Query 031104
Match_columns 165
No_of_seqs 163 out of 1135
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 09:17:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031104.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031104hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00199 high mobility group p 99.9 1.4E-24 3E-29 155.2 11.0 85 41-125 8-93 (94)
2 cd01389 MATA_HMG-box MATA_HMG- 99.8 2.2E-20 4.7E-25 128.3 7.6 71 55-126 1-71 (77)
3 PF00505 HMG_box: HMG (high mo 99.8 1.3E-19 2.8E-24 120.9 8.9 69 56-125 1-69 (69)
4 cd01388 SOX-TCF_HMG-box SOX-TC 99.8 7.9E-20 1.7E-24 124.1 7.8 69 56-125 2-70 (72)
5 cd01390 HMGB-UBF_HMG-box HMGB- 99.8 3.8E-19 8.3E-24 117.4 8.8 65 56-121 1-65 (66)
6 PF09011 HMG_box_2: HMG-box do 99.8 3.6E-19 7.9E-24 121.1 8.9 72 53-125 1-73 (73)
7 smart00398 HMG high mobility g 99.8 5.1E-19 1.1E-23 117.5 9.1 70 55-125 1-70 (70)
8 COG5648 NHP6B Chromatin-associ 99.8 6.6E-19 1.4E-23 140.7 8.2 89 44-133 59-147 (211)
9 KOG0381 HMG box-containing pro 99.8 1.1E-17 2.3E-22 118.8 10.7 76 52-128 17-95 (96)
10 cd00084 HMG-box High Mobility 99.7 3E-17 6.5E-22 107.7 8.8 65 56-121 1-65 (66)
11 KOG0526 Nucleosome-binding fac 99.7 1.2E-16 2.5E-21 141.9 6.8 77 45-126 525-601 (615)
12 KOG0527 HMG-box transcription 99.6 8.3E-16 1.8E-20 131.5 6.1 77 49-126 56-132 (331)
13 KOG4715 SWI/SNF-related matrix 99.3 3.1E-12 6.7E-17 108.0 7.7 79 49-128 58-136 (410)
14 KOG3248 Transcription factor T 99.1 1.1E-10 2.3E-15 99.5 5.6 77 54-131 190-266 (421)
15 KOG0528 HMG-box transcription 98.9 6.1E-10 1.3E-14 98.5 2.0 78 49-127 319-396 (511)
16 KOG2746 HMG-box transcription 98.3 7.5E-07 1.6E-11 81.7 4.7 75 45-120 171-247 (683)
17 PF14887 HMG_box_5: HMG (high 98.2 9.1E-06 2E-10 56.0 7.7 75 55-131 3-77 (85)
18 PF04690 YABBY: YABBY protein; 97.1 0.0013 2.9E-08 51.8 5.5 49 51-100 117-165 (170)
19 PF06382 DUF1074: Protein of u 96.9 0.0041 8.8E-08 49.2 6.8 49 60-113 83-131 (183)
20 COG5648 NHP6B Chromatin-associ 96.8 0.001 2.3E-08 53.8 3.2 68 54-122 142-209 (211)
21 PF08073 CHDNT: CHDNT (NUC034) 96.1 0.006 1.3E-07 39.5 2.9 40 60-100 13-52 (55)
22 PF06244 DUF1014: Protein of u 91.8 0.25 5.4E-06 37.0 3.8 48 53-101 69-117 (122)
23 PF04769 MAT_Alpha1: Mating-ty 90.4 1 2.2E-05 36.4 6.4 53 52-111 40-92 (201)
24 KOG3223 Uncharacterized conser 89.0 0.34 7.3E-06 39.1 2.6 55 52-110 160-215 (221)
25 TIGR03481 HpnM hopanoid biosyn 87.2 1.6 3.4E-05 35.0 5.4 45 83-127 65-111 (198)
26 PRK15117 ABC transporter perip 83.0 3.4 7.3E-05 33.4 5.6 48 79-127 66-115 (211)
27 PF05494 Tol_Tol_Ttg2: Toluene 70.7 6.4 0.00014 30.2 3.8 47 79-126 36-84 (170)
28 PHA02608 67 prohead core prote 63.7 11 0.00024 26.1 3.3 24 97-120 12-35 (80)
29 PF13875 DUF4202: Domain of un 62.0 11 0.00024 30.1 3.6 40 62-105 131-170 (185)
30 PF15243 ANAPC15: Anaphase-pro 59.0 6.8 0.00015 27.9 1.7 28 93-126 15-42 (92)
31 COG2854 Ttg2D ABC-type transpo 56.7 18 0.0004 29.3 4.1 42 89-130 78-120 (202)
32 PF11304 DUF3106: Protein of u 49.4 64 0.0014 23.2 5.6 21 89-109 14-34 (107)
33 PF12881 NUT_N: NUT protein N 48.9 45 0.00097 28.9 5.4 52 73-126 242-295 (328)
34 PF01352 KRAB: KRAB box; Inte 38.8 23 0.00051 21.2 1.6 28 84-111 3-31 (41)
35 PF06945 DUF1289: Protein of u 38.3 42 0.00091 20.9 2.8 26 83-113 23-48 (51)
36 PRK10363 cpxP periplasmic repr 36.7 85 0.0018 24.7 4.8 41 85-126 111-151 (166)
37 PRK09706 transcriptional repre 36.0 90 0.002 22.8 4.8 44 86-129 87-130 (135)
38 PRK12750 cpxP periplasmic repr 33.9 1.1E+02 0.0024 23.9 5.2 35 87-121 126-160 (170)
39 PRK12751 cpxP periplasmic stre 32.5 95 0.0021 24.2 4.5 34 86-119 118-151 (162)
40 PF09164 VitD-bind_III: Vitami 29.7 1.8E+02 0.0038 19.6 4.8 33 61-94 9-41 (68)
41 KOG1834 Calsyntenin [Extracell 28.7 29 0.00064 33.2 1.3 45 118-162 881-926 (952)
42 KOG1610 Corticosteroid 11-beta 27.0 1.7E+02 0.0037 25.5 5.5 58 65-125 187-256 (322)
43 PF15076 DUF4543: Domain of un 25.2 59 0.0013 21.9 1.9 25 46-70 22-46 (75)
44 PRK10236 hypothetical protein; 25.0 67 0.0015 26.7 2.6 27 86-112 117-143 (237)
45 cd07081 ALDH_F20_ACDH_EutE-lik 23.7 1.9E+02 0.0041 25.9 5.4 42 86-127 6-47 (439)
46 cd07133 ALDH_CALDH_CalB Conife 20.7 2.5E+02 0.0055 24.8 5.6 42 85-126 4-45 (434)
47 COG4281 ACB Acyl-CoA-binding p 20.7 1E+02 0.0023 21.4 2.4 61 55-117 16-85 (87)
48 KOG1827 Chromatin remodeling c 20.2 8.3 0.00018 36.3 -4.0 44 59-103 552-595 (629)
No 1
>PTZ00199 high mobility group protein; Provisional
Probab=99.92 E-value=1.4e-24 Score=155.16 Aligned_cols=85 Identities=44% Similarity=0.674 Sum_probs=78.8
Q ss_pred ccccccccCCCCCCCCCCCCChHHHHHHHHHHHHHHhCCCCc-cHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHH
Q 031104 41 KRTKNVKSAKKDPNKPKRPPSAFFVFLEEFRKVYKQEHPNVK-AVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEK 119 (165)
Q Consensus 41 k~~kk~~k~~kdp~~PKRP~sAY~lF~~e~r~~ik~~~p~~~-~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~ 119 (165)
+.+++++++.+||++|+||+||||||++++|..|..+||++. ++.+|+++||++|+.||+++|.+|.++|..++.+|..
T Consensus 8 ~~~k~~~k~~kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls~eeK~~y~~~A~~dk~rY~~ 87 (94)
T PTZ00199 8 VLVRKNKRKKKDPNAPKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDKVRYEK 87 (94)
T ss_pred ccccccCCCCCCCCCCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHH
Confidence 444566677899999999999999999999999999999984 4899999999999999999999999999999999999
Q ss_pred HHHHHh
Q 031104 120 LMTAYN 125 (165)
Q Consensus 120 em~~Y~ 125 (165)
+|.+|+
T Consensus 88 e~~~Y~ 93 (94)
T PTZ00199 88 EKAEYA 93 (94)
T ss_pred HHHHHh
Confidence 999995
No 2
>cd01389 MATA_HMG-box MATA_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include the fungal mating type gene products MC, MATA1 and Ste11.
