Query 031906
Match_columns 150
No_of_seqs 204 out of 1138
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 06:59:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031906.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031906hhsearch_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 1.3E-25 2.9E-30 154.6 11.1 89 18-107 3-93 (94)
2 cd01389 MATA_HMG-box MATA_HMG- 99.9 2.5E-21 5.5E-26 128.3 7.7 73 37-110 1-73 (77)
3 cd01388 SOX-TCF_HMG-box SOX-TC 99.8 8.4E-21 1.8E-25 124.4 7.7 69 38-107 2-70 (72)
4 PF00505 HMG_box: HMG (high mo 99.8 2.6E-20 5.7E-25 120.1 8.5 69 38-107 1-69 (69)
5 cd01390 HMGB-UBF_HMG-box HMGB- 99.8 6.5E-20 1.4E-24 117.2 8.6 65 38-103 1-65 (66)
6 PF09011 HMG_box_2: HMG-box do 99.8 8.6E-20 1.9E-24 119.9 8.5 72 35-107 1-73 (73)
7 smart00398 HMG high mobility g 99.8 1.2E-19 2.5E-24 116.8 8.8 70 37-107 1-70 (70)
8 COG5648 NHP6B Chromatin-associ 99.8 4.3E-20 9.3E-25 141.7 7.6 90 25-115 58-147 (211)
9 KOG0381 HMG box-containing pro 99.8 9E-18 2E-22 115.2 10.5 76 34-110 17-95 (96)
10 cd00084 HMG-box High Mobility 99.8 6.6E-18 1.4E-22 107.4 8.5 65 38-103 1-65 (66)
11 KOG0527 HMG-box transcription 99.7 4.2E-18 9.2E-23 140.0 6.1 82 30-112 55-136 (331)
12 KOG0526 Nucleosome-binding fac 99.7 1.3E-16 2.9E-21 136.0 7.1 78 26-108 524-601 (615)
13 KOG3248 Transcription factor T 99.3 3.4E-12 7.3E-17 104.3 5.5 76 37-113 191-266 (421)
14 KOG4715 SWI/SNF-related matrix 99.2 3.1E-11 6.7E-16 98.0 7.2 81 30-111 57-137 (410)
15 KOG0528 HMG-box transcription 99.1 2.4E-11 5.2E-16 103.1 2.7 79 34-113 322-400 (511)
16 KOG2746 HMG-box transcription 98.6 3.2E-08 7E-13 87.1 4.6 77 25-102 169-247 (683)
17 PF14887 HMG_box_5: HMG (high 98.4 2.6E-06 5.7E-11 56.1 7.9 75 37-113 3-77 (85)
18 PF04690 YABBY: YABBY protein; 97.6 0.00044 9.5E-09 52.3 7.6 50 32-82 116-165 (170)
19 PF06382 DUF1074: Protein of u 97.4 0.00085 1.8E-08 50.9 7.2 49 42-95 83-131 (183)
20 COG5648 NHP6B Chromatin-associ 97.1 0.00037 8.1E-09 54.1 2.8 69 35-104 141-209 (211)
21 PF08073 CHDNT: CHDNT (NUC034) 96.3 0.0044 9.6E-08 38.4 2.7 40 42-82 13-52 (55)
22 PF06244 DUF1014: Protein of u 94.5 0.058 1.3E-06 38.8 3.8 46 37-83 72-117 (122)
23 PF04769 MAT_Alpha1: Mating-ty 94.2 0.097 2.1E-06 40.7 4.8 55 31-92 37-91 (201)
24 TIGR03481 HpnM hopanoid biosyn 89.2 1 2.3E-05 34.7 5.4 46 64-109 64-111 (198)
25 PRK15117 ABC transporter perip 87.4 1.6 3.5E-05 34.0 5.5 46 64-109 68-115 (211)
26 KOG3223 Uncharacterized conser 84.8 1.3 2.9E-05 34.2 3.6 53 36-92 162-215 (221)
27 PF05494 Tol_Tol_Ttg2: Toluene 81.9 2.7 5.8E-05 31.2 4.3 45 64-108 38-84 (170)
28 COG2854 Ttg2D ABC-type transpo 68.8 7.7 0.00017 30.3 3.8 44 71-114 78-122 (202)
29 PF12881 NUT_N: NUT protein N 65.9 16 0.00036 30.3 5.3 67 42-109 229-296 (328)
30 PF11304 DUF3106: Protein of u 58.4 37 0.00081 23.5 5.4 41 68-108 11-58 (107)
31 PF13875 DUF4202: Domain of un 57.2 17 0.00037 28.0 3.7 39 44-86 131-169 (185)
32 KOG0717 Molecular chaperone (D 47.4 19 0.00041 31.7 2.9 15 134-148 284-299 (508)
33 PRK10363 cpxP periplasmic repr 43.2 55 0.0012 24.8 4.5 39 68-107 112-150 (166)
34 PRK12751 cpxP periplasmic stre 40.8 52 0.0011 24.7 4.1 31 70-100 120-150 (162)
35 PRK09706 transcriptional repre 36.9 85 0.0018 22.1 4.6 44 68-111 87-130 (135)
36 PF01352 KRAB: KRAB box; Inte 35.4 23 0.00049 20.3 1.1 28 66-93 3-31 (41)
37 PRK12750 cpxP periplasmic repr 35.1 83 0.0018 23.7 4.5 33 71-103 128-160 (170)
38 PF00887 ACBP: Acyl CoA bindin 33.6 1.2E+02 0.0027 19.7 4.7 53 45-99 30-86 (87)
39 KOG1827 Chromatin remodeling c 33.5 3.3 7.2E-05 37.4 -3.9 44 41-85 552-595 (629)
40 PRK10236 hypothetical protein; 33.2 34 0.00074 27.3 2.2 25 69-93 118-142 (237)
41 PF09164 VitD-bind_III: Vitami 30.6 1.5E+02 0.0033 19.0 4.7 33 43-76 9-41 (68)
42 KOG1610 Corticosteroid 11-beta 29.2 1.3E+02 0.0029 25.1 5.0 50 47-96 187-248 (322)
43 PF12650 DUF3784: Domain of un 27.7 40 0.00087 22.5 1.5 16 76-91 25-40 (97)
44 PF13216 DUF4024: Protein of u 26.4 22 0.00048 19.3 0.0 9 142-150 17-25 (35)
45 PF06945 DUF1289: Protein of u 25.9 52 0.0011 19.6 1.6 24 65-93 23-46 (51)
46 TIGR00787 dctP tripartite ATP- 25.6 1.3E+02 0.0029 23.4 4.4 28 74-101 213-240 (257)
47 cd07081 ALDH_F20_ACDH_EutE-lik 25.5 1.5E+02 0.0032 25.6 4.9 44 68-111 6-49 (439)
48 KOG3838 Mannose lectin ERGIC-5 25.0 75 0.0016 27.6 2.9 33 80-112 269-301 (497)
49 COG1638 DctP TRAP-type C4-dica 21.8 1.6E+02 0.0034 24.6 4.2 37 74-110 244-280 (332)
50 cd07133 ALDH_CALDH_CalB Conife 21.3 2.3E+02 0.005 24.2 5.3 43 68-110 5-47 (434)
51 cd07132 ALDH_F3AB Aldehyde deh 20.6 2.2E+02 0.0049 24.3 5.1 44 68-111 5-48 (443)
No 1
>PTZ00199 high mobility group protein; Provisional
Probab=99.93 E-value=1.3e-25 Score=154.63 Aligned_cols=89 Identities=44% Similarity=0.696 Sum_probs=82.6
Q ss_pred CCCCcccccccCCCCCCCCCCCCCCChHHHHHHHHHHHHHHhCCCCCC--HHHHHHHHHhhhcCCChhhhhHHHHHHHHH
Q 031906 18 NKKPAKAGRKSGKAAKDPNKPKRPASAFFVFMEEFREQYKKDHPKNKS--VAAVGKAGGEKWKSMSEADKAPYVAKAEKR 95 (150)
Q Consensus 18 ~k~~~~~~k~~~k~~~dp~~PKrP~sAy~lF~~e~r~~~~~~~p~~~~--~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~ 95 (150)
++.+++.+++++++.+||++||||+|||+||++++|..|..+||+ ++ +.+|+++||++|+.||+++|++|.++|..+
T Consensus 3 ~~~~~~~~k~~~k~~kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~-~~~~~~evsk~ige~Wk~ls~eeK~~y~~~A~~d 81 (94)
T PTZ00199 3 KKQGKVLVRKNKRKKKDPNAPKRALSAYMFFAKEKRAEIIAENPE-LAKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQED 81 (94)
T ss_pred ccccCccccccCCCCCCCCCCCCCCcHHHHHHHHHHHHHHHHCcC-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 345666777778889999999999999999999999999999999 64 899999999999999999999999999999
Q ss_pred HHHHHHHHHHhH
Q 031906 96 KVEYEKDMKNYN 107 (150)
Q Consensus 96 k~~y~~e~~~y~ 107 (150)
+.+|..+|.+|+
T Consensus 82 k~rY~~e~~~Y~ 93 (94)
T PTZ00199 82 KVRYEKEKAEYA 93 (94)
T ss_pred HHHHHHHHHHHh
Confidence 999999999995
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=99.85 E-value=2.5e-21 Score=128.35 Aligned_cols=73 Identities=26% Similarity=0.423 Sum_probs=70.1
Q ss_pred CCCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHHHhHHhc
Q 031906 37 KPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQ 110 (150)
Q Consensus 37 ~PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~~~~ 110 (150)
.||||+||||||+++.|..|+.+||+ +++.+|+++||.+|+.|++++|++|.++|..++++|..++++|+-..
