~GqIEElI~qAe~EL~L~ 89 (121)
+.|...+.++|+.|.+. |.+..++.-|.. -...=..+|+.--|...|+++|..|+-.- +.+-.+.+.|+
T Consensus 6 ~~~~~~~~~il~~l~~~~~~s~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s-~~ef~~D~~Li 76 (112)
T cd05510 6 EEFYESLDKVLNELKTYTEHSTPFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKS-KAEFVDDLNLI 76 (112)
T ss_pred HHHHHHHHHHHHHHHhcCccccchhcCCChhhcCCHHHHhcCccCHHHHHHHHhCCCCCC-HHHHHHHHHHH
Confidence 56777888999999888 888888875532 11122567777779999999999887543 23334444443
No 49
>PF13422 DUF4110: Domain of unknown function (DUF4110)
Probab=20.50 E-value=84 Score=22.34 Aligned_cols=69 Identities=22% Similarity=0.323 Sum_probs=39.6
Q ss_pred ccCCChHHHHHHHHHHHHHHHhc----CCCCc----hHHHHHHHHHHHHHHHhhhccCHHHHHHHhcC-chHHHHHHHHH
Q psy1160 13 AVSPDPKHSLTVLYNKILRLLAK----MPDDA----AYKKYTKEIVDTRIKVVQQAKSIDEMETKIKS-GQIEEVIIQAE 83 (121)
Q Consensus 13 ~V~p~pr~~L~~lY~~~L~~L~~----iP~~a----~YR~~tE~it~~Rl~iV~~~~di~~iE~~i~~-GqIEElI~qAe 83 (121)
--||-|-+.|...|.+|-.--.. -..++ --|+.-=.++..|..-+ -+-+.+||+.... |-|++++..++
T Consensus 9 ~ptP~p~EsLr~Ff~RT~~~W~~~a~~~~~~~~~~KeLrk~aF~lAe~Ry~E~--k~~l~~le~~~ee~~~~ee~~~~~~ 86 (96)
T PF13422_consen 9 LPTPKPFESLRDFFARTSEYWQEWAIESNRDAHRGKELRKDAFDLAEERYWEL--KPELDELEDLEEEQAGIEEVVSRDK 86 (96)
T ss_pred CCCCCCCCcHHHHHHHhHHHHHHHHHHccccccchHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHhccchHHhhhcc
Confidence 34788999999999999654432 12211 12222333333333333 2456667766665 77777776543
No 50
>PF14182 YgaB: YgaB-like protein
Probab=20.44 E-value=1.7e+02 Score=20.47 Aligned_cols=26 Identities=31% Similarity=0.396 Sum_probs=16.7
Q ss_pred hccCHHHHHHHhcCchHHHHHHHHHHH
Q psy1160 59 QAKSIDEMETKIKSGQIEEVIIQAENE 85 (121)
Q Consensus 59 ~~~di~~iE~~i~~GqIEElI~qAe~E 85 (121)
...+.+.|.+.+. +|.||||...+++
T Consensus 52 mkk~Lk~Iq~~Fe-~QTeeVI~sy~~~ 77 (79)
T PF14182_consen 52 MKKELKEIQRVFE-KQTEEVIRSYQSE 77 (79)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHh
Confidence 3345666666666 7777777766553
Done!