Probab=99.83 E-value=2.2e-20 Score=128.28 Aligned_cols=71 Identities=23% Similarity=0.380 Sum_probs=68.5
Q ss_pred CCCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 031104 55 KPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNK 126 (165)
Q Consensus 55 ~PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y~~ 126 (165)
.|+||+||||||+++.|..|+.+||++ ++.+|+++||.+|+.|++++|++|..+|..++.+|..++++|+-
T Consensus 1 ~~kRP~naf~lf~~~~r~~~~~~~p~~-~~~eisk~~g~~Wk~ls~eeK~~y~~~A~~~k~~~~~~~p~Yky 71 (77)
T cd01389 1 KIPRPRNAFILYRQDKHAQLKTENPGL-TNNEISRIIGRMWRSESPEVKAYYKELAEEEKERHAREYPDYKY 71 (77)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHCCCC-CHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHCCCCcc
Confidence 489999999999999999999999999 79999999999999999999999999999999999999999964
No 3
>PF00505 HMG_box: HMG (high mobility group) box; InterPro: IPR000910 High mobility group (HMG or HMGB) proteins are a family of relatively low molecular weight non-histone components in chromatin. HMG1 (also called HMG-T in fish) and HMG2 are two highly related proteins that bind single-stranded DNA preferentially and unwind double-stranded DNA. Although they have no sequence specificity, they have a high affinity for bent or distorted DNA, and bend linear DNA. HMG1 and HMG2 contain two DNA-binding HMG-box domains (A and B) that show structural and functional differences, and have a long acidic C-terminal domain rich in aspartic and glutamic acid residues. The acidic tail modulates the affinity of the tandem HMG boxes in HMG1 and 2 for a variety of DNA targets. HMG1 and 2 appear to play important architectural roles in the assembly of nucleoprotein complexes in a variety of biological processes, for example V(D)J recombination, the initiation of transcription, and DNA repair []. The profile in this entry describing the HMG-domains is much more general than the signature. In addition to the HMG1 and HMG2 proteins, HMG-domains occur in single or multiple copies in the following protein classes; the SOX family of transcription factors; SRY sex determining region Y protein and related proteins []; LEF1 lymphoid enhancer binding factor 1 []; SSRP recombination signal recognition protein; MTF1 mitochondrial transcription factor 1; UBF1/2 nucleolar transcription factors; Abf2 yeast ARS-binding factor []; and Saccharomyces cerevisiae transcription factors Ixr1, Rox1, Nhp6a, Nhp6b and Spp41.; GO: 0003677 DNA binding; PDB: 1I11_A 1J3C_A 1J3D_A 1WZ6_A 1WGF_A 2D7L_A 1GT0_D 3U2B_C 2CRJ_A 2CS1_A ....
Probab=99.81 E-value=1.3e-19 Score=120.85 Aligned_cols=69 Identities=41% Similarity=0.755 Sum_probs=65.4
Q ss_pred CCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHHHh
Q 031104 56 PKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYN 125 (165)
Q Consensus 56 PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y~ 125 (165)
|+||+|||+||+.+++..|+.+||++ ++.+|+++||.+|++||+++|.+|...|..++.+|..+|..|+
T Consensus 1 PkrP~~af~lf~~~~~~~~k~~~p~~-~~~~i~~~~~~~W~~l~~~eK~~y~~~a~~~~~~y~~~~~~y~ 69 (69)
T PF00505_consen 1 PKRPPNAFMLFCKEKRAKLKEENPDL-SNKEISKILAQMWKNLSEEEKAPYKEEAEEEKERYEKEMPEYK 69 (69)
T ss_dssp SSSS--HHHHHHHHHHHHHHHHSTTS-THHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcCCCCHHHHHHHHHHHHHHHHhccc-ccccchhhHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 89999999999999999999999999 6999999999999999999999999999999999999999995
No 4
>cd01388 SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and transcription factor-like proteins, TCF-1, -3, -4, and LEF-1. They appear to bind the minor groove of the A/T C A A A G/C-motif.
Probab=99.81 E-value=7.9e-20 Score=124.06 Aligned_cols=69 Identities=36% Similarity=0.523 Sum_probs=66.8
Q ss_pred CCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHHHh
Q 031104 56 PKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYN 125 (165)
Q Consensus 56 PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y~ 125 (165)
.+||+||||||++++|..|+.+||++ ++.+|+++||.+|+.||+++|++|.++|..++++|..+++.|+
T Consensus 2 iKrP~naf~~F~~~~r~~~~~~~p~~-~~~eisk~l~~~Wk~ls~~eK~~y~~~a~~~k~~y~~~~p~y~ 70 (72)
T cd01388 2 IKRPMNAFMLFSKRHRRKVLQEYPLK-ENRAISKILGDRWKALSNEEKQPYYEEAKKLKELHMKLYPDYK 70 (72)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHCcCCC
Confidence 58999999999999999999999999 7999999999999999999999999999999999999999985
No 5
>cd01390 HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions.
Probab=99.80 E-value=3.8e-19 Score=117.42 Aligned_cols=65 Identities=51% Similarity=0.787 Sum_probs=63.3
Q ss_pred CCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHH
Q 031104 56 PKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLM 121 (165)
Q Consensus 56 PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em 121 (165)
|+||+|||+||++++|..++..||++ ++.+|++.||.+|++||+++|.+|.+.|..++.+|..+|
T Consensus 1 Pkrp~saf~~f~~~~r~~~~~~~p~~-~~~~i~~~~~~~W~~ls~~eK~~y~~~a~~~~~~y~~e~ 65 (66)
T cd01390 1 PKRPLSAYFLFSQEQRPKLKKENPDA-SVTEVTKILGEKWKELSEEEKKKYEEKAEKDKERYEKEM 65 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcCC-CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhh
Confidence 89999999999999999999999999 799999999999999999999999999999999999887
No 6
>PF09011 HMG_box_2: HMG-box domain; InterPro: IPR015101 This domain is predominantly found in Maelstrom homologue proteins. It has no known function. ; GO: 0005634 nucleus; PDB: 2EQZ_A 1V64_A 2CTO_A 1H5P_A 3TQ6_A 3FGH_A 3TMM_A 1J3X_A 2YRQ_A 1AAB_A ....
Probab=99.80 E-value=3.6e-19 Score=121.10 Aligned_cols=72 Identities=44% Similarity=0.762 Sum_probs=63.4
Q ss_pred CCCCCCCCChHHHHHHHHHHHHHHh-CCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHHHh
Q 031104 53 PNKPKRPPSAFFVFLEEFRKVYKQE-HPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYN 125 (165)
Q Consensus 53 p~~PKRP~sAY~lF~~e~r~~ik~~-~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y~ 125 (165)
|++||||+|||+||+.+++..++.. ++.. ++.++++.|+.+|++||+++|.+|.++|..++.+|..+|..|+
T Consensus 1 p~kpK~~~say~lF~~~~~~~~k~~G~~~~-~~~e~~k~~~~~Wk~Ls~~EK~~Y~~~A~~~k~~y~~e~~~~~ 73 (73)
T PF09011_consen 1 PKKPKRPPSAYNLFMKEMRKEVKEEGGQKQ-SFREVMKEISERWKSLSEEEKEPYEERAKEDKERYEREMKEWN 73 (73)
T ss_dssp SSS--SSSSHHHHHHHHHHHHHHHHT-T-S-SHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred CcCCCCCCCHHHHHHHHHHHHHHHhcccCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 7899999999999999999999988 6666 6899999999999999999999999999999999999999995
No 7
>smart00398 HMG high mobility group.