T Consensus 1 ~~kRP~naf~lf~~~~r~~~~~~~p~-~~~~eisk~~g~~Wk~ls~eeK~~y~~~A~~~k~~~~~~~p~Yky~p 73 (77)
T cd01389 1 KIPRPRNAFILYRQDKHAQLKTENPG-LTNNEISRIIGRMWRSESPEVKAYYKELAEEEKERHAREYPDYKYTP 73 (77)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHCCC-CCHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHCCCCcccC
Confidence 48999999999999999999999999 89999999999999999999999999999999999999999998643
No 3
>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=99.84 E-value=8.4e-21 Score=124.40 Aligned_cols=69 Identities=33% Similarity=0.552 Sum_probs=67.3
Q ss_pred CCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHHHhH
Q 031906 38 PKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYN 107 (150)
Q Consensus 38 PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~ 107 (150)
.|||+||||+|++++|..|+.+||+ +++.+|+++||++|+.||+++|++|.++|..++++|..++++|+
T Consensus 2 iKrP~naf~~F~~~~r~~~~~~~p~-~~~~eisk~l~~~Wk~ls~~eK~~y~~~a~~~k~~y~~~~p~y~ 70 (72)
T cd01388 2 IKRPMNAFMLFSKRHRRKVLQEYPL-KENRAISKILGDRWKALSNEEKQPYYEEAKKLKELHMKLYPDYK 70 (72)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHCcCCC
Confidence 6899999999999999999999999 89999999999999999999999999999999999999999986
No 4
>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=99.83 E-value=2.6e-20 Score=120.14 Aligned_cols=69 Identities=42% Similarity=0.758 Sum_probs=65.7
Q ss_pred CCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHHHhH
Q 031906 38 PKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYN 107 (150)
Q Consensus 38 PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~ 107 (150)
|+||+|||+||+.+.+..++.+||+ ++..+|+++||.+|++||+++|++|.+.|..++.+|..+++.|+
T Consensus 1 PkrP~~af~lf~~~~~~~~k~~~p~-~~~~~i~~~~~~~W~~l~~~eK~~y~~~a~~~~~~y~~~~~~y~ 69 (69)
T PF00505_consen 1 PKRPPNAFMLFCKEKRAKLKEENPD-LSNKEISKILAQMWKNLSEEEKAPYKEEAEEEKERYEKEMPEYK 69 (69)
T ss_dssp SSSS--HHHHHHHHHHHHHHHHSTT-STHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcCCCCHHHHHHHHHHHHHHHHhcc-cccccchhhHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 8999999999999999999999999 89999999999999999999999999999999999999999995
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=99.82 E-value=6.5e-20 Score=117.24 Aligned_cols=65 Identities=54% Similarity=0.844 Sum_probs=63.6
Q ss_pred CCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHH
Q 031906 38 PKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDM 103 (150)
Q Consensus 38 PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~ 103 (150)
||+|+|||++|++++|..++..||+ +++.+|++.||.+|+.||+++|++|.+.|..++.+|..+|
T Consensus 1 Pkrp~saf~~f~~~~r~~~~~~~p~-~~~~~i~~~~~~~W~~ls~~eK~~y~~~a~~~~~~y~~e~ 65 (66)
T cd01390 1 PKRPLSAYFLFSQEQRPKLKKENPD-ASVTEVTKILGEKWKELSEEEKKKYEEKAEKDKERYEKEM 65 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcC-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhh
Confidence 8999999999999999999999999 8999999999999999999999999999999999999886
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=99.82 E-value=8.6e-20 Score=119.87 Aligned_cols=72 Identities=46% Similarity=0.807 Sum_probs=63.9
Q ss_pred CCCCCCCCChHHHHHHHHHHHHHHh-CCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHHHhH
Q 031906 35 PNKPKRPASAFFVFMEEFREQYKKD-HPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYN 107 (150)
Q Consensus 35 p~~PKrP~sAy~lF~~e~r~~~~~~-~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~ 107 (150)
|++||+|+|||+||+.+++..++.. ++. .++.++++.|+..|++||+++|.+|.++|..++.+|..+|..|+
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 PKKPKRPPSAYNLFMKEMRKEVKEEGGQK-QSFREVMKEISERWKSLSEEEKEPYEERAKEDKERYEREMKEWN 73 (73)
T ss_dssp SSS--SSSSHHHHHHHHHHHHHHHHT-T--SSHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred CcCCCCCCCHHHHHHHHHHHHHHHhcccC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 7899999999999999999999988 665 78999999999999999999999999999999999999999985
No 7
>smart00398 HMG high mobility group.
Probab=99.81 E-value=1.2e-19 Score=116.81 Aligned_cols=70 Identities=49% Similarity=0.806 Sum_probs=67.9
Q ss_pred CCCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHHHhH
Q 031906 37 KPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYN 107 (150)
Q Consensus 37 ~PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~ 107 (150)
+|++|+|||++|++++|..+..+||+ +++.+|+++||.+|+.|++++|++|.++|..++.+|..++..|+
T Consensus 1 ~pkrp~~~y~~f~~~~r~~~~~~~~~-~~~~~i~~~~~~~W~~l~~~ek~~y~~~a~~~~~~y~~~~~~y~ 70 (70)
T smart00398 1 KPKRPMSAFMLFSQENRAKIKAENPD-LSNAEISKKLGERWKLLSEEEKAPYEEKAKKDKERYEEEMPEYK 70 (70)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHHCcC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 58999999999999999999999999 89999999999999999999999999999999999999999884
No 8
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=99.81 E-value=4.3e-20 Score=141.71 Aligned_cols=90 Identities=33% Similarity=0.704 Sum_probs=85.5
Q ss_pred ccccCCCCCCCCCCCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHH
Q 031906 25 GRKSGKAAKDPNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMK 104 (150)
Q Consensus 25 ~k~~~k~~~dp~~PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~ 104 (150)
.+..++..+|||.||||+|||++|+.++|.+|+..+|. +++.+|+++||++|++|++++|++|...|..++++|..++.
