Query 029982
Match_columns 184
No_of_seqs 206 out of 1161
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 06:40:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029982.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029982hhsearch_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 8.8E-24 1.9E-28 155.0 11.2 84 61-144 9-93 (94)
2 cd01389 MATA_HMG-box MATA_HMG- 99.8 1.8E-19 3.9E-24 126.9 7.8 71 74-145 1-71 (77)
3 PF00505 HMG_box: HMG (high mo 99.8 6.3E-19 1.4E-23 120.4 9.2 69 75-144 1-69 (69)
4 COG5648 NHP6B Chromatin-associ 99.8 3E-19 6.6E-24 146.7 8.2 87 64-151 60-146 (211)
5 PF09011 HMG_box_2: HMG-box do 99.8 1.1E-18 2.5E-23 121.7 9.4 72 72-144 1-73 (73)
6 cd01388 SOX-TCF_HMG-box SOX-TC 99.8 6E-19 1.3E-23 122.8 7.9 69 75-144 2-70 (72)
7 cd01390 HMGB-UBF_HMG-box HMGB- 99.8 1.4E-18 3E-23 117.6 9.1 65 75-140 1-65 (66)
8 smart00398 HMG high mobility g 99.8 2.5E-18 5.3E-23 117.0 9.4 70 74-144 1-70 (70)
9 KOG0381 HMG box-containing pro 99.7 2.5E-17 5.4E-22 119.8 10.8 76 71-147 17-95 (96)
10 cd00084 HMG-box High Mobility 99.7 9.6E-17 2.1E-21 107.9 9.1 65 75-140 1-65 (66)
11 KOG0526 Nucleosome-binding fac 99.6 2.2E-16 4.8E-21 144.1 7.4 79 64-147 525-603 (615)
12 KOG0527 HMG-box transcription 99.6 2.4E-15 5.2E-20 132.3 6.4 76 68-144 56-131 (331)
13 KOG4715 SWI/SNF-related matrix 99.1 1.6E-10 3.5E-15 100.5 7.5 78 68-146 58-135 (410)
14 KOG3248 Transcription factor T 99.0 3.2E-10 7E-15 99.3 5.9 76 74-150 191-266 (421)
15 KOG0528 HMG-box transcription 98.7 3.8E-09 8.2E-14 96.2 1.7 75 70-145 321-395 (511)
16 PF14887 HMG_box_5: HMG (high 98.2 1.1E-05 2.4E-10 57.3 8.2 75 74-150 3-77 (85)
17 KOG2746 HMG-box transcription 98.1 2.6E-06 5.6E-11 80.4 4.6 71 68-139 175-247 (683)
18 PF04690 YABBY: YABBY protein; 97.0 0.0018 4E-08 52.4 5.6 47 71-118 118-164 (170)
19 PF06382 DUF1074: Protein of u 96.9 0.0029 6.4E-08 51.5 6.5 50 79-133 83-132 (183)
20 COG5648 NHP6B Chromatin-associ 96.8 0.00096 2.1E-08 55.5 3.0 68 73-141 142-209 (211)
21 PF08073 CHDNT: CHDNT (NUC034) 96.1 0.0072 1.6E-07 40.3 3.2 40 79-119 13-52 (55)
22 PF06244 DUF1014: Protein of u 91.5 0.27 5.8E-06 37.9 3.8 49 71-120 69-117 (122)
23 PF04769 MAT_Alpha1: Mating-ty 87.4 1.2 2.6E-05 37.1 5.0 55 69-130 38-92 (201)
24 KOG3223 Uncharacterized conser 81.7 2.6 5.5E-05 35.1 4.4 50 76-129 166-215 (221)
25 TIGR03481 HpnM hopanoid biosyn 81.0 4.2 9.2E-05 33.4 5.6 45 102-146 65-111 (198)
26 PRK15117 ABC transporter perip 80.2 4.9 0.00011 33.3 5.7 48 98-146 66-115 (211)
27 PHA02608 67 prohead core prote 76.3 4 8.7E-05 29.1 3.4 29 115-143 11-39 (80)
28 PF05494 Tol_Tol_Ttg2: Toluene 67.1 7.3 0.00016 30.7 3.5 47 98-145 36-84 (170)
29 PF13875 DUF4202: Domain of un 53.5 31 0.00067 28.4 4.9 40 80-123 130-169 (185)
30 COG2854 Ttg2D ABC-type transpo 50.0 21 0.00047 29.8 3.5 43 108-150 78-121 (202)
31 PF04871 Uso1_p115_C: Uso1 / p 42.2 14 0.0003 28.7 1.3 11 138-148 98-108 (136)
32 PF06945 DUF1289: Protein of u 38.9 42 0.00091 21.6 2.9 26 102-132 23-48 (51)
33 PF12881 NUT_N: NUT protein N 37.6 83 0.0018 28.1 5.4 50 95-145 245-295 (328)
34 PF11304 DUF3106: Protein of u 36.7 1.4E+02 0.003 22.1 5.8 18 110-127 16-33 (107)
35 PF07599 DUF1563: Protein of u 36.4 14 0.0003 22.9 0.3 12 1-12 1-12 (43)
36 PRK09706 transcriptional repre 30.6 1.5E+02 0.0033 22.2 5.4 44 105-148 87-130 (135)
37 PF15243 ANAPC15: Anaphase-pro 30.3 95 0.0021 22.7 3.9 27 113-145 16-42 (92)
38 KOG0943 Predicted ubiquitin-pr 25.6 32 0.0007 36.5 1.0 25 4-28 1493-1517(3015)
39 PF01352 KRAB: KRAB box; Inte 25.1 62 0.0013 19.9 1.9 28 103-130 3-31 (41)
40 PRK12750 cpxP periplasmic repr 24.1 3.1E+02 0.0067 22.0 6.3 35 106-140 126-160 (170)
41 KOG2023 Nuclear transport rece 23.6 38 0.00082 33.5 1.0 15 105-119 271-285 (885)
42 KOG3838 Mannose lectin ERGIC-5 21.7 1.1E+02 0.0024 28.5 3.5 37 116-152 268-304 (497)
43 PF00887 ACBP: Acyl CoA bindin 21.3 2.4E+02 0.0052 19.6 4.6 53 82-136 30-86 (87)
44 KOG1834 Calsyntenin [Extracell 20.6 52 0.0011 32.5 1.3 14 138-151 882-895 (952)
No 1
>PTZ00199 high mobility group protein; Provisional
Probab=99.91 E-value=8.8e-24 Score=155.02 Aligned_cols=84 Identities=44% Similarity=0.689 Sum_probs=77.7
Q ss_pred cccccccCCCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCc-cHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHH
Q 029982 61 RTKNVKSAKKDPNKPKRPPSAFFVFLEEFRKVYKQEHPNVK-AVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKL 139 (184)
Q Consensus 61 ~~k~~kk~~kdp~~PKRP~SAy~lF~~e~r~~~k~e~P~~~-s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~e 139 (184)