Probab=99.79 E-value=5.1e-19 Score=117.47 Aligned_cols=70 Identities=47% Similarity=0.772 Sum_probs=67.6
Q ss_pred CCCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHHHh
Q 031104 55 KPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYN 125 (165)
Q Consensus 55 ~PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y~ 125 (165)
+|+||+|||+||++++|..+..+||++ ++.+|+++||.+|+.||+++|.+|.++|..++.+|..+|..|+
T Consensus 1 ~pkrp~~~y~~f~~~~r~~~~~~~~~~-~~~~i~~~~~~~W~~l~~~ek~~y~~~a~~~~~~y~~~~~~y~ 70 (70)
T smart00398 1 KPKRPMSAFMLFSQENRAKIKAENPDL-SNAEISKKLGERWKLLSEEEKAPYEEKAKKDKERYEEEMPEYK 70 (70)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHHCcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 589999999999999999999999999 6999999999999999999999999999999999999999984
No 8
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=99.78 E-value=6.6e-19 Score=140.74 Aligned_cols=89 Identities=40% Similarity=0.663 Sum_probs=83.3
Q ss_pred cccccCCCCCCCCCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHH
Q 031104 44 KNVKSAKKDPNKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTA 123 (165)
Q Consensus 44 kk~~k~~kdp~~PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~ 123 (165)
+..+++.+|||.|+||+||||+|++.+|.+|...+|.+ .|++|+++||++|++|++++|.+|...|..++++|..++..
T Consensus 59 k~~~r~k~dpN~PKRp~sayf~y~~~~R~ei~~~~p~l-~~~e~~k~~~e~WK~Ltd~eke~y~k~~~~~~erYq~ek~~ 137 (211)
T COG5648 59 KRLVRKKKDPNGPKRPLSAYFLYSAENRDEIRKENPKL-TFGEVGKLLSEKWKELTDEEKEPYYKEANSDRERYQREKEE 137 (211)
T ss_pred HHHHHHhcCCCCCCCchhHHHHHHHHHHHHHHHhCCCC-ChHHHHHHHHHHHHhccHhhhhhHHHHHhhHHHHHHHHHHh
Confidence 35567788999999999999999999999999999999 69999999999999999999999999999999999999999
Q ss_pred HhhcCCCCcc
Q 031104 124 YNKKQESTED 133 (165)
Q Consensus 124 Y~~k~~~~~~ 133 (165)
|..++.....
T Consensus 138 y~~k~~~~~~ 147 (211)
T COG5648 138 YNKKLPNKAP 147 (211)
T ss_pred hhcccCCCCC
Confidence 9998877653
No 9
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=99.75 E-value=1.1e-17 Score=118.76 Aligned_cols=76 Identities=49% Similarity=0.779 Sum_probs=72.4
Q ss_pred CC--CCCCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHH-HHhhcC
Q 031104 52 DP--NKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMT-AYNKKQ 128 (165)
Q Consensus 52 dp--~~PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~-~Y~~k~ 128 (165)
+| +.|+||+|||++|+.+.|..++.+||++ ++.+|+++||++|++|++++|.+|...|..++.+|..+|. .|+..+
T Consensus 17 ~p~~~~pkrp~sa~~~f~~~~~~~~k~~~p~~-~~~~v~k~~g~~W~~l~~~~k~~y~~ka~~~k~~Y~~~~~~~~~~~~ 95 (96)
T KOG0381|consen 17 DPNAQAPKRPLSAFFLFSSEQRSKIKAENPGL-SVGEVAKALGEMWKNLAEEEKQPYEEKASKLKEKYEKELAGEYKASL 95 (96)
T ss_pred CCCCCCCCCCCcHHHHHHHHHHHHHHHhCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 66 5999999999999999999999999998 7999999999999999999999999999999999999999 998764
No 10
>cd00084 HMG-box High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I proteins bind DNA in a sequence specific fashion and contain a single HMG box. One group (SOX-TCF) includes transcription factors, TCF-1, -3, -4; and also SRY and LEF-1, which bind four-way DNA junctions and duplex DNA targets. The second group (MATA) includes fungal mating type gene products MC, MATA1 and Ste11. Class II and III proteins (HMGB-UBF) bind DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III member
Probab=99.73 E-value=3e-17 Score=107.73 Aligned_cols=65 Identities=49% Similarity=0.772 Sum_probs=62.6
Q ss_pred CCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHH
Q 031104 56 PKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLM 121 (165)
Q Consensus 56 PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em 121 (165)
|+||+|||+||+++.|..++..||++ ++.+|++.||.+|+.|++++|.+|.+.|..++.+|..++
T Consensus 1 pkrp~~af~~f~~~~~~~~~~~~~~~-~~~~i~~~~~~~W~~l~~~~k~~y~~~a~~~~~~y~~~~ 65 (66)
T cd00084 1 PKRPLSAYFLFSQEHRAEVKAENPGL-SVGEISKILGEMWKSLSEEEKKKYEEKAEKDKERYEKEM 65 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcCC-CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhh
Confidence 78999999999999999999999998 699999999999999999999999999999999998765
No 11
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=99.66 E-value=1.2e-16 Score=141.89 Aligned_cols=77 Identities=40% Similarity=0.677 Sum_probs=73.1
Q ss_pred ccccCCCCCCCCCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHHH
Q 031104 45 NVKSAKKDPNKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAY 124 (165)
Q Consensus 45 k~~k~~kdp~~PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y 124 (165)
++.++.+|||+||||+||||||++..|..|+.. ++ ++++|++.+|++|+.|+. |.+|...|+.++.+|+.+|.+|
T Consensus 525 k~~kk~kdpnapkra~sa~m~w~~~~r~~ik~d--gi-~~~dv~kk~g~~wk~ms~--k~~we~ka~~dk~ry~~em~~y 599 (615)
T KOG0526|consen 525 KKGKKKKDPNAPKRATSAYMLWLNASRESIKED--GI-SVGDVAKKAGEKWKQMSA--KEEWEDKAAVDKQRYEDEMKEY 599 (615)
T ss_pred cCcccCCCCCCCccchhHHHHHHHhhhhhHhhc--Cc-hHHHHHHHHhHHHhhhcc--cchhhHHHHHHHHHHHHHHHhh
Confidence 677788999999999999999999999999987 78 699999999999999999 8999999999999999999999
Q ss_pred hh
Q 031104 125 NK 126 (165)
Q Consensus 125 ~~ 126 (165)
+.
T Consensus 600 k~ 601 (615)
T KOG0526|consen 600 KN 601 (615)
T ss_pred cC
Confidence 83
No 12
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=99.61 E-value=8.3e-16 Score=131.50 Aligned_cols=77 Identities=29% Similarity=0.492 Sum_probs=71.8
Q ss_pred CCCCCCCCCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 031104 49 AKKDPNKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNK 126 (165)
Q Consensus 49 ~~kdp~~PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y~~ 126 (165)
......+.||||||||+|++..|..|..+||.+ ...||+|+||.+|+.|++++|.+|++.|++++..|.+++.+|+-
T Consensus 56 ~k~~~~hIKRPMNAFMVWSq~~RRkma~qnP~m-HNSEISK~LG~~WK~Lse~EKrPFi~EAeRLR~~HmkehPdYKY 132 (331)
T KOG0527|consen 56 DKTSTDRIKRPMNAFMVWSQGQRRKLAKQNPKM-HNSEISKRLGAEWKLLSEEEKRPFVDEAERLRAQHMKEYPDYKY 132 (331)
T ss_pred CCCCccccCCCcchhhhhhHHHHHHHHHhCcch-hhHHHHHHHHHHHhhcCHhhhccHHHHHHHHHHHHHHhCCCccc
Confidence 344567889999999999999999999999999 57899999999999999999999999999999999999999954
No 13
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=99.33 E-value=3.1e-12 Score=108.02 Aligned_cols=79 Identities=24% Similarity=0.494 Sum_probs=73.3
Q ss_pred CCCCCCCCCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHHHhhcC
Q 031104 49 AKKDPNKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNKKQ 128 (165)
Q Consensus 49 ~~kdp~~PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y~~k~ 128 (165)
..+.|.+|-+|+-.||.|++..|++|++.||.+ -+.+|.++||.||..|++++|+.|...++..+..|...|.+|+..-
T Consensus 58 ~pkpPkppekpl~pymrySrkvWd~VkA~nPe~-kLWeiGK~Ig~mW~dLpd~EK~ey~~EYeaEKieY~~smkayh~sp 136 (410)
T KOG4715|consen 58 RPKPPKPPEKPLMPYMRYSRKVWDQVKASNPEL-KLWEIGKIIGGMWLDLPDEEKQEYLNEYEAEKIEYNESMKAYHNSP 136 (410)
T ss_pred CCCCCCCCCcccchhhHHhhhhhhhhhccCcch-HHHHHHHHHHHHHhhCcchHHHHHHHHHHHHHHHHHHHHHHhhCCc
Confidence 344678888999999999999999999999999 5999999999999999999999999999999999999999997653
No 14
>KOG3248 consensus Transcription factor TCF-4 [Transcription]
Probab=99.10 E-value=1.1e-10 Score=99.53 Aligned_cols=77 Identities=22% Similarity=0.408 Sum_probs=68.1
Q ss_pred CCCCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 031104 54 NKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNKKQEST 131 (165)
Q Consensus 54 ~~PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y~~k~~~~ 131 (165)
...|+|+|||+|||++.|..|..++. ++...+|.++||.+|..||.++...|+++|.++++-+...+..|-+.....