T Consensus 58 sk~~~r~k~dpN~PKRp~sayf~y~~~~R~ei~~~~p~-l~~~e~~k~~~e~WK~Ltd~eke~y~k~~~~~~erYq~ek~ 136 (211)
T COG5648 58 SKRLVRKKKDPNGPKRPLSAYFLYSAENRDEIRKENPK-LTFGEVGKLLSEKWKELTDEEKEPYYKEANSDRERYQREKE 136 (211)
T ss_pred HHHHHHHhcCCCCCCCchhHHHHHHHHHHHHHHHhCCC-CChHHHHHHHHHHHHhccHhhhhhHHHHHhhHHHHHHHHHH
Confidence 35667889999999999999999999999999999999 89999999999999999999999999999999999999999
Q ss_pred HhHHhcCCCCC
Q 031906 105 NYNRRQAEGTK 115 (150)
Q Consensus 105 ~y~~~~~~~~~ 115 (150)
.|..+.+.+..
T Consensus 137 ~y~~k~~~~~~ 147 (211)
T COG5648 137 EYNKKLPNKAP 147 (211)
T ss_pred hhhcccCCCCC
Confidence 99999988665
No 9
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=99.76 E-value=9e-18 Score=115.16 Aligned_cols=76 Identities=47% Similarity=0.788 Sum_probs=72.6
Q ss_pred CC--CCCCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHH-HhHHhc
Q 031906 34 DP--NKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMK-NYNRRQ 110 (150)
Q Consensus 34 dp--~~PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~-~y~~~~ 110 (150)
|| +.|++|+|||++|+.+.|..++.+||+ +++.+|+++||.+|++|++++|++|...|..++.+|..+|. .|+..+
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 DPNAQAPKRPLSAFFLFSSEQRSKIKAENPG-LSVGEVAKALGEMWKNLAEEEKQPYEEKASKLKEKYEKELAGEYKASL 95 (96)
T ss_pred CCCCCCCCCCCcHHHHHHHHHHHHHHHhCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 66 599999999999999999999999999 99999999999999999999999999999999999999999 888754
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=99.75 E-value=6.6e-18 Score=107.40 Aligned_cols=65 Identities=51% Similarity=0.812 Sum_probs=63.0
Q ss_pred CCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHH
Q 031906 38 PKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDM 103 (150)
Q Consensus 38 PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~ 103 (150)
|++|+|||++|+++.|..+...||+ ++..+|++.||.+|+.|++++|.+|.+.|..++..|..++
T Consensus 1 pkrp~~af~~f~~~~~~~~~~~~~~-~~~~~i~~~~~~~W~~l~~~~k~~y~~~a~~~~~~y~~~~ 65 (66)
T cd00084 1 PKRPLSAYFLFSQEHRAEVKAENPG-LSVGEISKILGEMWKSLSEEEKKKYEEKAEKDKERYEKEM 65 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcC-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhh
Confidence 8999999999999999999999999 8999999999999999999999999999999999998775
No 11
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=99.73 E-value=4.2e-18 Score=140.05 Aligned_cols=82 Identities=30% Similarity=0.556 Sum_probs=76.2
Q ss_pred CCCCCCCCCCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHHHhHHh
Q 031906 30 KAAKDPNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRR 109 (150)
Q Consensus 30 k~~~dp~~PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~~~ 109 (150)
......++.||||||||+|.+..|.+|..+||+ +.+.||+|+||.+|+.|+++||.+|+++|++++..|.+++.+|+-+
T Consensus 55 ~~k~~~~hIKRPMNAFMVWSq~~RRkma~qnP~-mHNSEISK~LG~~WK~Lse~EKrPFi~EAeRLR~~HmkehPdYKYR 133 (331)
T KOG0527|consen 55 KDKTSTDRIKRPMNAFMVWSQGQRRKLAKQNPK-MHNSEISKRLGAEWKLLSEEEKRPFVDEAERLRAQHMKEYPDYKYR 133 (331)
T ss_pred cCCCCccccCCCcchhhhhhHHHHHHHHHhCcc-hhhHHHHHHHHHHHhhcCHhhhccHHHHHHHHHHHHHHhCCCcccc
Confidence 345566799999999999999999999999999 8999999999999999999999999999999999999999999976
Q ss_pred cCC
Q 031906 110 QAE 112 (150)
Q Consensus 110 ~~~ 112 (150)
-..
T Consensus 134 PRR 136 (331)
T KOG0527|consen 134 PRR 136 (331)
T ss_pred ccc
Confidence 543
No 12
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=99.66 E-value=1.3e-16 Score=136.00 Aligned_cols=78 Identities=46% Similarity=0.745 Sum_probs=73.8
Q ss_pred cccCCCCCCCCCCCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHHH
Q 031906 26 RKSGKAAKDPNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKN 105 (150)
Q Consensus 26 k~~~k~~~dp~~PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~ 105 (150)
+++.|+.+|||+||||+||||+|++..|..|+.+ + +++++|++.+|++|+.|+. |.+|.++|+.++.+|+.+|.+
T Consensus 524 ~k~~kk~kdpnapkra~sa~m~w~~~~r~~ik~d--g-i~~~dv~kk~g~~wk~ms~--k~~we~ka~~dk~ry~~em~~ 598 (615)
T KOG0526|consen 524 KKKGKKKKDPNAPKRATSAYMLWLNASRESIKED--G-ISVGDVAKKAGEKWKQMSA--KEEWEDKAAVDKQRYEDEMKE 598 (615)
T ss_pred ccCcccCCCCCCCccchhHHHHHHHhhhhhHhhc--C-chHHHHHHHHhHHHhhhcc--cchhhHHHHHHHHHHHHHHHh
Confidence 3667899999999999999999999999999988 5 8999999999999999999 999999999999999999999
Q ss_pred hHH
Q 031906 106 YNR 108 (150)
Q Consensus 106 y~~ 108 (150)
|+.
T Consensus 599 yk~ 601 (615)
T KOG0526|consen 599 YKN 601 (615)
T ss_pred hcC
Confidence 993
No 13
>KOG3248 consensus Transcription factor TCF-4 [Transcription]
Probab=99.29 E-value=3.4e-12 Score=104.27 Aligned_cols=76 Identities=25% Similarity=0.449 Sum_probs=71.4
Q ss_pred CCCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHHHhHHhcCCC
Q 031906 37 KPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQAEG 113 (150)
Q Consensus 37 ~PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~~~~~~~ 113 (150)
..|+|+||||||+++.|..|..++.- ....+|.++||.+|..|+.+|.++|.++|.++++.|.+.+..|.+....+
T Consensus 191 hiKKPLNAFmlyMKEmRa~vvaEctl-KeSAaiNqiLGrRWH~LSrEEQAKYyElArKerqlH~qlYP~WSARdNYg 266 (421)
T KOG3248|consen 191 HIKKPLNAFMLYMKEMRAKVVAECTL-KESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNYG 266 (421)
T ss_pred cccccHHHHHHHHHHHHHHHHHHhhh-hhHHHHHHHHhHHHhhhhHHHHHHHHHHHHHHHHHHHHhcCCcchhhhhh
Confidence 77999999999999999999999976 57789999999999999999999999999999999999999999887765
No 14
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=99.21 E-value=3.1e-11 Score=97.97 Aligned_cols=81 Identities=26% Similarity=0.559 Sum_probs=74.9
Q ss_pred CCCCCCCCCCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHHHhHHh
Q 031906 30 KAAKDPNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRR 109 (150)
Q Consensus 30 k~~~dp~~PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~~~ 109 (150)
...+.|.+|-+|+-+||.|++..+++|+..||+ +...+|.++||.+|..|++++|+.|...++..+..|.+.|..|...