.+++++++.+|||+||||+||||||++++|..|..+||++. ++++|+++||++|++||+++|.+|.++|..++.+|..+
T Consensus 9 ~~k~~~k~~kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls~eeK~~y~~~A~~dk~rY~~e 88 (94)
T PTZ00199 9 LVRKNKRKKKDPNAPKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDKVRYEKE 88 (94)
T ss_pred cccccCCCCCCCCCCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHH
Confidence 34455667899999999999999999999999999999984 48999999999999999999999999999999999999
Q ss_pred HHHHh
Q 029982 140 MTAYN 144 (184)
Q Consensus 140 m~~Y~ 144 (184)
|.+|+
T Consensus 89 ~~~Y~ 93 (94)
T PTZ00199 89 KAEYA 93 (94)
T ss_pred HHHHh
Confidence 99995
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=99.80 E-value=1.8e-19 Score=126.89 Aligned_cols=71 Identities=23% Similarity=0.380 Sum_probs=68.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 029982 74 KPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNK 145 (184)
Q Consensus 74 ~PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em~~Y~~ 145 (184)
.||||+||||||+++.|..|+.+||++ ++.+|+++||.+|+.||+++|++|.++|..++++|..++++|+=
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 79999999999999999999999999999999999999999953
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=99.79 E-value=6.3e-19 Score=120.39 Aligned_cols=69 Identities=41% Similarity=0.755 Sum_probs=65.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHHHHHh
Q 029982 75 PKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYN 144 (184)
Q Consensus 75 PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em~~Y~ 144 (184)
|+||+|||+||+.+++..++.+||++ ++.+|+++||.+|++||+++|++|.+.|...+..|..+|..|+
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
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=99.79 E-value=3e-19 Score=146.73 Aligned_cols=87 Identities=40% Similarity=0.668 Sum_probs=82.4
Q ss_pred ccccCCCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHHHHH
Q 029982 64 NVKSAKKDPNKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAY 143 (184)
Q Consensus 64 ~~kk~~kdp~~PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em~~Y 143 (184)
..++..+|||.||||+||||+|++++|..++..+|.+ +|.+|++.+|++|++|++++|.+|...|..++++|..++..|
T Consensus 60 ~~~r~k~dpN~PKRp~sayf~y~~~~R~ei~~~~p~l-~~~e~~k~~~e~WK~Ltd~eke~y~k~~~~~~erYq~ek~~y 138 (211)
T COG5648 60 RLVRKKKDPNGPKRPLSAYFLYSAENRDEIRKENPKL-TFGEVGKLLSEKWKELTDEEKEPYYKEANSDRERYQREKEEY 138 (211)
T ss_pred HHHHHhcCCCCCCCchhHHHHHHHHHHHHHHHhCCCC-ChHHHHHHHHHHHHhccHhhhhhHHHHHhhHHHHHHHHHHhh
Confidence 4456788999999999999999999999999999999 799999999999999999999999999999999999999999
Q ss_pred hhcCCCCc
Q 029982 144 NKKQESTE 151 (184)
Q Consensus 144 ~~k~~~~~ 151 (184)
+.+.+...
T Consensus 139 ~~k~~~~~ 146 (211)
T COG5648 139 NKKLPNKA 146 (211)
T ss_pred hcccCCCC
Confidence 99888764
No 5
>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=99.78 E-value=1.1e-18 Score=121.74 Aligned_cols=72 Identities=44% Similarity=0.762 Sum_probs=63.7
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHh-CCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHHHHHh
Q 029982 72 PNKPKRPPSAFFVFLEEFRKVYKQE-HPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYN 144 (184)
Q Consensus 72 p~~PKRP~SAy~lF~~e~r~~~k~e-~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em~~Y~ 144 (184)
|++||||+|||+||+.+++..++.. ++.. ++.++++.|+..|++||+++|.+|.++|..++.+|..+|..|+
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 6766 7899999999999999999999999999999999999999995
No 6
>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=99.78 E-value=6e-19 Score=122.83 Aligned_cols=69 Identities=36% Similarity=0.523 Sum_probs=66.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHHHHHh
Q 029982 75 PKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYN 144 (184)
Q Consensus 75 PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em~~Y~ 144 (184)
.|||+||||+|++++|..++.+||++ ++.+|+++||++|+.||+++|++|.++|..++++|..++++|+
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 7999999999999999999999999999999999999999884
No 7
>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=99.78 E-value=1.4e-18 Score=117.60 Aligned_cols=65 Identities=51% Similarity=0.787 Sum_probs=63.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHH
Q 029982 75 PKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLM 140 (184)
Q Consensus 75 PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em 140 (184)
||||+|||++|++++|..++..||++ ++.+|++.||.+|+.||+++|.+|.+.|..++.+|..+|
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 8
>smart00398 HMG high mobility group.