T Consensus 190 phiKKPLNAFmlyMKEmRa~vvaEct-lKeSAaiNqiLGrRWH~LSrEEQAKYyElArKerqlH~qlYP~WSARdNYg 266 (421)
T KOG3248|consen 190 PHIKKPLNAFMLYMKEMRAKVVAECT-LKESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNYG 266 (421)
T ss_pred ccccccHHHHHHHHHHHHHHHHHHhh-hhhHHHHHHHHhHHHhhhhHHHHHHHHHHHHHHHHHHHHhcCCcchhhhhh
Confidence 36689999999999999999999986 445678999999999999999999999999999999999999886654433
No 15
>KOG0528 consensus HMG-box transcription factor SOX5 [Transcription]
Probab=98.88 E-value=6.1e-10 Score=98.48 Aligned_cols=78 Identities=26% Similarity=0.421 Sum_probs=68.3
Q ss_pred CCCCCCCCCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHHHhhc
Q 031104 49 AKKDPNKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNKK 127 (165)
Q Consensus 49 ~~kdp~~PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y~~k 127 (165)
...-++.-|||+||||+|.++.|..|...+|++. ...|+++||.+|+.|+-.+|++|++.-.++-..|...++.|+-+
T Consensus 319 ~~ss~PHIKRPMNAFMVWAkDERRKILqA~PDMH-NSnISKILGSRWKaMSN~eKQPYYEEQaRLSk~HlEk~PdYrYk 396 (511)
T KOG0528|consen 319 RASSEPHIKRPMNAFMVWAKDERRKILQAFPDMH-NSNISKILGSRWKAMSNTEKQPYYEEQARLSKLHLEKYPDYRYK 396 (511)
T ss_pred cCCCCccccCCcchhhcccchhhhhhhhcCcccc-ccchhHHhcccccccccccccchHHHHHHHHHhhhccCcccccC
Confidence 3445677899999999999999999999999996 55899999999999999999999988888877888888888654
No 16
>KOG2746 consensus HMG-box transcription factor Capicua and related proteins [Transcription]
Probab=98.29 E-value=7.5e-07 Score=81.70 Aligned_cols=75 Identities=29% Similarity=0.390 Sum_probs=66.9
Q ss_pred ccccCCCCCCCCCCCCChHHHHHHHHH--HHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHH
Q 031104 45 NVKSAKKDPNKPKRPPSAFFVFLEEFR--KVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKL 120 (165)
Q Consensus 45 k~~k~~kdp~~PKRP~sAY~lF~~e~r--~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~e 120 (165)
.+-....+....+||||||+||++.+| ..+...||+. ...-|+++||+.|-.|-+.||+.|.++|.+.++.|.++
T Consensus 171 grspnkr~k~HirrPMnaf~ifskrhr~~g~vhq~~pn~-DNrtIskiLgewWytL~~~Ekq~yhdLa~Qvk~Ahfka 247 (683)
T KOG2746|consen 171 GRSPNKRDKDHIRRPMNAFHIFSKRHRGEGRVHQRHPNQ-DNRTISKILGEWWYTLGPNEKQKYHDLAFQVKEAHFKA 247 (683)
T ss_pred cCCCCcCcchhhhhhhHHHHHHHhhcCCccchhccCccc-cchhHHHHHhhhHhhhCchhhhhHHHHHHHHHHHHhhh
Confidence 344455667788999999999999999 8889999999 56789999999999999999999999999999999876
No 17
>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A.
Probab=98.22 E-value=9.1e-06 Score=56.01 Aligned_cols=75 Identities=21% Similarity=0.278 Sum_probs=61.6
Q ss_pred CCCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 031104 55 KPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNKKQEST 131 (165)
Q Consensus 55 ~PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y~~k~~~~ 131 (165)
.|-.|.+|--||.+.....+.+.+++. ...+ .+.+...|++|+..+|-+|...|.++..+|+.+|.+|+......
T Consensus 3 lPE~PKt~qe~Wqq~vi~dYla~~~~d-r~K~-~kam~~~W~~me~Kekl~WIkKA~EdqKrYE~el~e~r~~~~~~ 77 (85)
T PF14887_consen 3 LPETPKTAQEIWQQSVIGDYLAKFRND-RKKA-LKAMEAQWSQMEKKEKLKWIKKAAEDQKRYERELREMRSAPADA 77 (85)
T ss_dssp -S----THHHHHHHHHHHHHHHHTTST-HHHH-HHHHHHHHHTTGGGHHHHHHHHHHHHHHHHHHHHHCCS-CCCTT
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHhhHh-HHHH-HHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCCCC
Confidence 577889999999999999999889887 4444 55899999999999999999999999999999999998876654
No 18
>PF04690 YABBY: YABBY protein; InterPro: IPR006780 YABBY proteins are a group of plant-specific transcription factors involved in the specification of abaxial polarity in lateral organs such as leaves and floral organs [, ].
Probab=97.06 E-value=0.0013 Score=51.79 Aligned_cols=49 Identities=29% Similarity=0.500 Sum_probs=42.3
Q ss_pred CCCCCCCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCCh
Q 031104 51 KDPNKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTD 100 (165)
Q Consensus 51 kdp~~PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~ 100 (165)
+.|.+-.|-+|||..|+++....|+..||++ +..|.....+..|...+.
T Consensus 117 kPPEKRqR~psaYn~f~k~ei~rik~~~p~i-shkeaFs~aAknW~h~ph 165 (170)
T PF04690_consen 117 KPPEKRQRVPSAYNRFMKEEIQRIKAENPDI-SHKEAFSAAAKNWAHFPH 165 (170)
T ss_pred CCccccCCCchhHHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHhhhhCcc
Confidence 3344455889999999999999999999999 689999999999987763
No 19
>PF06382 DUF1074: Protein of unknown function (DUF1074); InterPro: IPR024460 This family consists of several proteins which appear to be specific to Insecta. The function of this family is unknown.
Probab=96.88 E-value=0.0041 Score=49.24 Aligned_cols=49 Identities=27% Similarity=0.498 Sum_probs=42.6
Q ss_pred CChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHH
Q 031104 60 PSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKR 113 (165)
Q Consensus 60 ~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~ 113 (165)
-+|||-|+.++|. .|.++ +..++....+.+|..|++.+|..|..++-..