T Consensus 57 t~pkpPkppekpl~pymrySrkvWd~VkA~nPe-~kLWeiGK~Ig~mW~dLpd~EK~ey~~EYeaEKieY~~smkayh~s 135 (410)
T KOG4715|consen 57 TRPKPPKPPEKPLMPYMRYSRKVWDQVKASNPE-LKLWEIGKIIGGMWLDLPDEEKQEYLNEYEAEKIEYNESMKAYHNS 135 (410)
T ss_pred cCCCCCCCCCcccchhhHHhhhhhhhhhccCcc-hHHHHHHHHHHHHHhhCcchHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 344567888999999999999999999999999 9999999999999999999999999999999999999999999865
Q ss_pred cC
Q 031906 110 QA 111 (150)
Q Consensus 110 ~~ 111 (150)
..
T Consensus 136 p~ 137 (410)
T KOG4715|consen 136 PA 137 (410)
T ss_pred ch
Confidence 43
No 15
>KOG0528 consensus HMG-box transcription factor SOX5 [Transcription]
Probab=99.12 E-value=2.4e-11 Score=103.07 Aligned_cols=79 Identities=23% Similarity=0.420 Sum_probs=72.8
Q ss_pred CCCCCCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHHHhHHhcCCC
Q 031906 34 DPNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQAEG 113 (150)
Q Consensus 34 dp~~PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~~~~~~~ 113 (150)
.+...||||||||+|.++.|.+|...+|+ +.+..|+++||.+|+.|+..||++|.+.-.++...|.+.+++|+-+..++
T Consensus 322 s~PHIKRPMNAFMVWAkDERRKILqA~PD-MHNSnISKILGSRWKaMSN~eKQPYYEEQaRLSk~HlEk~PdYrYkPRPK 400 (511)
T KOG0528|consen 322 SEPHIKRPMNAFMVWAKDERRKILQAFPD-MHNSNISKILGSRWKAMSNTEKQPYYEEQARLSKLHLEKYPDYRYKPRPK 400 (511)
T ss_pred CCccccCCcchhhcccchhhhhhhhcCcc-ccccchhHHhcccccccccccccchHHHHHHHHHhhhccCcccccCCCCC
Confidence 34577999999999999999999999999 88899999999999999999999999999999999999999999876553
No 16
>KOG2746 consensus HMG-box transcription factor Capicua and related proteins [Transcription]
Probab=98.63 E-value=3.2e-08 Score=87.06 Aligned_cols=77 Identities=23% Similarity=0.379 Sum_probs=70.0
Q ss_pred ccccCCCCCCCCCCCCCCChHHHHHHHHH--HHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHH
Q 031906 25 GRKSGKAAKDPNKPKRPASAFFVFMEEFR--EQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKD 102 (150)
Q Consensus 25 ~k~~~k~~~dp~~PKrP~sAy~lF~~e~r--~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e 102 (150)
+..+-..+++-...++|||||+||++.+| ..+...||+ ..+..|+++||+.|-.|-+.||+.|.++|.+.++.|.++
T Consensus 169 kdgrspnkr~k~HirrPMnaf~ifskrhr~~g~vhq~~pn-~DNrtIskiLgewWytL~~~Ekq~yhdLa~Qvk~Ahfka 247 (683)
T KOG2746|consen 169 KDGRSPNKRDKDHIRRPMNAFHIFSKRHRGEGRVHQRHPN-QDNRTISKILGEWWYTLGPNEKQKYHDLAFQVKEAHFKA 247 (683)
T ss_pred cccCCCCcCcchhhhhhhHHHHHHHhhcCCccchhccCcc-ccchhHHHHHhhhHhhhCchhhhhHHHHHHHHHHHHhhh
Confidence 34445566777789999999999999999 889999999 899999999999999999999999999999999999887
No 17
>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A.
Probab=98.40 E-value=2.6e-06 Score=56.15 Aligned_cols=75 Identities=20% Similarity=0.385 Sum_probs=61.6
Q ss_pred CCCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHHHhHHhcCCC
Q 031906 37 KPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQAEG 113 (150)
Q Consensus 37 ~PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~~~~~~~ 113 (150)
-|..|.+|--||.+..+..+...++. -...+ .+.+...|++|++.+|-+|+..|.++..+|+.+|.+|+..++..
T Consensus 3 lPE~PKt~qe~Wqq~vi~dYla~~~~-dr~K~-~kam~~~W~~me~Kekl~WIkKA~EdqKrYE~el~e~r~~~~~~ 77 (85)
T PF14887_consen 3 LPETPKTAQEIWQQSVIGDYLAKFRN-DRKKA-LKAMEAQWSQMEKKEKLKWIKKAAEDQKRYERELREMRSAPADA 77 (85)
T ss_dssp -S----THHHHHHHHHHHHHHHHTTS-THHHH-HHHHHHHHHTTGGGHHHHHHHHHHHHHHHHHHHHHCCS-CCCTT
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHhhH-hHHHH-HHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCCCC
Confidence 57789999999999999999999987 44444 56899999999999999999999999999999999999877654
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=97.56 E-value=0.00044 Score=52.35 Aligned_cols=50 Identities=28% Similarity=0.424 Sum_probs=44.3
Q ss_pred CCCCCCCCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCCh
Q 031906 32 AKDPNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSE 82 (150)
Q Consensus 32 ~~dp~~PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~ 82 (150)
.+.|.+-.|-+|||..|+++....|+..+|+ ++..|+....+..|...+.
T Consensus 116 ~kPPEKRqR~psaYn~f~k~ei~rik~~~p~-ishkeaFs~aAknW~h~ph 165 (170)
T PF04690_consen 116 NKPPEKRQRVPSAYNRFMKEEIQRIKAENPD-ISHKEAFSAAAKNWAHFPH 165 (170)
T ss_pred cCCccccCCCchhHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHhhhhCcc
Confidence 4455666788999999999999999999999 9999999999999987763
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=97.38 E-value=0.00085 Score=50.93 Aligned_cols=49 Identities=29% Similarity=0.435 Sum_probs=42.6
Q ss_pred CChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHH
Q 031906 42 ASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKR 95 (150)
Q Consensus 42 ~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~ 95 (150)
-+|||-|+.+.|. .|.+ ++..|+....+..|..|++.+|..|..++...