Probab=99.77 E-value=2.5e-18 Score=116.95 Aligned_cols=70 Identities=47% Similarity=0.772 Sum_probs=67.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHHHHHh
Q 029982 74 KPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYN 144 (184)
Q Consensus 74 ~PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em~~Y~ 144 (184)
+|+||+|||+||++++|..+..+||++ ++.+|++.||.+|+.||+++|.+|.++|..++.+|..+|..|.
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 7999999999999999999999999999999999999999884
No 9
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=99.74 E-value=2.5e-17 Score=119.80 Aligned_cols=76 Identities=49% Similarity=0.779 Sum_probs=72.4
Q ss_pred CC--CCCCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHHH-HHhhcC
Q 029982 71 DP--NKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMT-AYNKKQ 147 (184)
Q Consensus 71 dp--~~PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em~-~Y~~k~ 147 (184)
|| +.|+||+||||+|+.++|..++.+||++ ++.+|+++||.+|++|++++|.+|...|..++.+|..+|. .|+..+
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 67 5999999999999999999999999998 7999999999999999999999999999999999999999 998754
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=99.70 E-value=9.6e-17 Score=107.88 Aligned_cols=65 Identities=49% Similarity=0.772 Sum_probs=62.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHH
Q 029982 75 PKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLM 140 (184)
Q Consensus 75 PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em 140 (184)
|+||+|||++|++++|..++..||++ ++.+|++.||.+|+.|++++|.+|.+.|...+.+|..++
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 89999999999999999999999998 799999999999999999999999999999999998775
No 11
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=99.65 E-value=2.2e-16 Score=144.09 Aligned_cols=79 Identities=41% Similarity=0.667 Sum_probs=73.3
Q ss_pred ccccCCCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHHHHH
Q 029982 64 NVKSAKKDPNKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAY 143 (184)
Q Consensus 64 ~~kk~~kdp~~PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em~~Y 143 (184)
++-++.+|||+||||+||||||++..|..|+.+ ++ ++++|++.+|++|+.||. |.+|.+.|+.++++|+.+|.+|
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 445678899999999999999999999999988 78 799999999999999999 9999999999999999999999
Q ss_pred hhcC
Q 029982 144 NKKQ 147 (184)
Q Consensus 144 ~~k~ 147 (184)
+..+
T Consensus 600 k~g~ 603 (615)
T KOG0526|consen 600 KNGQ 603 (615)
T ss_pred cCCC
Confidence 8444
No 12
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=99.58 E-value=2.4e-15 Score=132.25 Aligned_cols=76 Identities=29% Similarity=0.507 Sum_probs=71.9
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHHHHHh
Q 029982 68 AKKDPNKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYN 144 (184)
Q Consensus 68 ~~kdp~~PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em~~Y~ 144 (184)
.+......|||+||||||++..|.+|..+||.+ .+.||+|+||.+|+.|+++||.+|++.|+++|..|.+++.+|+
T Consensus 56 ~k~~~~hIKRPMNAFMVWSq~~RRkma~qnP~m-HNSEISK~LG~~WK~Lse~EKrPFi~EAeRLR~~HmkehPdYK 131 (331)
T KOG0527|consen 56 DKTSTDRIKRPMNAFMVWSQGQRRKLAKQNPKM-HNSEISKRLGAEWKLLSEEEKRPFVDEAERLRAQHMKEYPDYK 131 (331)
T ss_pred CCCCccccCCCcchhhhhhHHHHHHHHHhCcch-hhHHHHHHHHHHHhhcCHhhhccHHHHHHHHHHHHHHhCCCcc
Confidence 445677889999999999999999999999999 7999999999999999999999999999999999999999993
No 13
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=99.12 E-value=1.6e-10 Score=100.51 Aligned_cols=78 Identities=24% Similarity=0.501 Sum_probs=73.3
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHHHHHhhc
Q 029982 68 AKKDPNKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNKK 146 (184)
Q Consensus 68 ~~kdp~~PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em~~Y~~k 146 (184)
..+.|.+|-+|+-+||.|+...+.+++..||.+ -..+|+++||.+|..|++.+|+.|...++..+..|.+.|.+|...