T Consensus 83 nnaYLNFLReFRr----kh~~L-~p~dlI~~AAraW~rLSe~eK~rYrr~~~~~ 131 (183)
T PF06382_consen 83 NNAYLNFLREFRR----KHCGL-SPQDLIQRAARAWCRLSEAEKNRYRRMAPSV 131 (183)
T ss_pred chHHHHHHHHHHH----HccCC-CHHHHHHHHHHHHHhCCHHHHHHHHhhcchh
Confidence 5789999999876 46788 6889999999999999999999999876544
No 20
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=96.83 E-value=0.001 Score=53.78 Aligned_cols=68 Identities=21% Similarity=0.290 Sum_probs=61.0
Q ss_pred CCCCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHH
Q 031104 54 NKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMT 122 (165)
Q Consensus 54 ~~PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~ 122 (165)
.+|..|..+|+-|-..+|..+...+|.. ...++++++|..|+.|++.-+.+|...+..++..|...|+
T Consensus 142 ~~~~~~~~~~~e~~~~~r~~~~~~~~~~-~~~e~~k~~~~~w~el~~skK~~~~~~~Kk~k~~~~~~~~ 209 (211)
T COG5648 142 LPNKAPIGPFIENEPKIRPKVEGPSPDK-ALVEETKIISKAWSELDESKKKKYIDKYKKLKEEYDSFYP 209 (211)
T ss_pred cCCCCCCchhhhccHHhccccCCCCcch-hhhHHhhhhhhhhhhhChhhhhHHHHHHHHHHHHHhhhcc
Confidence 5678888889999999999998889887 6889999999999999999999999999999999977654
No 21
>PF08073 CHDNT: CHDNT (NUC034) domain; InterPro: IPR012958 The CHD N-terminal domain is found in PHD/RING fingers and chromo domain-associated helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=96.12 E-value=0.006 Score=39.48 Aligned_cols=40 Identities=15% Similarity=0.365 Sum_probs=35.5
Q ss_pred CChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCCh
Q 031104 60 PSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTD 100 (165)
Q Consensus 60 ~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~ 100 (165)
++.|-+|.+..|+.|...||++ ++..|..+++.+|+.-+.
T Consensus 13 lt~yK~Fsq~vRP~l~~~NPk~-~~sKl~~l~~AKwrEF~~ 52 (55)
T PF08073_consen 13 LTNYKAFSQHVRPLLAKANPKA-PMSKLMMLLQAKWREFQE 52 (55)
T ss_pred HHHHHHHHHHHHHHHHHHCCCC-cHHHHHHHHHHHHHHHHh
Confidence 4678999999999999999999 689999999999986543
No 22
>PF06244 DUF1014: Protein of unknown function (DUF1014); InterPro: IPR010422 This family consists of several hypothetical eukaryotic proteins of unknown function.
Probab=91.83 E-value=0.25 Score=36.97 Aligned_cols=48 Identities=21% Similarity=0.344 Sum_probs=40.8
Q ss_pred CCCC-CCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChh
Q 031104 53 PNKP-KRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDA 101 (165)
Q Consensus 53 p~~P-KRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~ 101 (165)
..+| +|-.-||.-|.....+.|+.+||++ -..++-.+|..+|...|++
T Consensus 69 drHPErR~KAAy~afeE~~Lp~lK~E~PgL-rlsQ~kq~l~K~w~KSPeN 117 (122)
T PF06244_consen 69 DRHPERRMKAAYKAFEERRLPELKEENPGL-RLSQYKQMLWKEWQKSPEN 117 (122)
T ss_pred CCCcchhHHHHHHHHHHHHhHHHHhhCCCc-hHHHHHHHHHHHHhcCCCC
Confidence 4455 4555789999999999999999999 5889999999999887764
No 23
>PF04769 MAT_Alpha1: Mating-type protein MAT alpha 1; InterPro: IPR006856 This family includes Saccharomyces cerevisiae (Baker's yeast) mating type protein alpha 1 (P01365 from SWISSPROT). MAT alpha 1 is a transcription activator that activates mating-type alpha-specific genes with the help of the MADS-box containing MCM1 transcription factor, which together bind cooperatively to PQ elements upstream of alpha-specific genes. The MCM1-MATalpha1 complex is required for the proper DNA-bending that is needed for transcriptional activation []. Alpha 1 interacts in vivo with STE12, linking expression of alpha-specific genes to the alpha-pheromone (IPR006742 from INTERPRO) response pathway [].; GO: 0000772 mating pheromone activity, 0003677 DNA binding, 0045895 positive regulation of transcription, mating-type specific, 0005634 nucleus
Probab=90.37 E-value=1 Score=36.39 Aligned_cols=53 Identities=21% Similarity=0.340 Sum_probs=37.9
Q ss_pred CCCCCCCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHH
Q 031104 52 DPNKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAA 111 (165)
Q Consensus 52 dp~~PKRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~ 111 (165)
....++||+|+||+|..=.- .-.|+. ....++..|+..|..=+- |..|.-+|.
T Consensus 40 ~~~~~kr~lN~Fm~FRsyy~----~~~~~~-~Qk~~S~~l~~lW~~dp~--k~~W~l~ak 92 (201)
T PF04769_consen 40 SPEKAKRPLNGFMAFRSYYS----PIFPPL-PQKELSGILTKLWEKDPF--KNKWSLMAK 92 (201)
T ss_pred cccccccchhHHHHHHHHHH----hhcCCc-CHHHHHHHHHHHHhCCcc--HhHHHHHhh
Confidence 45567899999999977665 235666 467999999999987433 444554443
No 24
>KOG3223 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.03 E-value=0.34 Score=39.05 Aligned_cols=55 Identities=31% Similarity=0.469 Sum_probs=45.7
Q ss_pred CCCCC-CCCCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHH
Q 031104 52 DPNKP-KRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKA 110 (165)
Q Consensus 52 dp~~P-KRP~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A 110 (165)
|..+| +|-.-||.-|-....+.|+.+||++ .+.++-.+|-.+|..-|++ ||.+.+
T Consensus 160 ddrHPEkRmrAA~~afEe~~LPrLK~e~P~l-rlsQ~Kqll~Kew~KsPDN---P~Nq~~ 215 (221)
T KOG3223|consen 160 DDRHPEKRMRAAFKAFEEARLPRLKKENPGL-RLSQYKQLLKKEWQKSPDN---PFNQAA 215 (221)
T ss_pred cccChHHHHHHHHHHHHHhhchhhhhcCCCc-cHHHHHHHHHHHHhhCCCC---hhhHHh
Confidence 34556 5667789999999999999999999 6889999999999988876 776554
No 25
>TIGR03481 HpnM hopanoid biosynthesis associated membrane protein HpnM. The genomes containing members of this family share the machinery for the biosynthesis of hopanoid lipids. Furthermore, the genes of this family are usually located proximal to other components of this biological process. The proteins are members of the pfam05494 family of putative transporters known as "toluene tolerance protein Ttg2D", although it is unlikely that the members included here have anything to do with toluene per-se.
Probab=87.17 E-value=1.6 Score=35.00 Aligned_cols=45 Identities=18% Similarity=0.389 Sum_probs=38.5
Q ss_pred cHHHHHH-HHHHhhcCCChhhhhHHHHHHHH-HHHHHHHHHHHHhhc
Q 031104 83 AVSAVGK-AGGEKWKSLTDAEKAPFEAKAAK-RKLDYEKLMTAYNKK 127 (165)
Q Consensus 83 ~~~ei~k-~lge~Wk~ls~~eK~~Y~~~A~~-~k~~Y~~em~~Y~~k 127 (165)
+|..|++ .||.-|+.+|+++++.|...... ....|-..+..|...
T Consensus 65 Df~~mar~vLG~~W~~~s~~Qr~~F~~~F~~~l~~tY~~~l~~y~~~ 111 (198)
T TIGR03481 65 DLPAMARLTLGSSWTSLSPEQRRRFIGAFRELSIATYASQFKSYAGE 111 (198)
T ss_pred CHHHHHHHHhhhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHHhhcCc
Confidence 5667777 57999999999999999998888 778899999999653
No 26
>PRK15117 ABC transporter periplasmic binding protein MlaC; Provisional
Probab=82.99 E-value=3.4 Score=33.37 Aligned_cols=48 Identities=25% Similarity=0.370 Sum_probs=39.2
Q ss_pred CCCccHHHHHH-HHHHhhcCCChhhhhHHHHHHHH-HHHHHHHHHHHHhhc
Q 031104 79 PNVKAVSAVGK-AGGEKWKSLTDAEKAPFEAKAAK-RKLDYEKLMTAYNKK 127 (165)
Q Consensus 79 p~~~~~~ei~k-~lge~Wk~ls~~eK~~Y~~~A~~-~k~~Y~~em~~Y~~k 127 (165)
|.. +|..|++ .||.-|+.+|++++..|...... ...-|-..+..|...