T Consensus 83 nnaYLNFLReFRr----kh~~-L~p~dlI~~AAraW~rLSe~eK~rYrr~~~~~ 131 (183)
T PF06382_consen 83 NNAYLNFLREFRR----KHCG-LSPQDLIQRAARAWCRLSEAEKNRYRRMAPSV 131 (183)
T ss_pred chHHHHHHHHHHH----HccC-CCHHHHHHHHHHHHHhCCHHHHHHHHhhcchh
Confidence 5789999999765 5667 89999999999999999999999999876544
No 20
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=97.11 E-value=0.00037 Score=54.12 Aligned_cols=69 Identities=23% Similarity=0.345 Sum_probs=62.2
Q ss_pred CCCCCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHH
Q 031906 35 PNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMK 104 (150)
Q Consensus 35 p~~PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~ 104 (150)
..+|+.|..+|+-+-..+|+.+...+|+ ....+++++++..|++|++.-|.+|.+.+..++..|...++
T Consensus 141 k~~~~~~~~~~~e~~~~~r~~~~~~~~~-~~~~e~~k~~~~~w~el~~skK~~~~~~~Kk~k~~~~~~~~ 209 (211)
T COG5648 141 KLPNKAPIGPFIENEPKIRPKVEGPSPD-KALVEETKIISKAWSELDESKKKKYIDKYKKLKEEYDSFYP 209 (211)
T ss_pred ccCCCCCCchhhhccHHhccccCCCCcc-hhhhHHhhhhhhhhhhhChhhhhHHHHHHHHHHHHHhhhcc
Confidence 3467888999999999999999999998 78899999999999999999999999999999999876654
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=96.27 E-value=0.0044 Score=38.40 Aligned_cols=40 Identities=20% Similarity=0.377 Sum_probs=35.7
Q ss_pred CChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCCh
Q 031906 42 ASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSE 82 (150)
Q Consensus 42 ~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~ 82 (150)
++-|-+|.+-.|+.|...||+ +..+.|..+|+..|+..+.
T Consensus 13 lt~yK~Fsq~vRP~l~~~NPk-~~~sKl~~l~~AKwrEF~~ 52 (55)
T PF08073_consen 13 LTNYKAFSQHVRPLLAKANPK-APMSKLMMLLQAKWREFQE 52 (55)
T ss_pred HHHHHHHHHHHHHHHHHHCCC-CcHHHHHHHHHHHHHHHHh
Confidence 466889999999999999999 8999999999999986543
No 22
>PF06244 DUF1014: Protein of unknown function (DUF1014); InterPro: IPR010422 This family consists of several hypothetical eukaryotic proteins of unknown function.
Probab=94.49 E-value=0.058 Score=38.80 Aligned_cols=46 Identities=17% Similarity=0.288 Sum_probs=41.0
Q ss_pred CCCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChh
Q 031906 37 KPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEA 83 (150)
Q Consensus 37 ~PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~e 83 (150)
+-+|-.-||.-|.....+.|+.++|+ +..+++..+|-..|..-|++
T Consensus 72 PErR~KAAy~afeE~~Lp~lK~E~Pg-LrlsQ~kq~l~K~w~KSPeN 117 (122)
T PF06244_consen 72 PERRMKAAYKAFEERRLPELKEENPG-LRLSQYKQMLWKEWQKSPEN 117 (122)
T ss_pred cchhHHHHHHHHHHHHhHHHHhhCCC-chHHHHHHHHHHHHhcCCCC
Confidence 34555689999999999999999999 99999999999999988765
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=94.18 E-value=0.097 Score=40.74 Aligned_cols=55 Identities=20% Similarity=0.324 Sum_probs=38.7
Q ss_pred CCCCCCCCCCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHH
Q 031906 31 AAKDPNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKA 92 (150)
Q Consensus 31 ~~~dp~~PKrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a 92 (150)
....+..++||+|+||+|..=.- ...|+ ....+++..|+..|..=+- |..|.-.|
T Consensus 37 ~~~~~~~~kr~lN~Fm~FRsyy~----~~~~~-~~Qk~~S~~l~~lW~~dp~--k~~W~l~a 91 (201)
T PF04769_consen 37 RKRSPEKAKRPLNGFMAFRSYYS----PIFPP-LPQKELSGILTKLWEKDPF--KNKWSLMA 91 (201)
T ss_pred ccccccccccchhHHHHHHHHHH----hhcCC-cCHHHHHHHHHHHHhCCcc--HhHHHHHh
Confidence 34455678999999999966544 44555 6779999999999997433 34444443
No 24
>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=89.22 E-value=1 Score=34.69 Aligned_cols=46 Identities=17% Similarity=0.432 Sum_probs=40.0
Q ss_pred CCHHHHHH-HHHhhhcCCChhhhhHHHHHHHH-HHHHHHHHHHHhHHh
Q 031906 64 KSVAAVGK-AGGEKWKSMSEADKAPYVAKAEK-RKVEYEKDMKNYNRR 109 (150)
Q Consensus 64 ~~~~ei~k-~l~~~Wk~Ls~eeK~~Y~~~a~~-~k~~y~~e~~~y~~~ 109 (150)
.++..|++ .||..|+.+|+++|+.|...... ....|-..+..|...
T Consensus 64 ~Df~~mar~vLG~~W~~~s~~Qr~~F~~~F~~~l~~tY~~~l~~y~~~ 111 (198)
T TIGR03481 64 FDLPAMARLTLGSSWTSLSPEQRRRFIGAFRELSIATYASQFKSYAGE 111 (198)
T ss_pred CCHHHHHHHHhhhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHHhhcCc
Confidence 56777776 68999999999999999999988 788899999999764
No 25
>PRK15117 ABC transporter periplasmic binding protein MlaC; Provisional
Probab=87.40 E-value=1.6 Score=33.96 Aligned_cols=46 Identities=22% Similarity=0.343 Sum_probs=38.9
Q ss_pred CCHHHHHH-HHHhhhcCCChhhhhHHHHHHHH-HHHHHHHHHHHhHHh
Q 031906 64 KSVAAVGK-AGGEKWKSMSEADKAPYVAKAEK-RKVEYEKDMKNYNRR 109 (150)
Q Consensus 64 ~~~~ei~k-~l~~~Wk~Ls~eeK~~Y~~~a~~-~k~~y~~e~~~y~~~ 109 (150)
.++..+++ .||..|+.+++++|+.|...... +..-|...+..|...
T Consensus 68 ~Df~~~s~~vLG~~wr~as~eQr~~F~~~F~~~Lv~tYa~~l~~y~~q 115 (211)
T PRK15117 68 VQVKYAGALVLGRYYKDATPAQREAYFAAFREYLKQAYGQALAMYHGQ 115 (211)
T ss_pred CCHHHHHHHHhhhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHHHhCCc
Confidence 56777766 57999999999999999998887 567899999999754
No 26
>KOG3223 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.76 E-value=1.3 Score=34.23 Aligned_cols=53 Identities=25% Similarity=0.420 Sum_probs=44.8
Q ss_pred CCC-CCCCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHH
Q 031906 36 NKP-KRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKA 92 (150)
Q Consensus 36 ~~P-KrP~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a 92 (150)
..| +|-.-||.-|-....+.|+.+||+ +..+++-.+|-.+|..-|++ ||.+.+
T Consensus 162 rHPEkRmrAA~~afEe~~LPrLK~e~P~-lrlsQ~Kqll~Kew~KsPDN---P~Nq~~ 215 (221)
T KOG3223|consen 162 RHPEKRMRAAFKAFEEARLPRLKKENPG-LRLSQYKQLLKKEWQKSPDN---PFNQAA 215 (221)
T ss_pred cChHHHHHHHHHHHHHhhchhhhhcCCC-ccHHHHHHHHHHHHhhCCCC---hhhHHh
Confidence 345 666778999999999999999999 99999999999999998886 555543
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=81.93 E-value=2.7 Score=31.20 Aligned_cols=45 Identities=18% Similarity=0.367 Sum_probs=35.0
Q ss_pred CCHHHHHHH-HHhhhcCCChhhhhHHHHHHHH-HHHHHHHHHHHhHH
Q 031906 64 KSVAAVGKA-GGEKWKSMSEADKAPYVAKAEK-RKVEYEKDMKNYNR 108 (150)
Q Consensus 64 ~~~~ei~k~-l~~~Wk~Ls~eeK~~Y~~~a~~-~k~~y~~e~~~y~~ 108 (150)
..+..|++. ||..|+.|++++++.|...... ....|...+..|..