T Consensus 58 ~pkpPkppekpl~pymrySrkvWd~VkA~nPe~-kLWeiGK~Ig~mW~dLpd~EK~ey~~EYeaEKieY~~smkayh~s 135 (410)
T KOG4715|consen 58 RPKPPKPPEKPLMPYMRYSRKVWDQVKASNPEL-KLWEIGKIIGGMWLDLPDEEKQEYLNEYEAEKIEYNESMKAYHNS 135 (410)
T ss_pred CCCCCCCCCcccchhhHHhhhhhhhhhccCcch-HHHHHHHHHHHHHhhCcchHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 345678899999999999999999999999999 599999999999999999999999999999999999999999764
No 14
>KOG3248 consensus Transcription factor TCF-4 [Transcription]
Probab=99.03 E-value=3.2e-10 Score=99.34 Aligned_cols=76 Identities=22% Similarity=0.417 Sum_probs=67.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 029982 74 KPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNKKQEST 150 (184)
Q Consensus 74 ~PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em~~Y~~k~~~~ 150 (184)
-.|+|+|||+|||.+.|..+..+.- ++...+|.++||.+|..||.+|.++|.++|.++++-+...+..|-.....+
T Consensus 191 hiKKPLNAFmlyMKEmRa~vvaEct-lKeSAaiNqiLGrRWH~LSrEEQAKYyElArKerqlH~qlYP~WSARdNYg 266 (421)
T KOG3248|consen 191 HIKKPLNAFMLYMKEMRAKVVAECT-LKESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNYG 266 (421)
T ss_pred cccccHHHHHHHHHHHHHHHHHHhh-hhhHHHHHHHHhHHHhhhhHHHHHHHHHHHHHHHHHHHHhcCCcchhhhhh
Confidence 5689999999999999999999986 446789999999999999999999999999999999999888886554433
No 15
>KOG0528 consensus HMG-box transcription factor SOX5 [Transcription]
Probab=98.72 E-value=3.8e-09 Score=96.16 Aligned_cols=75 Identities=25% Similarity=0.422 Sum_probs=66.3
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 029982 70 KDPNKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNK 145 (184)
Q Consensus 70 kdp~~PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em~~Y~~ 145 (184)
..++--|||+||||+|.++.|..|...+|++ ....|+++||.+|+.|+-.+|++|.+.-.++-..|...++.|+=
T Consensus 321 ss~PHIKRPMNAFMVWAkDERRKILqA~PDM-HNSnISKILGSRWKaMSN~eKQPYYEEQaRLSk~HlEk~PdYrY 395 (511)
T KOG0528|consen 321 SSEPHIKRPMNAFMVWAKDERRKILQAFPDM-HNSNISKILGSRWKAMSNTEKQPYYEEQARLSKLHLEKYPDYRY 395 (511)
T ss_pred CCCccccCCcchhhcccchhhhhhhhcCccc-cccchhHHhcccccccccccccchHHHHHHHHHhhhccCccccc
Confidence 3445669999999999999999999999999 68899999999999999999999998888887788888888754
No 16
>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A.
Probab=98.21 E-value=1.1e-05 Score=57.28 Aligned_cols=75 Identities=21% Similarity=0.278 Sum_probs=62.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 029982 74 KPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNKKQEST 150 (184)
Q Consensus 74 ~PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em~~Y~~k~~~~ 150 (184)
.|..|.+|--||.+..+..+...+++. +..+ .+.+...|++|+..+|-+|...|.++..+|+.+|.+|+...+..
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 578899999999999999999999987 4554 55899999999999999999999999999999999998877654
No 17
>KOG2746 consensus HMG-box transcription factor Capicua and related proteins [Transcription]
Probab=98.12 E-value=2.6e-06 Score=80.45 Aligned_cols=71 Identities=31% Similarity=0.417 Sum_probs=64.9
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHH--HHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHH
Q 029982 68 AKKDPNKPKRPPSAFFVFLEEFR--KVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKL 139 (184)
Q Consensus 68 ~~kdp~~PKRP~SAy~lF~~e~r--~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~e 139 (184)
-+.+..-.+|||+||++|++.+| ..+...||+. ...-|++++|+.|-.|.+.||+.|.++|.+.++.|.++
T Consensus 175 nkr~k~HirrPMnaf~ifskrhr~~g~vhq~~pn~-DNrtIskiLgewWytL~~~Ekq~yhdLa~Qvk~Ahfka 247 (683)
T KOG2746|consen 175 NKRDKDHIRRPMNAFHIFSKRHRGEGRVHQRHPNQ-DNRTISKILGEWWYTLGPNEKQKYHDLAFQVKEAHFKA 247 (683)
T ss_pred CcCcchhhhhhhHHHHHHHhhcCCccchhccCccc-cchhHHHHHhhhHhhhCchhhhhHHHHHHHHHHHHhhh
Confidence 34455667899999999999999 8899999999 68899999999999999999999999999999999886
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=96.96 E-value=0.0018 Score=52.43 Aligned_cols=47 Identities=28% Similarity=0.496 Sum_probs=41.7
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCC
Q 029982 71 DPNKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLT 118 (184)
Q Consensus 71 dp~~PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls 118 (184)
-|.+-.|-+|||..|+.+..+.|+..||++ +..|.....++.|...+
T Consensus 118 PPEKRqR~psaYn~f~k~ei~rik~~~p~i-shkeaFs~aAknW~h~p 164 (170)
T PF04690_consen 118 PPEKRQRVPSAYNRFMKEEIQRIKAENPDI-SHKEAFSAAAKNWAHFP 164 (170)
T ss_pred CccccCCCchhHHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHhhhhCc
Confidence 344556889999999999999999999999 79999999999998765
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=96.92 E-value=0.0029 Score=51.46 Aligned_cols=50 Identities=26% Similarity=0.506 Sum_probs=43.3
Q ss_pred CCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHH
Q 029982 79 PSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRK 133 (184)
Q Consensus 79 ~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k 133 (184)
-+||+-|+.++|. .|.++ +..++....+..|..|++.+|..|..++....
T Consensus 83 nnaYLNFLReFRr----kh~~L-~p~dlI~~AAraW~rLSe~eK~rYrr~~~~~~ 132 (183)
T PF06382_consen 83 NNAYLNFLREFRR----KHCGL-SPQDLIQRAARAWCRLSEAEKNRYRRMAPSVR 132 (183)
T ss_pred chHHHHHHHHHHH----HccCC-CHHHHHHHHHHHHHhCCHHHHHHHHhhcchhh
Confidence 5789999999876 56888 68899999999999999999999998766543
No 20
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=96.82 E-value=0.00096 Score=55.53 Aligned_cols=68 Identities=21% Similarity=0.290 Sum_probs=59.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHHH
Q 029982 73 NKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMT 141 (184)
Q Consensus 73 ~~PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em~ 141 (184)
.+|+.|.-+|.-|-..+|..+...+|.. +..+++++++..|++|++.-|.+|.+.+.+.+..|...|+
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 4567778888888888888888888888 6889999999999999999999999999999999987664
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=96.09 E-value=0.0072 Score=40.28 Aligned_cols=40 Identities=15% Similarity=0.365 Sum_probs=35.9
Q ss_pred CCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCCh
Q 029982 79 PSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTD 119 (184)
Q Consensus 79 ~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~ 119 (184)
+|-|-+|++-.|+.|...||++ .++.+...++.+|++.+.