T Consensus 66 p~~-Df~~~s~~vLG~~wr~as~eQr~~F~~~F~~~Lv~tYa~~l~~y~~q 115 (211)
T PRK15117 66 PYV-QVKYAGALVLGRYYKDATPAQREAYFAAFREYLKQAYGQALAMYHGQ 115 (211)
T ss_pred ccC-CHHHHHHHHhhhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHHHhCCc
Confidence 555 6777776 57999999999999999987766 556899999999643
No 27
>PF05494 Tol_Tol_Ttg2: Toluene tolerance, Ttg2 ; InterPro: IPR008869 Toluene tolerance is mediated by increased cell membrane rigidity resulting from changes in fatty acid and phospholipid compositions, exclusion of toluene from the cell membrane, and removal of intracellular toluene by degradation []. Many proteins are involved in these processes. This family is a transporter which shows similarity to ABC transporters [].; PDB: 2QGU_A.
Probab=70.71 E-value=6.4 Score=30.19 Aligned_cols=47 Identities=17% Similarity=0.351 Sum_probs=34.6
Q ss_pred CCCccHHHHHHH-HHHhhcCCChhhhhHHHHHHHH-HHHHHHHHHHHHhh
Q 031104 79 PNVKAVSAVGKA-GGEKWKSLTDAEKAPFEAKAAK-RKLDYEKLMTAYNK 126 (165)
Q Consensus 79 p~~~~~~ei~k~-lge~Wk~ls~~eK~~Y~~~A~~-~k~~Y~~em~~Y~~ 126 (165)
|.. .|..|++. ||.-|+.||++++..|...... ....|-..+..|..
T Consensus 36 ~~~-D~~~~ar~~LG~~w~~~s~~q~~~F~~~f~~~l~~~Y~~~l~~y~~ 84 (170)
T PF05494_consen 36 PYF-DFERMARRVLGRYWRKASPAQRQRFVEAFKQLLVRTYAKRLDEYSG 84 (170)
T ss_dssp GGB--HHHHHHHHHGGGTTTS-HHHHHHHHHHHHHHHHHHHHHHHHT-SS
T ss_pred HhC-CHHHHHHHHHHHhHhhCCHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 445 56677765 6789999999999999987766 55678888988864
No 28
>PHA02608 67 prohead core protein; Provisional
Probab=63.73 E-value=11 Score=26.06 Aligned_cols=24 Identities=21% Similarity=0.115 Sum_probs=11.8
Q ss_pred CCChhhhhHHHHHHHHHHHHHHHH
Q 031104 97 SLTDAEKAPFEAKAAKRKLDYEKL 120 (165)
Q Consensus 97 ~ls~~eK~~Y~~~A~~~k~~Y~~e 120 (165)
.|-...|.+|..++.+--..++..
T Consensus 12 DLV~akK~F~~~Me~rt~~li~e~ 35 (80)
T PHA02608 12 DLVEAKKEFASIMEARTEALIEEE 35 (80)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455666655555543334333
No 29
>PF13875 DUF4202: Domain of unknown function (DUF4202)
Probab=61.97 E-value=11 Score=30.14 Aligned_cols=40 Identities=18% Similarity=0.392 Sum_probs=33.5
Q ss_pred hHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhhhH
Q 031104 62 AFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAP 105 (165)
Q Consensus 62 AY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~ 105 (165)
+.|+|+..+...+...|. -..|..+|...|+.||+.-+..
T Consensus 131 acLVFL~~~f~~F~~~~d----eeK~v~Il~KTw~KMS~~g~~~ 170 (185)
T PF13875_consen 131 ACLVFLEYYFEDFAAKHD----EEKIVDILRKTWRKMSERGHEA 170 (185)
T ss_pred HHHHhHHHHHHHHHhcCC----HHHHHHHHHHHHHHCCHHHHHH
Confidence 588999999999988883 3468889999999999987653
No 30
>PF15243 ANAPC15: Anaphase-promoting complex subunit 15
Probab=58.98 E-value=6.8 Score=27.91 Aligned_cols=28 Identities=18% Similarity=0.297 Sum_probs=15.3
Q ss_pred HhhcCCChhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 031104 93 EKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNK 126 (165)
Q Consensus 93 e~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y~~ 126 (165)
-.|=+|. .++.+.++-. +++.++++|..
T Consensus 15 ~lwf~~d----~pc~dE~EL~--~~Eq~~q~Wl~ 42 (92)
T PF15243_consen 15 PLWFNLD----RPCVDETELQ--QQEQQHQAWLQ 42 (92)
T ss_pred cccccCC----CccchHHHHH--HHHHHHHHHHH
Confidence 4577775 4555544433 45555666644
No 31
>COG2854 Ttg2D ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=56.74 E-value=18 Score=29.29 Aligned_cols=42 Identities=12% Similarity=0.192 Sum_probs=34.9
Q ss_pred HHHHHhhcCCChhhhhHHHHHHHH-HHHHHHHHHHHHhhcCCC
Q 031104 89 KAGGEKWKSLTDAEKAPFEAKAAK-RKLDYEKLMTAYNKKQES 130 (165)
Q Consensus 89 k~lge~Wk~ls~~eK~~Y~~~A~~-~k~~Y~~em~~Y~~k~~~ 130 (165)
..||.-|+.+|+++++.|...... ....|-..|..|+.+.-.
T Consensus 78 ~vLGk~~k~aspeQ~~~F~~aF~~yl~q~Y~~aL~~Y~~q~~~ 120 (202)
T COG2854 78 LVLGKYYKTASPEQRQAFFKAFRTYLEQTYGQALLDYKGQTLK 120 (202)
T ss_pred HHhccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHccCCCce
Confidence 457899999999999999987666 556799999999876543
No 32
>PF11304 DUF3106: Protein of unknown function (DUF3106); InterPro: IPR021455 Some members in this family of proteins are annotated as transmembrane proteins however this cannot be confirmed. Currently no function is known.
Probab=49.45 E-value=64 Score=23.21 Aligned_cols=21 Identities=19% Similarity=0.392 Sum_probs=9.2
Q ss_pred HHHHHhhcCCChhhhhHHHHH
Q 031104 89 KAGGEKWKSLTDAEKAPFEAK 109 (165)
Q Consensus 89 k~lge~Wk~ls~~eK~~Y~~~ 109 (165)
.-+...|..|++..+..+...
T Consensus 14 ~pl~~~W~~l~~~qr~k~l~~ 34 (107)
T PF11304_consen 14 APLAERWNSLPPEQRRKWLQI 34 (107)
T ss_pred HHHHHHHhcCCHHHHHHHHHH
Confidence 334444444444444444433
No 33
>PF12881 NUT_N: NUT protein N terminus; InterPro: IPR024309 This domain is found in the N-terminal region of Nuclear Testis (NUT) proteins. It is also found in FAM22, which are a family of uncharacterised mammalian proteins.
Probab=48.94 E-value=45 Score=28.92 Aligned_cols=52 Identities=13% Similarity=0.162 Sum_probs=37.8
Q ss_pred HHHHhCCCCccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHH--HHHHHHhh
Q 031104 73 VYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYE--KLMTAYNK 126 (165)
Q Consensus 73 ~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~--~em~~Y~~ 126 (165)
.+....|.+ ++.+-....-..|...|.-+|..|+++|++-++ |+ .+|..-+-
T Consensus 242 sLar~kPtM-tlEeGl~ra~qEW~~~SnfdRmifyemaekFmE-FEaeEEmq~q~l 295 (328)
T PF12881_consen 242 SLARLKPTM-TLEEGLWRAVQEWQHTSNFDRMIFYEMAEKFME-FEAEEEMQIQKL 295 (328)
T ss_pred HHHhcCCCc-cHHHHHHHHHHHhhccccccHHHHHHHHHHHcc-CCcHHHHHHHHH
Confidence 344446777 577777778899999999999999999998654 43 44554443
No 34
>PF01352 KRAB: KRAB box; InterPro: IPR001909 The Krueppel-associated box (KRAB) is a domain of around 75 amino acids that is found in the N-terminal part of about one third of eukaryotic Krueppel-type C2H2 zinc finger proteins (ZFPs) []. It is enriched in charged amino acids and can be divided into subregions A and B, which are predicted to fold into two amphipathic alpha-helices. The KRAB A and B boxes can be separated by variable spacer segments and many KRAB proteins contain only the A box []. The functions currently known for members of the KRAB-containing protein family include transcriptional repression of RNA polymerase I, II, and III promoters, binding and splicing of RNA, and control of nucleolus function. The KRAB domain functions as a transcriptional repressor when tethered to the template DNA by a DNA-binding domain. A sequence of 45 amino acids in the KRAB A subdomain has been shown to be necessary and sufficient for transcriptional repression. The B box does not repress by itself but does potentiate the repression exerted by the KRAB A subdomain [, ]. Gene silencing requires the binding of the KRAB domain to the RING-B box-coiled coil (RBCC) domain of the KAP-1/TIF1-beta corepressor. As KAP-1 binds to the heterochromatin proteins HP1, it has been proposed that the KRAB-ZFP-bound target gene could be silenced following recruitment to heterochromatin [, ]. KRAB-ZFPs probably constitute the single largest class of transcription factors within the human genome []. Although the function of KRAB-ZFPs is largely unknown, they appear to play important roles during cell differentiation and development. The KRAB domain is generally encoded by two exons. The regions coded by the two exons are known as KRAB-A and KRAB-B.; GO: 0003676 nucleic acid binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1V65_A.