T Consensus 38 ~D~~~~ar~~LG~~w~~~s~~q~~~F~~~f~~~l~~~Y~~~l~~y~~ 84 (170)
T PF05494_consen 38 FDFERMARRVLGRYWRKASPAQRQRFVEAFKQLLVRTYAKRLDEYSG 84 (170)
T ss_dssp B-HHHHHHHHHGGGTTTS-HHHHHHHHHHHHHHHHHHHHHHHHT-SS
T ss_pred CCHHHHHHHHHHHhHhhCCHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 567777664 7899999999999999998877 56778888988885
No 28
>COG2854 Ttg2D ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=68.79 E-value=7.7 Score=30.25 Aligned_cols=44 Identities=11% Similarity=0.228 Sum_probs=37.8
Q ss_pred HHHHhhhcCCChhhhhHHHHHHHH-HHHHHHHHHHHhHHhcCCCC
Q 031906 71 KAGGEKWKSMSEADKAPYVAKAEK-RKVEYEKDMKNYNRRQAEGT 114 (150)
Q Consensus 71 k~l~~~Wk~Ls~eeK~~Y~~~a~~-~k~~y~~e~~~y~~~~~~~~ 114 (150)
..||.-|+.+|+++++.|...... +...|-..|..|+.+.....
T Consensus 78 ~vLGk~~k~aspeQ~~~F~~aF~~yl~q~Y~~aL~~Y~~q~~~v~ 122 (202)
T COG2854 78 LVLGKYYKTASPEQRQAFFKAFRTYLEQTYGQALLDYKGQTLKVK 122 (202)
T ss_pred HHhccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHccCCCceeC
Confidence 457999999999999999998887 57789999999998876544
No 29
>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=65.91 E-value=16 Score=30.34 Aligned_cols=67 Identities=16% Similarity=0.151 Sum_probs=47.8
Q ss_pred CChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHH-HHHHHhHHh
Q 031906 42 ASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYE-KDMKNYNRR 109 (150)
Q Consensus 42 ~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~-~e~~~y~~~ 109 (150)
..|+-+|..-.-..+....|. ++..|-..+.-+.|...|.=+|..|.++|++-++==. ++|+.-+-+
T Consensus 229 ~EAlSCFLIpvLrsLar~kPt-MtlEeGl~ra~qEW~~~SnfdRmifyemaekFmEFEaeEEmq~q~lq 296 (328)
T PF12881_consen 229 AEALSCFLIPVLRSLARLKPT-MTLEEGLWRAVQEWQHTSNFDRMIFYEMAEKFMEFEAEEEMQIQKLQ 296 (328)
T ss_pred hhhhhhhHHHHHHHHHhcCCC-ccHHHHHHHHHHHhhccccccHHHHHHHHHHHccCCcHHHHHHHHHH
Confidence 445555655555556666677 7888888888899999999999999999998754222 445444433
No 30
>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=58.38 E-value=37 Score=23.52 Aligned_cols=41 Identities=15% Similarity=0.376 Sum_probs=20.4
Q ss_pred HHHHHHHhhhcCCChhhhhHHHHHHHH-------HHHHHHHHHHHhHH
Q 031906 68 AVGKAGGEKWKSMSEADKAPYVAKAEK-------RKVEYEKDMKNYNR 108 (150)
Q Consensus 68 ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~-------~k~~y~~e~~~y~~ 108 (150)
++..-|...|+.|++..+..+...|.. ...+....|..|..
T Consensus 11 ~~L~pl~~~W~~l~~~qr~k~l~~a~r~~~mspeqq~r~~~rm~~W~~ 58 (107)
T PF11304_consen 11 QALAPLAERWNSLPPEQRRKWLQIAERWPSMSPEQQQRLRERMRRWAA 58 (107)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Confidence 344455555555555555555544432 34444444554443
No 31
>PF13875 DUF4202: Domain of unknown function (DUF4202)
Probab=57.18 E-value=17 Score=28.00 Aligned_cols=39 Identities=26% Similarity=0.493 Sum_probs=32.7
Q ss_pred hHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhhh
Q 031906 44 AFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKA 86 (150)
Q Consensus 44 Ay~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK~ 86 (150)
+-++|...+...+...|.. ..|..+|...|+.||+.-++
T Consensus 131 acLVFL~~~f~~F~~~~de----eK~v~Il~KTw~KMS~~g~~ 169 (185)
T PF13875_consen 131 ACLVFLEYYFEDFAAKHDE----EKIVDILRKTWRKMSERGHE 169 (185)
T ss_pred HHHHhHHHHHHHHHhcCCH----HHHHHHHHHHHHHCCHHHHH
Confidence 5788999999999888833 67888899999999998764
No 32
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=47.40 E-value=19 Score=31.66 Aligned_cols=15 Identities=27% Similarity=0.656 Sum_probs=10.0
Q ss_pred CCCCCCcc-ccccccc
Q 031906 134 DDEEGSGE-VFFWGCF 148 (150)
Q Consensus 134 ~~e~~~~~-~f~~~~~ 148 (150)
++-+.+++ -+|++|+
T Consensus 284 de~d~~ge~lyC~vCn 299 (508)
T KOG0717|consen 284 DEADNEGEVLYCVVCN 299 (508)
T ss_pred hhhhhcCCceEEeecc
Confidence 34444444 8999997
No 33
>PRK10363 cpxP periplasmic repressor CpxP; Reviewed
Probab=43.18 E-value=55 Score=24.75 Aligned_cols=39 Identities=10% Similarity=0.268 Sum_probs=30.5
Q ss_pred HHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHHHhH
Q 031906 68 AVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYN 107 (150)
Q Consensus 68 ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~ 107 (150)
++.+.-.++++-|++++|..|....++-...+.. +..+.
T Consensus 112 em~k~~nqmy~lLTPEQKaq~~~~~~~rm~~~~~-~~~~q 150 (166)
T PRK10363 112 EMAKVRNQMYRLLTPEQQAVLNEKHQQRMEQLRD-VTQWQ 150 (166)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHH-HHhcC
Confidence 4556667899999999999999988888777755 55443
No 34
>PRK12751 cpxP periplasmic stress adaptor protein CpxP; Reviewed
Probab=40.80 E-value=52 Score=24.68 Aligned_cols=31 Identities=13% Similarity=0.225 Sum_probs=23.9
Q ss_pred HHHHHhhhcCCChhhhhHHHHHHHHHHHHHH
Q 031906 70 GKAGGEKWKSMSEADKAPYVAKAEKRKVEYE 100 (150)
Q Consensus 70 ~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~ 100 (150)
.+..-++++.|++++|..|.+..++-..+..
T Consensus 120 ~~~~~qmy~lLTPEQra~l~~~~e~r~~~~~ 150 (162)
T PRK12751 120 AKVRNQMYNLLTPEQKEALNKKHQERIEKLQ 150 (162)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHH
Confidence 4455678899999999999988777655553
No 35
>PRK09706 transcriptional repressor DicA; Reviewed
Probab=36.94 E-value=85 Score=22.13 Aligned_cols=44 Identities=11% Similarity=0.169 Sum_probs=38.2
Q ss_pred HHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHHHhHHhcC
Q 031906 68 AVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQA 111 (150)
Q Consensus 68 ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~~~~~ 111 (150)
.-.+.|-..|+.|+++++............-|..-+++|-....