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 4678899999999999999999 799999999999997654
No 22
>PF06244 DUF1014: Protein of unknown function (DUF1014); InterPro: IPR010422 This family consists of several hypothetical eukaryotic proteins of unknown function.
Probab=91.55 E-value=0.27 Score=37.87 Aligned_cols=49 Identities=20% Similarity=0.311 Sum_probs=42.0
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChH
Q 029982 71 DPNKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDA 120 (184)
Q Consensus 71 dp~~PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~ 120 (184)
|..+-+|-.-||.-|.....+.++.+||++ -.+.+-.+|-..|...|++
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 444456667899999999999999999999 5999999999999887764
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=87.43 E-value=1.2 Score=37.06 Aligned_cols=55 Identities=22% Similarity=0.364 Sum_probs=38.5
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHH
Q 029982 69 KKDPNKPKRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAA 130 (184)
Q Consensus 69 ~kdp~~PKRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~ 130 (184)
+..+..++||+++|++|..-.- ...|+. ...+++..|+..|..=+- |..|.-.|.
T Consensus 38 ~~~~~~~kr~lN~Fm~FRsyy~----~~~~~~-~Qk~~S~~l~~lW~~dp~--k~~W~l~ak 92 (201)
T PF04769_consen 38 KRSPEKAKRPLNGFMAFRSYYS----PIFPPL-PQKELSGILTKLWEKDPF--KNKWSLMAK 92 (201)
T ss_pred cccccccccchhHHHHHHHHHH----hhcCCc-CHHHHHHHHHHHHhCCcc--HhHHHHHhh
Confidence 3345578999999999976654 334666 467999999999987433 455554443
No 24
>KOG3223 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.71 E-value=2.6 Score=35.09 Aligned_cols=50 Identities=30% Similarity=0.432 Sum_probs=43.2
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHH
Q 029982 76 KRPPSAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKA 129 (184)
Q Consensus 76 KRP~SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A 129 (184)
+|=.-||.-|-....+.|+.+||++ ..+++-.+|-..|..-|++ ||.+.+
T Consensus 166 kRmrAA~~afEe~~LPrLK~e~P~l-rlsQ~Kqll~Kew~KsPDN---P~Nq~~ 215 (221)
T KOG3223|consen 166 KRMRAAFKAFEEARLPRLKKENPGL-RLSQYKQLLKKEWQKSPDN---PFNQAA 215 (221)
T ss_pred HHHHHHHHHHHHhhchhhhhcCCCc-cHHHHHHHHHHHHhhCCCC---hhhHHh
Confidence 5667789999999999999999999 6999999999999988876 666554
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=81.04 E-value=4.2 Score=33.39 Aligned_cols=45 Identities=18% Similarity=0.389 Sum_probs=38.6
Q ss_pred cHHHHHH-HHHHHhhcCChHHhHHHHHHHHH-HHHHHHHHHHHHhhc
Q 029982 102 AVSAVGK-AGGEKWKSLTDAEKAPFEAKAAK-RKLDYEKLMTAYNKK 146 (184)
Q Consensus 102 s~~ei~k-~ig~~Wk~ls~~eK~~y~~~A~~-~k~~Y~~em~~Y~~k 146 (184)
.+..+++ .+|..|+.+|+++++.|...... ....|-..+..|...
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 5667776 67999999999999999998888 778899999999653
No 26
>PRK15117 ABC transporter periplasmic binding protein MlaC; Provisional
Probab=80.20 E-value=4.9 Score=33.33 Aligned_cols=48 Identities=25% Similarity=0.370 Sum_probs=40.4
Q ss_pred CCCccHHHHHH-HHHHHhhcCChHHhHHHHHHHHH-HHHHHHHHHHHHhhc
Q 029982 98 PNVKAVSAVGK-AGGEKWKSLTDAEKAPFEAKAAK-RKLDYEKLMTAYNKK 146 (184)
Q Consensus 98 P~~~s~~ei~k-~ig~~Wk~ls~~eK~~y~~~A~~-~k~~Y~~em~~Y~~k 146 (184)
|.. .+..+++ .+|..|+.+|+++++.|...-.. ...-|-..+..|...
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 666 6777876 57999999999999999987776 667899999999654
No 27
>PHA02608 67 prohead core protein; Provisional
Probab=76.27 E-value=4 Score=29.06 Aligned_cols=29 Identities=17% Similarity=0.059 Sum_probs=16.5
Q ss_pred hcCChHHhHHHHHHHHHHHHHHHHHHHHH
Q 029982 115 KSLTDAEKAPFEAKAAKRKLDYEKLMTAY 143 (184)
Q Consensus 115 k~ls~~eK~~y~~~A~~~k~~Y~~em~~Y 143 (184)
+.|-...|..|..++.+--..++....+.