Probab=38.80 E-value=23 Score=21.19 Aligned_cols=28 Identities=21% Similarity=0.274 Sum_probs=15.7
Q ss_pred HHHHHHHHH-HhhcCCChhhhhHHHHHHH
Q 031104 84 VSAVGKAGG-EKWKSLTDAEKAPFEAKAA 111 (165)
Q Consensus 84 ~~ei~k~lg-e~Wk~ls~~eK~~Y~~~A~ 111 (165)
|.+|+--++ +.|..|.+.+|.-|.+...
T Consensus 3 f~Dvav~fs~eEW~~L~~~Qk~ly~dvm~ 31 (41)
T PF01352_consen 3 FEDVAVYFSQEEWELLDPAQKNLYRDVML 31 (41)
T ss_dssp ----TT---HHHHHTS-HHHHHHHHHHHH
T ss_pred EEEEEEEcChhhcccccceecccchhHHH
Confidence 344444444 5699999999998887543
No 35
>PF06945 DUF1289: Protein of unknown function (DUF1289); InterPro: IPR010710 This family consists of a number of hypothetical bacterial proteins. The aligned region spans around 56 residues and contains 4 highly conserved cysteine residues towards the N terminus. The function of this family is unknown.
Probab=38.32 E-value=42 Score=20.92 Aligned_cols=26 Identities=27% Similarity=0.585 Sum_probs=18.5
Q ss_pred cHHHHHHHHHHhhcCCChhhhhHHHHHHHHH
Q 031104 83 AVSAVGKAGGEKWKSLTDAEKAPFEAKAAKR 113 (165)
Q Consensus 83 ~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~ 113 (165)
+..||.. |..|++.+|..........
T Consensus 23 T~dEI~~-----W~~~s~~er~~i~~~l~~R 48 (51)
T PF06945_consen 23 TLDEIRD-----WKSMSDDERRAILARLRAR 48 (51)
T ss_pred cHHHHHH-----HhhCCHHHHHHHHHHHHHH
Confidence 3556655 9999999988777655443
No 36
>PRK10363 cpxP periplasmic repressor CpxP; Reviewed
Probab=36.67 E-value=85 Score=24.72 Aligned_cols=41 Identities=20% Similarity=0.320 Sum_probs=32.7
Q ss_pred HHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 031104 85 SAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNK 126 (165)
Q Consensus 85 ~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y~~ 126 (165)
.+++++-..++.-|+|++|..|....+.....+.. +..+..
T Consensus 111 Vem~k~~nqmy~lLTPEQKaq~~~~~~~rm~~~~~-~~~~q~ 151 (166)
T PRK10363 111 VEMAKVRNQMYRLLTPEQQAVLNEKHQQRMEQLRD-VTQWQK 151 (166)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHH-HHhcCc
Confidence 45677778999999999999999988888877755 555433
No 37
>PRK09706 transcriptional repressor DicA; Reviewed
Probab=36.01 E-value=90 Score=22.81 Aligned_cols=44 Identities=18% Similarity=0.191 Sum_probs=38.0
Q ss_pred HHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHHHhhcCC
Q 031104 86 AVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNKKQE 129 (165)
Q Consensus 86 ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y~~k~~ 129 (165)
.-...|-..|+.|+++++.............|..-+.+|-.+..
T Consensus 87 ~~~~~ll~~~~~L~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~ 130 (135)
T PRK09706 87 EDQKELLELFDALPESEQDAQLSEMRARVENFNKLFEELLKARK 130 (135)
T ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44577889999999999999999999999999999999866543
No 38
>PRK12750 cpxP periplasmic repressor CpxP; Reviewed
Probab=33.93 E-value=1.1e+02 Score=23.86 Aligned_cols=35 Identities=20% Similarity=0.209 Sum_probs=28.9
Q ss_pred HHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHH
Q 031104 87 VGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLM 121 (165)
Q Consensus 87 i~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em 121 (165)
+.+....++..|++++|..|.++...-...|...+
T Consensus 126 ~~~~~~~~~~vLTpEQRak~~e~~~~r~~~~~~~~ 160 (170)
T PRK12750 126 MLEKRHQMLSILTPEQKAKFQELQQERMQECQDKM 160 (170)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445668999999999999999888888887766
No 39
>PRK12751 cpxP periplasmic stress adaptor protein CpxP; Reviewed
Probab=32.53 E-value=95 Score=24.19 Aligned_cols=34 Identities=18% Similarity=0.279 Sum_probs=26.3
Q ss_pred HHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHH
Q 031104 86 AVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEK 119 (165)
Q Consensus 86 ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~ 119 (165)
.+.+....++..|++++|..|.+..++.......
T Consensus 118 ~~~~~~~qmy~lLTPEQra~l~~~~e~r~~~~~~ 151 (162)
T PRK12751 118 EMAKVRNQMYNLLTPEQKEALNKKHQERIEKLQQ 151 (162)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHh
Confidence 4455667889999999999999887777665543
No 40
>PF09164 VitD-bind_III: Vitamin D binding protein, domain III; InterPro: IPR015247 This domain is predominantly found in Vitamin D binding proteins, and adopts a multihelical structure. It is required for formation of an actin 'clamp', allowing the protein to bind to actin []. ; PDB: 1MA9_A 1KW2_A 1KXP_D 1J7E_A 1J78_A 1LOT_A.
Probab=29.75 E-value=1.8e+02 Score=19.55 Aligned_cols=33 Identities=6% Similarity=0.225 Sum_probs=24.7
Q ss_pred ChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHh
Q 031104 61 SAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEK 94 (165)
Q Consensus 61 sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~ 94 (165)
+.|.-|-...+++++...|++ +..+|..++..+
T Consensus 9 ~tFtEyKKrL~e~l~~k~P~a-t~~~l~~lve~R 41 (68)
T PF09164_consen 9 NTFTEYKKRLAERLRAKLPDA-TPTELKELVEKR 41 (68)
T ss_dssp S-HHHHHHHHHHHHHHH-TTS--HHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHHHCCCC-CHHHHHHHHHHH
Confidence 468888899999999999999 677887777554
No 41
>KOG1834 consensus Calsyntenin [Extracellular structures]
Probab=28.71 E-value=29 Score=33.21 Aligned_cols=45 Identities=38% Similarity=0.539 Sum_probs=21.4
Q ss_pred HHHHHHHhhcCCCCcchhhHhhhhhhc-ccCCCCcccccccccccc
Q 031104 118 EKLMTAYNKKQESTEDEDEEESEKSKS-EVHDDDDDEELEEEDEEE 162 (165)
Q Consensus 118 ~~em~~Y~~k~~~~~~~~~e~~~~~k~-e~~~~~~~~~~~~~d~~e 162 (165)
-.-|..|...+...+..++|+.+.+.. ++.++.+..++..+|+++
T Consensus 881 VNPme~~e~~gs~ee~~e~EeeeE~e~~ee~s~~~~~ds~sedEee 926 (952)
T KOG1834|consen 881 VNPMEDYEKGGSIEEESEEEEEEETEDEEESSDSDSADSESEDEEE 926 (952)
T ss_pred ecchHhcccCCcccccccccccccccccccccccccccCccchhhh
Confidence 456778877666655544433333222 333333333333344443
No 42
>KOG1610 consensus Corticosteroid 11-beta-dehydrogenase and related short chain-type dehydrogenases [Secondary metabolites biosynthesis, transport and catabolism; General function prediction only]
Probab=26.96 E-value=1.7e+02 Score=25.47 Aligned_cols=58 Identities=19% Similarity=0.352 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHhC-------CC-----CccHHHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHHHh
Q 031104 65 VFLEEFRKVYKQEH-------PN-----VKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYN 125 (165)
Q Consensus 65 lF~~e~r~~ik~~~-------p~-----~~~~~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y~ 125 (165)
.|+...|.++..-. |+ +.+...+.+.+..+|..||.+.++.|-+.+..+ |...+..|.