T Consensus 87 ~~~~~ll~~~~~L~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~ 130 (135)
T PRK09706 87 EDQKELLELFDALPESEQDAQLSEMRARVENFNKLFEELLKARK 130 (135)
T ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34567889999999999999999999999999999999987654
No 36
>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=35.43 E-value=23 Score=20.34 Aligned_cols=28 Identities=21% Similarity=0.241 Sum_probs=15.3
Q ss_pred HHHHHHHHH-hhhcCCChhhhhHHHHHHH
Q 031906 66 VAAVGKAGG-EKWKSMSEADKAPYVAKAE 93 (150)
Q Consensus 66 ~~ei~k~l~-~~Wk~Ls~eeK~~Y~~~a~ 93 (150)
+.+|+--++ +.|..|.+.+|.-|.+.-.
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 5699999999988876543
No 37
>PRK12750 cpxP periplasmic repressor CpxP; Reviewed
Probab=35.12 E-value=83 Score=23.66 Aligned_cols=33 Identities=15% Similarity=0.225 Sum_probs=27.2
Q ss_pred HHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHH
Q 031906 71 KAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDM 103 (150)
Q Consensus 71 k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~ 103 (150)
+...+++..|++++|..|.+...+-...+...+
T Consensus 128 ~~~~~~~~vLTpEQRak~~e~~~~r~~~~~~~~ 160 (170)
T PRK12750 128 EKRHQMLSILTPEQKAKFQELQQERMQECQDKM 160 (170)
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 334568999999999999999888878877766
No 38
>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=33.63 E-value=1.2e+02 Score=19.71 Aligned_cols=53 Identities=15% Similarity=0.325 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCC----hhhhhHHHHHHHHHHHHH
Q 031906 45 FFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMS----EADKAPYVAKAEKRKVEY 99 (150)
Q Consensus 45 y~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls----~eeK~~Y~~~a~~~k~~y 99 (150)
|-||.+.....+....|+..++....+ -..|+.|. ++-++.|++...+....|
T Consensus 30 YalyKQAt~Gd~~~~~P~~~d~~~~~K--~~AW~~l~gms~~eA~~~Yi~~v~~~~~~~ 86 (87)
T PF00887_consen 30 YALYKQATHGDCDTPRPGFFDIEGRAK--WDAWKALKGMSKEEAMREYIELVEELIPKY 86 (87)
T ss_dssp HHHHHHHHTSS--S-CTTTTCHHHHHH--HHHHHTTTTTHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhCCCcCCCCcchhHHHHHH--HHHHHHccCCCHHHHHHHHHHHHHHHHHhc
Confidence 677777665555555666334444433 35688776 344556666666655544
No 39
>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription]
Probab=33.46 E-value=3.3 Score=37.42 Aligned_cols=44 Identities=16% Similarity=0.276 Sum_probs=39.8
Q ss_pred CCChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhcCCChhhh
Q 031906 41 PASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADK 85 (150)
Q Consensus 41 P~sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~eeK 85 (150)
-+++|++|+.+.+..+...+|+ ..+++++.++|..|..|+...|
T Consensus 552 ~~~~~~~~s~~~~~~~~~~np~-v~~~~~~~~vg~~~~~lp~~~k 595 (629)
T KOG1827|consen 552 SPEPYILDSIENRTIIWFENPT-VGFGEVSIIVGNDWDKLPNINK 595 (629)
T ss_pred CCccccccccccCceeeeeCCC-cccceeEEeecCCcccCccccc
Confidence 5788999999999999999999 8999999999999999994433
No 40
>PRK10236 hypothetical protein; Provisional
Probab=33.24 E-value=34 Score=27.34 Aligned_cols=25 Identities=20% Similarity=0.442 Sum_probs=20.3
Q ss_pred HHHHHHhhhcCCChhhhhHHHHHHH
Q 031906 69 VGKAGGEKWKSMSEADKAPYVAKAE 93 (150)
Q Consensus 69 i~k~l~~~Wk~Ls~eeK~~Y~~~a~ 93 (150)
+.+.+...|..||+++++.+...-.
T Consensus 118 l~kll~~a~~kms~eE~~~L~~~l~ 142 (237)
T PRK10236 118 LEQFLRNTWKKMDEEHKQEFLHAVD 142 (237)
T ss_pred HHHHHHHHHHHCCHHHHHHHHHHHh
Confidence 5788899999999999977765443
No 41
>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=30.63 E-value=1.5e+02 Score=19.02 Aligned_cols=33 Identities=9% Similarity=0.260 Sum_probs=23.8
Q ss_pred ChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhh
Q 031906 43 SAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEK 76 (150)
Q Consensus 43 sAy~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~ 76 (150)
+.|.=|-+...+.++...|+ .+..+|..++.++
T Consensus 9 ~tFtEyKKrL~e~l~~k~P~-at~~~l~~lve~R 41 (68)
T PF09164_consen 9 NTFTEYKKRLAERLRAKLPD-ATPTELKELVEKR 41 (68)
T ss_dssp S-HHHHHHHHHHHHHHH-TT-S-HHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHHHCCC-CCHHHHHHHHHHH
Confidence 45777888888889999999 7888887776543
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=29.16 E-value=1.3e+02 Score=25.14 Aligned_cols=50 Identities=16% Similarity=0.242 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHhC-------CC-----CCCHHHHHHHHHhhhcCCChhhhhHHHHHHHHHH
Q 031906 47 VFMEEFREQYKKDH-------PK-----NKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRK 96 (150)
Q Consensus 47 lF~~e~r~~~~~~~-------p~-----~~~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k 96 (150)
.|+...|.++..-. |+ ..+...+.+.+.++|..||++.|+.|-+.+-.+.
T Consensus 187 af~D~lR~EL~~fGV~VsiiePG~f~T~l~~~~~~~~~~~~~w~~l~~e~k~~YGedy~~~~ 248 (322)
T KOG1610|consen 187 AFSDSLRRELRPFGVKVSIIEPGFFKTNLANPEKLEKRMKEIWERLPQETKDEYGEDYFEDY 248 (322)
T ss_pred HHHHHHHHHHHhcCcEEEEeccCccccccCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Confidence 37777777665322 32 1245788999999999999999999987766553
No 43
>PF12650 DUF3784: Domain of unknown function (DUF3784); InterPro: IPR017259 This group represents an uncharacterised conserved protein.
Probab=27.71 E-value=40 Score=22.53 Aligned_cols=16 Identities=31% Similarity=0.542 Sum_probs=13.4
Q ss_pred hhcCCChhhhhHHHHH
Q 031906 76 KWKSMSEADKAPYVAK 91 (150)
Q Consensus 76 ~Wk~Ls~eeK~~Y~~~ 91 (150)
-|+.||++||+.|...