T Consensus 11 ~DLV~akK~F~~~Me~rt~~li~e~k~eI 39 (80)
T PHA02608 11 GDLVEAKKEFASIMEARTEALIEEEKVEI 39 (80)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556667777777666544444444433
No 28
>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=67.07 E-value=7.3 Score=30.67 Aligned_cols=47 Identities=17% Similarity=0.351 Sum_probs=35.1
Q ss_pred CCCccHHHHHHH-HHHHhhcCChHHhHHHHHHHHH-HHHHHHHHHHHHhh
Q 029982 98 PNVKAVSAVGKA-GGEKWKSLTDAEKAPFEAKAAK-RKLDYEKLMTAYNK 145 (184)
Q Consensus 98 P~~~s~~ei~k~-ig~~Wk~ls~~eK~~y~~~A~~-~k~~Y~~em~~Y~~ 145 (184)
|.. .+..+++. +|..|+.||+++++.|...... ....|-..+..|..
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 444 56666665 6889999999999999987776 66789999999964
No 29
>PF13875 DUF4202: Domain of unknown function (DUF4202)
Probab=53.49 E-value=31 Score=28.43 Aligned_cols=40 Identities=18% Similarity=0.381 Sum_probs=33.3
Q ss_pred CHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCChHHhH
Q 029982 80 SAFFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLTDAEKA 123 (184)
Q Consensus 80 SAy~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~ 123 (184)
-+.++|+......|...|. -.-+..+|...|+.||+.-++
T Consensus 130 vacLVFL~~~f~~F~~~~d----eeK~v~Il~KTw~KMS~~g~~ 169 (185)
T PF13875_consen 130 VACLVFLEYYFEDFAAKHD----EEKIVDILRKTWRKMSERGHE 169 (185)
T ss_pred hHHHHhHHHHHHHHHhcCC----HHHHHHHHHHHHHHCCHHHHH
Confidence 4689999999999998883 346788999999999988664
No 30
>COG2854 Ttg2D ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=49.99 E-value=21 Score=29.76 Aligned_cols=43 Identities=12% Similarity=0.187 Sum_probs=36.0
Q ss_pred HHHHHHhhcCChHHhHHHHHHHHH-HHHHHHHHHHHHhhcCCCC
Q 029982 108 KAGGEKWKSLTDAEKAPFEAKAAK-RKLDYEKLMTAYNKKQEST 150 (184)
Q Consensus 108 k~ig~~Wk~ls~~eK~~y~~~A~~-~k~~Y~~em~~Y~~k~~~~ 150 (184)
..+|.-|+.+|+++++.|...... ....|-..+..|+.+...-
T Consensus 78 ~vLGk~~k~aspeQ~~~F~~aF~~yl~q~Y~~aL~~Y~~q~~~v 121 (202)
T COG2854 78 LVLGKYYKTASPEQRQAFFKAFRTYLEQTYGQALLDYKGQTLKV 121 (202)
T ss_pred HHhccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHccCCCcee
Confidence 457899999999999999987776 6678999999998875543
No 31
>PF04871 Uso1_p115_C: Uso1 / p115 like vesicle tethering protein, C terminal region; InterPro: IPR006955 This domain identifies a group of proteins, which are described as: General vesicular transport factor, Transcytosis associate protein (TAP) and Vesicle docking protein. This myosin-shaped molecule consists of an N-terminal globular head region, a coiled-coil tail which mediates dimerisation, and a short C-terminal acidic region []. p115 tethers COP1 vesicles to the Golgi by binding the coiled coil proteins giantin (on the vesicles) and GM130 (on the Golgi), via its C-terminal acidic region. It is required for intercisternal transport in the Golgi stack. This domain is found in the acidic C-terminal region, which binds to the golgins giantin and GM130. p115 is thought to juxtapose two membranes by binding giantin with one acidic region, and GM130 with another [].; GO: 0008565 protein transporter activity, 0006886 intracellular protein transport, 0005737 cytoplasm, 0016020 membrane
Probab=42.19 E-value=14 Score=28.69 Aligned_cols=11 Identities=9% Similarity=0.280 Sum_probs=5.0
Q ss_pred HHHHHHhhcCC
Q 029982 138 KLMTAYNKKQE 148 (184)
Q Consensus 138 ~em~~Y~~k~~ 148 (184)
..+..|+..+.
T Consensus 98 ~K~~kyk~rLk 108 (136)
T PF04871_consen 98 EKRKKYKERLK 108 (136)
T ss_pred HHHHHHHHHHH
Confidence 33444555444
No 32
>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=38.94 E-value=42 Score=21.57 Aligned_cols=26 Identities=27% Similarity=0.585 Sum_probs=18.7
Q ss_pred cHHHHHHHHHHHhhcCChHHhHHHHHHHHHH
Q 029982 102 AVSAVGKAGGEKWKSLTDAEKAPFEAKAAKR 132 (184)
Q Consensus 102 s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~ 132 (184)
+..||.. |+.|++.+|..........
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 4566665 9999999988776655443
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=37.57 E-value=83 Score=28.10 Aligned_cols=50 Identities=14% Similarity=0.147 Sum_probs=36.0
Q ss_pred HhCCCCccHHHHHHHHHHHhhcCChHHhHHHHHHHHHHHH-HHHHHHHHHhh
Q 029982 95 QEHPNVKAVSAVGKAGGEKWKSLTDAEKAPFEAKAAKRKL-DYEKLMTAYNK 145 (184)
Q Consensus 95 ~e~P~~~s~~ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~-~Y~~em~~Y~~ 145 (184)
...|.+ ++.|-..+.-+.|...|.-+|..|+++|++-.+ +-+.+|+.-+-
T Consensus 245 r~kPtM-tlEeGl~ra~qEW~~~SnfdRmifyemaekFmEFEaeEEmq~q~l 295 (328)
T PF12881_consen 245 RLKPTM-TLEEGLWRAVQEWQHTSNFDRMIFYEMAEKFMEFEAEEEMQIQKL 295 (328)
T ss_pred hcCCCc-cHHHHHHHHHHHhhccccccHHHHHHHHHHHccCCcHHHHHHHHH
Confidence 344666 577777778899999999999999999998654 12245554433
No 34
>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=36.72 E-value=1.4e+02 Score=22.10 Aligned_cols=18 Identities=22% Similarity=0.497 Sum_probs=7.5
Q ss_pred HHHHhhcCChHHhHHHHH
Q 029982 110 GGEKWKSLTDAEKAPFEA 127 (184)
Q Consensus 110 ig~~Wk~ls~~eK~~y~~ 127 (184)
+...|..|++..+..|..