T Consensus 187 af~D~lR~EL~~fGV~VsiiePG~f~T~l~~~~~~~~~~~~~w~~l~~e~k~~YGedy~~~---~~~~~~~~~ 256 (322)
T KOG1610|consen 187 AFSDSLRRELRPFGVKVSIIEPGFFKTNLANPEKLEKRMKEIWERLPQETKDEYGEDYFED---YKKSLEKYL 256 (322)
T ss_pred HHHHHHHHHHHhcCcEEEEeccCccccccCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHH---HHHHHHhhh
Confidence 37777777765321 22 223467889999999999999999998777655 566666665
No 43
>PF15076 DUF4543: Domain of unknown function (DUF4543)
Probab=25.21 E-value=59 Score=21.90 Aligned_cols=25 Identities=16% Similarity=0.485 Sum_probs=19.4
Q ss_pred cccCCCCCCCCCCCCChHHHHHHHH
Q 031104 46 VKSAKKDPNKPKRPPSAFFVFLEEF 70 (165)
Q Consensus 46 ~~k~~kdp~~PKRP~sAY~lF~~e~ 70 (165)
|.-+...|+.|--|+.-||+|++..
T Consensus 22 R~dr~~K~GfpdepmrE~ml~l~~L 46 (75)
T PF15076_consen 22 RQDRPRKPGFPDEPMREYMLHLQAL 46 (75)
T ss_pred HhcCCCCCCCCcchHHHHHHHHHHH
Confidence 3334566899999999999998743
No 44
>PRK10236 hypothetical protein; Provisional
Probab=25.03 E-value=67 Score=26.71 Aligned_cols=27 Identities=15% Similarity=0.284 Sum_probs=22.0
Q ss_pred HHHHHHHHhhcCCChhhhhHHHHHHHH
Q 031104 86 AVGKAGGEKWKSLTDAEKAPFEAKAAK 112 (165)
Q Consensus 86 ei~k~lge~Wk~ls~~eK~~Y~~~A~~ 112 (165)
=+.+++...|..||+++++.+...-..
T Consensus 117 il~kll~~a~~kms~eE~~~L~~~l~~ 143 (237)
T PRK10236 117 LLEQFLRNTWKKMDEEHKQEFLHAVDA 143 (237)
T ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHhh
Confidence 367788999999999999988765444
No 45
>cd07081 ALDH_F20_ACDH_EutE-like Coenzyme A acylating aldehyde dehydrogenase (ACDH), Ethanolamine utilization protein EutE, and related proteins. Coenzyme A acylating aldehyde dehydrogenase (ACDH), an NAD+ and CoA-dependent acetaldehyde dehydrogenase, acetylating (EC=1.2.1.10), functions as a single enzyme (such as the Ethanolamine utilization protein, EutE, in Salmonella typhimurium) or as part of a multifunctional enzyme to convert acetaldehyde into acetyl-CoA. The E. coli aldehyde-alcohol dehydrogenase includes the functional domains, alcohol dehydrogenase (ADH), ACDH, and pyruvate-formate-lyase deactivase; and the Entamoeba histolytica aldehyde-alcohol dehydrogenase 2 (ALDH20A1) includes the functional domains ADH and ACDH, and may be critical enzymes in the fermentative pathway.
Probab=23.69 E-value=1.9e+02 Score=25.87 Aligned_cols=42 Identities=12% Similarity=-0.028 Sum_probs=35.2
Q ss_pred HHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHHHhhc
Q 031104 86 AVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNKK 127 (165)
Q Consensus 86 ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y~~k 127 (165)
+.++.....|+.+|..+|..+...+....+.+..++...-..
T Consensus 6 ~~A~~A~~~W~~~~~~~R~~iL~~~a~~l~~~~~ela~~~~~ 47 (439)
T cd07081 6 AAAKVAQQGLSCKSQEMVDLIFRAAAEAAEDARIDLAKLAVS 47 (439)
T ss_pred HHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666788999999999999999999889998888887443
No 46
>cd07133 ALDH_CALDH_CalB Coniferyl aldehyde dehydrogenase-like. Coniferyl aldehyde dehydrogenase (CALDH, EC=1.2.1.68) of Pseudomonas sp. strain HR199 (CalB) which catalyzes the NAD+-dependent oxidation of coniferyl aldehyde to ferulic acid, and similar sequences, are present in this CD.
Probab=20.70 E-value=2.5e+02 Score=24.75 Aligned_cols=42 Identities=12% Similarity=-0.109 Sum_probs=34.8
Q ss_pred HHHHHHHHHhhcCCChhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 031104 85 SAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNK 126 (165)
Q Consensus 85 ~ei~k~lge~Wk~ls~~eK~~Y~~~A~~~k~~Y~~em~~Y~~ 126 (165)
.+.++.....|+.++..+|..+..........+..++.....
T Consensus 4 ~~~a~~a~~~w~~~~~~~R~~~L~~~a~~l~~~~~el~~~~~ 45 (434)
T cd07133 4 LERQKAAFLANPPPSLEERRDRLDRLKALLLDNQDALAEAIS 45 (434)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355667777899999999999999888888888888887654
No 47
>COG4281 ACB Acyl-CoA-binding protein [Lipid metabolism]
Probab=20.70 E-value=1e+02 Score=21.38 Aligned_cols=61 Identities=20% Similarity=0.362 Sum_probs=36.0
Q ss_pred CCCCCCCh-----HHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCC----hhhhhHHHHHHHHHHHHH
Q 031104 55 KPKRPPSA-----FFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLT----DAEKAPFEAKAAKRKLDY 117 (165)
Q Consensus 55 ~PKRP~sA-----Y~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls----~~eK~~Y~~~A~~~k~~Y 117 (165)
.|.+|-|- |.||-+....-.-.+.|++ |.-+.+.--+.|..|- ++-++.|..+..+++..|
T Consensus 16 L~~kP~~d~LLkLYAL~KQ~s~GD~~~ekPG~--~d~~gr~K~eAW~~LKGksqedA~qeYialVeeLkak~ 85 (87)
T COG4281 16 LSEKPSNDELLKLYALFKQGSVGDNDGEKPGF--FDIVGRYKYEAWAGLKGKSQEDARQEYIALVEELKAKY 85 (87)
T ss_pred hccCCCcHHHHHHHHHHHhccccccCCCCCCc--cccccchhHHHHhhccCccHHHHHHHHHHHHHHHHhhc
Confidence 35567554 6667665544444455766 3334555567887664 334566777777776554
No 48
>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription]
Probab=20.17 E-value=8.3 Score=36.30 Aligned_cols=44 Identities=25% Similarity=0.425 Sum_probs=39.4
Q ss_pred CCChHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhhcCCChhhh
Q 031104 59 PPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEK 103 (165)
Q Consensus 59 P~sAY~lF~~e~r~~ik~~~p~~~~~~ei~k~lge~Wk~ls~~eK 103 (165)
-+++|++|+.+.+..+...||++ .+++++.++|..|..|+...+
T Consensus 552 ~~~~~~~~s~~~~~~~~~~np~v-~~~~~~~~vg~~~~~lp~~~k 595 (629)
T KOG1827|consen 552 SPEPYILDSIENRTIIWFENPTV-GFGEVSIIVGNDWDKLPNINK 595 (629)
T ss_pred CCccccccccccCceeeeeCCCc-ccceeEEeecCCcccCccccc
Confidence 57889999999999999999999 699999999999999994433
Done!