T Consensus 25 Gyntms~eEk~~~D~~ 40 (97)
T PF12650_consen 25 GYNTMSKEEKEKYDKK 40 (97)
T ss_pred hcccCCHHHHHHhhHH
Confidence 4899999999998753
No 44
>PF13216 DUF4024: Protein of unknown function (DUF4024)
Probab=26.42 E-value=22 Score=19.32 Aligned_cols=9 Identities=44% Similarity=0.874 Sum_probs=6.4
Q ss_pred cccccccCC
Q 031906 142 VFFWGCFDF 150 (150)
Q Consensus 142 ~f~~~~~~~ 150 (150)
.=|.||-+|
T Consensus 17 vnflfcief 25 (35)
T PF13216_consen 17 VNFLFCIEF 25 (35)
T ss_pred ccEEEEehh
Confidence 348888775
No 45
>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=25.85 E-value=52 Score=19.64 Aligned_cols=24 Identities=25% Similarity=0.620 Sum_probs=17.0
Q ss_pred CHHHHHHHHHhhhcCCChhhhhHHHHHHH
Q 031906 65 SVAAVGKAGGEKWKSMSEADKAPYVAKAE 93 (150)
Q Consensus 65 ~~~ei~k~l~~~Wk~Ls~eeK~~Y~~~a~ 93 (150)
+..||.. |+.|++++|........
T Consensus 23 T~dEI~~-----W~~~s~~er~~i~~~l~ 46 (51)
T PF06945_consen 23 TLDEIRD-----WKSMSDDERRAILARLR 46 (51)
T ss_pred cHHHHHH-----HhhCCHHHHHHHHHHHH
Confidence 4556654 99999999876665443
No 46
>TIGR00787 dctP tripartite ATP-independent periplasmic transporter solute receptor, DctP family. TRAP-T (Tripartite ATP-independent Periplasmic Transporter) family proteins generally consist of three components, and these systems have so far been found in Gram-negative bacteria, Gram-postive bacteria and archaea. The best characterized example is the DctPQM system of Rhodobacter capsulatus, a C4 dicarboxylate (malate, fumarate, succinate) transporter. This model represents the DctP family, one of at least three major families of extracytoplasmic solute receptor for TRAP family transporters. Other are the SnoM family (see pfam03480) and TAXI (TRAP-associated extracytoplasmic immunogenic) family.
Probab=25.64 E-value=1.3e+02 Score=23.39 Aligned_cols=28 Identities=21% Similarity=0.156 Sum_probs=21.7
Q ss_pred HhhhcCCChhhhhHHHHHHHHHHHHHHH
Q 031906 74 GEKWKSMSEADKAPYVAKAEKRKVEYEK 101 (150)
Q Consensus 74 ~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~ 101 (150)
...|..||++.|....+.+.+....+..
T Consensus 213 ~~~~~~L~~e~q~~i~~a~~~~~~~~~~ 240 (257)
T TIGR00787 213 KAFWKSLPPDLQAVVKEAAKEAGEYQRK 240 (257)
T ss_pred HHHHhcCCHHHHHHHHHHHHHHHHHHHH
Confidence 4679999999999998877776544443
No 47
>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=25.48 E-value=1.5e+02 Score=25.60 Aligned_cols=44 Identities=11% Similarity=0.053 Sum_probs=36.4
Q ss_pred HHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHHHhHHhcC
Q 031906 68 AVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQA 111 (150)
Q Consensus 68 ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~~~~~ 111 (150)
+.++..-..|+.+|..+|..+...+....+.+..++......-.
T Consensus 6 ~~A~~A~~~W~~~~~~~R~~iL~~~a~~l~~~~~ela~~~~~E~ 49 (439)
T cd07081 6 AAAKVAQQGLSCKSQEMVDLIFRAAAEAAEDARIDLAKLAVSET 49 (439)
T ss_pred HHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44455567899999999999999999999999999988765544
No 48
>KOG3838 consensus Mannose lectin ERGIC-53, involved in glycoprotein traffic [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.02 E-value=75 Score=27.59 Aligned_cols=33 Identities=27% Similarity=0.459 Sum_probs=23.8
Q ss_pred CChhhhhHHHHHHHHHHHHHHHHHHHhHHhcCC
Q 031906 80 MSEADKAPYVAKAEKRKVEYEKDMKNYNRRQAE 112 (150)
Q Consensus 80 Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~~~~~~ 112 (150)
+.+.+|++|.+..+.....|.+...+|.+.++.
T Consensus 269 ~qe~ek~kyqeEfe~~q~elek~k~efkk~hpd 301 (497)
T KOG3838|consen 269 MQELEKAKYQEEFEWAQLELEKRKDEFKKSHPD 301 (497)
T ss_pred hhHHHHHHHHHHHHHHHHHHhhhHhhhccCCch
Confidence 345567777777777777777777777777664
No 49
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=21.77 E-value=1.6e+02 Score=24.56 Aligned_cols=37 Identities=19% Similarity=0.285 Sum_probs=29.2
Q ss_pred HhhhcCCChhhhhHHHHHHHHHHHHHHHHHHHhHHhc
Q 031906 74 GEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQ 110 (150)
Q Consensus 74 ~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~~~~ 110 (150)
...|..||++.++...+.+.+......+...+.....
T Consensus 244 ~~~w~~L~~e~q~il~~aa~e~~~~~~~~~~~~e~~~ 280 (332)
T COG1638 244 KAFWDSLPEEDQTILLEAAKEAAEEQRKLVEELEDEL 280 (332)
T ss_pred HHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5789999999999999998888777666665555443
No 50
>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=21.34 E-value=2.3e+02 Score=24.16 Aligned_cols=43 Identities=7% Similarity=-0.051 Sum_probs=35.3
Q ss_pred HHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHHHhHHhc
Q 031906 68 AVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQ 110 (150)
Q Consensus 68 ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~~~~ 110 (150)
+.++..-..|+.++..+|..+...+....+.+..++.......
T Consensus 5 ~~a~~a~~~w~~~~~~~R~~~L~~~a~~l~~~~~el~~~~~~e 47 (434)
T cd07133 5 ERQKAAFLANPPPSLEERRDRLDRLKALLLDNQDALAEAISAD 47 (434)
T ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455566789999999999999999999999998888766543
No 51
>cd07132 ALDH_F3AB Aldehyde dehydrogenase family 3 members A1, A2, and B1 and related proteins. NAD(P)+-dependent, aldehyde dehydrogenase, family 3 members A1 and B1 (ALDH3A1, ALDH3B1, EC=1.2.1.5) and fatty aldehyde dehydrogenase, family 3 member A2 (ALDH3A2, EC=1.2.1.3), and similar sequences are included in this CD. Human ALDH3A1 is a homodimer with a critical role in cellular defense against oxidative stress; it catalyzes the oxidation of various cellular membrane lipid-derived aldehydes. Corneal crystalline ALDH3A1 protects the cornea and underlying lens against UV-induced oxidative stress. Human ALDH3A2, a microsomal homodimer, catalyzes the oxidation of long-chain aliphatic aldehydes to fatty acids. Human ALDH3B1 is highly expressed in the kidney and liver and catalyzes the oxidation of various medium- and long-chain saturated and unsaturated aliphatic aldehydes.
Probab=20.65 E-value=2.2e+02 Score=24.35 Aligned_cols=44 Identities=7% Similarity=-0.073 Sum_probs=35.8
Q ss_pred HHHHHHHhhhcCCChhhhhHHHHHHHHHHHHHHHHHHHhHHhcC
Q 031906 68 AVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQA 111 (150)
Q Consensus 68 ei~k~l~~~Wk~Ls~eeK~~Y~~~a~~~k~~y~~e~~~y~~~~~ 111 (150)
+.++..-..|+.++..+|..+........+.+..++..-.....
T Consensus 5 ~~A~~A~~~w~~~~~~~R~~~L~~~a~~l~~~~~~l~~~~~~e~ 48 (443)
T cd07132 5 RRAREAFSSGKTRPLEFRIQQLEALLRMLEENEDEIVEALAKDL 48 (443)
T ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHh
Confidence 44555667899999999999999999999999888887766544
Done!