T Consensus 16 l~~~W~~l~~~qr~k~l~ 33 (107)
T PF11304_consen 16 LAERWNSLPPEQRRKWLQ 33 (107)
T ss_pred HHHHHhcCCHHHHHHHHH
Confidence 334444444444444333
No 35
>PF07599 DUF1563: Protein of unknown function (DUF1563); InterPro: IPR011457 This is a small family of short hypothetical proteins in Leptospira interrogans.
Probab=36.39 E-value=14 Score=22.88 Aligned_cols=12 Identities=25% Similarity=0.418 Sum_probs=9.1
Q ss_pred Ccchhhhhhhcc
Q 029982 1 MKWLLTTFCCFT 12 (184)
Q Consensus 1 ~~~~~~~~~~~~ 12 (184)
||.||+.||-|+
T Consensus 1 mniiL~~FFLL~ 12 (43)
T PF07599_consen 1 MNIILIGFFLLE 12 (43)
T ss_pred CcchhhHHHHHH
Confidence 788888887664
No 36
>PRK09706 transcriptional repressor DicA; Reviewed
Probab=30.60 E-value=1.5e+02 Score=22.20 Aligned_cols=44 Identities=18% Similarity=0.191 Sum_probs=38.7
Q ss_pred HHHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 029982 105 AVGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNKKQE 148 (184)
Q Consensus 105 ei~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em~~Y~~k~~ 148 (184)
.-.+.+-..|+.|+++++.............|...+.+|-.+..
T Consensus 87 ~~~~~ll~~~~~L~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~ 130 (135)
T PRK09706 87 EDQKELLELFDALPESEQDAQLSEMRARVENFNKLFEELLKARK 130 (135)
T ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44578889999999999999999999999999999999977644
No 37
>PF15243 ANAPC15: Anaphase-promoting complex subunit 15
Probab=30.26 E-value=95 Score=22.72 Aligned_cols=27 Identities=19% Similarity=0.276 Sum_probs=13.4
Q ss_pred HhhcCChHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 029982 113 KWKSLTDAEKAPFEAKAAKRKLDYEKLMTAYNK 145 (184)
Q Consensus 113 ~Wk~ls~~eK~~y~~~A~~~k~~Y~~em~~Y~~ 145 (184)
.|=+|. +++.+.++- .+++.+.++|..
T Consensus 16 lwf~~d----~pc~dE~EL--~~~Eq~~q~Wl~ 42 (92)
T PF15243_consen 16 LWFNLD----RPCVDETEL--QQQEQQHQAWLQ 42 (92)
T ss_pred ccccCC----CccchHHHH--HHHHHHHHHHHH
Confidence 476665 455544432 234445555533
No 38
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=25.56 E-value=32 Score=36.48 Aligned_cols=25 Identities=12% Similarity=-0.016 Sum_probs=16.9
Q ss_pred hhhhhhhccccchhhhhhhccCCcc
Q 029982 4 LLTTFCCFTSGISLLKMKVTRGKGA 28 (184)
Q Consensus 4 ~~~~~~~~~~~~~~~~~k~~k~k~~ 28 (184)
++|+-|+|-.++.+.-.|.+--|..
T Consensus 1493 ~~T~aii~ldpLa~s~i~aaed~td 1517 (3015)
T KOG0943|consen 1493 KCTAAIILLDPLAGSLIKAAEDKTD 1517 (3015)
T ss_pred HHhHHhhhccccchHHHHHhhCCCC
Confidence 4566667777777777776666654
No 39
>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=25.06 E-value=62 Score=19.91 Aligned_cols=28 Identities=21% Similarity=0.274 Sum_probs=15.6
Q ss_pred HHHHHHHHH-HHhhcCChHHhHHHHHHHH
Q 029982 103 VSAVGKAGG-EKWKSLTDAEKAPFEAKAA 130 (184)
Q Consensus 103 ~~ei~k~ig-~~Wk~ls~~eK~~y~~~A~ 130 (184)
|.+|+.-++ +.|..|.+.+|.-|.+...
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 334444444 5699999999998887543
No 40
>PRK12750 cpxP periplasmic repressor CpxP; Reviewed
Probab=24.07 E-value=3.1e+02 Score=21.98 Aligned_cols=35 Identities=20% Similarity=0.209 Sum_probs=29.2
Q ss_pred HHHHHHHHhhcCChHHhHHHHHHHHHHHHHHHHHH
Q 029982 106 VGKAGGEKWKSLTDAEKAPFEAKAAKRKLDYEKLM 140 (184)
Q Consensus 106 i~k~ig~~Wk~ls~~eK~~y~~~A~~~k~~Y~~em 140 (184)
+.+...+.+.-|++++|+.|.+...+....|...+
T Consensus 126 ~~~~~~~~~~vLTpEQRak~~e~~~~r~~~~~~~~ 160 (170)
T PRK12750 126 MLEKRHQMLSILTPEQKAKFQELQQERMQECQDKM 160 (170)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455667999999999999999988888888777
No 41
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=23.55 E-value=38 Score=33.53 Aligned_cols=15 Identities=27% Similarity=0.463 Sum_probs=8.0
Q ss_pred HHHHHHHHHhhcCCh
Q 029982 105 AVGKAGGEKWKSLTD 119 (184)
Q Consensus 105 ei~k~ig~~Wk~ls~ 119 (184)
+|+-..-+.|-++.+
T Consensus 271 ~VALEACEFwla~ae 285 (885)
T KOG2023|consen 271 NVALEACEFWLALAE 285 (885)
T ss_pred hHHHHHHHHHHHHhc
Confidence 345555666655443
No 42
>KOG3838 consensus Mannose lectin ERGIC-53, involved in glycoprotein traffic [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.65 E-value=1.1e+02 Score=28.47 Aligned_cols=37 Identities=19% Similarity=0.352 Sum_probs=28.9
Q ss_pred cCChHHhHHHHHHHHHHHHHHHHHHHHHhhcCCCCcc
Q 029982 116 SLTDAEKAPFEAKAAKRKLDYEKLMTAYNKKQESTED 152 (184)
Q Consensus 116 ~ls~~eK~~y~~~A~~~k~~Y~~em~~Y~~k~~~~~~ 152 (184)
+|.+.+|++|.+..+.....|++...+|.+.++....
T Consensus 268 E~qe~ek~kyqeEfe~~q~elek~k~efkk~hpd~~~ 304 (497)
T KOG3838|consen 268 EMQELEKAKYQEEFEWAQLELEKRKDEFKKSHPDAQG 304 (497)
T ss_pred hhhHHHHHHHHHHHHHHHHHHhhhHhhhccCCchhhc
Confidence 3556688899988888888888888888887775443
No 43
>PF00887 ACBP: Acyl CoA binding protein; InterPro: IPR000582 Acyl-CoA-binding protein (ACBP) is a small (10 Kd) protein that binds medium- and long-chain acyl-CoA esters with very high affinity and may function as an intracellular carrier of acyl-CoA esters []. ACBP is also known as diazepam binding inhibitor (DBI) or endozepine (EP) because of its ability to displace diazepam from the benzodiazepine (BZD) recognition site located on the GABA type A receptor. It is therefore possible that this protein also acts as a neuropeptide to modulate the action of the GABA receptor []. ACBP is a highly conserved protein of about 90 residues that is found in all four eukaryotic kingdoms, Animalia, Plantae, Fungi and Protista, and in some eubacterial species []. Although ACBP occurs as a completely independent protein, intact ACB domains have been identified in a number of large, multifunctional proteins in a variety of eukaryotic species. These include large membrane-associated proteins with N-terminal ACB domains, multifunctional enzymes with both ACB and peroxisomal enoyl-CoA Delta(3), Delta(2)-enoyl-CoA isomerase domains, and proteins with both an ACB domain and ankyrin repeats (IPR002110 from INTERPRO) []. The ACB domain consists of four alpha-helices arranged in a bowl shape with a highly exposed acyl-CoA-binding site. The ligand is bound through specific interactions with residues on the protein, most notably several conserved positive charges that interact with the phosphate group on the adenosine-3'phosphate moiety, and the acyl chain is sandwiched between the hydrophobic surfaces of CoA and the protein []. Other proteins containing an ACB domain include: Endozepine-like peptide (ELP) (gene DBIL5) from mouse []. ELP is a testis-specific ACBP homologue that may be involved in the energy metabolism of the mature sperm. MA-DBI, a transmembrane protein of unknown function which has been found in mammals. MA-DBI contains a N-terminal ACB domain. DRS-1 [], a human protein of unknown function that contains a N-terminal ACB domain and a C-terminal enoyl-CoA isomerase/hydratase domain. ; GO: 0000062 fatty-acyl-CoA binding; PDB: 2CB8_A 2FJ9_A 2LBB_A 1ST7_A 3EPY_B 2FDQ_C 1NTI_A 1HB8_A 1ACA_A 1NVL_A ....
Probab=21.34 E-value=2.4e+02 Score=19.57 Aligned_cols=53 Identities=13% Similarity=0.283 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHhhcCC----hHHhHHHHHHHHHHHHHH
Q 029982 82 FFVFLEEFRKVYKQEHPNVKAVSAVGKAGGEKWKSLT----DAEKAPFEAKAAKRKLDY 136 (184)
Q Consensus 82 y~lF~~e~r~~~k~e~P~~~s~~ei~k~ig~~Wk~ls----~~eK~~y~~~A~~~k~~Y 136 (184)
|-||.+.....+....|+. +.-+.+.--..|+.+. ++-++.|.+...+....|
T Consensus 30 YalyKQAt~Gd~~~~~P~~--~d~~~~~K~~AW~~l~gms~~eA~~~Yi~~v~~~~~~~ 86 (87)
T PF00887_consen 30 YALYKQATHGDCDTPRPGF--FDIEGRAKWDAWKALKGMSKEEAMREYIELVEELIPKY 86 (87)
T ss_dssp HHHHHHHHTSS--S-CTTT--TCHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhCCCcCCCCcc--hhHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHhc
Confidence 6666666655555555654 3334555567787765 334566666666665554
No 44
>KOG1834 consensus Calsyntenin [Extracellular structures]
Probab=20.64 E-value=52 Score=32.51 Aligned_cols=14 Identities=29% Similarity=0.337 Sum_probs=8.3
Q ss_pred HHHHHHhhcCCCCc
Q 029982 138 KLMTAYNKKQESTE 151 (184)
Q Consensus 138 ~em~~Y~~k~~~~~ 151 (184)
.-|..|.+.+...+
T Consensus 882 NPme~~e~~gs~ee 895 (952)
T KOG1834|consen 882 NPMEDYEKGGSIEE 895 (952)
T ss_pred cchHhcccCCcccc
Confidence 44677777555443
Done!